Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_065061
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: 638482
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Found at i:37004 original size:22 final size:21
Alignment explanation
Indices: 36963--37005 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
36953 ACCAAGTCCC
*
36963 CAAAGAGGCTTCCTCCGAGCT
1 CAAAGAGGCTTCCCCCGAGCT
36984 CAAAGACGGC-TCCCCCAGAGCT
1 CAAAGA-GGCTTCCCCC-GAGCT
37006 GGAAGATGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.26, C:0.37, G:0.23, T:0.14
Consensus pattern (21 bp):
CAAAGAGGCTTCCCCCGAGCT
Left flanking sequence: Indices 36463 -- 36962
TCTCAATGAGCTCATCGACAGGGACAGGGAAATTCAAGTTCCTACTCATTTCTCAAAGTAAGAGG
CTGATCAAAACAAAAAGTCTGGGTGCAAGCTTAAGCAATCCCGTGCCCAATGCCGCTTCTTTCAG
AGACTGTGGTATCCACCTCAGAAAAGGGGTTGTTTTATCCGAGGAGGGCGTGCTTCTTATACAAG
AGGTTTGGGTATTATGAGCAAAAATACGTATAGTACTAAACTTAAACTCCTGCAATATGATCAAA
CATTGGGAGCTTCTTCATCAGACTCCGATGAAGAAATGCCCAGAATGTCATTCCAAAAGACCAAT
TGGGGAATCTTCCTCCGAATCTGAAGAAGATGTCACTACATCGTATCGTCTCCCAAAACAAAAGC
CCTAAACAATAGGTTTCATCAGATAATGATTCATCAAAAAAGTAAAGGTGCTTTCGAGCAGAAGA
CATCTTAACACGAATCTTTGAGCAAGTGGCTATAGACCAAGTCCC
Right flanking sequence: Indices 37006 -- 37505
GGAAGATGGAGGGCAAGCCACTGTCGATGAACTAGTAGAAGTGAACCTGGATACAGATCAAGAAC
CCAGGCCAACCTACGCCTTCAAAGAAAGCCTATTTGAGACTAAGGCAGGCTTTCGTTCTTTCGAC
TGATTGCCTTCCGCTTTTTTGAAAATTACGTTACGTATAAGAAGAGAACTCCACTTGCAAAGAAC
CTATTACGCGCGTCCAGCGAAACGTGGTGGATTCTAGGCTAAGGAAAGCACTTCTGGCTGGGCAT
GCACAGTACCTCACCTCTCCCAGAATAAATGATTCATTGGCTTGCCGAGTTCTCTGAGCAAGATC
GAATCCTATCAGAGATAGGTGCTTACGATACAGAGAGCTTACAAAAGAAAAGAAATTTCGCTGTT
AGACTACGTCTATGGCAAAGCAGAGGAAGAAGAAAGCTATGAGGCTAATGCCTTTCCAGATGAAA
ATCCAGCTAACAATGCCTCTGACATTATCCTATCCGGAGCCAGAT
Found at i:57102 original size:18 final size:18
Alignment explanation
Indices: 57089--57123 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
57079 CAGAGAATAT
*
57089 AGATCCGCTGGAGAAGAA
1 AGATCCACTGGAGAAGAA
*
57107 AGATCCACTGGAAAAGA
1 AGATCCACTGGAGAAGA
57124 GATATTCATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.17, G:0.29, T:0.11
Consensus pattern (18 bp):
AGATCCACTGGAGAAGAA
Left flanking sequence: Indices 56589 -- 57088
ACCTTATTTCTAATATGGCTGACCATACCCAACAATCTCAAGAGCTTGGCCCGGTTCAGATGCCC
ATTCCTCAACGGGCTCTCCTCTCTATGGTTAGCTAGCCCAAAAAAAGTAAACAAGGGCAAAGTGA
ATACTGACTTTTACTGAATACTCGCTTAAGGCCTCTACGAGTAGCGCTTTCTATTGGCTAGCCGG
ATTCCTAAAAGAATAGTGGTTTCCCTTCTTTCAGGGAGGACTTACTTTGATTATGTAATAGACGG
CTGGCCCAACAAGGACAGTACGAAGCCTCTCAGATCGCGTTAGAACGACTTATACTCGTTCTTAA
GCAATTCAATGTTACCCAGCATTTATAGAGCGAAAAAGGGCTTTCGAGTGAGCTTGGGGGATTCG
ATCAAGGTCAAGGATTGGTCTATGCAAATGGTAGTTGCTCAATTTTCTCCACCCATTTTATCATA
ATGATCTCCCGATGGATAAGATAAGGGGGATCTTCCAGAGAATAT
Right flanking sequence: Indices 57124 -- 57623
GATATTCATTAGAGAATGAAGATCGAAAAAAAGTCTTTTGGTAGGCGATTTTTCTCTTTCTCTTT
CTGTATCGGAAAGTCTGTGTAGTGGATATAGTTCATATAAAGATAAAGGTTATGATAGGTCTTCC
AACGGGGGGACTGCTTGTACCGCTGTCTAGACAAAGCGAGGATCCTCCGGAGAAGCCAACTCAAT
GAAGAGCGGAATCTGAGCGAACCAGAGCGATTACACCCAATGTCTTTTTCTAGCCTTAAGCCAAA
GTAGTCAGTAGTCATTGTTCCTTAGTGCGACCAGTTGCGAGTATTGGCGTGTTGGGGGGTTGAGC
CGCATTAGTAGCGCATCTTATCTTTCGGCTGTGTAAGTAAAGACGGCCCTTAGTCCTCCTACGGC
AGCAAACGTAGCAGCAACTTACTATTGAGGGGCCTCACTCCCTAATTAAGCCAAAGTGCGTCAGG
TTCATTTAGGTGGGCCCGACAAGGGAAACGCATCCCTTTCTTGAC
Found at i:74608 original size:21 final size:22
Alignment explanation
Indices: 74583--74627 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
74573 GCAGTGTCGA
74583 CTCTCGTATTATA-CTGACTCT
1 CTCTCGTATTATACCTGACTCT
*
74604 CTCTCGTATTCTACTCTGACTCT
1 CTCTCGTATTATAC-CTGACTCT
74627 C
1 C
74628 AGCTGAGGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.57
23 9 0.43
ACGTcount: A:0.16, C:0.33, G:0.09, T:0.42
Consensus pattern (22 bp):
CTCTCGTATTATACCTGACTCT
Left flanking sequence: Indices 74083 -- 74582
TGCAAGGATTTTGGTTAACTAGCTAATTTGATAAGTAGAGGGCTTCTTCTTTCGCCGCTTCCGCT
GCTTGGTGTTCCGAGGAGTTCCGGGCTAAGTACGAAGCTCGTACTTCCCTCTTTGGAAAGGCCTT
CCTTTCACCAGGGCAATAAAGCGCCTCGCTTGCTTATGAATATTATGTTGGATTTCCCATTGACA
CTAAAGCCTCTCACCAGCAGCTTCCTCAACCTCGTTCGTTCTCGTTCTCGGGCCTGTCTTGCCTT
CCGGGCTCTTTCTTTGCCTTGGCCCCAGCCCAGTTGTTTAAGCGTTGGTCCTGTGGTCCCTCCCT
CTCTATAAGCATAAGCGCGATAGCTAGGCTCATCATTGAGAAGGCAAAGGTGGTATGAGATTCAG
CAAAAGCAGCTTTAGAAGGGGTCAATAAATCCCGTTCTCAATTGTTCTAAGAGAGCGGCATCCCC
ATCTCTGGCTTAAGTCGTCTTCGGAATCATACTAAGCAGTGTCGA
Right flanking sequence: Indices 74628 -- 75127
AGCTGAGGCTAAGAAAGCCAAGGAGTGAGCTCTTTTTTGGTTCCATTAGGAGGGTGATGAAAACA
ATTAAAGAGTTATTAACAATAAGATTCTAAATTCCCAATCTTCTGAAACAAACACTTGTTATTTG
TATAAATAAGTTTCAGGCTCCAACAGAGTGAGTTGCTGCTCGCATCGTTCTGAAAGTTAACGATT
GCACGGCGTGGGTATATTATGGAGTGCTCTATGCCGCCACCCTATCGAATCTATGTTCCCATGTC
TGAGACACTTCGAAAAGAAGAAAGCAATGATTCCCTTTTGGCATCCACCATAAGAATAACCCCCT
CACTTGATGAGATATAACCCGACGACCTCGTAGTTCCTAAGAGAAAACGACCTCTACTTACTTGC
TTGTTGCTTGTTGCTTGCCCCTTCCTTACTGTATTTGTAGTTGAGTAAGGACTTTAAGCTTCTAG
TTTTCACTAGTATGCGAAATCTATGGTTGATAGGGCTCTTACCTC
Found at i:126622 original size:22 final size:22
Alignment explanation
Indices: 126594--126639 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
126584 AATTTAATAA
*
126594 ATTTATTAATA-ATTAATAGAAT
1 ATTTATTAATATAATAATA-AAT
126616 ATTTATTAATATAATAATAAAT
1 ATTTATTAATATAATAATAAAT
126638 AT
1 AT
126640 AGAATATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
ATTTATTAATATAATAATAAAT
Left flanking sequence: Indices 126094 -- 126593
CTCTGATGCGAAGAGAAGACCTCTTGTCTTTTTCCCTTCCTTTTTGGAAATAGATCCGAAAAATC
CGGAATCAGCACATTCGATTACTTTTTTTCTTGTACCACTTTTTCTTGGAATATTCTTTTCTCGT
TTGGGCCCGCTCTCGGGTACATTAGTATTCTGGGAATTGGCAACATTGACAGAAAAAAGAAGAAA
AGGGGGTAGGAATAAACTTTTTTAGGTTTAGCTATACTAGGCCTAACCTTCGGTTCCCGTAACTA
AGTTTTTCTTTCTTACTTCTTATGTACTGTATGTACTGTACTTTTTTTTTACTTTTTTTGAAGTG
TGGGGCAAAGGGCGCCCTCTACTTCTACTTTTAACTAAACGCGAACAGCCGGCATTGCAAGCAGA
TAGAGAGCCCCGCCCGTTTGAGTCGTTGCGAGCCGGAAAGCGTACCGGCAGTTTGAGTCGCGAAA
GGGCCGCTTGCTTAATTAATTCTATTATATTAATTAATTTAATAA
Right flanking sequence: Indices 126640 -- 127139
AGAATATTATATATCTATATATAAACTATAAACAATAAGAAAATCATTTTTTTTTTAATTGTTCA
TTCCTGTTCCTGGGAAGAGGAAGAAGCAGATAGAGCAAAGACCTCCCCTTTCCGTCCGCTCTTCC
CGAAGTGAGCAAATTGCATGTAGAGATCCGTAGGGGCTTATAGTTTAATTGGTTGAAACGTACCG
CTCATAACGGTTATATTGTAGGTTCGAGCCCTACTAAGCCTACCACCCCTTCTCTTCTCTTCACC
CGAAATAAGGAAGTCGATGATCAGATCCTGCTGGTCTGGAAGACTGTTACCCCCCCCCAACCTAG
CACAGAAAGAAGGCCGAGGCACAAAATACACTAACTTCAGCCCCGAGGTTCATTTCTTCCAGAGG
ATCCTGCGACATCTGTGGCCGATCTTTTCTTATCTACTTCAATATGGGCCATCTCAGCCTTGTAT
CTTTCCTGCAACCTGGCTAAGCCAGCCGGCTAGCACCCTCTCTAA
Found at i:145358 original size:38 final size:37
Alignment explanation
Indices: 145296--145370 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 37
145286 GGGCAGTAAG
*
145296 GGTCGGAGAAGGGCAATTACTCATTCTTAAAACCAGC
1 GGTCGGAGAAGGGCAATCACTCATTCTTAAAACCAGC
145333 GGTCGGAGAAGGAGCAATCACTCATTCTTAAAACCAGC
1 GGTCGGAGAAGG-GCAATCACTCATTCTTAAAACCAGC
145371 ATTCTTAAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 12 0.33
38 24 0.67
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (37 bp):
GGTCGGAGAAGGGCAATCACTCATTCTTAAAACCAGC
Left flanking sequence: Indices 144796 -- 145295
TGGGTCGTTGCGATTACGGGTTGGATGTCTAATTGTCCAGGCGGTAATGATAGTATCTTGTACCT
GAACCGGTGGCTCACTTTTTCTAAGTAATGGGGAAGAGGACCGAAACATGCCACTGAAAGACTCT
ACTGAGACAAAGATGGGCTGTCAAGAACGTAGAAGAGGTAGGATGGGCGGTTGGTCAGATCTAGT
ATGGATCGTACATGGACGGTAGTTGGAGTCGGCGGCTCTCTTAGGGTTCCCTCATCTGGGATCCC
TGGGGAAGAGGATCAAGTTGGCCCTTGCGAACAGCTTGATGCACTATCTCCCTTCAACCCTTTGA
GCGAAATGCGACAAAAGGAAGGAAAATCCATGGACCGACCCCATCGTCTCCACCCCGTAGGAACT
ACGAGATCACCCCAAGGACGCCTTCGGTATCCAGGGGTCGCGGACCGACCATAGAACCCTGCTCA
ATAAGTGGAATGCATTAGCTGTCCACTCTCAGGTTGGGCAGTAAG
Right flanking sequence: Indices 145371 -- 145870
ATTCTTAAGACCAAAGAGTGGGGGCGGAAAAGGGGTGAAAGAGCTCTCCCTACCCATTAGGGAAG
GGGCCGAGACAGGGCAAACTCAAGGGACCCCCCTAGCGTAAGCGTAAAGAAAAGGCTTCCATTAA
GCAGGGGGCCACCTTCGACTTATCCAGATTTGAACCGAAGACTTCTACTCCGCCTGCGGAAAAGG
TTTGATTCCTTTCATAGTATACCTCGGATGAGTGAGCCCCTTTGCTTTGCCCAGGGGGGGCGGTA
GTAAGTGATGCTAGAGAAGCGAAGCCAAGACGAACCACAAGACTAGCATAGGATAACTCAGATCA
AATATGAATTTTCGGGTACTAGTTGTTGGGGCTACGGGATCCATTGCCTTTGTAGGAGCTGCGGC
CAATTCGAGAGAGAAAGAAGAGATCAGTCTGCAAGATACATTTAGGTTGATTTATCGTTTGGTAC
TTTAGACGGATCGTTCGATTCCCTTAGGTGCATAGACCGGTTAGC
Found at i:185293 original size:20 final size:20
Alignment explanation
Indices: 185268--185305 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
185258 AGTAGTGGGA
185268 TTCCATACTCCAATCTCCGG
1 TTCCATACTCCAATCTCCGG
*
185288 TTCCATAGTCCAATCTCC
1 TTCCATACTCCAATCTCC
185306 CAGAAAGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.39, G:0.08, T:0.32
Consensus pattern (20 bp):
TTCCATACTCCAATCTCCGG
Left flanking sequence: Indices 184768 -- 185267
CATGGGACGGAGGAATATATACTTGTGTGATAAACGCATAGGAGAACTTTTTTCTATTGGTACTA
TCCCAGATATTCTCTGTTTCTCCCAAGCGGGAAATAAAGCATAGGCACTCCTACAAACGAGAGAG
AGTCGCCAACCAACATATGAAGACCGAAACAAAGCAAGAAAATCGCATAGGCGAGCACCCTTCCT
GCCACGCCCTATTACCACCCACAGTGTACCGACACTGACTGCGAGAAAGATGCCTAAAAGCTTCC
TTTGCCAAGGAGCTGGGCTCGGGCATTGATCGATAGTACACCTTTCTATTCCTATTCATATTCTT
TATTCCAATTTGGCTGGTTCACCCGCATTGGAAGTCTCGGATGAAGCTCAGATATTACATATCAC
CAGAACATGAAGTGCTTAGAAAACGCATTTCATAGGGTTAAGCGGAATGAAAGAATCTATCTAGT
AGCGAACCATTAGTTCAAAGGTTGGTAACAGGTTCAGTAGTGGGA
Right flanking sequence: Indices 185306 -- 185805
CAGAAAGAGTCATTCCAAGAACTTGGAGGAGTTGCTTCTAATGCAGGTGAATACGAGGAGGGAAG
AGGCTCATGAAATTCAGTAGGCTCGACCTTTACCTTTAGAAGAGGTATACTTATGCTTTCGACCA
AAGGATCCCAAAGATCTCTGATTCAAGTAATAAGAAGCTCAAGCGAGGGTTTCGTAGGGCAAGAT
ATAGAACAAAGTCATGCCATTCAGGTTAAGTTCCCAAGGTAAGTCCCGATCCATTTCATAAGTGG
GCTCTCCCGGGGAATATCAATCTCAAAGGTCTTCGCTCGGTTCCATAGTCCAATCTAAAGCCTGT
GAGCCTGGAAACTTCTACAACAATATTACATATTCCCATCACCACAAGAAAAGTAAACGATACAG
TAAATGGAGAATCCCCCTTAAAATAGGTTAAATAGGTTCACTCTCGGTTAATTCCATGCTCAAGG
GCTAAAGCCAGTCGTCCTTCTGAAAGGTCCTCTTCTACGGCTCAA
Found at i:187541 original size:21 final size:21
Alignment explanation
Indices: 187516--187556 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
187506 CTCTCAATCA
*
187516 ATATAAATATAAAATCTATAT
1 ATATAAATAAAAAATCTATAT
**
187537 ATATATTTAAAAAATCTATA
1 ATATAAATAAAAAATCTATA
187557 GATAATATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (21 bp):
ATATAAATAAAAAATCTATAT
Left flanking sequence: Indices 187016 -- 187515
TCTATTCTTCTATACGAGAAATCGCCATTCTCGTAGCACCACCACGACGCCGATTCTCGTTATTT
TCCCGAGCCTCCCATGCCGCTTCGGCTTTGAGTATGATGAATGAGTGGAAAGATCTTTATAGAAG
CCCCTGTCCGATCCAACCAAAGAGTTAGTATCTCTAATATATATATATATTATATATAAGATAAG
GGGGAGAACAGCAAGTTTTTTCTGAAAAAACGCTCCCCTATCCGAATCCCGCGAGGGACTAAGCG
CGAGACGAGCCATAACATAAGGGGCGAATCTACTCTTCGTAGAATCGACCATAGATATCTTCTTT
TTTCGGTATATTTGCATCAGGCTTAGCCCCTAAGGCGTTCCCGAAAGGGGACAAAACCTGTCTAA
GATCCTGTGTGCGGCTTAGTAGCGCGTGAACAGAACACGTAGCCTAAGCGGAACTCAATATTCAA
CCAACCTATGATCCATTTTTTTAATATTTAACTTACTCTCAATCA
Right flanking sequence: Indices 187557 -- 188056
GATAATATAATGGATATTCGGCCTTTAATGATATAGTCTAGTTCTAGACTCAAGCTAGCAAAAAA
CAAGACTGAGGTCGATAGGGGCATTACTTTTAATTTCATTTAGAAGGTGCTTTCTGAAGTATTAA
CCATTGGCTAGCGCTCATCTCCTGCTCTGTTTCCAGCCTTTTATTTCATATATCATTCCCGTATG
CCATACCTCTTATTTAATCTTGCTATACGTCTAAGCCTTCTCCCATCGGTAGTTGGAAGCAGAAC
TGAGACTGGATGTAACTGAATGCCACGCCCTAGCGAACCTCAGAGGAAGGGCAAAAAATGCAAAA
AACCACCGAAAGGGATACAAGAGCACGCATTCGACTAGCTTCCTGCAACCAAGTATAGGCAACCA
GGCAGCTTTCCGTATTAACACTGAAAGGGATCCCCTCGCTCAATCCAATAGAAGAAATCGTTCCT
TGTGATAAGCTTGAAACTAGCCTTGAAGCATAGGCTAGGCAAGGA
Found at i:199784 original size:16 final size:16
Alignment explanation
Indices: 199759--199792 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
199749 TATTTACATG
199759 TACATCTACATATATA
1 TACATCTACATATATA
* *
199775 TACATTTACATGTATA
1 TACATCTACATATATA
199791 TA
1 TA
199793 TATGTAGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (16 bp):
TACATCTACATATATA
Left flanking sequence: Indices 199259 -- 199758
TCTTAGGATCAAAAGGTTGTTCTAAAGGACTGTAAATCCTTGCTCCTAGGATCCAAGGAGGGGTT
TTAAGAAAGACTCAAAATCCTATCCTTCCTACCTTCCTAATTACCTAACTAACTTCCCCTATTAG
TGTAGTGTCTACTAACTGAGTCGTGAATTAGATTGGATGGGCCGATGGGGAAATCCATTTTGGAG
TTTTGGAAAGGACTGAAGATACTATGTATCAAGACTCGCGATAGGATCTGAGTGCTCGGTCATTC
AATATTTTATATTTGATGGGTGATTTCTTCTTATAGAAAGTAGAAAAAAAAAAGGATGACGTGGT
TGCTTTATTTTTTTATATGCCCATACTATTCTTCCATTGTTTCGATAGATCTCGGGATCAATACA
ATAAAACCTATGAATTAGAGTAGAGCAGTTGACGTTGGATTATTTCGAATTGATCGAAAGAAAGA
CGAATGGGTGTAGCGAAGAAATAGAATCGGAGTGCTATTTACATG
Right flanking sequence: Indices 199793 -- 200292
TATGTAGATACAAATTTTATATTTATCTATATCAATCCCATATCTTCATACAATGGATAGTGTGG
TAGAAAGGTGCATCTAGTTCTTTCTACCATACTATCTATTGTATTGGATCTATATACCGCTGATT
CAATCCAGTTCACTCATTTCATTTAAGATTTTGAATTGTAATCCCTTTCATTTCTTTAATCATTG
ATAAGAACTAATAAATAACTCAACTTTCATTCAAATAAATCATTTTTACTTACTATACTTATTTA
ATTTTAATAAAAAGTAGAAACTAGAATAAAAAGTGCAGTAGCAATAAATGCTCGGTACTTCCATA
ATCTCATCATCTTGTTTTTTTTTCCATTTTATATTCCTTTCCAGTCTCGAATCACAAGAAGTTGG
AGCGGATCTTTGATCTTTTATTAGTATTGTATTCCCCTTCCTTAGACTGGGACGCATACATCGAG
AATCCAGTGTGCAATTCATTTTTTTGATAAGATTGTCCCCAATTA
Found at i:199784 original size:22 final size:22
Alignment explanation
Indices: 199753--199795 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
199743 GAGTGCTATT
199753 TACATGTACATCTACATATATA
1 TACATGTACATCTACATATATA
* * *
199775 TACATTTACATGTATATATAT
1 TACATGTACATCTACATATAT
199796 GTAGATACAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.42
Consensus pattern (22 bp):
TACATGTACATCTACATATATA
Left flanking sequence: Indices 199253 -- 199752
CGGAAATCTTAGGATCAAAAGGTTGTTCTAAAGGACTGTAAATCCTTGCTCCTAGGATCCAAGGA
GGGGTTTTAAGAAAGACTCAAAATCCTATCCTTCCTACCTTCCTAATTACCTAACTAACTTCCCC
TATTAGTGTAGTGTCTACTAACTGAGTCGTGAATTAGATTGGATGGGCCGATGGGGAAATCCATT
TTGGAGTTTTGGAAAGGACTGAAGATACTATGTATCAAGACTCGCGATAGGATCTGAGTGCTCGG
TCATTCAATATTTTATATTTGATGGGTGATTTCTTCTTATAGAAAGTAGAAAAAAAAAAGGATGA
CGTGGTTGCTTTATTTTTTTATATGCCCATACTATTCTTCCATTGTTTCGATAGATCTCGGGATC
AATACAATAAAACCTATGAATTAGAGTAGAGCAGTTGACGTTGGATTATTTCGAATTGATCGAAA
GAAAGACGAATGGGTGTAGCGAAGAAATAGAATCGGAGTGCTATT
Right flanking sequence: Indices 199796 -- 200295
GTAGATACAAATTTTATATTTATCTATATCAATCCCATATCTTCATACAATGGATAGTGTGGTAG
AAAGGTGCATCTAGTTCTTTCTACCATACTATCTATTGTATTGGATCTATATACCGCTGATTCAA
TCCAGTTCACTCATTTCATTTAAGATTTTGAATTGTAATCCCTTTCATTTCTTTAATCATTGATA
AGAACTAATAAATAACTCAACTTTCATTCAAATAAATCATTTTTACTTACTATACTTATTTAATT
TTAATAAAAAGTAGAAACTAGAATAAAAAGTGCAGTAGCAATAAATGCTCGGTACTTCCATAATC
TCATCATCTTGTTTTTTTTTCCATTTTATATTCCTTTCCAGTCTCGAATCACAAGAAGTTGGAGC
GGATCTTTGATCTTTTATTAGTATTGTATTCCCCTTCCTTAGACTGGGACGCATACATCGAGAAT
CCAGTGTGCAATTCATTTTTTTGATAAGATTGTCCCCAATTAGTC
Found at i:217314 original size:22 final size:22
Alignment explanation
Indices: 217286--217329 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
217276 ATGAATCCAT
*
217286 TTAAATGGTTGATGCTTTCTTG
1 TTAAATGCTTGATGCTTTCTTG
* *
217308 TTAAATGCTTGCTTCTTTCTTG
1 TTAAATGCTTGATGCTTTCTTG
217330 ATGGTTGCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.16, C:0.14, G:0.18, T:0.52
Consensus pattern (22 bp):
TTAAATGCTTGATGCTTTCTTG
Left flanking sequence: Indices 216786 -- 217285
CTGCTTAGTCTTCGAGGGCTGATTCCATTCACTTCTTCAACTGCTAAGAAGAATCGCTTTTATTC
CTATATTCCTAGTAGGACGCTTGGTAGGACCAATGCCTTTGTCTTTTGGTTATGGAGTTTTTCCT
TCTCTTCCTTCCAAGCCGCTTTCAAAGCAGTAGGCAGTCTCTTCTTTCTTCTTATATTAGTATTA
GATGGTAGCCAGTCTTTTTTAGAATGGTTGAATAGAGCCTCCCTTCTAGTCTATAGTAGCCCTTC
CGCCAACAGCTAAATTTGAGGATGGCACAACCACTTGGTTTGGGCTCTTTCCCTTGTCTATTTTC
AAGAGAGCCTCGCTGGCCGATCGCCTTGAACCTGGTTCTATTAAGAAAGAGATTTCCCGGTGTGA
GCTTCTAGTTCTGACTCTATTCCCAGACCCGAGGGTGATTCAATTCTTTCAGCTCGAGTGAAAAT
GCTTTCTGTCGAAAGGTAAATGCTTTTTAAGTTCAATGAATCCAT
Right flanking sequence: Indices 217330 -- 217829
ATGGTTGCATGTGACCAAGAATGGCTAGAGTTGAAAGAGATATTCTCTTTTATAAATAAAAAAGC
AGGAGCAGTTCTCGTTCTGTTTTCACGAATCCTGTGACCGAATCAGCTGCTTTCGGCTTTGAAGG
AGTAGGCACCGTTGGAGTCAGGGCATTAGCCTTTTCTGCAACCATGTCTTGAAAGATAAGCCAGT
CCATGCTAGAACTATGGTTACGGTTTCAGGGCTGGGCTAAGATAGACTGGAGTAGTTAAGAAAAG
AAGCAAGGAAGGAAGGAAGACCCAACAATCGTAGACTTGAAAGCGAGTGAATACCCGGTTTAGAC
CATCGGGGAGGAAAGCTGCAGTTGTTCAGTTCACGAATCAGCAGTTATATCATCCGCGTAAGGAG
ATGGAGAGTCAGCCTTTGTTGTCTTGTTCAGAAGAGAAGGGAGCCCTTGATTCTAAGTAATTGGT
TTTGCTAGTCTTCCATCTATCGGGATATCTTCTTACCGAGGCAGA
Found at i:223894 original size:14 final size:14
Alignment explanation
Indices: 223875--223901 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
223865 TGAATCACCT
223875 TGGTAAGTTAATAC
1 TGGTAAGTTAATAC
223889 TGGTAAGTTAATA
1 TGGTAAGTTAATA
223902 ATATCTTGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (14 bp):
TGGTAAGTTAATAC
Left flanking sequence: Indices 223375 -- 223874
ATAGAACCAGCTCAGTAGAATGGTCTTTTTTCACCTCTACTAATGCAAGTGGGGAGAAAAGAAGG
AATGGGATTTCGCACCCCAAGAGCGTTAAGGTGGCAAAGCGCACCAATTGCAGTACAATAATAGA
GTTGTTGTTATTCCGGGGCGCTCTCCAAAGAGCTCGATGGAGCCCCTTTCTTTTCCCGTAGTGAT
GTGCCACTCGGCTCACACAAACTCTCCAGAACGATTAAAAAAATATGGTATATGGATTTCGTAGT
CTACCAGGCTGGCTTTGGTCGTATAGAAAGAAAGATATTATGGCCTTTGTGATACAAAGCGAAGT
CAATTTCCGAATAAGGGATCTTCATTTATGCTCGCGAGGAACTATTACGGAGGTGTGGCCTCAAG
ATCTAAAGGCCCCCGAAAGCCTTCCGTGCCCGATCCCCTCTTCCCGAGCCTCTTTTGAATCTTCT
ATATTACCGGCCTGAACCAGTCCATAATGTGGTTCTGAATCACCT
Right flanking sequence: Indices 223902 -- 224401
ATATCTTGTGCTTGCTCATCGCTCACCTGAGCCGTATGATGTGCTTCTTCGTTGTTCACCTCATG
CCAAGGAAAGCCTCAACAGCACCAAAGAACCCTACTTCTTTCAGTCAGGCCGGTAAACTACCTCA
CCCTGTAAACCCTCTTGCCCACCACTAGTCACTCTGTTGGTTAGCTGGGAATGAATGTGAACCAA
TTCTCCCTACCTGCGAGCGAGTTCGACTTCTAGGAGTTATAGTCCCTAAGTAGCAAGAACAAGGT
TTAGATGTAGGATTGTTCTTACAAGGAATGAACGTTCCAAGAGAGCGAAACCAACCGGGGGAAGG
AAAGGCAATGAATAATGAATAGGAAAGCAAATACGATTTAGGACAAATTCTTGGGGTTCCAGTGA
GTGGCCTAAAGGAATTACCGGTCTTAGGAAGAGTGGAAGAATACGGCCGAAGAAAGGCAACTGGG
ATTGATGCCACAGAATCCACAGTGATTGACTCAGCTGCACATTCA
Found at i:293054 original size:18 final size:18
Alignment explanation
Indices: 293031--293066 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
293021 AGGGTCGGGC
293031 CTCAACCAATCTACTTAT
1 CTCAACCAATCTACTTAT
*
293049 CTCAACCGATCTACTTAT
1 CTCAACCAATCTACTTAT
293067 AAGGGGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.33, G:0.03, T:0.33
Consensus pattern (18 bp):
CTCAACCAATCTACTTAT
Left flanking sequence: Indices 292531 -- 293030
TTCTTGTCTTGTTGCTAGCCTTCGATTGTATGGTTTCCTTATCGCTGTTGTCGAGCTCCAGCCCG
ATCCCTGTGATCTCGTACTTGGTGTTCCCCTCTTTTTCTGTTCGTCCTGGTATGGTATGTACCCT
TTCACTCCAGGGAAGGTTCCCGAGCTTGGCCGCACCAAATCCTGGAAGTGGCACCGCTCTGGCGA
TTGGCAAGACATATCCGAGGAGCGCTGCCTGAACGAAGCGTGGGCGTCAAGCATCAAGTGGAGGC
GCCGAATCGTTGCAAGAGGGGGTACTAAGCGGGATCGACCGGTCAGAAGCCAAGCTGGCCAAAAG
GCATAGGGCCAAGGCTGAGCTGGCAGGCTCATCTCACTGATTGTGTGCTTTTATTGGATAACTTC
CATCAAGGGAAAGTGCACTTTAGCTCTATTCCGTTTCCACAACGTGTTGGTTTCCCGCTCAGCCC
CCTAAACACTATGGCATCAAGGTCGGCAACCCAAAAGGGTCGGGC
Right flanking sequence: Indices 293067 -- 293566
AAGGGGAAAGCCACGAATATCGGGGAAACACCTATTATATATAATAGGTGTATCCTAGAAACACG
GGCTAGAGTAAGCGCCAAGCGCTGGCCCATTAGTGGGTTAAATTCCTGCTTGCCTTTCATTTTGA
ATTGAAAGAGTAGTCTCGAGCCGCGCTCTTCTGCCATGCGAAGGGAAGATCGGATTGAACGGCTA
GCGAACTCAACCCTTGCGGCAAGAAAACGACGAAATAGCTCATAGCCCGGGTGTGGCTCCCCTTT
CTTACTTCTCTTACTTATTATTTATGGGATCCCCCTTGGCCCCCTTTGGTCCGAAATAGCCGTAC
GCACTCCTCCATATCCCACTCTGGAGGTAGGGCCCAAGAATCCTATCTTTTTTGTTGAGTGGAAG
TAGGAATGGAGTGGCTCATGCCAGACCGGAGAGATCATACTTATCGGCTAGCTCAATCGCAAATC
GGGCATCCCCATGATATATTCAGCCAGCTTGTTAGCTCAGCTTGT
Found at i:298027 original size:20 final size:21
Alignment explanation
Indices: 297996--298034 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
297986 AAAATATCTC
297996 TTAATAAAGAAGCAAAAAATA
1 TTAATAAAGAAGCAAAAAATA
*
298017 TTAAT-AAGAAGGAAAAAA
1 TTAATAAAGAAGCAAAAAA
298035 CAAATTCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.67, C:0.03, G:0.13, T:0.18
Consensus pattern (21 bp):
TTAATAAAGAAGCAAAAAATA
Left flanking sequence: Indices 297496 -- 297995
AAATTGAATGAGGTTCGACATCATAGGTCGAATTTTATGCTATTGTCCAGGCCTTGCGACAGTGG
AGACACTATTTATTTGATTTCAAAGGGGATATTTTTTCCCTGCTCTTCCAATTTCTCAATGCCCA
AAAGAAGTTGAATAGCAGACATGCAAAATGGGTTTCATTTTTGACTAAAACGCGCAGGAAACAAA
ACCAAGTTGCTGATGCACTAAGCAGAAGGCTTTCTCTTTTAGGAGCTATGTCTGTCGAAGCTGTT
GGATTCGAGGCTATTAAAGGTCAGTACAAGATGGATCCTTATTTCAGCTCGATTCTGGAGCAGTG
CGAGCTGCATACTGGTGGTCCAGGGTTTGATTCTTTTCTTCAGGAAGGATTTATCTCCAACCTTT
TCTTTTCTATCTATCCTTAGAAGTAGGGCAAGGGAAAACCTACAAAGGTGGACACCCGAAATTCA
CTGAAGGAAGAATAGTAAGTACTCTATGGGAAAGTAAAATATCTC
Right flanking sequence: Indices 298035 -- 298534
CAAATTCTAAGACACCCCGCCTGCTTGGGAAGAAGGATAGATTGATTCACCTAGCCGGGAGGACG
GAAAGGACAGAGATATAAAGCAATATAGCCTGTTCGGAAAGGAAAGCGCATCTCGCATCGCATAC
CGGATATCTCATACCTACTTGAGAAAGAGTATCGGATATCGCATATCGAAGACACCTGCCCCTGA
CCTGTCCTATCTTAGAAAACGATATCATCAAAAAAACACGAAAGGGATATGGGTTTTCTTACCGC
TTGACTTGCTTCTAGGCTTAGGGAGAAGGGCGCATCGCATGGGTTCCAAACCTTGCTTTTCTCTA
GAATTGAGAATCTCTCCTCTGATTACAAAAAAAAATCTTTTTTAAGAAAAATTGGAAAGTTGATC
TATGGAGCTCGAATTCAAGGCTTGCTATGAGGCCTGCATGCAAGTCTTCAATATATAACACTCCC
AAAATCTCTTGAGAATCTCCTTGCAGCGAGCGCTGTTTTCTCTTT
Found at i:307106 original size:18 final size:18
Alignment explanation
Indices: 307085--307127 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
307075 CAACCTTGTT
307085 GACTATGACAACAG-TCGC
1 GACTATGA-AACAGATCGC
307103 GACTAT-AAACAGACTCGC
1 GACTATGAAACAGA-TCGC
307121 GACTATG
1 GACTATG
307128 GCAGGGCGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.23
17 1 0.05
18 16 0.73
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.19
Consensus pattern (18 bp):
GACTATGAAACAGATCGC
Left flanking sequence: Indices 306585 -- 307084
TACCGTCTAGCCGTTGGTACTCCGCATCTTCACGGAGAATTCAATTTCACCGGGTCCATGTCGGA
GACAGCGGGGCAGTCGTTACACCATTCGTGCAGGTCGCTACTTATGCGACAAGGAATTTCGCTAC
CTTAGGACAGTTAGAGTTACTGCCGCCGTTTACCGGGGCTTCCATTCAAAGCTTATAACACTTCT
CCTTTTGACTTTCCAGCACCGGGCAGGTGTCAGACTCTATACATCGTGTTACCACTTAGCAGAGT
CCTGTGTTTTTAATAAACAGTCGCTACCCCCTGGTATGTGCCGCTTTCCTAATCTAAAGATAGGA
GAGCACCCCTTCTCCCGAAGTTACGGGGTCATTTTGCCGAGTTCCTTCGACATGGTTCTCTCAAG
CGCCCTAGTATACTCTACTTGTTCACCTGTGTCGGTTTGGGGTACGGTCAGTTCACCGGGAGGAT
CGCCCTCCCAATTCGAAGTTTTTTCCTGGAAGTTTCAACCTTGTT
Right flanking sequence: Indices 307128 -- 307627
GCAGGGCGGTACGCTCTGCTCTCTCGCGACCCCTACTCTAATCAAAAGAAAATGAGTTTCGCCTT
TTGAAGCGCCAGTCGCGTAGGGCGACCGGGCCAGGCCGAGTCAGAAAGGCTTTGATGACTCAAGG
TTCATATTAGGGAAAGGAGAGTGAGGGGAAGAGGGGGCTGCCCTCGGCCCGATCATCCAATTCGC
TCCAACAGACAGGCATGGTTCTGTAGTCAAAGCAACTTCGTCACTTTCGTGTACCCATCGGACGG
CAGCCCTTTCGGGGGTTCCTTAGGGACCGATTCACTCTGCGTAGATTGACTGAACGCAGAAAGCC
TTCCACTGGCAGGCGATCGTGTTTTTCACAGGATTTCTCGTTACTCATGTCAGCATTCTCACTTC
TGATATCTCCAGGTGTTGTCACCAAAAACCTTCCCCGATTGACAGAACGTCCCGCTACTGACACT
TGAAAAAGCAGCTTTCAAGGTCTCGTCGCTTCGGTGAATCACTTG
Found at i:361682 original size:7 final size:7
Alignment explanation
Indices: 361670--361699 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
361660 AAAAACCTTG
361670 ACTTATT
1 ACTTATT
361677 ACTTATT
1 ACTTATT
361684 AACTTATT
1 -ACTTATT
361692 ACTTATT
1 ACTTATT
361699 A
1 A
361700 TATAAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.53
Consensus pattern (7 bp):
ACTTATT
Left flanking sequence: Indices 361170 -- 361669
GAATCATAGGAAGAATCGATCTTGATTCTTCTCTTTTGACTTCTTTTATCTTTACTTTTATAAGT
CTTCAGTCTGGGAATTTCCTTTCTTACAGTTTCACTTCTGCTTCAATTCTATCTTTATCGAGTAT
ATTTTTTATTCCGTACTTCTATGAATTCGTCGAAGCTCTACCAATTAGGGAAAGGAGAGTGAGGG
GAAGAGGATGAAGTCCTCAAGCCACTGAAGACGACTAAACTCCTGCTCTGTGCTATCGATTACAT
GCTACGCTCACTGAAAGTCTTTCGCTAGATGTAAGTTTCGCTTCACTCTCAGGATGGAATGGAAA
GATCGAGTAGTTAAATGTCATTTCGGGTATGGCAAAAGAAAAGAGAAGTGTTTACTCCTAAGTAG
GGCTCTAAAGCGTTTAGCAGCAGCTATCCTGAAATTCTATACACCTACCTATCCCTATCTTATTT
TTCTTAAGTAGGAAGACCACTCTTATATTCAATTGAAAAACCTTG
Right flanking sequence: Indices 361700 -- 362199
TATAAATAAATATAAATGAACCAGAAGTCAAACTTGAAGAAGAGTAAATAGAGCTACATACGCAG
GAGAACGAGTGTAATACCTGGATAAGAACGAAGGAGTTTTTCCTGGAAAGAGTAGCTAGAACACT
AGAAGCGAAAGGTAGAGAGGATGGCTGGCTTGGCTTAGGGTTACATCGCTTTAGTCCACCTCTCG
GTCTCAATTACATCGACCCTGGTCTTATCCAAATTCTTTCCGTATGGTTCCTTCTTCTTTTCTTT
GGGAAAAAGACTCCTCATTCAGACATTCTCCAATTCAAGTCAGCTCTGAATCTGAACTCAATGGA
TTCCAACCGGTCTTCCAGAGACCACACGGATCCTTAGAAGTAGAGAAGTAGAAAGCGTTGGTTCA
AAGCTAATAGTGAGTAGAGAAGTAAGCAGCTGAGTGGGACTTGAACTCTCAGGTGAGGCATTTCC
TCTATCAAACATGACTGCCGGAAAGAAAGAAGTAGGCAATCAAGC
Found at i:361690 original size:15 final size:15
Alignment explanation
Indices: 361670--361699 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
361660 AAAAACCTTG
361670 ACTTATTACTTATTA
1 ACTTATTACTTATTA
361685 ACTTATTACTTATTA
1 ACTTATTACTTATTA
361700 TATAAATAAA
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:0.13, G:0.00, T:0.53
Consensus pattern (15 bp):
ACTTATTACTTATTA
Left flanking sequence: Indices 361170 -- 361669
GAATCATAGGAAGAATCGATCTTGATTCTTCTCTTTTGACTTCTTTTATCTTTACTTTTATAAGT
CTTCAGTCTGGGAATTTCCTTTCTTACAGTTTCACTTCTGCTTCAATTCTATCTTTATCGAGTAT
ATTTTTTATTCCGTACTTCTATGAATTCGTCGAAGCTCTACCAATTAGGGAAAGGAGAGTGAGGG
GAAGAGGATGAAGTCCTCAAGCCACTGAAGACGACTAAACTCCTGCTCTGTGCTATCGATTACAT
GCTACGCTCACTGAAAGTCTTTCGCTAGATGTAAGTTTCGCTTCACTCTCAGGATGGAATGGAAA
GATCGAGTAGTTAAATGTCATTTCGGGTATGGCAAAAGAAAAGAGAAGTGTTTACTCCTAAGTAG
GGCTCTAAAGCGTTTAGCAGCAGCTATCCTGAAATTCTATACACCTACCTATCCCTATCTTATTT
TTCTTAAGTAGGAAGACCACTCTTATATTCAATTGAAAAACCTTG
Right flanking sequence: Indices 361700 -- 362199
TATAAATAAATATAAATGAACCAGAAGTCAAACTTGAAGAAGAGTAAATAGAGCTACATACGCAG
GAGAACGAGTGTAATACCTGGATAAGAACGAAGGAGTTTTTCCTGGAAAGAGTAGCTAGAACACT
AGAAGCGAAAGGTAGAGAGGATGGCTGGCTTGGCTTAGGGTTACATCGCTTTAGTCCACCTCTCG
GTCTCAATTACATCGACCCTGGTCTTATCCAAATTCTTTCCGTATGGTTCCTTCTTCTTTTCTTT
GGGAAAAAGACTCCTCATTCAGACATTCTCCAATTCAAGTCAGCTCTGAATCTGAACTCAATGGA
TTCCAACCGGTCTTCCAGAGACCACACGGATCCTTAGAAGTAGAGAAGTAGAAAGCGTTGGTTCA
AAGCTAATAGTGAGTAGAGAAGTAAGCAGCTGAGTGGGACTTGAACTCTCAGGTGAGGCATTTCC
TCTATCAAACATGACTGCCGGAAAGAAAGAAGTAGGCAATCAAGC
Found at i:370986 original size:21 final size:19
Alignment explanation
Indices: 370913--370986 Score: 71
Period size: 19 Copynumber: 3.8 Consensus size: 19
370903 TTATTAAATA
370913 GAAAAATAAGCT-CTTTGT
1 GAAAAATAAGCTGCTTTGT
*
370931 GATAGAATAAGCTG-TTTGT
1 GA-AAAATAAGCTGCTTTGT
* *
370950 GTAAAAATAGGTTGCTGTTGT
1 G-AAAAATAAGCTGCT-TTGT
370971 GAAAGAATAAGCTGCT
1 GAAA-AATAAGCTGCT
370987 ATTTCATCTC
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
18 2 0.05
19 23 0.52
20 5 0.11
21 14 0.32
ACGTcount: A:0.35, C:0.08, G:0.24, T:0.32
Consensus pattern (19 bp):
GAAAAATAAGCTGCTTTGT
Left flanking sequence: Indices 370413 -- 370912
TTGGAAAGATTTAGCAGTATTTTCTTATGATGACCTGGTCGAGAGAGTACGATACATCGGTGTAA
AAGATTGAGTGGGATCTGTGAGGTTGGTTATAGTAAGGCCTGGCCGGAAAGGTTTTTTGGAAAGC
TCGCACGACGAAAGAAAGAGCTTTACAAGCGGAATTGCCCTTCCCCTCTTCGAATCTGAGATGAT
AGTTACCTTTCTAACTGCGCATTCTTCCTTCAAACCTTCTTGCTAACAGTCTATTTCCTCCCTCA
CAGCTCCTTCTCTGCATGAAGGAGCTGCATCGAATGCCATGGTTGCCTCTTTGATAGAATAGGCT
GTGGGGACTTTTCTCTCGAGAATCTCTATAGAAGCGGAAGGAAGGCTGTTTGCAATATCCGCTTC
TAGTCTTTTCTTTTTGCCCTAAGTCCAGGAACTGATTGACCTAAGTAAGTAGGCGAGTGTGGGAT
TTGAGGAATATCAGGGGAATGAAGCCAATCTTTCCTTATTAAATA
Right flanking sequence: Indices 370987 -- 371486
ATTTCATCTCCGGCTATTGAGCCAAGTGGGACAGAAGGAACTCTTACTGTTATAGAATCCGCTCT
TACTGTTCTCGTAACCGGTGCTGCTATTACAGAGGAAGAATAAGAGGTAGGGAAAGAGAAGAAAA
GAACCAATGACATCATCCCAAGCCGATTGCTTCTGTAGTGAGGAAGGAAAATGCTTTGTCTATCG
ATGTCAAGCACTAAGCCATAGAGTCAGGCTAGCAATAGAGTTGAGTATGAAAGTTTCTAAAGAAA
ATACCGGGAGCTCGCCTGACTGACCTTAGGCTATTGAGAAAACCTATCCAAGTAACCCGTAAGCA
AGCTATAACTAATAGCGAATGAATGCTAAAGCAAGCCACCATGAGAACTCTTTCCCTTAGCAAGC
GAGCGAGCTAGTACACTTGGATTGGTTTCTGGATTCACAGTCTTTCTTGATTCACTAGCCGGAGG
GATTCCCCTGTATTCAATCCATAAAGATAAAGCAACCACTTCAAG
Found at i:394649 original size:12 final size:12
Alignment explanation
Indices: 394632--394657 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
394622 TCCATGGGGT
394632 TAGGATTTTTTA
1 TAGGATTTTTTA
394644 TAGGATTTTTTA
1 TAGGATTTTTTA
394656 TA
1 TA
394658 AGTAACTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (12 bp):
TAGGATTTTTTA
Left flanking sequence: Indices 394132 -- 394631
GTCGAATCCATATCATCAGAATAGAGGGCATAGGACTCTTTGCCCTACTATGAACTAGGAGGTTG
GCTCATAACAGAAACTCAAAGACGCCAGAAAAGCACACTTAACGCGGTTCATCAGGTTGTTCAGA
GGCTCCTCCCTGTCCCGCCCTGCTTCAACATATCAGTTGTCATTAGGAACTTCTTTCTCTTAACG
AGATTGTGTTTGTGGTCCTTGCTAAACGCGCGTTAAAAGCGCCCCTATCGAGTCAGTTTGTCGCT
TCTTTTTTCGGAATGCACTGAAAAGCTCAACGCGCTTGTATCTAGGTCGGGGGTAATTAAACTGT
ATAAGCAAGGCTCGGGATATGGTTCTCTTATGGGGAATAGGCTGAAACAGCAACAGGCAACCAAG
ACTAATGAAGTGCGTTCAGGCTTACTTTAATCAACAACTGAAAGAGTAATGTTTCCACTTATTCC
ATCCTTACTGTTACTATAACCGCTAATAGAATAGATCCATGGGGT
Right flanking sequence: Indices 394658 -- 395157
AGTAACTAAAGGGTAACCACTAAAGGGTTAAGCTGGCTCAGAAGAAAGTCTAGTGGGGCATGGTT
TATAAGGTAGGTTACCTGCTCGTAAGAGGCAGTCTAACTTAGTTAGAGGAAAGCTTGCTCATCAG
AAGGATAAGCAAGGTTTTATGAATTATCCTAGCAAGGCTTATAAGATAAAGCTAAGCGAAAGCAA
ACAGGGGAGCCCCTTTGTAATGGTTTGAAGGTTTGGTGTTCAGTCCGCCATTCCAAGGTAAATGC
CTGGCTATTCAAGCTAGCGTGGTAACGAGACGGTGAGTGAAAGTGAATCGGTTAACGAGACTGAG
GAAGATGCCTAGCTAGTTTTGAACCAGAGCAGGGAAGTGAAATAGCTAAATCGGAAGTTAAGCCC
TCGATTAGCAAAGAGCTCCCCCAACGAGCTCTCTCCGTTCTATCCAATAGACTATTTGCTAAAGT
TCAAAGGCCAGTTTGAAGAAGGCCAGACATGCGAAGTAAGTGAAA
Found at i:415363 original size:14 final size:14
Alignment explanation
Indices: 415346--415377 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
415336 GCTTAAGGCC
*
415346 CTATGCTTCAGTCT
1 CTATGCCTCAGTCT
415360 CTATGCCTCAGTCT
1 CTATGCCTCAGTCT
415374 CTAT
1 CTAT
415378 AGGGGATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.31, G:0.12, T:0.41
Consensus pattern (14 bp):
CTATGCCTCAGTCT
Left flanking sequence: Indices 414846 -- 415345
TCGGCCAGCCTCAGTCCTTCCCGCCATACCTGGACATCGACTAAAGTCTCATTGGTCTCCTCCTC
TTCCGTATCCCTTCTCGCCCCCCATACTGCACTGCTTTTGAACCACCTACTTCTATTCGCCAAGC
CCACCCTGTGGCAAGCTTTATAATTTAGGCTATGGAGAGAGACCCAGCTAGACCTCCCATCTTCC
ATCCCGAAAAAGATCTAAGATTCAATCTAAGATGCCCGGTATTTTTGCCTATCCGCCGGCTGGGC
TAATGTTCTTTCTTTCTTTTAAGTGAAAGAAGGGATCTATGTAATACACCTATTTATGAACCTGC
GACTTCGCCTTCTGGGGGTGAGTCCTCTTTGATCTTCTGACCGGTGCTATACGCGTCTTCCCCGA
ATGAATAGTCAAACTGCGCCTATTCACAATGTACCCGGAGCCTTTCATTCAATATCTGTAGTTTC
AGTCTACCTTGATACATCTTCTTTTCCGAAAGGTTGCTTAAGGCC
Right flanking sequence: Indices 415378 -- 415877
AGGGGATATCTTCAACCCTATTCAAATGCTGGATGTGCTTTCAACACCTGGGAATCTTGGACAAT
GGGAGAGGGGCGGATCAACAAGTAGTTCCCCAGGGGGTTCGACAGTCTTCTCGAACGTCTACAGG
GAACGCATTCTGTTAATGTCTATAGATAGAGGATGATTCTTCATCTCGAATCGGGATCAAAGGGA
GGGTCCTTTAACGGGACTTCTTCGATAAACACTACTGAGATTCAAACTCCACTACCAATCTTTCA
ATCTTTTTATCTGCAGGGAGACTTTGAGCCTTTCATCGGGCTCTCACCCCTTGCCATACTGTTGG
TGATCCCTCTCCTCTACTGCTTAGGCTACGCTTGGAGTAGACTAGACGAATAGCTTTGATTTGTT
TATACTAAGCTATATCACCCATTCGATCAAAGAGCCTGTCTAGTATTGACAATCATTCCCACGGA
ATTTCATATTGCATGAACCAAATGGAGCACTCTCCGTTGTAGATC
Found at i:416174 original size:15 final size:15
Alignment explanation
Indices: 416151--416184 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
416141 AAGTGGACAA
*
416151 TTGATAGTGAGGGAG
1 TTGAGAGTGAGGGAG
*
416166 TTGAGAGTGGGGGAG
1 TTGAGAGTGAGGGAG
416181 TTGA
1 TTGA
416185 AATGCACCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.50, T:0.26
Consensus pattern (15 bp):
TTGAGAGTGAGGGAG
Left flanking sequence: Indices 415651 -- 416150
CAGGGAGACTTTGAGCCTTTCATCGGGCTCTCACCCCTTGCCATACTGTTGGTGATCCCTCTCCT
CTACTGCTTAGGCTACGCTTGGAGTAGACTAGACGAATAGCTTTGATTTGTTTATACTAAGCTAT
ATCACCCATTCGATCAAAGAGCCTGTCTAGTATTGACAATCATTCCCACGGAATTTCATATTGCA
TGAACCAAATGGAGCACTCTCCGTTGTAGATCTTCAAAGCTTATCATTGGTTCAATCTTGATGAG
CAAGAAGATGTTTTCTAGACGAATGCGAAGATGACAGAGCTTGGAGTTTCCCACTCAAGGGCTGC
TCGTCCTAAGGGATGCGCTCGATTATTAACATATTATAGTAGTGCGTTAGAGCTCTCTTTGGGTT
CATCTTTGAGAGAGGTTCAATCCACCTCAGCATAAAAAGCTATTTTAACTTCTATATACCCCATT
TGTCCCTGATAATGGAGATGGACCTGGATAATGGAAAGTGGACAA
Right flanking sequence: Indices 416185 -- 416684
AATGCACCTTTTCTCTCTCTGGTGTGTACCTTCAGGTGTCAGAAGAGTCAATAAAGGATACATTC
AACTCCCTTTGGTTGATATTGACCTTGATTCCATCTTCTCTTCTATTCCGTTGAAGAAAATGCGA
TCTAACTCCCTGAAATCACCGGCATTGGATTCCGCATCAACCAAGTTAGCGGGTGGCTTTTCAGG
CCCCTCAAGCAGGCTATTCTGAAAGACACAGGATGGGGCAACTTGGAGGAAACCGTTAGTGTTAA
GAATAGATTATCACTAGGAAAGAGCTATCCTCCATTGACGAAGTTACGAAGAGGAGAGGACAGAT
AAACGGCCTATTTTGATGAAGGAGAAACTGGCTATATTCTTTTCTTTTACGCCATGAAAATGGGA
TAGATAGAAGGATATAGATCACTACTGCCAGTGGACGGATTTGACACCCAGGATATAGCAGTTAC
AAGCACGAAATTTATAAATGGGCGAAAGTCCTTGAAGAGCTGGAA
Found at i:419148 original size:22 final size:22
Alignment explanation
Indices: 419123--419164 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
419113 TGCTTCTTTG
419123 TGTTGTGATCGCAACTTCTTCA
1 TGTTGTGATCGCAACTTCTTCA
*
419145 TGTTGTGATCGCAGCTTCTT
1 TGTTGTGATCGCAACTTCTT
419165 TGTCTTGCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (22 bp):
TGTTGTGATCGCAACTTCTTCA
Left flanking sequence: Indices 418623 -- 419122
TAAGGTATTTTTTGTTCGAAAATGAGAACCATATATTAGAACATTGCCCGAGATGATCCATTGAG
TGGGTCGCACTTAAGACTTGGATTATCAATGCCTTAAGCGCATTACGGATTTGAGTTCTTGACTA
GTTCACTCGCTCTTACCGTTGGTCGTTCACGTCTTTATGTTTGCTGAGGACTTGTCGTTGGGCCT
ACGGTTTCTTAAATTCCAAATTTACTGGTTCGCTACTACAGGAGAGGGGGAACCCTTTCCGTCCC
CATCCCGCTCTCATTACAGACTGCGCTACGTCTTCAAATCTCTTTCCTTGGAGCATTTCCCACTA
CAAAACCTGAAGTGAAGCTTTAAGTGAACACAGCTCGCTCGCCTTCTGATTAGAATCCGTGCTCG
CAGTTCCTATCTGCGCCTTCTAGCGTTCAATCTCCACTTTCATTTTACTAGTCTATTTTACCGGC
GAAATATGAGAAAAGTGATGAAAGACCCTCTTTTTTGCTTCTTTG
Right flanking sequence: Indices 419165 -- 419664
TGTCTTGCGATGGCATTAACATGGCGCTGTCTTCTGTTTGATCCTCTCGAGTCGAGCAGGAACAG
GAAATAGGAATAGAATCGGAAAAGCTCAAGTCAGACATGTGCAACAGGGAATCTAGTCTTAAAAG
CGACTGACTTCCAACCATCTATAGAAGTAAGTAATTGTTGAGAGGCTTTCACTGCTGTAATTGTA
TTCGCCAACTTTCTATCGTTGAGATCTTTCGCAGGCCTACGAGACTGAACTTATTCAATAGAAGA
CCCACTTCCTTATAGTGCCTTGCTCCCTTTCCTTTCACATTGAATTGACCAGTACCAGTCCTATC
TATCTTGACTGGATGAGGTCGGGAATGGAATGGTTGACGAGACTTGAGCTACATACTAGAACTCG
TTCTAAAATAACTTTCTCCTTCACCTGCCTTGGACAGCAGGGACGGATACGGATACTGGCGAGCT
ACCTAGAATTCTATTCTCAATTGATCCTCCCGCCTATGAAACTAC
Found at i:448612 original size:18 final size:18
Alignment explanation
Indices: 448596--448635 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
448586 GCTTCGCTTG
448596 TTTCGTTGAGCTCGCTTTC
1 TTTCGTT-AGCTCGCTTTC
448615 TTTCGTTAGCTTC-CTTTC
1 TTTCGTTAGC-TCGCTTTC
448633 TTT
1 TTT
448636 AAAGAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.05, C:0.25, G:0.15, T:0.55
Consensus pattern (18 bp):
TTTCGTTAGCTCGCTTTC
Left flanking sequence: Indices 448096 -- 448595
TGGACATCGCCACCGGGATCGTTGAGGCCCCATGAAGACGGCTCTCCTTCACTGGGAAGACGCGG
TACTCATTAGCGAGCGTCTGGTGACCAACGATTCCTGATTCTCCTGCCTTTCTGCCATAGTCTAC
ACTTGTCCGCCCAAATGGTCGACCTTGCCATCAAGTTGGGTCACTCGATCCTTGAGTGTTTCCTT
AGCAACAGCCGCCGCAGACAGCGCTCCACTGCTATCGTCAAGCTTGGACATGGTGCAACAAGAAG
AGAATTAGCAGAAATCCGAAAGGGATTTACCCATAACTCCGTTCTGATACCTCCTAAAGCGAAAT
AGACACGCGCACGGGTAGAGAGTCTGCCCTGCCTGAGTCGTGCGGCCCCAGGTGCTACACTACAA
TAGGCGTCACCTGGGTTCAGCCTTATGCCGAATTTCGCTTCTGATCTCTCTCTGAGTCTCTATTT
CGTTACCTTCTACTACCGATCTTCTCTTGCTGCTCGCTTCGCTTG
Right flanking sequence: Indices 448636 -- 449135
AAAGAAAAAATAAAAAAGAGAATATGAACAGCAGCCAAATACTTTTTTATAAGAGTAATCAGGGA
TGCTTCCAGCAAGAACTTAGACGGTATGCGATTGATCAAGTATGTTGCGGTCAACACAGCTTCTA
CCCAAACGGGGTACATTCATCCCAAACATCATAGCTCTAACCGTTTCCAATAAGTATCTATTTTG
CCTCTCAGCTATTCCAGGAGTATACGCACAAGATCTCTGATGAACAGTGCCTCTGGATAAGATAT
TGAGAGAATTCCGTGGGCATGTATTCTCCTCCAGAATCAGATCGTAAAATTCTTTTATTTTGCAT
TGGAAATAATGTCTGGCTTGTCGATTGTTCGTCCAGGGGAGGTGAAATTTGGACGGTTCATGCTA
ACGAGATCGCCTATTTCTTTCCTCCTTCTTTCCTCACATGAATCATGAATGAGGGGGGTAGAGCG
GCTCTTTCTCACGACTAGGGGGTTCTAGATAGGAAAAAAACACGC
Found at i:454730 original size:8 final size:8
Alignment explanation
Indices: 454699--454732 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
454689 TTCCCCTTTG
454699 AAAAAAGTA
1 AAAAAAG-A
*
454708 AAAAAAAA
1 AAAAAAGA
454716 AAAAAAGA
1 AAAAAAGA
454724 AAAAAAGA
1 AAAAAAGA
454732 A
1 A
454733 GTATTATGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 17 0.74
9 6 0.26
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (8 bp):
AAAAAAGA
Left flanking sequence: Indices 454199 -- 454698
CGAGTGGAATGAGGGAGAGCGGCTCGATCGACAAAAAAGAATAGAAGAGTAGCCCCCCTAGAACC
TGGCAAAGTAACTATCAATGAATTCCCGAGCAATTCTCAACCAACATATGCGATTCATTCCCGCA
AAGATTATAACACAGAGAAGACTCCTTACCTTAGGAGCGGGATAAGTGATACATCCGGCGAGCGC
CGGTGAAGAACGCAAGCAAAGCTGGCATTGTTATATTCCAAAAAGAGAAAGGAGGCAGACTGGTA
AGAAGGCCGACCGCATAGAGGGAGCGAACCGAAAAGCTCAGCTTTGCGGAGCGGACCAATCTTCC
GTACCGCCCCCTTACTCTCTCTCTATAAAAAAAGCCTGCGGGAAGCGCGAAGAGCTAAGCCACTA
ATGTCGTGGCGAAGGTTATACCTCAGAAAGTCCGCGAAGCTAAGGTTTCGTATGTGTTATATCCT
TTCGATCGAGCGACAACTTTTAAGGAAGGCCTTCATTCCCCTTTG
Right flanking sequence: Indices 454733 -- 455232
GTATTATGAAGCTAAATGCTCTTGGATGGGCAGTTAAATAGGGAGAGAAAGCCTTTTCTTTTTTT
TTTTCTTTTATATTGAATGTAGTCTATCACTTTGAGGTCATGAGAACCTTGTGAATTGATATAAA
TTATGGCATGCATCTCTGAGGAGGGTGGCACGGCCAAACATCATCCCAGAAGCGAATCGGCTTAC
CATTGCCCAACCAAAGTCTAGCCCAAGTTCTGCCTGAAAGTCTCTCTGTACTGTACAAAATAAGA
CCTTTCTAGATGCAGGATATTTAAGAGGTGGGTTGGTCAATCCATTTTTGACATTGGAGAGGTAC
TTAGCAGCCAAATATGAGCACCATGGCTTTTTTCTTTTCCTTTTGAAATCCCCATAGCCACTTCA
TAAGAAGGGCTGGCTTGGTTGAAGTCCACCTCCTTCGTTAAGGTGATTGAAAAAATCCAGACCAT
AAAAAAAAATATTTTTTTTATGGGATGTTAGTAAGGATGAACATG
Found at i:479834 original size:15 final size:15
Alignment explanation
Indices: 479814--479845 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
479804 CTCTCCTCTT
479814 CTTCTTGTTCTTATA
1 CTTCTTGTTCTTATA
*
479829 CTTCTTGTTTTTATA
1 CTTCTTGTTCTTATA
479844 CT
1 CT
479846 ACTGCCCCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.19, G:0.06, T:0.62
Consensus pattern (15 bp):
CTTCTTGTTCTTATA
Left flanking sequence: Indices 479314 -- 479813
GGGAAATGGACCTAACACACTAACAATAAGAGGGTAGGCCAATGCGAAGACACCGGGAAAGACAG
AAAAAGAAGGAATTGCTCCGCGAGAGGAGGGAACTCATTCAAGGAAAGAAATTGTCTCCCGACAC
AGGCACGGCAGCAACTGCAGAAAAGGATGCGGCAGAAGGATTAGGGCTTTTCCTCAACGGCTGAT
ACGATTTGACCGGCTGAGGGAAGAATGGATTCCCCACTGGGGTTGAGGAAAGAAGAGGACCTCGC
CCTCGCTCGACAGAAAGAACTGATTGTACTACATCGACGGAATGGGCTTGATCTGATATGCTTTC
CTCGATGACTGATTCACTTACGGATTCGCTTACTGAAAGGGCTGCGGGAATGGTGATGACCTATA
AATCTCCTTACCAACTGACCGCTAAAGGGCGAGATACGAGATAGAGGGGGCAGACGATGCTTTCT
TCGTGAACCAACCGATTACCCCGGTTCCTATATTCCTCTCCTCTT
Right flanking sequence: Indices 479846 -- 480345
ACTGCCCCTGGCCTTAGGAAAGAAAATAAAAATGCCAGTCTCAGGTCAAAGAGAGAAGAGCTATG
CCACAGAAAGCCTTTACGCATGGCATGGTCACACCAAGCTAATGGGAACCCCGGTCAACCGAACC
ACAGAGAAAGTATAAGATCCAATGCGATCTCGAACAAAGCATGGGACCGCAGGGCATACAGACAT
GAAGAAAAGAACTAAGGTTCCCAAAAATGAGAAAGATTGAGAGACATTGGATTCGGTAAGACAAA
GCAAAGCCGAGTCTAAGGGTTTCCAATGAATCTGAGTTAGAATACGGAAGAGCAAGGCACGGGAG
TGCATACCGGGAGAGGAAGGTCTCCACTAAAAGACCATAAATACCCTATTACCAAGAGTGGGGCC
CGAACTAGTCTTATTTATTTTATGCAGTGCTCATAGCTTTATTCTTCACACAGGAAAGGAGAATT
GCCTACTCGTATATTAACTGACTTTCAAAAGGTAGGAAGACGCTC
Found at i:482876 original size:26 final size:25
Alignment explanation
Indices: 482840--482948 Score: 94
Period size: 25 Copynumber: 4.1 Consensus size: 25
482830 GGATGAGATC
*
482840 GATTGCTCACAACTGACTTCCTTGAA
1 GATTGCTCACAACTGACTTAC-TGAA
*
482866 GATTGCTCACAGCTGACTTACTGAA
1 GATTGCTCACAACTGACTTACTGAA
* * * *
482891 G-TGAAGCCGGTGAGCAACTGACTTCCGGAA
1 GAT--TG-C--TCA-CAACTGACTTACTGAA
482921 GATTGCTCACAACTGACTTACTGAA
1 GATTGCTCACAACTGACTTACTGAA
482946 GAT
1 GAT
482949 GGTGAGCAAC
Statistics
Matches: 65, Mismatches: 11, Indels: 15
0.71 0.12 0.16
Matches are distributed among these distances:
24 1 0.02
25 22 0.34
26 22 0.34
27 1 0.02
28 1 0.02
29 3 0.05
30 14 0.22
31 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (25 bp):
GATTGCTCACAACTGACTTACTGAA
Left flanking sequence: Indices 482340 -- 482839
TTATTCATTCCATCTGCGGATAAGGTTCAACTACTCCTTCTTATGCTAATGCAAGATCTAGCTAC
TCCCATTTGGCCCTTTCTCTTTAGTTAGTTGGCTATTTCTCCCCGAGCATCTCTCCAGTCCTGCT
CTTTGGCAAACTATGCCTACTTGTCTCAATGAATCAGTCCAGTTCTTCACGCTAAAGCGTACCTA
TCCATAGTGTAGCTCCGTGCTCTGCTTCTTTGTGATCAAGATCACCCGATGGCTTTAAAAGTTTA
CAAGGAGAAGGGTCTATTGTTGGGCTATCTTCTTCCTCTTAAGCTTTAGTCAGCCCTTTCCACTT
CCTAAAGCCTCGCCGCTACTCGGCTCCGTTTTTGCAATTCTCTTCTCTCAGATACCTATTATTTA
GGAGATTCAAGATTGAGATAAAGAAGAACTTCGTGCTACAACTTTCAATTACACATTTCTGTTCC
GTCTAATATAGGTCTAATATAGAATAGAGGCAAAAGGATGAGATC
Right flanking sequence: Indices 482949 -- 483448
GGTGAGCAACTCTTTCTTCACTCCTTGCTTATTGAATCTCAGGTTCACTTGACTGGCTAACTACT
ATATAGATATAAACCATAAACTCACTACGAGATAGATTATTATCTTTCTTGGCTCGAGGAATGCT
TTTTAGAAAGCATTTCTTCTATCTATCGTACCTTCCTGCCCTCTTTCTTCAGCTCCTACCTTGGA
ATGTTCTCGCAGGAAGAAGTTGGAGCTTGGCTGAGAAAACTTCCTGTCTTGGAGTTCACTAATTC
CACTTCTGATTCGGGCTTGGAGGGTGAGTACTCTAATCTGTTCACTTTATCCCTTTCACACGGAC
TCCTTTGAATATTCCTACTTGGCCGGCTTACTTCCTTCAGCCCGATCAGCTTACTTGCTCACGGA
CCATTACTAAAGATAGAAGTTCCGGGATCAAGAATCCAGCAACCAACAGAGGGGTTGGTCTCCAG
GTCTTCTCACCGGGCTGAAGGACAGGGAAGAGGGGATAAGATGAA
Found at i:482958 original size:25 final size:26
Alignment explanation
Indices: 482899--482959 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
482889 AAGTGAAGCC
*
482899 GGTGAGCAACTGACTTCCGGAAGATT
1 GGTGAGCAACTGACTTACGGAAGATT
* * *
482925 GCTCA-CAACTGACTTACTGAAGA-T
1 GGTGAGCAACTGACTTACGGAAGATT
482949 GGTGAGCAACT
1 GGTGAGCAACT
482960 CTTTCTTCAC
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
24 4 0.14
25 21 0.75
26 3 0.11
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (26 bp):
GGTGAGCAACTGACTTACGGAAGATT
Left flanking sequence: Indices 482399 -- 482898
AGCTACTCCCATTTGGCCCTTTCTCTTTAGTTAGTTGGCTATTTCTCCCCGAGCATCTCTCCAGT
CCTGCTCTTTGGCAAACTATGCCTACTTGTCTCAATGAATCAGTCCAGTTCTTCACGCTAAAGCG
TACCTATCCATAGTGTAGCTCCGTGCTCTGCTTCTTTGTGATCAAGATCACCCGATGGCTTTAAA
AGTTTACAAGGAGAAGGGTCTATTGTTGGGCTATCTTCTTCCTCTTAAGCTTTAGTCAGCCCTTT
CCACTTCCTAAAGCCTCGCCGCTACTCGGCTCCGTTTTTGCAATTCTCTTCTCTCAGATACCTAT
TATTTAGGAGATTCAAGATTGAGATAAAGAAGAACTTCGTGCTACAACTTTCAATTACACATTTC
TGTTCCGTCTAATATAGGTCTAATATAGAATAGAGGCAAAAGGATGAGATCGATTGCTCACAACT
GACTTCCTTGAAGATTGCTCACAGCTGACTTACTGAAGTGAAGCC
Right flanking sequence: Indices 482960 -- 483459
CTTTCTTCACTCCTTGCTTATTGAATCTCAGGTTCACTTGACTGGCTAACTACTATATAGATATA
AACCATAAACTCACTACGAGATAGATTATTATCTTTCTTGGCTCGAGGAATGCTTTTTAGAAAGC
ATTTCTTCTATCTATCGTACCTTCCTGCCCTCTTTCTTCAGCTCCTACCTTGGAATGTTCTCGCA
GGAAGAAGTTGGAGCTTGGCTGAGAAAACTTCCTGTCTTGGAGTTCACTAATTCCACTTCTGATT
CGGGCTTGGAGGGTGAGTACTCTAATCTGTTCACTTTATCCCTTTCACACGGACTCCTTTGAATA
TTCCTACTTGGCCGGCTTACTTCCTTCAGCCCGATCAGCTTACTTGCTCACGGACCATTACTAAA
GATAGAAGTTCCGGGATCAAGAATCCAGCAACCAACAGAGGGGTTGGTCTCCAGGTCTTCTCACC
GGGCTGAAGGACAGGGAAGAGGGGATAAGATGAAGCCATTGCTCA
Found at i:490014 original size:16 final size:16
Alignment explanation
Indices: 489993--490023 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
489983 TCTCACTCAC
489993 TGACGAAACCACGCAT
1 TGACGAAACCACGCAT
*
490009 TGACGACACCACGCA
1 TGACGAAACCACGCA
490024 CTGATGAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.35, G:0.19, T:0.10
Consensus pattern (16 bp):
TGACGAAACCACGCAT
Left flanking sequence: Indices 489493 -- 489992
ACAATAGTAACTAGCCGCTTTCCAGTGCGGTAAGATGGTGCTCCCCTGACCTGATTCGGTATTTG
GTTAACTAGCTAATTCAGTATTTGATAAGTAGAGGGCTTCTTCGAGCCAATCCCAATAGCAGCTC
TCCCTCGTTTAGCTAAGCTTTGACCATGTAGTGGACTCATTGTGGTTGAGTAACCCAAGCGTGGT
AATGCCGTCTGGAGAAAGGTAACCTTGGGATTTTTAGTTCGTAGCGAGCCGATCGATAGTTCAAG
ATTCAGCCAATTCAGGTTATCCAATGCGAAGGTTGCTTAAAGCCGGCAAGGCAAGAGGTTCGGGA
GCCGCCCAGCTTCACCAATTGTCAGGCTTTTCATGGTCTCCATTTTGGCTTTGATTCTTCTCATC
GTAACCATTCCTCCGCCCTACTGCATGTAGTTTGTTCTGATCCCCTAATTCCACCTAGTCCCCTT
CCATTGCATTTGTTTTGATCTCACAATTCCACCAGTCTCACTCAC
Right flanking sequence: Indices 490024 -- 490523
CTGATGAAAGCACTCACTTGATTATACATTATACATTCATTATTCATCTAGTCAACGCACTGCAT
GAACTAGGTGAGAACCTGAATGAGATTGATAGCAATCCGGCCGATACACCATATCTTCATTTTCC
TTTTTCACCAAAAAAGGTTTCATCACTTCTATGTCATTCCGAGCTTACAGAATTGGGCACCTACT
ACTTATGCGTCAACCATCACTTATTCATCGTTGGGAACCGGGCGTCTTCGAGACGAAAACCAGAT
TCATCTTTGTGGATGTGCCTATTCGTTCATCACTAAAAAAAGACCTCCCTTGACTCGCCAATAGC
GCCTCTTTGCACCAGCAGAGCAGCGGTTCGGTTCGATTCAGCCACGAAAGTGACAACATCAAGGA
CACAGATATCCCTGTAATCAAGCAATGAGTATTGGTTCAAACTTTTCAGTAGCGTTGGTGACACC
ATAAAGGAAAGAGAAAGGCGACTCAATCACTTGTTCATCATAAGT
Found at i:491518 original size:27 final size:27
Alignment explanation
Indices: 491479--491536 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
491469 TTCCTCCCAT
* * **
491479 TTCCCGACGGCATAGGTGCACATCTGC
1 TTCCAGACAGCATAGGCACACATCTGC
*
491506 TTCCAGACAGCATAGGCACATATCTGC
1 TTCCAGACAGCATAGGCACACATCTGC
491533 TTCC
1 TTCC
491537 TGCCTTCCTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.22, C:0.33, G:0.21, T:0.24
Consensus pattern (27 bp):
TTCCAGACAGCATAGGCACACATCTGC
Left flanking sequence: Indices 490979 -- 491478
GCTTTGCTTCAAGCGGATGATGTTTCCTAACCCACCTGAATCTCTCATTCCTTCTCTTCTTCTAC
TGGGGTAGATAGACTGTTTCAAGTCAATCGATTCAATTCTTTCTTACTTCTTTGAATAATGTGCT
TTGGCCAATAGAACTGCTTCGCTAGTTTGCTTGTGACGACTGAACTCCGCTTGCCCCCGGCGAAC
AGGTTCTAATGCCCACTGCCGTGCGAGCATAAACTTCTTCTTTTGCTTTGCCTAATCCCTATTCT
AAGAGTAGGGTTCTACCCCTGCTTGATTCCGGCCTAAAAGCAACCTTCACCCGCTAACGTGAGCT
GCTATCTTTACTTTCTATCTTTCTTGGCTCGTGAGCAAGACCGATAAAGGACGGAAATTCCCTAC
TTCAGTTGTGAATTACCGGCCCACTGCGAGCAACTTGGCCCTCCAAGATCAGTTTCCTTTCTCCC
TCCTGCCTAGGCATTCCTTCTTTCTTCGCCTGGCATTCCTCCCAT
Right flanking sequence: Indices 491537 -- 492036
TGCCTTCCTCACGCTTCCACCTATCTTCGATACAAGAAATTGGCTTCTAGCCGCTTCTCAATAAA
TAGCTATCGAGGAAATCACGTACTTCAATCAATCAAAAGAAATTGCGTAGGTAGAAGAATAGAGG
TTGGCTCCAGTATAGAACTAAAATGGTGAACCTGCTCCTGCCGTTGGTTGACACAGCTTGATCCT
TTAAATGATTCAAGGTTGATCCGATCTGCTGATCTACGAAATTTGCCTTTCACTGAATTTCCAAT
GCTTCCAGCTTTAGTTTGAATTGCTCCTTTATAACCCATCACCTACTTCTTTCTTGATTGACTAG
GTCTTGCCCGAAGAAGGGGCTGTTGATTAGCTCAATGTATCTTTCCCACGTGTAGGATTCAAATT
TCTCTCGCCGGTGGATGAACAAGGAAAGCATGGAAGCTGACCCTGATGACTTTACTGTACTGATA
AGCGGGACAACGAAGCTAATACAAAATCCGCTAAGACCCATCTTT
Found at i:543264 original size:15 final size:16
Alignment explanation
Indices: 543244--543276 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
543234 ACAAAGCAAG
*
543244 CTTA-TTGAAATAGCC
1 CTTATTTGAAAGAGCC
543259 CTTATTTGAAAGAGCC
1 CTTATTTGAAAGAGCC
543275 CT
1 CT
543277 ATAGCTGCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.33
Consensus pattern (16 bp):
CTTATTTGAAAGAGCC
Left flanking sequence: Indices 542744 -- 543243
CTACCGCTTAGAATGACGACTAGGTACTGAGCCCCTCAGCAAACCCTTGCAAGAAGGACACAAAC
AAGGAAGAACACGCCCCTTCCTGGAGTGGAAAGACTCCCAATTGGAATCACTCGCTACTGGTGCT
TCAGGTGCTTTCCACCGCTCTAAAGTGTGTTTCGTAAGGGGGTAGGCTGCATTATATCGTATAGA
GAAGAAAGAAGCAAGACGGACAACAGAAAGTTAAGCAGAAAGTGCTATTATTGGGGTATACGCCC
CCCTAGCCCCTACCCCCGGTCTCCGCTCCCTGGATCAACGACTAACGGACGAGGAGAGCTCGACG
TGAAAGCTTAATGGGCAAGCGAGACTTCCCTTGGTCTTAAGGGCGTGGAACCCGAAGCGTGAGGT
CGCGCCAAAGAGACGATCGACAGTGAGGCCTATCAGAAAGTTCCTTGTTTGGGAGTCAGAGGGAA
ATTGTCGTGATAATGTGCCTGGGAGTTAAACAACTACAAAGCAAG
Right flanking sequence: Indices 543277 -- 543776
ATAGCTGCTCTACAGTAAGGCCGGCCTGGCCTCTGGGCCGATTCGTCATATTCTCGATCGAGATT
TGGGCGTATATGCATCTTTCGCATAATTAAATTCTGCGGACTGCGAGGTGACCTTCGGAGAGGCC
TATAAGAACCTAGACAGCAAATGTAGGAGCGGACGGAACGAAACTACACCTGATGCCGCCCGCTA
TCAAGCGATCAAGTCAGTGGTGTTAAAGTCAGGTGTTCCAGAGGGGCTAATGGTTTTCCCCAGTC
AGAAGCATTTTGTGAACTAACACTCTGCACAAAGGTCTCCACCCGGTGATGCTCATTCATGTGGT
AGAGGAATGAGAGCTTTTCTAAATCCCCAGGGGAGCCAGCCGAAGATGAAAGGTCCGCGGATCAA
CCTCAGCAGGTTTGGTTCCAGTTTCTTTGGAGGGAGTCCCACCAATGGGGCTTGGGGTGCGATAG
TGCCCTTTATTCCGGGTGACCTGGATAGAGCACTTTTGATCATCT
Found at i:559456 original size:4 final size:4
Alignment explanation
Indices: 559447--559473 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
559437 AGATTTTCCT
559447 ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATA
559474 GGGGATCCGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Left flanking sequence: Indices 558947 -- 559446
GCGCGGAAAAGGGCCAAACGCGGTTGCTAGCATCGAAGAGAGCCGTCATCGACGATAAAGTGGGA
GTTCGGACTTGGCTTGGCGAACGAGCTCTTCCCGCGGGAGAGGGGCAGGCAAAATAACCATTCCG
GTGGTTGATAGTGGAGCAAAGGCTTGATAAAACATGGATAGGCATGCCTTATCATCCAAAAGGAT
GTAGAAAGAGGAAGGGCTCGATCCCACATCTCATAGAGAGGAGGAATACCAGGATGATAAGGGAT
AACTAACTCTACAGCTCACAGGAATGGGAAAAGGAAAAGTCATTCCACATTACTCCAGTTTTATC
ATAGCTTTATTTAAGAGAGAATAGGGAGTAAGGCTGAAATGGCTATATGGCTTCCAAATTCTTTT
TTTTTTAACGTATGTTGATTGAATTAATAGATGCTGGGTGAGGGCTTAAAGACCCTATTCACATA
GCGTTCCTGAACACATATTTTTCCTCGGGGCGAGCAGATTTTCCT
Right flanking sequence: Indices 559474 -- 559973
GGGGATCCGGGCCTTTTTTGGGGGATAAAAGAACATCGAGTCATCCTTTTTCGTCGAATGTCCCG
GGCCCGATTTAAAGTAAAGAAAGAACTTTTCCTTTGCTGCAGGGCGGGGGAGAACCATTCAAGTG
TAGAGATGGAAATGGCTCTGCAGCGATAGAGGATGAAGGAGAATCCGTAGTCAACTGGTCGTTAC
TGTTACTAGAAGATGATAAAGATGCAGGCTGCTCTTTATTTTTATTATTAGAAGAGCGAGGTGCA
AGCTTCTGACGTAGCTGGGCAGGTATATAAGCATAGCAGAAAAAAAAGTATAATATTTTCATAAT
CAGGTGGCGATCCAAACGCAAACGGGCACTGATATGGAGTAATGTCCCCAAGCACAGTATTCTCG
CCTGGATGGCCCTCAACTCTGGGCTTCTTACAGCAGATCGAGTTAGCAGATTTTATCCCAACACC
GTGACTCTTTGTGGCCTGTGCATGCTTGAAGATGAAAGTGCCGAA
Found at i:614198 original size:23 final size:23
Alignment explanation
Indices: 614171--614215 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
614161 ACAGAATTGA
614171 CTAAAGCCAGAAGTAGAGAATCC
1 CTAAAGCCAGAAGTAGAGAATCC
* *
614194 CTAAATCTAGAAGTAGAGAATC
1 CTAAAGCCAGAAGTAGAGAATC
614216 GGGCTATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.44, C:0.18, G:0.20, T:0.18
Consensus pattern (23 bp):
CTAAAGCCAGAAGTAGAGAATCC
Left flanking sequence: Indices 613671 -- 614170
AAGAGTGCCTGCGGAGGCGCTTGCTTAGATGAGAGTGGAGTTCCTTCACCTCCAACTGCTTTCTT
TCCTCTCAACCTCGAACAGCCCCACTGCCTCTCTCTCGTGGGCTAACCAATGCGCCCCTACTAAC
AGCTATCTAATGCAAATATCATATCTCATTTATGAGCCATATTCGCCTGAAAGCTTAAAGGCAAC
TGAGAGCCAAGCAAGCAAACCGTAAGGCCCACTCGACCAGTATGGATTCCCCCGGCCCGGCTCTA
CCTCAGTGGATCTACTCTATTCTATTATCTCAGTGGATTCCGAACTTATATCAAATCAAATGAGT
AAGCAGTAGACTTCAAGTCTAAAGTTTCAGATATCAATAGTAGTTAATATGAATATCATAGTCTA
TTTCCAATATTCAATTGATCGTATGGAAAGGCGCCTACACGGAACCTATACGAAGGAGCAAACAA
GCAACGGTAACTACTATACTTGACTTGACTTGCCCACAGAATTGA
Right flanking sequence: Indices 614216 -- 614715
GGGCTATTTCAGCTCACGACTTGAAATATTGAATACTTTAGGCAGCTATCGGACTCATAAGCAAG
AAGTGGATCCTAGCTCAGGAGGAAAGAGCTATCCATCTTTCCTGTCTATAGATCACGAGCTTACT
CGAAGAAGTACTTAGGATTATCAAAGCTCACTTTCCGCCCTGTACTGTAGTTCAGAAAGCTGATT
GAGGGCAAAACCTCTTCTTCTGTCTTCCCAGCCTCGAGAATCAAGCACCAACAAGGAATCGAGCA
CGAAGATAAAGGTTGGTCTCCTGGTCTTCTATTGAAGCTCGAAGAGCAGAGGAGAAGGAATAAAA
TAAGGGCACTCCTTAGGACCAGTATGAGGCTCACTATCCTATCTAGTGGCTGCTTTCTAGGCTCA
AGGAATAAAGACAAAGACAGCTATTCGGAAAAAAAGACTAATCACTCAACTTCTGAGCTCAGAGC
AGATCTTTACTTAGGTTGGGGTTAGACTCCAGCCCGCTATCCCTC
Done.