Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold760
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 42546
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Found at i:21 original size:1 final size:1
Alignment explanation
Indices: 15--53 Score: 69
Period size: 1 Copynumber: 39.0 Consensus size: 1
5 ATTAAGCCCC
*
15 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
54 GGTCATAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:2383 original size:507 final size:508
Alignment explanation
Indices: 51--4583 Score: 7728
Period size: 508 Copynumber: 8.9 Consensus size: 508
41 AAAGAAAAAA
* * *
51 AAAGGTCATAACATGCTGGCCGCGGACAAAATGGTGTCTATTTGTCTTTAGACTGTTCCTGATAC
1 AAAGGTCATAACATGC-GGCCGCGGACAAAATGGTGTCTATTTGTCTTTGGCCAGTTCCTGATAC
* ** * *
116 TCAGAAACGGCCAAAGAGGGGCAGCTGTAGACACCTCATTTTGTTCGGGCCAATGTTCGACAAGT
65 TCAGAAACGGCCAAAGAGGGGCAGCTGTAGACACCTCATTTTGTCCGGGATAATTTTCGACAATT
*
181 TGAGGCCTAGCTAGTAGGTGGAAGATTCGACGTATGTGGGGACGAATTGGTGACCGTAAATCAAC
130 TGAGGCCTAGCTAGTAGGTGGAAGATTCGACGTATGTGGGGACGAATTGGTGACCGTAAATCAGC
* *
246 ACATTGACATCCTTTTTCTCATCTTTGAACCCAATATCGTTGGCCGTGAATCAACGTATTGGTCC
195 ACATTGACATCCTTTTTCTCATATTTAAACCCAATATCGTTGGCCGTGAATCAACGTATTGGTCC
* * *
311 TTTTATCACTCTTCATCCTCATCATCTTTAAGCCCAATGTTGCGGGCCTTGAATCTGCATAGTGG
260 TTTTATCACTCTTCATCCTCATCATCTTTAAGTCTAGTGTTGCGGGCCTTGAATCTGCATAGTGG
* *
376 CACATTGCAATGACCATAATCTTCCAAAATCCATTCCAAACTCTACACCAATCTACACTTATTTA
325 CACATTGCAATGACCATAATCTTCCAAAATCCATTCCAAACTCTACACCAATCTACACCTATCTA
441 AGGAGGTCAAGCCTTAGAAAATTCCAAAACCTAGTAGGGAGGACAAACCCTACAAACTCATTTTT
390 AGGAGGTCAAGCCTTAGAAAATTCCAAAACCTAGTAGGGAGGACAAACCCTACAAACTCATTTTT
*
506 TTCATCGGAATCGCCGCCAATAGGCTCTTCATCACGGTGAAGCATTAATCACCC
455 TTCATCGGAATCGCCGCCAATAGGCTCTTCATCACGGCGAAGCATTAATCACCC
* *
560 AACGGTCATAACATGCGGCCGTGGACAAAATGGTGTCTATTTGTCTTTGGCCAGTTCCTGATACT
1 AAAGGTCATAACATGCGGCCGCGGACAAAATGGTGTCTATTTGTCTTTGGCCAGTTCCTGATACT
*
625 TAGAAACGGCCAAAGAGGGGCAGCTGTAGACACCTCATTTTGTCCGGGATAATTTTCGACAATTT
66 CAGAAACGGCCAAAGAGGGGCAGCTGTAGACACCTCATTTTGTCCGGGATAATTTTCGACAATTT
*
690 GAGGCCTAGCTAGTAGGTGGAAGATTCGACGTATGTGGGGACGAATTGGTGACCGTAAATCAACA
131 GAGGCCTAGCTAGTAGGTGGAAGATTCGACGTATGTGGGGACGAATTGGTGACCGTAAATCAGCA
* *
755 CATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCCATGAATCAACGTATTGGTCCT
196 CATTGACATCCTTTTTCTCATATTTAAACCCAATATCGTTGGCCGTGAATCAACGTATTGGTCCT
* * *
820 TTTATCACTCTTCATCCTCATCATCTTTAAGCCCAATGTTGCGGGCCTTGAATCTGCATAGTGGC
261 TTTATCACTCTTCATCCTCATCATCTTTAAGTCTAGTGTTGCGGGCCTTGAATCTGCATAGTGGC
* *
885 ACATTGCAATGACCATAATCTTCCAAAATCCATTCCAAACTCTACACCAATCTACACTTATTTAA
326 ACATTGCAATGACCATAATCTTCCAAAATCCATTCCAAACTCTACACCAATCTACACCTATCTAA
*
950 GGAGGTCAAGCCTTAGAAAATTCCAAAACCTAGTAGGGAGGACAAACCCTACAAACTCATTTCTT
391 GGAGGTCAAGCCTTAGAAAATTCCAAAACCTAGTAGGGAGGACAAACCCTACAAACTCATTTTTT
*
1015 TCATCGGAATCGCCGCCAATAGGCTCTTCATCACGGCGAAGCATTAATCACCT
456 TCATCGGAATCGCCGCCAATAGGCTCTTCATCACGGCGAAGCATTAATCACCC
* *
1068 AACGGTCATAACATGCGACCGCGGACAAAATGGTGTCTATTTGTCTTTGGCCAGTTCCTGATACT
1 AAAGGTCATAACATGCGGCCGCGGACAAAATGGTGTCTATTTGTCTTTGGCCAGTTCCTGATACT
*
1133 CAGAAACGGCCAAAGAGGGGCAGCTGTAGACACCTCATTTTATCCGGGATAATTTTCGACAATTT
66 CAGAAACGGCCAAAGAGGGGCAGCTGTAGACACCTCATTTTGTCCGGGATAATTTTCGACAATTT
1198 GAGGCCTAGCTAGTAGGTGGAAGATTCGACGTATGTGGGGACGAATTGGTGACCGTAAATCAGCA
131 GAGGCCTAGCTAGTAGGTGGAAGATTCGACGTATGTGGGGACGAATTGGTGACCGTAAATCAGCA
* *
1263 CATTGACATCGTTTTTCTCATATTTAAACCCAATATCGTTGGCCGTGAATCAACATATTGGTCCT
196 CATTGACATCCTTTTTCTCATATTTAAACCCAATATCGTTGGCCGTGAATCAACGTATTGGTCCT
*
1328 TTTATCACTCTTCATCCTCATCATCTTTAAGTCTAGTGTTGCGGGCCTTGGATCTGCATAGTGGC
261 TTTATCACTCTTCATCCTCATCATCTTTAAGTCTAGTGTTGCGGGCCTTGAATCTGCATAGTGGC
* *
1393 ACATTGCAATGACCTTAATCTTCCAAAAT-CACTTCCAAACTCTACACCAACCTACACCTATCTA
326 ACATTGCAATGACCATAATCTTCCAAAATCCA-TTCCAAACTCTACACCAATCTACACCTATCTA
1457 AGGAGGTCAAGCCTTAGAAAATTCCAAAACCTAGTAGGGAGGACAAACCCTACAAACTCATTTTT
390 AGGAGGTCAAGCCTTAGAAAATTCCAAAACCTAGTAGGGAGGACAAACCCTACAAACTCATTTTT
*
1522 TTCATCGGAATCGCCGCCAATAGGCTCTTCATCACGGTGAAGCATTAATCACCC
455 TTCATCGGAATCGCCGCCAATAGGCTCTTCATCACGGCGAAGCATTAATCACCC
* *
1576 AAAGGTCATAACATGCGGCCGCGGACAAAATGGTGTCTATTTGTCTTTAGCCTGTTCCTGATACT
1 AAAGGTCATAACATGCGGCCGCGGACAAAATGGTGTCTATTTGTCTTTGGCCAGTTCCTGATACT
* * ** * *
1641 CAGAAATGGCCAAAGAGGGGCAGCTGTAGACACCTCATTTTGTTCGGGCCAATGTTCGACAAGTT
66 CAGAAACGGCCAAAGAGGGGCAGCTGTAGACACCTCATTTTGTCCGGGATAATTTTCGACAATTT
*
1706 GAGGCCTAGCTAGTAGGTGGAAGATTCGACGTATGTGGGGACGAATTGGTGACCGTAAATCAACA
131 GAGGCCTAGCTAGTAGGTGGAAGATTCGACGTATGTGGGGACGAATTGGTGACCGTAAATCAGCA
* *
1771 CATTGACATCCTTTTTCTCATCTTTGAACCCAATATCGTTGGCCGTGAATCAACGTATTGGTCCT
196 CATTGACATCCTTTTTCTCATATTTAAACCCAATATCGTTGGCCGTGAATCAACGTATTGGTCCT
*
1836 TTTATCACTCTTCATCCTCATCATCTTTAAGTCCAGTGTTGCGGGCCTTGAATCTGCATAGTGGC
261 TTTATCACTCTTCATCCTCATCATCTTTAAGTCTAGTGTTGCGGGCCTTGAATCTGCATAGTGGC
* * *
1901 ACATTGCAATGACCATAATCTTCCTAAATCCCTTCCAAACTCTACACCACTCTACACCTATCTAA
326 ACATTGCAATGACCATAATCTTCCAAAATCCATTCCAAACTCTACACCAATCTACACCTATCTAA
* * *
1966 GCAGGTCAAGCCTTAGAAAATTCCAGAACCTAGTAGGGAGGACGAACCCTACAAACTCATTTTTT
391 GGAGGTCAAGCCTTAGAAAATTCCAAAACCTAGTAGGGAGGACAAACCCTACAAACTCATTTTTT
*
2031 TCATCGGAATCGCCGCCAATAGGCTCTTCATCACGGTGAAGCATTAATCACCC
456 TCATCGGAATCGCCGCCAATAGGCTCTTCATCACGGCGAAGCATTAATCACCC
2084 AAAGGTCATAACATGCGGCCGCGGAC-AAATGGTGTCTATTTGTCTTTGGCCAGTTCCTGATACT
1 AAAGGTCATAACATGCGGCCGCGGACAAAATGGTGTCTATTTGTCTTTGGCCAGTTCCTGATACT
* *
2148 TAGAAACGGCCAAAGAGGGGCAGCTGTAGACCCCTCATTTTGTCCGGGATAATTTTCGACAATTT
66 CAGAAACGGCCAAAGAGGGGCAGCTGTAGACACCTCATTTTGTCCGGGATAATTTTCGACAATTT
*
2213 GAGGCCTAGCTAGTAGGTGGAAGATTCGACGTATGTGGGGATGAATTGGTGACCGTAAATCAGCA
131 GAGGCCTAGCTAGTAGGTGGAAGATTCGACGTATGTGGGGACGAATTGGTGACCGTAAATCAGCA
* * *
2278 CATTGACATCGTTTTTCTCATATTTAAACCCAATATCATTGGCCGTGAATCAACATATTGGTCCT
196 CATTGACATCCTTTTTCTCATATTTAAACCCAATATCGTTGGCCGTGAATCAACGTATTGGTCCT
* *
2343 TTTATCACTCTTCATCCTCATCATCTTTAAGTCTAGTGTTGCGGGCCTTGGATCTGTATAGTGGC
261 TTTATCACTCTTCATCCTCATCATCTTTAAGTCTAGTGTTGCGGGCCTTGAATCTGCATAGTGGC
* * * *
2408 ACATTGCAATGACCTTAATCTTCCTAAATCCCTTCCAAACTCTACACCACTCTACACCTATCTAA
326 ACATTGCAATGACCATAATCTTCCAAAATCCATTCCAAACTCTACACCAATCTACACCTATCTAA
* * * *
2473 GCAGGTCAAGCCTTAGAAAATTCCAGAACCTAGTAGGGAGGACGAACCCTACAAACTCATTTTTG
391 GGAGGTCAAGCCTTAGAAAATTCCAAAACCTAGTAGGGAGGACAAACCCTACAAACTCATTTTTT
* * *
2538 TCATCGGAATCGCCGCCAATAGGCTCTTCATCACAGTGAAGCATTAATCACCA
456 TCATCGGAATCGCCGCCAATAGGCTCTTCATCACGGCGAAGCATTAATCACCC
*
2591 AAAGGTCATAACATGCGGCCGCGGAC-AAATGGTGTCTATTTGTCTTTGGCCTGTTCCTGATACT
1 AAAGGTCATAACATGCGGCCGCGGACAAAATGGTGTCTATTTGTCTTTGGCCAGTTCCTGATACT
* * *
2655 CAGAAACGGCCAAAGAGGGGTAGCTGTAGACGCCTCATTTTGTCTGGGATAATTTTCGACAATTT
66 CAGAAACGGCCAAAGAGGGGCAGCTGTAGACACCTCATTTTGTCCGGGATAATTTTCGACAATTT
* * *
2720 GAGGCGTAACTAGTAGGTGGAAGATTCGACGTATGTGGGGATGAATTGGTGACCGTAAATCAGCA
131 GAGGCCTAGCTAGTAGGTGGAAGATTCGACGTATGTGGGGACGAATTGGTGACCGTAAATCAGCA
* * * *
2785 CATTGGCATCGTTTTTCTCATATTTAAACCCAATATCGTTAGCCGTGAATCAACATATTGGTCCT
196 CATTGACATCCTTTTTCTCATATTTAAACCCAATATCGTTGGCCGTGAATCAACGTATTGGTCCT
* *
2850 TTTATCACTCTTCATCCTCATTATCTTTATGTCTAGTGTTGCGGGCCTTGAATCTGCATAGTGGC
261 TTTATCACTCTTCATCCTCATCATCTTTAAGTCTAGTGTTGCGGGCCTTGAATCTGCATAGTGGC
2915 ACATTGCAATGACCATAATCTTCCAAAATCCATTCCAAACTCTACACCAATCTACACCTATCTAA
326 ACATTGCAATGACCATAATCTTCCAAAATCCATTCCAAACTCTACACCAATCTACACCTATCTAA
*
2980 GGAGGTCAAGCCTTAGAAAATTCCAAAACCTAGTAGGGAGGACAAACCCAACAAACTCATTTTTT
391 GGAGGTCAAGCCTTAGAAAATTCCAAAACCTAGTAGGGAGGACAAACCCTACAAACTCATTTTTT
* *
3045 TCATCGGAATCGCCGCCCATAGGCTCTTCATCACGGCGAAGCATTAATCACCA
456 TCATCGGAATCGCCGCCAATAGGCTCTTCATCACGGCGAAGCATTAATCACCC
* * *
3098 AAAGGTCATAACATGCGGCCGCAGACAAAATGGTGTCTATTTATCTTTGG-CATCTTCCTGATAC
1 AAAGGTCATAACATGCGGCCGCGGACAAAATGGTGTCTATTTGTCTTTGGCCA-GTTCCTGATAC
* * ** *
3162 TCCGAAACGGCCAAAGAGGGGCAGCTGTAGACACCTCATTTTGTCTGGGCCACTTTTCGACAATT
65 TCAGAAACGGCCAAAGAGGGGCAGCTGTAGACACCTCATTTTGTCCGGGATAATTTTCGACAATT
3227 TGAGGCCTAGCTAGTAGGTGGAAGATAT-GACGTATGTGGGGACGAATTGGTGACCGTAAATCAG
130 TGAGGCCTAGCTAGTAGGTGGAAGAT-TCGACGTATGTGGGGACGAATTGGTGACCGTAAATCAG
* *
3291 GACGTTGACATCCTTTTTCTCATATTTAAACCCAATATCGTTGGCCGTGAATCAACGTATTGGTC
194 CACATTGACATCCTTTTTCTCATATTTAAACCCAATATCGTTGGCCGTGAATCAACGTATTGGTC
3356 CTTTTATCACTCTTCATCCTCATCATCTTTAAGTCTAGTGTTGCGGGCCTTGAATCTGCATAGTG
259 CTTTTATCACTCTTCATCCTCATCATCTTTAAGTCTAGTGTTGCGGGCCTTGAATCTGCATAGTG
* *
3421 GCACATTGCAATGACCATAATCTTCCAAAATCCCTTCCAAACTCTACACCAAACTACACCTATCT
324 GCACATTGCAATGACCATAATCTTCCAAAATCCATTCCAAACTCTACACCAATCTACACCTATCT
3486 AAGGAGGTCAAGCCTTAGAAAATTCCAAAACCTAGTAGGGAGGACAAACCCTACAAACTCATTTT
389 AAGGAGGTCAAGCCTTAGAAAATTCCAAAACCTAGTAGGGAGGACAAACCCTACAAACTCATTTT
* * *
3551 TTTCATCAGAATCGCCACCAATAGGCTCTTCATCACTGCGAAGCATTAATCACCC
454 TTTCATCGGAATCGCCGCCAATAGGCTCTTCATCACGGCGAAGCATTAATCACCC
* * * **
3606 AAAGGTCATAACATGCGGCCGCAGACAAAATGGTGTCTATTGGTCTTTCGCTTGTTCCTGATACT
1 AAAGGTCATAACATGCGGCCGCGGACAAAATGGTGTCTATTTGTCTTTGGCCAGTTCCTGATACT
* * * * * * ** *
3671 GAGAAACAGCCAAAGAGGGGCAGCTATAAACACCTCATTTTGTTCAGGCCAATTTTCGATAATTT
66 CAGAAACGGCCAAAGAGGGGCAGCTGTAGACACCTCATTTTGTCCGGGATAATTTTCGACAATTT
* * *
3736 GAGGCCTAGCTAGTAGGTGGAAGATTCGACGTATGTGGGGATGAATTAGTGACCATAAATCAGCA
131 GAGGCCTAGCTAGTAGGTGGAAGATTCGACGTATGTGGGGACGAATTGGTGACCGTAAATCAGCA
* * *
3801 CATTGACATCCTTTTTCTCATATTTAAACCCAATATCGTTGGCCATGAATAAATGTATTGGTCCT
196 CATTGACATCCTTTTTCTCATATTTAAACCCAATATCGTTGGCCGTGAATCAACGTATTGGTCCT
* *
3866 TTTATCACTCTTCATCCTCATCATCTTTAAGTCCAATGTTGCGGGCCTTGAATCTGCATAGTGGC
261 TTTATCACTCTTCATCCTCATCATCTTTAAGTCTAGTGTTGCGGGCCTTGAATCTGCATAGTGGC
* *
3931 ACATTGCAATGACCATAATCTTCCAAAATCCATTCCAAACTCTACACCAATCTACACTTATTTAA
326 ACATTGCAATGACCATAATCTTCCAAAATCCATTCCAAACTCTACACCAATCTACACCTATCTAA
3996 GGAGGTCAAGCCTTAGAAAATTCCAAAACCTAGTAGGGAGGACAAACCCTACAAACTCATTTTTT
391 GGAGGTCAAGCCTTAGAAAATTCCAAAACCTAGTAGGGAGGACAAACCCTACAAACTCATTTTTT
4061 TCATCGGAATCGCCGCCAATAGGCTCTTCATCACGGCGAAGCATTAATCACCC
456 TCATCGGAATCGCCGCCAATAGGCTCTTCATCACGGCGAAGCATTAATCACCC
*
4114 AACGGTCATAACATGCGGCCGCGGACAAAATGGTGTCTATTTGTCTTTGGCCAGTTCCTGATACT
1 AAAGGTCATAACATGCGGCCGCGGACAAAATGGTGTCTATTTGTCTTTGGCCAGTTCCTGATACT
* *
4179 CAGAAACGGCCTAAGAGGGGCAGCTATAGACACCTCATTTTGTCCGGGATAATTTTCGACAATTT
66 CAGAAACGGCCAAAGAGGGGCAGCTGTAGACACCTCATTTTGTCCGGGATAATTTTCGACAATTT
*
4244 GAGGCCTAGCTAGTAGGTGGAAGATTCGACGTATGTGGGGATGAATTGGTGACCGTAAATCAGCA
131 GAGGCCTAGCTAGTAGGTGGAAGATTCGACGTATGTGGGGACGAATTGGTGACCGTAAATCAGCA
* * *
4309 CATTAACATCGTTTTTCTCATATTTAAACCCAATATCGTTGGCCGTGAATCAACATATTGGTCCT
196 CATTGACATCCTTTTTCTCATATTTAAACCCAATATCGTTGGCCGTGAATCAACGTATTGGTCCT
4374 TTTATCACTCTTCATCCTCATCATCTTTAAGTCTAGTGTTGCGGGCCTTGAATCTGCATAGTGGC
261 TTTATCACTCTTCATCCTCATCATCTTTAAGTCTAGTGTTGCGGGCCTTGAATCTGCATAGTGGC
4439 ACATTGCAATGACCATAATCTTCCAAAATCCATTCCAAACTCTACACCAATCTACACCTATCTAA
326 ACATTGCAATGACCATAATCTTCCAAAATCCATTCCAAACTCTACACCAATCTACACCTATCTAA
*
4504 GGAGGTCAAGCCTTAGAAAATTCCAAAACCTAGTAGGGAGGACAAACCCAACAAACTCA-TTTTT
391 GGAGGTCAAGCCTTAGAAAATTCCAAAACCTAGTAGGGAGGACAAACCCTACAAACTCATTTTTT
4568 TCATCGGAATCGCCGC
456 TCATCGGAATCGCCGC
4584 TGTAGACACT
Statistics
Matches: 3815, Mismatches: 202, Indels: 16
0.95 0.05 0.00
Matches are distributed among these distances:
507 988 0.26
508 2810 0.74
509 17 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (508 bp):
AAAGGTCATAACATGCGGCCGCGGACAAAATGGTGTCTATTTGTCTTTGGCCAGTTCCTGATACT
CAGAAACGGCCAAAGAGGGGCAGCTGTAGACACCTCATTTTGTCCGGGATAATTTTCGACAATTT
GAGGCCTAGCTAGTAGGTGGAAGATTCGACGTATGTGGGGACGAATTGGTGACCGTAAATCAGCA
CATTGACATCCTTTTTCTCATATTTAAACCCAATATCGTTGGCCGTGAATCAACGTATTGGTCCT
TTTATCACTCTTCATCCTCATCATCTTTAAGTCTAGTGTTGCGGGCCTTGAATCTGCATAGTGGC
ACATTGCAATGACCATAATCTTCCAAAATCCATTCCAAACTCTACACCAATCTACACCTATCTAA
GGAGGTCAAGCCTTAGAAAATTCCAAAACCTAGTAGGGAGGACAAACCCTACAAACTCATTTTTT
TCATCGGAATCGCCGCCAATAGGCTCTTCATCACGGCGAAGCATTAATCACCC
Found at i:5769 original size:31 final size:30
Alignment explanation
Indices: 5686--5742 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
5676 AAATACCTTT
5686 TCAAAGTCCACGACTCAGTGGCATTTTGTC
1 TCAAAGTCCACGACTCAGTGGCATTTTGTC
5716 TCAAAGTCCACGACTCAGTGGCATTTT
1 TCAAAGTCCACGACTCAGTGGCATTTT
5743 TTCTTTTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (30 bp):
TCAAAGTCCACGACTCAGTGGCATTTTGTC
Found at i:5857 original size:63 final size:61
Alignment explanation
Indices: 5718--6490 Score: 337
Period size: 70 Copynumber: 12.0 Consensus size: 61
5708 ATTTTGTCTC
* * * *
5718 AAAGTCCACGACTCAGTGGCA-TTTTTTCTTTTAAGTCCACAACGT-CGTGGCAC-CCTTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAGTCCACAAC-TCCGTGGCACTCTTTTT
* *
5777 AAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACGACTCCGTGGCACTCTTTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTTC-T-TTTAAGTCCACAACTCCGTGGCACTCTTTTT
* * * *
5840 AAAGCCCACAACACCGTGGCACCTTCTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 AAAGCCCACAACTCCGTGGCACTTTTTTC-TTTT-AAGTCCACAACTCCGTGGCACTC----T--
5905 CTTTT
58 -TTTT
* * * * * *
5910 CAAAGCCCACGACTCCGTAGCAC--TCTT-TTTAAAGCCCACAACTCCGTGGCACTTTTTTCTTT
1 -AAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAGTCCACAACTCCGTGGCAC---TCT-TTT
5972 T
61 T
* * *
5973 AAAGCCCACAACTCTGTGGCACTCTTTTTTCCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
1 AAAGCCCACAACTCCGTGGCA--CTTTTTT-C-TTTT-AAGTCCACAACTCCGTGGCA-C--TCT
6038 CTTTT
58 -TTTT
* * *
6043 AAAGCCCACAACTCTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 AAAGCCCACAACTCCGTGGCA--CTTTTTT-CTTTT--AAGTCCACAACTCCGTGGCA-C--TCT
6108 CTTTT
58 -TTTT
* * **** ** ** ** *
6113 AAAGCCCACAACTCTGTGGCACCTACAAC-TTT--GT-GGC-ACTCTTTTTC-C-CTTTTC
1 AAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAGTCCACAACTCCGTGGCACTCTTTTT
* * *
6167 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTT
1 AAAGCCCACAACTCCGTGGCACTTTTTTCTTTT--AAGTCCACAACTCCGTGGCA-C-TC-T-TT
6232 TT
60 TT
* ** * *
6234 AAAGCCCATAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 AAAGCCCACAACTCCGTGGCA--CTTTTTT-CTTTT--AAGTCCACAACTCCGTGGCA-C--TCT
6299 CTTTT
58 -TTTT
* * **** ** **
6304 AAAGCCCACAACTCTGTGGCACCTACAAC-TTT--GT-GGC-ACTCTC-TTTC-C-CTTTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAGTCCACAACTC-CGTGGCACTCTTTTT
* *
6358 AAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 AAAGCCCACAACTCCGTGGCACTTTTTTCT-TTT-AAGTCCACAACTCCGTGGCACTC----T--
6423 CTTTT
58 -TTTT
*
6428 CAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 -AAAGCCCACAACTCCGTGGCACTTTTTTCTTTT-AAGTCCACAACTCCGTGGCACTCTTTTT
6491 CATCTTTAAG
Statistics
Matches: 572, Mismatches: 79, Indels: 122
0.74 0.10 0.16
Matches are distributed among these distances:
54 56 0.10
55 5 0.01
56 3 0.01
58 2 0.00
59 19 0.03
60 22 0.04
61 17 0.03
62 45 0.08
63 63 0.11
64 1 0.00
65 2 0.00
66 32 0.06
67 28 0.05
68 4 0.01
69 17 0.03
70 205 0.36
71 51 0.09
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.34
Consensus pattern (61 bp):
AAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAGTCCACAACTCCGTGGCACTCTTTTT
Found at i:6037 original size:70 final size:69
Alignment explanation
Indices: 5772--6327 Score: 506
Period size: 70 Copynumber: 7.9 Consensus size: 69
5762 TCGTGGCACC
* * * * *
5772 CTTTTAAAGCCCACAATTCCGTGGCACT-TTTTTCATCTTT-AAGTCCACGACTCCGTGGCA-C-
1 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTTAAAGCCCACAACTCCGTGGCACCT
*
5833 -TCT
66 TTTT
* *
5836 -TTTTAAAGCCCACAACACCGTGGCAC-CTTCTT-CTTTTTAAAGCCCACAACTCCGTGGCACTC
1 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTTAAAGCCCACAACTCCGTGGCAC-C
5898 TTTTT
65 TTTTT
* *
5903 CCCTTTTCAAAGCCCACGACTCCGTAGCA--C----T-CTTTTTAAAGCCCACAACTCCGTGGCA
1 --CTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTTAAAGCCCACAACTCCGTGGCA
*
5961 CTTTTTT
63 CCTTTTT
*
5968 CTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTTCCTTTTTAAAGCCCACAACTCCGTGGCACC
1 CTTTTAAAGCCCACAACTCCGTGGCACTC-TTTTTCCTTTTTAAAGCCCACAACTCCGTGGCACC
6033 TTTTT
65 TTTTT
* *
6038 CTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACC
1 CTTTTAAAGCCCACAACTCCGTGGCACTC-TTTTTCCTTTTTAAAGCCCACAACTCCGTGGCACC
6103 TTTTT
65 TTTTT
* *
6108 CTTTTAAAGCCCACAACTCTGTGGCACCTACAACTTTGTGGCACTCTTTTTCCCTTTTCAAAGCC
1 CTTTTAAAGCCCACAACTCCGTGGCA-CT----CTTT-T-----TC-CTT-----TTT-AAAGCC
*
6173 CACAACTCCGTGGCACCTTCTT
48 CACAACTCCGTGGCACCTTTTT
* * **
6195 CTTTTCAAAGCCCACAACTCCGTGGCAC-CTTCTT-C-TTTTAAAGCCCATAACTTTGTGGCACT
1 CTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTTAAAGCCCACAACTCCGTGGCAC-
6257 CTTTTTT
64 C-TTTTT
*
6264 CCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTTT-C-TTTTAAAGCCCACAACTCTGTGGCAC
1 -CTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTTAAAGCCCACAACTCCGTGGCAC
6326 CT
64 CT
6328 ACAACTTTGT
Statistics
Matches: 422, Mismatches: 30, Indels: 76
0.80 0.06 0.14
Matches are distributed among these distances:
62 22 0.05
63 51 0.12
64 1 0.00
65 6 0.01
66 29 0.07
67 21 0.05
68 5 0.01
69 6 0.01
70 191 0.45
71 20 0.05
73 1 0.00
74 3 0.01
75 2 0.00
76 1 0.00
80 2 0.00
81 3 0.01
82 3 0.01
86 2 0.00
87 33 0.08
88 20 0.05
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.34
Consensus pattern (69 bp):
CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTTAAAGCCCACAACTCCGTGGCACCT
TTTT
Found at i:6197 original size:87 final size:87
Alignment explanation
Indices: 6050--6413 Score: 449
Period size: 87 Copynumber: 4.0 Consensus size: 87
6040 TTTAAAGCCC
* *
6050 ACAACTCTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAA
1 ACAACTTTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAA
*
6115 AGCCCACAACTCTGTGGCACCT
66 AGCCCACAACTCCGTGGCACCT
*
6137 ACAACTTTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCA
1 ACAACTTTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTT-A
6202 AAGCCCACAACTCCGTGGCACCT
65 AAGCCCACAACTCCGTGGCACCT
* ** ** *
6225 TCTTCTTTTAAAGCCCATAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGG
1 ACAAC-TTT---G--------TGG----CACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGG
*
6290 CACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACCT
50 CACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCT
* *
6328 ACAACTTTGTGGCACTCTCTTTCCCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTA
1 ACAACTTTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTA
6393 AAGCCCACAACTCCGTGGCAC
65 AAGCCCACAACTCCGTGGCAC
6414 TCTTTTTCCC
Statistics
Matches: 238, Mismatches: 21, Indels: 35
0.81 0.07 0.12
Matches are distributed among these distances:
87 105 0.44
88 49 0.21
89 3 0.01
91 1 0.00
92 1 0.00
99 1 0.00
100 1 0.00
102 3 0.01
103 25 0.11
104 49 0.21
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.33
Consensus pattern (87 bp):
ACAACTTTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAA
AGCCCACAACTCCGTGGCACCT
Found at i:6204 original size:34 final size:34
Alignment explanation
Indices: 6161--6327 Score: 239
Period size: 34 Copynumber: 4.9 Consensus size: 34
6151 CTCTTTTTCC
6161 CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTT
1 CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTT
6195 CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTT
1 CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTT
* ** *
6229 CTTTT-AAAGCCCATAACTTTGTGGCACTCTTTTTT
1 CTTTTCAAAGCCCACAACTCCGTGGCAC-C-TTCTT
*
6264 CCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 -CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTT
*
6299 CTTTT-AAAGCCCACAACTCTGTGGCACCT
1 CTTTTCAAAGCCCACAACTCCGTGGCACCT
6328 ACAACTTTGT
Statistics
Matches: 121, Mismatches: 8, Indels: 9
0.88 0.06 0.07
Matches are distributed among these distances:
33 42 0.35
34 45 0.37
35 9 0.07
36 6 0.05
37 19 0.16
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (34 bp):
CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTT
Found at i:6221 original size:191 final size:189
Alignment explanation
Indices: 5955--6517 Score: 854
Period size: 191 Copynumber: 2.9 Consensus size: 189
5945 CCACAACTCC
*
5955 GTGGCACT-TTTTT--CTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTTCCTTTTTAAAGCCC
1 GTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCAC-C-TTTTT-C-TTTTAAAGCCC
6017 ACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTTCCTTTTCAA
62 ACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTTCCTTTTCAA
6082 AGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACCTACAACTTT
127 AGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACCTACAACTTT
*
6145 GTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCAC
1 GTGGCACTCTTTTTCCCTTTT-AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT-AAAGCCCAC
* * *
6210 AACTCCGTGGCACCTTCTTCTTTTAAAGCCCATAACTTTGTGGCACTCTTTTTTCCTTTTCAAAG
64 AACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTTCCTTTTCAAAG
6275 CCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACCTACAACTTT
129 CCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACCTACAACTTT
*
6336 GTGGCACTCTCTTTCCCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCAC
1 GTGGCACTCTTTTTCCC-TTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCAC
*
6401 AACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCA--CTTTTTT-CTTTT-
64 AACTCCGTGGCAC-CTTTTT--CTTTT-AAAGCCCACAACTCTGTGGCACTCTTTTTTCCTTTTC
* *
6462 AAAGCCCACAACTCCGTGGCACTCTTTTTCATCTTT-AAGTCCACAACTCCGTGGCA
125 AAAGCCCACAACTCCGTGGCAC-CTTTTTC-T-TTTAAAGCCCACAACTCTGTGGCA
6518 TCTTTCTCCC
Statistics
Matches: 346, Mismatches: 13, Indels: 25
0.90 0.03 0.07
Matches are distributed among these distances:
190 12 0.03
191 227 0.66
192 28 0.08
193 32 0.09
194 29 0.08
195 18 0.05
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (189 bp):
GTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAA
CTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTTCCTTTTCAAAGCC
CACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACCTACAACTTT
Found at i:6222 original size:261 final size:251
Alignment explanation
Indices: 5834--6542 Score: 861
Period size: 261 Copynumber: 2.8 Consensus size: 251
5824 CCGTGGCACT
* * * *
5834 CTTTTTAAAGCCCACAACACCGTGGCACCTTCTTCTTTTTAAAGCCCACAACTCCGTGGCACTCT
1 CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCT
* *
5899 TTTTCCCTTTTCAAAGCCCACGACTCCGTAGCA-C-TC-T-TTTTAAAGCCCACAACTCCGTGGC
66 TTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCGTGGC
5960 ACTTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTTCCTTTTTAAAGCCCACAACTCC
131 ACTTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTTCCTTTTTAAAGCCCACAACTCC
6025 GTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCA-CT-C-T-T-T-TTT-C
196 GTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACCTACTTCTCTCTTTCC
6074 CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCTGTGGCACCTA
1 CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCAC-A---------A-CT-
6138 CAACTTTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAA
54 C--C---GTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT-AA
* * * *
6203 AGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCATAACTTTGTGGCACTCTTTTTTCCTT
113 AGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTTCCTT
*
6268 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACCTACAAC
178 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACCT---AC
6333 TTTGTGGCACTCTCTTTCC
240 --T-T----CTCTCTTTCC
*
6352 CTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCT
1 CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCT
* *
6417 TTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGC
66 TTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCGTGGC
* * * * * *
6482 ACTCTTTTTCATCTTT-AAGTCCACAACTCCGTGGCA-TCTTTCTCCCTTTCTAACGCCCACA
131 ACT-TTTTTC-T-TTTAAAGCCCACAACTCTGTGGCACTCTTTTTTCCTTTTTAAAGCCCACA
6543 CAAGTCAGTG
Statistics
Matches: 402, Mismatches: 24, Indels: 64
0.82 0.05 0.13
Matches are distributed among these distances:
239 12 0.03
240 34 0.08
249 1 0.00
250 2 0.00
251 1 0.00
253 1 0.00
256 41 0.10
257 1 0.00
258 2 0.00
259 1 0.00
260 4 0.01
261 141 0.35
262 80 0.20
263 17 0.04
264 3 0.01
265 1 0.00
266 1 0.00
267 1 0.00
268 2 0.00
269 1 0.00
270 1 0.00
275 1 0.00
276 1 0.00
277 3 0.01
278 37 0.09
279 12 0.03
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.34
Consensus pattern (251 bp):
CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCT
TTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCGTGGC
ACTTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTTCCTTTTTAAAGCCCACAACTCC
GTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACCTACTTCTCTCTTTCC
Found at i:6252 original size:121 final size:120
Alignment explanation
Indices: 6025--6483 Score: 415
Period size: 121 Copynumber: 3.9 Consensus size: 120
6015 CCACAACTCC
* *
6025 GTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACA
1 GTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTCTTCCTTTTCAAAGCCCACA
*
6090 ACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACCTACAACTTT
66 ACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCTGTGGCACCTACAACTTT
6145 GTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCAC-C-TTCTT-CTTTTCAAAGCC
1 GTGGCAC-CTTTTT--CTTTT-AAAGCCCACAACTCCGTGGCACTCTTTCTTCCTTTTCAAAGCC
* *
6207 CACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCATAACTTTGTGGCA-CT----CTTT
62 CACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCTGTGGCACCTACAACTTT
**
6261 -T--TTCC-TTTTC----AAAGCCCACAACTCCGTGGCAC-CTTT-TT-CTTTT-AAAGCCCACA
1 GTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTCTTCCTTTTCAAAGCCCACA
* * ** * * ** * * *** * **
6314 ACTCTGTGGCACCTACAACTTTGT--GGCACTCTCTTTCCCTTTTTAAAGCCCACAACTCC
66 ACTCCGTGGCACCTTCTTCTTT-TAAAGC-C-CAC-AACTC-TGTGGCA-CCTACAACTTT
6373 GTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTT-TTCCCTTTTCAAAGCCCA
1 GTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTCTT-CCTTTTCAAAGCCCA
* * *
6437 CAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCAC
64 CAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCTGTGGCAC
6484 TCTTTTTCAT
Statistics
Matches: 265, Mismatches: 43, Indels: 61
0.72 0.12 0.17
Matches are distributed among these distances:
102 2 0.01
103 29 0.11
104 32 0.12
105 3 0.01
106 3 0.01
108 1 0.00
109 1 0.00
111 4 0.02
112 3 0.01
113 2 0.01
115 3 0.01
116 9 0.03
120 9 0.03
121 86 0.32
122 12 0.05
123 8 0.03
124 29 0.11
125 27 0.10
126 2 0.01
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (120 bp):
GTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTCTTCCTTTTCAAAGCCCACA
ACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCTGTGGCACCTACAACTTT
Found at i:6398 original size:34 final size:33
Alignment explanation
Indices: 6354--6522 Score: 232
Period size: 34 Copynumber: 4.9 Consensus size: 33
6344 CTCTTTCCCT
6354 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
1 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
6387 TGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 T-TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--C
*
6424 TTTTCAAAGCCCACAACTCCGTGGCACTTTTTTC
1 TTTT-AAAGCCCACAACTCCGTGGCACCTTTTTC
6458 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 TTTTAAAGCCCACAACTCCGTGGCAC-CTTTTTC
* *
6492 ATCTTT-AAGTCCACAACTCCGTGGCATCTTT
1 -T-TTTAAAGCCCACAACTCCGTGGCACCTTT
6523 CTCCCTTTCT
Statistics
Matches: 124, Mismatches: 4, Indels: 15
0.87 0.03 0.10
Matches are distributed among these distances:
33 23 0.19
34 40 0.32
35 26 0.21
36 11 0.09
37 24 0.19
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.34
Consensus pattern (33 bp):
TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
Found at i:6411 original size:158 final size:157
Alignment explanation
Indices: 6195--6483 Score: 497
Period size: 158 Copynumber: 1.8 Consensus size: 157
6185 GCACCTTCTT
* **
6195 CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCATAACTTTGTGGCACTCTT
1 CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCGTGGCACTCTT
* *
6260 TTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCA
66 TTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCA
6325 CCTACAACTTTGTGGCACTCTCTTTCC
131 CCTACAACTTTGTGGCACTCTCTTTCC
* *
6352 CTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCT
1 CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCT-TTTAAAGCCCACAACTCCGTGGCACTCT
*
6417 TTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGC
65 TTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGC
6482 AC
130 AC
6484 TCTTTTTCAT
Statistics
Matches: 123, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
157 34 0.28
158 89 0.72
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (157 bp):
CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCGTGGCACTCTT
TTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCA
CCTACAACTTTGTGGCACTCTCTTTCC
Found at i:6491 original size:70 final size:70
Alignment explanation
Indices: 6336--6522 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 70
6326 CTACAACTTT
* *
6336 GTGGCACTCTCTTTCCCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCAC
1 GTGGCACTCTTTTTCCC-TTTTAAAGCCCACAACTCCGTGGCACTTTTTTCTGTTTAAAGCCCAC
6401 AACTCC
65 AACTCC
6407 GTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCT-TTTAAAGCCCAC
1 GTGGCACTCTTTTTCCCTTTT-AAAGCCCACAACTCCGTGGCACTTTTTTCTGTTTAAAGCCCAC
6471 AACTCC
65 AACTCC
* *
6477 GTGGCACTCTTTTT-CATCTTT-AAGTCCACAACTCCGTGGCATCTTT
1 GTGGCACTCTTTTTCCCT-TTTAAAGCCCACAACTCCGTGGCA-CTTT
6523 CTCCCTTTCT
Statistics
Matches: 109, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
68 19 0.17
69 6 0.06
70 39 0.36
71 45 0.41
ACGTcount: A:0.19, C:0.33, G:0.13, T:0.35
Consensus pattern (70 bp):
GTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACTTTTTTCTGTTTAAAGCCCACA
ACTCC
Found at i:6569 original size:104 final size:103
Alignment explanation
Indices: 6357--6575 Score: 250
Period size: 104 Copynumber: 2.1 Consensus size: 103
6347 TTTCCCTTTT
* *
6357 TAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 TAAAGCCCACAACTCCGTGGCACCTTTTTCTCTTTAAAGCCCACAACTCCGTGGCACTCTTTCTC
* *** *
6422 CCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTT
66 CCTTTTCAAAGCCCACAACTCAGTGGCAC-TCACTCTTC
*
6461 TAAAGCCCACAACTCCGTGGCACTCTTTTTCATCTTT-AAGTCCACAACTCCGTGGCA-TCTTTC
1 TAAAGCCCACAACTCCGTGGCAC-CTTTTTC-TCTTTAAAGCCCACAACTCCGTGGCACTCTTTC
* *
6524 TCCC-TTTCTAACGCCCACACAAGTCAGTGGCAAC-CACTC-TC
64 TCCCTTTTC-AAAG-CC-CACAACTCAGTGGC-ACTCACTCTTC
6565 TAAAGCCCACA
1 TAAAGCCCACA
6576 CAAGTCGGTG
Statistics
Matches: 99, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
103 4 0.04
104 47 0.47
105 30 0.30
106 16 0.16
107 2 0.02
ACGTcount: A:0.23, C:0.35, G:0.12, T:0.30
Consensus pattern (103 bp):
TAAAGCCCACAACTCCGTGGCACCTTTTTCTCTTTAAAGCCCACAACTCCGTGGCACTCTTTCTC
CCTTTTCAAAGCCCACAACTCAGTGGCACTCACTCTTC
Found at i:6653 original size:49 final size:49
Alignment explanation
Indices: 6596--7218 Score: 815
Period size: 49 Copynumber: 12.9 Consensus size: 49
6586 GCGACCCTTC
* *
6596 TAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* * * * *
6645 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
*
6694 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* * * * *
6743 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* *
6792 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* * *
6841 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
*
6890 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTATTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTA-TCTT
* * *
6939 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
*
6987 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* *
7030 TAAGTCCAATATAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* *
7079 TAAGTCCAATGTAGTTGGCCTTGAATCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* *
7122 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC-CTTT--ATCTT
* * *
7174 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
7219 TTCTCATCAT
Statistics
Matches: 504, Mismatches: 53, Indels: 31
0.86 0.09 0.05
Matches are distributed among these distances:
43 79 0.16
44 1 0.00
47 1 0.00
48 45 0.09
49 336 0.67
52 41 0.08
53 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
Found at i:6765 original size:98 final size:98
Alignment explanation
Indices: 6591--7218 Score: 906
Period size: 98 Copynumber: 6.5 Consensus size: 98
6581 CGGTGGCGAC
*
6591 CCTTCTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
6656 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
65 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
*
6690 CCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
6755 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
* *
6788 CCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
6853 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
*
6886 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTATTCTTTAAGTCCAATG
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTA-TCTTTAAGTCCAATG
*
6950 TAGCTGGCCTTGAATCAGCACATTGGCACC-TCA
65 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
* * *
6983 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTTTAAGTCCAATAT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
7042 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
* * * * *
7075 TCTTTAAGTCCAATGTAGTTGGCCTTGAATCAGCACATTGGCA-C-----CTTTAAGTCCAATAT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
* * *
7134 AGCTGGCCTTGAATCAGCATATTGGCACATTTTCCA
66 AGCTGGCCTTGACTCAGCACATTGGCAC--CTT-CA
* * * * *
7170 TCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CCTTT
7219 TTCTCATCAT
Statistics
Matches: 499, Mismatches: 20, Indels: 19
0.93 0.04 0.04
Matches are distributed among these distances:
91 42 0.08
92 86 0.17
94 2 0.00
95 42 0.08
96 1 0.00
97 46 0.09
98 277 0.56
99 3 0.01
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (98 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
Found at i:7045 original size:43 final size:43
Alignment explanation
Indices: 6887--7161 Score: 334
Period size: 43 Copynumber: 6.0 Consensus size: 43
6877 GCACCTTCAT
*
6887 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C
*
6931 TTATTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCAC
1 -----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG-----CAC
*
6984 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
7027 CTTTAAGTCCAATATAGCTGGCCTTGACTCAGCACATTGGCACCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
* *
7074 ATCTTTAAGTCCAATGTAGTTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
7119 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
7162 ATTTTCCATC
Statistics
Matches: 205, Mismatches: 10, Indels: 28
0.84 0.04 0.12
Matches are distributed among these distances:
43 83 0.40
45 1 0.00
47 1 0.00
48 40 0.20
49 77 0.38
53 1 0.00
54 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:7330 original size:67 final size:68
Alignment explanation
Indices: 7222--7348 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 68
7212 ATCCTTTTTC
* * *
7222 TCATCATTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCATTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
7286 TCT
66 TCT
* * * * *
7289 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCATTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
7349 AAAACCCAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
67 47 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (68 bp):
TCATCATTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:8167 original size:33 final size:33
Alignment explanation
Indices: 8130--8196 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
8120 TTCAACGATT
8130 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
8163 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
8196 T
1 T
8197 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:8168 original size:13 final size:13
Alignment explanation
Indices: 8150--8174 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8140 CATAAAATGT
8150 TGTATCGATACAA
1 TGTATCGATACAA
8163 TGTATCGATACA
1 TGTATCGATACA
8175 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:8255 original size:13 final size:13
Alignment explanation
Indices: 8237--8261 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8227 ATTACTCAAA
8237 TGTATCGATACAT
1 TGTATCGATACAT
8250 TGTATCGATACA
1 TGTATCGATACA
8262 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:8363 original size:52 final size:52
Alignment explanation
Indices: 8270--8399 Score: 192
Period size: 52 Copynumber: 2.5 Consensus size: 52
8260 CACTGATCTT
* *
8270 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATT-AAA
*
8321 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATTGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
* *
8373 TGTATCGATACATGCAAGCAACTTTTC
1 TGTATCGATACATGCAGGCAAATTTTC
8400 ATATTTCGGG
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
51 19 0.26
52 50 0.69
53 3 0.04
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.32
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
Found at i:9378 original size:17 final size:17
Alignment explanation
Indices: 9356--9388 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
9346 TACCTTGAAG
9356 CAAATTTTCAAACCCCC
1 CAAATTTTCAAACCCCC
9373 CAAATTTTCAAACCCC
1 CAAATTTTCAAACCCC
9389 TCAATCAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.39, G:0.00, T:0.24
Consensus pattern (17 bp):
CAAATTTTCAAACCCCC
Found at i:12374 original size:13 final size:13
Alignment explanation
Indices: 12356--12381 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12346 CAGTTTTTTG
12356 TGTATCGATACAT
1 TGTATCGATACAT
12369 TGTATCGATACAT
1 TGTATCGATACAT
12382 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:14915 original size:13 final size:13
Alignment explanation
Indices: 14897--14935 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
14887 ATAATCACCC
*
14897 TGTATCGATACAG
1 TGTATCGATACAA
14910 TGTATCGATACAA
1 TGTATCGATACAA
14923 TGTATCGATACAA
1 TGTATCGATACAA
14936 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:14946 original size:20 final size:20
Alignment explanation
Indices: 14921--14999 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
14911 GTATCGATAC
14921 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
14941 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
14966 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
14986 CATGTATCGATACA
1 AATGTATCGATACA
15000 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:18877 original size:21 final size:21
Alignment explanation
Indices: 18848--18892 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
18838 AAGTTTTCAT
*
18848 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
18868 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
18890 TTT
1 TTT
18893 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:21118 original size:13 final size:13
Alignment explanation
Indices: 21100--21125 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21090 CAATTTTTTG
21100 TGTATCGATACAT
1 TGTATCGATACAT
21113 TGTATCGATACAT
1 TGTATCGATACAT
21126 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:23659 original size:13 final size:13
Alignment explanation
Indices: 23641--23679 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
23631 ATAATCACCC
*
23641 TGTATCGATACAG
1 TGTATCGATACAA
23654 TGTATCGATACAA
1 TGTATCGATACAA
23667 TGTATCGATACAA
1 TGTATCGATACAA
23680 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:23690 original size:20 final size:20
Alignment explanation
Indices: 23665--23743 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
23655 GTATCGATAC
23665 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
23685 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
23710 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
23730 CATGTATCGATACA
1 AATGTATCGATACA
23744 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:27621 original size:21 final size:21
Alignment explanation
Indices: 27592--27636 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
27582 AAGTTTTCAT
*
27592 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
27612 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
27634 TTT
1 TTT
27637 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:29870 original size:13 final size:13
Alignment explanation
Indices: 29852--29877 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29842 CAATTTTTTG
29852 TGTATCGATACAT
1 TGTATCGATACAT
29865 TGTATCGATACAT
1 TGTATCGATACAT
29878 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:33229 original size:13 final size:13
Alignment explanation
Indices: 33213--33252 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
33203 CATTTTTTCT
33213 TTGTATCGATACA
1 TTGTATCGATACA
33226 TTGTTATCGATACA
1 TTG-TATCGATACA
*
33240 CTGTATCGATACA
1 TTGTATCGATACA
33253 GGGTGAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:35797 original size:32 final size:33
Alignment explanation
Indices: 35741--35804 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
35731 TAGCCAAACT
**
35741 TGTATCGATACAGCAAAGTATGTATCG-TACAA
1 TGTATCGATACAGCAAAAAATGTATCGATACAA
35773 TGTATCGATACA-CAAAAAATTGTATCGATACA
1 TGTATCGATACAGCAAAAAA-TGTATCGATACA
35805 TGGCTTGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 5 0.18
32 19 0.68
33 4 0.14
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.28
Consensus pattern (33 bp):
TGTATCGATACAGCAAAAAATGTATCGATACAA
Found at i:41904 original size:20 final size:20
Alignment explanation
Indices: 41878--41953 Score: 66
Period size: 20 Copynumber: 3.7 Consensus size: 20
41868 AATGTCCAAA
41878 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATGTTTCT
* *
41898 GTGTATCGAT-CATCTGAAATTCT
1 ATGTATCGATACA--TG--TTTCT
*
41921 ATGT-TCCATACATGTTTCT
1 ATGTATCGATACATGTTTCT
*
41940 TTGTATCGATACAT
1 ATGTATCGATACAT
41954 TGTATCGATA
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
19 9 0.21
20 17 0.40
21 4 0.09
22 4 0.09
23 9 0.21
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATGTTTCT
Found at i:41958 original size:13 final size:13
Alignment explanation
Indices: 41940--41978 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
41930 ACATGTTTCT
41940 TTGTATCGATACA
1 TTGTATCGATACA
41953 TTGTATCGATACA
1 TTGTATCGATACA
*
41966 CTGTATCGATACA
1 TTGTATCGATACA
41979 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Done.