Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_071974
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: 163324
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Found at i:12800 original size:21 final size:21
Alignment explanation
Indices: 12773--12856 Score: 123
Period size: 21 Copynumber: 4.0 Consensus size: 21
12763 CCCTTGCCTT
* * *
12773 AATCTCTTGATTTATAGATTT
1 AATCTCTCGATTTATGGATTC
* *
12794 ACTCTCTCGACTTATGGATTC
1 AATCTCTCGATTTATGGATTC
12815 AATCTCTCGATTTATGGATTC
1 AATCTCTCGATTTATGGATTC
12836 AATCTCTCGATTTATGGATTC
1 AATCTCTCGATTTATGGATTC
12857 GTCGTATATG
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.24, C:0.19, G:0.13, T:0.44
Consensus pattern (21 bp):
AATCTCTCGATTTATGGATTC
Left flanking sequence: Indices 12273 -- 12772
TGGAAACTTACGAGGTTTCAGATACATTATCTGAAACCTTGTAGGCAAAAGGGGTAAGACTGGAA
GCGGAAAAGGAGCGCGTCTGCCGTATAATGGGAATCATTGATGGCGCAAAGATGGAGATTTGGTT
AGAGTTTTTACATATCTCATTACGAACATATATCGTCACGAGTCTCTATTTTGTTTTTCAAATAG
CCATAAAAATCAAAGGGTCCAAGGTCTGTCCGACCATCTGACCTCAGCAAAGAGGCGGAAGTACC
ACCCGCGCAGGAATAGCTAATCCAACCGGTTACGGTCCGTGAAGTCTTCTCTAACGGGCCACAAG
ATTAGATGAATGGTTAAATCCTGACGATTTTCATCCATTCATCTAATGTGGTGGCCCATTCCCAC
CAATTTATCTAATATGGTGGTCGAGAACTCCTGTCGGATCTCTTACTTCGTGAACTCATATGATT
AAATATTATTATTTGCTCCAAATTTCCGGATTTAACCCTTGCCTT
Right flanking sequence: Indices 12857 -- 13356
GTCGTATATGCATATATAATGATTATAATTTGCTCCCACCCAAATTTATTGATTTATTTATTATT
ATTTCCGTATACACAAAATAGAAGCCTTATGTTATCCGTGCTCCATTACGCTTCCCTCTTCCATT
ATCTCTTTACCCGGCTCGGTCTTCCGTTTCATATTATTCTTTCCCCCAAATAGCATCTCATATGC
GTTTGTGCCGACGCTGTTGCGAAAATATTTCATCTGCCGCGGGTCCGGTTCCTTATTGGACGATT
ATTTTATTGACTCGATATAATTGGCTGCATCCACCTTGTTCCTAATGGTTTGCCCCTGGTCGAGT
CCTCCATCGAATAATACAACGCTTAAATCCGGTAGACATTCGCGGATGCTGGATGATTGCCGATG
TGAGCTGTCGCATAACCCCGATCTACGAAGTATTCCACAAATTGCTTTGTCACTACCTCGAGGGA
AGCGCAAGGGCTAGAATTAGGCCTAGAACGTATCAACTGCAAACT
Found at i:18655 original size:24 final size:24
Alignment explanation
Indices: 18623--18670 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
18613 GATCGATGAA
18623 GCGGCTGACCCGCCGCAGAGCCAT
1 GCGGCTGACCCGCCGCAGAGCCAT
*
18647 GCGGCTGACCCGCTGCAGAGCCAT
1 GCGGCTGACCCGCCGCAGAGCCAT
18671 TCGGTCTACG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.17, C:0.40, G:0.33, T:0.10
Consensus pattern (24 bp):
GCGGCTGACCCGCCGCAGAGCCAT
Left flanking sequence: Indices 18123 -- 18622
GAAAATAGTCATTCGTTTGCGACGGCTCCAAGTGCTGCTCAAGATCCTACTCGTCGTGCGCACTC
CCTTCGTGACCAACATCATAGAGAAACTCGGATTTTGATAGAGAATCGAACATTGTAGCGTTATG
AAGGGGATGGATACATCTCTTACAGTATTGGAACCCGTAAAGGTTTGGCTATACCCCCTTTTTTG
TTTCCGAATTCAGCGTCACTGTTGAACGAGGGGGCGCTATTCTCCCATAAGTCGTTGCGTACGGG
GATCCTGAACCTGTAATTCGTCATCTCGAATACGCAAAACTACCGCAGGTCTCGACCTTCGGACC
CCGAAATATACAACGGGCAATTCCATTCTACTTGAGAACCTTTCCAACCACTTCCAGCGCAATAC
AACGCTTGGCTCGCAGCCTCAAACGGATATGGTATACTGCTGAGTGGTAGTAAAAAGATGCTACA
AGAAGTCCCTTATGACTTCGATATCTATTTCCATCGATCGATGAA
Right flanking sequence: Indices 18671 -- 19170
TCGGTCTACGGGCCCCCGTAATGCTTCGGGCTTTGCCGCCTAGCGGATAATAAGCCTTCCGGTGA
ATACGGACCACCGATAAAAAACCCAAAATATTTTCGTTTTTATACTTTCACTTCGGAACGGAATA
GTGGACTTAGGACACCGCACACCTTTTTTCGAAGCGATTTCGTCCCTTTCGTCTAGGGGTATAGG
ACATCGGCTTTTCATGTCGGAGACACGGGTTCAAATCCCGTAAGGGATAATCTTACTTACCTTCA
CTGAGGTTGCTCCAAAAGCGAGGGGGAAAAGGCTTTATGGCGGCGGTTTCGACAAAAAAAAAGAA
TAAACTTCAATGTTTTTAATTATCCCGGCTTCCGTTCGGTACAAAATTATTAACTTTTCTAGTAT
TGAATCAAGTTTGAAGATATTTGTTTCGAATTCATTATTTTTTTACTCGTTTTTTGGCATCTTTT
TCGGAAAGAGCACGAATCTTATTGGTGTTTCAAAAGTGTCTTTTT
Found at i:31311 original size:23 final size:23
Alignment explanation
Indices: 31280--31329 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
31270 CGGAGAAGAA
31280 AAAACTGCATAATCTTTTGGTTAT
1 AAAACTGCATAATCTTTTGGTT-T
31304 AAAA-TGCATAATCTTTTGGTTT
1 AAAACTGCATAATCTTTTGGTTT
31326 AAAA
1 AAAA
31330 AGCTGCTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 5 0.19
23 17 0.65
24 4 0.15
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (23 bp):
AAAACTGCATAATCTTTTGGTTT
Left flanking sequence: Indices 30780 -- 31279
AAATGTTATGTAGGATGTTCGACACCTTATCAATTAGAGTATTTCACGCAATTTTTTTTATTTCC
CCATTGCGTTGACCCACTCGAAACCGGCCGTATTGAAATCCGATTATCCGACTCGGCGGGGATCG
CCAGGCCGCCGGTCAACGACCTTTGCCGAACCTCTTTTGGCGGAGGCCAAACACATAACCTATGG
TCCATTGAGCACGGGGTATAGGTGGCACCACCTAGTGCGCAGGGAGCATATTCGGGTATCGTGCG
CGGTAAAGCCATTTCTGGCCGGGGGACCTGGGACAAAGAAGTGTGCCCTTTGGCCCTAAGAGGTT
TGATTCGGCGATTCGCCATCGCTAGTTCGGTTCGGTCGTTTTTCGGCCGATTACGTTTCGCCTCC
TTCGGACCGACCCTACGGGCCTGTGTTTTACGTAATGTGATGTCGTATGGGGCCACGGGCCTTGT
GCCTTTTCTTTACCCGATACACTGCTCTAAATATACGGAGAAGAA
Right flanking sequence: Indices 31330 -- 31829
AGCTGCTGAATCGGAAGATGATGCAGCGTATGCGACGAAGGCGGGGTTTTTAAAGTTGATGGAGA
ACAAGGTCCGGAGGAGGGTTTTAGGCATTTTGATGGAAAATAAGAACCTTTGGTCCTTATTGATT
GCGGAACCCAGATAAGTGCGCCAGCCTCGGTGCATCGTGGACTTGTACTTTTTCTCGCGCAGGAC
CCATACCGGTTATCGGTCGTCCAGGCGCGCATATCAGGCGTCGGAAGGGACATACGCCTCCGTCC
TCGCCGCCCCGAGGCGCTGTCTGAGCTTCTTACTCGGGCAGATTGGCCCGGTACGGTTCGTAAGA
GACGACGGCCCCCCGGCCGGCCCCTGTCTGACGGTCCAACCTCTCAGGGGGCCTGTCAGCCGCCA
GTCCCCGGCCCTTCGGACGGACCCACAAAGTTTCTCGTGTTCCTTGGTCAGTTGTTCCTTCCCGC
TCCTCTGTTGTCTATTTAGCACTCTCCGCCGCGGTTGTATGTGAG
Found at i:31330 original size:23 final size:23
Alignment explanation
Indices: 31279--31335 Score: 80
Period size: 23 Copynumber: 2.4 Consensus size: 23
31269 ACGGAGAAGA
31279 AAAAACTGCATAATCTTTTGGTT
1 AAAAACTGCATAATCTTTTGGTT
31302 ATAAAA-TGCATAATCTTTTGGTTT
1 A-AAAACTGCATAATCTTTTGG-TT
31326 AAAAAGCTGC
1 AAAAA-CTGC
31336 TGAATCGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
23 20 0.67
24 7 0.23
25 3 0.10
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (23 bp):
AAAAACTGCATAATCTTTTGGTT
Left flanking sequence: Indices 30779 -- 31278
TAAATGTTATGTAGGATGTTCGACACCTTATCAATTAGAGTATTTCACGCAATTTTTTTTATTTC
CCCATTGCGTTGACCCACTCGAAACCGGCCGTATTGAAATCCGATTATCCGACTCGGCGGGGATC
GCCAGGCCGCCGGTCAACGACCTTTGCCGAACCTCTTTTGGCGGAGGCCAAACACATAACCTATG
GTCCATTGAGCACGGGGTATAGGTGGCACCACCTAGTGCGCAGGGAGCATATTCGGGTATCGTGC
GCGGTAAAGCCATTTCTGGCCGGGGGACCTGGGACAAAGAAGTGTGCCCTTTGGCCCTAAGAGGT
TTGATTCGGCGATTCGCCATCGCTAGTTCGGTTCGGTCGTTTTTCGGCCGATTACGTTTCGCCTC
CTTCGGACCGACCCTACGGGCCTGTGTTTTACGTAATGTGATGTCGTATGGGGCCACGGGCCTTG
TGCCTTTTCTTTACCCGATACACTGCTCTAAATATACGGAGAAGA
Right flanking sequence: Indices 31336 -- 31835
TGAATCGGAAGATGATGCAGCGTATGCGACGAAGGCGGGGTTTTTAAAGTTGATGGAGAACAAGG
TCCGGAGGAGGGTTTTAGGCATTTTGATGGAAAATAAGAACCTTTGGTCCTTATTGATTGCGGAA
CCCAGATAAGTGCGCCAGCCTCGGTGCATCGTGGACTTGTACTTTTTCTCGCGCAGGACCCATAC
CGGTTATCGGTCGTCCAGGCGCGCATATCAGGCGTCGGAAGGGACATACGCCTCCGTCCTCGCCG
CCCCGAGGCGCTGTCTGAGCTTCTTACTCGGGCAGATTGGCCCGGTACGGTTCGTAAGAGACGAC
GGCCCCCCGGCCGGCCCCTGTCTGACGGTCCAACCTCTCAGGGGGCCTGTCAGCCGCCAGTCCCC
GGCCCTTCGGACGGACCCACAAAGTTTCTCGTGTTCCTTGGTCAGTTGTTCCTTCCCGCTCCTCT
GTTGTCTATTTAGCACTCTCCGCCGCGGTTGTATGTGAGCCTTTC
Found at i:38483 original size:8 final size:8
Alignment explanation
Indices: 38470--38517 Score: 51
Period size: 8 Copynumber: 6.0 Consensus size: 8
38460 AGAACCGGAA
*
38470 ATAAATCT
1 ATAAATAT
38478 ATAAATAT
1 ATAAATAT
*
38486 ATATATAT
1 ATAAATAT
*
38494 ATATATAT
1 ATAAATAT
*
38502 ATATATAT
1 ATAAATAT
*
38510 ATATATAT
1 ATAAATAT
38518 GCTGCGCCCG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 38 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (8 bp):
ATAAATAT
Left flanking sequence: Indices 37970 -- 38469
CGGCGAGGTCCAGCCAGATGAGCGCCGGCCAAGGCGGGTTGGAAGTCAGAAGGCCCGCAGTACCC
GGCTAAACCTCCGCTTCGGGAAAGGGAAGGCACTGGAAACACCAGTAATCGGGAAGGGGCCTAGG
TATCTGCTTGGTCCAAGCGGATTTAACTCTACACAGCTTATCAAAGCAACTCTGACGGATCTCAG
ATTGGCTATGACCGACACGGTACGGTATGCGGTTTGCTCCCTGTCAGCCCCTTGGATCTCTAGCT
ATGAGAAAAAGCGAACAGGCGGACAAAGCGGCGGCTTGAAAGTCCTCTAGCTTCTCCAGCGAGCT
ATGGGGTACGGCGCAGCACAAAATAGTTTTAATTCACTTGGTCCACCTGCCCTGGCTCCCCCGGC
GAAACTTCCCAAGGATGCTCGAACTCTGCAAGGCGATAAGTATAAACTCTGGAATCGCTGGGAAA
ACGGAGCAACCCGAAGAGCAGATCATTGGTTTTCGAGAACCGGAA
Right flanking sequence: Indices 38518 -- 39017
GCTGCGCCCGTAGTGAAAGAGGGCCCAAAGTAAGTAGAGTTAGTGAGCCGTGTAATGGGCAACTA
TTTCGCACGGTTCGGAGGGCACTTCAGTAGGCCCTACATGGGCTGAAGTCCTGACCCCTATTCCT
TTTGATGATGCCAGAAGTCGTTTCGATATACGATTTTATCTCGTTTCTATTTTATTTATCATATC
CGATCCGGAAGTCACCTTTTTATTTCCCTGGGCAGTTTCTCTTAACAAGATTGGTTCGTTTGGAT
TCTGGTCTATGATGGTATTTTCACTTATTTCGACGATTGGATTTGTATATGAATGGAAAAAGGGC
GCTTTAGATCGGGAGTAACTCTTCATTCGCGAAAGCGAATGGAGTGGAAAGAAAAAATATAGGCC
CGTAGGGCTGAAGCTCTCATCGCTCTCTTTCTCCCTCTCCGGACACTTTTTTGGTCCAAGGGACA
CGAAACTTGCCGGGTATCGTGTCCTTTGGACCAAAAAGAATTTTG
Found at i:38489 original size:2 final size:2
Alignment explanation
Indices: 38477--38517 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
38467 GAAATAAATC
*
38477 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
38518 GCTGCGCCCG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Left flanking sequence: Indices 37977 -- 38476
GTCCAGCCAGATGAGCGCCGGCCAAGGCGGGTTGGAAGTCAGAAGGCCCGCAGTACCCGGCTAAA
CCTCCGCTTCGGGAAAGGGAAGGCACTGGAAACACCAGTAATCGGGAAGGGGCCTAGGTATCTGC
TTGGTCCAAGCGGATTTAACTCTACACAGCTTATCAAAGCAACTCTGACGGATCTCAGATTGGCT
ATGACCGACACGGTACGGTATGCGGTTTGCTCCCTGTCAGCCCCTTGGATCTCTAGCTATGAGAA
AAAGCGAACAGGCGGACAAAGCGGCGGCTTGAAAGTCCTCTAGCTTCTCCAGCGAGCTATGGGGT
ACGGCGCAGCACAAAATAGTTTTAATTCACTTGGTCCACCTGCCCTGGCTCCCCCGGCGAAACTT
CCCAAGGATGCTCGAACTCTGCAAGGCGATAAGTATAAACTCTGGAATCGCTGGGAAAACGGAGC
AACCCGAAGAGCAGATCATTGGTTTTCGAGAACCGGAAATAAATC
Right flanking sequence: Indices 38518 -- 39017
GCTGCGCCCGTAGTGAAAGAGGGCCCAAAGTAAGTAGAGTTAGTGAGCCGTGTAATGGGCAACTA
TTTCGCACGGTTCGGAGGGCACTTCAGTAGGCCCTACATGGGCTGAAGTCCTGACCCCTATTCCT
TTTGATGATGCCAGAAGTCGTTTCGATATACGATTTTATCTCGTTTCTATTTTATTTATCATATC
CGATCCGGAAGTCACCTTTTTATTTCCCTGGGCAGTTTCTCTTAACAAGATTGGTTCGTTTGGAT
TCTGGTCTATGATGGTATTTTCACTTATTTCGACGATTGGATTTGTATATGAATGGAAAAAGGGC
GCTTTAGATCGGGAGTAACTCTTCATTCGCGAAAGCGAATGGAGTGGAAAGAAAAAATATAGGCC
CGTAGGGCTGAAGCTCTCATCGCTCTCTTTCTCCCTCTCCGGACACTTTTTTGGTCCAAGGGACA
CGAAACTTGCCGGGTATCGTGTCCTTTGGACCAAAAAGAATTTTG
Found at i:43380 original size:12 final size:12
Alignment explanation
Indices: 43363--43389 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
43353 GTTGCATCTC
43363 TCGCTTCATGTT
1 TCGCTTCATGTT
43375 TCGCTTCATGTT
1 TCGCTTCATGTT
43387 TCG
1 TCG
43390 ATGGACGGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.26, G:0.19, T:0.48
Consensus pattern (12 bp):
TCGCTTCATGTT
Left flanking sequence: Indices 42863 -- 43362
TATTCGATTCCAATGCAGCTTTATCGAAAGCTGCCGAAATTTCATGTCTGGGTTTTTCCCTAGCC
AATAAATAGGCAATCTCTACCTCTAATTCAGCGATATAATTGCCGTTGGGCGAACGCTGTGTCCG
TGAACTTCCGTTTATCGAAATCATTTTTACATAATGGGAAGTCTACAGCGTAACTAATAGTCTTC
GGGCGAAATTCGGAAAGGGTTGGGGTGTCAGGTAATGGTGCATCATTATCCTTTTCTCGTTCGGT
GCGTTAATTGGATCCGTAACCTTGCGCGGCAGGAACTCCTTTAGGCTCAGCAGAACCTTTCTTAT
TTGGGCCACGAGGCTGGACTCTCTATGTCATCTAGCTCACGATAACCCGTTTGAAATTTCCTTGT
GCCAGCCATATGACAAATGTAGTAAACGAAGCTCGGTATAAGTCCCGGAGTCATACGCAAACAAC
CCTTGGCTCTACTTCCTTTTTTTCGGCACAAGTAAGTTGCATCTC
Right flanking sequence: Indices 43390 -- 43889
ATGGACGGCGTAGGAAGCTACGAAAGAGCCTGTATTGAAACGGCTTCGGCCTCCTCCACGGTTTT
ACAGAACTATGGAGCTGGAGCCGGTTCGAAGGAAGCCGCCATGTTAATTACGATGAAGTTGCGTT
CTGGCATGTTGAGGCCTGTCCCAACAACGCCAGCCGCGATATGCCACGGGTCGCCGGGCCTCACT
CACCTTACCACCGAGAGTCATTTCATTACTACTCCCGATAGGTCCCAACCTGACAAATGGGTTTT
TGCGAGTTACATACATAATTGTCAAACATGCGGGCTGATGGGAACCCCATGGCGCGGCGGCTCCG
GGAGCATGTTCTTATAACGCTATCCTAGAAAGCCTTATCCATTATATTGAACCAGTTGGAGAGGG
TCAGGATAACCTGGTAATCCAACACTTTATTTTATTTTCCTTCTATAAAAAATTTGTGTTTTTGC
TGCCCCGCCGAAACACACTTTTATCCGAGTTATAAGGTGGATCGG
Found at i:44034 original size:17 final size:17
Alignment explanation
Indices: 44012--44048 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
44002 ATAATTTGCG
44012 TATTCGTTGAGTTCCAT
1 TATTCGTTGAGTTCCAT
*
44029 TATTCGTTGAGTTTCAT
1 TATTCGTTGAGTTCCAT
44046 TAT
1 TAT
44049 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 43512 -- 44011
GTTGCGTTCTGGCATGTTGAGGCCTGTCCCAACAACGCCAGCCGCGATATGCCACGGGTCGCCGG
GCCTCACTCACCTTACCACCGAGAGTCATTTCATTACTACTCCCGATAGGTCCCAACCTGACAAA
TGGGTTTTTGCGAGTTACATACATAATTGTCAAACATGCGGGCTGATGGGAACCCCATGGCGCGG
CGGCTCCGGGAGCATGTTCTTATAACGCTATCCTAGAAAGCCTTATCCATTATATTGAACCAGTT
GGAGAGGGTCAGGATAACCTGGTAATCCAACACTTTATTTTATTTTCCTTCTATAAAAAATTTGT
GTTTTTGCTGCCCCGCCGAAACACACTTTTATCCGAGTTATAAGGTGGATCGGCCACACGTTCGA
ACATGTAAAACCGCAGAAGTTAATGGAACTGCGCCGCGTGCAACGCGTGGCGCCTCCTCGTCGCA
GTCGGGTTGCCTTCCGCCAGCCTTCTTCAAGAGCGATAATTTGCG
Right flanking sequence: Indices 44049 -- 44548
CTTACCACGCGCTTCGTCGAAAGGTCTGTGGAACACGACACAGGGCCTGTAACCGGGACCAAGAA
TATTTGCTATTTAATATGTCGCGGGTAAATTCGGCATTTGGATTCGGGAATCATCTTGACTTGGC
TGATTCAATATACGTTCGAAAATTTTGTCCGGACTCACAGGCATTGTACGGGGTTTGCACCGGGG
AGCCAAGTAGTGCTTGGCTTTGATTAACTAAAATTTGCTTGACATATGATGTTGAGCTGAGCTCG
ACTTTGTTATCTTCAAGCTTCAATTTGTATGTGCACTTCGGATACCCCGCGTGCAGCGTTTGAAC
AGGGTTTTGGTAGTGATAGATGAAGAAGACCTCACCCTCGGTTTTCCGAAACCGGGGGGGGGAAA
TCACATCAGCGAGTGAGCGCGCTTGTTTGATGCCCTCCTGCATGCTCCAGTAGCAATCCCTCGCC
ACGCGCACGATCCGATTAGTTGATGTACTTCATCGACGTATATGA
Found at i:52139 original size:4 final size:4
Alignment explanation
Indices: 52130--52189 Score: 120
Period size: 4 Copynumber: 15.0 Consensus size: 4
52120 AGGCGGCAGG
52130 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
52178 AATA AATA AATA
1 AATA AATA AATA
52190 TATATGTATT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 56 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AATA
Left flanking sequence: Indices 51630 -- 52129
ACTTCCGTATCCGTCAGTACCTTGTGGGAGCCTCACATTGTGGGCGTAAGGGCTAGTAAAAAAAG
GATGAAAAACTATTCAATGAGGCCCGAGGGGGGGGCACTGTCACGACCAAAATACGACGGAAAAG
CGCACATCTCAGGGAACTGGCTCGATCGGATGCGGGGAGCCGGAGGACGGGAAACTGTCACCTAC
GGTTCTGAATTGGCGGCCAGGGCCCCTGATCGACCATAACATGCTAGCAAATGTTGTCACCATCC
CAGGTACCCAAGATATTGTGTTTGGAGAGGCAGATAGATAAGACTACTAATTGCACAGGTAGGAC
CAAAAAAATCTATATTGTTTTCCAGAAACTTATCCCTATCATTTCCCGCCCTTTTTTTGTCCGAC
AGTGCCCCCCCCCTGGCCTCCTGTTTCGAATATAGAAATATATAGATATATCTATATATTTTGCT
TGATTGTGAGATTATCACCGATATGATGCGAATGAAGGCGGCAGG
Right flanking sequence: Indices 52190 -- 52689
TATATGTATTTTAAAATCTTCGAACCTGCCCTACAAGTCTCCACAATGCTTCCCTTCGGCAGCCT
TATGAATTGCCAAAAAGCAAGCACAGGAGAGCTCCAAAAAACATGGCCGGTTATCTATCAATAAA
TAGATGAACCTGAAAAACGGCCTGTAGGGGATAGAAAGATAAAAAAAAATATATATATATTTTTT
TTGCCCCCGCGCCGTTGCGAAAGTTCGGCAACGTCAGTAAAATATTTTTTTTGACACTTGTTCGA
AGGACACTAGACTCGGGTACGTCCTTCTTCCTATAGTCTCGTGCCCTTTGGTCCAACGGGTTCGG
CCCCCCCCCAGCAGGGGGGGCGGGCTCGACCCGCCCCCTTCAGGTCCTTTTTTCGTAAAGCCGTT
CCCTGTCTGAACGTGTTTACGCACCTTCGGACCCAGGCACGTAGTGCGCGGGGAGCGTGTTCTGG
CCGGTATGGTGCGCGGTAGAGACATTTACGGCCTTCGGCGCTTAT
Found at i:64411 original size:27 final size:27
Alignment explanation
Indices: 64381--64436 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
64371 ATAAACAATC
* * *
64381 ATGCAAGAAAAGCAGGGTATTACTGAT
1 ATGCAAAAAAAACACGGTATTACTGAT
* *
64408 ATGCAAAAAAAACACTGTATTACTTAT
1 ATGCAAAAAAAACACGGTATTACTGAT
64435 AT
1 AT
64437 TCAATCAACT
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 63881 -- 64380
AGGGAAAAAAAAATAAATCATGTCATATATTTTAGGAACCAATCTGAATTCCAATAAACAGGTGA
AAATTGCCTTAACTCGAATCTTCGGAATTGGGCCCAAAAAGGCAATTCAAGTTTGTGATCGATTA
GGCCTCAGCGATAACATTAAGGTTAATAAGTTAACTAAATATCAATTTGACCAAATTCTGGAAAT
AATAAGTCAAAATTATTTAGTCGATTCGGAATTGGAGAGAGTCATTCAGAGGGACATCAAACGAT
TAATTAGTATTGGTTGTTATCGCGGGTTTCGCCATAATGCAGGATTGCCCTTACGCGGCCAACGG
ACTCATACTAATGCTAAGACTTCTCGCAAATTTAGATACATTTCGATCAGAAGTTGAGAAAAGTT
TTTTTCCAGTTCGTACAAAATATCTTTGTAATTAGTGAACGGATTGGATGGATCATAAAAAAACG
AAATCGATGATATCGAGCAACACCAAAAACATTCAATAAACAATC
Right flanking sequence: Indices 64437 -- 64936
TCAATCAACTTTTGGTAATACGATTATTACTCTAACGGATCATGACGGAAATACAAAAACTTGGT
CCTCCTCGGGTTCAGTGGGGTTTAAGGGATCTCGTCGCTCAACCAATTATGCTGCTCAAGCAACC
GCAGAAAATGCCGCGCGAGCTGCCATTCAACTTGGATTTAAGTTTGTTGAAGTGAGAATCAAAGG
ATTGGGTTATGGAAAGGAATCTTCGCTACGTGGTTCAAAACTAGGAGGTCTTATTATTACCAAAA
TTCGCGATGTAACCCCAGCGCCACATAATGGATGCCGACCCCCCAAAAAACGTCGTGTTTAAATA
TCATCATAAAGTGCTATGTCATCATAAAATGGTAAATTGAGGTTCAAGAGTAGAAAAATTTTTTT
TAGGGTCCGAGGGAGACTTCTTTGGGATACTTCTTTGGCTTCACGGGGCGGGGCTTAACCGGTCC
CTCGTAAAGGCGAAGAAGGAGATCTACAAGCCATGTCTGGCCCTC
Found at i:73176 original size:2 final size:2
Alignment explanation
Indices: 73163--73196 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
73153 GAAAGAACAA
*
73163 AT AT AT AG AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
73197 TTATCCACTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Left flanking sequence: Indices 72663 -- 73162
TTCCCTACTTGGCACAGGGGAAGGGGCTTAAGCGTCTGCTATATTTCAGCAGATCGGATTCAACC
AAGTCCTCATCAAATAAGGCTCCCAGGGACCCCGCCGGACGGGTCGATACACGGAAAAAGAATAT
TTGGGCTGACGCGGATCTTTGGATTTTTGGATTTTGGGAAAAAAATACGCTACGCGCCTCGTTTC
GTAAATGCACCATGTTCGGCGGGGTCTCAAGGACGAGGGGGGCTCATATAAGAGAATGCTTGGTT
TTATTCCTTCCCACCCACTAGAATCTCACATGAGCGCTATAGTGAGAAAGCAAGTTACTTCATGT
AACTCACGCCACTTGTAGGCCCACATAGGTCACTGAAAAAACAAGCCAAGACCTTGCGACAGAAG
CAAATCCAAAGTAAGGTTGAATCGGAGAGCCGTATGATGGGCGACCATCTCGTACGGTTCGGAGA
GGGCTCGAGTACCAATGCATTCAATATGTGTCTGGGAAAGAACAA
Right flanking sequence: Indices 73197 -- 73696
TTATCCACTCTATTCAATTGCATGAAGGGTTAAACACGAAACATGTGCTTCGCCTCCAGTTCTCA
AATACGAAGTATAGTTGGGAGAGGCAGGATTCGAACCTACGTAGAAAACCTTCAGCAGATTTACA
GTCTGTCGCTTTTAACCACTCGGCCACTCTCCCTATGATAAGTAAGCTTCTATTTTCCGGCGGTG
CAACGGGACTCTGACGAAAAATGGGTCAATCCACGCGTGTACCGTTGTTCCCATGGACTAATCGA
ACAAGTAAAAGGATGTACCGTTGATATATATTATTCATTGCACACTTTACGCATCCTACAGGATT
TGAACCTGTGACCTTCAACTTAGAAGGTTGTTGCTCTATCCAACTGAGCTGAGAATGCGGCACAT
TACTAACCATTTCGCAGAAAAAAAGTGAATTCCAGAGAAGAAAGAAGCTTGCTTCTTTCTTCTCT
CCCGCTTTATTCGCATCGCGAATGGAGGCCGAAAGAGAAGAAAGG
Found at i:94017 original size:10 final size:10
Alignment explanation
Indices: 94002--94148 Score: 180
Period size: 10 Copynumber: 15.3 Consensus size: 10
93992 GCTGCAATAG
*
94002 ATATCTAGAT
1 ATATCTATAT
94012 ATATCTATAT
1 ATATCTATAT
* *
94022 ATATATCTAT
1 ATATCTATAT
94032 ATATCTATAT
1 ATATCTATAT
94042 ATATCTATAT
1 ATATCTATAT
* *
94052 GTA-CTAGAT
1 ATATCTATAT
94061 ATATCTATAT
1 ATATCTATAT
94071 ATATCTATAT
1 ATATCTATAT
94081 AT-T-TATAT
1 ATATCTATAT
94089 ATATCTATAT
1 ATATCTATAT
* *
94099 GTA-CTAGAT
1 ATATCTATAT
94108 ATATCTATAT
1 ATATCTATAT
94118 ATATC--TAT
1 ATATCTATAT
94126 ATATCTATAT
1 ATATCTATAT
*
94136 ATATATATAT
1 ATATCTATAT
94146 ATA
1 ATA
94149 GATATATAAT
Statistics
Matches: 117, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
8 15 0.13
9 16 0.14
10 86 0.74
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.48
Consensus pattern (10 bp):
ATATCTATAT
Left flanking sequence: Indices 93502 -- 94001
GAAGCATTGCTAAATGACTAAATTTCGCTAATATGGCTAAATCCCGAGGATTTGTAGATAAATAT
ATGTAATTAATACTCCAGAAGCCTCATCGCTAATGACACCTTCGCTAAATGACGCATATTTACCT
AATATGACCAAACCCGTTGGGGATCTGTAGTATGATACGGAGAGGAATACCCCTTAATTAATATG
TAATTAAAGGGTCGGGAAAGGAATATATAATAAGAATCTATATGGGATATGGAAGAATTCCATAT
AATTGGGAAGAGTTAATCAATTGAATTGGAATAAATAGAATGGATTGATAAATAAAATAAATTCA
AATATATATATACATATTATATATTTGTGTATAACAGAGAAAATGCATAAATCAAATAGATTCTA
TTATTTATAGGAGAGACTATTAAATTCATGTTTATTCTTTCTTCGCCCATCTCCCGAAAGAAAAT
GAGCTACTATTTTTCTTATTCGAGAGAGACGATGAGCTGCAATAG
Right flanking sequence: Indices 94149 -- 94648
GATATATAATTTATGGGTCAGGGGAGGAGATAGCCTTGACCTCCAACCTCCGAAGATACTAAGGA
CCTGGATCTTCCCTGGGTTACCACGTTCTTGAGATCTGTTACATAGGCCCCTAGTTTTCCCTTGG
GAACGTCCAGAGACTTTCATCGTGGAAGTGGCATAGGAACTCCGGGCGGGGATCATGGCACTTCT
ACTAGAACCTTAGGTACGCTTTCGCTAGGAGCTCGAACTGGACTGAAGATAGGAAGCATAGATCG
AGGGGGCACAAGGGAACTATTTTTTCGGTCACGCGGTACGTACCGCCTGTAGGTCCCGTAAACAT
CTCGTCTTTATGGGGTTTGTAAACGGTGTCCGCTACATTCCGAAGATCAAGAATTATATCTGGTT
GTTGGGTGCAGGGCGGGGGACTTGGTTCTGTCGGCTACCACAAAACCGGGAAACTGTCCGACAAA
ACAAAGGGCACTTACGACCAACTCTGCCTCGGAATACCTTTCAGT
Found at i:94088 original size:47 final size:47
Alignment explanation
Indices: 94006--94145 Score: 244
Period size: 47 Copynumber: 2.9 Consensus size: 47
93996 CAATAGATAT
94006 CTAGATATATCTATATATATATCTATATATCTATATATATCTATATGTA
1 CTAGATATATC--TATATATATCTATATATCTATATATATCTATATGTA
*
94055 CTAGATATATCTATATATATCTATATATTTATATATATCTATATGTA
1 CTAGATATATCTATATATATCTATATATCTATATATATCTATATGTA
*
94102 CTAGATATATCTATATATATCTATATATCTATATATATATATAT
1 CTAGATATATCTATATATATCTATATATCTATATATATCTATAT
94146 ATAGATATAT
Statistics
Matches: 88, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
47 77 0.88
49 11 0.12
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (47 bp):
CTAGATATATCTATATATATCTATATATCTATATATATCTATATGTA
Left flanking sequence: Indices 93506 -- 94005
CATTGCTAAATGACTAAATTTCGCTAATATGGCTAAATCCCGAGGATTTGTAGATAAATATATGT
AATTAATACTCCAGAAGCCTCATCGCTAATGACACCTTCGCTAAATGACGCATATTTACCTAATA
TGACCAAACCCGTTGGGGATCTGTAGTATGATACGGAGAGGAATACCCCTTAATTAATATGTAAT
TAAAGGGTCGGGAAAGGAATATATAATAAGAATCTATATGGGATATGGAAGAATTCCATATAATT
GGGAAGAGTTAATCAATTGAATTGGAATAAATAGAATGGATTGATAAATAAAATAAATTCAAATA
TATATATACATATTATATATTTGTGTATAACAGAGAAAATGCATAAATCAAATAGATTCTATTAT
TTATAGGAGAGACTATTAAATTCATGTTTATTCTTTCTTCGCCCATCTCCCGAAAGAAAATGAGC
TACTATTTTTCTTATTCGAGAGAGACGATGAGCTGCAATAGATAT
Right flanking sequence: Indices 94146 -- 94645
ATAGATATATAATTTATGGGTCAGGGGAGGAGATAGCCTTGACCTCCAACCTCCGAAGATACTAA
GGACCTGGATCTTCCCTGGGTTACCACGTTCTTGAGATCTGTTACATAGGCCCCTAGTTTTCCCT
TGGGAACGTCCAGAGACTTTCATCGTGGAAGTGGCATAGGAACTCCGGGCGGGGATCATGGCACT
TCTACTAGAACCTTAGGTACGCTTTCGCTAGGAGCTCGAACTGGACTGAAGATAGGAAGCATAGA
TCGAGGGGGCACAAGGGAACTATTTTTTCGGTCACGCGGTACGTACCGCCTGTAGGTCCCGTAAA
CATCTCGTCTTTATGGGGTTTGTAAACGGTGTCCGCTACATTCCGAAGATCAAGAATTATATCTG
GTTGTTGGGTGCAGGGCGGGGGACTTGGTTCTGTCGGCTACCACAAAACCGGGAAACTGTCCGAC
AAAACAAAGGGCACTTACGACCAACTCTGCCTCGGAATACCTTTC
Found at i:94146 original size:8 final size:8
Alignment explanation
Indices: 94010--94156 Score: 132
Period size: 8 Copynumber: 18.1 Consensus size: 8
94000 AGATATCTAG
*
94010 ATATATCT
1 ATATATAT
94018 ATATATAT
1 ATATATAT
*
94026 ATCTATAT
1 ATATATAT
*
94034 ATCTATAT
1 ATATATAT
*
94042 ATATCTAT
1 ATATATAT
* *
94050 ATGTACTAG
1 ATATA-TAT
*
94059 ATATATCT
1 ATATATAT
94067 ATATATAT
1 ATATATAT
*
94075 CTATATAT
1 ATATATAT
*
94083 TTATATAT
1 ATATATAT
*
94091 ATCTATAT
1 ATATATAT
* *
94099 GTACTAGAT
1 ATA-TATAT
*
94108 ATATCTAT
1 ATATATAT
*
94116 ATATATCT
1 ATATATAT
*
94124 ATATATCT
1 ATATATAT
94132 ATATATAT
1 ATATATAT
94140 ATATATAT
1 ATATATAT
*
94148 AGATATAT
1 ATATATAT
94156 A
1 A
94157 ATTTATGGGT
Statistics
Matches: 112, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
8 100 0.89
9 12 0.11
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.48
Consensus pattern (8 bp):
ATATATAT
Left flanking sequence: Indices 93510 -- 94009
GCTAAATGACTAAATTTCGCTAATATGGCTAAATCCCGAGGATTTGTAGATAAATATATGTAATT
AATACTCCAGAAGCCTCATCGCTAATGACACCTTCGCTAAATGACGCATATTTACCTAATATGAC
CAAACCCGTTGGGGATCTGTAGTATGATACGGAGAGGAATACCCCTTAATTAATATGTAATTAAA
GGGTCGGGAAAGGAATATATAATAAGAATCTATATGGGATATGGAAGAATTCCATATAATTGGGA
AGAGTTAATCAATTGAATTGGAATAAATAGAATGGATTGATAAATAAAATAAATTCAAATATATA
TATACATATTATATATTTGTGTATAACAGAGAAAATGCATAAATCAAATAGATTCTATTATTTAT
AGGAGAGACTATTAAATTCATGTTTATTCTTTCTTCGCCCATCTCCCGAAAGAAAATGAGCTACT
ATTTTTCTTATTCGAGAGAGACGATGAGCTGCAATAGATATCTAG
Right flanking sequence: Indices 94157 -- 94656
ATTTATGGGTCAGGGGAGGAGATAGCCTTGACCTCCAACCTCCGAAGATACTAAGGACCTGGATC
TTCCCTGGGTTACCACGTTCTTGAGATCTGTTACATAGGCCCCTAGTTTTCCCTTGGGAACGTCC
AGAGACTTTCATCGTGGAAGTGGCATAGGAACTCCGGGCGGGGATCATGGCACTTCTACTAGAAC
CTTAGGTACGCTTTCGCTAGGAGCTCGAACTGGACTGAAGATAGGAAGCATAGATCGAGGGGGCA
CAAGGGAACTATTTTTTCGGTCACGCGGTACGTACCGCCTGTAGGTCCCGTAAACATCTCGTCTT
TATGGGGTTTGTAAACGGTGTCCGCTACATTCCGAAGATCAAGAATTATATCTGGTTGTTGGGTG
CAGGGCGGGGGACTTGGTTCTGTCGGCTACCACAAAACCGGGAAACTGTCCGACAAAACAAAGGG
CACTTACGACCAACTCTGCCTCGGAATACCTTTCAGTAACCTGTG
Found at i:111858 original size:21 final size:22
Alignment explanation
Indices: 111826--111867 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
111816 TTAGAGTAAG
111826 AAAAACCACTAC-AAAGAAACA
1 AAAAACCACTACTAAAGAAACA
*
111847 AAAAATCC-CTACTACAGAAAC
1 AAAAA-CCACTACTAAAGAAAC
111868 GTATGAGCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.60, C:0.26, G:0.05, T:0.10
Consensus pattern (22 bp):
AAAAACCACTACTAAAGAAACA
Left flanking sequence: Indices 111326 -- 111825
CCCCAAATAAACTTGCCGTATTATCTCCGCGAAAGAGACAAGAGCCTATGAACTCTGTATCAGAG
TCTTATTCCGGTATAAGTGCGAATTGAAACCGAGTGTTTAACCATTATTTCGCTATTCCCGATAT
TATAGCGACGGAGGCCCTTGATCCAATCCAGCGAGTTTTCTGTTATGTTTGTTTCTTCGGTGAAA
ATGAAAGAAAGGGGGAGGGGTAGACGCCAGCCTAACCCAGGAGGGCCTGGTGGCTCCTCGGTCAA
GTCCCTAACTTTCAGGGCGGGCTCCGCCCTATAAGGACTAGGTCTGTATAGGGCGGAGCGGATCG
GTGCTTAAGTAAGCTGCACAAATTGCTGAGACGTCTAAATGCTTTCCTTGATAGCTGGAAGTTCT
TCAAAAGTATGAAATGCCGGAGGGCTTGGGACCATCCATTCAAGTGTCGTTGAATTCTGTTCAAC
AGCCCAAGGACTTGGAGCACACTTGTTTTCACTAGTTAGAGTAAG
Right flanking sequence: Indices 111868 -- 112367
GTATGAGCCAAAACTACTAAAGGCATTCCATCCAGCGTAAGCATCTGGATAATCAGGAATGCGAC
GTGGCATACCCGCAAGCGGTTTTTTCCTTATTTATCAAATGTTAATGGATTGTGACTAAATATTT
TTCTTTTGTAAACTTCTTCATCTGGAATTAGTCCTTCAGACGTTTCGGTGTGTTTAAATCCCAAT
GTTGAATCAGTTATTTTATTGGTATTAAGAACTGGTTCATAGAGATCGAAATAGTACTGTTCCCG
AGCTAAATAATCCTTTTTTTCATTCAGTAATAGTACCTGTTGAACCACCCACATGACTCAATAAT
AACTAAAATTGTCATGACCATATTTCCAACTGGAATTATAAATATATCTGTTATCGGATAATTTG
GAAGGGTGATAGTATTCAGCAAGTCTATCGCTTAATTTATAACCACTACCTACATATTGTTTCCC
ATTAACTAAATTATGCCAAAGATAGATTCCAGTTTCCGTTAGATA
Found at i:126942 original size:24 final size:24
Alignment explanation
Indices: 126910--126956 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
126900 TCATTGCCTT
* *
126910 TTATTTATCTATGATGATTCATCA
1 TTATTTATCTACGATAATTCATCA
126934 TTATTTATCTACGATAATTCATC
1 TTATTTATCTACGATAATTCATC
126957 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 126410 -- 126909
ATATAAACAGTGAAGAAATAACACACTTGATTTTCGGTGAGCAATTATTATATAATGATACGTAA
AAGGTAATATAATAAATACCATAATACGTGATACAAAAAATGATATAAAGCACGCATAACCGAAC
GAATTGTGTCAGATACGTAAAGTGATTTAGTTGAGTCCGAAGATGTAAGACGTTAGTTCTACCTA
ACATTTTTTTTCTACCTGCAAGAGAAATGTAAAAAGTTGGAATATAAGGTACTTCTATATAATTT
TTGGAAATATGGACTAAAGCCCTGCCGGGCGGGAGAGGAGATCGGAAAAGTTATATCTAGAGCCG
GACCTCGTGTTTCGTGGGTCGCTCCCTTCTCGCCCATTTTTTTGTTTTCTCACCCGTTTTTGGCG
GGAGTCGGATTCGAACCCACAACATTCAGATTATGAGCCTGACGAGTTACCAATTACTCTATCCC
GCGAACGGCCAACGAAAAAAGAGATATATTTTTGTTCATTGCCTT
Right flanking sequence: Indices 126957 -- 127456
CAGATTTTCTATTAGGAATTAGACTAGATTCGAACCAGATTTGTCTAGGTTCAAAAGGAAAAAGG
GGCGCGCCGCAGCCCGCGCTAGCCCACTGGGTTAAAATGACGGATACAATTTTGGTGTTCACCCA
ACTAAAGCGATTGGCTGGAGACAAAACCACGGTAGCTTCCCTACCCGCGCACAGGTCATGAATTA
GGGGTGTTATGAAGGAGGCAGGTAGATTACCCACCCTAGGCAACAACGGGCCCGCCGGTAACATA
ATTAAAAAGTACACAGGCACTACGTGCTTCTGGAACATACTTCTTTTAGTTTCTGTCCGGAGCGA
TAATTTCATGGAATACGGGAAGCGATAAGGAAGCAGGAAAGTTTATAGAGGGGGTTGAGCTACGG
GTTTTGAACCAACCGTAGCTCCACCTCGTTAGTAGGAGTCTGTGACCCCTAAACCAGCTTGCCGA
GAAGACCTTACACAAAGATACATTGAGGAGTTGCTGTCCCCCCCC
Found at i:127583 original size:15 final size:15
Alignment explanation
Indices: 127560--127590 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
127550 TCCTTCAGAG
*
127560 AATTCTATATAAATA
1 AATTATATATAAATA
127575 AATTATATATAAATA
1 AATTATATATAAATA
127590 A
1 A
127591 TGAAACCTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (15 bp):
AATTATATATAAATA
Left flanking sequence: Indices 127060 -- 127559
GACGGATACAATTTTGGTGTTCACCCAACTAAAGCGATTGGCTGGAGACAAAACCACGGTAGCTT
CCCTACCCGCGCACAGGTCATGAATTAGGGGTGTTATGAAGGAGGCAGGTAGATTACCCACCCTA
GGCAACAACGGGCCCGCCGGTAACATAATTAAAAAGTACACAGGCACTACGTGCTTCTGGAACAT
ACTTCTTTTAGTTTCTGTCCGGAGCGATAATTTCATGGAATACGGGAAGCGATAAGGAAGCAGGA
AAGTTTATAGAGGGGGTTGAGCTACGGGTTTTGAACCAACCGTAGCTCCACCTCGTTAGTAGGAG
TCTGTGACCCCTAAACCAGCTTGCCGAGAAGACCTTACACAAAGATACATTGAGGAGTTGCTGTC
CCCCCCCTCTCGAGATAGGAATGGACCAACGAGGGACTTCGATGATCCCATCCCGATGGCGTTTT
CGAGTAAATCCTGGCTGGAAAATATAGATCATACTTCCTTCAGAG
Right flanking sequence: Indices 127591 -- 128090
TGAAACCTTATTAACGAATTAACGAGGTTGAGCGGATAATGACTTATTCTTACAAAGGGGTTGGG
ACCGGAATTGTAACCGTAAGTAACCATTTCAACTGGGTAACGGCGCGCGTAAGGGCTCAGTCCCT
AATAAATAACCTTAGACTAAGAATTTATGAGGGATATCGTCCCGTATAGATCAGGTGTTTATGAT
ACTCTACGAGCCCCGGACCCGTATTTGAAGTGAAGGTCTTCGGTGAAGGAAATGCCTCCGTTGAA
GGAAGCCTGGAAGCCGGGAGTATTCGGTTATGTTCGTAAGGAATTTCCCCAAGCACAACAAAGGT
TTTGGAGATTTATATAATTAGCCAGCTTTAGATATTGCAATCCAATCCTCTCTTTTCCGAGGAGG
GAATAAAGCTATTATGATTCGAGGAATTCTTGGAGTTGATGGGAAAGGTCTAGCCATTTCCATCA
ATGAGTTGAAGGAGTTGCCATAGGTTACTGAAAGGTATTTCGAGG
Found at i:139624 original size:13 final size:13
Alignment explanation
Indices: 139606--139632 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
139596 AGAGCAGGAG
139606 CCCCAATAATAAA
1 CCCCAATAATAAA
139619 CCCCAATAATAAA
1 CCCCAATAATAAA
139632 C
1 C
139633 ATAGGCTACA
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:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (13 bp):
CCCCAATAATAAA
Left flanking sequence: Indices 139106 -- 139605
ATCATTCCGAACATATTCCGAATCGAGACAGAAACTTCTAATATATTTTTCATGGGTCCATCGTT
GGTTGCACCGATCGGCTTCGCTATTCCTCCAAGTCACTTTACTGTAATCTGTTGGCTCATCTATC
ACAGGCCTCATCAAATTTACTATTAAAATATTTAACCCTATTAGTACTATAACAATATGCGTTGG
TTACAATCTCCTTAACTAAATCTTTAGAAATTAAGGTTTGTGAAGAAGACTTCAAATTTGAATAC
ATTAATTTCGGTTGATAAACCGGAGGAGTATAATCCGAAAGGTTTGATTCATAAATATATTTATT
AAAACCGGTCCCTAGCAGCCTGCATATGAATCCTGAATTTTATTTGCAAGTGTACACAGATGATT
TCTGTGAGCTATGCCGTATCCTGTTCGCAGTTCCAGTGAGCTCTTAGCTGTAAGCTGCGAACATA
CAACAGCCGCGAGCGCATAACCAACTTCCTCGCGGAGAGCAGGAG
Right flanking sequence: Indices 139633 -- 140132
ATAGGCTACAATAAGAATAAACATAGGCTATAATAAGCCCCTCGCATCGGGAAGGCACCTCCTTC
GGTGCCTCTACCACTCGAATGTAGTAAATCAATTATTTCATGGAATAATAATAGTAATATACAAA
AGCATATATGGATAGAGAAAGCACAGCTTAATAATAGAAGATACGTATATAATAAGAAAACCATG
GGGCGCATAGGGTGTCACTACTAATAAATGAATTTAGTAGTGACTTTTCATTATTTAGGAGAAAT
AAACGCGTTGGAATTTTTATTTAATGGGGGGCCGCCGCCGGCCGTGGGCGTGAATCCACGAGCCG
GCCGTATCGGCTGGCGGAGAAGCCATTTCAGGTCCATTACAAAGGACCTTTCTTTCGGGGAACCA
AAGAAGTCTCCTTTGGGCCCTTCCGACCGATGAAACAAAAAATTATTTCTTTCCCATCATATATT
TTAACTCTTTCTTTCGTCATAACGCATTATTCCACCACCCATCTC
Found at i:139653 original size:22 final size:22
Alignment explanation
Indices: 139626--139669 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
139616 AAACCCCAAT
139626 AATAAACATAGGCTACAATAAG
1 AATAAACATAGGCTACAATAAG
*
139648 AATAAACATAGGCTATAATAAG
1 AATAAACATAGGCTACAATAAG
139670 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 139126 -- 139625
AATCGAGACAGAAACTTCTAATATATTTTTCATGGGTCCATCGTTGGTTGCACCGATCGGCTTCG
CTATTCCTCCAAGTCACTTTACTGTAATCTGTTGGCTCATCTATCACAGGCCTCATCAAATTTAC
TATTAAAATATTTAACCCTATTAGTACTATAACAATATGCGTTGGTTACAATCTCCTTAACTAAA
TCTTTAGAAATTAAGGTTTGTGAAGAAGACTTCAAATTTGAATACATTAATTTCGGTTGATAAAC
CGGAGGAGTATAATCCGAAAGGTTTGATTCATAAATATATTTATTAAAACCGGTCCCTAGCAGCC
TGCATATGAATCCTGAATTTTATTTGCAAGTGTACACAGATGATTTCTGTGAGCTATGCCGTATC
CTGTTCGCAGTTCCAGTGAGCTCTTAGCTGTAAGCTGCGAACATACAACAGCCGCGAGCGCATAA
CCAACTTCCTCGCGGAGAGCAGGAGCCCCAATAATAAACCCCAAT
Right flanking sequence: Indices 139670 -- 140169
CCCCTCGCATCGGGAAGGCACCTCCTTCGGTGCCTCTACCACTCGAATGTAGTAAATCAATTATT
TCATGGAATAATAATAGTAATATACAAAAGCATATATGGATAGAGAAAGCACAGCTTAATAATAG
AAGATACGTATATAATAAGAAAACCATGGGGCGCATAGGGTGTCACTACTAATAAATGAATTTAG
TAGTGACTTTTCATTATTTAGGAGAAATAAACGCGTTGGAATTTTTATTTAATGGGGGGCCGCCG
CCGGCCGTGGGCGTGAATCCACGAGCCGGCCGTATCGGCTGGCGGAGAAGCCATTTCAGGTCCAT
TACAAAGGACCTTTCTTTCGGGGAACCAAAGAAGTCTCCTTTGGGCCCTTCCGACCGATGAAACA
AAAAATTATTTCTTTCCCATCATATATTTTAACTCTTTCTTTCGTCATAACGCATTATTCCACCA
CCCATCTCGGATCGTCAGGATGATAATTCATCTGGTTTTCGACCA
Found at i:146331 original size:21 final size:21
Alignment explanation
Indices: 146307--146349 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
146297 AAAGAATAAA
146307 TTTACAAAAAAATATTTTTTT
1 TTTACAAAAAAATATTTTTTT
* *
146328 TTTACGAAAATATATTTTTTT
1 TTTACAAAAAAATATTTTTTT
146349 T
1 T
146350 GTTGCTCGCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTACAAAAAAATATTTTTTT
Left flanking sequence: Indices 145807 -- 146306
CCGATGAGAAGTGGGTAACAATGTGTTTGTCCTCCGAGGAAGCCAATCGTGGATTGGAGGTTGCC
CGAGCCAAGCCCTTGGCGTTTTTTTTCGCATATCCAAGTTCCAAGGCTTTAGTTATTAAGTCCGT
TATGGGAGCAATTAGTTGTGGACGAGATCGGAGTCTTACTTGGTTGACACCGGATATCTTGCCAG
TGCTTGAGATTTCCACACTTCGGGTGCCGTAATATATTACTAATGCGCCCAAGTATTTGGCCATC
CCGGACTCTGCGTGTAAGATTTTATGTTCGTTTATGTCCAACTTCAGTTCTTCCTGCGGGAAGTT
TTGCACGGCTTTTATAATATCCAGGGCATCTCGTTTGGTGCCTATAACACCTAAAATTATGTTAT
CCGCGTACCGTAGGTACTTAAGTCTTTCTAATCCTTCTTTCTCAGCCATTTCTGGAAGCGTCTCT
CGGCCCAAAGGGCACAAAACTTTAGGGTTTCGAAAAAAGAATAAA
Right flanking sequence: Indices 146350 -- 146849
GTTGCTCGCGGTTCATCCATTCTAGGTGTTTGATGTTTTTGATGGCCTGCCCCAATTCTGTATAG
TACTTGAAGAAGGCTTTGTATTTTGAATGGATATCAACCCTTTTCCTACTATATTCTCCCGACGC
GAGGCGCATATTCGCTACATTGTATTTGGGTATGAGTATGTCTTCGACGTAGCAATCCAACTTAT
GTAGGAAGATATTGGTACAAAGCGGGGATATTATAGAGCCCTGCGGAACGCCCTCTGTGTTGTAT
CCCGTTCGATCCGTAAGGTTATATACATCTATGTATCCTGCGTTAAGTAGCTTCCGCATAAGATC
CTGCAGTGCTTTAGATCGCAGTACTGGTCCCATCTCCTTAATAAGCAGGTCGTGATGAATCTTGT
CAAAGTCTTTCTTAATATCAATTTGTACAAGCCAAGTCGGTGCCGTCCACGAGTAACGTAGGTCT
CGCAGGGCTTCATGACAGCTTCTCCCGGGGCGGAACCCGTGGCTT
Found at i:162691 original size:32 final size:32
Alignment explanation
Indices: 162652--162716 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
162642 TTGAATCGCT
162652 AAAATTTATATAAATGGATTCACTACAGCATA
1 AAAATTTATATAAATGGATTCACTACAGCATA
162684 AAAATTTATATAAATGGATTCACTACAGCATA
1 AAAATTTATATAAATGGATTCACTACAGCATA
162716 A
1 A
162717 TTGGAGCCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAAATTTATATAAATGGATTCACTACAGCATA
Left flanking sequence: Indices 162152 -- 162651
CTATTCGTTACATGAAAGAAAGGTGAGGATTTAATAGGGGGGCTACTTGGTCCACGGGGAATAAC
CAAGTGACGGGGCCTCACTTTGACAATCGAGCCCGTAGGCTTGATTGGCGTAGTTCGGTGGCTTA
GTTCATGACAAAAAGCTTTCTGGGTACATGAAACACCAGGTCCTGTAAAATCTATTCTTTCTCAG
CAATTTCGGCGAAGTAAATCGTAGAGCCGGCCCGAAACCCAACAACCCCCGGAGCCAAAGAAGCA
CATAGTGCCTGTAAAGGCAAATAAGTATCCTCCCCCGAATCAGCTGGTGAACGTGTAATGCGGGA
GCCGAACGACACAGTACCTAAAACCTTCTGCATAGGTAGCGCTGAGTTAGGCAGGGCCCAAGTCC
TAGCCTGGGATAGCAATGGGCAAATTTTTCAGTGGCTGAGACCGTACATAGTTGTACAAGGTACT
ATCCGTGTCTTACCATGAACCGCTCCGGACGGCAGTTGAATCGCT
Right flanking sequence: Indices 162717 -- 163216
TTGGAGCCACTGGGGTTGGTTCTCAGCGCCTTGTATCATTAATCTAGTCTTTATGGTAGCCTGGC
GCTACGCGAACAAAAAAAAAGATTTTTTTTGCTCTGCATCTTTCTAGCACCCCATGGGCAGGGCC
CTAAGGGGACTTTATTTTGTCGGACACCACAATATTGAAATACTGTCCGACAAAACAAAGGGCTA
AAGCCTTTCAGGCCGAAAGTCGGCGGCCTGATCGCAGCCTCTAAGCTCTCTGCCTTTTAAGGAAT
CCTCCGCAATTTCACAAAAAACTTTAGAGTATGGCCCACGAAAAAAGATATATTTATATATCTTT
TTTCTGCATAAATATTCAAGCTAAGGGATGAGGGCCGCAGGCAAAATGAAATATATATTTTATGA
CAAAAGATTTAATTCTTTCGGCGAATAACGGGATTCGAACCCGTGTTTTCAGAGCCACAATCTGC
AACTTTGACCCCTAAGTTATATCCGCCCCTATTTATAAATGAGAT
Done.