Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_014487
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 253413
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Found at i:11175 original size:18 final size:18
Alignment explanation
Indices: 11152--11187 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
11142 TTCAGCGGTG
11152 CCTTAAGCTAAGACAAAA
1 CCTTAAGCTAAGACAAAA
11170 CCTTAAGCTAAGACAAAA
1 CCTTAAGCTAAGACAAAA
11188 GAAGTAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.22, G:0.11, T:0.17
Consensus pattern (18 bp):
CCTTAAGCTAAGACAAAA
Left flanking sequence: Indices 10652 -- 11151
CAGAATGTGACATCAAAAGCTATTGTTAGTCCTAAGCAAGCGTATGCGATCAAAGGAGCAAGGTG
GTCATAAAATCTCGTTAATTTACGCAAATGAAGGTAATTTGATAGATAGAATACTACTTAAATTT
GTTGTTATCATTCAAATATTACCTAAATCTAGTATGTGTGATATGAGCACTAGCGGAGGAAAGCT
TGCTGGTCACGTCTTCCTGCTGTTATTGTTCTATTTATGTGGGCAATTAAGGTGTAAACACCCTC
TATTTATTGCACATGCTAGGACTGCCCTTTGATTCCAGAATTCCTCCCCTTTAATATGGCTAAGC
CAGTGAACTATTCTATTTTAGTGAACTTGTCTCATGAAATGACCCATTAATTAACTTTCTATTCT
GGAATGTCTGCTGAAATGGATGAGATTGAAGCCGGTCTCTTTCCGGATGAGGTTGATGTTGGAAA
GGTCGCCCATTAATTAGATACCTCTTTTTCTTTTCTTCAGCGGTG
Right flanking sequence: Indices 11188 -- 11687
GAAGTAAGTAGATGATCAGTCTAGGTTTCAGTGTGGCTTTCAGTGTAGGTAGAAGTCCCAATCAA
AAGAAGTAGATGATTCAGTCTCCTCCGCAGCAGCATCTGGAAAAAGGGTGCATTCTTTTACATAC
ACATACATAAAGGAAGGGCTTTCTGCCACCTCCCAGGAAAGGGATTCTTCCTTAGCTTAGATTCA
TTCGTCAAGTGTCAATCAAGTAAAGCCCGGCTCCTTCGGACTTAAAGTTCCGTGCTTCCGATTAG
TCACTCGTTTCGCGCTACTATTGAATCTACTTTTTTTCCCTTTTTGGGTTGGGAAAAAACACAAG
AAAGAGCGTGCGTATCTAACTAAGAGACTGAAACTCAGCCTTTATAATATAAGTTCCGTCCTTGT
CCCGGATTCGGACATGAATTCTAACTATACAGATTGTATAAGTTAAGGTTCAAGTCAAGGGATTG
GATAATGGATCTAGCTTGTGCATCTTTTCGTTCATAGTGGGATAT
Found at i:23298 original size:14 final size:14
Alignment explanation
Indices: 23276--23305 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23266 TTCACTTGCA
*
23276 AGGGGTGAAGGCTT
1 AGGGCTGAAGGCTT
23290 AGGGCTGAAGGCTT
1 AGGGCTGAAGGCTT
23304 AG
1 AG
23306 TTAGGGCTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.10, G:0.47, T:0.20
Consensus pattern (14 bp):
AGGGCTGAAGGCTT
Left flanking sequence: Indices 22776 -- 23275
GCTGGTTGTTCCCCTGTTCCAAAGGCTGCTGCTGGTGGGGCAAGCATATATCTATCTATCTATCT
ATCTGAACTCGTGAAGTGCATAGTAGTAGAGTAGATTGTTAGAGCATAATGCATACATAGATATA
GTAGGCGGCGACGAAGACATGGGACTGTCCGAATGACTGATCTCAGTTTGTTGGTGGGTGGAATT
CCCCTATTCTTCTTCTTCGGCCGAGCTTCTTGTTACAAAGGAAGCGAGTGATCCACTTGGAAGGC
GTGATGTTTGGCAACTTCAATCAGAGCCAGCACCCACACTAAGATGTGGTGATGTCTTAATGCGA
CGAATGATGGCCACGAGTGTCAAGGAAGAGCGGTCTATCTATCCCTCTTTCCTCTTATGTTCTTT
TTCCACGAGTTATTACCTACCCCTTCTTTGTTTGCCAGCCTAGCGCTCTGATCTTAGAGTCTGAG
AGAACAATCACTTTCACTTTCTCGGAACAATCACTTTCACTTGCA
Right flanking sequence: Indices 23306 -- 23805
TTAGGGCTGAAGGTTGAAGGAAGACTGACTTCGAACGTGAGTCAGAGGAGAGGGTGGGCAGGCAC
CTATTCCAGTCCAGGTCCTGGGAAAAAGAAGACATATCTCGAGCAACTGCACGAACAGGACTTCA
ATTCCCGCGTCTGCTGGACCAGAAGAAGACTAAGTTGGCGCATTACCAGACCTTTTCCTAGAACA
GGGGACGAGTGCAGCGGAACGAACGAGCCGGCACTTTAGCATTTGCGGATGCTGGGGCTCCCTTC
GCTACTTATAGCGGCGGGTCCACCAGCAAATTAAGCAAGTTGAGCGGGTGAAGTCGCAGTTCAAA
GAAATGCAGTGGATGAAGTTATCGAAGAAAGCCTAGGGAAAGTGGAAAGCCTTTCATCGAGCCAA
TCCAGCTACTTCTTTATGTTCATGCTCTTCTGCTCCAGCTAAAGCTACTGCTCCAAGCACCACTA
CTGATGAGACTCTCTTGCATTTGCATGAAAATGCTCCTTGATTAC
Found at i:44830 original size:12 final size:12
Alignment explanation
Indices: 44813--44852 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
44803 AGTATTGACT
44813 TCATTCTTTTTC
1 TCATTCTTTTTC
*
44825 TCATTC--TCT-
1 TCATTCTTTTTC
44834 TCATTCTTTTTC
1 TCATTCTTTTTC
44846 TCATTCT
1 TCATTCT
44853 GAGGATCCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
9 6 0.26
10 2 0.09
11 2 0.09
12 13 0.57
ACGTcount: A:0.10, C:0.28, G:0.00, T:0.62
Consensus pattern (12 bp):
TCATTCTTTTTC
Left flanking sequence: Indices 44313 -- 44812
ATTCTACCTCTTAGGGTAAGATAAGAAAGTCAAGGGTTAGTACACATAGGAGTTATGCCTTTCTT
TTCAGATCAATGATACAAGGAGTTAGTCAGAGGTGTAGTTAGGCCCTTAGCGTAAGGTATGGAAT
GGGACCCCACTCATTCCCACTAGAGGAAGATCTGCCCTAGGTAATTTAATGAGGTAATAGAGGTT
CTTTGATGCTCTTTTCTTCCTATTCTTCACTCTTTCCCTTAATATTCTATATAAAGAAAAAGAAT
TCCCTTAATATGAAGATTCTTATATATAAATCAAAGAAGAAGGTAATTCTGAAATGAAATCCTAT
CTATTGAGAATTATATAAGAAAGATCTTTTCATTTATTTAAATTATGTTCAGGGAGGGTCTGTCT
CAGATGGTTTCCTACCTCTATCTGATGGTTTTGTCTTATTATCTAATGGTTTTTCATTTTCTTTC
AAATTCTCTTTTGAATTAGAAAAGTGACTCTTCACAGTATTGACT
Right flanking sequence: Indices 44853 -- 45352
GAGGATCCATTGTATGGGTCTTCTTTATTGAATCATCCTTATCCTTCTTCTTTTCTTTCATTTTC
TTTTCTTTAAATTTTTTATTATAACTCTTTTTAAATTTTTTATTATAACTCTTCCCATTTTATTT
ATACAACGCAAGTCATTGATATTAATAGGATCAGAACCTACCCAGCGACCATTTTCCATTTGACG
TACCCTCTTATTTTTATCTACGAGTCTAAGAGTGAATTTTCTTTCTTCCTTTCTTATATCTAGTG
AATCCCAATCTCTTTTAAAATGAGAGATTATCGGGACAGTCTGAATTCGGTCGGGTTCTAGATAC
TGTTCTAGAAACCAGTCTTTAGTTACAAATTCTTTACCAGCACCCTTATACTTCAGGACGTCTTT
CTCAGAGGAATATCTGCTATAGTAGTAAGATTTTGGCGCTAAAAAGACACCCTCTTTGATTTTAT
CTTCTAACTTAAACTTCCCCAATTCTGTTGAAGATATGAATTCAT
Found at i:44835 original size:21 final size:21
Alignment explanation
Indices: 44811--44852 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
44801 ACAGTATTGA
44811 CTTCATTCTTTTTCTCATTCT
1 CTTCATTCTTTTTCTCATTCT
44832 CTTCATTCTTTTTCTCATTCT
1 CTTCATTCTTTTTCTCATTCT
44853 GAGGATCCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.10, C:0.29, G:0.00, T:0.62
Consensus pattern (21 bp):
CTTCATTCTTTTTCTCATTCT
Left flanking sequence: Indices 44311 -- 44810
TCATTCTACCTCTTAGGGTAAGATAAGAAAGTCAAGGGTTAGTACACATAGGAGTTATGCCTTTC
TTTTCAGATCAATGATACAAGGAGTTAGTCAGAGGTGTAGTTAGGCCCTTAGCGTAAGGTATGGA
ATGGGACCCCACTCATTCCCACTAGAGGAAGATCTGCCCTAGGTAATTTAATGAGGTAATAGAGG
TTCTTTGATGCTCTTTTCTTCCTATTCTTCACTCTTTCCCTTAATATTCTATATAAAGAAAAAGA
ATTCCCTTAATATGAAGATTCTTATATATAAATCAAAGAAGAAGGTAATTCTGAAATGAAATCCT
ATCTATTGAGAATTATATAAGAAAGATCTTTTCATTTATTTAAATTATGTTCAGGGAGGGTCTGT
CTCAGATGGTTTCCTACCTCTATCTGATGGTTTTGTCTTATTATCTAATGGTTTTTCATTTTCTT
TCAAATTCTCTTTTGAATTAGAAAAGTGACTCTTCACAGTATTGA
Right flanking sequence: Indices 44853 -- 45352
GAGGATCCATTGTATGGGTCTTCTTTATTGAATCATCCTTATCCTTCTTCTTTTCTTTCATTTTC
TTTTCTTTAAATTTTTTATTATAACTCTTTTTAAATTTTTTATTATAACTCTTCCCATTTTATTT
ATACAACGCAAGTCATTGATATTAATAGGATCAGAACCTACCCAGCGACCATTTTCCATTTGACG
TACCCTCTTATTTTTATCTACGAGTCTAAGAGTGAATTTTCTTTCTTCCTTTCTTATATCTAGTG
AATCCCAATCTCTTTTAAAATGAGAGATTATCGGGACAGTCTGAATTCGGTCGGGTTCTAGATAC
TGTTCTAGAAACCAGTCTTTAGTTACAAATTCTTTACCAGCACCCTTATACTTCAGGACGTCTTT
CTCAGAGGAATATCTGCTATAGTAGTAAGATTTTGGCGCTAAAAAGACACCCTCTTTGATTTTAT
CTTCTAACTTAAACTTCCCCAATTCTGTTGAAGATATGAATTCAT
Found at i:44946 original size:27 final size:26
Alignment explanation
Indices: 44916--44970 Score: 87
Period size: 24 Copynumber: 2.2 Consensus size: 26
44906 TCTTTCATTT
44916 TCTTTTCTTTAAATTTTTTATTATAAC
1 TCTTTT-TTTAAATTTTTTATTATAAC
44943 TC--TTTTTAAATTTTTTATTATAAC
1 TCTTTTTTTAAATTTTTTATTATAAC
44967 TCTT
1 TCTT
44971 CCCATTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 22 0.85
25 2 0.08
27 2 0.08
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.64
Consensus pattern (26 bp):
TCTTTTTTTAAATTTTTTATTATAAC
Left flanking sequence: Indices 44416 -- 44915
TTAGGCCCTTAGCGTAAGGTATGGAATGGGACCCCACTCATTCCCACTAGAGGAAGATCTGCCCT
AGGTAATTTAATGAGGTAATAGAGGTTCTTTGATGCTCTTTTCTTCCTATTCTTCACTCTTTCCC
TTAATATTCTATATAAAGAAAAAGAATTCCCTTAATATGAAGATTCTTATATATAAATCAAAGAA
GAAGGTAATTCTGAAATGAAATCCTATCTATTGAGAATTATATAAGAAAGATCTTTTCATTTATT
TAAATTATGTTCAGGGAGGGTCTGTCTCAGATGGTTTCCTACCTCTATCTGATGGTTTTGTCTTA
TTATCTAATGGTTTTTCATTTTCTTTCAAATTCTCTTTTGAATTAGAAAAGTGACTCTTCACAGT
ATTGACTTCATTCTTTTTCTCATTCTCTTCATTCTTTTTCTCATTCTGAGGATCCATTGTATGGG
TCTTCTTTATTGAATCATCCTTATCCTTCTTCTTTTCTTTCATTT
Right flanking sequence: Indices 44971 -- 45470
CCCATTTTATTTATACAACGCAAGTCATTGATATTAATAGGATCAGAACCTACCCAGCGACCATT
TTCCATTTGACGTACCCTCTTATTTTTATCTACGAGTCTAAGAGTGAATTTTCTTTCTTCCTTTC
TTATATCTAGTGAATCCCAATCTCTTTTAAAATGAGAGATTATCGGGACAGTCTGAATTCGGTCG
GGTTCTAGATACTGTTCTAGAAACCAGTCTTTAGTTACAAATTCTTTACCAGCACCCTTATACTT
CAGGACGTCTTTCTCAGAGGAATATCTGCTATAGTAGTAAGATTTTGGCGCTAAAAAGACACCCT
CTTTGATTTTATCTTCTAACTTAAACTTCCCCAATTCTGTTGAAGATATGAATTCATCTGGAAGA
GGGTTACCTAAAACTATAGAGTCTGTGTCAGTGTAGTAGCAATCATCTCTGGATATAAATGGATA
CATGTAGATCCTAGCTGATGCTGTGATAGCCGCGGATATTTGAAC
Found at i:44982 original size:27 final size:24
Alignment explanation
Indices: 44923--44970 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
44913 TTTTCTTTTC
44923 TTTAAATTTTTTATTATAACTCTT
1 TTTAAATTTTTTATTATAACTCTT
44947 TTTAAATTTTTTATTATAACTCTT
1 TTTAAATTTTTTATTATAACTCTT
44971 CCCATTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTAAATTTTTTATTATAACTCTT
Left flanking sequence: Indices 44423 -- 44922
CTTAGCGTAAGGTATGGAATGGGACCCCACTCATTCCCACTAGAGGAAGATCTGCCCTAGGTAAT
TTAATGAGGTAATAGAGGTTCTTTGATGCTCTTTTCTTCCTATTCTTCACTCTTTCCCTTAATAT
TCTATATAAAGAAAAAGAATTCCCTTAATATGAAGATTCTTATATATAAATCAAAGAAGAAGGTA
ATTCTGAAATGAAATCCTATCTATTGAGAATTATATAAGAAAGATCTTTTCATTTATTTAAATTA
TGTTCAGGGAGGGTCTGTCTCAGATGGTTTCCTACCTCTATCTGATGGTTTTGTCTTATTATCTA
ATGGTTTTTCATTTTCTTTCAAATTCTCTTTTGAATTAGAAAAGTGACTCTTCACAGTATTGACT
TCATTCTTTTTCTCATTCTCTTCATTCTTTTTCTCATTCTGAGGATCCATTGTATGGGTCTTCTT
TATTGAATCATCCTTATCCTTCTTCTTTTCTTTCATTTTCTTTTC
Right flanking sequence: Indices 44971 -- 45470
CCCATTTTATTTATACAACGCAAGTCATTGATATTAATAGGATCAGAACCTACCCAGCGACCATT
TTCCATTTGACGTACCCTCTTATTTTTATCTACGAGTCTAAGAGTGAATTTTCTTTCTTCCTTTC
TTATATCTAGTGAATCCCAATCTCTTTTAAAATGAGAGATTATCGGGACAGTCTGAATTCGGTCG
GGTTCTAGATACTGTTCTAGAAACCAGTCTTTAGTTACAAATTCTTTACCAGCACCCTTATACTT
CAGGACGTCTTTCTCAGAGGAATATCTGCTATAGTAGTAAGATTTTGGCGCTAAAAAGACACCCT
CTTTGATTTTATCTTCTAACTTAAACTTCCCCAATTCTGTTGAAGATATGAATTCATCTGGAAGA
GGGTTACCTAAAACTATAGAGTCTGTGTCAGTGTAGTAGCAATCATCTCTGGATATAAATGGATA
CATGTAGATCCTAGCTGATGCTGTGATAGCCGCGGATATTTGAAC
Found at i:48828 original size:17 final size:17
Alignment explanation
Indices: 48806--48847 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
48796 GCCTGACCTA
48806 AGAAATCAGTCTAAATC
1 AGAAATCAGTCTAAATC
48823 AGAAATCAGTCTAAATC
1 AGAAATCAGTCTAAATC
48840 AG-AATCAG
1 AGAAATCAG
48848 AGTTGGGCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 6 0.24
17 19 0.76
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (17 bp):
AGAAATCAGTCTAAATC
Left flanking sequence: Indices 48306 -- 48805
GAATTTGGTGATCACACGCTAGAGTGCCTCTTCTCACTGACGTTCCTTTACCTGACCAAGAATCT
TTTGTGGGACAGCTATATCGTGGCTTTCTTTTTCATTTTATATTACACTACTGTACTTAATGACC
ATAATGTTTATAAGTATATGATCTATTTTATCTAATCAATCCCCAAGGGACCCTTAGCCAAAGTC
GTACTTCGACCCAGTCCTATCCTGGGCTTCGTTCTGTGAAAGCAGTACAATCTGCATATCCATCC
CTCTCTAAGTGAAGGGTCTCATCTTTTCTAGGAGTCAGAAACCTTTACAGGAATGAATTTCTTTA
TATAGGGTCTGTTCCAAGCATGATCTTTAATCTGGATAAGTAGCAAGAACTTCCTGACATAAAAA
GAAAAGGAAACATCACTACGACGAATGCGCACAAGGACGAGGTCTCTATCTAAGACATGTCTTCA
TTGCTTGACTTTCTAGTTAAGAGTTATAGGGCTTGGCCTGACCTA
Right flanking sequence: Indices 48848 -- 49347
AGTTGGGCTTTCCCTTTGCTTTTCTTTTAGTACTTTATTCTGAGTCTTATCTTAGATTAAGAGTT
TGCTTAGCACCCTTACTACTGACGACTTGCTATATTCCCACGTATCCTTTGTATAAGTATCCTAT
AAAAGAAGGTCTAATAAGGGGAAAGACTGAAAGTCACTTCTTTTCTTTTTAATCTAAGCCTAAAG
AGAAAGAATGCACTAAGAGAGGAGCTAGACCGACTTCTTAGTCTTGCTAAAGGAGTAGGATTCAT
AAACTCAAAATAGATTTTAATTTCTTTTTTAAAAAAGGAATGAAACTCAAAAGAAATGAAAAAGG
CTGACCTACCCTATGGATAGGAAGGATTGATCCTCTAAGGATAGCCTCATTCCATCGCTATAAGG
CGTGTCTACCCGAGCACGCTTACTTAATACAGGTCTAATGAACTATCCCTCTCCGACTAAAAGGG
TAGGGACTTACCTGGAATTGACTCACCAAAAAGCACAAACTTAGT
Found at i:55953 original size:10 final size:10
Alignment explanation
Indices: 55938--55992 Score: 74
Period size: 10 Copynumber: 5.5 Consensus size: 10
55928 CCAAGCCTTA
*
55938 TTGTCTTGTG
1 TTGTCTTCTG
55948 TTGTCTTCTG
1 TTGTCTTCTG
*
55958 TTGCCTTCTG
1 TTGTCTTCTG
*
55968 CTGTCTTCTG
1 TTGTCTTCTG
*
55978 TTGTCTTGTG
1 TTGTCTTCTG
55988 TTGTC
1 TTGTC
55993 ATCTTTCATT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 39 1.00
ACGTcount: A:0.00, C:0.20, G:0.24, T:0.56
Consensus pattern (10 bp):
TTGTCTTCTG
Left flanking sequence: Indices 55438 -- 55937
GTCAAGGGCTGAAAGTTGGGATCGATTGAAAGAATTATTCCAACAGTTTGGGCTCTTATATTGCC
AAGCTCCTCTTCGGGAAAATCTCATGTCTAGCTATAGCCGTCTAGGTTGTGGTTTACGTGATCTC
ATTCTGCAGAAATCTTTCTTAACAGAGTTCCATTTTCTCACTAAAGTTAATGCTAATCGGTCGGA
ATTCAGTCATTTTACGCGGTGCTGGGAATAAGCACAACCGAAGTCGTTTCAATCTCCTTGTGTCA
CCACGACCCACCCACCAGTCCTGAACGAAGTCACATACATCCTTACCCGGCTCGACCAACTTCTT
CCGCTGCCTGCTCGCTCTTCACTCGACTTGGAACGGGAATGCCGCCGCCCTACTTCAGGCCAGGA
GAAGATCTTCCCGCCCCGACCAAGAGAATAGTCAGTCGAGCCAAGTCTCTTTCCTCTGATCGAGC
ACATTCTGATCTTAGAGTCTTCTAGTACATGGATTCCAAGCCTTA
Right flanking sequence: Indices 55993 -- 56492
ATCTTTCATTTCAGGATAGGAGAAGACTATCCAGTCGTCAGGGAAGGGGGAAGCCAGTCCTCCCA
CTCCCAGCGAGAGTGAAACGAAAGCGTGGTCTTGCTAGGGAAGCCCGAGCCCATCAAAAAAAAAT
TTTGAAAATGCAATGCAAATGCATAGACTGGGGCCTCACAATCATTGTTATTCATTAAGCGCTTA
AGCAAAGCAAGCATCTAACCTCACTCCTAACCTAAGAGCGAGGCGGCGTAGCCGTAGCATATTGA
TTGGTTGTCCAAGTTCGTTCTCATAAGAAAAAGGAGAGGGACTCCCTTCCTTATCACTCACTGAT
CATATCAGGAAAGACAAGCTTACTTGCTAAGAAAGATAGAAAGACAAGGTTTTTCTTGGTCTTGA
GTAGGAAGAATGCAAGCACGTTACGATAGGATAGGAAGTCTGGTCTCTAAAGTACTCCTCCCATT
CTCAGTCTTTGATCCTGTCTCAGAATAAGAAAGAAAATAAAAAAT
Found at i:55992 original size:20 final size:20
Alignment explanation
Indices: 55938--55992 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
55928 CCAAGCCTTA
55938 TTGTCTTGTGTTGTCTTCTG
1 TTGTCTTGTGTTGTCTTCTG
* * *
55958 TTGCCTTCTGCTGTCTTCTG
1 TTGTCTTGTGTTGTCTTCTG
55978 TTGTCTTGTGTTGTC
1 TTGTCTTGTGTTGTC
55993 ATCTTTCATT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.00, C:0.20, G:0.24, T:0.56
Consensus pattern (20 bp):
TTGTCTTGTGTTGTCTTCTG
Left flanking sequence: Indices 55438 -- 55937
GTCAAGGGCTGAAAGTTGGGATCGATTGAAAGAATTATTCCAACAGTTTGGGCTCTTATATTGCC
AAGCTCCTCTTCGGGAAAATCTCATGTCTAGCTATAGCCGTCTAGGTTGTGGTTTACGTGATCTC
ATTCTGCAGAAATCTTTCTTAACAGAGTTCCATTTTCTCACTAAAGTTAATGCTAATCGGTCGGA
ATTCAGTCATTTTACGCGGTGCTGGGAATAAGCACAACCGAAGTCGTTTCAATCTCCTTGTGTCA
CCACGACCCACCCACCAGTCCTGAACGAAGTCACATACATCCTTACCCGGCTCGACCAACTTCTT
CCGCTGCCTGCTCGCTCTTCACTCGACTTGGAACGGGAATGCCGCCGCCCTACTTCAGGCCAGGA
GAAGATCTTCCCGCCCCGACCAAGAGAATAGTCAGTCGAGCCAAGTCTCTTTCCTCTGATCGAGC
ACATTCTGATCTTAGAGTCTTCTAGTACATGGATTCCAAGCCTTA
Right flanking sequence: Indices 55993 -- 56492
ATCTTTCATTTCAGGATAGGAGAAGACTATCCAGTCGTCAGGGAAGGGGGAAGCCAGTCCTCCCA
CTCCCAGCGAGAGTGAAACGAAAGCGTGGTCTTGCTAGGGAAGCCCGAGCCCATCAAAAAAAAAT
TTTGAAAATGCAATGCAAATGCATAGACTGGGGCCTCACAATCATTGTTATTCATTAAGCGCTTA
AGCAAAGCAAGCATCTAACCTCACTCCTAACCTAAGAGCGAGGCGGCGTAGCCGTAGCATATTGA
TTGGTTGTCCAAGTTCGTTCTCATAAGAAAAAGGAGAGGGACTCCCTTCCTTATCACTCACTGAT
CATATCAGGAAAGACAAGCTTACTTGCTAAGAAAGATAGAAAGACAAGGTTTTTCTTGGTCTTGA
GTAGGAAGAATGCAAGCACGTTACGATAGGATAGGAAGTCTGGTCTCTAAAGTACTCCTCCCATT
CTCAGTCTTTGATCCTGTCTCAGAATAAGAAAGAAAATAAAAAAT
Found at i:62865 original size:17 final size:17
Alignment explanation
Indices: 62843--62875 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
62833 AGCAAGTCCG
62843 GGTTAAGGACATAAAGA
1 GGTTAAGGACATAAAGA
62860 GGTTAAGGACATAAAG
1 GGTTAAGGACATAAAG
62876 CGCTAGGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.30, T:0.18
Consensus pattern (17 bp):
GGTTAAGGACATAAAGA
Left flanking sequence: Indices 62343 -- 62842
CCACTTGCTTTAGCTGGTCGAGCCAAGTTCGGTTAGGAGGGTTAGGGTGAAACTCAGTCTACTTT
TCAGGAAAATCATTATATAGGAGGTCCCGCTTTTCGGAGAAGGTCCAGGAGATCTTCTTTGCCGA
ACCATGAAATGAACTTTAGGTAACTATGTCAGATAGGTCAGATAGACAATTTAGGGCGAGTGCCC
AAGGTATGCTTTTAGATTTCTCACTTATAAAGTGTCCGTTATCCCCCTCATAAGTTGAATTCTAT
TTCTTGAATCTGATATGGGAGATCCCACCACTTCATCGTCTAAGCTATTTCAAACCTTGCTTGGG
GAGAGCAAAGCCGTTCCTGCAATCTACTCGCTCTTCGCTCGTTAACTGGCTCGTCCTTATTTGAA
AGCTCCTCCACTCGTTCCCTTATCTTATAAAGCTCGCCCCTTCTTATTATTTATAAAGCACTTTC
GCTCGTTCCCTTCTTTTCTATGCTTTTTGGCTTATAGCAAGTCCG
Right flanking sequence: Indices 62876 -- 63375
CGCTAGGCTTTCCCACTAGGTAAACAAAAAATGAAGTTTATAGTTCTGGATGGAATGCTCACCCG
GTGCTGTATCGGAAGATGCATTGGATTGGGCACTTTAAGAAGCCGAATTGGTGGAAAGTGTTCTA
CTAGACCTAGACCTAGAATAGGATAGCCTACTTCGCATCCGTCCTCTTCTCATTGAAATAGAGTA
TGCCTCCCAACCCCGTCTGAAACGGGCAACTACTAAGGAACCGGCTGTTACAGAAAGAAAGTGCC
GATCTGGAACTTCTTCTACTGGGTCAGGACCCTTTACACTTGACACTTGCTGGGACCGCCTTTTA
TTTTAAGGCTAAGGCGATTAGGCTGGTTTCATACGAAGAAAAGCAGCCTCGACTAGAAGTTTCGG
AAAGAAAGGCATAAGTTGAACCAGGTCCTTATGGCACCTGTCATTTCTATTCTATCTGAGAGCAT
TTCTTACCTCACTGCCCAATCGGGTTAATCATAAGAATGACGACT
Found at i:77121 original size:13 final size:12
Alignment explanation
Indices: 77096--77120 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
77086 TTGAAAAAAA
77096 GAAAGAAGGGGG
1 GAAAGAAGGGGG
77108 GAAAGAAGGGGG
1 GAAAGAAGGGGG
77120 G
1 G
77121 GGTCGATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (12 bp):
GAAAGAAGGGGG
Left flanking sequence: Indices 76596 -- 77095
ATTTGAAAGGAAAGGCCCGGGTTCCAAACCTGCGCACCCTTATTAAGTTAAGTTAAGTTTAAGTT
AAGAAGCCCCTTCTATTCTATTAGTAAAGAAATTTTGCCTTAATTGAGGCGCTCTAAGCAGCTTA
CTTACTAATAAAGCGGAAACAAGCACCTTCTTTCTCAAAGTAAAGGTTCTCTCTTCTTGCTTTAG
AAAGATTTCAACGTTAGCTCTTTACTAAACTAATAGAATAGAATCAAGTAAAGGGGACTCTACCA
TGATCTTACGAATTTACAACTCTCTTTACTGAGCGAGACTCCTCTATCCATATCCCTATTAGTTT
AGTGGTTTTTCTTTTTTTTTTTTATCATTTGTTTGACAGCTTAGACTAGGCTCCATTTTAGATAG
GTTTTCGGTCTTAATCAAGATAGGTCAGGGGCGCGTCGGAACGGTCGGTAGCTGCTTAGTCTCAT
CCGAGAGTCTAATCTCTTTGTACTGCTTTTTTTCTTTGAAAAAAA
Right flanking sequence: Indices 77121 -- 77620
GGTCGATTTAGGCTCCTTCCCTTCCACTGCATAGCTGCGCTAGCAGGTACTACGAGCCCTCTGCC
CCACGCATCTAACCAGCTCGCGCGGTTCACCGGTTCCACCGAAAACTCTCATTTGTTGAAGCGGA
GCATAGCAGTTGAAGCGGACATAGCAGTTGGCGAAGCCGAACCACTTGACATAACATCTCGTCTC
ACATCAGAGTACAAGACTTAAGGAACAGTCCCTCTAACAACTTTACAATTCTACTTTGACTTTTC
AAGGAACAAGGAACAATGTACAATCTCTTCCCTTTCTAGCGGATGATTAGCATCGAGAATCGTTC
TTCGATGGCACCAGCTTTCACTTCCTCTCACACGCTAACTACGTGTTTCAACCAAATTCCCGTCT
TTCAATTCAATCGTATCACGTGACGTCGTTTCTTTATCGCCAACATGATCCTTTCGAGCAGAGTC
GAATGCAGGTTCATTTCAAACCAGTAAGCCAGCTTCAAATTATTT
Found at i:77275 original size:18 final size:19
Alignment explanation
Indices: 77240--77280 Score: 75
Period size: 18 Copynumber: 2.2 Consensus size: 19
77230 ACTCTCATTT
77240 GTTGAAGCGGAGCATAGCA
1 GTTGAAGCGGAGCATAGCA
77259 GTTGAAGCGGA-CATAGCA
1 GTTGAAGCGGAGCATAGCA
77277 GTTG
1 GTTG
77281 GCGAAGCCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.29, C:0.15, G:0.37, T:0.20
Consensus pattern (19 bp):
GTTGAAGCGGAGCATAGCA
Left flanking sequence: Indices 76740 -- 77239
GGAAACAAGCACCTTCTTTCTCAAAGTAAAGGTTCTCTCTTCTTGCTTTAGAAAGATTTCAACGT
TAGCTCTTTACTAAACTAATAGAATAGAATCAAGTAAAGGGGACTCTACCATGATCTTACGAATT
TACAACTCTCTTTACTGAGCGAGACTCCTCTATCCATATCCCTATTAGTTTAGTGGTTTTTCTTT
TTTTTTTTTATCATTTGTTTGACAGCTTAGACTAGGCTCCATTTTAGATAGGTTTTCGGTCTTAA
TCAAGATAGGTCAGGGGCGCGTCGGAACGGTCGGTAGCTGCTTAGTCTCATCCGAGAGTCTAATC
TCTTTGTACTGCTTTTTTTCTTTGAAAAAAAGAAAGAAGGGGGGAAAGAAGGGGGGGGTCGATTT
AGGCTCCTTCCCTTCCACTGCATAGCTGCGCTAGCAGGTACTACGAGCCCTCTGCCCCACGCATC
TAACCAGCTCGCGCGGTTCACCGGTTCCACCGAAAACTCTCATTT
Right flanking sequence: Indices 77281 -- 77780
GCGAAGCCGAACCACTTGACATAACATCTCGTCTCACATCAGAGTACAAGACTTAAGGAACAGTC
CCTCTAACAACTTTACAATTCTACTTTGACTTTTCAAGGAACAAGGAACAATGTACAATCTCTTC
CCTTTCTAGCGGATGATTAGCATCGAGAATCGTTCTTCGATGGCACCAGCTTTCACTTCCTCTCA
CACGCTAACTACGTGTTTCAACCAAATTCCCGTCTTTCAATTCAATCGTATCACGTGACGTCGTT
TCTTTATCGCCAACATGATCCTTTCGAGCAGAGTCGAATGCAGGTTCATTTCAAACCAGTAAGCC
AGCTTCAAATTATTTTTCTCACTCAGTCACTTGACCAGCTCACCTCTAAGTTCCCTTCGCTCGAG
CTCTTGAAGCCAATTCATTCTGCCTAATCAGAAAGGGTATGGCTGAGGGCAATACCGGTATATTT
GGCACCGGTAAAAGTCAAGGTTTTTAGGTTGGGGCGATTCCTCAA
Found at i:78433 original size:24 final size:24
Alignment explanation
Indices: 78388--78435 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
78378 TAGAAAGGCC
* *
78388 TGCTTGGGCCCCATTTCCATTTGT
1 TGCTTGGGCCCCAGTTCAATTTGT
78412 TGCTTGGGCCCC-GTTCAAATTTGT
1 TGCTTGGGCCCCAGTTC-AATTTGT
78436 AATTGCTGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.10, C:0.27, G:0.23, T:0.40
Consensus pattern (24 bp):
TGCTTGGGCCCCAGTTCAATTTGT
Left flanking sequence: Indices 77888 -- 78387
GCGAGCAGGCTGTTAGCACTACTTATTTGGAGTGGAGAATGCATCCTTTACTATAGAAAAGGGGC
TGGTTCCTCTGAGTTTAGTTTGAGGCTATTTATAGCTCGCATTTAATTAGTAGAACAAGAAGGAG
AGGAAGTGCGGACCCGAGAGCAGACTTTATTGTTCCTTTAAGCAAAATAGGATTGTGATGCACAT
TTTAATAATGCAGGGGAAAAGTCTTCCCTTAAGTGTAAGCCCCAGCCACAGGCCAGGAAAAGAGG
AAAAGAGAGTCTTGCTAGCCTTCATGCCGCGCTTCTGTTTGAGAATAGAATCCCGTGTGTGTCTT
TCGCCCCAAGCATCAATTTGGAGATTATGCTTTGCCTTTTCTTTCGTGCATTAGAATTCTCGGGC
TCGCCTAATGCATTTGATCCCAGCTAGGGCTAGTACCCTATCTATTCTATTTGTTTTGAACAAGG
GAAATGCTTTGGGATGAAGATCTGTTCTTTTAGGGTAGAAAGGCC
Right flanking sequence: Indices 78436 -- 78935
AATTGCTGCCTTGGTAATTGCTTGGTACTTGGTTTCTTTCGACTAAAATGCGGCTTCAGATTCTA
TGATCTATGATCTAGGATCGAAGGATCGAGTGGAGCTTAGCTGGCTTGCCCGAGATGACTCTCCC
TGGCTTGGTTTCCAATTCCCCTCTTTTCTTAGATCTTAGAAATGGGTTTAAGCGCGATAAGATTG
TCTTAAACTCCTGCCTTTGGACCTTTCTTATTATCTTATATAAGATAAGACTTGTTTGATGCGGG
CATTGGTCAACCTGCTCTTGAGACTTTTCCTGTGGCCTAGGCTATCATACAAAACCCAAGCGCAA
CCAAGGAATTACGGTTCCGCTCTATCTAATGCGCCAGCCAAGTCCCTGGAAAAGAGGGAAGAGAG
TCCAAGTCCACTCGTGAGGAAGCCTTTTATGATATCATAACCTAAAGGAAAAGCAGAATATTTAA
CCTCCATACTCGCTGCGTTAACAACCGGCTCGTTTCGCCAACATC
Found at i:81404 original size:6 final size:6
Alignment explanation
Indices: 81390--81424 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
81380 AATTCCCTCC
*
81390 CTTAGT CTTAAT CTTAAT CTTAAT CTTAAT CTTAA
1 CTTAAT CTTAAT CTTAAT CTTAAT CTTAAT CTTAA
81425 GGGCTTCTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.31, C:0.17, G:0.03, T:0.49
Consensus pattern (6 bp):
CTTAAT
Left flanking sequence: Indices 80890 -- 81389
GGGATTCGGAAAGGATGATAGGGACTCTCCGACTATCCGAACTTGATGTCTCTTTCTGCTCCCGC
TCCGAATGGGAGATGCGACCATCACGACTCGGCGACTGAACCATATATATGTCTGTATTAATGAA
TGTATGGGGAAGCCAGGCATAGGAATCCAGCATTTTTCTAATCTATTAGGGATGAGATACATAAA
AAACTGGAGAGATGGGAATACATTTTTAACGAACAGTCCTCGAAGCTGTACGATAAGTACCAGCT
GAATGCCCCGATAGAGAAGTTCCATACACAACCCTTTCTTTTTTTTTTTTATGGCTACATCAGGA
GATTGAACAAGGCTAGGGATCGGTTCATGATTCGTATCAAAGACTTAGTCTTCTTGAATCCTTAG
TTCTACTATTTAAGATTTCAGGATTGGTATACCTACTAAGCTCAAAAACGCCCCTTATAGGTCTT
AGTTAGCCTTATAGCTCTAAAGGTAGATGGGTAAGAATTCCCTCC
Right flanking sequence: Indices 81425 -- 81924
GGGCTTCTTCCTATTTCGATGGGACCCTAATGTCAATGCCTTTTCTTCCTACTTCTATTGGAAAT
CTTTCTGTTCTCATACGACTTTGAGAGTCTTGGACCCCTATCATAAGATCCATTAAATCTCAGAA
GCCTTCTGTCCAGTCCACTCGGCCTAGGGGAATGATGAAGCCATAGTACCGGCAACCCATTCCTT
ATGCCAGCATCCCTCTCAAAATCATTATCCGATTCCTATTGGACAACTATCCTAAGAGAATGAGG
CTCTAGGCTCGGACTATTACCTCGATGCGAGTCAGACATTCGGAAGATAGGTTAGCTCGAGATGA
GGACGTACATTCAGTGGTTTAGGCCATAACCGTATATACTGTTGTCACGTCTCGACCCTAGTTCT
GATTCCGCCTTTCTTTGTTCAACAGGGCTAACCCTGCCAGCTGTTGGGCGAGAAAATGCGCCCGG
GATGAAAAGGTCTTTTCTTCTGTAAAAGAAGGGCCTTCCCCAAGA
Found at i:87278 original size:15 final size:15
Alignment explanation
Indices: 87258--87287 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
87248 TCACCACAAG
87258 CATATCTAATTAATA
1 CATATCTAATTAATA
87273 CATATCTAATTAATA
1 CATATCTAATTAATA
87288 TAATAGCGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (15 bp):
CATATCTAATTAATA
Left flanking sequence: Indices 86758 -- 87257
ATTCTTCGACGGGATTCCCTGTTTTAATAAGGGCAAAAGACTTCCTCTGAGGCGCATGCTAGGAT
ATCAACGAGGGGTTTGCGCCTGACCCTGTGGCAGCTGTTAGAGGGGTGGAAGAGGCTCGCATTAT
AATTATATTATAGTAGGGAGAGGTACAACTCTAGCATAGCACGACTCTCCGGTCAAACGTAACGG
CACGCTCCTTCTTATAGATTTTTAGATGATTGTGCTTCAATCTTATGTTATGAACTTTCTTATTA
TCTTTGGAACCAGGTAAACCTGTGGGACCGAAGCCCGCTCCTTAGATCTGCATCTGCTAGGGCTG
TTGGCGAATAAACTTAACCTGCTTTTTTATTAGAGGACGACTTGTTGGCAAAGCGGGATCGTTAG
AAGCGTCAATTGCTATGCCCCTTCTAAATAAGAAATATCTTAAGCTTATTAAATTTAAAAGCTCG
TACTAAGAAACCTAACCTCCCTTCTTAAGGTTGAATCACCACAAG
Right flanking sequence: Indices 87288 -- 87787
TAATAGCGGAATGAATTAGCTTGAAATGGTGAATTAGTTGAAATGGTGAATTACAGGTTGAAACC
ATTATATATTATATATTACGAAAGGTAAACTCCTGCCTCAGAAGGATCGGATATGAGGTGCCACC
CCAGTCCCCACTAGAAGTACAACCCCTATAACTATAAAGCTTGAACTCCCACCCCAAGCGCTAAT
CTCAGATGTCATCGCATCGTTGCGCAATTGAAGTGAAGAGGGGATATATACTTTTTCTTCCCTCG
AACAAACACGAAAGACTTTTCTTATATTACGGGTACTTTCAAAGCCAAACCTTTTATTTGAGTAT
TTGAGAAGGTGCCTAAACAATTAGGTTTTTTAGGAGAGAGGTTTCGAGCTTTACTTTACAATAAC
AATAAGGTAAAAGAGCTACTGAAAAAGATAAAGAGTCTGCTGCCCCTTCTTTCTAGTACAAGGGA
AGAGGCTGTTCGTTCACCTTGTAGACGGAGGAGATATAGAAAGTG
Found at i:87330 original size:17 final size:18
Alignment explanation
Indices: 87299--87340 Score: 77
Period size: 17 Copynumber: 2.4 Consensus size: 18
87289 AATAGCGGAA
87299 TGAATTAGCTTGAAATGG
1 TGAATTAGCTTGAAATGG
87317 TGAATTAG-TTGAAATGG
1 TGAATTAGCTTGAAATGG
87334 TGAATTA
1 TGAATTA
87341 CAGGTTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.36, C:0.02, G:0.26, T:0.36
Consensus pattern (18 bp):
TGAATTAGCTTGAAATGG
Left flanking sequence: Indices 86799 -- 87298
TTCCTCTGAGGCGCATGCTAGGATATCAACGAGGGGTTTGCGCCTGACCCTGTGGCAGCTGTTAG
AGGGGTGGAAGAGGCTCGCATTATAATTATATTATAGTAGGGAGAGGTACAACTCTAGCATAGCA
CGACTCTCCGGTCAAACGTAACGGCACGCTCCTTCTTATAGATTTTTAGATGATTGTGCTTCAAT
CTTATGTTATGAACTTTCTTATTATCTTTGGAACCAGGTAAACCTGTGGGACCGAAGCCCGCTCC
TTAGATCTGCATCTGCTAGGGCTGTTGGCGAATAAACTTAACCTGCTTTTTTATTAGAGGACGAC
TTGTTGGCAAAGCGGGATCGTTAGAAGCGTCAATTGCTATGCCCCTTCTAAATAAGAAATATCTT
AAGCTTATTAAATTTAAAAGCTCGTACTAAGAAACCTAACCTCCCTTCTTAAGGTTGAATCACCA
CAAGCATATCTAATTAATACATATCTAATTAATATAATAGCGGAA
Right flanking sequence: Indices 87341 -- 87840
CAGGTTGAAACCATTATATATTATATATTACGAAAGGTAAACTCCTGCCTCAGAAGGATCGGATA
TGAGGTGCCACCCCAGTCCCCACTAGAAGTACAACCCCTATAACTATAAAGCTTGAACTCCCACC
CCAAGCGCTAATCTCAGATGTCATCGCATCGTTGCGCAATTGAAGTGAAGAGGGGATATATACTT
TTTCTTCCCTCGAACAAACACGAAAGACTTTTCTTATATTACGGGTACTTTCAAAGCCAAACCTT
TTATTTGAGTATTTGAGAAGGTGCCTAAACAATTAGGTTTTTTAGGAGAGAGGTTTCGAGCTTTA
CTTTACAATAACAATAAGGTAAAAGAGCTACTGAAAAAGATAAAGAGTCTGCTGCCCCTTCTTTC
TAGTACAAGGGAAGAGGCTGTTCGTTCACCTTGTAGACGGAGGAGATATAGAAAGTGTGCCGCGC
GTGATTCATAAGATTCTATAATAGAGCATCAGTAGATTATTTAAC
Found at i:96102 original size:18 final size:18
Alignment explanation
Indices: 96079--96113 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
96069 ATAACTATAG
96079 CTAGAGTAGGTAGCTTCA
1 CTAGAGTAGGTAGCTTCA
96097 CTAGAGTAGGTAGCTTC
1 CTAGAGTAGGTAGCTTC
96114 GCTAACATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (18 bp):
CTAGAGTAGGTAGCTTCA
Left flanking sequence: Indices 95579 -- 96078
GGGGAATGCTTCTTCGACTGCGTCTTCTGCATTTACTTTTACTAGGGCTTCTTCACCGGCTTCAT
GAGAATATATTGTAAATAAATTACAAGCCTAAGTGATTAAATGAGAAAGCAAGCCTTATCTTTCT
TGTCTTGTCTTGAAGGTAGGTCCGGGATTAGACAAGGAAAGAAAAATCTTCCCGGTGTATATATC
AAGGGACCTTCCTTTCCACTATCATCAACAAATGCTTTTTTGACTGGTTCGACTGGAACGTCGAC
ATCTGTTTCTTCTCCTTAGTCGTCTTCGACTGGATCAGCCAACTCTGTAACTACCTCATCACCTG
GGTCTTCCTCGGCGAATGCCTTTTCTTTATTGTTATTGTGGAAAGCTGCTTTTTCCTCTAGCTCT
GGTCCAGCCTGGGCATTCTAAATTGAGCAATGCTGCTCATTGATTACTTCTCTTTGTCCTCGGTC
GAGTCATTTCATTCTTCTCCCGTCCCGTAACTACTATAACTATAG
Right flanking sequence: Indices 96114 -- 96613
GCTAACATTACTTTGATCCTGTATTCCGATACTGTACTCCTCGCCTGTGCTCGGGTCGGTTGCGG
CTTCGTTAGATTCATTCATCCTTGGCTTGGGTTCATTCTCTTCCATAGGGCGGGCGTAAACCTAT
CTATTCTATGTCAAGTCTATGTCAAGATCAAGGAAAGTGTACTGTTAAATCAGAATGTGCACGGA
CAGTACTACCCTCGGTTCGGGTGGACAGGGTAGTCCTTGGGATGACTGATGGTTGGATCGATCAT
AGGTAGATTGGTTCCATGAATGGCTTAGCCTATTATATTAGTATATTAGGCTTTCTATTGAATTT
ATCTCCTGTAATAAGAATTTATGCCTGGGCACACAGGAAGTGACTGTGTTGACGAGTCTAGTCCC
TTTCTAATTAAAATGCGAGGCACGCTCTGATTTCGAAGAATTGCAAGGCCAGAATGTATTTCAGT
AGCTGGCCAGCGTAAACACCCTTTCTTTAATGATAGGAATAGAAA
Found at i:101843 original size:32 final size:33
Alignment explanation
Indices: 101807--101887 Score: 96
Period size: 32 Copynumber: 2.5 Consensus size: 33
101797 TTCGTTCTTT
** *
101807 TAAGAATATAAAAAAGAAT-AAGAGAGGATCTA-
1 TAAGAATATAAAAAAGAATAAAG-GAAAATCAAG
*
101839 TAAGAATATAAAATA-AATAAAGGAAAATCAAG
1 TAAGAATATAAAAAAGAATAAAGGAAAATCAAG
101871 TAAGAATATAAAAAAGA
1 TAAGAATATAAAAAAGA
101888 GAACTGATCA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
31 9 0.22
32 31 0.76
33 1 0.02
ACGTcount: A:0.64, C:0.02, G:0.15, T:0.19
Consensus pattern (33 bp):
TAAGAATATAAAAAAGAATAAAGGAAAATCAAG
Left flanking sequence: Indices 101307 -- 101806
AAAATGTGCTTAAATCGCATTTTGTTGAAAATCCTCGGCAAATAGCAAGAAAATCCTTCGTTTTA
AACAAAGAAAGTCGTCCAATCCGCTAACAGCCCCTTAGCTCATCTGCCTGTTGGAGCAAGTCTAG
TTTACGTAACGCGCCAGCTGTACTACTAGTAAAGCCTGCTTCGGCATCGTTCCTACTCCTCTGCT
CCCTGCTAGCTCATCTTTTTCATAGTTAAACAAAACAAACCCGCTACGTATTGTAAAAAAGGATT
TCCTGGCTACTAAGCCGCGCATCTACGTTCCTGGCTGCCTTAACTCTACTACGTTCGGAGGTCTT
GAAGTTCTAAAAGGAAGAGAGCTAACCGTGGTATAAGGTCTGATACGTTGGTACCTCCTAATCTT
GGGCAATCGCATTGCATTGAGCCGCTGGAAAGTAGGTAGGTTTTTTCCTATAGTTATAGTGAAGC
CAAAGAAATTAAGTCTTTAAAGAAGGTGGGTAATATTCGTTCTTT
Right flanking sequence: Indices 101888 -- 102387
GAACTGATCAAGAAGTCAAGTCTTCTCGGTTCCGTTGCCTTACGTCCATGGTAGTTTCATACCTG
TCATTCCGCCAATATGATCTAGTTTTAGGGGCATTTCCAGATGTTCGGTATTTTATCAACAAAGA
ATATAACGTACGAATAGTAACCTTTTTAACTCTGATTCTCCAACTGGAATACCACGCGACTTACA
GGAAAGGATGCAAAAGAGGTCTTTGATGTCGATCATTAGGTTTTTGGTAAATGCTTGCTCTTGCA
CTTCATTTACTAGGGCTGGAGTTATAACATTTGAATTTCTCTATTTGATGTCGATTCATCCACAC
TTCCATTCTTTCTAGAGGAAGGCTAACTGCTTTCTGGCTGGGAGCTGTATGAGCGGTAACGTCCA
CGTACTGCTTCGTGAGAAGGGCGGTGGACAGAAATGGCCTTGTTGTACCTCACTCTCGTCTTCAA
TGGGGTCTGCTCTTTTTTTTTTAGGCGAGTATGCCAATATGATCT
Found at i:103514 original size:21 final size:21
Alignment explanation
Indices: 103488--103529 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
103478 TCGGTTCTAT
103488 TAAAGACAAGTCGTATTGATG
1 TAAAGACAAGTCGTATTGATG
103509 TAAAGACAAGTCGTATTGATG
1 TAAAGACAAGTCGTATTGATG
103530 ACCAAGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.29
Consensus pattern (21 bp):
TAAAGACAAGTCGTATTGATG
Left flanking sequence: Indices 102988 -- 103487
GCTCCCCTTTACAATATGAAGAAAGAAAGAAGGGTCGAAGTTGAGACCGCTCACAGTAGTTCTGC
CTATAGAAAAGATCATGAAAGAGGCGATCAGAATGGTACCCGAATCCATTTACGATCCCGAGTTT
CCAGACACATCGCACTTCCGCTCGGGTCGAGGCTGCCACTCGGCCCTAAGACGGATCAAAGAAGA
GTGGGGAACCTCTCGCTGGTTTTTGGAATTCGACATCAGGAAGTGTTTTCACACCATCGACCGAC
ATCGACTCATACCAATCTTTAAGGAAGAGATCGACGATCCCAAGTTCTTTTACTCCATTCAGAAA
GTCTTTTCCGCCGGACGACTCGTAGGAGGTGAGAAGGGAAAAGACTCCGTCCCACACAGTGTACT
ACTATCGGCCCTACCGGGCAACATCTACTTACACAAGCTCGATCAGGAGATAGGAAGGATCCGAC
AGAAGTACGAAATTCCTATTGTTCAGAGAATCAGATCGGTTCTAT
Right flanking sequence: Indices 103530 -- 104029
ACCAAGAAAACTCTGGAGAAGAAGAAAGCTTCAACGCTCCCCAAGACAACAGAGCCATCATTGTG
GATAGGGTAAAAAGCATCCAACGCAAAGCGGCCTTTCATTCCCTTGTTTCGTCGTGGCACAACCC
CCCCGCAAGCACCCCCCGGCTCAGGGGGGACCAGACCTCTCCTTTCGTTTTGCCCCCTTCGTCGG
CCCTTGCCGCCTTCCTTAACAAGCCCTCGAGCCTCCTTTTCGCTGCCTTACTCATAGAAGCCCCC
GGGTTGACCCCGAAGGCCGAATTCTATGGTAGAGAATGCTTTCATAATAATTGGGCCATGAGAGA
CCTTTTTAAGTATTGCAAAAGAAAGGGCCTGCTGATAGAGCTGGGCGAGGCAGGGATACTCGTTC
TCAGGTCAGATAAAGGCCTGGCCCGTAAGCTGGCCCCCTTAAAAACCCATTACTTAATAAGGATT
TGTTACGCGCGATATGCCGACGACTTACTATTTGGAATCGTGGGT
Found at i:106330 original size:6 final size:6
Alignment explanation
Indices: 106319--106360 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
106309 ATACCTATAT
106319 CTGGTA CTGGTA CTGGTA CTGGTA CTGGTA CTGGTA CTGGTA
1 CTGGTA CTGGTA CTGGTA CTGGTA CTGGTA CTGGTA CTGGTA
106361 ATAGGCTGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.33
Consensus pattern (6 bp):
CTGGTA
Left flanking sequence: Indices 105819 -- 106318
ATGCGCGTCCGGAACGATATTAAAAAGATCATCTTATAAGAATGAATATATATAACATAAGGAAG
AGGGGCGAAGCTACTCGCATAAGAATGAGAAGCGGGGGGAGAGGATTCATTTTACTTTCTCTTTT
TGGACTCGTTCCAGCTAGAATAGAAAAGGTACTCTTCCATAAGGAAGAAGAGGCCATGGTCAAAG
CATTAACTGAAAGATTAACCTGGCCATGGGAAGGGGAGAGGTGAGGCGGGCCCCTTCGAGAATTC
GAGAAGGAGATAAAGTGGCATAATTTCATTTTGTTGCAGTGAGGGTGAAGATACTACGGTAGATT
AGAACTTTTTCGTGGTATGAGGCAAAACCAAAGCTAGAAGTGGTTTATCCAGGCTGGTTGAACCC
CCGAAAGAAGCACCAATCGCTATCATGGTTGGAGCATAGATAGCAAAGGTATGGGTAGAGGTCAA
ATGCACACATCTACCAGGTAGGTAAAAAGAATTCCATACCTATAT
Right flanking sequence: Indices 106361 -- 106860
ATAGGCTGAACATTACTTCAGTCTAAAACGAACTCAGAGGCCGGGTCAACAATCTAATAGGTTGC
ATTCCCCCGTTCGAGAGTAAGAATCCTAGCCAGGCGAAGATCCACTGGATAGTGGGCGGAGTGGA
AGCAGAGCCGGAAAAGGCAGCAATTCCAGAGACGGTTGACCGAGCGGAGGAATAGAGAGATTGAA
TCAGCTTCAGGCTGAAGAGGAAAATAAGCGTCTGCCGACGGTAATAGCTTTTAAATAAAAGGTCA
AAGCCTTCTCAGTCGAGCCTCTTCCAGGCCCCTTTTTCAGTTAGCGAATGCTGCTTTGGGCGTGG
GATGACCTAACATAAAAGCAGGAGCATCGATCGCTTCTCGGGAATGAGCCATTTGAATTATTATT
TTTCAACGCGGATCCGGGTCGATACGCATATTCCCTGCTTCTGGGGACATAAATCCAAAACAAAG
GATTCGAAGATCCTACCTTTTTCCCACGATGCAATTTAGTAGCTG
Found at i:115742 original size:14 final size:14
Alignment explanation
Indices: 115723--115751 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
115713 TTGGACTATA
115723 TCCTACCTAAACAG
1 TCCTACCTAAACAG
115737 TCCTACCTAAACAG
1 TCCTACCTAAACAG
115751 T
1 T
115752 AAGCCTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.34, G:0.07, T:0.24
Consensus pattern (14 bp):
TCCTACCTAAACAG
Left flanking sequence: Indices 115223 -- 115722
CTGAATCAATCAAGAAGCTTATTGAGAAACTAAGACTATTAGCTTAGCTAGCGTTCCGGGGGAAT
CTAGTCATTTAGTCAGTTCATAACAATCTCTGTAAAGCAAGGGGCAAAGCTTCGTAGACAGCTTC
CCTCTCATGTAGTCGCTTAGTTTCTCAATAAGCTTCTTCCCCAGCCCCCCTTCGTCGCTTCTGGC
GAAGCTGCGAGCCTACCTTTCTCGAGCCTACTTAAATAGCTTACGCTTACTAAGCCTAGTCTACT
AAAAAAGGGCTACAGCAAGCAAGCTTTCCCCCTTCCTTTGTTGTGGGTCGCGCCTTGCCTTACCG
CAGGCACTGAATGAAATGACTGGAGATCTTCCTTCCTCCTTGCTAATTACCAAGAACTTCGTTGC
CACTAGTGGCGAAGAAAAATTCGACCATCTTACCCAAAAACTACTCGGAGCCAAAATAAAGTTAA
GTCTACAAGAAGCTGGCAGAGCTTTAGCCATGCCATTGGACTATA
Right flanking sequence: Indices 115752 -- 116251
AAGCCTTTTCTTGTTCGTTCTTCGAATGACGCTAGTGGAGACTCATTCCTTCCGGCTAATGAAGA
TACTACTTCAGTCTGCCCATTCATTCCCAGTGGATCCTTCTTCTCCCTAAGAATTGAACGAACCA
AGTTCACCTATACGATAGTGAGGAATAAAAACCAACAAAAAACTCCCCACTTTTGATGTCCCACG
ATTCTGCTAGTTTAGAAACGAAGGAGAAGGACGGGGGTCGCTAGGTCAGAAAAGCGATAACTAGA
AATTCTCCCCAAGTAGGATTTGAACCTACGACCAGTCAGTTAACAGCCGACCGCTCTACCACTGA
GCTACTGAGGAACACTATTGGGGTGTGGCTTAAGGAAGCCAATTCTCGTTCTTTGGACTAACCTA
TGACCGAAATGGGTTCGTCACTTTTTTCACATACACCGGGGAAAAGGTTACGATAGCAAGCGCCT
CCCCGGCCGGAGAGACTCCAGGACAAGGGGGCGGCAGTCAACCAT
Found at i:127923 original size:5 final size:5
Alignment explanation
Indices: 127913--127938 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
127903 CGTCTTCTAT
127913 TGCTA TGCTA TGCTA TGCTA TGCTA T
1 TGCTA TGCTA TGCTA TGCTA TGCTA T
127939 AAGGGCTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TGCTA
Left flanking sequence: Indices 127413 -- 127912
ATTTTTTTTTTTTTTTAATATATAATATAAAGAGTATAGAGGAGAATGCCGCTGCTGATAAATGA
AAAGAGTTCTCTTTCCAAAGAAAGACATAGGTTATAGCTGATTAGATCCAAAAACTTAAAAACCT
CGTCGCATAACCAACTACGAGTGCCACATAACATAAGATCATAGTAGGCATCCTTGAGAAAGACG
TGCTGAAGAGCGTCATCCTCATCCCCAATCCTTTTCGCCAAGTTTAGGCCGAACAAGGTCAGGCA
TGGCCCATTCGGGGGGTAATTGCTTACCGGCTCCCCCAAGCAACTTAGTGTATTCATCACAAAGT
TTTAAAAATAATGGGCCAAAGTCCGGTGGCGCACTTTGCGCGTCGGACCCTGTTGAAGAAAGAGA
AAGAGTCGAAGAGTTACTTTTTGAAGAAGGGAACGAAAAAGGATTACTATGCAGAAATCGTAAAT
CACCGGGCGGGGGAAAAAGAAGGCTATAAGTAGGCCGTCTTCTAT
Right flanking sequence: Indices 127939 -- 128438
AAGGGCTGCTTGCTCGCCTTTATACGGCTTGGCTTCGCGATCGCTCCTATTCCTATATAGTGGTC
AGCCTAAAAAGGAGTCTTCCTACCATACCAGAATGCCCATTATCTAGTGCAGGAAGCTTCGCCAG
AAGCAAGCAAGACGAGGTCGCTCTGCTTTGTAGACAAGACTCGTTCCGTACTTGTTGACTTACGA
GCTCGTGTAGTACTCGCCTCTATCTCTAAAGGGGCTTATGCACTCTACTTGCTTTCTACTAAAGG
AGCGTTAGAGCGAGCGAGCGAAGCCTTCTTACTGGCTTCTCTTCTTTTTCCTCACCCTATTCTTT
CATTTCCGCTTAAGCTTCTCCGGTTTGGGGGATTAATTGAGTAGATACCCGAGAACCATAATCTT
TCCTAGAAACAGCTTCTACGACGATAGGCATAAAAGCATGATTAGTTCCACAAATTTCACTGCAC
TGACCATAGTAAACTCCTTCTCGTTGTACCAAAATAGAGGTCTGA
Found at i:137532 original size:36 final size:36
Alignment explanation
Indices: 137491--137567 Score: 145
Period size: 36 Copynumber: 2.1 Consensus size: 36
137481 TGAATTTCGT
137491 TAAGACATTTTCTACATTCATTCTTATCCTATGGTA
1 TAAGACATTTTCTACATTCATTCTTATCCTATGGTA
*
137527 TAAGACATTTTCTACGTTCATTCTTATCCTATGGTA
1 TAAGACATTTTCTACATTCATTCTTATCCTATGGTA
137563 TAAGA
1 TAAGA
137568 ACTTACTTCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.29, C:0.18, G:0.10, T:0.43
Consensus pattern (36 bp):
TAAGACATTTTCTACATTCATTCTTATCCTATGGTA
Left flanking sequence: Indices 136991 -- 137490
AATATTTTAAATTTATATAAACAACGTCTCTATGGTGCATTAAGAAGGTTTATATTAGACTTATC
TTTTAAGAAGGGAATTTCCTTCTAAGAGTCTTGGTTCCAGTTAATTCTATATATATATGTGGACT
GTCTCGAAGTTCTTATCTTTAGTACTTGCTTTCATTCTTATCTTTCAATCTTTCTTCGTCAGTCT
TAGCTCAGGATGTGGAATACACGGACAAAAGGAAAGGTCAAGCCATACTCCTACTAAGGCTCCTT
GTGGGGTTACAGTAGAATAGAATAATTTAAGTTAAATATAAGAATATTAGTTAAATATTAGAATT
ACACTATATTATCTTTCTTTTAATAAAGGTAGCCATGTGTTAAAGCAAAGAGTAGTACTATCCGT
ACTCATTCTGTTCTTTAAGTAGTGGTAGTCATTCTTCTCTTTCTATATTCTATATATTATCTGAG
AAATCCCATACTTTCTTTCATTCTTCTTTCTTAAATGAATTTCGT
Right flanking sequence: Indices 137568 -- 138067
ACTTACTTCAGTACTCTCATAAATTCGAATTCCTACGTTATACTCATAAATGCTTCTTACTCCTG
TATTCTTTCTTTTCTTTTTCTATTTGTAAATGTGTACTTGCATCTATCTTATTTAAATCATCTTT
CTTCTGAATATTCTTTCAGTTGTATTAGAATTCATTCTTTTATATCTTTATCTAAGTCAAACCTT
TCCTCATGGTTGTGGTCACGAGAAGGTTGGAACCTATCCTATTACATATAATGTGAATCTTCTTT
CTTAAAGGACATATTAGTCTTTAATTCTATATATTTGAATTCTTTTTCTTATTTATCATGAAAGA
AGGCGAAATAGATTATTTGTGTTAAAATAAGACAGTTAACAAAAACTTGTATAAAGTGTGTCATT
TTCTTTAATTCTACATTTAAATTTAACATAAAAAATCAGCATTTTATTTCAAAATCTTTTTAGGA
TTTTGTCCGCCTAAGCTTACCCATTTCTGGTTCTATAGTTATTGA
Found at i:138789 original size:14 final size:14
Alignment explanation
Indices: 138770--138804 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
138760 CGGGGATCCT
138770 GTTTCGCTAAAGCG
1 GTTTCGCTAAAGCG
*
138784 GTTTCGCTAAAGCT
1 GTTTCGCTAAAGCG
138798 GTTTCGC
1 GTTTCGC
138805 CACTCGTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.23, G:0.26, T:0.34
Consensus pattern (14 bp):
GTTTCGCTAAAGCG
Left flanking sequence: Indices 138270 -- 138769
ACAACGAGAAAGAGAGATGTTACCCTTTATCCTATCATACTTGCTTGTTCTAGGACTTTAGACTA
TCATACTTGCTTGTTCTAGAATCGGAACGGAATAGGAGGTGTATTTCACCCACCATAGGAAAAGT
CTCGTTTGGTCAGTACTATTAGAAAAGAGAGAATGAATGTAATGAAATCAATAGTTCCGGTACCG
ATAGTAAGAGCTTAGGGTGGTTCCCTCTTTCGATTTCGTGGAAATAAATGGCTTACTACTCTCAT
AGCTCATAGCATAGGAAGATTAATATGGGCTAGGGCTAGGTCTTTGGAGTGAGGTCATTCCCAGG
AAGAGGGTTTTCATTGCCGGATGGATGAACAAACACTATCTCAGTTTCATGGTAAACGTTGTCAG
GTAGTTTAAGCGAAACGTAAGTAAGGTCTAGACATGTTGAGTCGGAGTACCCTGTATTAGAATTA
AATTAGAAGTAGCTTCCTTGCTAGATGGCTTGGATCGGGGATCCT
Right flanking sequence: Indices 138805 -- 139304
CACTCGTTCTAATAAGATAAGGTAAATTCATCTTGGAAAGAGCAGGGCAGAGCAACAGGAAGATC
TTTTGTCCCTTGCGTGCTGGGATTCATTCCTACCTAAGTGTTCCAGCGCAGCATTAGTCTGAATT
GATTCACGATCTTTCTTCACTCCCTAAACTACTTGAAAAGAGCAAGCCTATGTATATGCATGATT
CTCTTTAGCCAGAACTCAATTTACACCTTTCAGAATGGAAAAGCCCCCTCTACTAATAAGCCGGT
GTTAAAGGTGCTTTTCCCTGAGTAAGGTTTCCACCATCAAAGAGCGCCCCTATACGAAAAGTCTT
CCTTTGGTTTGGACTTCGATTGGTAGTTTCACATTAATAAAGAGAGGCTTTAACCTTTACTGAGG
AAGGAGAAGAACGAAGTCAGTCGCCCTTCAAGCAAGTGCCTTAAGACAAGTTGAGTTAAGTTCAC
GCTAAGTTCGAGCTAAGTTAAATGTGGACGACTCAGTCTTAGTTG
Found at i:147428 original size:15 final size:15
Alignment explanation
Indices: 147408--147436 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
147398 TTCACTTAGG
147408 CCTTTACTTAACTTT
1 CCTTTACTTAACTTT
147423 CCTTTACTTAACTT
1 CCTTTACTTAACTT
147437 AACTTAACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.28, G:0.00, T:0.52
Consensus pattern (15 bp):
CCTTTACTTAACTTT
Left flanking sequence: Indices 146908 -- 147407
TGAAATTGAAATTGGCTTTATTGAGGCATATGTTGTGTGCCCACCTACAATTACTAGGCCTTTCT
TTCTATACGGTAAGATAAAAAGAAAGACAATACATTACTATTCCCAACTGGTCAATTTTTAAGTG
TGTACTATAGCGAAGAGCTAAAATATGCAATAGACTTGGGATACGATATTATACCCATAAGCGGA
TACTTGTTTGAGAAGAAATCCACTAGTCCTTTCATAAACTTTGTGTCATCCCTCTTCGCAAGCAG
ACAAGAAGCAAAGAAAAGTGGTGACGAAGCATTGTCATACGTATACAAGACACTTATGAACTCGC
TCTACGGTAGATTTGGTATAAACCCCAAATGTACTACAACAGAGGTCTGCAATAGAGATAGATAT
GACTATTTTACAGAATGCAAAGGTGAACTATGCTAACAAACTAAGCGATATTTACTATATCGTAA
ATTGGCGCCTTGAAGCATGGAAAGACTGAAAGAAATTCACTTAGG
Right flanking sequence: Indices 147437 -- 147936
AACTTAACTTTAAAGGCTGTCTTCCGGTTAGGCGGTTCGCTTGCTTTAAAGGAAGGGGTTCTTCG
AAGAAAGGTTCGGGTGGGCCAGCCCTTCCCCCCTTTCCTCTTTTCCGGGGCTATGGTGGTAATAC
TCAAATTGAGTACAGAAAGCCGGAAATACCCTATACTTGTACAGGGCGTCAGACTATAGGCTCTC
CAGGTAATCAATCTATGCTAAACCTCCCTGGTAAGGGAGAAGTCGCATGCATATAGGCTATCGGA
TATGAGCTGTCCCGTATGCGCTGCAGTCACTACTTTGACTCCTTTTATACAATTATGAACTTTAC
GTAACTTTCTCAATTCCAACGCAATTTCTCCTTTTGGAGTTGACGTAACAAACTACGCGAGCCCC
CCAACGAAGCCAACAGAAATCCTATCCGAATAAAAAAAATAAAAGGCAGTTTCATTATAGTAGTA
TACCAGCCGCCTGTTCTTGAACTTCCAGTTCCAATCGAAGCATAT
Found at i:153361 original size:9 final size:9
Alignment explanation
Indices: 153335--153364 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
153325 ACATAATACA
*
153335 TAACATAAA
1 TAACATAAG
153344 TAACATAAG
1 TAACATAAG
153353 TAACATAAG
1 TAACATAAG
153362 TAA
1 TAA
153365 GGCTTTTCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.60, C:0.10, G:0.07, T:0.23
Consensus pattern (9 bp):
TAACATAAG
Left flanking sequence: Indices 152835 -- 153334
CCCTTCATAATGCACAGCACAGATTGAAAGGTTGATTTGAACTTTTTGCATCGGACGAGTTAGGT
CTCAGAGGAAAACCAGCAGGAAATCTCCTATTTAGGCTTGGGGCTGGACCAGAGGAAGAAGAAGT
TGAAGCTTTAGCCACAGCCACAAAAGAAGGAGTTTCAGCTACTCGAACGCATGTGAAGAGAGATA
GTTTTTCATATTCTAATTAGACAGCTCGAAACAAAAGTTCGGCTAGTGAGTTTAAATCCCATTGT
GCGGTGCGGTTAAAATACCCTTGGTTGGCTCGAAATAGCCTTGTCCATGTCCATTGCTTGGTTTA
AGACCCTGTCCGAGATACGGCTATTGCATTTTAATGCTAAAACCAGGCTGCACTAAGACGCAAAA
CGAGACTACGGCACGTACTAAGAAACCTCAAATGCGGTTTAACCTCTTAAACCGCATGCGCATGT
TAGTCTTAAGCTTCATCTCCCGCGGGACCCCTGATACATAATACA
Right flanking sequence: Indices 153365 -- 153864
GGCTTTTCCTTTCCGAAAACTCTAACAGCACATCTCTTATTGGACTTCTTTGCAATTGCATCCCT
TCTCATGCTGCTCATAAAGACGCTCCTCAAGCAACGAGCATAGGATCGATCTTTACTGGCGAGCT
TTACTGGAATAACATACTAAGGCGTATTTAAATGAAATAAATTTCATCAGACAAGCCTTTTTCCC
ATATTAATATGATTTAGATCGAGCGACTCTTCTTCGGCTGCTAGATCAGTAGGATTGAAAGTGCT
TGCTTATGGGCAGCTTACGGGACCAATTTCATAGACAAGGCGGGTTCATAGACAAGAGCTACGTC
TCGACAAAGCATTGAACCTAAGAACCCTCCCCTGGAGTCTGGAGTGGAGTATAGGCAAAGCGCTT
TCTCTTTAGCTTTAGAGTAGAGTTAGAGTAAAGTATGAAATTGCTTACTTGCTTGATAGAGTCTG
GTCTGGTAGAACTCTTGCTGAAGCCAATTCTGTTAATGGTAATGG
Found at i:155972 original size:12 final size:12
Alignment explanation
Indices: 155955--155993 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 12
155945 ATAAGGAGGG
155955 TAAACTACAAAA
1 TAAACTACAAAA
155967 TAAACTGATGCAAAA
1 TAAACT-A--CAAAA
155982 TAAACTACAAAA
1 TAAACTACAAAA
155994 GGAGCATTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 11 0.46
13 1 0.04
14 1 0.04
15 11 0.46
ACGTcount: A:0.62, C:0.15, G:0.05, T:0.18
Consensus pattern (12 bp):
TAAACTACAAAA
Left flanking sequence: Indices 155455 -- 155954
CAGGGCCCAGCAAGCAGCATAATGTTGTTCCGGAATGGTCCTTCATTCCAGCAACAGTAGTATAT
GCTGGGAAGCGCCTTGTTCCATCCGGCGAGAATCCCCTCCATCACTAAGGCGCGCCCCTATAGAG
TAAGCCTTTCGACCCTAACTTTATATTTTATAAGGTGCTGTTTCCCTGTAAAAGGAGAATTGGAA
ACAAAGAAAAATCTTTCTCGGAAAAGAGCCCAAGCAAGGAAACCAGATCCTGCTACTTCAACCAC
AGCTTATAAAGAGAATGCATCAAACCCCTCGCAATCAAATGCATTTCTTGCTGATGTGTCAGCTG
GTTCGCATACATATAAATAACAAAAGAATCATTTCCAGTGGAAGAGGTCCGTAGCTGTAGAAGTA
GCTGTCCCTGTTCCTGAACTCATAAAAGGTGCTGCCTTAGAAGCCACAATTGCGATGGACAAAGT
AATTTGGGAAAAAGCAAGCTATTCTACCTAATATAATAAGGAGGG
Right flanking sequence: Indices 155994 -- 156493
GGAGCATTTGAAAATACGAATTTAGTATTAACTTATGAAAAAGCTCGAAACAAAGATGTTCAAAA
TGCATTCTTTTATTGAATTGAAAGAAAAGACGATACATAACATAAGACTTAAGCACAACCATCTG
AAGGGGCTGCATAATGCATTGAAGTTGGAGTTCCTTCTTTTCAAGAAGCCCATCAAGTCTGGTAG
AAAGAATCTCACGGTCACGCCTTGGACCTGGGTTCTGTTCCTCCCTCTGTTCTGGTTTCAAAGGC
TACAGGCTCAGTTTCACTTTCAAATGCCTTCTTTGCCTTAGCTTTAAAAGACAAAGCATTCTTTG
GCCTCGGGGCGGGAGAAGACGTCACACTAGGTTGAAAGGCTTGGTTGGGCTATCTAAATAAGAAA
AAGGGGCAAGAAAGAGACATCCAGAACAGGAACTCGACTTCTTGCTTGAGCTTCAGCTGAAATTG
CTGCGTCTGCCTTTAGATTTTCTAGGGCTGGAATTAATTAAAATT
Found at i:167431 original size:39 final size:39
Alignment explanation
Indices: 167377--167452 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
167367 TTTTCTATTC
*
167377 ACTCATGATCTGGCCTGGTCGACCCGATCATGATATTTT
1 ACTCATGATCTGGCCTGGTCGACCCAATCATGATATTTT
*
167416 ACTCATGATCTGGCCTGGTTGACCCAATCATGATATT
1 ACTCATGATCTGGCCTGGTCGACCCAATCATGATATT
167453 GAAGGATAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (39 bp):
ACTCATGATCTGGCCTGGTCGACCCAATCATGATATTTT
Left flanking sequence: Indices 166877 -- 167376
CACCTGTGTAGAGTAGATCGTTCAACACCTGCGGCACAAAGCCATTTTTTACCTATTGGTCCTAG
TATCATAGGCGACCGAACGGCCGCCCCCTAAAATTACTAGACCAACCTGCTATAATAATTCCATA
AACACCTAGCGAAGATATGGCAAACAAATAAAGTAGCCCTATGTTCGGATCTGACAATACCATAC
CATAATCAAAAGGTACAACGGCCCGAGCAACCAGACTTAGCATAAATGTAGTGACTGGAGCCATT
CTAAAAAGGGAGAAATTAGCACTACTTGGTGAAATAGGTTCTTTTAGAATCAATTTTGAACCATC
TGCTAGAGGTTGTAACAATCCGAACGATCCCACTACATCAGGACCCTTTCGACGTTGCACAAAAG
CCATTACTTTACGTTCAGCTAGCACTAAAAAGGCTACTCCTAGTAGAAGTGGTAGAATTATTCCA
AGTATTTCCGCTGGAACAGCTATGTACGTTTTCGATTTTCTATTC
Right flanking sequence: Indices 167453 -- 167952
GAAGGATAGGACCTTTTCTCGAAAAACTCCGGATCTCGAGAAAAGTGGAAGATGGTGCAAGATCG
CATCTCTTCAATCGAAGCTTCCGGCTTTCTTCCTTTTCGCGAGTTTTCGCTAGGAATCATCATGT
CGATTGCTTTCGTTGGATAAATCAGTGACGTGGTTACCTCCGGTAACCTCGGCTTTCAAAAATGC
GTTTTGGATTCGTGGGATAGAAAGTCTTTTCCATTTGAGTTCTTCACACTTTTCCTTTTCTTTAA
ATCGAAATTCTTCGCTACTTCGTGCCTCTACTTCAATGAAAGCTAGCTCCTACTCCTTTTCCTCC
TGAATCCCCGTTGGTCTTTCGTTCGTAGTGCGAATTCTATAGTGAGAAAGCTCACCCCTGCCTTT
AGACGAGAAGCCCTCTTTTACATCCTCTAGACAAATCCATAGAAAATGCTACAACCCATTGTTGT
TCTTTTGACGATGAAGCACTCCAGTACAACAGGCTAAAGTAACCT
Found at i:179865 original size:10 final size:10
Alignment explanation
Indices: 179850--179879 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
179840 TCTCATTCTG
179850 TCATGTCATA
1 TCATGTCATA
179860 TCATGTCATA
1 TCATGTCATA
179870 TCATGTCATA
1 TCATGTCATA
179880 AAAGGCAGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (10 bp):
TCATGTCATA
Left flanking sequence: Indices 179350 -- 179849
TGCTGTCCGAGAGATGAATCGTAACAAACGGCAGGGGGAGCGAGTGAAGTATTAGAATTTTCCAG
CTGTTAACGGAGCGATACGACTTGACCGGGCCGAAGATTGGCACACAGGTTTGGGTTTTGTTTCG
TCCAGTGAATGCTATACTGTAGTAGTAAATCTCTTTTCTCCTATTGACTAGCATTCCCGGTATAC
CAGGATGCAGCTAAGGATGGGCTCCTGCAAACGCGACTGGCGGAGAGATCCATTACTTGATCGAA
TGTAACAAACGGAACGGGAGGTAATGGCGTGCTGTTGGCAAGACGACTGGCAGAGAACGAACAAG
TGAGACGAGTCTCTGGTTTCATAGTATGCCAAGAGTGAGGCTACGCCTTTGATATTTTTTTCTTT
ATTTAACTTAAAGGGGTTGGCTTGAAATCCCCTTCCTCTTCTTAAAAAGGGGAGTTCTCAACTCC
TCGAAGAGATGCCACAGGGTTGGTTGGCTGCTTAATCTCATTCTG
Right flanking sequence: Indices 179880 -- 180379
AAAGGCAGGCAGGCATATTCAGTCAATCACTTCTCTAAGGAAGGACATTTCTTGGCTCAACCGAG
AGCCCGGGCTTCAAGGTCAGGAGTCCTCTCTCGCCAGTCGGGCCAAGCAAGCCAGTTACGTAAAA
GGATGTCCATCTTTCGACTAAGGTAAGGTACTGCTCTCAACCCACCCATCTGCTTTTGTCGGTCA
TTTGCCTAGATCTGCGCTTAAGGATCGTCAGAGGCTCGCTATAGAACAAGTAGGGAGGGAGCGGG
GCGTAAGGTTCTCGACTAAGAGAAGGGGCCGCTTTCCCCTTTTTAATGAAAGAATGTTCTCATTA
GTTGTGTTTATCCCGAAAAGCATGTCTTTGCGAAGCAAATCAAAGGAGGTAGATGTTCTAATTGA
AGATTCCTATCCCTATCCTGAGCGAAGGGAAAACCACTAAAGAGCTTTTTCCCTCTTTCCAGCGA
GGAGATGACCCCTCTTAATGAGTTAATGAGTTAATTAGAAAGGGC
Found at i:182545 original size:19 final size:19
Alignment explanation
Indices: 182518--182554 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
182508 AGTAAATGCC
182518 ATATCAATATAAGTCATTA
1 ATATCAATATAAGTCATTA
*
182537 ATATTAATATAAGTCATT
1 ATATCAATATAAGTCATT
182555 GTCGGTTCGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (19 bp):
ATATCAATATAAGTCATTA
Left flanking sequence: Indices 182018 -- 182517
AGACCCGTTTTCAAGGGGCTAAAATGATGTTTTCTGTGTGCACTGCTTTTTCCCTATTCTATGGC
TTGATAGCAAGACTTTTCTTAGAGAATGCGCTTTCCTAACATAAGAATTAAGATTAAGACTTAAT
GATCAGAATGTGCTTGGCTTTAAAGAAGGGGATTGCGTCTGGACTACGCGGCTAGCAAACCTGTC
TCTGCCTCCGCCCGAGCACGTGGATTGTATTCGTCAAACCAGTAATAAGAATGCCTTTTAGAGAG
CAGTACTCTAAGATCAGAATGCGACTAAGGAACGAACGGCTGTCCGGTGAATGATTGCCCGAGCA
GACCAACAATATCGCGCGAGTGACATCAATCTCGTAATTGAGAGATACGATTCCAATAAATAATA
ATATATAAATATAATGATGAAACACAATCTTTGATTTTGATCAATGCTCTGAAGTGCGCCTGGGA
ATCTCAATTGTAAGGTAAGCTTGTTGCTTTAATCAAGTAAATGCC
Right flanking sequence: Indices 182555 -- 183054
GTCGGTTCGCACGCAAGGAAAGAGCAGAGGCCTTCGTCGGTTGATTCGCAAGTCAAGCTCGTCAG
TCAAGCTCGTCAGTCAAAGAAGCATTGGAAGGAAGAAGAACAAGAAGAAGCCTTTGCCGGTGCTG
TTGGGGTCGTTAGCAGGTTCATGTTTAATCCTGGAAAGGAGCATTGGGCTGCAGTGAAATGGATT
CTCAAGTATCTTAGAGGTACGTCTAGAGTATGTTTGTGTTTTGGCCCGGGACTCTTTGAGTCTTA
AGTGGGGTTGGTTGGGTACACAGATGCTGATATGTCAGGGGATGTTGACTCTAGCAAATCTACCT
CGGGCTACTTGATGACATTTGCAGGAGGAGCTGTTTCATGGAGTTGCAAAAGTGCGTTGCATTGT
CAACCAAGAGTATCTAGCAGCCGTTGAGGCAGGTAAGGAGTTAGTGTGGATGAGAGATTTTCTTG
AAGAGTTGGGTTTGAGCCAAGAAAAAGACATCCTACACTGTGATA
Found at i:182623 original size:13 final size:13
Alignment explanation
Indices: 182605--182636 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
182595 TTGATTCGCA
182605 AGTCAAGCTCGTC
1 AGTCAAGCTCGTC
182618 AGTCAAGCTCGTC
1 AGTCAAGCTCGTC
182631 AGTCAA
1 AGTCAA
182637 AGAAGCATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (13 bp):
AGTCAAGCTCGTC
Left flanking sequence: Indices 182105 -- 182604
AGAATGCGCTTTCCTAACATAAGAATTAAGATTAAGACTTAATGATCAGAATGTGCTTGGCTTTA
AAGAAGGGGATTGCGTCTGGACTACGCGGCTAGCAAACCTGTCTCTGCCTCCGCCCGAGCACGTG
GATTGTATTCGTCAAACCAGTAATAAGAATGCCTTTTAGAGAGCAGTACTCTAAGATCAGAATGC
GACTAAGGAACGAACGGCTGTCCGGTGAATGATTGCCCGAGCAGACCAACAATATCGCGCGAGTG
ACATCAATCTCGTAATTGAGAGATACGATTCCAATAAATAATAATATATAAATATAATGATGAAA
CACAATCTTTGATTTTGATCAATGCTCTGAAGTGCGCCTGGGAATCTCAATTGTAAGGTAAGCTT
GTTGCTTTAATCAAGTAAATGCCATATCAATATAAGTCATTAATATTAATATAAGTCATTGTCGG
TTCGCACGCAAGGAAAGAGCAGAGGCCTTCGTCGGTTGATTCGCA
Right flanking sequence: Indices 182637 -- 183136
AGAAGCATTGGAAGGAAGAAGAACAAGAAGAAGCCTTTGCCGGTGCTGTTGGGGTCGTTAGCAGG
TTCATGTTTAATCCTGGAAAGGAGCATTGGGCTGCAGTGAAATGGATTCTCAAGTATCTTAGAGG
TACGTCTAGAGTATGTTTGTGTTTTGGCCCGGGACTCTTTGAGTCTTAAGTGGGGTTGGTTGGGT
ACACAGATGCTGATATGTCAGGGGATGTTGACTCTAGCAAATCTACCTCGGGCTACTTGATGACA
TTTGCAGGAGGAGCTGTTTCATGGAGTTGCAAAAGTGCGTTGCATTGTCAACCAAGAGTATCTAG
CAGCCGTTGAGGCAGGTAAGGAGTTAGTGTGGATGAGAGATTTTCTTGAAGAGTTGGGTTTGAGC
CAAGAAAAAGACATCCTACACTGTGATAGTCAGAGTGCTATTCATCTTGCCAAGAATGCTACCTA
CCATTCTCGAACCAAACACATCCGGAGGAGATATCATTGGATTCG
Found at i:184944 original size:11 final size:11
Alignment explanation
Indices: 184928--184965 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
184918 ATGAACAATA
184928 TATTATATAAT
1 TATTATATAAT
184939 TATTATATAAT
1 TATTATATAAT
*
184950 T-TTTTATATAT
1 TATTATATA-AT
184961 TATTA
1 TATTA
184966 ACAATTGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
10 6 0.26
11 15 0.65
12 2 0.09
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TATTATATAAT
Left flanking sequence: Indices 184428 -- 184927
GCTTATGAATTGTGGCATAAGTTAGAAGCAATGTATGAGAGGAAGAATGCTTTGAATAAGGCGTC
ACTGATGAGAAAGCTTGTTAAGTTGGAGCTTAAGGATGGTGATAGCATTGTTGTGCATATGAATG
CTTTTCAGGGTTTGGTAAACCAACTAGCAGCTGCAAAGATGTCTTTAGATGATGAGTTGCAGGCT
TTGTTGTTACTTTGTTCACTACCTGAGAGTTGGGATACACTTGTGGTGTCACTTAGTAACTCAGC
TCCAGAAGGTAAGGTGACTATGGAGATGGTGAAGGCTAGTCTCTTGAATGAAGAGAAGAGGGTAG
TAGGCTTAGTAGGGCTCGAACCTACAATATAACCGTTATGAGCGGTACGTTTCAACCAATTAAAC
TATAAGCCCTTACGGATCTTTACATGCAATTATCTCACTTCGGGAAGAGCGGACGGAAAGAGAAG
GCCCTTGCTCTATCTGCTTCTTCCGCTTCCCAGGAATGAACAATA
Right flanking sequence: Indices 184966 -- 185465
ACAATTGGAAAAAATTGAGTCAAAAAAATGAAGTAAGCGACTCAAACTGCCGGTACGCTTTCCGG
CTCACAACGACTTCGCCCGTTTGATGGTGTATTCCTCTAGTTTATGTGATGTATTGGAAGAGTAA
GGGACCAGCCACGCATCAGTCTTCCTCGCATTCCACACTATCTGTTCAGTTAGAACGTTATCGCA
CAGGAATATTCTTCTGTATCAATCCCTATTCCTCTCCTTGCCGGTCGAGTGTCTTTCGACCCTAA
TCCTAGTGTGAAATACTATCAGCTTTAAGAATAATGCAACATCAATTCATTAAGGATTCCAGTTT
TGTTGTTAGAACGAATCTGCTTAATATGTATGCTCAGCCCACGCATACCTGTGCTGTTAGAACCG
CGATCAGTAAGGAGGATGAGCGAAGCGGTGTCATGAGCCTAGTTGCTCTCCTTCGAATGCGTTAT
CGAGCAGTAAGGAAGCAGCAACGCCAACTCCTTATGAGTTCACGT
Found at i:188779 original size:14 final size:14
Alignment explanation
Indices: 188760--188788 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
188750 AGACAGTCTA
188760 GAACCACGGGGAAT
1 GAACCACGGGGAAT
188774 GAACCACGGGGAAT
1 GAACCACGGGGAAT
188788 G
1 G
188789 CTGCCGCAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.21, G:0.38, T:0.07
Consensus pattern (14 bp):
GAACCACGGGGAAT
Left flanking sequence: Indices 188260 -- 188759
ATCTAGGATTGCCGGTAATCCCTTCCCCCTTAATTAATCTGATTTTAGGATTGAAATTCAAGAAA
AGAGTGCCGTTTCGCGTGTTACGTTTGCCCGATCTTTGGCCTTGTTTGGCTCTAAAATCCCTGGC
TTTTGGCTCTTTCCAAAGTTCTAATCTAAATCCTATCTAAGCATAGGCTAATCCATCTCTTATAG
GTTAGGTGGGGATTTAAGATAAGAAATTTAATACCAATACTTAAGCGGAAGAATGCAGATCAGGT
GCAGTTTTCCCTTTCCCTGTTATTGTATGTATGATCAAGCTCAATTTCAACTTAGAAAGAAGTGG
CACGAAAGAAATTCCCTTCTAATTAGAAAGGCGATCGAAAGTAGCGAGCAGGAGTGTTAACGTTT
AGTTCCTTAGCTTAAAGCTTAAGCTTATAGCTTATATTATAAAAGTTAAATTTAAATAAAGAAGT
TAGCAGCAGGTGCAGGTAAAGGTACCTTTATTCTGAGACAGTCTA
Right flanking sequence: Indices 188789 -- 189288
CTGCCGCAGTTTACTAGCCAAAAGAAAAGTACGGGACGAAGCTACTCTAGTTACAATAGACTAAT
AGTAATAAGCCCCTGCTTGGCTTGGACCTTGGACAAGATCTTCAGCAGCGGGAGCATATGCCTTT
TGATTCCTCGGATGATTCCTCGAACGTGAGTCAGAGGAAGAACAGGAGGAAGCTGGGACTGGTGA
GGCGGGTGCATTACCATGAACAAAGGAACTTGACCACGAACAACGGAACAACGAAACTCCTAAGC
AGAAGTTTCATCGTCATCAGCAGCTGGATCATCAGCAGCTGGAGCAGCTGGAGTCTCATCATTAG
CATTAGCTGGAGAATCTAGAGCATAAGTGAGCATAAGTGAAACGAACGCCAATCAATACCAATAC
GGGGCGGGAAGCTCTTTTCTTGTCTTGGGTCCTACATTCATTGGTTGGCATTGGTCCTCTCGAGA
ACAACGAGACAAAAGTCATAACAAACGGCATAATATAAGTTACGC
Found at i:189082 original size:15 final size:15
Alignment explanation
Indices: 189062--189091 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
189052 AGTTTCATCG
189062 TCATCAGCAGCTGGA
1 TCATCAGCAGCTGGA
189077 TCATCAGCAGCTGGA
1 TCATCAGCAGCTGGA
189092 GCAGCTGGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (15 bp):
TCATCAGCAGCTGGA
Left flanking sequence: Indices 188562 -- 189061
AATTTCAACTTAGAAAGAAGTGGCACGAAAGAAATTCCCTTCTAATTAGAAAGGCGATCGAAAGT
AGCGAGCAGGAGTGTTAACGTTTAGTTCCTTAGCTTAAAGCTTAAGCTTATAGCTTATATTATAA
AAGTTAAATTTAAATAAAGAAGTTAGCAGCAGGTGCAGGTAAAGGTACCTTTATTCTGAGACAGT
CTAGAACCACGGGGAATGAACCACGGGGAATGCTGCCGCAGTTTACTAGCCAAAAGAAAAGTACG
GGACGAAGCTACTCTAGTTACAATAGACTAATAGTAATAAGCCCCTGCTTGGCTTGGACCTTGGA
CAAGATCTTCAGCAGCGGGAGCATATGCCTTTTGATTCCTCGGATGATTCCTCGAACGTGAGTCA
GAGGAAGAACAGGAGGAAGCTGGGACTGGTGAGGCGGGTGCATTACCATGAACAAAGGAACTTGA
CCACGAACAACGGAACAACGAAACTCCTAAGCAGAAGTTTCATCG
Right flanking sequence: Indices 189092 -- 189591
GCAGCTGGAGTCTCATCATTAGCATTAGCTGGAGAATCTAGAGCATAAGTGAGCATAAGTGAAAC
GAACGCCAATCAATACCAATACGGGGCGGGAAGCTCTTTTCTTGTCTTGGGTCCTACATTCATTG
GTTGGCATTGGTCCTCTCGAGAACAACGAGACAAAAGTCATAACAAACGGCATAATATAAGTTAC
GCGAAGAAAGTAGACGTTAAGTTAAAGTGTTAAAGTAATGGCAGTAATAGCATAGTAAAGTAGAC
GTCCAAGTAATGGGCATACATATATTTACAGATTACGGATTATAGAATAGAATACTACTTGAGTT
GAGGGAAGAATGCTTGGTCAGTACCTTCCCCTATTTATTGTGAGAATGAGACCCCTATTTATTGT
GTGTGAGAATGAGAACGGGAATGCTAATCCTATGGCTAGGCTTCGGTATTAGGACTGAGGTTGGG
GCGCAGGTTGCCTCCGTCCGAGGGAGCGAGCGGAGGGCTTTATAA
Found at i:192361 original size:18 final size:18
Alignment explanation
Indices: 192321--192363 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
192311 CAGAACCTAC
192321 CATAGTCGCGAGTCTGTTT
1 CATAGTCGCGAG-CTGTTT
192340 -ATAGTCGCGA-CTGTTGT
1 CATAGTCGCGAGCTGTT-T
192357 CATAGTC
1 CATAGTC
192364 AACAAGGGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.23
17 1 0.05
18 16 0.73
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.35
Consensus pattern (18 bp):
CATAGTCGCGAGCTGTTT
Left flanking sequence: Indices 191821 -- 192320
GGGGAAGGTTTTTGGTGACAACACCTGGAGATATCAGAAGTGAGAATGCTGACATGAGTAACGAG
AAATCCTGTGAAAAACACGATCGCCTGCCAGTGGAAGGCTTTCTGCGTTCAGTCAATCTACGCAG
AGTGAATCGGTCCCTAAGGAACCCCCGAAAGGGCTGCCGTCCGATGGGTACACGAAAGTGACGAA
GTTGCTTTGACTACAGAACCATGCCCTTGTGTATTGAAAGGTGGAGCGAATTGGATGATCGGGCC
GACTCTCGTCGCCTCTTCCCCTCACTCTCCTTTCCCCAATATGAACCTTGAGTCATCAAAGCCTT
TCTGACTTGGCCTGGCATGGCAAATAGGGCTAAATTCCGCCCTACCCTTATTATCTTTATATAAG
TAAAGCGCTTCAAAAGGCGAAACTCTCGTCGTAGTTTGGCGATCTGTGGAAAATATGCCTTTAGT
CGGCATGAAATGAAAATAGTAGAGGTTTCAGCAAGCAGAACCTAC
Right flanking sequence: Indices 192364 -- 192863
AACAAGGGCGTTTAGGCTTCCAGGAAAAAACTTCGAATTGGGAGGGCGATCCTCCCGGTGAACTG
ACCGTACCCCAAACCGACACAGGTGAACAAGTAGAGTATACTAGGGCGCTTGAGAGAACCATGTC
GAAGGAACTCGGCAAAATGACCCCGTAACTTCGGGAGAAGGGGTGCTCTCCTATCTTTTGATTAG
GAAAGCGGCACATACCAGGGGGTAGCGACTGTTTATTAAAAACACAGGACTCTGCTAAGTGGTAA
CACGATGTATAGAGTCTGACACCTGCCCGGTGCTGGAAGGTCGGAAGGAAAAGTGTTATAAGCTT
TGAATGGAAGCCCCAGTAAACGGCGGCAGTAACTCTAACTGTCCTAAGGTAGCGAAATTCCTTGT
CGCATAAGTAGCGACCTGCACGAATGGTGTAACGACTGCCCCGCTGTCTCCGACATGGACCCGGT
GAAATTGAATTCTCCGTGAAGATGCGGAGTACCAACGGCTAGACG
Found at i:198040 original size:19 final size:19
Alignment explanation
Indices: 198016--198058 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
198006 CTTCTTTCTT
198016 CGTCTGGGGGAAAAGAAAG
1 CGTCTGGGGGAAAAGAAAG
198035 CGTCTGGGGGAAAAGAAAG
1 CGTCTGGGGGAAAAGAAAG
198054 CGTCT
1 CGTCT
198059 ACCAGTTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.33, C:0.14, G:0.40, T:0.14
Consensus pattern (19 bp):
CGTCTGGGGGAAAAGAAAG
Left flanking sequence: Indices 197516 -- 198015
CATCCCAACCAGGGGTATGCTGGGATTTGCGAAGAGCAGCACCTTACGATGTTTATCACCAATTG
GATTTTGACGTACCAGTAGGTACCAGAGGAGATCGCTATGATCGTTACTGTATCCGTATCGAAGA
GATGCGACAAAGTGTTCGGATCATTGTGCAATGTCTTAATAAAATGCCTAGTGGCATGATCAAAG
CCGATGATCGTAAGCTATGTCCTCCATCACGATATCGAATGAAACTATCCATGGAATCGTGCGCC
GTGTGAAACGTAGATCATTGCCGTTCTTAACCGAGACTCAGGTTAAGCTCCGTCTCGGAACCTTT
TCTTTCATAATGGGGGTTAGGAGTAAAGCATCCCGAGGTTGGCGCATCTCGTTGGGCGTGGAGAA
GCATTGGGAACCTCAATTTCTCTCTTCGGAGCCCTTTCTTTTCTCGTCCCCCCGCCCCGGCATAG
CGCTTCGCCTCCGGTTCTTAGGAAGAATCTACTGACTTCTTTCTT
Right flanking sequence: Indices 198059 -- 198558
ACCAGTTGGAAAGCTAGACATCAAGTAAGTGGCTTGATGAGGATAACTAAGCTGACACGCCGGAG
TTGGCTGCTGGCACAACAGGGTGGTGCCTTACCGCACTTCAAAAGCAAGAAAACGGACGCGCGGT
AGCGTTCGTGGTGGTGCTTCAGGATTCCAATGTACTGCGTCCAAGATCAGAACGAGCTTGCCGGC
GGACCACTGCCGTCCCATTCTTGAGTGAGCTGGAGCGCAGCCATCTTATCCACTGAACTAGCTAG
AAGCTATCGCTTTGGGTCAAAGCACTAAAAGAAAAGGACCGGGAAACGCGGCGGCATAGGAACCA
CGGGACCCCTTCTAAAACAGGGAAAGGGAAAACATCTGTTTTTCTTTGTATAAGTTGGGTTGCTG
GATACGGGATCCTTATAGTAGGCTGGGCCAAGATCCAGCCGAGAGAGGGCAGTCTTTAGAAGCAA
CAGGCTGGGAAAGCAAGAGAAGGCTTTGTCTTTTCTTATCCTTTT
Found at i:199019 original size:19 final size:19
Alignment explanation
Indices: 198995--199031 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
198985 CAGTTTGGGA
198995 CGTGTATATATATAAATAC
1 CGTGTATATATATAAATAC
199014 CGTGTATATATATAAATA
1 CGTGTATATATATAAATA
199032 TATCTTTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (19 bp):
CGTGTATATATATAAATAC
Left flanking sequence: Indices 198495 -- 198994
GGGCAGTCTTTAGAAGCAACAGGCTGGGAAAGCAAGAGAAGGCTTTGTCTTTTCTTATCCTTTTC
GCGCTTTCGCGAGGAAGTAGGCGTAGGAGTAGCACAAAAAGAGGAACCGGAAAGGGTTATTGACC
CAATGATAAACCACTAGCACCTTCCTCGTTGAGGCTCCGTGCCCTGTTAAATTACAACGAAAGCG
CTCTAGCGACAGGACCCACTAGTTCCAAAGCTCAAATAAAGGTATCTACAGGGCTATCACAGTCA
GGTGCGAAGCAATTACCCCTAAAAAGGACCCTTCTTCCTATTATTTAGGGGGTTGAGGCGAGAAA
TGACTTGATGAAGCGTTCCGTTCGCCACCCTAGGATAATAAGCCCATTCGCTTGCTTCTCATAGA
AATTGTAAGTACACAGTGCCCCACAACTATTCATAGTATAGTGAGGTTAAAACACAAGAGTGCCC
GCCCTTTCTTTCAAGTAGGCCACTTTTCCAGAACGCAGTTTGGGA
Right flanking sequence: Indices 199032 -- 199531
TATCTTTGATGCTGTTATTTCAAAATGTCCGCTTCAACCGCGGTTTTACCTCCCAAACCAAAGAG
GAAAGTTGGCTTGACGAGCGCAGATGAGGAAGCGAGAGCAAGAAAAAAAAATTCTTTCTTGTCTT
TCTACTTTTGATTCACTAACAAAGCAAAGAGAAGCGCTTTTGCTACTGATTTTTTTATAATAATA
ATTGGTCAGCGCGAAGGTTTTTGATTATGTTATGCTTAGCCAAGGACGCTCCGCCTTATCTATAG
AAGCAGTCAACTGAGTTCTGAACGAATTAGCTCCTTGGTAATGGCTTAATCTATAGATAGAAAGC
CTTATGATAGGAAACTATCACGTTAGGTTTGGAGAGAGATGAGACCGGTTATATAATAAAGAGAG
CAGATGCAAGCTTTTTCTTTCAATAGCCGGCCAAATGACTACAGGATCATCGGTCTACTCTACCT
CAATTCACCATTTCGAACCTTATACAGAAGGTTTTTCCGTACCAG
Found at i:219618 original size:12 final size:12
Alignment explanation
Indices: 219601--219626 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
219591 TCTACTTAAA
219601 AGCATACCTATT
1 AGCATACCTATT
219613 AGCATACCTATT
1 AGCATACCTATT
219625 AG
1 AG
219627 TAGGATACCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.31
Consensus pattern (12 bp):
AGCATACCTATT
Left flanking sequence: Indices 219101 -- 219600
CTACAAAAGAAAAGAAGTAGAACCATCTTCTACACAAAAAGCATTTTCTGAACAAGACGTGGTAG
TATTACAAAAGTTAAATGACAACATACCTTGGGCCTTGGGAGTCCCGTTCCTGTTATAGACATAC
CAGAGGAGACCAACCATAGGAGAGGAACTGAAGAAAAGAAACACCCACTACAATACATTACAGAT
GAAGAGCAACAAGAGTAACCAGTTCCGCAGGAAGCAGCAGTTACACCGAATGAAGAAGAGGAACA
ATACAATCAATATACAAGAGGTTGGGTGGGCCCACGATTCATACTCATCATCAACTGTTGGTGAG
GAACATCCTGTTGATGATGAGGTTGAGGTGGTTCCAGATTCACAAGAGGAAGCTGTTCCAGCAAG
AGCATGAGAAAAAGCATCGATTCCAGATCTAGATCCAGTTCTTCCACCCTTTCCGGGAACATAGA
AAAAACAAAGTTCTACGTTCTTGAATTTAGAGCCATCTACTTAAA
Right flanking sequence: Indices 219627 -- 220126
TAGGATACCTATTAGTAAACACAGTTACGATAGTAAAGAAAGGTAGGGTAGGTAGGGCAGTAAAG
GCAGGAGTTACACTAAATAACATAGCTTATAACCTTGATGGAAGCCCTTCTCCTGTTATAGACAT
AGTAGCAGCCATAGGAGAAACTAAAGAAACATATCTATTACGGTACGGTGGTACAGATGAAACGG
ATGAAGATTCACAATCATATCAACAAGAAGAAGCAACGGATTCAGAGTCATCAGAAGAAATTGAT
GCGGTATTTCTTCCAGAGCTTGATGAGGAAGAAACTGACGTCGAAGACGGAGAAGGAGAAACAGG
CACGGACGTGGCAGTTTCAGTTGATGTTGCAGTTGAAATTGAAGCTGCCGGTGTTGATGGTGAGA
AAACGGGTCCTCTTTCTTATCTTATCCCAGTTAATAATCTTAATAGTCTAGTGGACCCACTAGAT
TGGACAACTTGACACTTGACCATGAGCAACGAAACTCCAGAGGGT
Found at i:222040 original size:13 final size:12
Alignment explanation
Indices: 222007--222038 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
221997 CTCGCTTCTG
222007 AAAATTTAAAAT
1 AAAATTTAAAAT
222019 AAGAATTTAAAAT
1 AA-AATTTAAAAT
222032 AAAATTT
1 AAAATTT
222039 TATTTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (12 bp):
AAAATTTAAAAT
Left flanking sequence: Indices 221507 -- 222006
GCTAAATGAATGTCAGCAGCTGTAGCAGTCGCTGTCCCTGTAGAAGTAGCTGGACCTTTATTCTT
GTGCTCGCGAAATAGGACGAGGAATCAATATGCTCCCGCCTCTGCTGTAGATCTTCTGTAGATCT
TCTCGTTATTTTTTTTCGATCCCGGAACCTGGAGCCGGGTCCTTGTTTATTGGTCGAGCCAACTC
CGGTACTTCCATCCCCGTACTTCCATGCATCCTGTGAAAGAAGTAATTGTATTAAATTGATTAAT
TCGCGAAAGTCCGTCAAAGACAGAGATATCAAAAACAGCGAAAAAGGCCCATTGAAAACAGTCCA
CAGTGGTAGTAGGACCTTAACAAGGCCATCATCAAAGGCTTCGATTACACCGAAAAGACCTATGA
TTTCACACATGCGGCAAGAGAATGGCTTGCTGCCTGGGCTAGCAAGTGAATGAATCCACGCGCTC
CATCCAACTCGCCCCCATAATAACAAAGGCTTTCGCTCGCTTCTG
Right flanking sequence: Indices 222039 -- 222538
TATTTTAAATTTAAAATTACTGTAAGAATATAAATAAGAATTTTCTTAATTATTTAAGAAAGTTA
ATTTACTATGCAATATAAGTTTCAAGTTCAAAAGAGCATCAAATGCAACATAGAAGGTGCCCCTT
TGTTGTTCTAAGTTCACGTGCTTCCGGGGATTGGTGACTTCGAACAGAACCCAAGCACAGCTCAT
TTTACCCCAAGCAAACATTCCGCAGCCTAAGTATAAGGTACTGCTCTGTATAAGGTACCTGCTTT
CCTGCAATACGCTACTTTCCCACAAAAACGGGAGAATCCGAACAACAAGCATATATTGGGGCGAA
ACCGCTTCCTTTTGTTCAGGTTTCTTGATCAAATCATCACACACATATACATATATAATGATCAA
TCGATTATTGAGTTTGATCCTGGCTCAGAAGAAGTGATCGCTATATGCTTAACACATGAAAGTTT
AGTAGACGTCGAGCCCAAGTTCTCCTAGAGAAGGGTAGGCCGAGT
Found at i:231430 original size:44 final size:44
Alignment explanation
Indices: 231361--231445 Score: 143
Period size: 44 Copynumber: 1.9 Consensus size: 44
231351 TCTTCATTTC
* * *
231361 GGTCAGGGTGTCCCTCTGAGTGGGGTGTCCCCTCCTACTTTTAA
1 GGTCAGGGTATCCCTCTAAGCGGGGTGTCCCCTCCTACTTTTAA
231405 GGTCAGGGTATCCCTCTAAGCGGGGTGTCCCCTCCTACTTT
1 GGTCAGGGTATCCCTCTAAGCGGGGTGTCCCCTCCTACTTT
231446 CCTCGGTGGG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.12, C:0.29, G:0.28, T:0.31
Consensus pattern (44 bp):
GGTCAGGGTATCCCTCTAAGCGGGGTGTCCCCTCCTACTTTTAA
Left flanking sequence: Indices 230861 -- 231360
TCTCGGGGGGCGTGACTGGTCCTTGTCCCTGCCTACTCTTTATTCGCTTTTGCTTATTTTTAGCT
TAAATTTTTTTTAATATTATGTTTATGTAGGCGGAGTTAGGTCCTTTTTGGGCGGACGGCCGTAG
GGGTTGACTCCCTTTTCTTTTGTACTCTTTCGGCCCAGTTGGCTTGTAATCTTTGCTGAACTCAT
CTGTTTGCATTTGACTTGTCTTATTTGAATGCTGATGTAATTTGTTCAACTTGCCTTGTTTCTTA
GCCATTTGAGTGCCTCCTAGGGGCACTCGCCCTTAACACTGCTGGCCTCCATTTCGGGTTTGGTT
TATGGGCTGTGCCCCCAGTCAGTGTGTTTGCGGGTCTCAGCTGTGTCCCTAATTCGGGTGAGTCC
TGGACTCTACCTCGGCTGGGTAACCATGTTGGCATTGGGCGAGTCTTTCCTCTTTTGGGAAAGTT
AGGCCATGGATGGCCATCTCCCCCATTGTGCCTTGTCTTCATTTC
Right flanking sequence: Indices 231446 -- 231945
CCTCGGTGGGAGGATCCCTCTTTTGGCTTAGCCGATGGGTTTCGCCCTTCCAAGATTTTTTGTAG
GGGTGTCCCTTTTCCGCTTCGCTCGTAGGGGTATCCCCCCCCTATTGCCCCCTGCCTATTAGTTG
TAGTTGTGATAGCATAGAACAACTGATAGGTATATTGCAACGTCTTAAATTTCATTGCTTCAAGG
AGTCTGGTTACAACTTTGCACGGAGCCGTCGACATGCTTGACCGTCCTCCGGCTTGTTTGAAAAC
GCGAAAAAGAAAGAAAAAAAAATTCTGCTGCCCCTTGGGAGTCGCCTTCTTCCTAAAAATAGTCT
TTCTTAATGGTGCCGGCGTTCCAGTGTGCCCCCAGCTCATCTCCGTCCGTAGTGGCCAGGGTATA
GGTACCCGGCCTAAGGATCTTGGTGATCTGGTATGGGCCCTCCCAGTTGGCGGATAGTTTGCCAT
GTAAGTTGCCCTGCCCTGTCCGATCGCTGCCGCTGCGCTTTTCCT
Found at i:235736 original size:46 final size:46
Alignment explanation
Indices: 235677--235765 Score: 178
Period size: 46 Copynumber: 1.9 Consensus size: 46
235667 ATATAAGAAT
235677 GAAAAGACAGGATAAAGAAGTTTATATGAGATATTTGAAAGAAAAA
1 GAAAAGACAGGATAAAGAAGTTTATATGAGATATTTGAAAGAAAAA
235723 GAAAAGACAGGATAAAGAAGTTTATATGAGATATTTGAAAGAA
1 GAAAAGACAGGATAAAGAAGTTTATATGAGATATTTGAAAGAA
235766 TGGGTGAAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.53, C:0.02, G:0.22, T:0.22
Consensus pattern (46 bp):
GAAAAGACAGGATAAAGAAGTTTATATGAGATATTTGAAAGAAAAA
Left flanking sequence: Indices 235177 -- 235676
TCGAACCTATGGCCCTCTGTACCCAAAACAGATGCGCTGACCAGACTGCGCTACACCTCGTTTCA
CCCTCCGAAGCATATAGATCTACCCGATCGATCAAGACTCGAACCGAACTCGCTCATCCTTTTTG
GTTTGGTTTGGACCCTTCGCCCGCTTAGAAGTGAGATTGATAACCTGGCATCAAAAGCTCATGCA
AAAAGAGAACTTCATATACTATGGAATTAATAAAAAAATTTGCTATTTTAGCATTCATATTCTAA
TATGAAGATTAAGAAAATATTCTTCGTCTTTCCTAAAAAGATTTTGAAAGAAAATGCTGATATAG
AAATGTTAAATTTATAAATTTATATAATATGAATCCTAGAGTTGAAGAAATCTTATACTTTGTAG
TTATAACTTATATTATATTTAAAATCTTATCTTTTTAAATAAAGAAAGAAAAGATGAGAAAAGAG
AATAATTAAGTAAAATTATAAATTAAAGAAAAAGAATATAAGAAT
Right flanking sequence: Indices 235766 -- 236265
TGGGTGAAGTTTCGTTATTGAAGAAAGATTCGAATGACTGGAGTGTATGAGTATCATACTGTATG
AGTATCATACTGTACTGTACTGTATGAGCAGAATGAAGATAAGTATTGGTTTACGATTACGATAT
ATAGATTGTGTAGACATATAGAGTGAGCACACAGATAGCCCAAGCTAGACTCATATGACTTACTG
GTAACAAGTAAGATTAGTATAGGAACGAGTGTTGTGAAGCGAGCGAAGGATACGAAGCGAGTTAG
ATGTTGGCTAAACGAGTAAGATGTTAACGAGTGTACGTAAAGAAGAACCTGTGTGAGTGGACTTA
TATGGACTGATATGGCTAGTATGAATCCTACCCTATTTCTTTTCTTATATTGACAAGCCAGGGAA
TGTCTCTCCTTATATAACATCTATGACTATTATTCATCCTGTTATTCTAAAATGTTAATAAGCTA
ACTTAGATTGAAAGAACTCTTGACTGTTTTAAGGCCAATACATTA
Found at i:235830 original size:16 final size:16
Alignment explanation
Indices: 235809--235844 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
235799 ATGACTGGAG
235809 TGTATGAGTATCATAC
1 TGTATGAGTATCATAC
235825 TGTATGAGTATCATAC
1 TGTATGAGTATCATAC
235841 TGTA
1 TGTA
235845 CTGTACTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (16 bp):
TGTATGAGTATCATAC
Left flanking sequence: Indices 235309 -- 235808
TTGGTTTGGACCCTTCGCCCGCTTAGAAGTGAGATTGATAACCTGGCATCAAAAGCTCATGCAAA
AAGAGAACTTCATATACTATGGAATTAATAAAAAAATTTGCTATTTTAGCATTCATATTCTAATA
TGAAGATTAAGAAAATATTCTTCGTCTTTCCTAAAAAGATTTTGAAAGAAAATGCTGATATAGAA
ATGTTAAATTTATAAATTTATATAATATGAATCCTAGAGTTGAAGAAATCTTATACTTTGTAGTT
ATAACTTATATTATATTTAAAATCTTATCTTTTTAAATAAAGAAAGAAAAGATGAGAAAAGAGAA
TAATTAAGTAAAATTATAAATTAAAGAAAAAGAATATAAGAATGAAAAGACAGGATAAAGAAGTT
TATATGAGATATTTGAAAGAAAAAGAAAAGACAGGATAAAGAAGTTTATATGAGATATTTGAAAG
AATGGGTGAAGTTTCGTTATTGAAGAAAGATTCGAATGACTGGAG
Right flanking sequence: Indices 235845 -- 236344
CTGTACTGTATGAGCAGAATGAAGATAAGTATTGGTTTACGATTACGATATATAGATTGTGTAGA
CATATAGAGTGAGCACACAGATAGCCCAAGCTAGACTCATATGACTTACTGGTAACAAGTAAGAT
TAGTATAGGAACGAGTGTTGTGAAGCGAGCGAAGGATACGAAGCGAGTTAGATGTTGGCTAAACG
AGTAAGATGTTAACGAGTGTACGTAAAGAAGAACCTGTGTGAGTGGACTTATATGGACTGATATG
GCTAGTATGAATCCTACCCTATTTCTTTTCTTATATTGACAAGCCAGGGAATGTCTCTCCTTATA
TAACATCTATGACTATTATTCATCCTGTTATTCTAAAATGTTAATAAGCTAACTTAGATTGAAAG
AACTCTTGACTGTTTTAAGGCCAATACATTATCCTCCTTAGTGATGTTAATTAATGTGGAATAAT
GGGAGAAAGAAGTTCAAAAAAGAGCCTCTGGAAAGAGAGAAGTCG
Found at i:237052 original size:36 final size:36
Alignment explanation
Indices: 237005--237094 Score: 162
Period size: 36 Copynumber: 2.5 Consensus size: 36
236995 CATATTATAA
*
237005 AATTTATAGAAATTTAAATCTTAATTTAAAAAAAAT
1 AATTTAAAGAAATTTAAATCTTAATTTAAAAAAAAT
*
237041 AATTTAAAGAAATTTAAATCTTAATTTAAAGAAAAT
1 AATTTAAAGAAATTTAAATCTTAATTTAAAAAAAAT
237077 AATTTAAAGAAATTTAAA
1 AATTTAAAGAAATTTAAA
237095 GAAAGATATT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (36 bp):
AATTTAAAGAAATTTAAATCTTAATTTAAAAAAAAT
Left flanking sequence: Indices 236505 -- 237004
AATAGCAGTGATTACAACTAACCCGTCCTGTTGTTAAGAATCTTTCTTATCAAACTAGAAGGCTA
ATTCTAAGTCCAAGGATCCCTCTTAGTAACGAAGTTTAAACTGAAGTTAATTAAGAAGACTATAT
ACTATATGAACGAGTGTAGCGAAGCTAAAAGAGAAGGCAGTTGACGAGTGTAGTAGCTTTCGTCT
TAAATGAAAAAGAAGGGTAGAAGATCTCCCATATAAGTAACAAGATAATGAAACAGATCAGGAGA
CTCATCTAGTTGTAGGCATAAAACCAGGAAAAGGGGAATTGAGAAAGTGTCCCGTGTCTTTGTTT
CGTATCGAGCTTGTTTCGACCTTTTCTAAGGTGTCATGACGTCTTTTCGGAGAGTCCTTTCGAAC
AGAATCTTTAATACGACTTTCAACTAGTTGTAGGCATAAAGCCCCTTAATATGACCAAGTGGCGT
CTTTCGGAGAGTAGTCTCACGTGCTTCCTGTGATCCATATTATAA
Right flanking sequence: Indices 237095 -- 237594
GAAAGATATTTTTAAATATAAAAGATAAACTATGTCGCTAAGGTTGATCCTAAGGGTTCTTTTTA
GTTCTTTAGTTTGATATGATACGGATATCAAGAATATATAAAAGTAAGGGAAGCGTGGTCTTGCG
CAGTCAATCAATGAGATATTATATAAAGAAAAGAAAGTCAAATTAGAATAAGGGGTTTGGGCATG
ATTAGCTCTTTGAGGAAAAAGAAATCCCAAGTCCTTTAATAGATAGGGAAATAGCTAGAGTTTTG
AGACTAACGTTGGGTTGAACGCGCTTTCTTATACTTATTATACTATAATAGAGTGAGCTAAAGTT
ATGATAAGAGCTTTCGTCGTATAGTAAGTCAGAGCCTTTCTCGTGAACTAATTTCGTCAGAAACT
GAAGTATGAAAAGAAAGACGTACAGAACGAAGTTCAGTCATAGTTGTGAAATCCTCCACATTTGA
CTCATATCATATAGAAGTGACTTCCTTTTTTAAGTAAGTAGAGGG
Found at i:237081 original size:14 final size:14
Alignment explanation
Indices: 237062--237088 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
237052 ATTTAAATCT
237062 TAATTTAAAGAAAA
1 TAATTTAAAGAAAA
237076 TAATTTAAAGAAA
1 TAATTTAAAGAAA
237089 TTTAAAGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (14 bp):
TAATTTAAAGAAAA
Left flanking sequence: Indices 236562 -- 237061
GAAGGCTAATTCTAAGTCCAAGGATCCCTCTTAGTAACGAAGTTTAAACTGAAGTTAATTAAGAA
GACTATATACTATATGAACGAGTGTAGCGAAGCTAAAAGAGAAGGCAGTTGACGAGTGTAGTAGC
TTTCGTCTTAAATGAAAAAGAAGGGTAGAAGATCTCCCATATAAGTAACAAGATAATGAAACAGA
TCAGGAGACTCATCTAGTTGTAGGCATAAAACCAGGAAAAGGGGAATTGAGAAAGTGTCCCGTGT
CTTTGTTTCGTATCGAGCTTGTTTCGACCTTTTCTAAGGTGTCATGACGTCTTTTCGGAGAGTCC
TTTCGAACAGAATCTTTAATACGACTTTCAACTAGTTGTAGGCATAAAGCCCCTTAATATGACCA
AGTGGCGTCTTTCGGAGAGTAGTCTCACGTGCTTCCTGTGATCCATATTATAAAATTTATAGAAA
TTTAAATCTTAATTTAAAAAAAATAATTTAAAGAAATTTAAATCT
Right flanking sequence: Indices 237089 -- 237588
TTTAAAGAAAGATATTTTTAAATATAAAAGATAAACTATGTCGCTAAGGTTGATCCTAAGGGTTC
TTTTTAGTTCTTTAGTTTGATATGATACGGATATCAAGAATATATAAAAGTAAGGGAAGCGTGGT
CTTGCGCAGTCAATCAATGAGATATTATATAAAGAAAAGAAAGTCAAATTAGAATAAGGGGTTTG
GGCATGATTAGCTCTTTGAGGAAAAAGAAATCCCAAGTCCTTTAATAGATAGGGAAATAGCTAGA
GTTTTGAGACTAACGTTGGGTTGAACGCGCTTTCTTATACTTATTATACTATAATAGAGTGAGCT
AAAGTTATGATAAGAGCTTTCGTCGTATAGTAAGTCAGAGCCTTTCTCGTGAACTAATTTCGTCA
GAAACTGAAGTATGAAAAGAAAGACGTACAGAACGAAGTTCAGTCATAGTTGTGAAATCCTCCAC
ATTTGACTCATATCATATAGAAGTGACTTCCTTTTTTAAGTAAGT
Found at i:241320 original size:27 final size:27
Alignment explanation
Indices: 241290--241343 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
241280 CTAATGTCCG
*
241290 GACAGGACAGGTAAACCTGCTACTGAT
1 GACAGGACAGGTAAACCCGCTACTGAT
* *
241317 GACAGGGCGGGTAAACCCGCTACTGAT
1 GACAGGACAGGTAAACCCGCTACTGAT
241344 ACTGACAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.24, G:0.30, T:0.17
Consensus pattern (27 bp):
GACAGGACAGGTAAACCCGCTACTGAT
Left flanking sequence: Indices 240790 -- 241289
TAGCTATAGGTACTCCGAAGAGAAGTGTAATGGCTGACCTCTTTGAGGGAGCTTACTTTCTTTTC
TTATTATATACGTAAATATAAAGAGCGCATTTGGAGTTTAATTATAGAGTTGCCAGCTCTCCTAG
TGACATCGTAGACTTATAACTCGTTACTTTCGAAAAGAAGTGCATGTGACATCGTAGACTTAGAA
TCTCTTTCTTTAAAGGATGAATAAGCCGCATTTAATAGGATTAGAGCATCCCCGGCAACAGGGAA
AAGGGGCAGAGGATAGATGCTAGATAAATGATCATAGGGAAGAAGTTTCCACCATCAACTTCATT
TTCTTGGGCTTCCCTCGCTTGATTGGCATCATTTGTTGGTCGAACTACTTCCTTTGGAACTGCAG
CTTCTTTTTCAAAAGTCACTTCCTTAGGAATAGGCGCTTGTTCGTATTCGACTTCTCGGCCGGGC
TCTTCTGGAACAGGGAATGCTTCTTTTTCACGAAACTAATGTCCG
Right flanking sequence: Indices 241344 -- 241843
ACTGACAAAGATTCCGCTGCTTCAGCCCAAGAAGCCCAAGAAAGCCAAGACTTTGGTCCAGCCTT
ACTAAACTAAAAGGCGGTTTCCTTAGCCTCATGATCACCCGCCAGTTCCTTGCATTCTTGCTTAA
TCATATTCAAAACATTGGTCAAACTGAGAATAAATTAAAGGATGAGCTCACTCAACCCCTTCTTT
TAATGGTAAGGGAATCAATCCCATCTTGTGCGAGCCAAACCAGCTCTTTTTTCTGAGAGGACGGC
TGCTAACGTACTCGCCCCTTATTCTAAGAAAGCTCCCAACCTGCTCGTTTAGTATACTCCACTCG
CTCCTCTCGTTCCAGCATTCTTATTAAACCCCGTGGGAACCACTCCACTCTGAAACTCTTCGCAT
GCTAGCATGCTCGCTTCGCCCCTTATATTAGAAAGTTGCCTCACTCGCTCATTTGAACAGGAGTC
TGACCTCTTTCCCAGGAGTCTTGCCTCTTTCCTTGGAAGGAAAGG
Found at i:241816 original size:20 final size:20
Alignment explanation
Indices: 241791--241830 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
241781 CTCATTTGAA
241791 CAGGAGTC-TGACCTCTTTCC
1 CAGGAGTCTTG-CCTCTTTCC
241811 CAGGAGTCTTGCCTCTTTCC
1 CAGGAGTCTTGCCTCTTTCC
241831 TTGGAAGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.12, C:0.35, G:0.20, T:0.33
Consensus pattern (20 bp):
CAGGAGTCTTGCCTCTTTCC
Left flanking sequence: Indices 241291 -- 241790
ACAGGACAGGTAAACCTGCTACTGATGACAGGGCGGGTAAACCCGCTACTGATACTGACAAAGAT
TCCGCTGCTTCAGCCCAAGAAGCCCAAGAAAGCCAAGACTTTGGTCCAGCCTTACTAAACTAAAA
GGCGGTTTCCTTAGCCTCATGATCACCCGCCAGTTCCTTGCATTCTTGCTTAATCATATTCAAAA
CATTGGTCAAACTGAGAATAAATTAAAGGATGAGCTCACTCAACCCCTTCTTTTAATGGTAAGGG
AATCAATCCCATCTTGTGCGAGCCAAACCAGCTCTTTTTTCTGAGAGGACGGCTGCTAACGTACT
CGCCCCTTATTCTAAGAAAGCTCCCAACCTGCTCGTTTAGTATACTCCACTCGCTCCTCTCGTTC
CAGCATTCTTATTAAACCCCGTGGGAACCACTCCACTCTGAAACTCTTCGCATGCTAGCATGCTC
GCTTCGCCCCTTATATTAGAAAGTTGCCTCACTCGCTCATTTGAA
Right flanking sequence: Indices 241831 -- 242330
TTGGAAGGAAAGGGAAGAAAAGGGCTCAAGCCGGGGTACTCTACCCAACATCTTGCTCGTTCCAT
CGACCACTTCTCTTTCCTCGACTCTGTTTTCATCCACATCCGCTCCATTGGCCGCATCTGCTGGA
TTGGCTTATGTTTCATTTCTTGGTTGAGCTGCCGCTTGCTTTTCAAACGCCTCTGAATGCGCCCT
CCCTTCTTAACAACCTGCTCGCCTGCCCTCTTTTAAGGCGAATGGGACTTCACTCGCTTGATTCA
TTCTGCCCGCTAACACACTAACTCCGTCCCCAGTTTATTTTTAGGAAGAAGAAACCACATTATAT
AGGGTTAAAGGATCCCGCGCTAACAGGGATAGTGCACTGGCAAAGAAGCTAGGTAAACAAGGTTT
GGACAGAAGTTTCCTTTCCATCAACAAGAACTCCATCCTCATCTGCCACGTCTGCTACTGAAATG
CGCCCTGTCTTTCTTTCTCGAGCCAAGGGAGCTCGTGCCGTGTGC
Found at i:243412 original size:23 final size:23
Alignment explanation
Indices: 243386--243444 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
243376 TAAATGATGG
243386 TGCTTGCTTTCTATCAATTTCCT
1 TGCTTGCTTTCTATCAATTTCCT
* *
243409 TGCTTGCTTTCTTTCTATTTCCT
1 TGCTTGCTTTCTATCAATTTCCT
243432 TGCTTGCTTTCTA
1 TGCTTGCTTTCTA
243445 GGGTGGTTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.08, C:0.25, G:0.10, T:0.56
Consensus pattern (23 bp):
TGCTTGCTTTCTATCAATTTCCT
Left flanking sequence: Indices 242886 -- 243385
CGACCTTCAGAGAGGCCCATCATGGGGCGACTCAGCCTACCCGTCCGCAATAGCAGACCTTTGGG
CTCGACACCTACTAAAAAGAATGTGAAGTCAAAAAGAGTTTGATAAGTAAATAAATTCTTAAATA
AAGAAGCTTACCTCTAACTTAAATTAATTCTATTCTTAAATATTAAATGAGTCACATTAATTCTT
CATAAATAAGATTCTCAGACTATCCTAGTGTAGTCAGTAAGCCATACTTCGAACCAGACCTCTAC
TTCAGGACATTCCATTAAATCATTCTTACCATAGAATCTCTCTTATATAGGGATCTTTATTCAAG
AAAGAGCCTATGTAAAGATGTACTTGTTCGCATTCTTCTTTATAAGCACTCTCCTGGTGTGGTCA
TTAAATAGAGAATCAGACTCATTCTTTTTCTAGACTAGCCTGTCTAATAGCTTTAAACCCTACCC
AGGAAAGAGTATCCCGTTCTGGTGCTTGCTTTCCATAAATGATGG
Right flanking sequence: Indices 243445 -- 243944
GGGTGGTTACCCTGTTCCATTTCTAGCTGTGTTCCATACAATACAATCAATACAATCTATACTAA
CCAATTTGATAGTCTTAATCTAATATAGTTATCTAATTCTGACAGTCTTAAGAAACTATATTCAT
CGTCTTTATACACTCTTAATCTAATATATGAATAAAATATAAGGTCATTCTTCCACACAACCCTT
ATGCGTTCATTCCACCAAAACAGTAGTCTTTTCTTAATTCTTTTTAATATTCAATCTTTCTATAC
TTTAATGTAAGTTAATCTAAGTTTCAATTCATTTATAATTAATTCATTCTCATTCTTTTATATAA
GAAAATCTCTTTCTTAATTATTGATTATTGAATAAGATAAGATATATAATAGCAGTGATAATTGT
GAAATATGACTACAAGTAAAAATGAAAATTCTTATGAACTGTCAGAAGAGGGGGGAAGGACACCT
TAGATCTAATAAGAACTCTCATTTGAATATGAAGTGTAGTTATGG
Done.