Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_035549
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: 569915
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Found at i:57702 original size:14 final size:14
Alignment explanation
Indices: 57683--57713 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
57673 TATCTAAACT
57683 ATTGGATTAGCGGC
1 ATTGGATTAGCGGC
*
57697 ATTGGATTAGTGGC
1 ATTGGATTAGCGGC
57711 ATT
1 ATT
57714 ATAATTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.10, G:0.32, T:0.35
Consensus pattern (14 bp):
ATTGGATTAGCGGC
Left flanking sequence: Indices 57183 -- 57682
AAAGAGTAAGATAGGCAAAAAGGCATAGAGACAACAGCGGTAATGCCGCATCTCTCGATGAGAAG
GAATCCTGGCTTTATCAAACCAGCTCCTAAAGGAGCCTGGAAAGAAGAGCAAAGAAAAGCCCTTC
TTCTTCTGCCTTTTGACTCTATCTTGCCCTTTAGGGAATTGCGGAGTGAATGAGTGCAACAAAAC
AAGGAAAGAATGTCTTTCACTTTATTTAAACAAGGAAAGAAAGAAGGCTATAAGCTGCCTACATG
GAATTACTCTTCATGCACATTTCCCAGAAAGAGTATATTGCGATAATCGGATGCTAAGTCTCCCT
GGCTTCCTTCCTCCAGCGGATCTGTGGGCATTAAAAGAAGAAAGACTTTCAGGTTCTTCGCCACA
TTCAAGCTTAGGAAAGAAAGGCTCCCGTTCGTGCCCTGTAAGAAGGAAAATTAGAAAGGAAGGCA
TAGTCGAAAAGACTAGCAGCTTCTCTGTGCATGGATATCTAAACT
Right flanking sequence: Indices 57714 -- 58213
ATAATTCAAAAAGACTTTCGCGAAGCAGGAAAACAATCAGGTAATCAGGAAAGGCAGAAAGGGTA
GAGCCTTAGTTACCCGCAGCTCAAATAGCCAAGGTCGGTGGAAAAGGAATAGTACAGCTTGTTTG
GATAAAGGAAGCATTCATACTCGACCCGCGTCTGGACGCCCCTCTCGGGCTCACTTCCTGACAAC
CCAGCCCACAACAGGAAATGGACAGGCATTGACAAAAGCCGAAGCCTCTAACGATTTTTAAGCTG
GGTAACGGGTACCCTATCGGAAAGGGGTTTTCGTCTACCTCCCAAGCATATGGCGGGCTTATAGG
GCGCTGGTCTCCGTTAGGCTTTGAGTCTAGGAGTATAGCGATGGCTTCATCCACCGGTCCTACCA
TGGAACGAGTTTCTTCGCGCTTGGCCTTGAAATTTCGAGGCCCAAGACAAGAAGCGGCGTCGGAT
CCCGGTAGTGAGGTAGTACGCCCAGCAGAATGTCGTAGACATCGT
Found at i:61536 original size:12 final size:12
Alignment explanation
Indices: 61519--61543 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61509 GAAAGTATTA
61519 TATTAGCGTTGG
1 TATTAGCGTTGG
61531 TATTAGCGTTGG
1 TATTAGCGTTGG
61543 T
1 T
61544 TTTTCCAACG
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:0.16, C:0.08, G:0.32, T:0.44
Consensus pattern (12 bp):
TATTAGCGTTGG
Left flanking sequence: Indices 61019 -- 61518
AGAGGGCAAGGGTGTGTGGGAGCTAAACTAATAAACTAAAAGGGGAGAAGATCTCGTCCACCAAG
CGGGAACAGAGTGCGACCCCTAAGCAATTGGAGGTTCTCGCTCATCTCTTGTGGGTCCATATCAT
CTGAAAACTTGTCCTGTTCCATTAGCATAGCTAAATTTGAATAGGAAAAGCCTTTGCCTTGATTT
CATTTGGCTTCGCTGCGCCCTGAATCAATCAAAAAGCTTATTGATTCATCCCATTTCATTTGGGC
GAGAGGGAGGCTGTGACTCACCTGGGCTACGGATTTGTCGGTTGGTTGATTCTCGAAATCACCTC
TTGATAAAAAAAAAAAGCCCCTCGGGTCCCGACCCACAAATGAATAGGAAGCGAGGGTCTTTCAT
TAAAGGGGGAAAAGAGGGGTGGCCGCCTTTCGCAGCTTTAGAAAGGAGAGTTGAAAGTCACTCTC
TCAAATTTATTTTTTTCTATCTATCTTTAGCGAGAGAAAGTATTA
Right flanking sequence: Indices 61544 -- 62043
TTTTCCAACGCACTTTGTTTTTCTTTATCATTCAGAAGACTCAGTCCCACACTCTGACAAAACTT
TTAAAAAAGAAAGAGCTTTTTCTGAGGAAAGGTGAAATTGTATGAGAGATCAAGATAACGAAATC
CTTCTATACTACAATTCTTAGACCGGACCCACTCTGAGCGGGCTGCCTACGTATCTCTCAAGTGA
AAAAGAGGCGCGTTGTATGAGAGAATCAGGTCGCCGTACGTAGTTCAGTTCTTTCATTCACGATT
TGGAATACGGATAAGATCAGAAAGGCCATCATTAGGTCAAAGAATGGAATAGCTTCGGTTAGAGC
AAAGAAGTTACGGAAGTGGTAATCCATGTAAGCGACGAAAGTCTTCGTCTATAAAATGCGAATAG
AACCGCCTGTATGTGGACGAAGCCCGACCGTCTTGCCTAATGGTAGTCAAAATGGACGAGAGTCT
CTCGTCCATTTGTCTTCTTACCTCTTCGGATCGAAGGTCATTTAG
Found at i:75740 original size:15 final size:15
Alignment explanation
Indices: 75720--75749 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
75710 AGTAAACTAC
75720 CTTTATGATATTAAG
1 CTTTATGATATTAAG
75735 CTTTATGATATTAAG
1 CTTTATGATATTAAG
75750 GATTTTTCCA
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:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (15 bp):
CTTTATGATATTAAG
Left flanking sequence: Indices 75220 -- 75719
TGCTTGGCCGAGCCTCCCTACCGATGTCTCGATCCAGCACATTTAGACCAGTCCTTGCGGACAGG
ACAAAACTTCCCTTGGAGAAAGCCAGTCTGAGGGAACTGGATTGGTCATTCCACTATCACTCGAT
TATAGAGGGTTAGAGCCCTCTCTCTGAAAGCCCTCTTGATGCGATGATAAAATGGCTAGTATTCA
AGGCTAGTCCCAAGAAACCAAGCAAAATGGCTATCCCGATAAGAAGAAGAAGCCTGATCGGGCCA
AAAATGAAAGCAATCGAAGGAACGTACGTAGTCGCTATAGCGAAATGGGGTGGAACATGTTCTAT
TTTCCGAATCTTGAAAGATTAAAATAGAGGGATTGGCTTAACTTCCTCTATGCGGTTGCATACTG
CTTTGCTTGAGTAACGAGTAGGCCATTACGGATAGGCTGCTTTTGCTATTACTGAAGCTTTTAAG
AAAAAAAGACCTTTCCTTAGCGCAAGCACTAAGCAAGTAAACTAC
Right flanking sequence: Indices 75750 -- 76249
GATTTTTCCAATCATTAGAGTGGTGTCATCCCCTTTCATTCATGTCTGATGGATAAAAGTCCGTA
GGCCTAACAGTCGATTAGGTCAGTAGCGGAATGCCATTTGACCTACCTGAGAGGTTAAATAGCGC
GTTCAGGCACTCGGGAGAGGAGGAATCGAATCCCTATTGGAGTCCCACCCCATAGAAGGGGCTAA
CCTCCTCGTTAGCCTGCCTATGAATACGAGAATCTTAGTTATGTTCAAGCACTCTTTCGGTCGAG
TGAGTCACGTGCGTTCAAGTCAAACAAAAACAAGAGAAAGTAACTCGACCTTAGGCAGAGGTTTT
CAACCCATTCCATTGGGAGTCCCCTCATTCAGACGGACAAGACAGATGCCGAGGCAAGAAGCCCC
GCAAACGCAATTCAATAGGGAAGTGCGCCTTCCACCTTATTTATTCGAGTTTCAGATCTTGATGT
TACGGCCAGTGCCACGAGAGTTGAGTTGAGAAAGGCAATGAAGCG
Found at i:122972 original size:27 final size:28
Alignment explanation
Indices: 122928--123025 Score: 139
Period size: 27 Copynumber: 3.6 Consensus size: 28
122918 AGCCGGGATC
122928 ACTAA-CTAATACTAATCTAATACTAAT
1 ACTAATCTAATACTAATCTAATACTAAT
* *
122955 A-GAATATAATACTAATCTAATACTAAT
1 ACTAATCTAATACTAATCTAATACTAAT
**
122982 ACTAATCTAATACTAATAGAATA-TAAT
1 ACTAATCTAATACTAATCTAATACTAAT
123009 ACTAATCTAATACTAAT
1 ACTAATCTAATACTAAT
123026 AGAATAGAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
26 2 0.03
27 44 0.70
28 17 0.27
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.34
Consensus pattern (28 bp):
ACTAATCTAATACTAATCTAATACTAAT
Left flanking sequence: Indices 122428 -- 122927
GCCCCTTCTTCTTGCGCCAAAGATCTTACCATTTCCGAAGGAACTGGAGTTACATCTCTTTTCCA
GTTCCATTCAAGAGTTCTTATGTGTTTCCACGACCCCGAAATTTTGACAAATTCCTTTTCTTTTC
TTAGGAACACATACAAGGTTCGTCACTACAAACAAACAGGATAATGGTAACCCCACGATTAATTA
CTTCATTTATGAATTTCATAGTAATAGAAATACATGTCCTACCGAAACAGAATTTGTAACTTGCT
ATCCTCTTGCCTAGCGGGCAAGGATTTACCTCCATGGAAAAGATGATTCATTCGGATCCGCATGA
AAGCCCATGCATTGCCAGAATCATGTTGTATATTTGAAAGAGGTTGACCTCCTTGCTTCTCTCAT
GGTACAATCCTCTTCCCGCTGAGCCCCCTTTCTCCTCGGTCCACAGAGACAAAATGTAGGACTGG
CGCCAACAGTTAATCACGGAAGAAAGGACTCACTGAGCCGGGATC
Right flanking sequence: Indices 123026 -- 123525
AGAATAGAAAAAAAAGAATAGAAAATACTAATATAATAGAAAGAAAAGAACTGTCTTTTCTGTAT
ACTTTCCCCGGTTCCGTTGCTACCGCGGGCTTTACGCAATCGATCGGATCATATAGATATCCCTT
CAACACAACATAGGTCGTCGAAAGGATCTCGGAGACTCACCAAAGCACGAAAGCCAGGATTTTTC
AGAAAATGGATTCCTATTCGAAGAGTGCATAACCGCATGGATAAGCTCACACTAACCCGTCAATT
TGGGATCCAATTCGGGATTTTCCTTGGGGGGTATCCGTAAGGTGTAATAATATTGATTCATATAG
ATACAGAGGAAAAGGTTCTCTATTGATTCAAATGCTGTACCTATGGGATAGGGATAGAGAAAGAG
GAAAAAACCGAAGATTTCACATAGTGCTTTTGATCGAAAAATCAATCTGATTTATTTCGTACCCC
TCGCTCAATGAGAAAATGGGTCAGATTCTATAGGATCAAACCTAT
Found at i:122981 original size:44 final size:44
Alignment explanation
Indices: 122932--123026 Score: 190
Period size: 44 Copynumber: 2.2 Consensus size: 44
122922 GGGATCACTA
122932 ACTAATACTAATCTAATACTAATAGAATATAATACTAATCTAAT
1 ACTAATACTAATCTAATACTAATAGAATATAATACTAATCTAAT
122976 ACTAATACTAATCTAATACTAATAGAATATAATACTAATCTAAT
1 ACTAATACTAATCTAATACTAATAGAATATAATACTAATCTAAT
123020 ACTAATA
1 ACTAATA
123027 GAATAGAAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.34
Consensus pattern (44 bp):
ACTAATACTAATCTAATACTAATAGAATATAATACTAATCTAAT
Left flanking sequence: Indices 122432 -- 122931
CTTCTTCTTGCGCCAAAGATCTTACCATTTCCGAAGGAACTGGAGTTACATCTCTTTTCCAGTTC
CATTCAAGAGTTCTTATGTGTTTCCACGACCCCGAAATTTTGACAAATTCCTTTTCTTTTCTTAG
GAACACATACAAGGTTCGTCACTACAAACAAACAGGATAATGGTAACCCCACGATTAATTACTTC
ATTTATGAATTTCATAGTAATAGAAATACATGTCCTACCGAAACAGAATTTGTAACTTGCTATCC
TCTTGCCTAGCGGGCAAGGATTTACCTCCATGGAAAAGATGATTCATTCGGATCCGCATGAAAGC
CCATGCATTGCCAGAATCATGTTGTATATTTGAAAGAGGTTGACCTCCTTGCTTCTCTCATGGTA
CAATCCTCTTCCCGCTGAGCCCCCTTTCTCCTCGGTCCACAGAGACAAAATGTAGGACTGGCGCC
AACAGTTAATCACGGAAGAAAGGACTCACTGAGCCGGGATCACTA
Right flanking sequence: Indices 123027 -- 123526
GAATAGAAAAAAAAGAATAGAAAATACTAATATAATAGAAAGAAAAGAACTGTCTTTTCTGTATA
CTTTCCCCGGTTCCGTTGCTACCGCGGGCTTTACGCAATCGATCGGATCATATAGATATCCCTTC
AACACAACATAGGTCGTCGAAAGGATCTCGGAGACTCACCAAAGCACGAAAGCCAGGATTTTTCA
GAAAATGGATTCCTATTCGAAGAGTGCATAACCGCATGGATAAGCTCACACTAACCCGTCAATTT
GGGATCCAATTCGGGATTTTCCTTGGGGGGTATCCGTAAGGTGTAATAATATTGATTCATATAGA
TACAGAGGAAAAGGTTCTCTATTGATTCAAATGCTGTACCTATGGGATAGGGATAGAGAAAGAGG
AAAAAACCGAAGATTTCACATAGTGCTTTTGATCGAAAAATCAATCTGATTTATTTCGTACCCCT
CGCTCAATGAGAAAATGGGTCAGATTCTATAGGATCAAACCTATG
Found at i:123031 original size:11 final size:11
Alignment explanation
Indices: 122932--123031 Score: 91
Period size: 11 Copynumber: 9.1 Consensus size: 11
122922 GGGATCACTA
122932 ACTAATACTAAT
1 ACTAATA-TAAT
122944 -CTAATACTAAT
1 ACTAATA-TAAT
*
122955 A-GAATATAAT
1 ACTAATATAAT
*
122965 ACTAATCTAAT
1 ACTAATATAAT
122976 ACTAATACTAAT
1 ACTAATA-TAAT
122988 -CTAATACTAAT
1 ACTAATA-TAAT
*
122999 A-GAATATAAT
1 ACTAATATAAT
*
123009 ACTAATCTAAT
1 ACTAATATAAT
*
123020 ACTAATAGAAT
1 ACTAATATAAT
123031 A
1 A
123032 GAAAAAAAAG
Statistics
Matches: 74, Mismatches: 9, Indels: 11
0.79 0.10 0.12
Matches are distributed among these distances:
10 10 0.14
11 60 0.81
12 4 0.05
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (11 bp):
ACTAATATAAT
Left flanking sequence: Indices 122432 -- 122931
CTTCTTCTTGCGCCAAAGATCTTACCATTTCCGAAGGAACTGGAGTTACATCTCTTTTCCAGTTC
CATTCAAGAGTTCTTATGTGTTTCCACGACCCCGAAATTTTGACAAATTCCTTTTCTTTTCTTAG
GAACACATACAAGGTTCGTCACTACAAACAAACAGGATAATGGTAACCCCACGATTAATTACTTC
ATTTATGAATTTCATAGTAATAGAAATACATGTCCTACCGAAACAGAATTTGTAACTTGCTATCC
TCTTGCCTAGCGGGCAAGGATTTACCTCCATGGAAAAGATGATTCATTCGGATCCGCATGAAAGC
CCATGCATTGCCAGAATCATGTTGTATATTTGAAAGAGGTTGACCTCCTTGCTTCTCTCATGGTA
CAATCCTCTTCCCGCTGAGCCCCCTTTCTCCTCGGTCCACAGAGACAAAATGTAGGACTGGCGCC
AACAGTTAATCACGGAAGAAAGGACTCACTGAGCCGGGATCACTA
Right flanking sequence: Indices 123032 -- 123531
GAAAAAAAAGAATAGAAAATACTAATATAATAGAAAGAAAAGAACTGTCTTTTCTGTATACTTTC
CCCGGTTCCGTTGCTACCGCGGGCTTTACGCAATCGATCGGATCATATAGATATCCCTTCAACAC
AACATAGGTCGTCGAAAGGATCTCGGAGACTCACCAAAGCACGAAAGCCAGGATTTTTCAGAAAA
TGGATTCCTATTCGAAGAGTGCATAACCGCATGGATAAGCTCACACTAACCCGTCAATTTGGGAT
CCAATTCGGGATTTTCCTTGGGGGGTATCCGTAAGGTGTAATAATATTGATTCATATAGATACAG
AGGAAAAGGTTCTCTATTGATTCAAATGCTGTACCTATGGGATAGGGATAGAGAAAGAGGAAAAA
ACCGAAGATTTCACATAGTGCTTTTGATCGAAAAATCAATCTGATTTATTTCGTACCCCTCGCTC
AATGAGAAAATGGGTCAGATTCTATAGGATCAAACCTATGGGACT
Found at i:123585 original size:12 final size:13
Alignment explanation
Indices: 123570--123601 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
123560 AAAAAAAAGA
123570 AAAATAAATAA-T
1 AAAATAAATAAGT
123582 AAAATAAATAAGT
1 AAAATAAATAAGT
123595 -AAATAAA
1 AAAATAAA
123602 AATGAAGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 18 0.95
13 1 0.05
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (13 bp):
AAAATAAATAAGT
Left flanking sequence: Indices 123070 -- 123569
AAAGAACTGTCTTTTCTGTATACTTTCCCCGGTTCCGTTGCTACCGCGGGCTTTACGCAATCGAT
CGGATCATATAGATATCCCTTCAACACAACATAGGTCGTCGAAAGGATCTCGGAGACTCACCAAA
GCACGAAAGCCAGGATTTTTCAGAAAATGGATTCCTATTCGAAGAGTGCATAACCGCATGGATAA
GCTCACACTAACCCGTCAATTTGGGATCCAATTCGGGATTTTCCTTGGGGGGTATCCGTAAGGTG
TAATAATATTGATTCATATAGATACAGAGGAAAAGGTTCTCTATTGATTCAAATGCTGTACCTAT
GGGATAGGGATAGAGAAAGAGGAAAAAACCGAAGATTTCACATAGTGCTTTTGATCGAAAAATCA
ATCTGATTTATTTCGTACCCCTCGCTCAATGAGAAAATGGGTCAGATTCTATAGGATCAAACCTA
TGGGACTTAAGGAATGATGGAAGGGAATAAAAAAAAAAAAAAAGA
Right flanking sequence: Indices 123602 -- 124101
AATGAAGTAGAAGAACCCAGATTCCAAATGAACAAATTCAAACTTGAAAAGGATCTTTCTGATTC
TCGAAGAATGAGGGGCAAAGGGATTGATCGAGAAAGATCTCTTGTTCTTATTATAAGATCGTGTG
ATTGGATCCGCAGATGTTTGGTAAAAAAAAATCTTCTCTTTTGAGAATAATCAAAAATGGAAAGT
GTTCAATTGGAACATGAAAACGTGACTGAATTTGTCCTAGTTACTCTTCGGGACAGAGTGGAAGA
AGGGAGGAGATTCTCGAACGAGGAAAAGGACCCAATGACTTCGAAAGAATTGAACGAGGAGCCGT
ATGAGGTGAAAATCTCATGTACGGTTCTGTAGAGTGGCAGTAAGGGTGACTTATCTGTCAACTTT
TCCACTATCACCCCCAAAAAACCAAACTCTGCCTTACGTAAAGTTGCCAGAGTACGATTAACCTC
TGGGTTTGAAATCACTGCTTATATACCTGGTATTGGCCATAATTC
Found at i:151729 original size:17 final size:17
Alignment explanation
Indices: 151709--151744 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
151699 ATATCCTTAG
151709 CTTTCCTGTATCTCTTT
1 CTTTCCTGTATCTCTTT
* *
151726 CTTTCTTGTCTCTCTTT
1 CTTTCCTGTATCTCTTT
151743 CT
1 CT
151745 CTATCTTCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.03, C:0.31, G:0.06, T:0.61
Consensus pattern (17 bp):
CTTTCCTGTATCTCTTT
Left flanking sequence: Indices 151209 -- 151708
GGCAAGAAATGAAATCGAATAATTGTATGCCGATCGCGCCCTCTCTTTCAATTGAGCTGATCCCC
TCGCTTCTTTACCCGGTGACAACAATTTCTATTCATTACTGGGCTATTCCCACGTACTCACTGAC
GAACTGTACTAATTGGTGGGTTGATCCAGGTAGCTCAGATCTGGGAATGTACTACAGGGAGCATC
CTGACTAGTCTCATCGACATTTAAATAAGCATCCTGTTCCCTTCTGCTTCAGCATAGTAGACCTA
TTCTCCGAGAAGGAAGACCCTGTCCAGAAAAGTGGATTTCCCTGCTGTAGTATGAGTTGAGAGGA
TCAGACTTACGAGGGAACCTTCTCTAGTCTAGGAGCATTTCCACTATGTCTGTGTTCTTTCAATG
CCCCTTCCCAAAGCAAAGCAGGAAGAAACCTATGGCGCATTCTTCTCTTTCAAAAAAGCTTTGGT
ATTGCGCCTTTCTGTGCTCCCTTTCGCCCTTCGTTATATCCTTAG
Right flanking sequence: Indices 151745 -- 152244
CTATCTTCCCATTCCTTGTAAGAAGTCCTAGGAGCCAAGACAGTAAGGAAGCCAGTCTTTGGTCT
TTTAGTAAGTCTTTCCCTTCCTTGTACTAAGTAAGTAGGGGATCCTTTCTTTCTTTCTAAGATTC
TTTCTCTCCAGGCAAGCAAGGAAATAAGCAAGTAAGGAAGGGGGTCTGTGATTAATAGGTAAGCC
TGTGCTGCTAGTGTTAAGCTAGTGGTAAGGCAGCAGTAGGCCAATAATCCTTCTTTATAAGAGTC
CTAAATCCTAGGGTCCTCGTAGTCCATTAGGAAGAAGGGAAAAGAGCTTACCTCTGAAGACTGAA
GGAACAAGCGATTACTCTAAACCAAAGCGAACGCGAAGGGGTATCGGTAGTCCCTTTACTTTATT
CCTTGGCAGGAATAGCGGAAATGGTAACTCCAAACCCTTGAGTGGCTGGTTGAATGGATTTGGGC
GTATCTTAAATAAGGTAATTGATTGATTGAGTTGTTTCTGGATAA
Found at i:176445 original size:15 final size:15
Alignment explanation
Indices: 176421--176450 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
176411 CTTCTCTTAT
176421 ATACCATAACATAGA
1 ATACCATAACATAGA
*
176436 ATACCTTAACATAGA
1 ATACCATAACATAGA
176451 CCTGAAGCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.20, G:0.07, T:0.23
Consensus pattern (15 bp):
ATACCATAACATAGA
Left flanking sequence: Indices 175921 -- 176420
TACCACTTGCCTAGTATTTTACTGCTTTCCTTTCAAAAGGACTATCCATCTTATGAAAGGGAATA
CCTCTATTTGAAGTGAAGTAGTAAGCCAGCTAAGAAGTTATGCTTTTAGTCCGTTAGTGATAGTA
GGAATGACATTCAGCCAGTAGGAATTCATTAGGTCTTCCAAGCGAAGGAGTAGCAATCCGGTTCA
AAGCCAGTAGTACGCTTGTTAACACGTATGGGATATAGAATCTTTTTCCTAGTAGGACGGTCTCA
GTCCATGGCCTTTCGCCTCTGAAAGCGTCCTTCCTTCTCAATGCCCGGGCATCCATCCAATGCAT
TCTTTTCGATCTTGTACCCACGGTGCGGTACACTGAACACTCACCCAATCTTTATTTAAGTGCAT
TTGAATGAATCAACAAGCATACCTTTCATCTAGCCAGCAATCCTTTCGCACTTATCTTAGGAGAT
TGATAGTTCTTGAGAGATCACTCCTAAATGCGAGCCTTCTCTTAT
Right flanking sequence: Indices 176451 -- 176950
CCTGAAGCCAAGCCATTTCCTTCGCCCTTTCTTGTTAGTGTTGGGCATCTCCCTCTCGTCCTATT
GTGGTAAGTTCACCGTCAAGTCTTGGAAGTTAGGGTTTTGCAATCATTCCAATCCCTCTAGTCTT
GGCAGTTTCATTAAGCCATTCTGCTATCATTCTAGTTGTTAGTGAAGTGACTGCCGTTGTTGATG
TTCGATCGTGTAACTGTAACAGGCACCGCAGCCAATGAATGTCCTCAACTCGGAGAAAGGGAAGA
AGAGTGATTATCAGCATGTAAAAAAAACCTTGGGTCATTGGAGACCATTACTTTACGATCCGTCG
TTGGACTCAGGGGTTTATCTCATCTGAAGCTACCATTGACTCGGTGGCAGCTTGGGTTCGCTTGC
CAAAGATGCCACTATCATTCTATGCATCTTCTGCTTTTCAAGGTATTGGAGACTCAATTGGCAGA
AGGGCTCAAATAAATAAATAGGAAGACAAAAGCCGAGGGAAATTT
Found at i:225165 original size:28 final size:28
Alignment explanation
Indices: 225120--225175 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
225110 CCAAACCTAA
225120 GACAGTGTGGACTAAACCT-AACAATTTC
1 GACAGTGTGGACTAAACCTCAAC-ATTTC
*
225148 GACAGGTGTGGGCT-AACCTCAACATTTC
1 GACA-GTGTGGACTAAACCTCAACATTTC
225176 TACCGGGCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.25
Consensus pattern (28 bp):
GACAGTGTGGACTAAACCTCAACATTTC
Left flanking sequence: Indices 224620 -- 225119
GCCTGCTTAGGCCTGTTGATGGCGGATGGAAGTACCGAGGTGCGTTTGGTGATATCGTATAGTTG
ATCACGGCTGCATTTAGGAGTGATCTTTCCCTCTTTCTATCATAAGAGAAGAAAGTAGCATAGAA
CGTTTTGCTCCTCTATCGTTGGGAGGTAGAAGTTCAGTGAGAATTTATAAAAGTCCAAAAACATT
TAAAGTGTTGTGATCTGATACAAATCACTACTATTTAGTATGATAGAGTCCCCCATCCGCCGTGA
ACCTGAAATGAGTGTGAACTGGTACTTTCAGTTCAGCAACAGCCGGAGAAGCATAACTTCTCCTT
CCGGGTAAAAGGCCACGACAAAGACCAAGACCACCTATAACATATACCATGATCTTCATCTAGCA
AGAGAGGCTGGAAAAAATTCCTCTTGCTAGTAGTACCCTGTCTGTCTGTCTGTGCTTGTTTACTT
TCCTTGTCTTGTCCGGACATTGCCGGTTCCTCTCCCCAAACCTAA
Right flanking sequence: Indices 225176 -- 225675
TACCGGGCTTGGACAAAGTCCCTAAAAGTGCCCACTCATTTCCAACACCTAAAAGGATGGAAGGA
ACGGAAGGCTAAGGAAGGGAAAGGCAGGAAAGACTGTGCCAAAGAAATTAGTTTTCTATCTCTTT
GGTTTAATCGAAGAACCTAATGGATCGAACTCCGGGTGACTCGACAGCGTAACTCCGATCGGCGT
AGAACAAAGATTTAAACCATTCCGTATGATTAGAAAAAAGTCTTAGTTCCTCCGTTCTCCTTCTA
TAGTTCGGACATTTCTCCTTCTATAATTGCTCTTTCTCCGGGTCCTTCTTCCTCGTCCTCTGCTT
ACAGCTTACTCCTCGGACTCAGCTTCTGCCTTCGTCCCCTTGCGCAAACGACTTAACTCAGCCTG
TCTTTGAAAGTGCTTCGTAGCCTGCCCTGGATAAAACGATTGTTAGGCCATCGTCTTTAGATTTG
ATGGCTGCTTTTGATGCCTTGGCGGACGATGGTAGTATCCTTTGC
Found at i:259452 original size:24 final size:24
Alignment explanation
Indices: 259416--259481 Score: 123
Period size: 24 Copynumber: 2.8 Consensus size: 24
259406 TCTATGGCTG
*
259416 ACGGACTCTACGGCTGCTGACTAA
1 ACGGACTCAACGGCTGCTGACTAA
259440 ACGGACTCAACGGCTGCTGACTAA
1 ACGGACTCAACGGCTGCTGACTAA
259464 ACGGACTCAACGGCTGCT
1 ACGGACTCAACGGCTGCT
259482 CAAGGGGTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.26, C:0.30, G:0.26, T:0.18
Consensus pattern (24 bp):
ACGGACTCAACGGCTGCTGACTAA
Left flanking sequence: Indices 258916 -- 259415
CGCGCAACGGCTGAAAAGCCAGCAACTTGTTAGGAGTAGGTTTTGGCTTGCCCCTTTCTTATTAT
TAGTAAGATAGGTTTGGAACCCTATACAAGGGTCTGCTTGCTGCTCGCCCCTCTCTCTCTAAAGG
GGCTTCTCCGACCTCTGAAGAAAGAGAGTTAACACGACCAGGAAACGAAGCTAAGAAATGACCCT
CCCTCACCACGCGAACGGGAGCGAACGATCGAGATCCCATCGAACCCGATTCCATCGCACCCTCA
GCGCACCTAGGCGGGAGAAATCATCATAACACCTAGCATTTATCTGTATGCCACGCGAACGTTTG
AGGTCTGAAAGTCTCGAGCTAAAGCTCAAGTAAAGCGGCGAACGAAGATTGAAGTGAAGGAATGA
ATGCGTTCGGTTCGGAGCCCTATTCGCCAGGAAAGGCGTTTGGATCTGGTTTATCAAAGCCAGGA
TCTGGAAGCTTAAAAAACAGCCAAAAAAAACTTTCTCTATGGCTG
Right flanking sequence: Indices 259482 -- 259981
CAAGGGGTAAAGGTAAAGGATGTTTTCAAGCTAACGTAACGTTCGGAAGCGTAGTTGTTCTATGT
ACGATATTTCTTGCTTGGGGTCTAAGAGGTCTGAAACTCTCTTCGCTAAAGCTCGAGTAAAGCAG
AGGAGCATGATCACCCTATTTATTCAAGCAACCGCGAAGATTAGGTTAGTGTTCTCGACCGAGCG
AAAGCTAGAGGAAAGGGCAGAACCGGGGGGAAAAGCTCAAGTTCTTAGTACATCTTCTCTTGCAT
TTGACCGTCTTTTTCGGCATAATGAATATCTTATATAAGAATGTATCGGTGCTTACAGAAGTGAC
ATCTGATTCGCTGTAGGCGTATGAAGACAGAAAGATGAAAAGATTGAGAAAGCGGCGGGAAGGAA
GGATGTAGGAATGGCCAGGTTCTTCGAAGCCTGGGTCCGAAGGACTTTCCCTCGGTGTCCGACCT
CTTGCAACAAAAAGATTCATTCATTCAAATGCACCACCAAATGCA
Found at i:268973 original size:19 final size:19
Alignment explanation
Indices: 268949--268985 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
268939 AAAGTACACC
268949 GGCCAGCAACCTCATTCCA
1 GGCCAGCAACCTCATTCCA
*
268968 GGCCAGCAACTTCATTCC
1 GGCCAGCAACCTCATTCC
268986 TGGCTTTGAA
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:0.24, C:0.41, G:0.16, T:0.19
Consensus pattern (19 bp):
GGCCAGCAACCTCATTCCA
Left flanking sequence: Indices 268449 -- 268948
GAGCAGGGGCAAAAATACGATAAGTAGATACATAATTTCGAGTGTGATCAGACAACCAAAAATCA
GACAATGACAGAGCGGCCTGTGATGGAGTGATAGATTGATCGACGTCCGGAGAACGCTCGATCGA
AGGAATGAGTCACAAGGTGAATTGTAAGCCCCAACGACAAAGGAACGAGCATTTTCGGGGACTAG
CCCGCTTCAGAAAGTATCATGGTACGCCTGAGCCTGAAATGGAACTTTTATGTTGGAGGCATGAA
AGTCGATCTATTATGACCAGGGCGGTTTTGTTCGTGAAAAACTATAGTTTACTTTTGTTGGTTGT
TGACCAAGACATGGGTTTTTTCATTCAGCACGGTGCAGTCTCCACTTTGATGAGCACAGCACAGT
TCACGTTACAGCTACTTTGTTGTCTGCTACTATACTACGATATTTTGATCCTACACTCCTCAATC
TGTACACCTTTAGAGTTGCATTCGCTCTTCCAAACAAAGTACACC
Right flanking sequence: Indices 268986 -- 269485
TGGCTTTGAAAGTGCCTGGAAAAGTTATCGTTCGGGCGTTATGTATGTTATAAAACCACCTCCTG
GGAAAAAAAACTCTGTGATAACGCGAATTATTATAGAAATTATAATAGACAAAAACTTCATCATA
GGTAAGGCGCTTTCTTTTAAGATAGACAAAAACTTCATCACATCATAGGTAAGGCAAAGCGCTTT
CTTTTAAGAATGTATCTGGTTCTATCTTTCTTTCGTTACCACCTTTTTCTAAAAGTGATTGTAGT
AATTGAGGTTTTATACTTTTTGGAATAGCTCTCTCATATTGAGAAATTTTTTCTAATGGCATTCG
ATCACAGAATCCATTGACAGCAGCATAAATGACTAGAATTTGTTTTTCAATTGGCAGTGGTGAAT
ATTGTGGTTGTTTCGGTACTTCTGTAAGCCTTGCACCTCTATTGAGTAATGCCTGAGTCGCAGCA
TCAAGGTCTGACCCAAATTGAGCAAGGGCGGCCACTTCGCGATAT
Found at i:271475 original size:30 final size:30
Alignment explanation
Indices: 271439--271508 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 30
271429 GGATTGGAAT
271439 TTCATAAGAACCACATTGAAATCAATGCCA
1 TTCATAAGAACCACATTGAAATCAATGCCA
271469 TTCATAAGAACCACATTGAAATCAATGCCA
1 TTCATAAGAACCACATTGAAATCAATGCCA
*
271499 ATCATAAGAA
1 TTCATAAGAA
271509 ATGCCAAGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.46, C:0.21, G:0.10, T:0.23
Consensus pattern (30 bp):
TTCATAAGAACCACATTGAAATCAATGCCA
Left flanking sequence: Indices 270939 -- 271438
ACGAATGATCATGAACCCTGTCCGAACGAAGCGCTTTCTCTATCTGAAGCTCCGTTCGGAATTGG
GTTTCAATGATGGCATCATAAATACTATCGGGCAAGGGATGCCCGATAGTATTTATGCGAAGACG
ATCACCGAGCTCCACACGCCTTTGTCCGTCTTCCTGTAAGGGAAGATAATCCATAGGCGCTGGAT
TGGGAGCCGGTTCCGGTGCAGGATTGGGAGAGGTCGGGTCCGGTGGCGCTTGGTTTACGCTGGCT
TCCGGTCCTGGGGGGTTTACGCTGGTCTCGGAATTCCCAGTGGAACTGCTTCCAAATAAATCAGT
CCACCGGAACTCACCTGAGCCAGAGGCCCCCGAAGGAGCCATCATCTTCCCCATGGTTTCCGGAT
CCGGATCCGGATTAAACAAAAGGACTAAAAATAAAATTACACAACCCCCACACCACCCCAAGCGA
CTAAAGAGGAAGTGGAGAGACTTCCCCAGAAGCATGGATTGGAAT
Right flanking sequence: Indices 271509 -- 272008
ATGCCAAGTAGATAAAAAGAAGCATGAACAAGACTATCGAGATTCTGATCAAATAATTCGACATT
CGAAGACTCGCACCCTCATACATCTTACTATGGCTTACTACAGGTCTTAGCACATTTGTTTCCCC
ATTCTTTCGGCTGGGAAACTGGCCGTTTGTTTTTGTGGTGATGATGGTCATAATTTACTTTGTGT
TTGTTTTTTTAAAACGATACGATAAAAAAATTAGAAAGAACTCATATACGGAACGAGGGCGACCC
GTGGAAATACATCGGTTTCTTACTCGTGCAAAGGAACTATTTCTTGGCAACTTGGACAACTTATA
ACGATGTTTGTCCCGCATATCACTAGGAAGATCGGGATCTTTACAAAAGGCTTTATAAAGCTTTC
GTCTCAATTCATATTTAGCCGCGAGCAATCTACGTTTGTGATCTCGTATATTTCGCTTCTCCGAC
ATCTTACTGAGTTTCCCCCTCATCTTTTTGCAAAAAGCCGCTCCA
Found at i:288285 original size:21 final size:21
Alignment explanation
Indices: 288259--288301 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
288249 ATGTTTCATT
**
288259 CAACCAGTCAAATAGGCTAAA
1 CAACCAGAAAAATAGGCTAAA
288280 CAACCAGAAAAATAGGCTAAA
1 CAACCAGAAAAATAGGCTAAA
288301 C
1 C
288302 TCGCTCCCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.23, G:0.14, T:0.12
Consensus pattern (21 bp):
CAACCAGAAAAATAGGCTAAA
Left flanking sequence: Indices 287759 -- 288258
GCCTTTGTTGGTAAAACCGGCTGTTGCAGTTAAGCGCCCAGCCTCCCAGGCAGCAGTGAACATAC
GAGTGAAGAATAGGTCTGCTAATACCTACCTCACAATAGTGGTTAAAATGTTTTTTCATCATGCG
GGGGCAGGATTCGAACCTGCATTCTACAGATCATGAGCCTGACGAGTTAACCATTACTCTACCCC
GCTTCTTCCCCTTATCCTTCATCGTCGTTAGTCCTTGTAAATCGATGACTTTCTTCTCTTATGAT
AATACCTTACCACTTTACGGTCTACCGGAATTGAATAAGACTGGTAGGAAGACTTCCAGTGGGCT
TGGAATGATTACTTGAGCCGGTAAGCAGTATCAACCACACTTCCATTCACTCACGGAACAATAAA
AGACTTGACAAAGACTTGACATCGCTCCTCACTCAACGAAGACGGAAAAGGGTCGGCTAGTGTCC
CTAATCGAATGAGTGGCTACACGCCCGAGGAGAGAATGTTTCATT
Right flanking sequence: Indices 288302 -- 288801
TCGCTCCCTAGCTTTCAATAGCGGCAGTGATTTTCTTTTGTCGGATGGAGCAGGGAAGAAAGGCT
AGTTCGTCAAGTCAATTGAATCCTTCGGGACAAAAAAGTCCGAAAAGAGGGGCGCCCCTTGTTTT
GCTTCCTCGATTGTGCTTTTTTTGTGAAAGAACCGGCAAGGTTCACCCTTTGTCCCGGGAAGTCC
TAGAATGAGTAACTATCAAAGCATCACCGAAGGCGGAGCCTGATTGTCTACCACACCAGCAGTGG
AGAGGGATCTGATCATGCTATCTCCAATCTCTGCCCTCTAATTGAGAAATTGGTCAATAAGCACT
TTTGGATCAAGTCAAGACTTAGACTTATAGTAGGTGTAGCTGAGTAAGGAGCTGAACTACCTTTT
TGGCGCCCTAAGGAAATGAATTCCTTTCAATTCGAAGTATAAAACTGGGTTTTTCGTTCCTCAAG
CTCGTAGCTAGCCTAGGATGAGAAGTAGCAGTCTCAGTCGGGTCA
Found at i:348580 original size:15 final size:15
Alignment explanation
Indices: 348550--348579 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
348540 TTTCTTCAGA
348550 TATTTTTATTTCTTT
1 TATTTTTATTTCTTT
348565 TATTTTTATTT-TTT
1 TATTTTTATTTCTTT
348579 T
1 T
348580 TTACGGCCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (15 bp):
TATTTTTATTTCTTT
Left flanking sequence: Indices 348050 -- 348549
CCTGTGTGAAGCAGCCTAGCATCACTTTAGATAGAAGCAGAATGGATGACTTACAACTGAAAGTA
AGTTCTTCGGATCGATATCTCGTACGACGTAATGGAGATCTTGGTCTAGATCCGGTGGTTCGCAG
AATTCGGGACCTAACGATGTTCGGTTCGTCCCATGAACGGGAGCGGACAATTCCCTTTTCGGGGA
ATGGCTGCAATCACAAGCAAGTGATTGAATGAGTGGGGGGCTCCGAAAGCACATGCGGGATAAGC
AGGTATTTCAGGAGACGGTCTAAAAATGGGTCCGATTCAAAAAAAAAGAGAACTCTCAACAAGCT
GGAACTAATCAAGATCAATAGGAAGAGGAGTTAGCTAGGAATCTATTGACAAAGTTCATGCACCT
ATATGGAAGGGCAGTTTTGTTGATGTATTCCTGTCGAGAATGAAGAAGAAGAAAAAGAGCCTTTT
CAACCGGCCCAGATCTATTATCACGAACCCTAAAATTTCTTCAGA
Right flanking sequence: Indices 348580 -- 349079
TTACGGCCTCCATACTAACATTTTTTAATTCCTATCATCATCGTCGCAGCTTGCGAGTTTGAGGA
AGATAAGGTCGATTCGATGGAGGTGCAGCAAGCCCTCCCCCCGGTGCCGGAAGCTTCTGAGCCAC
TACCACTAGCTCAGGAGCCTGTTTCTCCTTCGTTTGAAATCCAAGCTGCTGAAGTCAACCAAGAG
GACATCTGGAGGGAGTTCGAGCAGCAGGAGCAACCGGCACCAACGGGTGGAGCTAAGCTAACAAG
GCCTCACATATGCGAAAGCTCACCCCATTGGAAAATCAGGTAGCTGACCTTATTATCGATTTACG
AAAATCCGAAGCCTAATAAGATTCAACAAATCGTCGAAATGCTCGAAGAAGAAAGAATATGGTCT
GGAAAAGCTGCGCACAATCAAAAAGCACAACCAACAATATGGCAGAAAGAGTGTATTTTTTAGGA
ACTCCAAGGAGTGCTTTAATATGTTCTTGAGAACTATAGTCTCAG
Found at i:355609 original size:17 final size:18
Alignment explanation
Indices: 355578--355611 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
355568 TGCTCTTTTT
355578 AGTCGTTTCCACTCCTTG
1 AGTCGTTTCCACTCCTTG
*
355596 AGTCG-TTCCTCTCCTT
1 AGTCGTTTCCACTCCTT
355612 TCGTTCCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.09, C:0.35, G:0.15, T:0.41
Consensus pattern (18 bp):
AGTCGTTTCCACTCCTTG
Left flanking sequence: Indices 355078 -- 355577
TCCTTTTCTGCGAAAGAAGTTCTTGCCCTTTCGATCTTATAAAAAGCATTTTTTGCCCATCGTTT
GCACATCGATACATGCCTGCTACGCTTCCTCCTTGTCGGCCTAATCCGCTATCTTATCTCTTTCT
TATTTTGGCATCTAGAAAATAATATCTGTGTCAAAGCAAAGAGCTTATTCGAGAACTTGCAAGCA
ACCTTCTTTCACAAAGAACCTATTGCTGCTTACTTTCCTCTCGCTAACGCTCGACTCTTGCAGAC
CCTCTCTTTCTTAATGAAATGGATATAGATGTCTCGACTGCCGAATCCTTATCCTGCAAAGAACT
CGATTCTGTTGATTCACTGTCCATTTGTCCTTCAACCGGATTAATGGTCAACGACTTTGACAGCC
TTTCCTTCACACAAGGTTTTGAATCCTTCTCCCCCGCTTGAAATGAAAGCTTCATCTTTATGACA
TACCTGCATCCCTTGCCCCGGACAAGCCCTGCTCCTGCTCTTTTT
Right flanking sequence: Indices 355612 -- 356111
TCGTTCCATTTCATTCCACTCCTTCGGTTTCACCTTCCGTTGTTGATTCCTCTTCCGGAACTCCT
ACTTCAGGCTCCCCTTTATGATGGTATTTCACCTGGAGTAGAAGAATATGGAAAGGTTTCGAGGC
CTACTATAGATGGTAAGCTAATAGGTCTATGGCTCCTGTCCGCTCTTTTGTTATCGTAATCTTTC
CTTAGTACCTAAGTAAGCAAGTTACCTTTCTTCCACAAAGAAATGATTTCTATTGACCTCCTGCA
TGTGCAAGGTATACCCTCCCAGGCCCAGGTCAGGTGGGGAGTCCTTTGGTTTTGGAGGAAAATCC
TACTTCTCAGAGCTTTATAAAGGCTTAATTGAGAACGGGATACAAAGCCCTTATTTCGTTCGTGC
GTTGCTGACTATAATGTCCCAGATCCGTAGTCCTCATGATAAGCTTCATCCCACGCCTTTCTTGG
AAAAACCAAGGCGATTGAATTGAATTAGCAAGTCTCCCTTTTTCT
Found at i:398671 original size:28 final size:30
Alignment explanation
Indices: 398639--398694 Score: 82
Period size: 28 Copynumber: 1.9 Consensus size: 30
398629 TTTCTCGTGA
398639 GCTTTC-CTCTGAGA-CTTTCAG-GCCTCTC
1 GCTTTCGCTC-GAGATCTTTCAGAGCCTCTC
398667 GCTTTCGCTCGAGATCTTTCAGAGCCTC
1 GCTTTCGCTCGAGATCTTTCAGAGCCTC
398695 AAACACCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 10 0.40
29 10 0.40
30 5 0.20
ACGTcount: A:0.12, C:0.34, G:0.20, T:0.34
Consensus pattern (30 bp):
GCTTTCGCTCGAGATCTTTCAGAGCCTCTC
Left flanking sequence: Indices 398139 -- 398638
ATGATCCTATGTTCGTTTTCGTTTCGCCCTTCCCTTCTGATCGAATCCGAACAATAAATATCATA
TAGAAAGATCTACGCGTAGTTCGTTCGAGCATATTTACTTCCCTCTCACATTCTCTTTCAGACCC
TGGCGTTCTTCTCAAACTCCCAGAAAGATAGCTAGCCCTAGTACAGTACGGAAAAAGCCGAACGA
AGGGACACTGGACATCTGTGATCCCTGGCGACGAACGCTTTAGCTAGAGCAACTCTTTCAGACCC
TCTGCCTAGGCGGCGAAGACTTTCCTCCTGTTAGACTTTAGACCACTTACCGAATATTACGAAGG
CAGACTAAGTATCCATTGAATGCATGCTCCTCTGCTATCCTGAACTTCTTTTGCTTTCGTCTCAA
ACCAAACCGCCATAAGCTTTCCGATCGCTAATGCTCGAGACTTTAAGACAAGACCTCGTACGATG
ATGGTCGAGATACAGTGTAACCTCAAACTCCGTTCTTTCTCGTGA
Right flanking sequence: Indices 398695 -- 399194
AAACACCCTTTGGCCTTGTAGCTGCCCTTGGAGCTGAGCACTCCCCTTATCAAGCAGAGCTTGAG
CAGCCGACTAAACCCATTGATAACAACACCACGCGAACCTCAAACTAAACTCCGTTCTTTCTCTT
TTCTTTCGCTTTCTTCTCGCGACTTCACACCAACAAAATAAGAGCGATTGCCTCGAATTGATTGA
TTGAGTTTTCGCCCTGGCTTTATCATAGCAGATCGTTTAGAGTCTGGGGAAAGCTTTCCCTCCTG
ATCTGATCCGGGCCTCTGGAAAAGTGAACGTTTAGATCCTCGCCTGGCGTAAGGGTGCTAAAATC
CCGTAGTATAACAATTATTCCTCCTATGCTTTTAGGTGCGCTGGCGGGTTGCATAAAGAAAGGAA
GGAAATAGACTAAAGTATTCTAGTTATTTGCCCCGCGTAGGTGTCTCAGGAATCTTGTAGTGAGG
GTGGCGTAAACAAAATACTACATGTTAACGTGATGGATCCCACGT
Found at i:447225 original size:12 final size:12
Alignment explanation
Indices: 447208--447232 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
447198 CGTTGGAAAA
447208 ACCAACGCTAAT
1 ACCAACGCTAAT
447220 ACCAACGCTAAT
1 ACCAACGCTAAT
447232 A
1 A
447233 TAATACTTTC
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:0.44, C:0.32, G:0.08, T:0.16
Consensus pattern (12 bp):
ACCAACGCTAAT
Left flanking sequence: Indices 446708 -- 447207
CTAAATGACCTTCGATCCGAAGAGGTAAGAAGACAAATGGACGAGAGACTCTCGTCCATTTTGAC
TACCATTAGGCAAGACGGTCGGGCTTCGTCCACATACAGGCGGTTCTATTCGCATTTTATAGACG
AAGACTTTCGTCGCTTACATGGATTACCACTTCCGTAACTTCTTTGCTCTAACCGAAGCTATTCC
ATTCTTTGACCTAATGATGGCCTTTCTGATCTTATCCGTATTCCAAATCGTGAATGAAAGAACTG
AACTACGTACGGCGACCTGATTCTCTCATACAACGCGCCTCTTTTTCACTTGAGAGATACGTAGG
CAGCCCGCTCAGAGTGGGTCCGGTCTAAGAATTGTAGTATAGAAGGATTTCGTTATCTTGATCTC
TCATACAATTTCACCTTTCCTCAGAAAAAGCTCTTTCTTTTTTAAAAGTTTTGTCAGAGTGTGGG
ACTGAGTCTTCTGAATGATAAAGAAAAACAAAGTGCGTTGGAAAA
Right flanking sequence: Indices 447233 -- 447732
TAATACTTTCTCTCGCTAAAGATAGATAGAAAAAAATAAATTTGAGAGAGTGACTTTCAACTCTC
CTTTCTAAAGCTGCGAAAGGCGGCCACCCCTCTTTTCCCCCTTTAATGAAAGACCCTCGCTTCCT
ATTCATTTGTGGGTCGGGACCCGAGGGGCTTTTTTTTTTTATCAAGAGGTGATTTCGAGAATCAA
CCAACCGACAAATCCGTAGCCCAGGTGAGTCACAGCCTCCCTCTCGCCCAAATGAAATGGGATGA
ATCAATAAGCTTTTTGATTGATTCAGGGCGCAGCGAAGCCAAATGAAATCAAGGCAAAGGCTTTT
CCTATTCAAATTTAGCTATGCTAATGGAACAGGACAAGTTTTCAGATGATATGGACCCACAAGAG
ATGAGCGAGAACCTCCAATTGCTTAGGGGTCGCACTCTGTTCCCGCTTGGTGGACGAGATCTTCT
CCCCTTTTAGTTTATTAGTTTAGCTCCCACACACCCTTGCCCTCT
Found at i:515569 original size:17 final size:17
Alignment explanation
Indices: 515526--515571 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
515516 GCAGTAAATG
*
515526 GAATAAACTAAGCAAGA
1 GAATAAACTAACCAAGA
*
515543 G-ATCAACTAACCAAGA
1 GAATAAACTAACCAAGA
*
515559 GAATGAACTAACC
1 GAATAAACTAACC
515572 CCAAGGGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.52, C:0.20, G:0.15, T:0.13
Consensus pattern (17 bp):
GAATAAACTAACCAAGA
Left flanking sequence: Indices 515026 -- 515525
TCTCTAAGCAGCCAAGGCCAAGAGCAAGCAGGAGTAGTCCTATCTGCCTATAAGGATTCGATAAA
GAGAATGTGAGTGGGCAGGAGATCAATAAACACAGAAAGCGAAGAGCAAAAGGAGCAGAAGGCAC
TCAGTTGTTTATGTGAAATCAAGGAGCAGCAGGTTACACTTTTACACTTTCCCAAAGCAAAGAGA
GCTCAAAGCAATAAGATGAAAGCTGGGATGAGATGCTAGCCTTAGCTAGGAAGATCCATCATTGA
GCCTTAGGCCACTACCGAGCAGAAATGGAGGATCATAACACTTGAGAGATGATCCCTACTTGAAA
AGGCGGAGACAATACCTCTTGTTGCGACAAATCGAGTTTCAAAAGCCCATTTATCAATCACATTT
TCAGGCACACCAGTCAAAGAGCCATCGGACCCATTAAAGTCCCCTTTTTTACTAATATACAAGGC
CTTTGCCAGGATGTCTTTCATCAAGCAAAAGAGGGGCAGTAAATG
Right flanking sequence: Indices 515572 -- 516071
CCAAGGGATGATCTCGGATTGAAATCCAAGGCATGGTCCCATTGAAAGCCCAGGGAAAAATTCCT
AAAACAGAAAAAAAAAAGATTTTAAGTCCAAGGGGGCGATAGGATGGATTTTAAGTCATTTTGGA
CGAAGCAGCGGACAGACCTAGAAATTTAGTACGCGTGAGACCTAATTTATCATCTGTAAGCCTCT
CCCTTCTACCCTCCCTTAGTAGTGGTCCTTTTCAAGCAAAAAACACGGGTTTGGGCGACCTCTTG
CCTCCATTTCCAACTGGCGAAGGGCAGGTTGGGAGCTGGGAAGAATACGAATCTTGCAAGAGGTG
CCATCCTGACCAGGAGGAGGTGATGGGGAAGCTGCTGGTTCAACCGACCGAGGGGAAGCTGCTTG
CTGACTTATACTCAATTGAAGGGTCAAGTATTAATCAAATAGTTCAGTTGTTGCGCCCTATATCC
TAGTAAAGTTCGAACCGTTTCCAGAGCGAAGGATTTCGATCTTAG
Found at i:528063 original size:24 final size:25
Alignment explanation
Indices: 528017--528066 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
528007 ATATTTATTA
*
528017 AATTATTATTTATATATTATATAAT
1 AATTATTATATATATATTATATAAT
*
528042 AATTA-TATATATATATTTTATAAT
1 AATTATTATATATATATTATATAAT
528066 A
1 A
528067 TAGTTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
AATTATTATATATATATTATATAAT
Left flanking sequence: Indices 527517 -- 528016
TCTGCAGATCCAGTGTTTGAAGTTATTAGAGTGTGTTTCGATTTTCGATTTAAGAATTCCACAGT
TCAGACAGAGACGTTGTTGAGTATGTGGCTTGACTTACTCCAGGGTGACTCAAGTCTCGATTGAG
CAGTCATTTTTCATAGTCACGGGTCCTGCTTTAGCACTGTTTCACATTTGCAACTGTAGAGGGCG
GTTTGTGACCTTCCCATTTTCCAGTGAGGGGACCGAAAGGTCGGTGAGAGATAGCAATAAGATGC
ATCCATTTCTAAATTCAGTGTCTTGTGGATGCTATCTATGAGGTAGTTAGACACGCCCCTTGGGG
GATCTGTTGGGTCTTTTAAAAAGACTCAATCAAAGGGCACAAACAAATGAAGGGAAAGCCTGCTG
TTTTTCTGAGGTTGGGTTTTGAGATGAGAGTAAGATACACACGTCGAAGAAATCCGTTGTCTAGA
GAGAGTGGAGTGATCTCAAAGAGTTTTCAATTATAATATTTATTA
Right flanking sequence: Indices 528067 -- 528566
TAGTTTTATTTGATTCGAAAAACTATATTCTAGTTTTTCTTGCCCCTTTACTTGAGACTTTCATT
CCCCTTTGATAGCTCTTTTTTGGGAAGGATCGAAGATCGGATATATCGGCTCTATTTTCCTATCG
GACCTGTGAAAGTACTTGCCTAACTGTGAGAACTCGTTAGCCCTTATCAATTATTGTACGCCAAT
ACTTGAAAAAGAACTCCCGAAATTTTGAGTTCCACGTCTGCCTTTCACCGGTGTGGGATCAAGCC
CTTCTACTAGCCCCCCAAGAGCTATATCGGTGGCACTCGGGATCTACGACTTATTTAGTTACGAT
AGGACGACTAATCAAAATTAAGCTTCCTTCCCTGGAAAAGCAACTGAACCTGAACCTTCGCTACG
TTCCAGCTAGTCGAACTACCTCGGTGAACCAGAGAAAGCATTTCTATTCAAAGCAATCCACCCAA
GCCAAGGAAGGCTAGCTAGTCTCTAGGGGCTGAATCTATAGAAAT
Found at i:550304 original size:36 final size:36
Alignment explanation
Indices: 550257--550330 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
550247 CCCATGATCA
550257 TGGAGATTGGATTGGAGAGAGGATTTATAACTGCAT
1 TGGAGATTGGATTGGAGAGAGGATTTATAACTGCAT
550293 TGGAGATTGGATTGGAGAGAGGATTTATAACTGCAT
1 TGGAGATTGGATTGGAGAGAGGATTTATAACTGCAT
550329 TG
1 TG
550331 AGTGAAATGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.30, C:0.05, G:0.34, T:0.31
Consensus pattern (36 bp):
TGGAGATTGGATTGGAGAGAGGATTTATAACTGCAT
Left flanking sequence: Indices 549757 -- 550256
TAGCAGATGAGTGATTCATTGCCAAAAGACTATAGATGCATGGTAAACTATTTCTACACCTCCTT
TCGCTTACTAGGCAAAAGGGCCTAGATTCCCTCCCTTGGCTTGATTCACAGCATCATAGAGGTGT
AAGCAGCAGATCTTACAAATATAGCAAGAAATTCTTGATCAGACATCCGCCCATAGGCGAAACAT
TCAAAAAAGATCTTGCATAGAAGACAACCTGTATTTCAGATCGGGTGTTCTTTGCTTTTTCATGA
GGAAATACTGCTCTTTTCTTTCATTTGCTGTTGCTAACACATCTTTGATCATGACTATGCAGATG
GTTGTCCTTACGGCATATGCTTACTTATTATATGGAAGACTTTAGCTATCTTTAAGTGTTTTAGA
GCAATCAATAATTAGGTTAGCTAGGGCGAAGGGAGAAACTGCCTTGAAGGCAGCCATGGCTTCAG
AGTCTGTAGTTCAACTGGGACTTCTAATGGCCTTGCCCATGATCA
Right flanking sequence: Indices 550331 -- 550830
AGTGAAATGATCATCATGCAGTTGCAACTAGCAGCTGTGTTCTTCACTTTCTCTCTTGGGACAAA
AGTACACTATTATGGGCGTACCATCTTTTTCGGTGGAGCCAAGTATAGAGCCACTGGACGTGGTT
TTGTTGTCCGGCATGAGAAATTTGCTGAAAATGACTCGATAAGCCATTTCTCGAAAGGGCTAGAG
CTTATGATGTTGCTGATTGTATAGGTCAGCAGTATCTGGTTCCACGGCCTATATACTTCTGACTG
GCTCCATGTGGTTCTTAGTTTTATCCTGGTTATTGGCTTCCTTCATTTCATATTCAACCCTTCAG
GATTTGAATGGCAGAAGATAGTAGAAGATTGGGATGAATGGCAGAAGATAGTAGAAGATTGGGAT
GATTGGACGAAATGGATTAGTAGTCATGGTGGTATTGGTATGCCAGCAACCAAGAGCTGGGAGTC
GTGGTGGGCTGAAGAACAAGAGCACTTGCAATACACAGGATTTAT
Found at i:550696 original size:30 final size:30
Alignment explanation
Indices: 550660--550722 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
550650 CTTCAGGATT
550660 TGAATGGCAGAAGATAGTAGAAGATTGGGA
1 TGAATGGCAGAAGATAGTAGAAGATTGGGA
550690 TGAATGGCAGAAGATAGTAGAAGATTGGGA
1 TGAATGGCAGAAGATAGTAGAAGATTGGGA
550720 TGA
1 TGA
550723 TTGGACGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.40, C:0.03, G:0.37, T:0.21
Consensus pattern (30 bp):
TGAATGGCAGAAGATAGTAGAAGATTGGGA
Left flanking sequence: Indices 550160 -- 550659
AGGTTAGCTAGGGCGAAGGGAGAAACTGCCTTGAAGGCAGCCATGGCTTCAGAGTCTGTAGTTCA
ACTGGGACTTCTAATGGCCTTGCCCATGATCATGGAGATTGGATTGGAGAGAGGATTTATAACTG
CATTGGAGATTGGATTGGAGAGAGGATTTATAACTGCATTGAGTGAAATGATCATCATGCAGTTG
CAACTAGCAGCTGTGTTCTTCACTTTCTCTCTTGGGACAAAAGTACACTATTATGGGCGTACCAT
CTTTTTCGGTGGAGCCAAGTATAGAGCCACTGGACGTGGTTTTGTTGTCCGGCATGAGAAATTTG
CTGAAAATGACTCGATAAGCCATTTCTCGAAAGGGCTAGAGCTTATGATGTTGCTGATTGTATAG
GTCAGCAGTATCTGGTTCCACGGCCTATATACTTCTGACTGGCTCCATGTGGTTCTTAGTTTTAT
CCTGGTTATTGGCTTCCTTCATTTCATATTCAACCCTTCAGGATT
Right flanking sequence: Indices 550723 -- 551222
TTGGACGAAATGGATTAGTAGTCATGGTGGTATTGGTATGCCAGCAACCAAGAGCTGGGAGTCGT
GGTGGGCTGAAGAACAAGAGCACTTGCAATACACAGGATTTATGGGACAGTTCCGGGAGATTGTT
CTTTCTATATCAGTATGGAGTTGTGTACTGTTTAAGATTGTGTTCATGGGTAGAAAGAAGTTCAG
TGCGGATTACCAGCGAATGTTCAGACTTCTTAAGCTTTTCCTCTTCATTGGCTTTATAGTCACGC
TAGTTATCTTATTCTTATTCTTAAATCTGACAGTTGGAGACATATTTGTTAACTTACTGGCCTTC
ATGCCTACAGGATGGGCTCCTTTATCAGTATGCTCTCTCTATTTATCTGGTGAATTCGGTAGCAG
TAAAGTAAGAGCTTAGTGTGGTTAAGCCGGTGCCAGGGTCAAAAGTTCTTCCATCCCCGGGGATC
AGATCAGGCAGAGCCTATACGCCTTCTTCCTTTGCTTGCATCCTT
Found at i:552556 original size:69 final size:69
Alignment explanation
Indices: 552470--552624 Score: 301
Period size: 69 Copynumber: 2.2 Consensus size: 69
552460 AGTTCCGTTC
552470 CGTTTTCCCGTGTTTTTCGGCATAGATCCAATTTCCTTCCCTACGCGAGAAAGAAAATAACAAAA
1 CGTTTTCCCGTGTTTTTCGGCATAGATCCAATTTCCTTCCCTACGCGAGAAAGAAAATAACAAAA
552535 GTTA
66 GTTA
552539 CGTTTTCCCGTGTTTTTCGGCATAGATCCAATTTCCTTCCCTACGCGAGAAAGAAAATAACAAAA
1 CGTTTTCCCGTGTTTTTCGGCATAGATCCAATTTCCTTCCCTACGCGAGAAAGAAAATAACAAAA
552604 GTTA
66 GTTA
*
552608 CGTTATCCCGTGTTTTT
1 CGTTTTCCCGTGTTTTT
552625 TGCTTACTTT
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 85 1.00
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (69 bp):
CGTTTTCCCGTGTTTTTCGGCATAGATCCAATTTCCTTCCCTACGCGAGAAAGAAAATAACAAAA
GTTA
Left flanking sequence: Indices 551970 -- 552469
GGAGTCCGGCTTCATAACCATATATAAATAAATTCATTTTCGAAAAGGGCCGTTCTACTCATGAG
TCCGATTGAAAAGAGCACATGCGCAAGCACAGACCTTTTGATAACTGAGGATTGACTTCACTCAT
TCTAACCGCAGAGAACGAAGAGGAGACTCGGGGGCAAAGAGACCAAACCCTTGAACCTCCATCTT
TCTTCTTCATCAAGGCGCGAGAGAGAGAGTTGATACTCAACTCACCTCCCCTCTGAAAGAAGGAT
TCGGTAGGTGGGGGGACGAGAATAAGAATGACGTAATCAATAAAATAAAAGATTCCCCGGAAAGC
ACGGAAACAGACCGTCAAGGGGGGTCAACTCAGAGGGAAGACTCTTAGTGCACTCGACCCTCTAT
GTCTGATTTTCGACCTGAGAGATCAGCCTTCCTAAGAAAAGCTGTCCAGCGAGCCTATGTCATAA
GTAAATCCTTTTTCCTGCCACACGACACGATCCCCAGTTCCGTTC
Right flanking sequence: Indices 552625 -- 553124
TGCTTACTTTTCGTGTTATCTCGGGGATTTTGCTTACTTTTGATCGCTTTGAAACTCCATCTTCG
AAACCAGGGATCGAAGAACCAGATCGGAAAGACCCTGGCGGAAGGTAAAGGCGTTTAAAGGAAAG
CGTTCGCCTCTTTCTTTGAAACCCGTAGGAGCCTTCCACTGTGGACCGGGACTACGCAAACAAAG
AACAAAGGTAGAACACCATAGACACTTCGCTGACTTCCCTTGATTTCGCTACGAAAAAGAATCAT
CCAGAATAGCGGGAATCGGTTCGTGTTCCGTTAATGTTCAAGGTGGTCCGAATGTGGGGAAAGGA
CAGGTATCGTGCTGAAGGAAGCGACCTCGTGAGGAAAAGGGGACTGATTGAGTAGTGTACTTTAC
GGAGCGAATCTACTCGTGAGGTGAACTGAATGTGGTGAGTACTTTCTACTCGTGAAGGGGAACAT
ACATCGTAGTGTACTTTTGCTGATTCAGATCCTTCGGCTTCCTCG
Done.