Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_065231
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: 429732
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Found at i:45743 original size:21 final size:20
Alignment explanation
Indices: 45713--45752 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
45703 AACCCAAAGT
45713 TATATTCGTAGGTCGGTTAC
1 TATATTCGTAGGTCGGTTAC
*
45733 TATATATCGTAGGTTGGTTA
1 TATAT-TCGTAGGTCGGTTA
45753 GGTCGGCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.10, G:0.25, T:0.42
Consensus pattern (20 bp):
TATATTCGTAGGTCGGTTAC
Left flanking sequence: Indices 45213 -- 45712
GGATACGTGAGTCACCGCCTAACTATCAGCCTATACCCAAAAACGATAAAGGGTACAAAACTCGA
TCAACCCCTGTCTTCCATGGATTATTTGATTACGTAGTTCGACTGGATAGTTTAACCTGGGATTA
GAGCCCATATATGTGTACCTGGAGGGGCTTGTACCCTAGAGGTTGCCAATCTATCGATACCAGAC
TCAACTCTAATAATATAAAAAAGAAGTGAGTAAACTCCATAACGTAAAAAGACCGAAATTAGACC
ACTAAAGCGACGACCTAGAAGGGTACCCCTTCAACCCCTATAATTGCTTGCTGAAGGACAACTCT
GGGAAGCTTGAAAAAGACCAAATAACAGTAACATAATCACAATATCATAGATTAGGCCGAACATT
TCATTCTACTTAAGAAAAGAGGCCAAAATAGAATGTGCAACTCAGCCCTTGACCCTTTGGGATGC
GATTGATCTGTTTTTCCAACTAGACTTTTCAACCTAACCCAAAGT
Right flanking sequence: Indices 45753 -- 46252
GGTCGGCTTGCCTCTAACCTGCTCTCATGACTGCTAGATTACATACTTGACTTTTGTTCCTTCCT
GCGTTTATATTTTTCATTGTCTTGAACCTTTATTTTTTCTCTTCGGTGACTCCCTCTCCTTTCCC
TGCGCCCGCGGTCAAGCTACTTCGTTCCTTTCATCAATCAAGCTACTTCGTTCCTTTCAGTCGAG
CGAGTCTAGCTCCCCTGCTTGCTTTAGAAATGGAGGGCTAAATAGCGCCTAGCTCCCAGTCATAA
CAGTTGGAAACGCACGGCTAGGTCAATCAGCATAAGAAGAATCCGACGCTGAGGATTGACTCTTC
TCTTTTTAAGGAGTTTTTTTAGTCTTTTCTTGGAGCTAGAGCATCTAGGTCTTTTATGATATGAT
ATTGAATCATTCCTTCTTCGTTTACAGCAAAAAATAAGACTTACCTATGGAATGAATGGGAAAGC
AGCTGCTTAGACATAGCCGCTATCGCCCATGGCAAGGGTGAGTCT
Found at i:50822 original size:17 final size:18
Alignment explanation
Indices: 50800--50840 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
50790 TTAGCAACTC
50800 ATAACTCCCT-AACTGCT
1 ATAACTCCCTAAACTGCT
*
50817 ATAACT-CTTAAACTGCT
1 ATAACTCCCTAAACTGCT
50834 ATAACTC
1 ATAACTC
50841 ATAATAACTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 2 0.10
17 19 0.90
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (18 bp):
ATAACTCCCTAAACTGCT
Left flanking sequence: Indices 50300 -- 50799
GCCTAACTCACAGGCAGATCTAAAGGCTATTAAATAGTCGCCTAAGCAGACGATGGACGAGACTC
TGGAAGAGTGGCTTTCTGCTGAGGTTGCTTCTGACGGGCTTGTGACCAACTCGGTAAAAACCCCT
AGTGAAAACTATGTCTGTATGTATAGTATAACCGCCGCTTCAAATCAATTGAATCAATGCAAGCA
ATGCTGTTCCCACATGCCTATTCATTCCTATTTGGTTGGATTCCTCGGTTCATGTTATGCCTTAG
ATGGAATAGCCTGTTTTTCTAGCTATTAGTTTCTAAAGATTAAGACAATTAACTCTTCTTTAAAC
CAGTTCCGGGGGCAGTTACACTGCGCCAGACCCCCCAGTTCCACCAAATTAAGAATATCTGTAAC
TACCAATATATTTATATTACTTATATTTCTAATACCGGTAACTAAGATTTATATTTATCATACCT
GTAACTACCCCGTAGGGAACTAAAGAGAATGACAATTAGCAACTC
Right flanking sequence: Indices 50841 -- 51340
ATAATAACTCTTCTAACTCATAACCCCTTTAGTTTAGTTCCGGGGGAGTGCCCCCAGTTACACCC
CTAACTAAAAAGACTTTTAATACCTAATAATACTTTACTGGTAACTAATTAGAATTCTATTAATA
ATAATAACGGTAACCTCCCCGTAGGGGGAATATCAATAATAATAAGACTTTAACTTAACCCCGTA
GGGAACTAAAAGAAAAGAGTGAAGCTATGAGGAATAAAGTAACTCGACTGCAAAGGAGAGGACTT
TAAACTTATTTTTTCTTAAAAGATATAGGATTCCCCAACAAGGACAAGAAAGAAGGATGTGCCTA
ATAACAGTAACTTATATTTATCATACCTGTAACTTAAATTAATTGAGTTACGAGTTCGAGTTAGC
TTTCTAGTTTAGAAGGGAGTTCTAGGTAGGAACTCTGCAGAATACCTAATTAAGAGGGAACTAAC
CTAAACTTAAGGAAAAGAGTTATAGGAGTTGATGGCAGTTACACT
Found at i:81483 original size:14 final size:14
Alignment explanation
Indices: 81464--81491 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
81454 GAAATAAGAG
81464 TACATATTCGAGAA
1 TACATATTCGAGAA
81478 TACATATTCGAGAA
1 TACATATTCGAGAA
81492 GAAGGGATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (14 bp):
TACATATTCGAGAA
Left flanking sequence: Indices 80964 -- 81463
CCAGAGATTCTTCTTCCTTGACTTGTGATCAATTAGACAAGAGGTGCATATAGCTCCTTGTAGGT
GCGGAGGAAAGATATCGGCTACAAAGAAAATTGAAGATGGCGACTCATAGTTAAGAGGATAAGTT
CGGGTCTGGTGAAGTCCCTACATTAAAAGATTCGGCCTTGCGATCATGCCCCTTGAGTCACGGTA
CTTTGGTTTAGTCAGGATCACCCTGTAAAACTAGCTTAATAGAGGTCGAAATAAAAGAGTTTTGA
GGTTCAATCTTCAAGTAAGGAGGAGTAAAGAAGAGGAATCGCGAACATACTCAATAGATATCTTT
CTTCGACGAGGCGGTGCCTATTAAAGAGTTATTATTTCAGGGACGCCACCCTACCACCGATGAAT
GCTACCCGAGGATGAGGCCTTGCTTGCTTATTATGTGGTAATTGTCTACCTTCCTGACGAACCGG
GCAGCGTAGAGAAAGGCGAGATGGTTCATTTCTATGAAATAAGAG
Right flanking sequence: Indices 81492 -- 81991
GAAGGGATGGTTATTTTCTGTAGAGTAGATACAGAAGGGTCCAATCTAGTATAGTCGGGCTTGGA
AGCCCTACGATTGCTTATGGGCTCATCTAGCAGAAGAATGACATGATGAAGAAGCTAAAGCTCCC
CTTGCTATGCTTCGGTTGCTTTCATTGATCTAGGATTGTTCCCGGGTATCATCCTCAAATAGGAA
GGAGGTTAAGGGCTTTTGATCGAGGCAGTCACTAGAGCTTGTTGGCCGCGAGATGCACTTCAAAA
GCACTAAAATCCGCAGGTAAGAGATGAAGCTTCATTTTCAATATTAGAAGCAAAAGTCTTATAGT
TTACTACTAATATAATCTATTTCTTGTACAGCAGCTATAATCGTTATAGTTTTGAATAAGGCGAC
TGCTCCGGGACATAAAAAGAAAACGCTAGTGAAGACAATAAGGGGATGCTATCCACTACAAAAGG
AAATCCGAATCGGAACAGGATCGAGATCACAGCAAATAAAAGGTT
Found at i:92355 original size:25 final size:25
Alignment explanation
Indices: 92321--92482 Score: 324
Period size: 25 Copynumber: 6.5 Consensus size: 25
92311 TTCCTTCGCC
92321 GCCCCTCTTCGAGCCTCTTTAGCAA
1 GCCCCTCTTCGAGCCTCTTTAGCAA
92346 GCCCCTCTTCGAGCCTCTTTAGCAA
1 GCCCCTCTTCGAGCCTCTTTAGCAA
92371 GCCCCTCTTCGAGCCTCTTTAGCAA
1 GCCCCTCTTCGAGCCTCTTTAGCAA
92396 GCCCCTCTTCGAGCCTCTTTAGCAA
1 GCCCCTCTTCGAGCCTCTTTAGCAA
92421 GCCCCTCTTCGAGCCTCTTTAGCAA
1 GCCCCTCTTCGAGCCTCTTTAGCAA
92446 GCCCCTCTTCGAGCCTCTTTAGCAA
1 GCCCCTCTTCGAGCCTCTTTAGCAA
92471 GCCCCTCTTCGA
1 GCCCCTCTTCGA
92483 AAGATTCTTT
Statistics
Matches: 137, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 137 1.00
ACGTcount: A:0.15, C:0.41, G:0.16, T:0.28
Consensus pattern (25 bp):
GCCCCTCTTCGAGCCTCTTTAGCAA
Left flanking sequence: Indices 91821 -- 92320
TCGGGTGGACCCTGAGATCGAGTTTTTTTTCTTTTTATTTTTTTTTGTTGACTTCTGACTTCTAA
CCTCCTAACCCGATTGGAAGCGAGCCGGCGGTCGGCTCTATGTATCGTGAGCAGATGGAACTTTG
ATGGTTTCGCTTTAAAGATTGGGTAAATACTGTAGTTATGAGAAGGGTTAAGCCCCGGAAGTTGA
GAATGAGATTGCGTTTACACAGGGACTGTGATCGAATCCTCATACAATAGTCGTTTAACTTACTA
ACCTTAATCAAGCGGCATAGCATCCGAGCATTCATTAGATTACCTATCTTTTATGCCACCTGGAC
TGCCTCCCTCAGTTGTTGGTATACTAACAGTTCTCCCAGCAGTTAGCTTGCCATACTTACTGTTG
CCGCCCGTTGGCTTGCGATTATACTTTCCGGGATAACAGGCGCTTAGTTACCTAGAAGTATTAGT
CTGCTTTATCGAGCTCTGAAACCTGCCTTAGTGTATTCCTTCGCC
Right flanking sequence: Indices 92483 -- 92982
AAGATTCTTTCGGCTTTCTCTCTTTGGCCCGGTATTGCTTGTTGGCCTGTGAAGGAAGCCCCGGT
TGGCTAGTCTGACTATTCATTGCCGTCCGTTGGCCCGCTTATGTACTTTAAGCGAAATCTCGTAT
TTAGTCAACGTCACTACGTCGTTGTTGTTCCCGTCCGCTTTCCTGAGTCTGGTCTTCAAAGTCTT
GTGTTCATTCTCAGCCCTTCAGTCAGGAATTAGCGTTCGACCTTCTCTCCCCTCTTATAGGTATG
GCGCATACAAACGATCCCATCTTTACCTTCTCTTGGGAGTGACTACCCCGACTGACTCATAGCTA
CCGGTGCTAAAAGAAGGCCTCCCCGGTATCATGCGACAGACAAAGGGATCCGCTACTCCTTTATC
ACTTGCTTAGCCGGAAAGCGGAGACCCCCGCGGCTAGATTCGACATAAACTTCTTATCGGGCCGA
ACAATGAAAAAAGGTTCGTTCCACCTATATGCAAAATGAATAAAA
Found at i:98433 original size:30 final size:30
Alignment explanation
Indices: 98397--98646 Score: 500
Period size: 30 Copynumber: 8.3 Consensus size: 30
98387 TCAAGATCAT
98397 GAGAGGGAGTGAAACTTGCTCGACCATAGG
1 GAGAGGGAGTGAAACTTGCTCGACCATAGG
98427 GAGAGGGAGTGAAACTTGCTCGACCATAGG
1 GAGAGGGAGTGAAACTTGCTCGACCATAGG
98457 GAGAGGGAGTGAAACTTGCTCGACCATAGG
1 GAGAGGGAGTGAAACTTGCTCGACCATAGG
98487 GAGAGGGAGTGAAACTTGCTCGACCATAGG
1 GAGAGGGAGTGAAACTTGCTCGACCATAGG
98517 GAGAGGGAGTGAAACTTGCTCGACCATAGG
1 GAGAGGGAGTGAAACTTGCTCGACCATAGG
98547 GAGAGGGAGTGAAACTTGCTCGACCATAGG
1 GAGAGGGAGTGAAACTTGCTCGACCATAGG
98577 GAGAGGGAGTGAAACTTGCTCGACCATAGG
1 GAGAGGGAGTGAAACTTGCTCGACCATAGG
98607 GAGAGGGAGTGAAACTTGCTCGACCATAGG
1 GAGAGGGAGTGAAACTTGCTCGACCATAGG
98637 GAGAGGGAGT
1 GAGAGGGAGT
98647 TCCGTTCTCA
Statistics
Matches: 220, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 220 1.00
ACGTcount: A:0.30, C:0.16, G:0.38, T:0.16
Consensus pattern (30 bp):
GAGAGGGAGTGAAACTTGCTCGACCATAGG
Left flanking sequence: Indices 97897 -- 98396
GCTTAGGAAGCGGGCCTGTCTGATGAAGGGACTTCGTAAACTATCTAACTTTGAAGCTATTACAC
CCAAAAGGGTGAAACCACAGAAGCAGGTAACCCTGACTTCAAGACACATGGTGAAGAGCACCGGT
CAAGCTCACACACAAGAGGGAAGGAACGAAAGATTGATTGATCTGCTGCTAGTGCTTGTTGTTAA
AGTTAAAGCAGCTTTCTGTTTTCTCTTAATGTTACAAGGTTGATCTAAAAATCGTAAGTATAGTT
ACGGTTGTTTCCCCTATGAGTTGAGCTAGAAGCAGTTAACAAGATTCTCAAGTTACTGTTTTTAA
TTCACTCCAGATGGGGTAAATGTTCAGTGGCTATCTTCTCGACTGTCTGCTTTACGGAACGAACT
CAAGTGTGATTGAAGTAGCGAGGTTCTGAAAGAAAGGGGCTCCTCCCCACAAAAGCTCTGCTGAG
CTGGGCACAGAAAGACTTTCTGTCTACTCTAAACTTCAAGATCAT
Right flanking sequence: Indices 98647 -- 99146
TCCGTTCTCATTCATTCGACTAGACTGAGCGAGAGATTGAGTGTGAACAGCTTCCTATCAGACTA
CTAGTTCAGTCTATAATCCTCGTTACTAGGCTCGGGCCCAGGTTCTCTGAGTAGACGGGTAGGGG
CTTTTAAATGCCTTGTAGTAGGTAGGGTGCCCCAAACCAGCTTAGGTTTGGTAATCTGCTTGCGC
TTGCTTTAGAGCGGGAGTTGTCGCCTTCTTCTAAGTCAGAAAGGTCATTCAATGTTCATAGAATA
AAAAGGCGGATCCTGTTCTGATCGCCCTTTCTGATCTTATTTGTATTCTGATTGAGGGTTTCATC
TCTAGGAAAATTCCTCGCACATAATTAAGGGAGCCATTGAAAGGTGACTAAAACACCAGAAACGG
GGACTACCCGAGCTAATGATAGAGGCAAGAACACTTTCCGGCCAAGTCCCATTAATAGATCATAA
CGATATCGTGGAAATGCTGCACGGACCCATATATAAAGGGCGCGG
Found at i:104150 original size:39 final size:39
Alignment explanation
Indices: 104093--104171 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
104083 CCCATCCTTC
* *
104093 AATATCATGATTGGGTCGACCAGGCCAGATCATGAGTGA
1 AATATCATGATCGAGTCGACCAGGCCAGATCATGAGTGA
104132 AATATCATGATCGAGTCGACCAGGCCAGATCATGAGTGA
1 AATATCATGATCGAGTCGACCAGGCCAGATCATGAGTGA
104171 A
1 A
104172 TAGAAAATCG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.22
Consensus pattern (39 bp):
AATATCATGATCGAGTCGACCAGGCCAGATCATGAGTGA
Left flanking sequence: Indices 103593 -- 104092
CTCTCAGCGATTCTTTTCTCCGCTAATCACCCCCGCCCGATCGATTTTGTAAGATCGGCTAATTC
AAAAGGGTTAATCTGGTCCGAAGTTGTCGGAACGACTCGTTTGCTTTATCGAACAAAGCTTGATT
AGGGTAGGGGTCTTGGTTGGCCCCCTATTTTCAACCATTACAGCTGGCGTCGACCAGCTTTGCGA
TACGGACGGACACGAAGAAGAACGCAGGCAGTGGAAATGCAAAAGAGAAGAGCAAAGATTCCCGA
CCCAGAGCATGTTATTGACTCAACCACAAATCTGTTGAATGAAGGTAGCTTGCTTACTCTCAGCC
ACTAGTTAGAAGGAAATCCCTTGACTTCGCTTATGCCCTTATGGCCCTTATGCAGTACAGAAAGC
AAGTGAGGCGGGCTAAGATTCCATTCGAAGTAAGGTAACAGGATTCGATGTTGCACCATCTTCAA
CTCTTCTCTGGATCCGGAGTTTTTCGAGAAAAGGTCCCATCCTTC
Right flanking sequence: Indices 104172 -- 104671
TAGAAAATCGAAAACGTACATAGCTGTTCCAGCCGAAATACTTGGAATAATTCTACCACTTCTAC
TAGGAGTAGCCTTTTTAGTGCTAGCTGAACGTAAAGTAATGGCTTTTGTGCAACGTCGAAAGGGT
CCTGATGTAGTGGGATCGTTCGGATTGTTACAACCTCTAGCAGATGGTTTGAAATTGATTCTAAA
AGAACCTATTTCACCAAGTAGTGCTAATTTCTCCCTTTTTAGAATGGCTCCAGTGACTACATTTA
TGTTAAGTCTGGTTGCTCGGGCCGTTGTACCTTTTGATTATGGTATGGTATTGTCAGATTCGAAC
ATAGGGCTACTTTATTTGTTTGCCATATCTTCGCTAGGTGTTTATGGAATTATTATAGCAGGTTG
GTCTAGTAATTAGGGGGCGGCCGTTCGGTCGCCTATGATACTAGGACCAATAGGTCAAAAATGGG
TTTGTGCCGCAGGTGTTGAACGATCCACTCTACACAGGTGTGGGC
Found at i:136369 original size:16 final size:16
Alignment explanation
Indices: 136348--136381 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
136338 AAGTGTGCCC
*
136348 TAAGTGTAATCCTACT
1 TAAGTGGAATCCTACT
136364 TAAGTGGAATCCTACT
1 TAAGTGGAATCCTACT
136380 TA
1 TA
136382 TACTCTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (16 bp):
TAAGTGGAATCCTACT
Left flanking sequence: Indices 135848 -- 136347
ATCTAGGCAGCTACTCTCTAGCTTCCATCTATTCTTCCTTCTCTTATGGTACTTGAAGCCAAGTA
AAGGCAGCTTTCTGTTGAGTTATATTCTTTCAGATCTGAGATTTAGTCGTAGAGCCTGAGTTAAC
CAAACTAGTAATCTAATCAGTCATCTAATCTTAGGCTTCGCTACCGTACTTATCGTCCAGCAAGT
AACCCACCTTACCCCCCCTCAATCTCAGTAAGGAGTTAGGAGGGTTTCGGGCTAGGAGTTGACCC
AAGGCGTCTATTCAGATAGTAGTTCCCAAGTATGATATGAAATAGGAGGTAATAGAGTAAAGTCC
TTGTCCTACTCTAATACAAGTAAGTAGCTAAGGTTACCTTAATCCGCTGAAGCAAGGATTGGTAA
GCTCCGGAGCAAGAGTAACTGTAGTTGCTACGTCCGGTCCCGTAACTGCGGGCAGCTCGAGTTCT
AGTTCTTTACAAGACAGATGGGAACTGTAGCTAATAAGTGTGCCC
Right flanking sequence: Indices 136382 -- 136881
TACTCTTTCTACTATATTAGCATGTCGGGTTCCAAGTTATTAGTAGCTAGGCAGCTAAGCCAGTA
GTAGTTCAGTTCAGGTCGGGGCATGAAGCTACAGGTTCTATTTTCGGTTGTGAGACAGAGGTCAG
AGGCCCCCTGTTATATAGGTAGCCATGCGCGTTAATAGATCTTCTTCTATACTAGTAGTAGGAGT
AATGAGTGAATCGGTTTCTTAGGCAAGTTTTTGTTTCTTTATTAGAAGGATAAGCACGGTTATTG
CTCTTTGTCCCAACATGGAGCCGAGGTAGCTACACCGTTTGAAGTAGTTAACGAAGGGAAATAAG
TCCATTTGAGTGAAGATTGGATAGTTGCCCGCTCCTTAGGTCTGCTTTCATACGTGCTGGTGTTC
GTGTTCTGTTGGTTTTTCTGTTCTGTTGTGGGAAGGGGGGATTTTCGCATCTACAAGTTGAGAGT
GTGCTGGGGCAAGTGGGCTAACCCGAACTCCCTGTAAGGGGCTTT
Found at i:149738 original size:31 final size:31
Alignment explanation
Indices: 149700--149805 Score: 212
Period size: 31 Copynumber: 3.4 Consensus size: 31
149690 CGGAGAACGA
149700 GAGAGGGGGGAGGTTACTTGCTCGACCATAG
1 GAGAGGGGGGAGGTTACTTGCTCGACCATAG
149731 GAGAGGGGGGAGGTTACTTGCTCGACCATAG
1 GAGAGGGGGGAGGTTACTTGCTCGACCATAG
149762 GAGAGGGGGGAGGTTACTTGCTCGACCATAG
1 GAGAGGGGGGAGGTTACTTGCTCGACCATAG
149793 GAGAGGGGGGAGG
1 GAGAGGGGGGAGG
149806 CCCACTTCTT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 75 1.00
ACGTcount: A:0.23, C:0.14, G:0.46, T:0.17
Consensus pattern (31 bp):
GAGAGGGGGGAGGTTACTTGCTCGACCATAG
Left flanking sequence: Indices 149200 -- 149699
AGGACTTATTAAAATTTATTAAAATAAAGGCTGGGCTTTCCGTATAAAAAAGGCTATTGGCCCTT
AGCGTTTCACACTAAGCAAGTAAACTACCTTTATCGACGTTTCATTTTGAAAGAAAAAGTTTCTA
AAGCGCTATTTCAGTTGTTAATAGCCCTTTTTTCCATCCAAAAGCTTAATACTCCCATCCATTGA
AAGCTTTTAAGCTTAAATCAAGCAATAGGTCTTCTCCTCTTTCTTTTGTAAGGATGGATGGTGAC
GGAACGGAATTCAATCTAAAGGGAAGGGATCTATTCAGGAGAAATATATTATATACTATTAATTA
AAAACTTCACGTTATTGCAGGGTGGGTTCCGAAACATCATTCTAATCGGCGGGGCAACCACATCA
AAGGGCCAGGTTTTTAGTAGTTCAGGGTTGCGCCCAGTATAGAACTTTTATCTGACTAGGAGCAG
CTAAGCCCCTACCTATATAGTCTATTTCACCCACCCGGAGAACGA
Right flanking sequence: Indices 149806 -- 150305
CCCACTTCTTCCTGCTGTTCTTCCAGCAGAAAGGGTGGGAATGGTCTTGCCGCAGCCACGTGAAA
TCATCTTAATGCACGGGTGGCGTGCTATAATAGCCTCACAAGGGGTTCATCTTTCTATTAGTAAG
CCAGCTGAGCTTATCCGTTGAGATGGAGTAAGCATCACACAGCAGCCTAACCTAAGAAATGGCAG
GCAGTTCTTTCACTTCCTATTGCAGAGGAAGGAGAAAGGGCAAGCGAAGCGGCATACTCTACCTA
CTTTCTGGCTCGCCCTTCCGGTTTTAAGTAAAGGCGCTCCTTCCGGCATAAATAGATGGATAAGG
AGAAAGACATGAATAAACGGAGGATAAAGTGGTTAGTTAAGTAAGGTTTTCGGAGTATGAAGGTT
AGTTAAGGCCTTCACCATATGTATTTCCCAAAGGGAAAGGGGAAGACCCTAATTCTGCAGTCAAT
TATATGGCAAAGGTAGCTCTTTGCTTTATTTCAGCAACCTTGATT
Found at i:160491 original size:30 final size:30
Alignment explanation
Indices: 160470--160531 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
160460 CTTCTTCTTA
160470 TAAGAAGGAGGGCTTTAGGGCTTAACTAAG
1 TAAGAAGGAGGGCTTTAGGGCTTAACTAAG
160500 TAAGAAGGAGGGCTTTAGGGCTTAACTAAG
1 TAAGAAGGAGGGCTTTAGGGCTTAACTAAG
160530 TA
1 TA
160532 TTAGTTAAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.34, C:0.10, G:0.32, T:0.24
Consensus pattern (30 bp):
TAAGAAGGAGGGCTTTAGGGCTTAACTAAG
Left flanking sequence: Indices 159970 -- 160469
ATTTGCGGAGAAGGGTTGGTCGTAGATCAGAACGATCGGGCTTCAGGGTAGCTTCTGGGAGTGCT
CTACGAGAAGGCATATGTGTTACATCCGGGAGTGCTCAATGATGTCTAGCAGAAGAAGAGGAGAG
GATAAGCAAGAAGGTAATATCAGTAGTGAGACTCGAGGGTACCATCAGGGGGGGTTTGGGGGTCC
TCCCCCAGCCTAGCTAATAGAGAACTTAAATCTTCCCGTTAAGACTGACCAGAAATACCGGGGTT
GAAGGCTTCAGTGAGAGTTCCAGGGTTGTCAACTAGAAGGCTGATTAGAAGATAAGGTTTTTTCC
AGGGTTGTCTACGATCAGAACTAGAAGGAAGATGTGATAGCAGTAGCAGAAGGCGGATGCTCTAG
TTCCAGGCTGATTATAAGAGATAGTTTACTCGGACGGTGGGATAGCTTAAACATCATCTCCTCCT
ATCCCGGTGGGAGTACTGAAAGAGGGTGTTACGGGCTTCTTCTTA
Right flanking sequence: Indices 160532 -- 161031
TTAGTTAAGGGCTCGGAACTTCTAGTAAGTGAAGGTCAGCGGGAGCTGCTATCGGTAGCGGAAAG
GGCTTGACTTATCTAAGTAAAGGTAGTAGAGACGGCTTGCATCAGGGTTGGCGTGGATAAGGCTT
ATGTGTAGCATAAGGGTTGGCTTTTAGTCCTTCTTTCCCAAAAAGAAGTAGACCTTATGGTACGT
ACCCTTCTTAGCCATTGGTGCGTTAAGGCTGAATGGGTAGTCTAAAAACAAAAGAGGCTTCTCCT
CAAAGGTAGTTTACTTGCTTAGTGCTTGCTTGCGCTAAGGATCGAAGAGCTTAGTGTGAAACGCT
AAGGAAGTCATATGCTCTTTTCTTAAGTGTGGTGCCCTCAATACAACCTTCCCTAAAAGTGGAGG
TAGGAGATCCAGTTAACGAATAGGCTACGGCTGTAGCTGCAACGAGTAATGAATTCTCGGAAGCT
CTTTCTTAAAGGGTGCCCCCTTCCCTCGAATGCTGCATTGGAGCG
Found at i:177520 original size:18 final size:17
Alignment explanation
Indices: 177489--177546 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
177479 ACCAATTACA
*
177489 TAAAGAGGTTAAACCCT
1 TAAAGAGGTCAAACCCT
177506 TAAACGAGGTCAAACCCT
1 TAAA-GAGGTCAAACCCT
* *
177524 GAAAGAAAGTCAAACCACT
1 TAAAG-AGGTCAAACC-CT
177543 TAAA
1 TAAA
177547 TGTAAGACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 5 0.15
18 24 0.71
19 5 0.15
ACGTcount: A:0.47, C:0.21, G:0.16, T:0.17
Consensus pattern (17 bp):
TAAAGAGGTCAAACCCT
Left flanking sequence: Indices 176989 -- 177488
AAAGCACGAACGGAAGCTGGGACCTCCTGATCGCGTAAGGTATCCAACGAGAGAAGCCATAAGTC
AGCACAGCTTTGTCACCTGTATCCGGATCCTGGATATAAATTTGACTACCCGGAAGAGCAGAAGA
AATGGGATTCTTGTTCACACGAAACCAAAGGGGTGCTTGAGCACGCCAACCACGGGTACGTGTAT
GGAACGGAAGCGGCATACGACTGGTCACAGGATAGACCGAGTCGGAGCCGTGAACACGAACTCGA
CCCTCGAAAGGCGGAGCGATCGAGTCGGAATAGGACGGACCTACGAAAATGGGATGATTTCGAAC
GATAGGATCGGACTGTAAGCACAACTTTCGAAATAGAGTAATCATGGATGGAACTTGTTATTAGA
ATAGAAGACCAGAAATCAGACAATAGCAGAGCAGCCAGGGAATGAGGAACAAGGTTAACCAACTG
TATTTTACCTCATTACATCCCCTTCCTTTCAATTAACCAATTACA
Right flanking sequence: Indices 177547 -- 178046
TGTAAGACTATGGATTCAATCCAGCCCGCTTTGCGAGCTAACTTGTAAAGAAGATGTAGCTACTC
GCCCATGGCGGACGAGGCCCAGAGAAGGGCAAAGGACTCATTTCTTTTTGATCCCAAACGAGAAG
AGAGAACAAACGGCGATTACTAATAGCCGGTGGAGATTGGAAATGTCCCAACCAACATAGCTTGC
TAGCTGAAGGAGCTGCCAGAGCAGAGGAAGCGAACCGCCTTGACTTATTCGATTCTCCTTCTTCA
CCGTTCGAAAAGAAGTGGATTGGCGCACGTCTTCCTATGAAATCGATTATGTTTCCCCATCAAGC
CCGTTTCCTTACTCGAGATATCTGAGATAGCCCCGTCAACTAATAACTTATAATAGACGAGCCCA
TTATCCTTCTGTTTTGAACTTGCTTCTTGGTACAAGGGGAGGGGCGAAGAATTCGAGTTCTAGTT
CTGCTTTTGCCTAATTTTTAGTATCGCTTTGAGATTGAATCTTTA
Found at i:178770 original size:14 final size:14
Alignment explanation
Indices: 178751--178777 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
178741 TTGCCCGCGA
178751 GAAAGCGTTCTAAT
1 GAAAGCGTTCTAAT
178765 GAAAGCGTTCTAA
1 GAAAGCGTTCTAA
178778 CGATAAGCTG
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:0.15, G:0.22, T:0.26
Consensus pattern (14 bp):
GAAAGCGTTCTAAT
Left flanking sequence: Indices 178251 -- 178750
CCTATTACCGTTTCGCTGCTTGTTCTTCCCCTTCGCCTGAGAATAATAAATTACCTTCGATGGGA
GCTTACTCTTACTTAAGTAAGAGGGAAACTCGCTTGCCCACTGGAAAGACTGAAACTTGAAAACG
GAGGTAAGATTTTTCTTATTCTTCCTAAAAAAGAGGACTGTGTAACTAGGGTGAGAAGCGAGCTG
AGCTGCCACGGATTGCTCCTTCGATTGCTTGAAACCTCTTTGCTGAAAGTGAAAGTGAATACATG
AGAAAGACTAGAGACCCAGCTGGAGGATGCCCACTTTGAGAATCAATATCAGAGTCAGCAACCCT
TGAGTAGCCTAGCCCATGAATGAGTAGAAGAGGGTTCCTCGCCCAATTCCATAGGGATTCTAAAG
AAAAAGCAATCTCTATCGACCAAGCCCTTCCCACTAATCCCGTCTGCGCTTTTCTAAGATTCGGT
TGCTACCCCGAGACGAAAGCCCTGGACAGCTATCCTTGCCCGCGA
Right flanking sequence: Indices 178778 -- 179277
CGATAAGCTGAAAGTCCTTACTAAACTCTCAGGACAGAATGACAGACCGACCCTTCCCCTTCGCT
ACCGACGGTTTAGGCAAGCTGAAGGAAGTGGGTCAAATGCCATTTCTATAGTATAGGATTCAGTG
TTCAAGGGCTCAGTAGGTAAGCAGAGTCGGTTTGTTAGCGCCTTCCGGAGTTTTCTAGTCTTCTC
TCCGTCCCGATTGCCGCTAGTCAGTAGCTCGCTTCCGGAGAAACTACATTCAACAGGAGAAACGA
AACTTTGAATAGAAAATAGAAGGATCAGTGCCCGTAGCAGTCCTGGAGTTAGGTTATGATGGTCG
TGATGAGCTCTACTAGAAAGAAAATCTCTTCTATTCATAGAGGAAGTGCTATCTAAGGGGCTTCT
AAGCCCAGCCCTTGAATTCCGTTCCGTAGTTCAGTCCGGAACTCCAGATGTGTAAGTAGCGGCCA
AGCGGCTCTGTCCTTTTCAAAGAGGTTATCCTTCTCTGTCCCCGC
Found at i:182519 original size:19 final size:19
Alignment explanation
Indices: 182495--182532 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
182485 CGGAATCTGA
*
182495 AACCCTTTGGTGTTACTGC
1 AACCCTTTGGGGTTACTGC
182514 AACCCTTTGGGGTTACTGC
1 AACCCTTTGGGGTTACTGC
182533 TGGAAACTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.26, G:0.24, T:0.34
Consensus pattern (19 bp):
AACCCTTTGGGGTTACTGC
Left flanking sequence: Indices 181995 -- 182494
TGTCAACCGAGTTCTTGCTTTTGGATTCAATCCTTGGTAAAGTGTTCGATCTCGTGGAGAGGTAC
GCCTCTAAAAGAAAAGAGAGTAGATATAGGCTCGAGAATAGGCTTGATGAACAAACAGCCGATAC
GGAATCTGAGCCAAAAAGCCAAGCCCTTGAACTTCACTCCTAGGCCATTCAACAAATTTGGCGCG
AAAAGTAAATCCGATTTCGGTCAGATCTTCAGGAGCTTCCGAATTTTTAGGTTAGTTAGGCGCCT
GGCCGAAGGTTGAAAGAATGATTCGGGGTCAGAGGAAGGGGGCAGCATTCAACCTTTCCTCTATC
AAAGAAGACTAACCCTTTGATTTTATTCAATGGTGGTTTCTACAAGAGATTCAACGACAAGGGGG
GCTATTAGTAGGATATGAAGCTTGAAATGGAAAGGTAAGGGTGAGAAAAAGAGGCCAAACGAGAT
ACGCTCGAATGAGCTAGCCGACTACGAGATCAGTCCGGAATCTGA
Right flanking sequence: Indices 182533 -- 183032
TGGAAACTCCTGAACATATAACTCTGCATGGTAAGAGGATATACAAGCTAAAGAAACATACGTCC
TGGTCGGAAAGAAGGGAATTTAGTGCTGGTAGAGCTGCCCGGTATAAGTAGGAATCTCTCTCCAG
GGCCATAGCAGCAACACCATGTAGTTACCAATTATGCTAAGCAACTTAACCGAGGAACTGGCCGA
AGTCATCAACATATTAGTAACAGAACACTGATCAGCCGGGTTCTTGAAACTCCTCGTATTTAAGG
AGCGACTTTCCCTCTTCTGCCTTCCGTCGCCTTAAGACAAGACTCAAAGCGGCGATCCAAGAAGT
TCCCTTAATGATAGTGAACTAAGGTTTTGAAAATACTCGTCCAAAGCGTCAAGTAGGAATGATCG
GTGAAATCCGCCTTCCTTGCCTTACCGACTTAAAGCAGTTAATAATATCTGTCTGCCTGCCTCAA
TGCTCGCTGACTTACTGGCCACGTTACTGAGTTCCTAGGAACGAG
Found at i:188802 original size:21 final size:21
Alignment explanation
Indices: 188778--188825 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
188768 TTTTCTTCTT
188778 TCTTAGGTATCTTCTCGTCTG
1 TCTTAGGTATCTTCTCGTCTG
* * *
188799 TCTTAGGTATCTTTTGGTCTT
1 TCTTAGGTATCTTCTCGTCTG
188820 TCTTAG
1 TCTTAG
188826 TTTTCTCGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.10, C:0.19, G:0.19, T:0.52
Consensus pattern (21 bp):
TCTTAGGTATCTTCTCGTCTG
Left flanking sequence: Indices 188278 -- 188777
CCCCAACAGACGTAGGTTGCGTATGAGCCTCCAGTAGGACTCTGGCACCCGAACTGTAGAAATGG
GTCCCGAACTAGAGGTGGTTTGATGGGTGCTCTTTGGGTTCTTAGATCCGGCGGCTACTTTACTC
ACTTAGCACCCTACGTAGGCGGGGGGAATCAACACCCCCCTCAACTGCCAATGGCCAAATCCTTA
CCCATACGAGAACTTGACTGAGCGAAATTAGCGACTTTTCGATCTGCTGTGGCCTACTAAAGAAA
CTCTAACCTTACAATGTTCATTATAGAATACTGCGTATCCATTTTTCCTCCCTTTCATTTCATAA
TACGATTAGCCTAATCTGCGAAGGTCGGTGAAATGCAGAAATGCAGGATGACCAAAAACGAACTC
ACGGAAGTTCGATCAACTATTCCCCCCTAAGGCTGAGGTCTTTGATGCGCTTCTTCATCAGTTCT
TTCGTCAGTTATCAATTGTCTTTCAAGGCGGTTTCTTTTCTTCTT
Right flanking sequence: Indices 188826 -- 189325
TTTTCTCGTCGTTAGTCACCTCTGTTTGTTCTTGTTCTTCTTTATCTAATAGCGTTCTTTCTTCA
GTAAGACTTTTCTGTCTCTCTGTAGTGTATTGAGTGTGCATCCTTTTATCTGTATTCTTCTTAGC
ATCAAACTGTGATATCATCTCTTTGTATCTCTCGGCAAACTCTCTTTCCTTCTTAGATAATTTCT
CATTTAGAATTTCATTTTCAGTCTGTAGTTGTATTAAAGCATTCCCTAGTGATTTTCTTTTTTGT
TTTCCTTTGTGATCTAGGCTAGACAAGTCTTGGATATCAATTGGATCAGTATCCACCCAGACATC
TCTGTGATATACTGGTATCCTCTTGGTCCCCAGCTGAAGCCCAACCCTGACCATTGTGTCTTTCT
TGATGATGTTAAGAGTGTGCCAATCAATCCGGAAGTTGGCTTCCACCGGTACCTGTTTTGTACGA
GATGGGTCCGCGTACTGTGACTCAAACCATTCTTGATTGACCTGG
Found at i:196461 original size:17 final size:17
Alignment explanation
Indices: 196439--196473 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
196429 AAGAGGAACC
196439 TGAAGTGACTAGTCCTA
1 TGAAGTGACTAGTCCTA
*
196456 TGAAGTGACTCGTCCTA
1 TGAAGTGACTAGTCCTA
196473 T
1 T
196474 ATAGTTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (17 bp):
TGAAGTGACTAGTCCTA
Left flanking sequence: Indices 195939 -- 196438
CTTGTATACAAATTTCTCACATACCAGATTCCCGAGGAAGAAAGAGAGCTTCTTGCTTTCATGCA
TAGCAGACTAACAGAAAAGTGATCTCGCTGTACCCGATCTCCCAGCACTGACATTGAGAGAAGAG
TGGAACGGGACTTGCTTTATATTATAGGGGACTTCCCTGGATACTTTTCAACTCATATCGGAGCA
AGGAAGCAAGTGGCTAAAATGGTGGAAGTTACTTCAGCGCTTGGGGGAAGAGGACTCTCTACCAC
TGCTGATTGGATCCGGGGATGCTCAAACGGATAACAACAAAAAGAAGAGTGAGGGTTCTATGGTA
TGGATGGCTTTGGTGAGCATAGCAGGAAAGACCGACGAGAAATTGATGTCTGTAGAAGAAGGAAT
TGAAAGCTAGGATAGACCTTCAAATCAGCGAGCTAGGAAGGCCAAGGAAAGTATCCAGAACCCAG
TTGTGAAGGAAAGGCAGGAATTAGTAAGAAATCTCAAGAGGAACC
Right flanking sequence: Indices 196474 -- 196973
ATAGTTGGAAGTGGGCATGACGAACCACAAAACATGAGGAAAGATCCTTAGGGGCAGATGCTTTG
CTACAGTCCCATGCATGTGTGGGTTTCAAGGAAATGAAGGAAAATTTAAACGTATCCAGGGCGGG
AATAAAAAGTGGCTCTCTAGAGACGGAAAGGAGACCCTCATAACATAAAAGAAGTGGCCCAGGCG
ATTCTCTCGTATGCAATGAGTTGGTTAGTTTCATTAGCAGGTTATGGGGGCGGGGTAATAATTAT
AAGCTAAGGAAAAGAAAATGCATTGGATGGGCTGGAATAGAATTGCATCCAAAAGAAGAATGGCG
GGCTAGGTTTCCTAGACCTTAAAGCTTTTTTCCATGCAATGCTAGCAAAGCAAGGTTGGAGGCTT
ACAAAGGCTCCGGAGTCATTATGTGCGCGTGTGCTGAAGGCAAAATCTTTCCCAGCTTGTTTTTT
TCTTTTTTGGAAGCGAAGAAGTTGGGTTGGGCTCGTGCCTTCGTT
Found at i:275942 original size:17 final size:17
Alignment explanation
Indices: 275920--275956 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
275910 GCACAGATTC
*
275920 CCTATAAATAAAAATTT
1 CCTATAAAGAAAAATTT
*
275937 CCTATAAAGAAAGATTT
1 CCTATAAAGAAAAATTT
275954 CCT
1 CCT
275957 CTCTTCCCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.16, G:0.05, T:0.32
Consensus pattern (17 bp):
CCTATAAAGAAAAATTT
Left flanking sequence: Indices 275420 -- 275919
TTTCATCTCTTATTGCTCCAGCTCCTAAGGAATGAGATTAGCTTGATTACGCACCAGATTTACTT
TTAGTTACTGAAAGCGCTGATGAACGATCTTCCTTATTTTAGGATGCAACTCGGATTCCTCCTTC
ACGGCTTGAAGCCGGATAGCTTGAAGCTTAAGGGCTCTCGGAATTCCCTTTCAAGCTTTCTCGAG
TCACCCTAACGTAACGGCTAAGAGAACTTGGCTAACTTCGATCAATTCCACGACTTTCCATCCTT
CTTGTGTTGTGAGAGTTTCAGATTAAGGGGATGCGAGTCATCAGTTCTTTCCTCCTAGTCTAGGC
TTTAGGCCTGATAGTTCATTCTCGAGGATCACTGAACTTGGCTTACTTCTTACTGAATGCCGTAC
TTAGAGTTATCCCACTCGGGGTGAGCTCTTAGCGATTAGTCAGTCCGGGTCCAGCTAGTCTTGCA
CTTTCAGACCGGTCCTTCAAACAAAGGCTTAGTAAGCACAGATTC
Right flanking sequence: Indices 275957 -- 276456
CTCTTCCCCAGAATTAGAATGCTTTCCTTAGCTAATACTGATTGATTCACCGCATCTTCTCGTTC
ATTACATTAGGAGATCTAACCAAGCACTCGAAATGCGACATTGACTAAAGAAGGTAGACAAAAAG
GCAAACTAGAGAAAAAGCCAAGCTGACTGAATTGAATCTTTCAGTGGAATTGGGGCTTACCTTAT
ATCATATCCTCTCTCTTTCAAGCACAGTTGAATGAAAATAGCGTCTTTTTATCTATTTAATAGAT
ATTCCTATCTTAACGAGGGCTGCTTGCTCTGCTTCACCACCCCATAAGGCTAGGGACTGCACACT
ACAGAGATTTCTTCCCCTGCCTATGGGTTGGCAGAACGACCTGTGGATCAGATCGGTTTGGTTTT
AGAGAGATAATTTCTCCGGGGCGAAGCACGGATCGGATCATCTTGAGTTTTGGTTCAAGAGAAAG
TCTTTCTTCCCCGCCCGCCTTAAATCATGGGTATGGAGCCAGCCT
Found at i:288459 original size:25 final size:25
Alignment explanation
Indices: 288421--288470 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
288411 TTCCCTACTT
** *
288421 CTGTACTTGGTTGCCTGTCTCTAAG
1 CTGTACTTCCTTGCCTGTATCTAAG
288446 CTGTACTTCCTTGCCTGTATCTAAG
1 CTGTACTTCCTTGCCTGTATCTAAG
288471 TAGGTACGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.14, C:0.26, G:0.20, T:0.40
Consensus pattern (25 bp):
CTGTACTTCCTTGCCTGTATCTAAG
Left flanking sequence: Indices 287921 -- 288420
TTGACTTCGTAACCTTTGGTGCCTCCTCTCTAGAGCTTTCATTCGAGCGCACCCTCATTCCAATC
GCCTCGCTCTAACGAGTAAACTCCCTCTCCTGTTGGTCGAGCTACCCCGTTCCTCTCCTTAAAGA
GCAAGTAACCTACCTTCGATGCCCATTTGTTGATTAATCTGGGGCGGTATTCATCCCCGGCTTTG
GTGCCTTTCCTCGCCCTCTTTCATTTGGTAATACCCTTTGATTGACTGCATTTGCTTATCCTGGT
ATATAGGTAGTGAACTTCTGTCCTGTCGTATTGTCCTTATTGAGTTATCCTAGCAAGAATCCCCC
ATCGACTAAGAAAGCTATGTATTGATTACTATAAGAAGGAAGCCCCGCTATCTATCTCTGCTTTC
CTGTCTTCCTATCTTTCTGCCTATCTGTCTTTCCTCTTTCTGCTTTGTCTTTCTCGCTGTCGGTA
GAGATTAGTATTTCCTAAGTTGTCTGAGGCTGAGCTTCCCTACTT
Right flanking sequence: Indices 288471 -- 288970
TAGGTACGTCTCGCTTCGCTCCTCATTTCCTTGCCGTCTTTCAATTCTGACTATTGAGAAATATC
CATGAGTCTGTCCCCCCGCGAGTAAATAAGCTAACCTTGGCTTCCCCTTCGACTGAGGCGGACTT
GAGCCTAGTTATTGACTTCCTGAACCTTAAACAAGTTATCAAAGAAGTGGATTTGCTCACAGCTT
CTCCTTCGTTCCTAGACCAACAGCTTAGCTTACCTTAGCCCAGCCGTACGTCCTACTGCTTACCT
TAGCCCAACCATAGGTCCTACAGCTTCGATGGCAGAATGATTGACCGGGCCGCTTGGCCCACTTG
AACTAGCAGCCCTACCTGCTGCCGTACCTGTCTGTGAATGAACTTCTGGATATTCACCTACCAAC
ACAACCCGGGCCACGCCGGGACTTTCTTTATCCATTCAATCAAACTAGGGAAGTGGTTAGAGAAG
CAGTAGCTGCTATGCGAGTTAGATCGGTCAAGTTTTGATGTAGAT
Found at i:288729 original size:30 final size:30
Alignment explanation
Indices: 288692--288756 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
288682 CCAACAGCTT
* *
288692 AGCTTACCTTAGCCCAGCCGTACGTCCTAC
1 AGCTTACCTTAGCCCAACCATACGTCCTAC
* *
288722 TGCTTACCTTAGCCCAACCATAGGTCCTAC
1 AGCTTACCTTAGCCCAACCATACGTCCTAC
288752 AGCTT
1 AGCTT
288757 CGATGGCAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.22, C:0.37, G:0.15, T:0.26
Consensus pattern (30 bp):
AGCTTACCTTAGCCCAACCATACGTCCTAC
Left flanking sequence: Indices 288192 -- 288691
GAACTTCTGTCCTGTCGTATTGTCCTTATTGAGTTATCCTAGCAAGAATCCCCCATCGACTAAGA
AAGCTATGTATTGATTACTATAAGAAGGAAGCCCCGCTATCTATCTCTGCTTTCCTGTCTTCCTA
TCTTTCTGCCTATCTGTCTTTCCTCTTTCTGCTTTGTCTTTCTCGCTGTCGGTAGAGATTAGTAT
TTCCTAAGTTGTCTGAGGCTGAGCTTCCCTACTTCTGTACTTGGTTGCCTGTCTCTAAGCTGTAC
TTCCTTGCCTGTATCTAAGTAGGTACGTCTCGCTTCGCTCCTCATTTCCTTGCCGTCTTTCAATT
CTGACTATTGAGAAATATCCATGAGTCTGTCCCCCCGCGAGTAAATAAGCTAACCTTGGCTTCCC
CTTCGACTGAGGCGGACTTGAGCCTAGTTATTGACTTCCTGAACCTTAAACAAGTTATCAAAGAA
GTGGATTTGCTCACAGCTTCTCCTTCGTTCCTAGACCAACAGCTT
Right flanking sequence: Indices 288757 -- 289256
CGATGGCAGAATGATTGACCGGGCCGCTTGGCCCACTTGAACTAGCAGCCCTACCTGCTGCCGTA
CCTGTCTGTGAATGAACTTCTGGATATTCACCTACCAACACAACCCGGGCCACGCCGGGACTTTC
TTTATCCATTCAATCAAACTAGGGAAGTGGTTAGAGAAGCAGTAGCTGCTATGCGAGTTAGATCG
GTCAAGTTTTGATGTAGATATAGTCGCCCTCTTCTCTATGTCATAAAGTCGCTTATAATTAATGG
TTGTTCACTTCAGATGTGATACGTTGTTCACTTCGGATGTGGTGGATGAACCCTGATCGATGCGG
TTCAGGCCGTTTGATTGAACTACGCTAAGCTGAGACTTTCTCTTGTGCTTCGGGCGATCATAGTG
GATTTGATAATAGAAATAGCGAGCGGTCCGCCTTCCTTCTTCGCCTTTTCAATTTCAAATAATGA
TAGGACTCATGGGCCAAAAGGATATTGTCTTGAATTTGTCTTTCA
Found at i:297009 original size:29 final size:29
Alignment explanation
Indices: 296967--297041 Score: 150
Period size: 29 Copynumber: 2.6 Consensus size: 29
296957 CTAGTCGCGC
296967 GGAGCTACTGCGTTCCTCCCCCTATCGGT
1 GGAGCTACTGCGTTCCTCCCCCTATCGGT
296996 GGAGCTACTGCGTTCCTCCCCCTATCGGT
1 GGAGCTACTGCGTTCCTCCCCCTATCGGT
297025 GGAGCTACTGCGTTCCT
1 GGAGCTACTGCGTTCCT
297042 TCGCTCAACC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.11, C:0.36, G:0.25, T:0.28
Consensus pattern (29 bp):
GGAGCTACTGCGTTCCTCCCCCTATCGGT
Left flanking sequence: Indices 296467 -- 296966
GCAAGTACATCTGATATCGATCACTCTACTTCTTAACCGAGCCCTCAGCGGCTGTCATTCCAGTT
GTTGATACCGTAGTAAGCAAATCAATGGATACCTTAGATAGCTAAACTCGCTCAACGGCGAAAGG
TCCGAACTACAGCCCTGGCAAATAAGGCAGTTTTTCTTACCCGGCGACTATACCCGTTGTTACAC
AGATTAGCACTTAGCCCGTCGATGTCCATGTGTATTGGCTTTGGCCCGGTTATGATTGTAATGAA
GTATAAACCACTCCCAGTCCCCAACCATTGGTAGACACATCTAAAAGAAAGGAGATATCTCAACT
CATTCTGGAGGAGGTGTGCAAATGCAAATGGGGTAACCCCCGCGTATGCCGCTTTTAAGCCTTGT
TCCAACGTCCGGATGTGCCATATTCCCAAAATAAAATGAAAACAGGATTCTTGGGTAGTCATAGA
GCGGGTTTACTTGTTTCTAGAGGAAGCCTAATCAGCTAGTCGCGC
Right flanking sequence: Indices 297042 -- 297541
TCGCTCAACCGAAACGGGCTGAAACGACAACAATTTCTGGGAGCCCGTATTGGCCGGGAGCTAGA
ACCGCAACAACCCCGTGGTTGACGTCTTATCTTAGCACTTTATCACCTATCTTTGCCAGGGGAGT
CCCGTCTTTTGCTAACGAAGAAAGAGCAATGGTATTCATTAATAAGTATTTATAGCCGACCATTT
AATTTAGAAAAAGATGCCAGCTAGATGCTTAACACATCAAGCTCGGTAGATTCATTTGGTTGTTT
TTCCTTGGCTTATCGAACCAGCGTATGCCCATTCCTCCTTTGATGACTCCCAGTAGAGAAAGCCT
AAATTTGCCGATTAAGGCCCGTCTCAGTGATATGGCCTAGATGTATCTTTCTCATTCCCTGCTGA
CCTGGCTGGCCACGTTACTGAGTTCCTAGGAACGAGCAAGGAAGATTTTGAGCCCCAACGACAAA
CGAACCTACGGGCGGGGCATTTTCGGAGAGTAGCCCGCTTCCTTC
Found at i:303800 original size:21 final size:21
Alignment explanation
Indices: 303776--303817 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
303766 CTTCTTCCAC
303776 TTCTCTTTCTTGTGGTAGTCG
1 TTCTCTTTCTTGTGGTAGTCG
303797 TTCTCTTTCTTGTGGTAGTCG
1 TTCTCTTTCTTGTGGTAGTCG
303818 AATGAGGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.05, C:0.19, G:0.24, T:0.52
Consensus pattern (21 bp):
TTCTCTTTCTTGTGGTAGTCG
Left flanking sequence: Indices 303276 -- 303775
TAATAATAGTACCCCCCGAGGCTGCTGTGAAGTCTCTGAACTCTGCCTAGTCAATGTGTTGCAGC
AAGGTGTTGTCTAGGGGGTAGGTTGGGGTCTTCTAATGGGGGTTTGCTTTGTGAGATCAATGGGT
ACCATTCTCGGAAGTGTCTACTTTCAACTGGTAACAAAGCGTCCTCTAGGCTCTTTCCCCTTTGA
CTTCCTTAGCTTAGGTGTGGGTAAAGGGTTTCTATGCCATTTGTTCGTAACGATAGGTTTTATTT
GTGACAACTTTCGTCACAAATAAAACCTACTTCAACTGAAGGGTGATAAATCAGCCGTACTCTTT
CCCAATCCATGCTATCTATGGCGTGTAGAAATACACCAGCTGTAACCGACCAATACCTACAAATG
CATCTCAAGTAATTTGAGTTATTTTATTAGGCGGGGACAGGATTCGAACCTGCAGTCTTCAGGTC
ATGAGCCTGATGAGTCGACCAGTTCCTCTACCCCGCTTCTTCCAC
Right flanking sequence: Indices 303818 -- 304317
AATGAGGAAGTATGTTGCGGCAACTAAAGAGTTATCGAGACTGACCGCAATTGCAGTAAGAGTTT
GACTTTCTTTCAGTTATGTAAAGTTGTTTAGTACGAGATCGCTTCACACCTCGCGGTGCTTACAC
CTCTCGCCTATCGAAGTTCTGTTCTAAAACCTCTTCCGAGAACTTGTATAGAGAAGGATTTCCCG
CAGAGCTGCAGTTCTTCCATACCAACTTAGCTGCCCGGCGCTGCTATTGGCATAACAACCGGTAC
ACCATAGGTTGGCCCAACCCAGTCCTCTCGTACTAGGGTTGGCTCCTCGCAGTTCTCCCTTTAAC
ACCAACGGTAGATAGGAACCGAACTGTCTCACGACGTTCTAAACCCAACTCACGTACCACTTGAA
TCGGCGAACAACCGAACCCTTGGGACCTTCTTCAACCCCAGGATGTGATGAGTCGACATCGAGGT
GCCAAACGACTCCGTCGATAAGAGCTCTTGGGAGTCATCAGCCTG
Found at i:305218 original size:18 final size:18
Alignment explanation
Indices: 305197--305239 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
305187 CAACCTTGTT
305197 GACTATGACAACAG-TCGC
1 GACTATGA-AACAGATCGC
305215 GACTAT-AAACAGACTCGC
1 GACTATGAAACAGA-TCGC
305233 GACTATG
1 GACTATG
305240 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 304697 -- 305196
TACCGTCTAGCCGTTGGTACTCCGCATCTTCACGGAGAATTCAATTTCACCGGGTCCATGTCGGA
GACAGCGGGGCAGTCGTTACACCATTCGTGCAGGTCGCTACTTATGCGACAAGGAATTTCGCTAC
CTTAGGACAGTTAGAGTTACTGCCGCCGTTTACCGGGGCTTCCATTCAAAGCTTATAACACTTCT
CCTTCCGACCTTCCAGCACCGGGCAGGTGTCAGACTCTATACATCGTGTTACCACTTAGCAGAGT
CCTGTGTTTTTAATAAACAGTCGCTACCCCCTGGTATGTGCCGCTTTCCTAATCAAAAGATAGGA
GAGCACCCCTTCTCCCGAAGTTACGGGGTCATTTTGCCGAGTTCCTTCGACATGGTTCTCTCAAG
CGCCCTAGTATACTCTACTTGTTCACCTGTGTCGGTTTGGGGTACGGTCAGTTCACCGGGAGGAT
CGCCCTCCCAATTCGAAGTTTTTTCCTGGAAGTTTCAACCTTGTT
Right flanking sequence: Indices 305240 -- 305739
GCAGGGCGGTACGCTCTGCTCTCTCGCGACCCCTACTCTAATCAAAAGACTAAGGGCCCCTTAGG
TCGCCAAACTACGACGAGAGTTTCGCCTTTTGAAGCGCCAGTCGCGTAGGGCGACCGGGCCAGGC
CGAGTCAGAAAGGCTTTGATGACTCAAGGTTCATATTAGGGAAAGGAGAGTGAGGGGAAGAGGGG
GCAGCCCTCGGCCCGATCATCCAATTCGCTCCAACAGATAGGCATGGTTCTGTAGTCAAAGCAAC
TTCGTCACTTTCGTGTACCCATCGGACGGCAGCCCTTTCGGGGGTTCCTTAGGGACCGATTCACT
CTGCGTAGATTGACTGAACGCAGAAAGCCTTCCACTGGCAGGCGATCGTGTTTTTCACAGGATTT
ATCGTTACTCATGTCAGCATTCTCACTTCTGATATCTCCAGGTGTTGTCACCAAAAACCTTCCCC
GATTGACAGAACGTTCCGCTACTGACACTTGAAAAAGAAGCTTTC
Found at i:342465 original size:15 final size:16
Alignment explanation
Indices: 342445--342487 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
342435 CGGATGGACA
342445 GATCGACTGT-CGCAT
1 GATCGACTGTGCGCAT
*
342460 GATCGAGTGTGAGCGCAT
1 GATCGACTGT--GCGCAT
342478 GATCGACTGT
1 GATCGACTGT
342488 TAAGGTAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 9 0.39
18 14 0.61
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.26
Consensus pattern (16 bp):
GATCGACTGTGCGCAT
Left flanking sequence: Indices 341945 -- 342444
ACCTGTATTCGATACTGGGTCATTCATAGCAAACCTATACCTTCCCTATTTACTTTACTCGACGA
ATTAAGGGGTTTGGTTATTCGTCAGCACGGGTTTAGCTTCCTCTTCCTCTTGGATTGCGTCAACC
GCTCAAGTGAAGCCAAAAAGGGAGGATTTCCGAAAGGCTCCGATCCAGTTAAAATCCGTTTAAGC
TAAAAGCACCGGTTTTCTCCCCAGGCAAAGGCCAGTCAACAGCCAGTCCACAAGAGAACCCCGAA
ACGGGAGCAAACCCCCCTTCTACCTTTCTTTCTTTCAGAACCTTTCTCGCCTGCCGTTAAATGAA
AGTTTATTTGAGTTCCCAATGGCTGGTGAAAGTGAAATAGGAGACCTCAAGCTGCCATACTTGAC
TAGAACCGAAGGAAGATCTCTCACACCGGCAATGGAAACTAGATGTCAACGAGCGGCACATAATT
GAAATTGGACAACCTCACCCCCCAGTGAATGTAGTCGGATGGACA
Right flanking sequence: Indices 342488 -- 342987
TAAGGTAGGACCTTCAACAAAGAGAGTTGATCAACAAGTTCAGACTATTTTCTGTCAATTCGGCT
GTCCTCTCATTTCTATTATAAAATCAAATGTCTTGAATCATTCGATATAAGGGCTTCACTTCAAA
GAGGCATAGGAACAATGTCCCGAAACTGAAGATGAGACTGAAAGCTGCCATACGAGATTAGAGAA
TAGAAAGTAAGGAACTGTTAGAAATGGAATATGGATCTTGCCCATATATATGTACTTTATTTTAT
CTTCTTTCTTGTCGGATTCTCTGGGGGATAAAGAAAAAGTATATGCCCCGGACTCGCGATTTGGG
GATTTCCCTGGCTAGGATGCTAAAGATCGGATGCTGCCTCCTTTAAGGAAGGTGCCTAGCCTTGC
TAAAGGACATGCTACCACCCTACCAAAGCCGACAAAGTAAAGCAGGAAAGTCATCAGGTGACGAA
GACGGAGGAAAGGCAAAAAAGGTCAATAAAAGCTTCTTATGTGGC
Found at i:376940 original size:17 final size:17
Alignment explanation
Indices: 376918--376952 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
376908 TTCCAACTAT
376918 ATAGGACGAGTCACTTC
1 ATAGGACGAGTCACTTC
*
376935 ATAGGACTAGTCACTTC
1 ATAGGACGAGTCACTTC
376952 A
1 A
376953 GGTTCCTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (17 bp):
ATAGGACGAGTCACTTC
Left flanking sequence: Indices 376418 -- 376917
AACGAAGGCACGAGCCCAACCCAACTTCTTCGCTTCCAAAAAAGAAAAAAACAAGCTGGGAAAGA
TTTTGCCTTCAGCACACGCGCACATAATGACTCCGGAGCCTTTGTAAGCCTCCAACCTTGCTTTG
CTAGCATTGCATGGAAAAAAGCTTTAAGGTCTAGGAAACCTAGCCCGCCATTCTTCTTTTGGATG
CAATTCTATTCCAGCCCATCCAATGCATTTTCTTTTCCTTAGCTTATAATTATTACCCCGCCCCC
ATAACCTGCTAATGAAACTAACCAACTCATTGCATACGAGAGAATCGCCTGGGCCACTTCTTTTA
TGTTATGAGGGTCTCCTTTCCGTCTCTAGAGAGCCACTTTTTATTCCCGCCCTGGATACGTTTAA
ATTTTCCTTCATTTCCTTGAAACCCACACATGCATGGGACTGTAGCAAAGCATCTGCCCCTAAGG
ATCTTTCCTCATGTTTTGTGGTTCGTCATGCCCACTTCCAACTAT
Right flanking sequence: Indices 376953 -- 377452
GGTTCCTCTTGAGATTTCTTACTAATTCCTGCCTTTCCTTCACAACTGGGTTCTGGATACTTTCC
TTGGCCTTCCTAGCTCGCTGATTTGAAGGTCTATCCTAGCTTTCAATTCCTTCTTCTACAGACAT
CAATTTCTCGTCGGTCTTTCCTGCTATGCTCACCAAAGCCATCCATACCATAGAACCCTCACTCT
TCTTTTTGTTGTTATCCGTTTGAGCATCCCCGGATCCAATCAGCAGTGGTAGAGAGTCCTCTTCC
CCCAAGCGCTGAAGTAACTTCCACCATTTTAGCCACTTGCTTCCTTGCTCCGATATGAGTTGAAA
AGTATCCAGGGAAGTCCCCTATAATATAAAGCAAGTCCCGTTCCACTCTTCTCTCAATGTCAGTG
CTGGGAGATCGGGTACAGCGAGATCACTTTTCTGTTAGTCTGCTATGCATGAAAGCAAGAAGCTC
TCTTTCTTCCTCGGGAATCTGGTATGTGAGAAATTTGTATACAAG
Found at i:384626 original size:21 final size:21
Alignment explanation
Indices: 384567--384626 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
384557 GACGAGAAAA
*
384567 CTAAGAAAGACCAAAAGATAC
1 CTAAGAAAGACGAAAAGATAC
* *
384588 CTAAGACAGACGAGAAGATAC
1 CTAAGAAAGACGAAAAGATAC
*
384609 CTAAGAAAGAAGAAAAGA
1 CTAAGAAAGACGAAAAGA
384627 AACCGCCTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.57, C:0.15, G:0.20, T:0.08
Consensus pattern (21 bp):
CTAAGAAAGACGAAAAGATAC
Left flanking sequence: Indices 384067 -- 384566
CCAGGTCAATCAAGAATGGTTTGAGTCACAGTACGCGGACCCATCTCGTACAAAACAGGTACCGG
TGGAAGCCAACTTCCGGATTGATTGGCACACTCTTAACATCATCAAGAAAGACACAATGGTCAGG
GTTGGGCTTCAGCTGGGGACCAAGAGGATACCAGTATATCACAGAGATGTCTGGGTGGATACTGA
TCCAATTGATATCCAAGACTTGTCTAGCCTAGATCACAAAGGAAAACAAAAAAGAAAATCACTAG
GGAATGCTTTAATACAACTACAGACTGAAAATGAAATTCTAAATGAGAAATTATCTAAGAAGGAA
AGAGAGTTTGCCGAGAGATACAAAGAGATGATATCACAGTTTGATGCTAAGAAGAATACAGATAA
AAGGATGCACACTCAATACACTACAGAGAGACAGAAAAGTCTTACTGAAGAAAGAACGCTATTAG
ATAAAGAAGAACAAGAACAAACAGAGGTGACTAACGACGAGAAAA
Right flanking sequence: Indices 384627 -- 385126
AACCGCCTTGAAAGACAATTGATAACTGACGAAAGAACTGATGAAGAAGCGCATCAAAGACCTCA
GCCTTAGGGGGGAATAGTTGATCGAACTTCCGTGAGTTCGTTTTTGGTCATCCTGCATTTCTGCA
TTTCACCGACCTTCGCAGATTAGGCTAATCGTATTATGAAATGAAAGGGAGGAAAAATGGATACG
CAGTATTCTATAATGAACATTGTAAGGTTAGAGTTTCTTTAGTAGGCCACAGCAGATCGAAAAGT
CGCTAATTTCGCTCAGTCAAGTTCTCGTATGGGTAAGGATTTGGCCATTGGCAGTTGAGGGGGGT
GTTGATTCCCCCCGCCTACGTAGGGTGCTAAGTGAGTAAAGTAGCCGCCGGATCTAAGAACCCAA
AGAGCACCCATCAAACCACCTCTAGTTCGGGACCCATTTCTACAGTTCGGGTGCCAGAGTCCTAC
TGGAGGCTCATACGCAACCTACGTCTGTTGGGGGGGCTGCCCCCT
Done.