Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_035978
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: 159061
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Found at i:12847 original size:21 final size:21
Alignment explanation
Indices: 12818--12882 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
12808 CAACCCTTGC
* *
12818 TTTAATCTCTTGATTTATAGA
1 TTTAATCTCTCGATTTATGGA
* *
12839 TTTACTCTCTCGACTTATGGA
1 TTTAATCTCTCGATTTATGGA
*
12860 TTCAATCTCTCGATTTATGGA
1 TTTAATCTCTCGATTTATGGA
12881 TT
1 TT
12883 CGTCGTATAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.23, C:0.17, G:0.12, T:0.48
Consensus pattern (21 bp):
TTTAATCTCTCGATTTATGGA
Left flanking sequence: Indices 12318 -- 12817
ACTTACGAGGTTTCAGATAATGTATCTGAAACCTCGTAGGCAAAAGGGGTAAGACTGGAAGCGTA
AAAGGAGCGCGTCTGCCGTATAATGGGAATCATTGATTGATGGCGCTTCGAAAGATGGAGATTTG
GTTAGAGTTTTTACATATCTCATTACGAACATATATCGTCACGAGTCTCTATTTTGTTTTCCAAA
TAGCCATAAAAATCAAAGGGTCCAAGGTCTGTCCGACCATCTGACCTCAGCAAAGAGGTGGAAGT
ACCACCCGCGCAGGAATAGCTAATCCAACCGGTTACGGTCCGTGAAGTCTTCTCCAACGGGCCAC
AAGATTAGATGAATGGTTAAATCCTGACGATTTTCATCCATTCATCTAATGTGGTGGCCCATTCC
CACCCATTTATCTAATATGGTGGTCGAGAACTCCTGTCGGATCCCTTACTTCGTGAACTCATATG
ATTAAATATTATTATTTGCTCCAAATTTCCGGATTCAACCCTTGC
Right flanking sequence: Indices 12883 -- 13382
CGTCGTATATGCATATATAATGATTAGAATTTGCTCCCACCCAAATTTATTGATTTATGTATTAT
TATTTCCGTATACACAAAATAGAAGGCTTATGTTATCCGTGCTCCATTACGCTTCCCTCTTCCAT
TATCTCTTTACCCGGCTCGGTCTTCCGTTTCATATTATTCTTTCCCCCAAATAGCATCTCATATG
CGTTTGTGCCGACGCTGTTGCGAAAATTTTTAATCTGCCGCGGGTCCGGTCCTTTATTGGACGAT
TTTATTGACTCGATATAATTGGCTGCATCCACCTTGTTCTTAATGGGTTGCCCCTGGTCGAGTCC
TCCATCGAATAATACAACGCTTAACTCCGGTAGCCATTCGCGGATGCTGGATGATTGCCGATGTG
AGCTGTCGCATAACCCCGATCTACGAAGTATTCCACAAATTGCTTTGTCACTACCTCGAGGGAAG
CGCAAAGGCTAGAATTAGGCCTAGAACGTATCAACTGCAAACTGC
Found at i:14527 original size:22 final size:22
Alignment explanation
Indices: 14500--14565 Score: 132
Period size: 22 Copynumber: 3.0 Consensus size: 22
14490 CGAATCCTGC
14500 CTCTCCCAACTATACTTCGTAT
1 CTCTCCCAACTATACTTCGTAT
14522 CTCTCCCAACTATACTTCGTAT
1 CTCTCCCAACTATACTTCGTAT
14544 CTCTCCCAACTATACTTCGTAT
1 CTCTCCCAACTATACTTCGTAT
14566 TTGGGAACTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.23, C:0.36, G:0.05, T:0.36
Consensus pattern (22 bp):
CTCTCCCAACTATACTTCGTAT
Left flanking sequence: Indices 14000 -- 14499
CATGTGTTGAACCTGATCAGAACCGGAGAAACGCAGAGCAAAGAAAAAGATTTTTTGTTCGTTTC
ATTCCAGTTTCATTCCATCGGGCCCTTTCTTCCCTTTTAGCCTCCATTCGCGATGCGGATAAAGC
GGGAGAGAAGAAAGAAGCAAGCTTCTTCCTTCTCCGGAATTCACTTTTTTTTTGCGAAATGGTTA
GTAATGTGCCGCATTCTTAGCTCAGTTGGATAGAGCAACAACCTTCTAAGTTGAAGGTCACAGGT
TCAAATCCTGTAGGATGCGTAAAGTGTGCAATGAATAATATATATCAACGGTACATCCTTTTACT
TGTTCGATTAGTCCATGGGACCAACGGTACACGCGTGGATTGACCCATTTTTCGTCAGAGTCCCG
TTGCACCGCCGGAAAGTAGAAGCTTACTTATCATAGGGAGAGTGGCCGAGTGGTTAAAAGCGACA
GACTGTAAATCTGCTGAAGGTTTTCTACGTAGGTTCGAATCCTGC
Right flanking sequence: Indices 14566 -- 15065
TTGGGAACTAGAGGCTGGGATCCAAGCCTCAGAAACCACGATATCGACGGGGGTAGTGTTTGTCG
GATTATGCCCACGTTTTTTTTTTTTCATCGAGTCGATGTTCGCTTCCCATTTATCTTTCACCAAT
TGTTCCCGATTTAGCCGCCGAAGGGAAAGGATCTAATGAAACTAAAAGCGAGATGTCCGCCAGGA
CCCGTAGAGTGGAGATACAACCGCAATGTCATAGTTCTGTATTGGCCACCGCAAGAGCCTATGTC
GTATATATAACGACACCGGGGCAAATTGTAGCTGTTGGGCCAAAGAGAAGTACTGGGGGGGGGGT
TACAAGGCGATGGATGCAGCGGAGCCAGCAATAATCGCAAGAGCAAGTTATTAGCTATACAAAGA
GGGATCACGTTCTAGATGTCGGCCCTATAGAAGCATCTAGTAGCCCGAAATCTCTGAAGAGAAAG
AATACGCGTCCTTTATCGACTATTTCATAGTACTTACATCCTTGA
Found at i:37345 original size:2 final size:2
Alignment explanation
Indices: 37332--37373 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
37322 CCGGAAAGAA
* *
37332 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37374 GCTGCGCCCG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Left flanking sequence: Indices 36832 -- 37331
CTCTGACGGATCTCAGATTGGCTATGACCGACACGGAAGGGTATGCGGTTTGCTCCCTGTTAGGC
CCTTGGATCTCTAGCTATGAGAAAAATCGAACAGGCGGACAAAGCGGCGGCTTGAAAGTCTTCTA
GCTTCTCGAGCGAGCTATGGGGTACGGCGCAGCACAAAATAGTTTTAATTAACTTGGTCCACCTG
CCCTGGCTCCCCCGGCGAAACTTCCCAAGGATGCTCAAACTCTGCAAGGCGATAAGTATAAACTC
TGGAATCGAAAAACAGAGCAACCCGATAAATACGAGATCATTCTATGCCCCGTCTTGCGTGGCTC
CGGCTGTTCAGCACTATAAAAAAGAAAAAAAGGCTCCTCGCCCGCTCTTGATAGGATGAAGAAAC
ATATTCTGTTTATCCGGAGATACCACCCGCCGGAGGCCCATAAGGAAGACTGGGGGGGAATCATA
AGGAGGACCTAGGGCAGATCATTGGTTTTCGAGAACCGGAAAGAA
Right flanking sequence: Indices 37374 -- 37873
GCTGCGCCCGTAGTGAAAGAGGGACCAAAGTAAGTAGAGTTAGTGAGCCGTGTAATGGGCAACTA
TTTCGCACGGTTCGGAGGGCACTTCAGTAGGCCCTACATGGGCCGAAGTCTTGACCCCTATTCCT
TTTGATGATGCCAGAAGTCGTTTCGATATACGATTTTATCTCGTTTCTATTTTATTTATCATATC
CGATCCGGAAGTCACCTTTTTATTTCCCTGGGCAGTTTCTCTTAACAAGATTGGTTCGTTTGGAT
TCTGGTCTATGATGGTATTTTCACTTATTTCGACGATTGGATTTGTATATGAATGGAAAAAGGGC
GCTTTAGATTGGGAGTAACTCTTCATTCGCGAAAGCGAATGGAGTGGAAAGAAAAAATATAGGCC
CGTAGGGCTGAAGCTCTCATCGCTCTCTCCCTCTCCGGACATTTTTTTTTTCCAAAGGACACGAA
ACTTGCCGGGTATCGCGCGCGGATTCCAGCCAGAAAGAATTTTGG
Found at i:42587 original size:17 final size:17
Alignment explanation
Indices: 42565--42601 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
42555 ATAATTTGCG
42565 TATTCGTTGAGTTCCAT
1 TATTCGTTGAGTTCCAT
*
42582 TATTCGTTGAGTTTCAT
1 TATTCGTTGAGTTCCAT
42599 TAT
1 TAT
42602 CTTACCACGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.19, C:0.14, G:0.16, T:0.51
Consensus pattern (17 bp):
TATTCGTTGAGTTCCAT
Left flanking sequence: Indices 42065 -- 42564
TTTACAGAACTATGGAGCTGGAGCCGGTTTGAAGGAAGCCATGTTAATTATGATGAAGTTGCGTT
TTGGTTAAGGCCTGTCCCAACAACGCCAGCCGCGATATGCCACAGGTCGCTAGGTCCCAACCTGA
CAAATGGGTTTTTGCGAGTTACATAATTGTCAAACGTGCGGGCTGATGGGAACCCCATGGCGCGG
CGGCTCCGGGAGCATGTTCTTATAACGCTATCCTAGAAAGCCTTATCCATTATATTGAACCAGTT
GGAGAGGGTCAGGATAACCTGGTAATCCAACACTTTATTTCATTCTCCTTCTATAAAAAATTGGT
GTCTTTGCTGCCCTGCCGAAACAGACTTTTATCCGAGTTATAAGGTGGATCGGCCACACGTTCGA
ACATGTAAAACCGCAGAAGTTAATGGAACCGCGCCGCGTGCAACGCATGGCGCCTCCTCGTTGCA
GTCGGGTTGCCTTCCGCCAGCCTTCTTCGAGAGCGATAATTTGCG
Right flanking sequence: Indices 42602 -- 43101
CTTACCACGCGCTTCGTCGAAAGGTCTGTGGAACACGACACAGGGCCTGTAACCAGGACCAAGAA
TATTTGCTATTTGATACGTCGCGGGTAGATTCGGCATTTGGATTCGGGAATCATCTTGACTTGGC
TGATTCAATATACGTTCGAAAATTTTGTCCGGACTCACAGGCATTGTACGGGGTTTGCACTGGGG
AGCCAAGTAGTGCTTGGCTTCGATTAACTAAAATTTGCTTGACATATGATGTTGAGCTGAGCTCG
ACTTTGTTATCTTCAAGCTTCAATTTGTACGTGCACTTCGGATACCCCGCGTGTAGCGTTTGAAC
AGGGTTTTGGTAGTGATAGATGAAGAAGACCTCGCCCTCGGTTGGTTTTCCGAAACCGGGGAAAT
CACATCAAGCGAGTGAGCGCGCTTGTTTGATGCCCTCCTGCATGCTCCAGTAGCAATCCCTCGCC
ACGCGCACGATCCGATTAGTTGATGTACTTCATCGACGTATATGA
Found at i:61296 original size:27 final size:27
Alignment explanation
Indices: 61266--61321 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
61256 ATAAACAATC
* * *
61266 ATGCAAGAAAAGCAGGGTATTACTGAT
1 ATGCAAAAAAAACACGGTATTACTGAT
* *
61293 ATGCAAAAAAAACACTGTATTACTTAT
1 ATGCAAAAAAAACACGGTATTACTGAT
61320 AT
1 AT
61322 CCAATCAACT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (27 bp):
ATGCAAAAAAAACACGGTATTACTGAT
Left flanking sequence: Indices 60766 -- 61265
AGGGAAAAAAAAATAAATCATGTCATATATTTTAGGAACCAATCTGAATTCCAATAAACAGGTGA
AAATTGCCTTAACTCGAATCTTCGGAATTGGGGCCAAAAAGGCAATTCAAGTTTGTGATCGATTA
GGCCTCAGCGATAACATTAAGGTTAATAAGTTAACTAAATATCAATTTGACCAAATTCTGGAAAT
AATAAGTCAAAATTATTTAGTCGATTCGGAATTGGAGAGAGTCATTCAGAGGGACATCAAGCGAT
TAATTAGTATTGGTTGTTATCGCGGGTTTCGCCATAATGCAGGATTGCCCTTACGCGGCCAACGG
ACTCATACTAATGCTAAGACTTCCCGCAAATTTAGAACCATTTCGATCAGAAGTTGAGAAAAGTT
TTTTTCCAGTTCGTACAAAATATCTTTGTAATTAGTGAACGGATTGGATGGATCATAGAAAAACG
AAATCGATGATATCGAGCAACACCAAAAACATTCAATAAACAATC
Right flanking sequence: Indices 61322 -- 61821
CCAATCAACTTTCGGTAATACGATTATTACTCTAACGGATCATGACGGGAATACAAAAACTTGGT
CTTCCTCGGGTTCAGTGGGGTTTAAGGGATCTCGTCGCTCAACCAATTATGCTGCTCAAGCAACC
GCAGAAAATGCCGCGCGAGCTGCCATTCAACTTGGATTTAAGTTTGTTGAAGTGAGAATCAAAGG
ATTGGGTTATGGAAAGGAATCTTCGCTACGTGGTTCAAAACCAGGAGGTCTTATTATTACCAAAA
TTCGCGATGTAACCCCAGCGCCACATAATGGATGCCGACCCCCTAAAAAACGTCGTGTTTAAATA
TCATCATAAAGTGCTATGTCATCATAAAATGGTAAATTGAGGTTCAAGAGCAGAAAAAATTTTTT
CAGGGTCCGGGGGAGACTTCTTTGGGATACTTCTTTGGCTTCACGGGGCTTAACCCGTCCTTCGT
AAAGGCGAAGAAGGAGATCTACAAGCCATGTCTGGCCTTCGGCGG
Found at i:70205 original size:2 final size:2
Alignment explanation
Indices: 70192--70221 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
70182 GAAGGAACAA
*
70192 AT AT AT AG 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
70222 TTATCCACTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Left flanking sequence: Indices 69692 -- 70191
TTCCCTACTCGGCACAGGGGAAGGGGCTTAAGCGTCTGCTATATTTTAGCAGATCGGATTCAACC
AAGTCCTCATCAAATAAGGCTCCCAAAGACCCCGCCGGACGGGTCGATACACGGGAAAAGAATAT
TTGGGCTGACGCGGATCTTTGGATTTTTGGATTTTTGGAAAAAAATATGCTACGCGCCTCGTTTC
GTAAATGCACCATGTTCGGCGGGGTCCCAAGGACGAGGGGGGCTCATGTAAGAGAATGCTTGGTT
TTATTCCTTCCCACCCACTAGAATCTCACATGAGCGCTATAGTGAGAAAGCAAGTTACTTCATGT
AACTCACGCCACTTGTAGGCCCACATAGGTCACTGAAAAAACAAGCCAAGACCTTGCGACAGAAG
CAAATCCAAAGTAAGGTTGAATCGGAGAGCCGTATGATGGGCGACCATCTCGTACGGTTCGGAGA
GGGCTCGAGTACCAATGCATTCAAGATGTGTTTGGGAAGGAACAA
Right flanking sequence: Indices 70222 -- 70721
TTATCCACTCTATTCAATTGCATGAAGGGTTAAGCACAAAACATGTGCTTCGCCTCCAGTTCCCA
AATACGAAGTATAGTTGGGAGAGATACGAAGTATAGTTGGGAGAGGCAGGATTCGAACCTACGTA
GAAAACCTTCAACTTAGAAGGTTGTTGCTCTATCCAACTGAGCTAAGAATGCGGCACATTACTAA
CCATTTCGCAAAAAAAAAGTGAATTCCAGAGAAGGAAGAAGCTTGCTTCTTTCTTCTCTCCCGCT
TTATCCGCATCGCGAATGGAGGCTAAAAGGGAAGAAAGGGCCCGATGGAATGAAACTGGAATGAA
ACGAACAAAAAATCTTTTTCTTTGCTCTGCGTTTCCCCGGTTCTGATCAGGTTCAACACATGACG
AAATATAATGAATTTTGTATTAAAAACTATTTTGGAGGAAGTTCGAATTCGTGTTTTTTGGATAT
TGATTTGCTCTAGTTTTACATGGTTTACGTGTTATTGGTTCTCAG
Found at i:70313 original size:22 final size:22
Alignment explanation
Indices: 70288--70331 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
70278 CAGTTCCCAA
70288 ATACGAAGTATAGTTGGGAGAG
1 ATACGAAGTATAGTTGGGAGAG
70310 ATACGAAGTATAGTTGGGAGAG
1 ATACGAAGTATAGTTGGGAGAG
70332 GCAGGATTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.05, G:0.36, T:0.23
Consensus pattern (22 bp):
ATACGAAGTATAGTTGGGAGAG
Left flanking sequence: Indices 69788 -- 70287
CCGCCGGACGGGTCGATACACGGGAAAAGAATATTTGGGCTGACGCGGATCTTTGGATTTTTGGA
TTTTTGGAAAAAAATATGCTACGCGCCTCGTTTCGTAAATGCACCATGTTCGGCGGGGTCCCAAG
GACGAGGGGGGCTCATGTAAGAGAATGCTTGGTTTTATTCCTTCCCACCCACTAGAATCTCACAT
GAGCGCTATAGTGAGAAAGCAAGTTACTTCATGTAACTCACGCCACTTGTAGGCCCACATAGGTC
ACTGAAAAAACAAGCCAAGACCTTGCGACAGAAGCAAATCCAAAGTAAGGTTGAATCGGAGAGCC
GTATGATGGGCGACCATCTCGTACGGTTCGGAGAGGGCTCGAGTACCAATGCATTCAAGATGTGT
TTGGGAAGGAACAAATATATAGATATATATATATATATATATATTTATCCACTCTATTCAATTGC
ATGAAGGGTTAAGCACAAAACATGTGCTTCGCCTCCAGTTCCCAA
Right flanking sequence: Indices 70332 -- 70831
GCAGGATTCGAACCTACGTAGAAAACCTTCAACTTAGAAGGTTGTTGCTCTATCCAACTGAGCTA
AGAATGCGGCACATTACTAACCATTTCGCAAAAAAAAAGTGAATTCCAGAGAAGGAAGAAGCTTG
CTTCTTTCTTCTCTCCCGCTTTATCCGCATCGCGAATGGAGGCTAAAAGGGAAGAAAGGGCCCGA
TGGAATGAAACTGGAATGAAACGAACAAAAAATCTTTTTCTTTGCTCTGCGTTTCCCCGGTTCTG
ATCAGGTTCAACACATGACGAAATATAATGAATTTTGTATTAAAAACTATTTTGGAGGAAGTTCG
AATTCGTGTTTTTTGGATATTGATTTGCTCTAGTTTTACATGGTTTACGTGTTATTGGTTCTCAG
AAGAGTTCATTTTTTTATCAGCTAAACCCTTTCCTAGTTCGCCTTATTCAGACCTATCTTTCATT
TGTACACAATTAACGGAGGCCTTGAGCACATATGTTACTACGTCT
Found at i:90476 original size:2 final size:2
Alignment explanation
Indices: 90464--90530 Score: 80
Period size: 2 Copynumber: 33.5 Consensus size: 2
90454 GCTGCAATAG
* * * *
90464 AT AT CT AT AT AT AT AG AT AT AT AT AG AT AT AT AT CT 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
* *
90506 AT CT AT AT AT AT AG AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
90531 GATAATTTAT
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.45
Consensus pattern (2 bp):
AT
Left flanking sequence: Indices 89964 -- 90463
AAATTTCGCTAATATGGCTAAATCCCGAGGATTTGTAGATAAATATATGTAATTAATAATCCGCC
TCATCGCTAATGACACCTTCGCTAAATGACGCATATTCACCTAATATGACCAAACCCGTTGGGGA
TCCGGAGTATAATACGGAGAGGAATACCCCTTAATTAATATGTAATTAGAGAATTAATATGTAAT
TAAAGGGTCGGGAAAGGAATATATAATAGGAATCTATATGGGATATGGAAGAATTCCATATAATT
GGGAAGAGTTAATCAATTGAATTGGAATAAATGGAATGGATTGATAAATCAAATGAATTCAAATA
TATAGATACATATTATATATTTGTGTATAACGGAGAAAATGCATAAATCAAATAGATTCTATTAT
TTATAGGAGAGACTATTAAATTCATGTTTATTCTTTCTTCGCCCATCTCCCCCCCAAAGAGAAAT
GAGCTACTTTTTTTCTTATTCGAGAGAGACGATGAGCTGCAATAG
Right flanking sequence: Indices 90531 -- 91030
GATAATTTATAGGTCAGGGGAGGAAGGAGATAGCCTCGACCTCTAACCTCCCTCCGAAGATACTA
AGGACCTGGATCCTCCCTTACCACGTTCTTGAGATCTGTTACATAGCCCCCTAGTTTTCCCTTGG
GAACGTCCAGAGACTTTCATCGTGGAAGTGGCATAGGAACTCCGGGCGGGAATCATGGCACTTCT
ACTAGAACCTTAGGTACGCTTTCGCTAGGAGCTCGAACTGGACTGAAGATAGGAAGCATAGATCG
AGGGGGCACAAGGGAACTATTTTTTCGGTTACGCGGTACGTACCGCCTGTAGGTCCCGTAAGCAT
CTCGTCTTTATGGGGTTTGTAAACGGTGTCCGCTACATTCCGAAGATCAAGAATTATATCTGGTT
GTTGGGTGCGGGGCGGGGGACTTGGTTCCGTCGGCTACCACAAAACCGGAAAACTGTCCGACAAA
ACAAAGGGCACTTACGACCAACTCTGCCTCGGAATACCTTTCAGT
Found at i:90498 original size:30 final size:30
Alignment explanation
Indices: 90464--90527 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
90454 GCTGCAATAG
90464 ATATCTATATATATAGATATATATAGATAT
1 ATATCTATATATATAGATATATATAGATAT
**
90494 ATATCTATATATATCTATATATATAGATAT
1 ATATCTATATATATAGATATATATAGATAT
90524 ATAT
1 ATAT
90528 ATAGATAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (30 bp):
ATATCTATATATATAGATATATATAGATAT
Left flanking sequence: Indices 89964 -- 90463
AAATTTCGCTAATATGGCTAAATCCCGAGGATTTGTAGATAAATATATGTAATTAATAATCCGCC
TCATCGCTAATGACACCTTCGCTAAATGACGCATATTCACCTAATATGACCAAACCCGTTGGGGA
TCCGGAGTATAATACGGAGAGGAATACCCCTTAATTAATATGTAATTAGAGAATTAATATGTAAT
TAAAGGGTCGGGAAAGGAATATATAATAGGAATCTATATGGGATATGGAAGAATTCCATATAATT
GGGAAGAGTTAATCAATTGAATTGGAATAAATGGAATGGATTGATAAATCAAATGAATTCAAATA
TATAGATACATATTATATATTTGTGTATAACGGAGAAAATGCATAAATCAAATAGATTCTATTAT
TTATAGGAGAGACTATTAAATTCATGTTTATTCTTTCTTCGCCCATCTCCCCCCCAAAGAGAAAT
GAGCTACTTTTTTTCTTATTCGAGAGAGACGATGAGCTGCAATAG
Right flanking sequence: Indices 90528 -- 91027
ATAGATAATTTATAGGTCAGGGGAGGAAGGAGATAGCCTCGACCTCTAACCTCCCTCCGAAGATA
CTAAGGACCTGGATCCTCCCTTACCACGTTCTTGAGATCTGTTACATAGCCCCCTAGTTTTCCCT
TGGGAACGTCCAGAGACTTTCATCGTGGAAGTGGCATAGGAACTCCGGGCGGGAATCATGGCACT
TCTACTAGAACCTTAGGTACGCTTTCGCTAGGAGCTCGAACTGGACTGAAGATAGGAAGCATAGA
TCGAGGGGGCACAAGGGAACTATTTTTTCGGTTACGCGGTACGTACCGCCTGTAGGTCCCGTAAG
CATCTCGTCTTTATGGGGTTTGTAAACGGTGTCCGCTACATTCCGAAGATCAAGAATTATATCTG
GTTGTTGGGTGCGGGGCGGGGGACTTGGTTCCGTCGGCTACCACAAAACCGGAAAACTGTCCGAC
AAAACAAAGGGCACTTACGACCAACTCTGCCTCGGAATACCTTTC
Found at i:106157 original size:13 final size:13
Alignment explanation
Indices: 106141--106167 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
106131 TTTCCACAGA
106141 ACTTGCAATATAT
1 ACTTGCAATATAT
106154 ACTTGCAATATAT
1 ACTTGCAATATAT
106167 A
1 A
106168 AGGGGTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (13 bp):
ACTTGCAATATAT
Left flanking sequence: Indices 105641 -- 106140
AATTGTATTTATTAATGCGTCAAATCGGCTAACCAACGTCGTCGGATCCAAGGCCAAGTCTGACG
ACAAGTCTAACAATTCGCCTGTACGCCAGGCAGATTGCATAAATAATTTACGTATTTAATTTATT
CGAATTCGAGCTTTCCTCAGACTTTTCTTTTGCCCTTCACGTATTTATCCTCCACACTATCTGAT
TGAATCAGATCTACGGTATGGAAACTCCGCTCCTTGAGAATTAGTTTAAAAAAACCGAGAAGGCC
GAAGCAATACAGCAAGCAATTCTGCGCGTTTCGAATTGTTCCTCCATTTCCGTGCGCCTCGCGAA
CCTACCCAAGTTCATAGAAATAACGTCTAGGGGGTCCTTAGCCCGTAGCCGCGCAAACTCGGAAA
TCACCTGCATCCGTATACCAAAAAGCTGATCGAGGTTGCCCTTAATATTAATAAATATTAACTTC
CTTTCTGGCAAGTTTAGCCCCATTCTTCCTCCACTTTTCCACAGA
Right flanking sequence: Indices 106168 -- 106667
AGGGGTTTATCCAATCGGAGTTAAATCAACGTCGTTCTTCACACTTTGCAATTCCGGTACGGTGT
CTAACCAATTATCGTTGCGGATTGAACCTATAGGTAACCGTCGTACGTATTCAAAAAAATTTATT
GCATCATACTGAGACTTGTGAAAACCAAGTGTATAGAATTGGGTTATTGGTTGGGCCAGTACAAT
CCTCTCAAAAATCTTTATCGTACTGGGCAAACCAGTCCGAATTCGGAATTACAAGTTTAAAAATA
TTCATCCAATTTGCGCTCTTGTTGTCGTTGCACACGCGAAATGATCAAAAAACCTTTGGTTATAT
ATTTAAGACTTGTTATTCCAGAATCGGGTACGGCCGCAAAAGCAAATATACAGGTGTCCATTTGG
CAGCTGTCAACGAATCAAAACATATCGAGTTGAAATTGAAGGAAACATTGTAATAACATCTTTCT
TTCCAATCCGTTCCCCGTTTTCCGGAAATGGTTCTTCGTCCGGAT
Found at i:123262 original size:24 final size:24
Alignment explanation
Indices: 123230--123276 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
123220 TCATTGCCTT
* *
123230 TTATTTATCTATGATGATTCATCA
1 TTATTTATCTACGATAATTCATCA
123254 TTATTTATCTACGATAATTCATC
1 TTATTTATCTACGATAATTCATC
123277 CAGATTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.15, G:0.06, T:0.49
Consensus pattern (24 bp):
TTATTTATCTACGATAATTCATCA
Left flanking sequence: Indices 122730 -- 123229
ACCATATAAACAGTGAAGAAATAACACACTTAATTTTCGGTGAGCAATTATTATATAATGATACG
TAAAGGGTAATATAATAAATACCATAATACGTCATACAAAAAATGATATAAAGCACGCATAACCG
AACGAATTGTGTCAGATACGTAAAGTTATTTAGTTGAGTCCGAAGATGTAAGACGTTAGTTCTAC
CTAACATTTTTTCCCTACCTGCAAGAGAAATGTAAAAAGTTGGAATATAAGGTACTTCTATATCA
TTTTTGGAAATATGGACTAAAGCCCCGCCGGGCGGGAGAGGAGATCATAAAAGTTATATCTAGAG
CCGGACCTCGTGTTTCGTGGGTCGCTCCCTTCTCGCCCATTTTTTTCTTTTCTCCCCCGTTTTTG
GCGGGAGTCGGATTCGGACCCACAACATTCAGATTATGAGCCTGACGAGTTACCAATTACTCTAT
CCCGCGAACGGCCGACGAAAAAAGATAATTTTTGTTCATTGCCTT
Right flanking sequence: Indices 123277 -- 123776
CAGATTTTCTATTAGGAATTGGACTAGATTCGAACCAGATTTGTCTAGGTTCAAAAGGAAAAAGG
GGCGCGCCGCAGCCCGCGCTAGCCCACTGGGTTAAAATGACGGATACAATTTCGGTGTTCACCCA
ACTAAAGCGATTGGCTAGAAACGAAACCACGCTTCCCCACCCGCGCACAGGTCATGAATTAGGGG
TGTTATGAAGGAGGCAGGTAGATTACCCTAGGCAACAACGGGCCCGCCCCGCCGGTAACATAGTG
AAAAAGTACACAGGCACTACGTGCTTCTGGAACATACTTCGTTTAGTTTCTGTCCGGAGCGATAA
TTTTATGGAATACGGGAAGCGATAAGGAAGCAGGAAAGTTTAGGGATTAACTTCGAGGATCCCGA
TGGCGTTTTCGAGTAAATCCTGGCTGGAAAATATAGATCATACTTCCTTCAGAGAATTCTATATA
AATAAATGATATATAAATAATAAAACCTTATTCACGAATTAACGA
Found at i:135484 original size:22 final size:22
Alignment explanation
Indices: 135457--135500 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
135447 GAGCCCCAAT
135457 AATAAACATAGGCTACAATAAG
1 AATAAACATAGGCTACAATAAG
*
135479 AATAAACATAGGCTATAATAAG
1 AATAAACATAGGCTACAATAAG
135501 CCCCTCGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.55, C:0.11, G:0.14, T:0.20
Consensus pattern (22 bp):
AATAAACATAGGCTACAATAAG
Left flanking sequence: Indices 134957 -- 135456
GAACATATTCCGAATCGAGACAAAAACTTCTAATATATTTTTCATGGGTCCATCGTTGGTTGCAC
CGATCGGCTTCGCTATTCCTCCAAGTCACTTTACTGTAATCTGTTGGCTCACCTATCACAGGCCT
CATCAAATTTACTATTAAAATATTTAACCCTATTAGTACTATAACAATATGCATTGGTTCCAATC
TCCTTAACTAAATCTTTAGAAACTAAGGTTTGTGAAGAAGACTTCAAATTTGAATACATGAATTT
CGGTTGATAAACCGGAGGAGTATGATCCGAAAGGTTTGATTCATAAATATATTTATTAAAGGTTA
AACCCTAGCAGCCTGCATATTAATCCTGAATTTCATTTGCAAGTGTACACAGATTATTTCTGTGA
GCTATGCCGTATCCTGTTCGCAGTTCCAGTGAGCTCTTAGCTGTAAGCTGCGAACATACAGCAGC
CGCGAGCGCGTAACCAACTTCCTCGCGGAGAGCAGGAGCCCCAAT
Right flanking sequence: Indices 135501 -- 136000
CCCCTCGCATCGGGAAGGCACCGAAGGAGGTGCCTTTACCACTCGAATGTAGTAAATCAATTATT
TCATGGAATAATAATAGTAATATGCAAAAGCATATATGGATAGAGAAAGCACAGCTTAATAATAG
AAGATACGTATATAATAAGAAAACCATAGGGCGCATAGGGTGTCACTACTAATAAATAAATTTAG
TAGTGACTTTTCATTATTTGGTAGAAATAAACGCGTTGGAATTTTTATTTAATGGGGGGGTCTCG
CCGCCGGCCGGCCGTGGGCGTGAATCCACGAGCCGGCCGTATCGGCTGGCCGAGAAGCCATTTCA
GGTCCATTACAAAGGACCTTTCTCTCGGAGAACCAGAGAAGTTTCCTTTGGGCTCTTCCGATGAA
ACAAAAAATTCTTTTCTTTCCCATCATATATTTTAACTCTTTCTTTTGTCATAACGCATTATTCC
ACCACCCATCTCGGATCGTCAGGATGATAATTCATCTGGGTTTCG
Done.