Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_052751
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: 143664
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Found at i:12563 original size:16 final size:16
Alignment explanation
Indices: 12542--12574 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
12532 TTGGGTAGAG
12542 TTTTTACATATATCAT
1 TTTTTACATATATCAT
12558 TTTTTACATATATCAT
1 TTTTTACATATATCAT
12574 T
1 T
12575 ACGAGCATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTTACATATATCAT
Left flanking sequence: Indices 12042 -- 12541
TTTATTGCTCAATCTGGTATAAGGAAACCCCCCGGGAAAAAACAATGTCCACCGTTTACTGTTTC
TTCGCAAATATTTGACTCCTTTACTTGGATATACGAAAATTATATCAGTCTGTGCGTAGTACTTT
TTTTCCCGATTGCCGTTACCATGCTAGACTTCTCGGATATTAACTACTATGTTGCTTTCTCTAAT
CCCCTCCTTTTTCGTATATCATTTTATTTAATTCATCTCCCGGGACCGCGATCCAGCTATAAAAG
AATGGCTTATTGACAATCAACCAATAAATTTCAATAAATACTATCCTATCTATGCCTTTTCAAAG
ATTTTTGGTACAATCCCACTTTTATGTAAATACTTATTGTAAGCTTACGAGGTTTCAGATACATT
ATCTAAAACCTTGGAGGCAAAAGGGATAAAACCGAAAGAAGAAAGGGAGCACGTCTGCCGTATAA
TGGGAATCATTGATGGCGCTTTGAAAGAGGGATATTTGGGTAGAG
Right flanking sequence: Indices 12575 -- 13074
ACGAGCATATATCATCACGAGTCTCTATTTTGTTCTCCAAATAGCCATAACAATCGAAGGGTCCA
AGGTCTGGCCGCCCATCTGACCTCAGCAAAGAGACGGAAGTAACACCCGCGCAGGAGTGGCCAAT
CCAACCGGTTACTGAAGAGGTCGGTGAAGTCTTCCCCAACGGGCCACAAGATTAGATGAATGGTT
AAATCTTGACGATTTTCATCCATTCATCTAATGTGGTGGCCCCACCCATTTCTCCAATATGGTGG
CCCAGAATTCCTGTAGGATCTATTACTTCGTGAACTCATATGATTAAATATTATTATTTGCTACA
AATTTCCGGATTTAACTCTTACCTCAATCTCCTGATTTATGGATTCAATCTCTCGACTTATGGAT
TCAATCCCTCGATTTATGGATTCGTCGTATATGCATATATAATGATTCTAATTTGCTCCCACCCA
AATTTCCCGATTTATCTATTATTATTTCTGTATACACGAAATGGG
Found at i:12583 original size:16 final size:16
Alignment explanation
Indices: 12564--12595 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
12554 TCATTTTTTA
*
12564 CATATATCATTACGAG
1 CATATATCATCACGAG
12580 CATATATCATCACGAG
1 CATATATCATCACGAG
12596 TCTCTATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (16 bp):
CATATATCATCACGAG
Left flanking sequence: Indices 12064 -- 12563
GGAAACCCCCCGGGAAAAAACAATGTCCACCGTTTACTGTTTCTTCGCAAATATTTGACTCCTTT
ACTTGGATATACGAAAATTATATCAGTCTGTGCGTAGTACTTTTTTTCCCGATTGCCGTTACCAT
GCTAGACTTCTCGGATATTAACTACTATGTTGCTTTCTCTAATCCCCTCCTTTTTCGTATATCAT
TTTATTTAATTCATCTCCCGGGACCGCGATCCAGCTATAAAAGAATGGCTTATTGACAATCAACC
AATAAATTTCAATAAATACTATCCTATCTATGCCTTTTCAAAGATTTTTGGTACAATCCCACTTT
TATGTAAATACTTATTGTAAGCTTACGAGGTTTCAGATACATTATCTAAAACCTTGGAGGCAAAA
GGGATAAAACCGAAAGAAGAAAGGGAGCACGTCTGCCGTATAATGGGAATCATTGATGGCGCTTT
GAAAGAGGGATATTTGGGTAGAGTTTTTACATATATCATTTTTTA
Right flanking sequence: Indices 12596 -- 13095
TCTCTATTTTGTTCTCCAAATAGCCATAACAATCGAAGGGTCCAAGGTCTGGCCGCCCATCTGAC
CTCAGCAAAGAGACGGAAGTAACACCCGCGCAGGAGTGGCCAATCCAACCGGTTACTGAAGAGGT
CGGTGAAGTCTTCCCCAACGGGCCACAAGATTAGATGAATGGTTAAATCTTGACGATTTTCATCC
ATTCATCTAATGTGGTGGCCCCACCCATTTCTCCAATATGGTGGCCCAGAATTCCTGTAGGATCT
ATTACTTCGTGAACTCATATGATTAAATATTATTATTTGCTACAAATTTCCGGATTTAACTCTTA
CCTCAATCTCCTGATTTATGGATTCAATCTCTCGACTTATGGATTCAATCCCTCGATTTATGGAT
TCGTCGTATATGCATATATAATGATTCTAATTTGCTCCCACCCAAATTTCCCGATTTATCTATTA
TTATTTCTGTATACACGAAATGGGAGCCTTATGTTATCCGTGCTC
Found at i:12949 original size:21 final size:22
Alignment explanation
Indices: 12923--12987 Score: 100
Period size: 21 Copynumber: 3.1 Consensus size: 22
12913 AACTCTTACC
12923 TCAATCTCCT-GATTTATGGAT
1 TCAATCTCCTCGATTTATGGAT
*
12944 TCAATCT-CTCGACTTATGGAT
1 TCAATCTCCTCGATTTATGGAT
12965 TCAATC-CCTCGATTTATGGAT
1 TCAATCTCCTCGATTTATGGAT
12986 TC
1 TC
12988 GTCGTATATG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
20 2 0.05
21 38 0.95
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (22 bp):
TCAATCTCCTCGATTTATGGAT
Left flanking sequence: Indices 12423 -- 12922
AGATACATTATCTAAAACCTTGGAGGCAAAAGGGATAAAACCGAAAGAAGAAAGGGAGCACGTCT
GCCGTATAATGGGAATCATTGATGGCGCTTTGAAAGAGGGATATTTGGGTAGAGTTTTTACATAT
ATCATTTTTTACATATATCATTACGAGCATATATCATCACGAGTCTCTATTTTGTTCTCCAAATA
GCCATAACAATCGAAGGGTCCAAGGTCTGGCCGCCCATCTGACCTCAGCAAAGAGACGGAAGTAA
CACCCGCGCAGGAGTGGCCAATCCAACCGGTTACTGAAGAGGTCGGTGAAGTCTTCCCCAACGGG
CCACAAGATTAGATGAATGGTTAAATCTTGACGATTTTCATCCATTCATCTAATGTGGTGGCCCC
ACCCATTTCTCCAATATGGTGGCCCAGAATTCCTGTAGGATCTATTACTTCGTGAACTCATATGA
TTAAATATTATTATTTGCTACAAATTTCCGGATTTAACTCTTACC
Right flanking sequence: Indices 12988 -- 13487
GTCGTATATGCATATATAATGATTCTAATTTGCTCCCACCCAAATTTCCCGATTTATCTATTATT
ATTTCTGTATACACGAAATGGGAGCCTTATGTTATCCGTGCTCCATTACGTTTTCCTCTTCCATC
ATCTCTCTACCCGGCTCGGTCTTCCGTTTCATATTATTTTTTTCCCAAATAGCATCTCATATGCG
TTTGTGCCGACGCTGTTGCGAAAATATTTTATTTGCCATGGATCCGGTTCTTTATTGGACGATTT
CATCGACTCGATATAATTGGCTGCATCCACCTTGTTCTTATCTCAATGGTTTGCCCCTGGTCGAG
TCCTCCATCGAATAATACAACGCTTAAATCCGGTAGACATTCGCGGCTGCTGGATGATCGCTGAT
GTGAGCTGTCGCATAACCCCGATCTACGGAGTGTTCCACAAATTGCTTTGTCATTACCTCGAAGG
AACCGCAAAGGCTATAATTAAGTTTAGAACGTATCAACTGCAAAC
Found at i:16447 original size:4 final size:4
Alignment explanation
Indices: 16427--16466 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
16417 TGAAGCATAA
* * *
16427 ATAT CTAT ATCT ATAT ATAT ATAT ATAT ATAT ATAG ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
16467 TTTATATTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (4 bp):
ATAT
Left flanking sequence: Indices 15927 -- 16426
GTGACTTTTAGGCCATAGGGTTCGGGTTAAGGCCTGCAGGGGGGGCTCGGGTAGACCCGAAGGTG
CGTAAGCACTTTTTTTTTCGTCAAAAGGATAAAAAATTTTTTTATTTCGTTCTCCATCCCCCCCC
CAACGAAAATAGCAAGAAAATCCGAGAGCTAGTCTTTGATTGATTGCTAATCGAAAAACAATCGC
TTGATGGTTGATTACTAGCGCGTTATACTGACCGTACGAGGCTAGACTGCGGGACTGCGATCAAG
ATGTTGACCGACACAGTACTTGGCGGGAAACTGTAACGGAAAAAAAATATATAGATTTTTCTGCC
CGTAGGGCGTAGCACTCTGAGGTAGGTTTTATTTAAGTGAGATCTAGGGACGTTAAGGGGGGGTC
AAAAAGGGGGGGCAGTTTTATGGCACGAACGGCTAATAACGCAATACGCTAGTCATGCGGCTATT
TACGATGCTTTATACCGCAGCTTAAGCTAATAGGATGAAGCATAA
Right flanking sequence: Indices 16467 -- 16966
TTTATATTTATCCCGCAGCGATCAAGCGTATACGACACGTAGTGCTTAAGAATAGCCAACTAGTG
CTTGTAGCTCAATTGGATAGAGCACCAAACTACGGATTTGGGGGTTGAGAGTTCGAATCTTTCCA
AGCATGGACCTATCTATCCATCGGATTGGACTAAGAGAATACGTCATATAAGTAGAGGATACGTC
AGATAAGTAGAGAATAACTAGTTCCAAGCAGACGTTCTCTAGCTCTGCCGCTGCGGGAAAGGCTG
CGAAAAATAAAAAATATATATACCTACGTCCCCCGATTAATGGCTTAAGCACACTGTGCTCTTGT
ATTGTCCGACTATTATGGACTCGTGGCGCCGAGAGAAAGATCGGGTTCCAAATCGTAAATGGTCC
CTGGGAGTGGTGTGAACTATCGCCAGTTTGGGAATTTTCCCATACATGGGGTGGACTACTGCTCG
CCGCAGGTACCACTAGAGCCTGGTGGCTTTACCCCAAAATTCGGT
Found at i:16477 original size:6 final size:6
Alignment explanation
Indices: 16427--16466 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
16417 TGAAGCATAA
* * *
16427 ATATCT ATATCT ATATAT ATATAT ATATAT ATATAG ATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATAT
16467 TTTATATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (6 bp):
ATATAT
Left flanking sequence: Indices 15927 -- 16426
GTGACTTTTAGGCCATAGGGTTCGGGTTAAGGCCTGCAGGGGGGGCTCGGGTAGACCCGAAGGTG
CGTAAGCACTTTTTTTTTCGTCAAAAGGATAAAAAATTTTTTTATTTCGTTCTCCATCCCCCCCC
CAACGAAAATAGCAAGAAAATCCGAGAGCTAGTCTTTGATTGATTGCTAATCGAAAAACAATCGC
TTGATGGTTGATTACTAGCGCGTTATACTGACCGTACGAGGCTAGACTGCGGGACTGCGATCAAG
ATGTTGACCGACACAGTACTTGGCGGGAAACTGTAACGGAAAAAAAATATATAGATTTTTCTGCC
CGTAGGGCGTAGCACTCTGAGGTAGGTTTTATTTAAGTGAGATCTAGGGACGTTAAGGGGGGGTC
AAAAAGGGGGGGCAGTTTTATGGCACGAACGGCTAATAACGCAATACGCTAGTCATGCGGCTATT
TACGATGCTTTATACCGCAGCTTAAGCTAATAGGATGAAGCATAA
Right flanking sequence: Indices 16467 -- 16966
TTTATATTTATCCCGCAGCGATCAAGCGTATACGACACGTAGTGCTTAAGAATAGCCAACTAGTG
CTTGTAGCTCAATTGGATAGAGCACCAAACTACGGATTTGGGGGTTGAGAGTTCGAATCTTTCCA
AGCATGGACCTATCTATCCATCGGATTGGACTAAGAGAATACGTCATATAAGTAGAGGATACGTC
AGATAAGTAGAGAATAACTAGTTCCAAGCAGACGTTCTCTAGCTCTGCCGCTGCGGGAAAGGCTG
CGAAAAATAAAAAATATATATACCTACGTCCCCCGATTAATGGCTTAAGCACACTGTGCTCTTGT
ATTGTCCGACTATTATGGACTCGTGGCGCCGAGAGAAAGATCGGGTTCCAAATCGTAAATGGTCC
CTGGGAGTGGTGTGAACTATCGCCAGTTTGGGAATTTTCCCATACATGGGGTGGACTACTGCTCG
CCGCAGGTACCACTAGAGCCTGGTGGCTTTACCCCAAAATTCGGT
Found at i:16658 original size:20 final size:20
Alignment explanation
Indices: 16630--16677 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
16620 GATTGGACTA
*
16630 AGAGAATACGTCATATAAGT
1 AGAGAATACGTCAGATAAGT
*
16650 AGAGGATACGTCAGATAAGT
1 AGAGAATACGTCAGATAAGT
16670 AGAGAATA
1 AGAGAATA
16678 ACTAGTTCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.08, G:0.25, T:0.21
Consensus pattern (20 bp):
AGAGAATACGTCAGATAAGT
Left flanking sequence: Indices 16130 -- 16629
TGATTACTAGCGCGTTATACTGACCGTACGAGGCTAGACTGCGGGACTGCGATCAAGATGTTGAC
CGACACAGTACTTGGCGGGAAACTGTAACGGAAAAAAAATATATAGATTTTTCTGCCCGTAGGGC
GTAGCACTCTGAGGTAGGTTTTATTTAAGTGAGATCTAGGGACGTTAAGGGGGGGTCAAAAAGGG
GGGGCAGTTTTATGGCACGAACGGCTAATAACGCAATACGCTAGTCATGCGGCTATTTACGATGC
TTTATACCGCAGCTTAAGCTAATAGGATGAAGCATAAATATCTATATCTATATATATATATATAT
ATATATAGATATTTTATATTTATCCCGCAGCGATCAAGCGTATACGACACGTAGTGCTTAAGAAT
AGCCAACTAGTGCTTGTAGCTCAATTGGATAGAGCACCAAACTACGGATTTGGGGGTTGAGAGTT
CGAATCTTTCCAAGCATGGACCTATCTATCCATCGGATTGGACTA
Right flanking sequence: Indices 16678 -- 17177
ACTAGTTCCAAGCAGACGTTCTCTAGCTCTGCCGCTGCGGGAAAGGCTGCGAAAAATAAAAAATA
TATATACCTACGTCCCCCGATTAATGGCTTAAGCACACTGTGCTCTTGTATTGTCCGACTATTAT
GGACTCGTGGCGCCGAGAGAAAGATCGGGTTCCAAATCGTAAATGGTCCCTGGGAGTGGTGTGAA
CTATCGCCAGTTTGGGAATTTTCCCATACATGGGGTGGACTACTGCTCGCCGCAGGTACCACTAG
AGCCTGGTGGCTTTACCCCAAAATTCGGTATAGGACTAGATATGAGTATTAAATTACTCGGCCTC
CCCCAGTCTCTGGCTCCGGGAGAGGGGGGCCGAGATCCAAGGCCTGACTGGTACGCCCTGAGGCG
GACGGAGGGAGGAGCCATCAGACCCTGTGCCAAGTCATGTATATATATCTCAATTTATGGCGGAA
GTAGCTTAATGGTAGAGTATAGCCTTGCCAAGGCTAAGGTTGAGG
Found at i:37635 original size:2 final size:2
Alignment explanation
Indices: 37630--37695 Score: 91
Period size: 2 Copynumber: 34.0 Consensus size: 2
37620 CCGGGAAAAA
* *
37630 AT AT AT AA AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
37672 AT AT AT AT -T A- AC AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
37696 GCTGCGCCCG
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
1 2 0.04
2 55 0.96
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Left flanking sequence: Indices 37130 -- 37629
ACGGTACGCTATGGGGTTTGCTCCCTGTTAAGCCTTTGGATCTCTAGCTATGAGAAAAAGCGAAC
AGTCGTACAAAGCGGCTTGAAAGTTCTCTAGCTTCTCTATCAAGCTATCGGGTACGGCGCAGCAC
AAAATAGTTTTAATTCACTCGGTCCACCTGCCCTGGCTCCCCCTGCGAAACTTCCCAAGGATGCT
CGAACTCTGCAAGGCAATAAGTATAAACTCTGGAATCGCTAAAAAAGCAGAGCAGCCCGACAAAT
ACGAGATCATTCTATGCCCTGCCTCGCGTGGCTCCGGCTGTTCAGCACTACAAAAAATAAAAAAG
GCTCCCCGCTGCGCATCGACGGACAGCGCGGAATGGAATCATGCTTTTGATACGATGAAGAAACG
TATTCCGTTTATTCGGAGATACCACCTGCCGGAGGCCCATAAGGAGGGCCTAGAGGAGATCATTG
AGGAAGACCTAGACGAGATCCTTGGTTTTCGAGAACCGGGAAAAA
Right flanking sequence: Indices 37696 -- 38195
GCTGCGCCCGTAGTGAAAAAGGGCCCAAAGTAAGTAGAGTTAGTGAGCCGTGTAATGGGCAACTA
TTTCGCACGGTTCGGAGGGCACTTCAGTAAGCCCTACATGGGCCGAAGTCTTGACCCCTATTCCT
TTTGATGATGCCAGAAGTCGTTTCGATATACGATTTTATCTTGTTCCTATCTTATTCATTATATC
CGATTCGGAAGTCACCTTTTTATTTCCCTGGGCAGTTTCTCTTAACAAGATTGGTTCGTTTGGAT
TCTGGTCTATGATGGTATTTCTACTTATTTCGACGATTGGATTTGTATATGAATGGAAAAAGGGC
GCTTTAGATTGGGAGTAACTCTTCATTCGCGAAAGCGAATGGAGTGGAAAGAAAAAATATAGCCC
CGTAGGGCTGAAGCTCTCATCGCTCTCTTTCTCTTTCTCCCTCTCCGGACACTTTTTTGGTCCAA
AGGACACGATACCTGCCGGGTATCGTGTGCGGGTTCCAGCCAAAA
Found at i:48778 original size:53 final size:53
Alignment explanation
Indices: 48693--48796 Score: 136
Period size: 53 Copynumber: 2.0 Consensus size: 53
48683 GTCCCAAGGG
* * *
48693 CGGAAGGCCAGAAATGGCTTGACGATTTCCGCACACGATACTGGGAAGAAGAA
1 CGGAAGGCCAGAAATGGCTGGACGAGTCCCGCACACGATACTGGGAAGAAGAA
* ** * *
48746 CGGAAGGCCGGAAATGGCTGGTGGAGTCCCGCACACGATATTGGGGAGAAG
1 CGGAAGGCCAGAAATGGCTGGACGAGTCCCGCACACGATACTGGGAAGAAG
48797 GACACGAGAC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.30, C:0.20, G:0.36, T:0.14
Consensus pattern (53 bp):
CGGAAGGCCAGAAATGGCTGGACGAGTCCCGCACACGATACTGGGAAGAAGAA
Left flanking sequence: Indices 48193 -- 48692
CTTCGTCTATCGGCATTGTAGAAAGAATCGAATATGACCCAAATCGTTCGTCCCGGATTGCTTTA
GTACGATGGATCGAAGGGGTTCTACGCCCTGGAAAGCACCCGGCTAGAGCGAATAGTCGAAAAGA
AAAAAATATCTTCTTTTTCGGCCTCTTATTCTCGTTCTCTTCGCTGCCTGGACAAGCCCGGCGAA
TAAAATACGAAAAAACGAGGCCCAGAGGCGGGCAGATACTGGAAAGTTTTTGGGTCTTAAGGCCA
CGGGACTTTGGGGCCAAAAAAGTGGCCTTAAGACCTTTGGGTCTTGGTTTACCCAGCGTAGCGGT
AGCTGGGGCAAAGCCCGCTTTTTTCGCTTTTCGAGGACCTTCCTACCTAACGGGAAGAGAGCGCC
TGTCAGCCCTGAGGGAAGAAAATACGTTCTCTCGAAGCGAAGGCCAAAGATGGAGAACGCATAGC
GGGGCGCCGAGAATAAAAAGCCTAGTACTTCCTTGGTCCCAAGGG
Right flanking sequence: Indices 48797 -- 49296
GACACGAGACCCAAGGGACAGGCACGTAGTGCTAGACCCTTCTTTCTACAAGCCCGAACATGCTC
TCCGCGCACTCCGTGCCGTCGGGCCTTCGGGTTCGGGTCGAGTGCTACGCACCTCCGAGCCTTTC
ACTTATATATTAGCCAGTGAAAAATTGGAAGCAGGCAAGACGGTGATGAATTTTCATTGGTCTAA
ACTTTCGACCCCGTTGAACTACCATCAATCTTCCCAGAAAGCTAATGACCCTTCGGGCCTTGGGG
TGGAGACCGCGCGAGATAGCCAAGCTTGGCTACACGGAGACTACGCTTCTGGTGAGAATAAATAC
ATACTTGATTCGTATTATCAAATGGTCGGAAATTGCATACCATTAGCCAAAATACCTATAGGCAC
GTGGGTACATAATATTGAAAGGAACCCAGGTCAAGGCGCAAAGTTTACTCGAGCCGCGGGAACCT
TTGCTCAAATTATTAAGAAAGTTGGTAATACACCACAATGTATTG
Found at i:51679 original size:27 final size:27
Alignment explanation
Indices: 51635--51696 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
51625 AGTGGCATTC
* *
51635 CGCACGCTTTCTCTCTGGTCGAGTGCTA
1 CGCAC-CTTTCTCCCTGGTCGAGTCCTA
*
51663 TGCACCTTTCTCCCTGGTCGAGTCCTA
1 CGCACCTTTCTCCCTGGTCGAGTCCTA
51690 CGCACCT
1 CGCACCT
51697 ACAATAAAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 26 0.87
28 4 0.13
ACGTcount: A:0.11, C:0.37, G:0.21, T:0.31
Consensus pattern (27 bp):
CGCACCTTTCTCCCTGGTCGAGTCCTA
Left flanking sequence: Indices 51135 -- 51634
AAAACGTACAAAATTTCGTAAATATCGAAAAGGCAGATGTAAAGGTTGCAAAGCGGACGGTACAG
AACTTTGTTTTGGAAAATACGGCATTAAAAGTTGTGAAGCTGGCCGTATTTCGTATCAAGCGATT
GAAGCAGCGCGTCGTGCTATAAGCAGAAAATTTCGAAGAAATTCTAAAATATGGGTAAGAGTTTT
CGCAGATATTCCTATTACCAGTAAACCGGCAGAAGTGCGAATGGGAAAGGGGAAGGGAAATACTA
AAGGTTGGATTGCTCGTGTGTTGAAGGGACAAATCTTATTTGAAATGGATTGCGTCAGTCTGTCA
AATGCTCAACAAGCTGCTACATTGGCCGCGCATAAACTGGGTTTGTCGATAAAGTTTTTTAAGTG
GTCATGAGAAAGGGAAAAAGATATGGCAAAAAGTCAAAATTAGCTTGTAACCTTCGTTACGTTAG
TTAGCTCTATCGGAGAAGTCCGCTCTCAAGACAAAAGTGGCATTC
Right flanking sequence: Indices 51697 -- 52196
ACAATAAAGATTTCTTTTATGTTCCGATCATCCCTATGTATATGCTCAATGGCGCTTCGCGCCTT
TACTTATTTCATTACTTCGTTCCAGTGTTACCATTCTTATGTTGGCTCGTATTCTGTCAGACAGT
CGCGGGCTCTTGAACATTGGACAGTATCTTGGTTTTGTGGTGTCCGACGAACCAAAGTCCGGCCC
CTTTTTCCCACAGATTAATACGATTCGATATTGCAAGGTTCGACATCGACCCCGATAGTAGGAGT
AGACCTTGGTATGTATGTTCACGGGGGTCGCTCATATCTCGGGTAAAGCGGTGCCGCCGACCGGG
AAACCCTTGGTAATTGGGGAGGAATCCGCCAAATCGTGGGGGGGGGGACACTGAGCGAGCAAAAT
TTCTTGCAGCTAGTAATGAGACGAAAGCAAGAGCTGCCGAGGCCAACGCTATTCCGGCCATGTAT
GAATACAAAACAGAATGACTCGATGAAGCGGTTCTTCGCACAACT
Found at i:57129 original size:27 final size:27
Alignment explanation
Indices: 57099--57154 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
57089 ATGAACACTC
* *
57099 ATGCAAGAAAAGCACGGTATTACTAAT
1 ATGCAAAAAAAACACGGTATTACTAAT
* *
57126 ATGCAAAAAAAACACTGTATTACTTAT
1 ATGCAAAAAAAACACGGTATTACTAAT
57153 AT
1 AT
57155 TCAATCAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.27
Consensus pattern (27 bp):
ATGCAAAAAAAACACGGTATTACTAAT
Left flanking sequence: Indices 56599 -- 57098
ACAATATCGGAACGAGATTATACATAAAAAACAGGGGAAAAAAAAATAAATCATGTCATATATTT
TGGGGACCAATCTAAATTCCAATAAACAGGTTAAAATTGCCTTAACTCGAATCTTCGGAATTGGG
CCTAAAAAGGCAATTCAAGTTTGTGATCGATTAGGCCTCAGCGATAACATTAAGGTTAATAAGTT
AACCAAGTATCAATTTGACCAAATTCTAGAAATAATAAGTCAAAATTATTTAGTCGATTCGGAAT
TGGAGAGAGTCATTCAGAGAGACATCAAACGATTAATTAGTATTGGTTGTTATCGCGGGTTTCGC
CATAATGCAGGATTGCCCTTACGCGGCCAACGGACTCATACTAATGCTAAGACTTCTCGCAAATT
TAGAGACATTTCGATCAGAAGTTGAGAAAAGTTTTTTTCGTTTTTTCGTGAATGGTAAAAAAACG
GAATCGATAATATTGAGCAACACCAAAAACATTCAATGAACACTC
Right flanking sequence: Indices 57155 -- 57654
TCAATCAACTTTTGGTAATACAATCATTACTTTAACGGATTATGACGGAAATACAAAAACTTGGT
CCTCCTCGGGTTCAGTGGGGTTTAAGGGATCTCGTCGCTCAACCAATTATGCTGCTCAAGCAACT
GCAGAAAATGCCGCGCGAGCTGCCATTCAACTTGGATTTAAGTTTGTTGAAGTGAGAATCAAAGG
ATTGGGTTATGGAAAGGAATCTTCGTTGCGTGGTTTAAAACTAGGAGGTCTTATTATTACCAAAA
TTCGCGATGTAACCCCAACGCCACATAATGGATGCCGACCCCCTAAAAAACGTCGTGTTTAAATA
TCATCATAAAGTGCTGTGTCATCATAGAATGGTAAATAGGGGTTCAAGAGTAGAAAAAAATTTTT
TAGGGTCCGGGGGAGACTTCTTTGGCTTCACGGGGCTTAGCCCTTCCTTCGTAAAGGCGAAGAAG
GAGATCTACAAGCCATGTCTGGCCTTCGGCGGCCCTTCGGACCCA
Found at i:79308 original size:21 final size:21
Alignment explanation
Indices: 79283--79325 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
79273 CAGTTTACTA
*
79283 TATAAGACTCAGGTATATAAT
1 TATAAGACTCAGGTATAAAAT
79304 TATAAGACTCAGGTATAAAAT
1 TATAAGACTCAGGTATAAAAT
79325 T
1 T
79326 CTGAATGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (21 bp):
TATAAGACTCAGGTATAAAAT
Left flanking sequence: Indices 78783 -- 79282
TAGCCGGCCTAAGGCATGTAGCCTTAGGAGGAGGCTGCCCCTGAATGAATGATTAAGTTTGACAA
GCCCTCCTGCACTTTCATAAAATTTTCAGTAAGCTCGCCAGAAGTTTATATTTCCATTTGAAATG
GAAGCCGAAAAATAAAGGGAGTTTACTATATGAATTTGTACTTTTTCACCCGGTTACTCATTCCG
GTTATATCGCCCAAGCAAATTCCCCGGCCCATCGCTATTTCATAGCCCGGTCACGGCAAGCATGG
TTTTATATTCAATAGATCGCTGGGTAAACAAACATCGATTCCGCCTTTTTGTCCCTTCGCAAAAC
CAGATTCGTCCAATACTATTTGTATTATCATCGCCTTCGGCTGTAGGAATAGTTACGGCACAACT
ATTACGGGAGATTTATACTTGTTTCTCTGATAGCATATGCCATTACGTCTTTATTTGTTGAACCC
GGGGAACGAAATGGAGTTATTCATATATATAGCATCAGTTTACTA
Right flanking sequence: Indices 79326 -- 79825
CTGAATGATAATCAACTCCAATTTTATAGAGCTTATAAGGATTCTTGGGGCGCAGGCGGTTTGAA
CGATGCCAACGGCACCCTTTAAAATCGTTCGGATTTAAATGGCAAGCGGATACCCAAACGTAACA
TGGGGAGGAACTGTGGGCTAGCAAACGCAGCGCCCCAACATGCCCCGGAAACATTGCCAGTCGCT
ACGGGTACGGGCAGACTAGCCACAGTTGTGGCTGTAGGAGCGTCGGTCGTCGGCATTGCAATCAC
TAGGACGATCGCGGACTCGAACGGATAAATTCAGAAGTCAAAAATGGTGGCGCTGAAGGAAAACA
GAATTTGGCTAATATGGCGTGGCATTGGAGCTTAGAATGAACCCGCCCGAGCACACGGCGGGGAC
AAGTTATCATAATTTGCTTGAAGACACACGGGCAGAGTTGGATATTGCACGCGCAGCACGTAACG
GAGCTAGGGCAAACTGGCAGAGCTTCATCGTATCGCACTTGCAGA
Found at i:80921 original size:6 final size:6
Alignment explanation
Indices: 80905--80988 Score: 96
Period size: 6 Copynumber: 14.0 Consensus size: 6
80895 ATGAGCTGCA
* * * * * *
80905 ATATAT CTATAG ATATAT CTATAT ATATAT ATAGAT ATATCT ATAGAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* *
80953 ATATAT CTATAT ATATAT ATAGAT ATATAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
80989 GATTTATAGG
Statistics
Matches: 62, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (6 bp):
ATATAT
Left flanking sequence: Indices 80405 -- 80904
CGAAATCCACCCGCTAACATGAAGGAAGCATTGCTAAATGACTAAATTTCGCTAATATGACCAAA
TCCCGAGGATTTGTAGATAAATATATCTAATGAATACTCCGGAATCCCCATTGCTAATGACACCT
TCGCTAAATAACGCATATTTAGCTAATATAACTAAACGGGGATCCGTACGGAGAGGAATACCCCT
TAATATGGAATTGAAGGGTCGGTAAAGGAATATATACTAGGAATCTATATGGGATATGGAAGAAT
TCCATATAATAGGGAAGAGTTAATCAATTGAATTGGAATAAATAGAATGGATTGGGAAATGAAAT
AAATTCAAATATATATATACATATATATTTGTGTATAACGGAGAAAATGCATAAATCGAAAAGAT
TCTATTATTTATAGGAGAAACTATTAAATTCATATTTATTCTTTCTCCGCCCATCTTCCAAAAGA
AAATGAGCTACTATTTTTCTTATTCGAGAGAGACGATGAGCTGCA
Right flanking sequence: Indices 80989 -- 81488
GATTTATAGGTCAGGGTAGGAGATAGCCTTGACCTCTAACCTTCGAAGATACTAAGGGCCTGAAT
CTTACCCGGGTCGGGTTACCACGTTCTTGAGATCTGTTATATAGGCCTCTAGTTTTCCGTTGGGA
AGGTCCAGGGACTTCCATCGTGAAAGTGACATAGGAACTCCGGGCGGGGATCATGGCACTTCTCC
CAGAACCTTAGGGACGCTTTCGCTGGGAGCCCGAACATATTTTTTTGGTCATGCGGTACGTAGGG
CCTGTAGGTCCCGTAACCATCTCGTCCTTATAGAGTTCGTAAACGGTGTCCGCTATATTCCGAAG
ATAAAGAATTATATCTGGTTGTTGGTCGCGGGGCGGGAGACTTGTTTTTGTGCGAGGGACGGCCA
CCACAAAACCGAAAAACTGTCCGACAAAACAAAGGGCACTTACGACCAACTATGCCTCGGAATAC
CCTTCAGTAACCTCTGGCTAATTATATAAATCTCCAAAACCTTTG
Found at i:80929 original size:14 final size:14
Alignment explanation
Indices: 80905--80988 Score: 96
Period size: 14 Copynumber: 6.0 Consensus size: 14
80895 ATGAGCTGCA
* *
80905 ATATATCTATAGAT
1 ATATATATATATAT
*
80919 ATATCTATATATAT
1 ATATATATATATAT
* *
80933 ATATAGATATATCT
1 ATATATATATATAT
* *
80947 ATAGATATATATCT
1 ATATATATATATAT
*
80961 ATATATATATATAG
1 ATATATATATATAT
80975 ATATATATATATAT
1 ATATATATATATAT
80989 GATTTATAGG
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 58 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (14 bp):
ATATATATATATAT
Left flanking sequence: Indices 80405 -- 80904
CGAAATCCACCCGCTAACATGAAGGAAGCATTGCTAAATGACTAAATTTCGCTAATATGACCAAA
TCCCGAGGATTTGTAGATAAATATATCTAATGAATACTCCGGAATCCCCATTGCTAATGACACCT
TCGCTAAATAACGCATATTTAGCTAATATAACTAAACGGGGATCCGTACGGAGAGGAATACCCCT
TAATATGGAATTGAAGGGTCGGTAAAGGAATATATACTAGGAATCTATATGGGATATGGAAGAAT
TCCATATAATAGGGAAGAGTTAATCAATTGAATTGGAATAAATAGAATGGATTGGGAAATGAAAT
AAATTCAAATATATATATACATATATATTTGTGTATAACGGAGAAAATGCATAAATCGAAAAGAT
TCTATTATTTATAGGAGAAACTATTAAATTCATATTTATTCTTTCTCCGCCCATCTTCCAAAAGA
AAATGAGCTACTATTTTTCTTATTCGAGAGAGACGATGAGCTGCA
Right flanking sequence: Indices 80989 -- 81488
GATTTATAGGTCAGGGTAGGAGATAGCCTTGACCTCTAACCTTCGAAGATACTAAGGGCCTGAAT
CTTACCCGGGTCGGGTTACCACGTTCTTGAGATCTGTTATATAGGCCTCTAGTTTTCCGTTGGGA
AGGTCCAGGGACTTCCATCGTGAAAGTGACATAGGAACTCCGGGCGGGGATCATGGCACTTCTCC
CAGAACCTTAGGGACGCTTTCGCTGGGAGCCCGAACATATTTTTTTGGTCATGCGGTACGTAGGG
CCTGTAGGTCCCGTAACCATCTCGTCCTTATAGAGTTCGTAAACGGTGTCCGCTATATTCCGAAG
ATAAAGAATTATATCTGGTTGTTGGTCGCGGGGCGGGAGACTTGTTTTTGTGCGAGGGACGGCCA
CCACAAAACCGAAAAACTGTCCGACAAAACAAAGGGCACTTACGACCAACTATGCCTCGGAATAC
CCTTCAGTAACCTCTGGCTAATTATATAAATCTCCAAAACCTTTG
Found at i:80932 original size:22 final size:22
Alignment explanation
Indices: 80905--80988 Score: 105
Period size: 22 Copynumber: 3.8 Consensus size: 22
80895 ATGAGCTGCA
*
80905 ATATATCTATAGATATATCTAT
1 ATATATATATAGATATATCTAT
80927 ATATATATATAGATATATCTAT
1 ATATATATATAGATATATCTAT
* ** *
80949 AGATATATATCTATATATATAT
1 ATATATATATAGATATATCTAT
* *
80971 ATAGATATATATATATAT
1 ATATATATATAGATATAT
80989 GATTTATAGG
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 54 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (22 bp):
ATATATATATAGATATATCTAT
Left flanking sequence: Indices 80405 -- 80904
CGAAATCCACCCGCTAACATGAAGGAAGCATTGCTAAATGACTAAATTTCGCTAATATGACCAAA
TCCCGAGGATTTGTAGATAAATATATCTAATGAATACTCCGGAATCCCCATTGCTAATGACACCT
TCGCTAAATAACGCATATTTAGCTAATATAACTAAACGGGGATCCGTACGGAGAGGAATACCCCT
TAATATGGAATTGAAGGGTCGGTAAAGGAATATATACTAGGAATCTATATGGGATATGGAAGAAT
TCCATATAATAGGGAAGAGTTAATCAATTGAATTGGAATAAATAGAATGGATTGGGAAATGAAAT
AAATTCAAATATATATATACATATATATTTGTGTATAACGGAGAAAATGCATAAATCGAAAAGAT
TCTATTATTTATAGGAGAAACTATTAAATTCATATTTATTCTTTCTCCGCCCATCTTCCAAAAGA
AAATGAGCTACTATTTTTCTTATTCGAGAGAGACGATGAGCTGCA
Right flanking sequence: Indices 80989 -- 81488
GATTTATAGGTCAGGGTAGGAGATAGCCTTGACCTCTAACCTTCGAAGATACTAAGGGCCTGAAT
CTTACCCGGGTCGGGTTACCACGTTCTTGAGATCTGTTATATAGGCCTCTAGTTTTCCGTTGGGA
AGGTCCAGGGACTTCCATCGTGAAAGTGACATAGGAACTCCGGGCGGGGATCATGGCACTTCTCC
CAGAACCTTAGGGACGCTTTCGCTGGGAGCCCGAACATATTTTTTTGGTCATGCGGTACGTAGGG
CCTGTAGGTCCCGTAACCATCTCGTCCTTATAGAGTTCGTAAACGGTGTCCGCTATATTCCGAAG
ATAAAGAATTATATCTGGTTGTTGGTCGCGGGGCGGGAGACTTGTTTTTGTGCGAGGGACGGCCA
CCACAAAACCGAAAAACTGTCCGACAAAACAAAGGGCACTTACGACCAACTATGCCTCGGAATAC
CCTTCAGTAACCTCTGGCTAATTATATAAATCTCCAAAACCTTTG
Found at i:88742 original size:12 final size:12
Alignment explanation
Indices: 88725--88758 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
88715 GGCATCGGAG
88725 GGCCCGAAGGGC
1 GGCCCGAAGGGC
88737 GGCCCGAAGGGC
1 GGCCCGAAGGGC
88749 GGCCCGAAGG
1 GGCCCGAAGG
88759 CCCCGAAGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.18, C:0.32, G:0.50, T:0.00
Consensus pattern (12 bp):
GGCCCGAAGGGC
Left flanking sequence: Indices 88225 -- 88724
CTCGATGGTATTTCTTACCAGTCTATGCGATTCCTCGAAGTATACCTAACAAATTAGGGGGTGTA
GCCGCCATAGGACCAGTTTTTGTGTCATTATTGGCTCTACCTTTCATTAACACTTCATATGTACG
TAGTTCAAGTTTTCGACCAATTCACCAAAAATTGTTTCGGTTGCTTGTAGCAGATCGCTTGCTTT
TAGGTTGGATTGGATGTCAACCTGTGGAAGCACCATATGTTACTATTGGACAAATCGCTTCAGTG
GGTTTTTTCTTCTATTTTGCTATAATGCCCATTCTTGGCAAATGTGAAGCCAGATTAATCAAAAA
TTTTAATGCTTGCTAGGCCCATAGGGCTAGCAAGCTTTCTTTCGGTTATTGTATTATTGCTGCGC
TACGCGCCTCCGGGCCTATGCAAGGCCTCGTAAGAGGAAGAAAAGCGCGCGCCAAAGGCCCGTGT
CTAATCCAACGATAAAAGGCGCCTTTTATCGTAGCGGCATCGGAG
Right flanking sequence: Indices 88759 -- 89258
CCCCGAAGGCGCTTGAGTAGCGGAACCCCTCCGGGCCTACTACATTGAGAAATAGCAATGATGTA
CTTTACTTTGGGCTTTCTACAATTATTGTTAGGCGCTGTGTTATTCATTACCACAGGAGGCGCGT
AGCGGGCGCCGCCTTCGGCGCCTTCTCTCGCGCCGCGCCCTCGGTGCCTCGTCCAGTGAAAGGAG
GAGCCGGCGCCGCTCGAAGGCGCTTAAAAATTGATATATATCAATTTTTTAAAAATATATATATG
AATGAAAAACAAATATATAAATATCTACCAGTTTTACGAAAAAAGAAAGATACGATTTATGGATA
ACCAATTGTTTTTCGAATCTCTAATAGCTACTCCACCGAAAAGGATACATGAATGTCGAACAGTA
TCTAAAGCACCTGAAAACTGCGCGAAGATGCCCGAGAGCATCCAATTCCGAGCATTTAGTGGAAC
CGGTGAACCATTTGTACGTTTGGATTTACGAATGGGGCAGAGGGC
Found at i:94617 original size:12 final size:12
Alignment explanation
Indices: 94600--94624 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
94590 TAGCCTCCCC
94600 GTAAGGTCGAGA
1 GTAAGGTCGAGA
94612 GTAAGGTCGAGA
1 GTAAGGTCGAGA
94624 G
1 G
94625 CGCCTTCGGC
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:0.32, C:0.08, G:0.44, T:0.16
Consensus pattern (12 bp):
GTAAGGTCGAGA
Left flanking sequence: Indices 94100 -- 94599
ACGCAGAGCTTCTTAGCAACTCATCAATCATAAAAAAGAGGAGGGCCCCGCGAATGAATAGGCCG
AAGAGGCGAAATCGTAGCGGTAGGCCTCGATCGAAGAGGGGGCGAAGCAGCGTCTATTTGCTTCA
CCCCTCCCCCCCTCTCAGGGTACCGGGTAGCCGTGTGGATGAAGCGGCTTATGAGAAAGGGAGAG
CATGGGCCGTAGGCCGCGCCGAAGAAAGGCGGTAGCGCGGTTGCCGGGATTGATTAGAAGCGTGG
CGCCTACTCAAGCGCGGCTTTCATCTTGGGTTCTGTACTTGATGTTGAATTTTATTTATTAATTA
TTTATCGGCGCGTTCTAAGGTACGTAGTATGGGAGAGGCACGTAGCGGTCAAAATAATGCGCGCT
ACGCGCCTTTCCCACTTTAGACCGACCGCTACGCGGTCCTTAATATCGCTACGCGCCTCCGCTAC
CGCCTTCGGCGCGCCTACGGCCCTTCGGGTTGGTTTAGCCTCCCC
Right flanking sequence: Indices 94625 -- 95124
CGCCTTCGGCGCCTAAGGTAGAGACTCGCTATCGCTACGCACCTATTCTTACCATACCCACGGAA
CTCGCAATAGTTTCATCAAAGAAGGGCCTACGGTATTTACCTTTAGGGCGGGACCCGAGTTTTCG
AAGATAAAAATATAATAGATAGATAAAATATGACATTGTCATCAAATATACAAATGAAACTCGAA
GGAATGCCAAATACAGACGCTTGGTACAAGCGTAGGCGCCAGTAATACCCAGGAGGGATTAAATC
CGCATCCGCCTCGGTCAAGTCCCTAACAGGGCGGGCTCCGCCCTATAAGGACTAAGTCTGTATAG
GGCGGAGCAGATCGGTGCTTAAGCTGCACGAATTGCTGAGACGTCTAAATGCTTTCTTTGATAGC
TGGAAGTTCTTCAAAAGTATGAAATGCTGGAGGGCTTGGGACCATCCATTCAAGTGTCGTTGAAT
TCTGTTCAACAGCCCAAGGGCTTGGAGCACACTTGTTTTCACTAG
Found at i:95159 original size:21 final size:22
Alignment explanation
Indices: 95134--95177 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
95124 GTTAGAGTAA
95134 GAAAAA-CCACTAC-AAAGAAAC
1 GAAAAATCC-CTACTAAAGAAAC
*
95155 GAAAAATCCCTACTACAGAAAC
1 GAAAAATCCCTACTAAAGAAAC
95177 G
1 G
95178 TATGAGCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.55, C:0.25, G:0.11, T:0.09
Consensus pattern (22 bp):
GAAAAATCCCTACTAAAGAAAC
Left flanking sequence: Indices 94634 -- 95133
CGCCTAAGGTAGAGACTCGCTATCGCTACGCACCTATTCTTACCATACCCACGGAACTCGCAATA
GTTTCATCAAAGAAGGGCCTACGGTATTTACCTTTAGGGCGGGACCCGAGTTTTCGAAGATAAAA
ATATAATAGATAGATAAAATATGACATTGTCATCAAATATACAAATGAAACTCGAAGGAATGCCA
AATACAGACGCTTGGTACAAGCGTAGGCGCCAGTAATACCCAGGAGGGATTAAATCCGCATCCGC
CTCGGTCAAGTCCCTAACAGGGCGGGCTCCGCCCTATAAGGACTAAGTCTGTATAGGGCGGAGCA
GATCGGTGCTTAAGCTGCACGAATTGCTGAGACGTCTAAATGCTTTCTTTGATAGCTGGAAGTTC
TTCAAAAGTATGAAATGCTGGAGGGCTTGGGACCATCCATTCAAGTGTCGTTGAATTCTGTTCAA
CAGCCCAAGGGCTTGGAGCACACTTGTTTTCACTAGTTAGAGTAA
Right flanking sequence: Indices 95178 -- 95677
TATGAGCCAAAACTACTAAAGGCATTCCATCCAGCGTAAGCATCTGGATAATCAGGAATGCGACG
TGGCATACCTGCAAGCGGTTTTTTCCTTATTTATCAAATGTTAATGGATTGTGACTAAATATTTC
TCTTTTGTAAACTTCATCTGGAATTAGTCTTTCAGACGTTTCGGTGTGTTTAAATCCCAATGTTG
AATCAGTTCTTTTCTTGGTATCAAGAACTGGTTCATAAAGATCGAAATAGTACTGTTCCCGAGCC
AAATAATCCTTTTCAGTAATAGTACCTGTTGAACCACATGACTCAATAATAACTAAAATTGTCAT
GACCATATTTCCAAATGGAATTATAAATATATCTGTTATCAGATAATTTATAAGGGTGATAGTAT
TCAGCAAGTCTATCGCTTAATTTATAACCACTACCTACATATTGTTTCCCATTAACTAAATTATG
CCAAAGATAGATTCCAGTTTCCGTTGGATAATAAGAAACGATTTG
Found at i:95160 original size:22 final size:22
Alignment explanation
Indices: 95135--95177 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
95125 TTAGAGTAAG
95135 AAAAACCACTAC-AAAGAAACGA
1 AAAAACC-CTACTAAAGAAACGA
* *
95157 AAAATCCCTACTACAGAAACG
1 AAAAACCCTACTAAAGAAACG
95178 TATGAGCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.56, C:0.26, G:0.09, T:0.09
Consensus pattern (22 bp):
AAAAACCCTACTAAAGAAACGA
Left flanking sequence: Indices 94635 -- 95134
GCCTAAGGTAGAGACTCGCTATCGCTACGCACCTATTCTTACCATACCCACGGAACTCGCAATAG
TTTCATCAAAGAAGGGCCTACGGTATTTACCTTTAGGGCGGGACCCGAGTTTTCGAAGATAAAAA
TATAATAGATAGATAAAATATGACATTGTCATCAAATATACAAATGAAACTCGAAGGAATGCCAA
ATACAGACGCTTGGTACAAGCGTAGGCGCCAGTAATACCCAGGAGGGATTAAATCCGCATCCGCC
TCGGTCAAGTCCCTAACAGGGCGGGCTCCGCCCTATAAGGACTAAGTCTGTATAGGGCGGAGCAG
ATCGGTGCTTAAGCTGCACGAATTGCTGAGACGTCTAAATGCTTTCTTTGATAGCTGGAAGTTCT
TCAAAAGTATGAAATGCTGGAGGGCTTGGGACCATCCATTCAAGTGTCGTTGAATTCTGTTCAAC
AGCCCAAGGGCTTGGAGCACACTTGTTTTCACTAGTTAGAGTAAG
Right flanking sequence: Indices 95178 -- 95677
TATGAGCCAAAACTACTAAAGGCATTCCATCCAGCGTAAGCATCTGGATAATCAGGAATGCGACG
TGGCATACCTGCAAGCGGTTTTTTCCTTATTTATCAAATGTTAATGGATTGTGACTAAATATTTC
TCTTTTGTAAACTTCATCTGGAATTAGTCTTTCAGACGTTTCGGTGTGTTTAAATCCCAATGTTG
AATCAGTTCTTTTCTTGGTATCAAGAACTGGTTCATAAAGATCGAAATAGTACTGTTCCCGAGCC
AAATAATCCTTTTCAGTAATAGTACCTGTTGAACCACATGACTCAATAATAACTAAAATTGTCAT
GACCATATTTCCAAATGGAATTATAAATATATCTGTTATCAGATAATTTATAAGGGTGATAGTAT
TCAGCAAGTCTATCGCTTAATTTATAACCACTACCTACATATTGTTTCCCATTAACTAAATTATG
CCAAAGATAGATTCCAGTTTCCGTTGGATAATAAGAAACGATTTG
Found at i:108080 original size:24 final size:24
Alignment explanation
Indices: 108043--108098 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
108033 TCATCGCCCT
* *
108043 TTATTTATCTATGATGATTCATCA
1 TTATTTATCTATGATCAATCATCA
108067 TTATTTAT-TAATGATCAATCATCA
1 TTATTTATCT-ATGATCAATCATCA
*
108091 TGATTTAT
1 TTATTTAT
108099 GATAATTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 1 0.04
24 27 0.96
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.50
Consensus pattern (24 bp):
TTATTTATCTATGATCAATCATCA
Left flanking sequence: Indices 107543 -- 108042
ACAGCGAAGAAATAACACACTTGATTTTCGGTGAGCAATTATTATATGATGATACATAAAGGGTG
ATATAGGAAATACCATAGTACGTGATACAAAAAATAATATAAAGCACGCATAACCGAACGAATTG
CGTCAAATAGGTAAAGTGATCGAGTTGAGGCTGAAAATGTAGGACGTTAGTTCTACATAACATTT
ATTTTCTACCTGCAAGAAAAATGGAAAGAATTGGAATATAAGCGACTTCTATAGAATTTTTTTAA
ATATGGGCTAAAGCCCCGCCGGGCGGTAGAGAAAATCAGAAAAGTTATAGCTAGAACCGGACCTC
GTGTTTTGCTCCCTTCTCGCGCATCTTTTTGTTTGTTTTCCCACCCGTTTTTGGCGGGAGTCGGA
TTCGAACCCACAACATTCAGATTATGAGCCTGACGAGTTACCAATTACTCTATCCCGCGAACAGC
CACCGAAAAAAGAGATATATTTTGGTTCTTTTTGTTCATCGCCCT
Right flanking sequence: Indices 108099 -- 108598
GATAATTTCTTACTAATGAGGATTCATCATTATTTATCTACGATAATTCATCCAGATTTTCTATT
AGTGATTATACTAGATTCAAACCAGATTTGTTCAGGTTCGAAGGGAGGGAAAAAGGGGCGCGCCG
CAGCCCGCGCTAGCCCACTGGGTTAAAGTGACGGATACAATTTTGGTGTTTACCCAACTAAAGCG
ATTGGCTGGAGACGAAACCACGGTGGCTTCCCTCCCCGCGCACAGGCCATGAATTGGGGGTGTTA
TGGAGGAGGCACGTAGATTACCTTAGGCAACAACGGTCCCGCTGCAATCGGTAACATAGTGAAAA
AGTACACAGGCACTACGTGCTTCTGATACTTCTTTTAGTTTTTGGCCGGAGCGATAATTTTATGG
AATACGGGAAGCGAGAAGGATGCAGGAAAGTTTATAGAGTGAGCTACGGGTTTTCAACCAACCGG
AGCTCCTCTTATATTACCTCGTCCGGAGGAGTCTGCGACCCCTAA
Found at i:118475 original size:13 final size:13
Alignment explanation
Indices: 118457--118482 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
118447 TCCCTACCCC
118457 AATAAGCCGTGCT
1 AATAAGCCGTGCT
118470 AATAAGCCGTGCT
1 AATAAGCCGTGCT
118483 CTAGTAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (13 bp):
AATAAGCCGTGCT
Left flanking sequence: Indices 117957 -- 118456
GTCAAGTGAAGTTGACATAACCTTTTTTTCATCAAAAACTAAAGCCAAACCTTTTAAATCAGGAT
CAAGCGCTCTAAAAACGTTTATTATCTCAAAACTCTTTAATAGTTAAAAATATAAACTTGTATTC
GATTGTTTGACGACCTTTATTTCTAATAAAATAAAGTTTGTATCCATTTCACTCGAACCCACCCA
AAAAAAATGGTGGCAATTTGACATCACAGGCCCCTTATTATACGTACGTGATGACACCCAATTTG
TCATCCATCACACGCACTTTAATATATGTGTGTGATGACACGCAAACTATTATTACATAAACTCT
GATCCTATCGTGCGCACAATCCACATTCCCAATTAACAAATTGATCACGACAATAGGATTTGCAG
GGTGGGTCGCCTTGCCCACCCAAAAGAATGAACTGCATCATCATAGACTCCCAGTCGTGATATTG
TCGAGGTCTATAATAAATTGTCGTGATCGTTCCCTTCCCTACCCC
Right flanking sequence: Indices 118483 -- 118982
CTAGTAACAACCGCCATAGTTAGTAGTTTGTCATCTTGGGAGTATATACAAAGGGGGGTGTATGA
TGACAGTTATTACGGTGCGAGTAGGGCCGCCCAGGCCCATTGAAAAAAAAGATGTATGAAAAGAA
TGAGTTCCTATCCCGAAAACAAGGCAGTTCCCTTCCAAATGTTCTTCAAATATTGTGATTATGAG
TTGAAGAAGTCGAGAGACTCTGAAAAAATATGTTAAGTTTGTATGGGAGTGCTTATCCCCCCTTC
AAACCCCTCAATATTAACTACCCTCCGTACGACCTCCCATTGTAACGAATGAATCTAGACACGAA
TTTACTCCTTTCTTTATCTTATAAAAGTCTCGAAATGGGTGCATTTTATTTTGGCTAGAATGGAA
TAAGATATTAGATAAATGCGGTATATTGGGCAGTCTGCTGTCCCAGGAAGTGGAACTCCCGTCAG
ACTTTTTGAAATACTTGAAATACGACCTGTTAGAAAAGTAGAATT
Found at i:129729 original size:21 final size:21
Alignment explanation
Indices: 129705--129751 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
129695 AGTGTACCCG
129705 AAAGGTAAATGGGGAATAGGA
1 AAAGGTAAATGGGGAATAGGA
129726 AAAGGTAAATGGGGAATAGGA
1 AAAGGTAAATGGGGAATAGGA
129747 AAAGG
1 AAAGG
129752 AAGATTTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.38, T:0.13
Consensus pattern (21 bp):
AAAGGTAAATGGGGAATAGGA
Left flanking sequence: Indices 129205 -- 129704
TCGGGGTGGTATTAAAAAATGATGTTATAAAAAAAGTACGTTGGTACGATTGAGTCATATTAATG
GTTGTGACAAAGCGTTTTTGGCTGACGCCAATCCTGTTGTTTCTCACATTCCTTTTTATTCCGGT
TCGAAAAGTCTAAGAAATGGCTAAGTAACATAAAGGTAATGTATTGGATTGCAAATCCTATAAAG
ATGGTTCGAATCCGTCCTTAGCCTACTTTACGATTCTATTGTTCCTGTAAATAACCCATTACCTA
GTACAAAGATCCCGACTAACTAACCTTTAAGCTTATCCACCGTATGCGACCAACGTAGACGGCGG
GAACAACCGGCCAGCGGCGAAAAAATATATATATTTTTTTTCAGTAGGAAATAGAAAAATATGGG
TAATGAAGGATATGACAGAATAAGCCCTGCCGTGATGGTTTAGACGGGGGATAGGGGGAAGGGGG
TTGCCCCCCCCTATCCCCCGGCTGAAGCTAGAAACAGTGTACCCG
Right flanking sequence: Indices 129752 -- 130251
AAGATTTAGTATTATTATTTATCCGAACATAACGGATAAGGAGCGGGGAATAGATAGATAGAAGT
AGGTCTTTCTCACGGATGGCGCGTTGGACGGCAGCCGGGGAGGGGGGAGGGGAACTGAGAACAAT
GAGATACAACCCTCTCTTTGTGAATTTCTCATTTAAATCCGGTGATTTGGATAGAAATGGGGAGT
TGCAACGGAAAATATGTATATGATTTGATCATATACATATATGAATGATCCGAATTAAGTAAGAA
TCGAGTCGATGGATAGACATCAACATTATTATTATTACTATCCAGTAGAATCCATAATCCAACAA
ATAAGGTCATTATCTGGGTGATGGAGAAATCAACACGAGGACGGGGTTAATTATGATGATCTCCG
ATCGTCATAATGATGATCAAGGATATTGAAAAGATATATCTGCTGTGCTGTATACATATATATGA
ATTTGAATCCTCGTCTTGATAATCATAATCCCGATGATCATAATT
Found at i:134076 original size:31 final size:31
Alignment explanation
Indices: 134038--134099 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
134028 CGAATAGAAA
134038 AAGGTCCAAATCGACACCACCTTTTATCTTG
1 AAGGTCCAAATCGACACCACCTTTTATCTTG
134069 AAGGTCCAAATCGACACCACCTTTTATCTTG
1 AAGGTCCAAATCGACACCACCTTTTATCTTG
134100 GACGTGTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (31 bp):
AAGGTCCAAATCGACACCACCTTTTATCTTG
Left flanking sequence: Indices 133538 -- 134037
GTTGTGCTGCTCAAGGGTGGTGCAAACATTCGAGAGAAGAAGCTATCGAAATCTTACCTACCCCA
CCGTCAAATCGTTACAACAGTGTACCAAAGTACTTGACGGTCCGGAAGACGGTAAAATCCGCTTG
GTCTGTATCTCCGCCCCGCGGCAATGGAGGACTTGGTGGATTTGTCCAATAGTCCAGTAATCGTG
TTTGGTCTTCGCAACTATCTCCTTTGGCGTGGTCATGCACCTCAAGTAAGCGAATTCGCCGCGGT
GTTGATAAAGCCCACCGTAATTCCAGTCTTTGGACCATAGCTTGAGAGCGACTTTTTCTTTTTTC
CCAAAGGCCCAGTCGACTCCGGCGGCCCGTTCACTGGCGGAACTTGTTTCCCCCTATGGCGGATA
GGTTTATGGTGACAACAGAAAAAGGTTGTGTTTCCGAAAAGCCTGTGAATATGTGGGTCACCGGG
TCGGGTTAGACTACGTTCGAGTACGAACCGTCTTTCGAATAGAAA
Right flanking sequence: Indices 134100 -- 134599
GACGTGTGAATATTAGAAAAGAAATCCTTGTATAGTGTATGCAAGTACAGGTGAGGAAAAGTAAT
TATATTTTCCGTTATATGAACGTGTTTCGGGGAATTAATTGAAATGCACTTTACAATCATATTGG
TTGAAACCATTGATTTCATTCGATAATCATAAAATAAAATCTCATATGAAGAAGGTATTGCAAAA
CCCGATGTCCGTCGACGCGGTCGACCTAAGAAGTAAATAAATTCCTTTGGTCGAGTGTCTCACTT
TGGTCGACCCTTGAATAAAGTGAGAAGAAAAACAGCCTTTTCTATTCCACGAAAAAGAAAAAATC
ATCTTTTTTGAATCGACAAAGCCGCGTAAGTTTCACTTTATAAAAAGTAAAATACTTCTCTTTTT
TTTCATTTCTGTGAAACAAGCGTTTCAGTAAAAGCGCAAAGGGCTTTACGAACTTTGGCTTGTAG
AACCGAGGTACCGGGGCTTAAACGGCTGGAACGTCGCGCAGCGCA
Found at i:143376 original size:18 final size:19
Alignment explanation
Indices: 143353--143388 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
143343 CGAAAAAAAG
143353 ATATAT-TTTTTTGCGCAA
1 ATATATCTTTTTTGCGCAA
*
143371 ATATATCTTTTTTTCGCA
1 ATATATCTTTTTTGCGCA
143389 TAAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.25, C:0.14, G:0.08, T:0.53
Consensus pattern (19 bp):
ATATATCTTTTTTGCGCAA
Left flanking sequence: Indices 142853 -- 143352
ATTAGCTGGTGAGGTAGCGCTTAGTTAGGCAGGGCTCAAGTCCTAGTCTGGGATAACAATGGGCT
GATTTTTCGGTGGCTGAGACGATACATAGTTGTACAAGGTACTATCCGTGTCTTACCATGAGCCG
CTTCGGGCGGCGGTTTAATTTATAAAATTTATATAAATGAATTCACTACAGCATAATTGGGGCCA
CTGTTTTTCTCAGCGCCTTGTATCATTAATCTAGTCTTTATGGTAGCCTGGCGCTACGCGAACGA
AGAAAAATATTTTTTTCGCTCTGCATGTTTCTAGCACTTCATCGGCAGGGCCCCAAGGGGACGGA
CTTCGTTTTGTCGGACACCACAATATTGAAATACTGTCCGACAAAACAAAGGGCTAAAGCCTTTC
AGTCCGAAAGGCGGCGACCCGATCGCAGCCTCTAAGCTCTCTGCCTCTTCTTGACAAGCAATCCT
CCGCAATTTCACGAAAAACTTTAGAGTATGGTCTACGAAAAAAAG
Right flanking sequence: Indices 143389 -- 143664
TAAATATTAAAGCTAACGGATGAGAGCCGCAGGCAAAATTAAATATATATTTTGTGACAAAATAT
TTAATTCTTTCGGCGAATAACGGGATTCGAACCCGTGTTTTCAGAGCCACAATCTGCAACTTTAA
CCCCTAAGTTATATCCGCCCCTATTTATGAATGAGATACTCGCTATCGGATTCGAACCGATATTC
CATTAGAAACAGATTTTGAGTCTGCCGTGTTTGCCGTTCCACCAAGCGAGTCTTGGCTTTTATTA
GGAATAGATGTAGAAT
Done.