Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 6 of 182
Found at i:1736438 original size:16 final size:18
Alignment explanation
Indices: 1736400--1736453 Score: 67
Period size: 18 Copynumber: 3.0 Consensus size: 18
1736390 TCAAAATTTT
*
1736400 AATTAAATAAAGATTCAATA
1 AATTAAATAAA-ATT-AAAA
1736420 AATT-AA-AAAATTAAAA
1 AATTAAATAAAATTAAAA
1736436 AATTAAATAAAATTAAAA
1 AATTAAATAAAATTAAAA
1736454 TTTAGGAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
16 7 0.23
17 5 0.16
18 13 0.42
19 2 0.06
20 4 0.13
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (18 bp):
AATTAAATAAAATTAAAA
Found at i:1753653 original size:181 final size:181
Alignment explanation
Indices: 1753346--1754467 Score: 1795
Period size: 181 Copynumber: 6.3 Consensus size: 181
1753336 CAGACCAAAG
* * * * *
1753346 CATAGCAAATCTAACCTTCAGATGTTTATATTGAAGCAAATCCAAGAT-----GATTTGGCATTC
1 CATAGCAGATCTAACCTTCAGATGATTATACTGAAGCAGATCCAAGATAACAAGATTTAGC-TTC
* * * * * * * * *
1753406 T-TGTGTT-TACAAGGAACAAATCGAAGACATAACAGATTTGACTTTCAGATGTTCTCACATCAA
65 TCTATCTTCGACGAGGAGCAAATCGAAGACATAGCAGATTTCACTTTCGGATGTTCTCACACCAA
1753469 AGCAGATCCAAGATAACAGATCTGGCATCCCCATTTCGACGGAGAGCAGACA
130 AGCAGATCCAAGATAACAGATCTGGCATCCCCATTTCGACGGAGAGCAGACA
1753521 CATAGCAGATCTAACCTTCAGATGATTATACTGAAGCAGATCCAAGATAACAAGATTTAGCTTCT
1 CATAGCAGATCTAACCTTCAGATGATTATACTGAAGCAGATCCAAGATAACAAGATTTAGCTTCT
1753586 CTATCTTCGACGAGGAGCAAATCGAAGACATAGCAGATTTCACTTTCGGATGTTCTCACACCAAA
66 CTATCTTCGACGAGGAGCAAATCGAAGACATAGCAGATTTCACTTTCGGATGTTCTCACACCAAA
* * *
1753651 GCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAAAGCAGATA
131 GCAGATCCAAGATAACAGATCTGGCATCCCCATTTCGACGGAGAGCAGACA
* *
1753702 CATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGAT-----GATTTGGCATTC
1 CATAGCAGATCTAACCTTCAGATGATTATACTGAAGCAGATCCAAGATAACAAGATTTAGC-TTC
* * * * * * * * *
1753762 T-TGTGTT-TACAAGGAACAAATCGAAGACATAACAGATTTGACTTTCAGATGTTCTCACATCAA
65 TCTATCTTCGACGAGGAGCAAATCGAAGACATAGCAGATTTCACTTTCGGATGTTCTCACACCAA
1753825 AGCAGATCCAAGATAACAGATCTGGCATCCCCATTTCGACGGAGAGCAGACA
130 AGCAGATCCAAGATAACAGATCTGGCATCCCCATTTCGACGGAGAGCAGACA
1753877 CATAGCAGATCTAACCTTCAGATGATTATACTGAAGCAGATCCAAGATAACAAGATTTAGCTTCT
1 CATAGCAGATCTAACCTTCAGATGATTATACTGAAGCAGATCCAAGATAACAAGATTTAGCTTCT
1753942 CTATCTTCGACGAGGAGCAAATCGAAGACATAGCAGATTTCACTTTCGGATGTTCTCACACCAAA
66 CTATCTTCGACGAGGAGCAAATCGAAGACATAGCAGATTTCACTTTCGGATGTTCTCACACCAAA
1754007 GCAGATCCAAGATAACAGATCTGGCATCCCCATTTCGACGGAGAGCAGACA
131 GCAGATCCAAGATAACAGATCTGGCATCCCCATTTCGACGGAGAGCAGACA
1754058 CATAGCAGATCTAACCTTCAGATGATTATACTGAAGCAGATCCAAGATAACAAGATTTAGCTTCT
1 CATAGCAGATCTAACCTTCAGATGATTATACTGAAGCAGATCCAAGATAACAAGATTTAGCTTCT
1754123 CTATCTTCGACGAGGAGCAAATCGAAGACATAGCAGATTTCACTTTCGGATGTTCTCACACCAAA
66 CTATCTTCGACGAGGAGCAAATCGAAGACATAGCAGATTTCACTTTCGGATGTTCTCACACCAAA
1754188 GCAGATCCAAGATAACAGATCTGGCATCCCCATTTCGACGGAGAGCAGACA
131 GCAGATCCAAGATAACAGATCTGGCATCCCCATTTCGACGGAGAGCAGACA
1754239 CATAGCAGATCTAACCTTCAGATGATTATACTGAAGCAGATCCAAGATAACAAGATTTAGCTTCT
1 CATAGCAGATCTAACCTTCAGATGATTATACTGAAGCAGATCCAAGATAACAAGATTTAGCTTCT
1754304 CTATCTTCGACGAGGAGCAAATCGAAGACATAGCAGATTTCACTTTCGGATGTTCTCACACCAAA
66 CTATCTTCGACGAGGAGCAAATCGAAGACATAGCAGATTTCACTTTCGGATGTTCTCACACCAAA
* *
1754369 GCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGATA
131 GCAGATCCAAGATAACAGATCTGGCATCCCCATTTCGACGGAGAGCAGACA
* * * * * * *
1754420 CATAGAAAATTTAACCTTCAGATGATTTTACTAAAACAGATCTAAGAT
1 CATAGCAGATCTAACCTTCAGATGATTATACTGAAGCAGATCCAAGAT
1754468 GATTTGGCAT
Statistics
Matches: 881, Mismatches: 51, Indels: 24
0.92 0.05 0.03
Matches are distributed among these distances:
175 189 0.21
176 11 0.01
177 4 0.00
179 8 0.01
180 22 0.02
181 647 0.73
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (181 bp):
CATAGCAGATCTAACCTTCAGATGATTATACTGAAGCAGATCCAAGATAACAAGATTTAGCTTCT
CTATCTTCGACGAGGAGCAAATCGAAGACATAGCAGATTTCACTTTCGGATGTTCTCACACCAAA
GCAGATCCAAGATAACAGATCTGGCATCCCCATTTCGACGGAGAGCAGACA
Found at i:1753999 original size:356 final size:356
Alignment explanation
Indices: 1753346--1754526 Score: 2006
Period size: 356 Copynumber: 3.3 Consensus size: 356
1753336 CAGACCAAAG
* *
1753346 CATAGCAAATCTAACCTTCAGATGTTTATATTGAAGCAAATCCAAGATGATTTGGCATTCTTGTG
1 CATAGCAAATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTG
1753411 TTTACAAGGAACAAATCGAAGACATAACAGATTTGACTTTCAGATGTTCTCACATCAAAGCAGAT
66 TTTACAAGGAACAAATCGAAGACATAACAGATTTGACTTTCAGATGTTCTCACATCAAAGCAGAT
1753476 CCAAGATAACAGATCTGGCATCCCCATTTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCA
131 CCAAGATAACAGATCTGGCATCCCCATTTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCA
1753541 GATGATTATACTGAAGCAGATCCAAGATAACAAGATTTAGCTTCTCTATCTTCGACGAGGAGCAA
196 GATGATTATACTGAAGCAGATCCAAGATAACAAGATTTAGCTTCTCTATCTTCGACGAGGAGCAA
1753606 ATCGAAGACATAGCAGATTTCACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGATAACAGAT
261 ATCGAAGACATAGCAGATTTCACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGATAACAGAT
*
1753671 CTGGCATCTCCATTTCGACGGAAAGCAGATA
326 CTGGCATCTCCATTTCGACGGAGAGCAGATA
*
1753702 CATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTG
1 CATAGCAAATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTG
1753767 TTTACAAGGAACAAATCGAAGACATAACAGATTTGACTTTCAGATGTTCTCACATCAAAGCAGAT
66 TTTACAAGGAACAAATCGAAGACATAACAGATTTGACTTTCAGATGTTCTCACATCAAAGCAGAT
1753832 CCAAGATAACAGATCTGGCATCCCCATTTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCA
131 CCAAGATAACAGATCTGGCATCCCCATTTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCA
1753897 GATGATTATACTGAAGCAGATCCAAGATAACAAGATTTAGCTTCTCTATCTTCGACGAGGAGCAA
196 GATGATTATACTGAAGCAGATCCAAGATAACAAGATTTAGCTTCTCTATCTTCGACGAGGAGCAA
1753962 ATCGAAGACATAGCAGATTTCACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGATAACAGAT
261 ATCGAAGACATAGCAGATTTCACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGATAACAGAT
* *
1754027 CTGGCATCCCCATTTCGACGGAGAGCAGACA
326 CTGGCATCTCCATTTCGACGGAGAGCAGATA
* * *
1754058 CATAGCAGATCTAACCTTCAGATGATTATACTGAAGCAGATCCAAGATAACAAGATTTAGC-TTC
1 CATAGCAAATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGAT-----GATTTGGCATTC
* * * * * * * * *
1754122 TCTATCTTCGACGAGGAGCAAATCGAAGACATAGCAGATTTCACTTTCGGATGTTCTCACACCAA
61 T-TGTGTT-TACAAGGAACAAATCGAAGACATAACAGATTTGACTTTCAGATGTTCTCACATCAA
1754187 AGCAGATCCAAGATAACAGATCTGGCATCCCCATTTCGACGGAGAGCAGACACATAGCAGATCTA
124 AGCAGATCCAAGATAACAGATCTGGCATCCCCATTTCGACGGAGAGCAGACACATAGCAGATCTA
1754252 ACCTTCAGATGATTATACTGAAGCAGATCCAAGATAACAAGATTTAGCTTCTCTATCTTCGACGA
189 ACCTTCAGATGATTATACTGAAGCAGATCCAAGATAACAAGATTTAGCTTCTCTATCTTCGACGA
1754317 GGAGCAAATCGAAGACATAGCAGATTTCACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGAT
254 GGAGCAAATCGAAGACATAGCAGATTTCACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGAT
1754382 AACAGATCTGGCATCTCCATTTCGACGGAGAGCAGATA
319 AACAGATCTGGCATCTCCATTTCGACGGAGAGCAGATA
* * * * * *
1754420 CATAGAAAATTTAACCTTCAGATGATTT-TACTAAAACAGATCTAAGATGATTTGGCATCCTTGT
1 CATAGCAAATCTAACCTTCAGATG-TTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
* * *** *
1754484 GTTCACAAGGAGCAAATCGAAGACACGGCAGATTTGGCTTTCA
65 GTTTACAAGGAACAAATCGAAGACATAACAGATTTGACTTTCA
1754527 CGTGTTTACG
Statistics
Matches: 779, Mismatches: 37, Indels: 18
0.93 0.04 0.02
Matches are distributed among these distances:
356 430 0.55
357 11 0.01
358 3 0.00
360 4 0.01
361 11 0.01
362 318 0.41
363 2 0.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.25
Consensus pattern (356 bp):
CATAGCAAATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTG
TTTACAAGGAACAAATCGAAGACATAACAGATTTGACTTTCAGATGTTCTCACATCAAAGCAGAT
CCAAGATAACAGATCTGGCATCCCCATTTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCA
GATGATTATACTGAAGCAGATCCAAGATAACAAGATTTAGCTTCTCTATCTTCGACGAGGAGCAA
ATCGAAGACATAGCAGATTTCACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGATAACAGAT
CTGGCATCTCCATTTCGACGGAGAGCAGATA
Found at i:1761906 original size:25 final size:25
Alignment explanation
Indices: 1761871--1761920 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
1761861 GGAATTCGCA
1761871 CACACACAGTGC-CTCTAATCATTCG
1 CACACACAGTGCTCT-TAATCATTCG
* *
1761896 CACACATAGTGCTCTTATTCATTCG
1 CACACACAGTGCTCTTAATCATTCG
1761921 TATTTGTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.30
Consensus pattern (25 bp):
CACACACAGTGCTCTTAATCATTCG
Found at i:1762129 original size:40 final size:40
Alignment explanation
Indices: 1762096--1763207 Score: 1893
Period size: 40 Copynumber: 27.8 Consensus size: 40
1762086 CCAGCATGAT
* * **
1762096 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
* * *
1762136 TGCTCTTCGTGG-TTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCG-GGACTTAGCCCGGATATATCACTGGCACGAA
* * *
1762176 TGCACTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
* * *
1762216 TGCTCTTCGGGGCTTAGCCCGGATATATCACTAGTACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
* *
1762256 TGCTCTTCGGGACTTAGCCCGGATACATCACTCGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
* * *
1762296 TGCTCTTCGGGGCTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1762336 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1762376 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1762416 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1762456 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1762496 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1762536 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1762576 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1762616 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1762656 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1762696 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1762736 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1762776 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
* *
1762816 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
* *
1762856 TGCTCTTCGGGGCTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
* * *
1762896 TGCTCTTCGGGACTTAGCTCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
* * * *
1762936 TGCTCTTCGGGGCTTAACCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
* *
1762976 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1763016 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1763056 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1763096 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
* *
1763136 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
* *
1763176 TGCTCTTCGGGACTTAGCCCGGGTATACCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1763208 CTCAATTCTC
Statistics
Matches: 1029, Mismatches: 41, Indels: 4
0.96 0.04 0.00
Matches are distributed among these distances:
39 2 0.00
40 1025 1.00
41 2 0.00
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
Found at i:1767928 original size:40 final size:40
Alignment explanation
Indices: 1767869--1768120 Score: 312
Period size: 40 Copynumber: 6.3 Consensus size: 40
1767859 CATTTGAATG
*
1767869 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * *
1767909 TTATCCGGGTTAAAACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
1767949 TTATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
1767989 TTATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
1768029 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
1768069 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
1768109 ATATCC-GGCTAA
1 ATATCCGGGCTAA
1768121 ATTCCGAAGA
Statistics
Matches: 189, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 7 0.04
40 179 0.95
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:1770464 original size:17 final size:17
Alignment explanation
Indices: 1770442--1770475 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1770432 TTCAACTATG
1770442 ATTAAACTAAATATTAA
1 ATTAAACTAAATATTAA
* *
1770459 ATTAAATTTAATATTAA
1 ATTAAACTAAATATTAA
1770476 GATAATTACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTAAACTAAATATTAA
Found at i:1770474 original size:12 final size:12
Alignment explanation
Indices: 1770442--1770500 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
1770432 TTCAACTATG
*
1770442 ATTAAACTAAAT
1 ATTAAATTAAAT
1770454 ATTAAATTAAAT
1 ATTAAATTAAAT
1770466 -TTAATATTAAGAT
1 ATTAA-ATTAA-AT
* *
1770479 AATT-ACTTTAAT
1 -ATTAAATTAAAT
1770491 ATTAAATTAA
1 ATTAAATTAA
1770501 TAATACTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
11 7 0.19
12 22 0.59
13 5 0.14
14 1 0.03
15 2 0.05
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (12 bp):
ATTAAATTAAAT
Found at i:1770501 original size:20 final size:18
Alignment explanation
Indices: 1770451--1770550 Score: 75
Period size: 17 Copynumber: 5.5 Consensus size: 18
1770441 GATTAAACTA
1770451 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
1770468 AATATTAAGA-TAATTACTTT
1 AATATTAA-ATTAA-TA-TTT
*
1770488 AATATTAAATTAATA-AT
1 AATATTAAATTAATATTT
*
1770505 ACTATTAAGA-TAAGTATTT
1 AATATTAA-ATTAA-TATTT
* *
1770524 AAT-TTAATTTAATATTA
1 AATATTAAATTAATATTT
1770541 AACTATTAAA
1 AA-TATTAAA
1770551 ATATTATTAT
Statistics
Matches: 65, Mismatches: 7, Indels: 20
0.71 0.08 0.22
Matches are distributed among these distances:
17 28 0.43
18 12 0.18
19 11 0.17
20 14 0.22
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:1770511 original size:37 final size:37
Alignment explanation
Indices: 1770451--1770538 Score: 110
Period size: 37 Copynumber: 2.4 Consensus size: 37
1770441 GATTAAACTA
* *
1770451 AATATTAAATTAA-ATTTAATATTAAGATAATTACTTT
1 AATATTAAATTAATATATAATATTAAGATAAGTA-TTT
*
1770488 AATATTAAATTAATA-ATACTATTAAGATAAGTATTT
1 AATATTAAATTAATATATAATATTAAGATAAGTATTT
*
1770524 AAT-TTAATTTAATAT
1 AATATTAAATTAATAT
1770539 TAAACTATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
35 10 0.22
36 6 0.13
37 28 0.62
38 1 0.02
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.45
Consensus pattern (37 bp):
AATATTAAATTAATATATAATATTAAGATAAGTATTT
Found at i:1770546 original size:37 final size:37
Alignment explanation
Indices: 1770451--1770549 Score: 105
Period size: 37 Copynumber: 2.7 Consensus size: 37
1770441 GATTAAACTA
** *
1770451 AATATTAAATTAAATTTAA-TATTAAGATAATTACTTT
1 AATATTAAATT-AATAAAACTATTAAGATAAGTACTTT
*
1770488 AATATTAAATTAATAATACTATTAAGATAAGTA-TTT
1 AATATTAAATTAATAAAACTATTAAGATAAGTACTTT
*
1770524 AAT-TTAATTTAATATTAAACTATTAA
1 AATATTAAATTAATA--AAACTATTAA
1770550 AATATTATTA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
35 10 0.19
36 10 0.19
37 33 0.62
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (37 bp):
AATATTAAATTAATAAAACTATTAAGATAAGTACTTT
Found at i:1772711 original size:16 final size:16
Alignment explanation
Indices: 1772683--1772714 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
1772673 TACATAGAAT
1772683 TGTTCAACTTTTTTTA
1 TGTTCAACTTTTTTTA
1772699 TGTTCGAACTTTTTTT
1 TGTTC-AACTTTTTTT
1772715 TAATTTGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.16, C:0.12, G:0.09, T:0.62
Consensus pattern (16 bp):
TGTTCAACTTTTTTTA
Found at i:1774459 original size:73 final size:73
Alignment explanation
Indices: 1774365--1774510 Score: 267
Period size: 73 Copynumber: 2.0 Consensus size: 73
1774355 TTCATCTTAC
*
1774365 TGCGCTTCCGGTCCAAATTACCCTTGTTCTCCTGGTAAACAATATTTTGGCCGGGGTCCCATGCA
1 TGCGCTTCCGGTCCAAATTACCCTTGTGCTCCTGGTAAACAATATTTTGGCCGGGGTCCCATGCA
1774430 ACTTTCTT
66 ACTTTCTT
1774438 TGCGCTT-CGGATCCAAATTACCCTTGTGCTCCTGGTAAACAATATTTTGGCCGGGGTCCCATGC
1 TGCGCTTCCGG-TCCAAATTACCCTTGTGCTCCTGGTAAACAATATTTTGGCCGGGGTCCCATGC
1774502 AACTTTCTT
65 AACTTTCTT
1774511 GGTAATAGCA
Statistics
Matches: 71, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
72 3 0.04
73 68 0.96
ACGTcount: A:0.18, C:0.28, G:0.20, T:0.34
Consensus pattern (73 bp):
TGCGCTTCCGGTCCAAATTACCCTTGTGCTCCTGGTAAACAATATTTTGGCCGGGGTCCCATGCA
ACTTTCTT
Found at i:1776286 original size:35 final size:36
Alignment explanation
Indices: 1776240--1776316 Score: 124
Period size: 35 Copynumber: 2.2 Consensus size: 36
1776230 ATAATCTTCA
1776240 ATGATATGCAATCTTAGATATAATACAATCTTAGAT
1 ATGATATGCAATCTTAGATATAATACAATCTTAGAT
*
1776276 ATGAT-TGCAATCTTAGATATGATACAATCTTAGA-
1 ATGATATGCAATCTTAGATATAATACAATCTTAGAT
1776310 A-GATATG
1 ATGATATG
1776317 ATTTTGTAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
33 3 0.08
34 3 0.08
35 28 0.72
36 5 0.13
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.35
Consensus pattern (36 bp):
ATGATATGCAATCTTAGATATAATACAATCTTAGAT
Found at i:1776288 original size:18 final size:18
Alignment explanation
Indices: 1776248--1776309 Score: 92
Period size: 17 Copynumber: 3.6 Consensus size: 18
1776238 CAATGATATG
*
1776248 CAATCTTAGATAT-AATA
1 CAATCTTAGATATGATTA
*
1776265 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTA
1776283 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
1776300 CAATCTTAGA
1 CAATCTTAGA
1776310 AGATATGATT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
17 24 0.59
18 17 0.41
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.35
Consensus pattern (18 bp):
CAATCTTAGATATGATTA
Found at i:1776818 original size:18 final size:17
Alignment explanation
Indices: 1776794--1776853 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
1776784 CCAATATATT
1776794 TTATATTTTTTATATAA
1 TTATATTTTTTATATAA
*
1776811 TTAT-TATTCTTATA-AA
1 TTATAT-TTTTTATATAA
1776827 -TATATTTTTTATTATATA
1 TTATATTTTTTA-TATA-A
1776845 TTATATTTT
1 TTATATTTT
1776854 AAATTTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
15 8 0.23
16 6 0.17
17 12 0.34
18 1 0.03
19 8 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATATTTTTTATATAA
Found at i:1776838 original size:15 final size:16
Alignment explanation
Indices: 1776795--1776853 Score: 59
Period size: 16 Copynumber: 3.5 Consensus size: 16
1776785 CAATATATTT
1776795 TATATTTTTTATATAA
1 TATATTTTTTATATAA
1776811 T-TATTATTCTTATA-AA
1 TATATT-TT-TTATATAA
1776827 TATATTTTTTATTATATA
1 TATATTTTTTA-TATA-A
1776845 TTATATTTT
1 -TATATTTT
1776854 AAATTTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
15 7 0.19
16 10 0.28
17 10 0.28
18 1 0.03
19 8 0.22
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATTTTTTATATAA
Found at i:1776878 original size:26 final size:26
Alignment explanation
Indices: 1776830--1776879 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
1776820 TTATAAATAT
* * * *
1776830 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
1776856 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
1776880 TTTATATGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:1782455 original size:8 final size:8
Alignment explanation
Indices: 1782442--1782484 Score: 61
Period size: 8 Copynumber: 5.5 Consensus size: 8
1782432 TTCTATTTCA
1782442 AAAAAAAG
1 AAAAAAAG
1782450 AAAAAAA-
1 AAAAAAAG
*
1782457 AAGAAAAG
1 AAAAAAAG
*
1782465 AAAAAGAG
1 AAAAAAAG
1782473 AAAAAAAG
1 AAAAAAAG
1782481 AAAA
1 AAAA
1782485 GATGGAGAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
7 6 0.20
8 24 0.80
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:1782456 original size:10 final size:10
Alignment explanation
Indices: 1782441--1782484 Score: 70
Period size: 10 Copynumber: 4.3 Consensus size: 10
1782431 CTTCTATTTC
1782441 AAAAAAAAGA
1 AAAAAAAAGA
1782451 AAAAAAAAGA
1 AAAAAAAAGA
1782461 AAAGAAAAAGA
1 AAA-AAAAAGA
*
1782472 GAAAAAAAGA
1 AAAAAAAAGA
1782482 AAA
1 AAA
1782485 GATGGAGAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
10 22 0.71
11 9 0.29
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:1782468 original size:13 final size:12
Alignment explanation
Indices: 1782441--1782486 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
1782431 CTTCTATTTC
1782441 AAAAAAAAG--A
1 AAAAAAAAGAAA
1782451 AAAAAAAAGAAA
1 AAAAAAAAGAAA
*
1782463 AGAAAAAGAGAAA
1 A-AAAAAAAGAAA
1782476 AAAAGAAAAGA
1 AAAA-AAAAGA
1782487 TGGAGAGGCC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
10 9 0.30
12 5 0.17
13 16 0.53
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:1782493 original size:21 final size:21
Alignment explanation
Indices: 1782444--1782486 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
1782434 CTATTTCAAA
*
1782444 AAAAAGAAAAAAAAAGAAAAG
1 AAAAAGAGAAAAAAAGAAAAG
1782465 AAAAAGAGAAAAAAAGAAAAG
1 AAAAAGAGAAAAAAAGAAAAG
1782486 A
1 A
1782487 TGGAGAGGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (21 bp):
AAAAAGAGAAAAAAAGAAAAG
Found at i:1783388 original size:119 final size:118
Alignment explanation
Indices: 1783177--1783566 Score: 663
Period size: 119 Copynumber: 3.3 Consensus size: 118
1783167 GAACAGATCG
* *
1783177 AAGATAGCAGATCTAACCTTCAGATGTTTATAATGAAGTAGATCCAAGATGATTTAGGATTCTTG
1 AAGATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTT-GGATTCTTG
* *
1783242 TGTTTACAAGGAATAAATCGAGGACATAGCAGATTTGACTCTCAGACATTCTCA
65 TGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCA
* *
1783296 AAGATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCTAAGATTATTTGGCATTCTTG
1 AAGATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGG-ATTCTTG
1783361 TGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCA
65 TGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCA
* *
1783415 AATATAACAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTG
1 AAGATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGG-ATTCTTG
*
1783480 TGTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCA
65 TGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCA
*
1783534 AATATAGCAGATCTAACCTTCAGATGTTTATAC
1 AAGATAGCAGATCTAACCTTCAGATGTTTATAC
1783567 AGTGTCTCTG
Statistics
Matches: 257, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
118 2 0.01
119 255 0.99
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (118 bp):
AAGATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGATTCTTGT
GTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCA
Found at i:1786687 original size:119 final size:119
Alignment explanation
Indices: 1786476--1786758 Score: 485
Period size: 119 Copynumber: 2.4 Consensus size: 119
1786466 NNNNNNNNNN
1786476 AACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAACAGATCTAACCTTCA
1 AACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAACAGATCTAACCTTCA
* *
1786541 GATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGA
66 GATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGCTTACAAGA
*
1786595 AACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAGCAGATCTAACCTTCA
1 AACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAACAGATCTAACCTTCA
* *
1786660 GATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATTCTTGTGCTTACAAGG
66 GATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGCTTACAAGA
* * * *
1786714 AACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAA
1 AACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAA
1786759 CAGACTCAAG
Statistics
Matches: 155, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
119 155 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (119 bp):
AACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAACAGATCTAACCTTCA
GATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGCTTACAAGA
Found at i:1786787 original size:83 final size:83
Alignment explanation
Indices: 1786682--1786951 Score: 441
Period size: 83 Copynumber: 3.2 Consensus size: 83
1786672 GAAGCAGATC
* *
1786682 CAAGATGGTTTGGCATTCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTCA
1786747 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* *
1786765 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGACATGACTTTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTCA
1786830 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* * *
1786848 CAAGATGGTTTAGGAATCCTTGTGCTTACAAGGAACAAGTCGAGGACCTTGCAGATATGATTCTC
1 CAAGATGGTTT-GGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTC
*
1786913 AAATGTTCTCAAACAGGCT
65 AAATGTTCTCAAACAGACT
* *
1786932 CAAGATGATTTGACATCCTT
1 CAAGATGGTTTGGCATCCTT
1786952 ACAAATCGAA
Statistics
Matches: 173, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
83 97 0.56
84 76 0.44
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (83 bp):
CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTCA
AATGTTCTCAAACAGACT
Found at i:1787364 original size:17 final size:17
Alignment explanation
Indices: 1787344--1787430 Score: 129
Period size: 17 Copynumber: 5.0 Consensus size: 17
1787334 AATGATATGT
1787344 AATCTTAGATATGATAC
1 AATCTTAGATATGATAC
* *
1787361 AATCTTAAATATGATTGC
1 AATCTTAGATATGA-TAC
1787379 AATCTTAGATATGATAC
1 AATCTTAGATATGATAC
*
1787396 AATCTTAGATATGATTGC
1 AATCTTAGATATGA-TAC
1787414 AATCTTAGATATGATAC
1 AATCTTAGATATGATAC
1787431 TTATTATTAT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
17 31 0.50
18 31 0.50
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (17 bp):
AATCTTAGATATGATAC
Found at i:1787383 original size:18 final size:18
Alignment explanation
Indices: 1787344--1787428 Score: 129
Period size: 18 Copynumber: 4.8 Consensus size: 18
1787334 AATGATATGT
1787344 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
* *
1787361 AATCTTAAATATGATTGC
1 AATCTTAGATATGATTAC
1787379 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
1787396 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
1787414 AATCTTAGATATGAT
1 AATCTTAGATATGAT
1787429 ACTTATTATT
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
17 29 0.48
18 32 0.52
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.38
Consensus pattern (18 bp):
AATCTTAGATATGATTAC
Found at i:1787384 original size:35 final size:35
Alignment explanation
Indices: 1787335--1787430 Score: 165
Period size: 35 Copynumber: 2.7 Consensus size: 35
1787325 ATAATCTTCA
*
1787335 ATGATATGTAATCTTAGATATGATACAATCTTAAAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAAAT
*
1787371 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAAAT
1787406 ATGATTGCAATCTTAGATATGATAC
1 ATGATTGCAATCTTAGATATGATAC
1787431 TTATTATTAT
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
35 53 0.91
36 5 0.09
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.38
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAAAT
Found at i:1789096 original size:22 final size:22
Alignment explanation
Indices: 1789052--1789102 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
1789042 TAGTAAATGT
* *
1789052 TTATGTTTAAGTTTGAGTTTTA
1 TTATGTTTAAGTTTGAATATTA
* *
1789074 TTATGTTTAGGTTTTAATATTA
1 TTATGTTTAAGTTTGAATATTA
1789096 TATATGT
1 T-TATGT
1789103 GAGAGTTATC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.25, C:0.00, G:0.16, T:0.59
Consensus pattern (22 bp):
TTATGTTTAAGTTTGAATATTA
Found at i:1799391 original size:86 final size:85
Alignment explanation
Indices: 1799247--1799418 Score: 335
Period size: 86 Copynumber: 2.0 Consensus size: 85
1799237 NNNNNNNNNN
1799247 CTTTATTTTATTAATCCTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTTAGCCATA
1 CTTTATTTTATTAATCCTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTTAGCCATA
1799312 ACATCTTGTCCACCCATGCT
66 ACATCTTGTCCACCCATGCT
1799332 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTTAGCCAT
1 CTTTATTTTATTAATCC-TACATAATGCACTACCCCAACATGTTTATGACATGTTTTTTAGCCAT
1799397 AACATCTTGTCCACCCATGCT
65 AACATCTTGTCCACCCATGCT
1799418 C
1 C
1799419 ATGGCCGGCC
Statistics
Matches: 86, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 17 0.20
86 69 0.80
ACGTcount: A:0.27, C:0.26, G:0.08, T:0.39
Consensus pattern (85 bp):
CTTTATTTTATTAATCCTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTTAGCCATA
ACATCTTGTCCACCCATGCT
Found at i:1803989 original size:38 final size:38
Alignment explanation
Indices: 1803938--1804013 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
1803928 GAGAGGATTC
*
1803938 CTACCTATGAGACATGGTATTTCACTCTCGAAGGAAAT
1 CTACCAATGAGACATGGTATTTCACTCTCGAAGGAAAT
*
1803976 CTACCAATGAGACATGGTATTTCACTTTCGAAGGAAAT
1 CTACCAATGAGACATGGTATTTCACTCTCGAAGGAAAT
1804014 GTGTCCTTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (38 bp):
CTACCAATGAGACATGGTATTTCACTCTCGAAGGAAAT
Found at i:1808025 original size:20 final size:20
Alignment explanation
Indices: 1808000--1808039 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1807990 CATCAGAATA
1808000 GGGATAAATTTGAAGATTTT
1 GGGATAAATTTGAAGATTTT
1808020 GGGATAAATTTGAAGATTTT
1 GGGATAAATTTGAAGATTTT
1808040 AGTATACTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.25, T:0.40
Consensus pattern (20 bp):
GGGATAAATTTGAAGATTTT
Found at i:1809541 original size:44 final size:44
Alignment explanation
Indices: 1809478--1809783 Score: 278
Period size: 44 Copynumber: 6.7 Consensus size: 44
1809468 TGGCATATTT
*
1809478 AATCTGAC-CCACTGCAACTTCAGAGGA-ATAAGATTTGTCGCTTC
1 AATCTG-CTCCACTGCAACTTCAG-GGAGATAAGATTTGTAGCTTC
* * * *
1809522 AATCTGCTCCACAGCAACTTCAGCGAAATCAA-ATTTGTAGCTTG
1 AATCTGCTCCACTGCAACTTCAGGGAGAT-AAGATTTGTAGCTTC
*
1809566 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTA-CTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTC
* * * * *
1809609 AATTTACTCCACTGTAACTTCAGGAAGATAAGATTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTC
* * *
1809653 AATTTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCCATGGTAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TT----T-GTAGCTTC
* * * **
1809703 AATCTACTCCACTACAACTTAAAAGAGATAAGATTTGCTATGGTGACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TA----G-CTTC
1809753 AATCTGCTCCACTGCAACTTCAGGGAGATAA
1 AATCTGCTCCACTGCAACTTCAGGGAGATAA
1809784 AATGAGTGGT
Statistics
Matches: 213, Mismatches: 32, Indels: 28
0.78 0.12 0.10
Matches are distributed among these distances:
43 42 0.20
44 99 0.46
45 7 0.03
49 3 0.01
50 62 0.29
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTC
Found at i:1809650 original size:87 final size:88
Alignment explanation
Indices: 1809478--1809689 Score: 272
Period size: 87 Copynumber: 2.4 Consensus size: 88
1809468 TGGCATATTT
* *
1809478 AATCTGAC-CCACTGCAACTTCAGAGGA-ATAAGATTTGTCGCTTCAATCTGCTCCACAGCAACT
1 AATCTG-CTCCACTGCAACTTCAG-GGAGATAAGATTTGTCACTTCAATCTACTCCACAGCAACT
1809541 TCAGCGAAATCAAATTTGTAGCTTG
64 TCAGCGAAATCAAATTTGTAGCTTG
* * * *
1809566 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGT-ACTTCAATTTACTCCACTGTAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCACTTCAATCTACTCCACAGCAACTTC
*
1809630 AG-GAAGAT-AAGATTTGTAGCTTT
66 AGCGAA-ATCAA-ATTTGTAGCTTG
* *
1809653 AATTTGCTCCACTGTAACTTCAGGGAGATAAGATTTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
1809690 CCATGGTAAC
Statistics
Matches: 110, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
86 5 0.05
87 74 0.67
88 31 0.28
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (88 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCACTTCAATCTACTCCACAGCAACTTC
AGCGAAATCAAATTTGTAGCTTG
Found at i:1809722 original size:50 final size:50
Alignment explanation
Indices: 1809604--1809783 Score: 183
Period size: 50 Copynumber: 3.7 Consensus size: 50
1809594 TAAGATTTGT
* * *
1809604 ACTTCAATTTACTCCACTGTAACTTCAGGAAGATAAGA-TT----T-GTA
1 ACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCCATGGTA
* * * * *
1809648 GCTTTAATTTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCCATGGTA
1 ACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCCATGGTA
* * ** * *
1809698 ACTTCAATCTACTCCACTACAACTTAAAAGAGATAAGATTTGCTATGGTG
1 ACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCCATGGTA
*
1809748 ACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
1 ACTTCAATCTACTCCACTGCAACTTCAGGGAGATAA
1809784 AATGAGTGGT
Statistics
Matches: 110, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
44 34 0.31
45 2 0.02
49 1 0.01
50 73 0.66
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.31
Consensus pattern (50 bp):
ACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCCATGGTA
Found at i:1812396 original size:62 final size:62
Alignment explanation
Indices: 1812299--1812422 Score: 223
Period size: 62 Copynumber: 2.0 Consensus size: 62
1812289 CCCGAAGATG
1812299 TAAAGTTTCTCCTCATTGTTATTTCTAAGGGGACGAGACTACCACATGCCTAATCTTCAATC
1 TAAAGTTTCTCCTCATTGTTATTTCTAAGGGGACGAGACTACCACATGCCTAATCTTCAATC
*
1812361 TAAAGTTTCTCCTTC-TTGTTATTTCTAAGGGGACGAGACTACCACATGCCTCATCTTCAATC
1 TAAAGTTTCTCC-TCATTGTTATTTCTAAGGGGACGAGACTACCACATGCCTAATCTTCAATC
1812423 AAAATTTGAG
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
62 58 0.97
63 2 0.03
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.35
Consensus pattern (62 bp):
TAAAGTTTCTCCTCATTGTTATTTCTAAGGGGACGAGACTACCACATGCCTAATCTTCAATC
Found at i:1818720 original size:227 final size:227
Alignment explanation
Indices: 1818325--1818778 Score: 908
Period size: 227 Copynumber: 2.0 Consensus size: 227
1818315 TTTGATTAGC
1818325 CACAGTTGCAGGAGGTAGCTGATTGCCTTTGTTTTCAGCCATCTCTTCGGTTGGGGGTTGAGTAT
1 CACAGTTGCAGGAGGTAGCTGATTGCCTTTGTTTTCAGCCATCTCTTCGGTTGGGGGTTGAGTAT
1818390 CATCTTCTTGCCCGTTCTCTGTGTATCTTAAGCTTCGCCTTATTTCTCTTTGGTTTCTACGAATT
66 CATCTTCTTGCCCGTTCTCTGTGTATCTTAAGCTTCGCCTTATTTCTCTTTGGTTTCTACGAATT
1818455 GTGCGATCAATTTTTTCGTCAAAAAGTAATGGTCCTGACAGGTTTCTTCTTGTCATAAACTATAA
131 GTGCGATCAATTTTTTCGTCAAAAAGTAATGGTCCTGACAGGTTTCTTCTTGTCATAAACTATAA
1818520 AAACCTGCCAAGAGAAGGAAAAAGTAAATTAA
196 AAACCTGCCAAGAGAAGGAAAAAGTAAATTAA
1818552 CACAGTTGCAGGAGGTAGCTGATTGCCTTTGTTTTCAGCCATCTCTTCGGTTGGGGGTTGAGTAT
1 CACAGTTGCAGGAGGTAGCTGATTGCCTTTGTTTTCAGCCATCTCTTCGGTTGGGGGTTGAGTAT
1818617 CATCTTCTTGCCCGTTCTCTGTGTATCTTAAGCTTCGCCTTATTTCTCTTTGGTTTCTACGAATT
66 CATCTTCTTGCCCGTTCTCTGTGTATCTTAAGCTTCGCCTTATTTCTCTTTGGTTTCTACGAATT
1818682 GTGCGATCAATTTTTTCGTCAAAAAGTAATGGTCCTGACAGGTTTCTTCTTGTCATAAACTATAA
131 GTGCGATCAATTTTTTCGTCAAAAAGTAATGGTCCTGACAGGTTTCTTCTTGTCATAAACTATAA
1818747 AAACCTGCCAAGAGAAGGAAAAAGTAAATTAA
196 AAACCTGCCAAGAGAAGGAAAAAGTAAATTAA
1818779 TAAATAATAA
Statistics
Matches: 227, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
227 227 1.00
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.36
Consensus pattern (227 bp):
CACAGTTGCAGGAGGTAGCTGATTGCCTTTGTTTTCAGCCATCTCTTCGGTTGGGGGTTGAGTAT
CATCTTCTTGCCCGTTCTCTGTGTATCTTAAGCTTCGCCTTATTTCTCTTTGGTTTCTACGAATT
GTGCGATCAATTTTTTCGTCAAAAAGTAATGGTCCTGACAGGTTTCTTCTTGTCATAAACTATAA
AAACCTGCCAAGAGAAGGAAAAAGTAAATTAA
Found at i:1832817 original size:21 final size:20
Alignment explanation
Indices: 1832783--1832834 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
1832773 GATGGTGAAG
*
1832783 AAATGAAATAATGACATAAA-T
1 AAAT-AAATAATGA-ATAAAGA
1832804 AAATAAATAGATGAATAAAGA
1 AAATAAATA-ATGAATAAAGA
1832825 AAATAAATAA
1 AAATAAATAA
1832835 AAGGTAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 11 0.39
21 17 0.61
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.21
Consensus pattern (20 bp):
AAATAAATAATGAATAAAGA
Found at i:1833359 original size:73 final size:73
Alignment explanation
Indices: 1833009--1833440 Score: 612
Period size: 73 Copynumber: 6.0 Consensus size: 73
1832999 ATGAAAATAG
* * *
1833009 AATATAAATTATATCAAATTTAAATGTTTAAAAAGT---AGAAGAAT-AATAAATAAATAAATAG
1 AATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAATAG
*
1833070 ATGAAACA
66 ATAAAACA
* *
1833078 AGTATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAG---AAT-AACAAATAAATAAATAG
1 AATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAATAG
*
1833139 ATAAAAAA
66 ATAAAACA
*
1833147 AATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAACAAATAAATAAATAAATAG
1 AATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAATAG
1833212 ATAAAACA
66 ATAAAACA
* *
1833220 AATATAAATAATATCAAATGTTAAATATTTAAAAAGTAAAAGAATAACAAATAAATAAATAGATA
1 AATATAAATAATATCAAAT-TTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAATA
1833285 GATAAAACA
65 GATAAAACA
*
1833294 AATTTAAATAATATCAAATTTAAATATTTAAAAAG-AAAAGGAATAATAAATAAATAAATAAATA
1 AATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAA-GAATAATAAATAAATAAATAAATA
*
1833358 GATAAAACC
65 GATAAAACA
* * * * * * *
1833367 AAGACAAACAATATTAAATTTAAATATTTAAAAAGTAAAAAAATAAAAAATAAATAGATAAATAG
1 AATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAATAG
1833432 ATAAAACA
66 ATAAAACA
1833440 A
1 A
1833441 CTCATAAAAG
Statistics
Matches: 329, Mismatches: 24, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
69 98 0.30
72 8 0.02
73 148 0.45
74 75 0.23
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (73 bp):
AATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAATAG
ATAAAACA
Found at i:1833420 original size:220 final size:211
Alignment explanation
Indices: 1833009--1833440 Score: 632
Period size: 220 Copynumber: 2.0 Consensus size: 211
1832999 ATGAAAATAG
* * * *
1833009 AATATAAATTATATCAAATTTAAATGTTTAAAAAGTAGAAGAATAATAAATAAATAAATAGATGA
1 AATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAACAAATAAATAAATAGATGA
* *
1833074 AACAAGTATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAACAAATAAATAAATAG
66 AACAAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAACAAATAAATAAATAA
* * * * *
1833139 ATAAAAAAAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAACAAATAAATAA
131 ATAAAAAAAAGACAAACAATATCAAATTTAAATATTTAAAAAGTAAAAAAATAAAAAATAAATAA
1833204 ATAAATAGATAAAACA
196 ATAAATAGATAAAACA
1833220 AATATAAATAATATCAAATGTTAAATATTTAAAAAGTAAAAGAATAACAAATAAATAAATAGATA
1 AATATAAATAATATCAAAT-TTAAATATTTAAAAAGTAAAAGAATAACAAATAAATAAATAGAT-
* *
1833285 GATAAAACAAATTTAAATAATATCAAATTTAAATATTTAAAAAG-AAAAGGAATAATAAATAAAT
64 G---AAACAAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAA-GAATAACAAATAAAT
*
1833349 AAATAAATAGATAAAACCAAGACAAACAATATTAAATTTAAATATTTAAAAAGTAAAAAAATAAA
125 AAATAAATA-A-AAAA--AAGACAAACAATATCAAATTTAAATATTTAAAAAGTAAAAAAATAAA
*
1833414 AAATAAATAGATAAATAGATAAAACA
186 AAATAAATAAATAAATAGATAAAACA
1833440 A
1 A
1833441 CTCATAAAAG
Statistics
Matches: 196, Mismatches: 15, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
211 18 0.09
212 41 0.21
213 1 0.01
215 4 0.02
216 60 0.31
217 1 0.01
218 4 0.02
220 67 0.34
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (211 bp):
AATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAACAAATAAATAAATAGATGA
AACAAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAACAAATAAATAAATAA
ATAAAAAAAAGACAAACAATATCAAATTTAAATATTTAAAAAGTAAAAAAATAAAAAATAAATAA
ATAAATAGATAAAACA
Found at i:1837310 original size:27 final size:27
Alignment explanation
Indices: 1837269--1837332 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
1837259 GTGGGGTCGC
* * *
1837269 AGGCACCACTTGTGACTCCTA-TTTGAT
1 AGGCGCCACTGGTGACTCCTACCTT-AT
1837296 AGGCGCCACTGGTGACTCCTACCTTAT
1 AGGCGCCACTGGTGACTCCTACCTTAT
1837323 AGGCGCCACT
1 AGGCGCCACT
1837333 AGTGCTTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 31 0.94
28 2 0.06
ACGTcount: A:0.20, C:0.31, G:0.22, T:0.27
Consensus pattern (27 bp):
AGGCGCCACTGGTGACTCCTACCTTAT
Found at i:1844587 original size:5 final size:5
Alignment explanation
Indices: 1844577--1844618 Score: 84
Period size: 5 Copynumber: 8.4 Consensus size: 5
1844567 TATTATGTTG
1844577 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
1844619 AATTTAGGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:1849848 original size:105 final size:100
Alignment explanation
Indices: 1849696--1850131 Score: 502
Period size: 105 Copynumber: 4.3 Consensus size: 100
1849686 CAAATTATAT
* * *
1849696 AAAAATTACA-T--TAAAAAATCACAAAATAATAAACTAAACACTAACAATTTATATAACTTAAT
1 AAAAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAA-TT-TATAACCTAAT
*
1849758 CATAAGTTACTAACAAAATAACTATAAAATTATTTTTTAA
64 CATAAATTACTAACAAAATAACTAT--AATT-TTTTTTAA
*
1849798 AAAAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCCAAT
1 AAAAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAA-TT-TATAACCTAAT
*
1849863 CATAAATTATTAACAAAATAACTATAATTTTTTTT--
64 CATAAATTACTAACAAAATAACTATAATTTTTTTTAA
* * *
1849898 -AAAATTACATTACTAAAAAAATCACAAAACCCTAAACTAAACACTAACAAGTTACAACCTAATC
1 AAAAATTACATTACT-AAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAAT-
*
1849962 CCATAAATTATTAACAAAATAAATAACTATGAA-TTTTTTTAA
64 -CATAAATTACTAAC---A-AAATAACTAT-AATTTTTTTTAA
*
1850004 AAGAAATTACATTACTAAAAAAATCACAAAACAC---A--AAACATTAACAATTTATAACCTAAT
1 AA-AAATTACATTACT-AAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAAT
* *
1850064 CATAAACTACTAACAAAATAACTAT-ATTTTTTTAAA
64 CATAAATTACTAACAAAATAACTATAATTTTTTTTAA
*
1850100 AAAAATTACATTACTAAAAACTCACAAAACAC
1 AAAAATTACATTACTAAAAAATCACAAAACAC
1850132 AACAATTTAT
Statistics
Matches: 300, Mismatches: 18, Indels: 40
0.84 0.05 0.11
Matches are distributed among these distances:
94 16 0.05
95 14 0.05
96 10 0.03
97 10 0.03
98 10 0.03
99 15 0.05
100 48 0.16
101 12 0.04
102 16 0.05
103 28 0.09
104 17 0.06
105 73 0.24
107 1 0.00
108 30 0.10
ACGTcount: A:0.55, C:0.16, G:0.01, T:0.29
Consensus pattern (100 bp):
AAAAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCA
TAAATTACTAACAAAATAACTATAATTTTTTTTAA
Found at i:1849940 original size:205 final size:199
Alignment explanation
Indices: 1849696--1850130 Score: 512
Period size: 205 Copynumber: 2.2 Consensus size: 199
1849686 CAAATTATAT
* * * *
1849696 AAAAATTACA-T--TAAAAAATCACAAAATAATAAACTAAACACTAACAATTTATATAACTTAAT
1 AAAAATTACATTACTAAAAAATCACAAAACAATAAACTAAACACTAACAA-GT-TACAACCTAAT
* *
1849758 -CATAAGTTACTAACAAAATAACTATAA-AAT-TA-TTTTTTAAAA-AAATTACATTACT-AAAA
64 CCATAAATTACTAACAAAATAA--ATAACAATGAATTTTTTTAAAAGAAATTACATTACTAAAAA
* *
1849817 AATCACAAAACACTAAACTAAACACTAACAATTTATATAACCCAATCATAAATTATTAACAAAAT
127 AATCACAAAACAC---A--AAACACTAACAA-TT-TATAACCCAATCATAAACTACTAACAAAAT
1849882 AACTATAATTTTTTT-
185 AACTAT-ATTTTTTTA
* **
1849897 TAAAATTACATTACTAAAAAAATCACAAAACCCTAAACTAAACACTAACAAGTTACAACCTAATC
1 AAAAATTACATTACT-AAAAAATCACAAAACAATAAACTAAACACTAACAAGTTACAACCTAAT-
* *
1849962 CCATAAATTATTAACAAAATAAATAACTATGAATTTTTTTAAAAGAAATTACATTACTAAAAAAA
64 CCATAAATTACTAACAAAATAAATAACAATGAATTTTTTTAAAAGAAATTACATTACTAAAAAAA
* *
1850027 TCACAAAACACAAAACATTAACAATTTATAACCTAATCATAAACTACTAACAAAATAACTATATT
129 TCACAAAACACAAAACACTAACAATTTATAACCCAATCATAAACTACTAACAAAATAACTATATT
1850092 TTTTTAAA
194 TTTTT--A
*
1850100 AAAAATTACATTACTAAAAACTCACAAAACA
1 AAAAATTACATTACTAAAAAATCACAAAACA
1850131 CAACAATTTA
Statistics
Matches: 202, Mismatches: 18, Indels: 27
0.82 0.07 0.11
Matches are distributed among these distances:
200 8 0.04
201 42 0.21
202 17 0.08
203 38 0.19
204 4 0.02
205 53 0.26
206 10 0.05
207 13 0.06
208 17 0.08
ACGTcount: A:0.55, C:0.16, G:0.01, T:0.29
Consensus pattern (199 bp):
AAAAATTACATTACTAAAAAATCACAAAACAATAAACTAAACACTAACAAGTTACAACCTAATCC
ATAAATTACTAACAAAATAAATAACAATGAATTTTTTTAAAAGAAATTACATTACTAAAAAAATC
ACAAAACACAAAACACTAACAATTTATAACCCAATCATAAACTACTAACAAAATAACTATATTTT
TTTA
Found at i:1850485 original size:13 final size:13
Alignment explanation
Indices: 1850467--1850506 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
1850457 TTCTTCTCCG
1850467 TTCTCTCCTTTCT
1 TTCTCTCCTTTCT
1850480 TTCTCTCCTTTCT
1 TTCTCTCCTTTCT
*
1850493 TTCTCTCTTTTCT
1 TTCTCTCCTTTCT
1850506 T
1 T
1850507 CTCCACACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (13 bp):
TTCTCTCCTTTCT
Found at i:1852481 original size:17 final size:17
Alignment explanation
Indices: 1852459--1852503 Score: 90
Period size: 17 Copynumber: 2.6 Consensus size: 17
1852449 GCTACAGTTG
1852459 AAATTCCCTGTACTTGC
1 AAATTCCCTGTACTTGC
1852476 AAATTCCCTGTACTTGC
1 AAATTCCCTGTACTTGC
1852493 AAATTCCCTGT
1 AAATTCCCTGT
1852504 TCACTCTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.24, C:0.29, G:0.11, T:0.36
Consensus pattern (17 bp):
AAATTCCCTGTACTTGC
Found at i:1859116 original size:12 final size:13
Alignment explanation
Indices: 1859099--1859135 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
1859089 GAACCGGACA
1859099 CGAACCGAA-CTC
1 CGAACCGAAGCTC
1859111 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
1859123 CGAACCGTAGCTC
1 CGAACCGAAGCTC
1859136 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:1863304 original size:18 final size:18
Alignment explanation
Indices: 1863281--1863327 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
1863271 TTAAATTATG
*
1863281 AAATAAAAAA-ATTAATTA
1 AAATAAAAAAGATGAA-TA
1863299 AAATAAGAAAAGATGAATA
1 AAATAA-AAAAGATGAATA
*
1863318 AAACAAAAAA
1 AAATAAAAAA
1863328 CAAAATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 10 0.40
19 11 0.44
20 4 0.16
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.17
Consensus pattern (18 bp):
AAATAAAAAAGATGAATA
Found at i:1865197 original size:43 final size:45
Alignment explanation
Indices: 1865087--1865197 Score: 120
Period size: 45 Copynumber: 2.5 Consensus size: 45
1865077 CGCACAGTAT
* * * * * * *
1865087 TATTCGCGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAGCTATAATGCAGGTAAAATAC
*
1865132 TATTCGGGCCTTTGAGCCTAGCAAGCTATAATGCAGGTAAAATGA-
1 TATTCGGGCCTTCGAGCCTAGCAAGCTATAATGCAGGTAAAAT-AC
1865177 TA-TCGGG-CTTCGAGCCTAGCA
1 TATTCGGGCCTTCGAGCCTAGCA
1865198 GGCGAAATGC
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
43 13 0.22
44 5 0.09
45 39 0.67
46 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (45 bp):
TATTCGGGCCTTCGAGCCTAGCAAGCTATAATGCAGGTAAAATAC
Found at i:1865774 original size:16 final size:18
Alignment explanation
Indices: 1865743--1865775 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
1865733 AACTCGTCAC
1865743 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
1865761 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
1865776 AGCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:1871972 original size:39 final size:39
Alignment explanation
Indices: 1871929--1872182 Score: 359
Period size: 39 Copynumber: 6.5 Consensus size: 39
1871919 TTCCAACCCA
* * *
1871929 AATGCCTTCGGAACTTAGCCCGGATATAACATTAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
*
1871968 AATGCCTTCGGGACTTTGCCCGGATATAATATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
*
1872007 AATGCCTTCGGGACTTAGCCCGGATATAATACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* * * *
1872046 AATGCCTTCGGGACTTAACCTGGATATAATGTCAGCAAG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
*
1872085 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGTACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
*
1872124 AATGCCTTCGGGACTTAGCCCGGATATAAATCTCA-CAC-
1 AATGCCTTCGGGACTTAGCCCGGATAT-AATATCAGCACG
* * *
1872162 AAGGCCTGCGGGTCTTAGCCC
1 AATGCCTTCGGGACTTAGCCC
1872183 AGTTAAAATC
Statistics
Matches: 193, Mismatches: 21, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
38 18 0.09
39 169 0.88
40 6 0.03
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
Found at i:1876290 original size:45 final size:45
Alignment explanation
Indices: 1876226--1876353 Score: 174
Period size: 45 Copynumber: 2.9 Consensus size: 45
1876216 CGCACAGTAT
* *
1876226 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT-A
1 TATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATGA
* *
1876270 CTATTCGGGCTTTTGAGCCTAGTAGGCTATAATGCTGGTGAAATGA
1 -TATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATGA
*
1876316 TA-TCGGGCTTTT-AGCCTAGCAGGCGA-AATGCCGGTGAA
1 TATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCGGTGAA
1876354 TGAACTCGGG
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
42 11 0.15
43 12 0.16
44 10 0.13
45 41 0.55
46 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (45 bp):
TATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATGA
Found at i:1876913 original size:16 final size:17
Alignment explanation
Indices: 1876887--1876919 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1876877 GTCACACTAT
*
1876887 CTATCATTTTGGTGCTA
1 CTATCATTTTGGAGCTA
1876904 CTAT-ATTTTGGAGCTA
1 CTATCATTTTGGAGCTA
1876920 GTATGGCATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.21, C:0.15, G:0.18, T:0.45
Consensus pattern (17 bp):
CTATCATTTTGGAGCTA
Found at i:1879573 original size:25 final size:25
Alignment explanation
Indices: 1879516--1879573 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
1879506 GTCAATTTTA
* *
1879516 TTTTA-TTTCATTTTATTTTTATAG
1 TTTTATTTTCATTTAATTTTTACAG
*
1879540 TTTTGTTTTCATTTAATTTTTACA-
1 TTTTATTTTCATTTAATTTTTACAG
1879564 TTTTAATTTT
1 TTTT-ATTTT
1879574 ACTTTTGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 8 0.29
25 20 0.71
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (25 bp):
TTTTATTTTCATTTAATTTTTACAG
Found at i:1890810 original size:26 final size:25
Alignment explanation
Indices: 1890754--1890832 Score: 104
Period size: 25 Copynumber: 3.1 Consensus size: 25
1890744 AAAACTAACA
* *
1890754 AAATTAATTAAAAATAAATTTAATT
1 AAATTATTTAAATATAAATTTAATT
* *
1890779 AAATTATTTAAATATATATTTTTATT
1 AAATTATTTAAATATA-AATTTAATT
*
1890805 AAATTATTTAAATTTAAATTTAATT
1 AAATTATTTAAATATAAATTTAATT
1890830 AAA
1 AAA
1890833 CTTGCTAGTT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
25 24 0.52
26 22 0.48
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
AAATTATTTAAATATAAATTTAATT
Found at i:1890823 original size:15 final size:15
Alignment explanation
Indices: 1890777--1890824 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
1890767 ATAAATTTAA
1890777 TTAAATTATTTAAAT
1 TTAAATTATTTAAAT
* *
1890792 ATATATT-TTT--A-
1 TTAAATTATTTAAAT
1890803 TTAAATTATTTAAAT
1 TTAAATTATTTAAAT
1890818 TTAAATT
1 TTAAATT
1890825 TAATTAAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 8
0.68 0.11 0.22
Matches are distributed among these distances:
11 5 0.20
12 4 0.16
14 4 0.16
15 12 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTAAATTATTTAAAT
Found at i:1891654 original size:15 final size:16
Alignment explanation
Indices: 1891634--1891671 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
1891624 TAATTAATGA
1891634 TATATAAATAT-AATT
1 TATATAAATATGAATT
1891649 TATAT-AATATGAATT
1 TATATAAATATGAATT
1891664 TATGATAA
1 TAT-ATAA
1891672 TTAAATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.25
15 12 0.60
16 2 0.10
17 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (16 bp):
TATATAAATATGAATT
Found at i:1891680 original size:29 final size:28
Alignment explanation
Indices: 1891614--1891681 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
1891604 TTTATTTGTT
1891614 TTAAATTATATAATTAATGATATATAAA
1 TTAAATTATATAATTAATGATATATAAA
* *
1891642 TATAATTTATATAA-T-ATGAATTTATGATAA
1 T-TAAATTATATAATTAATG-ATATAT-A-AA
1891672 TTAAATTATA
1 TTAAATTATA
1891682 ATCATATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
27 3 0.09
28 7 0.21
29 20 0.61
30 3 0.09
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (28 bp):
TTAAATTATATAATTAATGATATATAAA
Found at i:1892156 original size:15 final size:15
Alignment explanation
Indices: 1892136--1892187 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
1892126 AATCTAAAAC
**
1892136 AAATAAAATAAAATA
1 AAATAAAATAAAAGG
1892151 AAAT-AAATAAAAGG
1 AAATAAAATAAAAGG
*
1892165 AAATAGAATAAAAGG
1 AAATAAAATAAAAGG
1892180 AAATAAAA
1 AAATAAAA
1892188 GGAAAAATAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
14 12 0.38
15 20 0.62
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (15 bp):
AAATAAAATAAAAGG
Found at i:1892158 original size:19 final size:19
Alignment explanation
Indices: 1892130--1892176 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
1892120 ATTATTAATC
* *
1892130 TAAAACAAATAAAATAAAA
1 TAAAATAAATAAAAGAAAA
*
1892149 TAAAATAAATAAAAGGAAA
1 TAAAATAAATAAAAGAAAA
*
1892168 TAGAATAAA
1 TAAAATAAA
1892177 AGGAAATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.17
Consensus pattern (19 bp):
TAAAATAAATAAAAGAAAA
Found at i:1892160 original size:4 final size:5
Alignment explanation
Indices: 1892136--1892187 Score: 52
Period size: 5 Copynumber: 10.6 Consensus size: 5
1892126 AATCTAAAAC
** * **
1892136 AAATA AAATA AAATA AAAT- AAATA AAAGG AAATA GAATA AAAGG AAATA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA
1892185 AAA
1 AAA
1892188 GGAAAAATAG
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
4 4 0.11
5 32 0.89
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (5 bp):
AAATA
Found at i:1893169 original size:24 final size:22
Alignment explanation
Indices: 1893142--1893188 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
1893132 AGTATTTATA
1893142 ATATTCCAGATGTGTTTGGGCTGG
1 ATATT-CAGATGTGTTTGGG-TGG
* *
1893166 ATATTCTGGTGTGTTTGGGTGG
1 ATATTCAGATGTGTTTGGGTGG
1893188 A
1 A
1893189 ATCCGCGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 12 0.57
24 5 0.24
ACGTcount: A:0.15, C:0.09, G:0.36, T:0.40
Consensus pattern (22 bp):
ATATTCAGATGTGTTTGGGTGG
Found at i:1894299 original size:88 final size:89
Alignment explanation
Indices: 1894150--1894331 Score: 246
Period size: 88 Copynumber: 2.1 Consensus size: 89
1894140 GTTACAGTTA
* *
1894150 GGTACTTGAACTTTCAAAATATATCAAAAAGGCCTTCAAACTTTTTTAAAGAAAACAATTAAG-C
1 GGTACTTGAACTGTCAAAATATATCAAAAAGGCCCTCAAACTTTTTTAAAGAAAACAATTAAGTC
**
1894214 ATTTA-TTTTTTTTGCACTCAATTG
66 -CCTACTTTTTTTTGCACTCAATTG
* **
1894238 GGTACTTGAACTGTCAAAATGTATCAAAAAGGCCCTCAAA-TTTTTTCAAA-AATGGCAATTAAG
1 GGTACTTGAACTGTCAAAATATATCAAAAAGGCCCTCAAACTTTTTT-AAAGAA-AACAATTAAG
1894301 TCCCTACTTTTTTTTGCACTCAATTG
64 TCCCTACTTTTTTTTGCACTCAATTG
1894327 GGTAC
1 GGTAC
1894332 CTTAACAGTT
Statistics
Matches: 83, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
87 8 0.10
88 50 0.60
89 25 0.30
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.36
Consensus pattern (89 bp):
GGTACTTGAACTGTCAAAATATATCAAAAAGGCCCTCAAACTTTTTTAAAGAAAACAATTAAGTC
CCTACTTTTTTTTGCACTCAATTG
Found at i:1894466 original size:18 final size:17
Alignment explanation
Indices: 1894445--1894510 Score: 53
Period size: 18 Copynumber: 3.7 Consensus size: 17
1894435 AAAAATCAAT
1894445 AAATTTTATAAAATTATA
1 AAATTTTA-AAAATTATA
**
1894463 AAATTATTAAATTTTAATA
1 AAATT-TTAAAAATT-ATA
* *
1894482 AAATATTAAAAATTA-C
1 AAATTTTAAAAATTATA
1894498 AAATTTTACAAAA
1 AAATTTTA-AAAA
1894511 ATCATAAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
16 7 0.18
17 5 0.13
18 16 0.42
19 10 0.26
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATTTTAAAAATTATA
Found at i:1894520 original size:27 final size:26
Alignment explanation
Indices: 1894428--1894520 Score: 77
Period size: 27 Copynumber: 3.5 Consensus size: 26
1894418 AAAAAGTTAT
*
1894428 AAAAA-ATAAAAATCAAT-AAATTTTA
1 AAAAATATAAAAAT-TATCAAATTTTA
* *
1894453 TAAAAT-TATAAAATTATTAAATTTTA
1 AAAAATATA-AAAATTATCAAATTTTA
1894479 ATAAAATATTAAAAATTA-CAAATTTTA
1 A-AAAATA-TAAAAATTATCAAATTTTA
1894506 CAAAAATCATAAAAA
1 -AAAAAT-ATAAAAA
1894521 ATATAAAGAA
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
25 8 0.14
26 13 0.23
27 24 0.43
28 9 0.16
29 2 0.04
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (26 bp):
AAAAATATAAAAATTATCAAATTTTA
Found at i:1894520 original size:28 final size:28
Alignment explanation
Indices: 1894445--1894522 Score: 83
Period size: 27 Copynumber: 2.9 Consensus size: 28
1894435 AAAAATCAAT
* *
1894445 AAATTTT-ATAAAAT-TATAAAATTATT
1 AAATTTTAATAAAATATAAAAAATTATC
*
1894471 AAATTTTAATAAAATATTAAAAATTA-C
1 AAATTTTAATAAAATATAAAAAATTATC
1894498 AAATTTTACA-AAAATCATAAAAAAT
1 AAATTTTA-ATAAAAT-ATAAAAAAT
1894523 ATAAAGAAGT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
26 7 0.16
27 20 0.45
28 17 0.39
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (28 bp):
AAATTTTAATAAAATATAAAAAATTATC
Found at i:1894877 original size:28 final size:27
Alignment explanation
Indices: 1894843--1894971 Score: 118
Period size: 28 Copynumber: 4.6 Consensus size: 27
1894833 TTTTTTATGT
1894843 ATTTTATATTTTTTATGATTTTTATAAA
1 ATTTTATATTTTTTAT-ATTTTTATAAA
* *
1894871 ATGTTATAGTTTTTTATATTTTT-TATA
1 ATTTTATA-TTTTTTATATTTTTATAAA
* * *
1894898 TTTTTACGATTTTTATATATTTTTCT-AA
1 ATTTTA-TATTTTT-TATATTTTTATAAA
*
1894926 ATTTTAATATATTTTATATTTTTATTAAA
1 ATTTT-ATATTTTTTATATTTTTA-TAAA
* *
1894955 ATTTAATAATTTTTATA
1 ATTTTATATTTTTTATA
1894972 AATTTTATTG
Statistics
Matches: 81, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
27 21 0.26
28 44 0.54
29 16 0.20
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.64
Consensus pattern (27 bp):
ATTTTATATTTTTTATATTTTTATAAA
Found at i:1894941 original size:46 final size:46
Alignment explanation
Indices: 1894842--1894949 Score: 126
Period size: 46 Copynumber: 2.3 Consensus size: 46
1894832 ATTTTTTATG
* ** *
1894842 TATTTTATATTTTTTATGATTTTTATAAAATGTTATAGTTTTTTATA
1 TATTTTATA-TTTTTACGATTTTTATAAAATGTTATAAATTTTAATA
* * * * *
1894889 TTTTTTATATTTTTACGATTTTTATATATTTTTCTAAATTTTAATA
1 TATTTTATATTTTTACGATTTTTATAAAATGTTATAAATTTTAATA
1894935 TATTTTATATTTTTA
1 TATTTTATATTTTTA
1894950 TTAAAATTTA
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
46 43 0.84
47 8 0.16
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.66
Consensus pattern (46 bp):
TATTTTATATTTTTACGATTTTTATAAAATGTTATAAATTTTAATA
Found at i:1894958 original size:19 final size:19
Alignment explanation
Indices: 1894936--1894990 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
1894926 ATTTTAATAT
1894936 ATTTTAT-ATTTTTATTAAA
1 ATTTTATAATTTTTATT-AA
*
1894955 ATTTAATAATTTTTA-TAA
1 ATTTTATAATTTTTATTAA
*
1894973 ATTTTATTGATTTTTATT
1 ATTTTA-TAATTTTTATT
1894991 TTTATAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 7 0.23
19 15 0.50
20 8 0.27
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
ATTTTATAATTTTTATTAA
Found at i:1894978 original size:29 final size:28
Alignment explanation
Indices: 1894906--1894980 Score: 82
Period size: 28 Copynumber: 2.6 Consensus size: 28
1894896 TATTTTTACG
* *
1894906 ATTTTTATATATTTT-TCTAAATTTTAAT
1 ATTTTTATAAATTTTAT-TAAAATTTAAT
*
1894934 ATATTTTAT-ATTTTTATTAAAATTTAAT
1 AT-TTTTATAAATTTTATTAAAATTTAAT
1894962 AATTTTTATAAATTTTATT
1 -ATTTTTATAAATTTTATT
1894981 GATTTTTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
28 22 0.56
29 17 0.44
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (28 bp):
ATTTTTATAAATTTTATTAAAATTTAAT
Found at i:1895002 original size:9 final size:9
Alignment explanation
Indices: 1894844--1895002 Score: 78
Period size: 9 Copynumber: 17.4 Consensus size: 9
1894834 TTTTTATGTA
*
1894844 TTTTATATT
1 TTTTATAAT
*
1894853 TTTTATGAT
1 TTTTATAAT
*
1894862 TTTTATAAAA
1 TTTTAT-AAT
* *
1894872 TGTTATAGTT
1 TTTTATA-AT
*
1894882 TTTTATATT
1 TTTTATAAT
1894891 TTTTAT-AT
1 TTTTATAAT
**
1894899 TTTTACGAT
1 TTTTATAAT
1894908 TTTTATATAT
1 TTTTATA-AT
* *
1894918 TTTTCTAAA
1 TTTTATAAT
1894927 TTTTA-ATAT
1 TTTTATA-AT
1894936 ATTTTAT-AT
1 -TTTTATAAT
*
1894945 TTTTATTAAAA
1 TTTTA-T-AAT
*
1894956 TTTAATAAT
1 TTTTATAAT
*
1894965 TTTTATAAA
1 TTTTATAAT
*
1894974 TTTTATTGA-
1 TTTTA-TAAT
1894983 TTTT-T-AT
1 TTTTATAAT
1894990 TTTTATAAT
1 TTTTATAAT
1894999 TTTT
1 TTTT
1895003 TTGCCACATA
Statistics
Matches: 114, Mismatches: 22, Indels: 28
0.70 0.13 0.17
Matches are distributed among these distances:
6 1 0.01
7 5 0.04
8 13 0.11
9 62 0.54
10 28 0.25
11 5 0.04
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:1912988 original size:5 final size:5
Alignment explanation
Indices: 1912978--1913002 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
1912968 CTATATTACA
1912978 AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT
1913003 CAATATAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:1917674 original size:16 final size:16
Alignment explanation
Indices: 1917655--1917696 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
1917645 AGAGAAATGG
1917655 AATAAATAA-TAAGCAT
1 AATAAATAACT-AGCAT
1917671 AATAAATAACTAGCAT
1 AATAAATAACTAGCAT
1917687 -A-AAATAACTA
1 AATAAATAACTA
1917697 CTATAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 9 0.36
15 1 0.04
16 14 0.56
17 1 0.04
ACGTcount: A:0.62, C:0.10, G:0.05, T:0.24
Consensus pattern (16 bp):
AATAAATAACTAGCAT
Found at i:1922848 original size:30 final size:30
Alignment explanation
Indices: 1922814--1922874 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
1922804 CTTAACAAGT
*
1922814 AAATGCCTCTAAAATAATAAAAAAATTAAC
1 AAATGCATCTAAAATAATAAAAAAATTAAC
* *
1922844 AAATGCATTTAAAATAATAACAAAATTAAC
1 AAATGCATCTAAAATAATAAAAAAATTAAC
1922874 A
1 A
1922875 TGAAAATAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.61, C:0.11, G:0.03, T:0.25
Consensus pattern (30 bp):
AAATGCATCTAAAATAATAAAAAAATTAAC
Found at i:1926236 original size:20 final size:19
Alignment explanation
Indices: 1926202--1926240 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
1926192 TATGTCAGTT
1926202 TAATTTTTACATTTTATGTG
1 TAATTTTTACATTTT-TGTG
**
1926222 TAATTTTTATGTTTTTGTG
1 TAATTTTTACATTTTTGTG
1926241 ACTTTTACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.21, C:0.03, G:0.13, T:0.64
Consensus pattern (19 bp):
TAATTTTTACATTTTTGTG
Found at i:1927113 original size:47 final size:47
Alignment explanation
Indices: 1926953--1927127 Score: 176
Period size: 47 Copynumber: 3.7 Consensus size: 47
1926943 TGGTTGGACC
* * ** *
1926953 ATGGCAACA-TGTGATATGTGATTTTTGTATAAGACCATAGCT-GGACT
1 ATGGCATCAGTGTGATATGTG-CTTCCGTATAAGACCATATCTGGGA-T
* * * *
1927000 ATGACGTCGGTGTGATATGAGCTTCCGTATAAGACCATATCTGGGAT
1 ATGGCATCAGTGTGATATGTGCTTCCGTATAAGACCATATCTGGGAT
* * * *
1927047 ATGGCATCTGTATGATATGTGCTTCTGTGTAAGACCATATCTGGGAT
1 ATGGCATCAGTGTGATATGTGCTTCCGTATAAGACCATATCTGGGAT
* *
1927094 ATGGCATCAGTGTGATATGTG-ATCCGTGTAAGAC
1 ATGGCATCAGTGTGATATGTGCTTCCGTATAAGAC
1927128 TATAGCCGAG
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
46 11 0.10
47 82 0.77
48 13 0.12
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (47 bp):
ATGGCATCAGTGTGATATGTGCTTCCGTATAAGACCATATCTGGGAT
Found at i:1927143 original size:46 final size:46
Alignment explanation
Indices: 1926982--1927181 Score: 132
Period size: 47 Copynumber: 4.2 Consensus size: 46
1926972 GATTTTTGTA
* * * * * * *
1926982 TAAGACCATAGCTG-GACTATGACGTCGGTGTGATATGAGCTTCCGTA
1 TAAGACCATAGCCGAGA-TATGGCATCTGTGTGATATGTG-ATCCGTG
* * * * * *
1927029 TAAGACCATATCTGGGATATGGCATCTGTATGATATGTGCTTCTGTG
1 TAAGACCATAGCCGAGATATGGCATCTGTGTGATATGTG-ATCCGTG
* * * *
1927076 TAAGACCATATCTGGGATATGGCATCAGTGTGATATGTGATCCGTG
1 TAAGACCATAGCCGAGATATGGCATCTGTGTGATATGTGATCCGTG
* * * **
1927122 TAAGACTATAGCCGAGCTATGGCTTCGGTGTGTGATATGTGACTATGTG
1 TAAGACCATAGCCGAGATATGGCATC--TGTGTGATATGTGA-TCCGTG
*
1927171 CAAGACCATAG
1 TAAGACCATAG
1927182 TTTCACTATG
Statistics
Matches: 126, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
46 25 0.20
47 73 0.58
48 15 0.12
49 13 0.10
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (46 bp):
TAAGACCATAGCCGAGATATGGCATCTGTGTGATATGTGATCCGTG
Found at i:1931076 original size:20 final size:19
Alignment explanation
Indices: 1931051--1931089 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1931041 ATATGAACTC
*
1931051 TTTTATCATTTTTCATTTTT
1 TTTTATCA-TTCTCATTTTT
*
1931071 TTTTATTATTCTCATTTTT
1 TTTTATCATTCTCATTTTT
1931090 CGTTACAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTATCATTCTCATTTTT
Found at i:1932034 original size:6 final size:6
Alignment explanation
Indices: 1932023--1932048 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1932013 CCACTTAATC
1932023 CAATTT CAATTT CAATTT CAATTT CA
1 CAATTT CAATTT CAATTT CAATTT CA
1932049 TACACAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.46
Consensus pattern (6 bp):
CAATTT
Found at i:1934551 original size:6 final size:7
Alignment explanation
Indices: 1934534--1934592 Score: 64
Period size: 7 Copynumber: 7.6 Consensus size: 7
1934524 CATCATAGAA
1934534 AAAAATT
1 AAAAATT
1934541 AAAAATT
1 AAAAATT
1934548 AAAAATT
1 AAAAATT
1934555 AAAAATATT
1 -AAAA-ATT
1934564 AAAAATATT
1 -AAAA-ATT
1934573 AAAAATATT
1 -AAAA-ATT
1934582 AAAAATT
1 AAAAATT
1934589 AAAA
1 AAAA
1934593 GTAAAATCCA
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
7 21 0.42
8 8 0.16
9 21 0.42
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAAATT
Found at i:1934564 original size:9 final size:9
Alignment explanation
Indices: 1934532--1934587 Score: 75
Period size: 9 Copynumber: 6.7 Consensus size: 9
1934522 GCCATCATAG
*
1934532 AAAAAAATT
1 AAAAATATT
1934541 -AAAA-ATT
1 AAAAATATT
1934548 -AAAA-ATT
1 AAAAATATT
1934555 AAAAATATT
1 AAAAATATT
1934564 AAAAATATT
1 AAAAATATT
1934573 AAAAATATT
1 AAAAATATT
1934582 AAAAAT
1 AAAAAT
1934588 TAAAAGTAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
7 10 0.22
8 8 0.18
9 27 0.60
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (9 bp):
AAAAATATT
Found at i:1934564 original size:16 final size:16
Alignment explanation
Indices: 1934534--1934592 Score: 86
Period size: 18 Copynumber: 3.7 Consensus size: 16
1934524 CATCATAGAA
1934534 AAAAATT-AAAA-ATT
1 AAAAATTAAAAATATT
1934548 AAAAATTAAAAATATT
1 AAAAATTAAAAATATT
1934564 AAAAATATTAAAAATATT
1 -AAAA-ATTAAAAATATT
1934582 AAAAATTAAAA
1 AAAAATTAAAA
1934593 GTAAAATCCA
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
14 7 0.17
15 4 0.10
16 10 0.24
17 8 0.20
18 12 0.29
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATTAAAAATATT
Found at i:1943958 original size:22 final size:22
Alignment explanation
Indices: 1943916--1943958 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
1943906 GAAAATGAAA
* *
1943916 AAGAAAAGAATGAATGTAAAAG
1 AAGAAAAGAATAAATGGAAAAG
1943938 AAGAAAAGAA-AAATGAGAAAA
1 AAGAAAAGAATAAATG-GAAAA
1943959 AGAATGCGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.70, C:0.00, G:0.21, T:0.09
Consensus pattern (22 bp):
AAGAAAAGAATAAATGGAAAAG
Found at i:1947069 original size:21 final size:20
Alignment explanation
Indices: 1947019--1947080 Score: 63
Period size: 21 Copynumber: 3.1 Consensus size: 20
1947009 TCAGTTTCCA
* *
1947019 TCAACTCGCTTGAGTTCGAT
1 TCAACTCGTTTGAGCTCGAT
*
1947039 TCAGCTCGTTTGAGCTCGAAT
1 TCAACTCGTTTGAGCTCG-AT
* *
1947060 TTAACTCGTTTCAGCTC-AT
1 TCAACTCGTTTGAGCTCGAT
1947079 TC
1 TC
1947081 CTTCTTCATC
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
19 3 0.09
20 15 0.44
21 16 0.47
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.37
Consensus pattern (20 bp):
TCAACTCGTTTGAGCTCGAT
Found at i:1954587 original size:13 final size:13
Alignment explanation
Indices: 1954569--1954605 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
1954559 GAATTATTCA
1954569 ACTAAAGAATTTG
1 ACTAAAGAATTTG
1954582 ACTAAAGAATTTG
1 ACTAAAGAATTTG
*
1954595 ATTAAAGAATT
1 ACTAAAGAATT
1954606 CTCTTGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.49, C:0.05, G:0.14, T:0.32
Consensus pattern (13 bp):
ACTAAAGAATTTG
Found at i:1955198 original size:51 final size:48
Alignment explanation
Indices: 1955096--1955198 Score: 109
Period size: 48 Copynumber: 2.1 Consensus size: 48
1955086 ATTCTAAAAA
* * * *
1955096 TAATATTATTTTAATAGTTTAATATTAAATTTAATTTGATACTTATTT
1 TAATAATATTTTAATAATTTAATATTAAATTTAATTTAATACTTAATT
* *
1955144 TAATAATATTTTAGTAATTTAATATTAAAGTGATTATTTTAATA-TTAAATT
1 TAATAATATTTTAATAATTTAATATTAAA-T--TTAATTTAATACTT-AATT
1955195 TAAT
1 TAAT
1955199 TTAAAGTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
48 26 0.58
49 1 0.02
50 2 0.04
51 16 0.36
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (48 bp):
TAATAATATTTTAATAATTTAATATTAAATTTAATTTAATACTTAATT
Found at i:1959404 original size:5 final size:5
Alignment explanation
Indices: 1959359--1959390 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
1959349 ACCCAGAATG
1959359 AAATA AAATA AAATA AAATA AAATA AATATA A
1 AAATA AAATA AAATA AAATA AAATA AA-ATA A
1959391 CCAATAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
AAATA
Found at i:1961481 original size:29 final size:30
Alignment explanation
Indices: 1961410--1961482 Score: 112
Period size: 30 Copynumber: 2.5 Consensus size: 30
1961400 AAATTTTAGT
1961410 AAAATGACCATTTTGCCCCAAGACTTTGGC
1 AAAATGACCATTTTGCCCCAAGACTTTGGC
* *
1961440 AAAATAACCATTTTGCCCCTAGAC-TTGGC
1 AAAATGACCATTTTGCCCCAAGACTTTGGC
*
1961469 AAAATGACTATTTT
1 AAAATGACCATTTT
1961483 ACCCTTATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 17 0.44
30 22 0.56
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (30 bp):
AAAATGACCATTTTGCCCCAAGACTTTGGC
Found at i:1962483 original size:21 final size:21
Alignment explanation
Indices: 1962459--1962510 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
1962449 TAGCCCTCTA
1962459 GGAGCAAATGAGATTCATAAT
1 GGAGCAAATGAGATTCATAAT
1962480 GGAGCAAATGAGATTCATAAT
1 GGAGCAAATGAGATTCATAAT
*
1962501 GAAGCAAATG
1 GGAGCAAATG
1962511 GTTGCTCAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.44, C:0.10, G:0.25, T:0.21
Consensus pattern (21 bp):
GGAGCAAATGAGATTCATAAT
Found at i:1964821 original size:42 final size:42
Alignment explanation
Indices: 1964739--1964855 Score: 117
Period size: 42 Copynumber: 2.8 Consensus size: 42
1964729 GTTTAACTCA
* * * * * * *
1964739 TATGAGTTTCAATTTAACCCTAATGGGTTTCCGTTTAGCTCT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTTCGGTCAGCTCC
*
1964781 TTTGAGCTTCAGTTTAACCCTTATGGGTTTTCGGTCAGCTCC
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTTCGGTCAGCTCC
* * * * *
1964823 TATGAGCTTCTGATCAACCCTTACGGATTTTCG
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTTCG
1964856 TTTAGCACTT
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.40
Consensus pattern (42 bp):
TATGAGCTTCAGTTTAACCCTTATGGGTTTTCGGTCAGCTCC
Found at i:1964874 original size:42 final size:42
Alignment explanation
Indices: 1964796--1964876 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
1964786 GCTTCAGTTT
* * *
1964796 AACCCTTATGGGTTTTCGGTCAGCTCCTATGAGCTTCTGATC
1 AACCCTTACGGATTTTCGGTCAGCACCTATGAGCTTCTGATC
* * * *
1964838 AACCCTTACGGATTTTCGTTTAGCACTTATGTGCTTCTG
1 AACCCTTACGGATTTTCGGTCAGCACCTATGAGCTTCTG
1964877 TGTGGCCTTC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.38
Consensus pattern (42 bp):
AACCCTTACGGATTTTCGGTCAGCACCTATGAGCTTCTGATC
Found at i:1966030 original size:37 final size:37
Alignment explanation
Indices: 1965969--1966114 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
1965959 TACGTATGAT
* *
1965969 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
1966004 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1966041 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
1966078 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1966115 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:1966131 original size:46 final size:46
Alignment explanation
Indices: 1966078--1966346 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
1966068 TAAGTGTAGC
* **
1966078 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
1966124 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1966170 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
1966222 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
1966268 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1966320 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
1966347 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:1966197 original size:52 final size:52
Alignment explanation
Indices: 1966121--1966340 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
1966111 TAGCTAAAGC
* *
1966121 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
1966174 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
1966226 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
1966272 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1966324 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
1966341 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:1966243 original size:98 final size:98
Alignment explanation
Indices: 1966078--1966346 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
1966068 TAAGTGTAGC
* * *
1966078 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
1966143 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
1966177 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
1966242 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
1966275 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
1966340 GATCAGA
66 GATCAGA
1966347 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:1969527 original size:49 final size:49
Alignment explanation
Indices: 1969472--1969617 Score: 229
Period size: 49 Copynumber: 3.0 Consensus size: 49
1969462 TTCGTTTTCT
* *
1969472 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* *
1969521 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* *
1969570 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-AATCACAT
1969618 GTTCACATGT
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
49 82 0.93
50 6 0.07
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (49 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
Found at i:1970931 original size:37 final size:37
Alignment explanation
Indices: 1970870--1971015 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
1970860 TACGTATGAT
* *
1970870 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
1970905 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1970942 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
1970979 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1971016 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:1971032 original size:46 final size:46
Alignment explanation
Indices: 1970979--1971247 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
1970969 TAAGTGTAGC
* **
1970979 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
1971025 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1971071 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
1971123 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
1971169 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1971221 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
1971248 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:1971098 original size:52 final size:52
Alignment explanation
Indices: 1971022--1971241 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
1971012 TAGCTAAAGC
* *
1971022 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
1971075 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
1971127 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
1971173 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1971225 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
1971242 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:1971144 original size:98 final size:98
Alignment explanation
Indices: 1970979--1971247 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
1970969 TAAGTGTAGC
* * *
1970979 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
1971044 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
1971078 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
1971143 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
1971176 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
1971241 GATCAGA
66 GATCAGA
1971248 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:1977879 original size:70 final size:68
Alignment explanation
Indices: 1977751--1978003 Score: 188
Period size: 70 Copynumber: 3.6 Consensus size: 68
1977741 TGATCGAAAA
* * * * * * * *
1977751 CCCAAACAGTTAGCGATAGTGAAAAACTCCCAACTA-C-TATCTTATGGCTCACAAGTTTAATAC
1 CCCAAATAGTTAGCGAGAGTTAAAAACTCCCAGCTATCAT-TC-TAAGACTCGCAGGTTTAATA-
1977814 CGCATCC
63 CGCAT-C
* * ** * * *
1977821 CCCAAATAGTTGGCGAAAGTTAAAAACTGTCAGCTATCATTCTAAGGCTCGTAGGTTTAATA-TC
1 CCCAAATAGTTAGCGAGAGTTAAAAACTCCCAGCTATCATTCTAAGACTCGCAGGTTTAATACGC
1977885 ATAGC
66 AT--C
* ** * *
1977890 CCCAAACAGTTAGCGAGAGTTAAAAGTTCCCAGCTATTATTCTAAGACTCGCAGGTTCAATACTG
1 CCCAAATAGTTAGCGAGAGTTAAAAACTCCCAGCTATCATTCTAAGACTCGCAGGTTTAATAC-G
1977955 CAATC
65 C-ATC
* * * * *
1977960 CCCAAATAGTTAACGAGAGTTAAAAGCTCACAACTATCGTTCTA
1 CCCAAATAGTTAGCGAGAGTTAAAAACTCCCAGCTATCATTCTA
1978004 GGGCTCTTAT
Statistics
Matches: 145, Mismatches: 32, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
68 3 0.02
69 52 0.36
70 83 0.57
71 4 0.03
72 3 0.02
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (68 bp):
CCCAAATAGTTAGCGAGAGTTAAAAACTCCCAGCTATCATTCTAAGACTCGCAGGTTTAATACGC
ATC
Found at i:1978137 original size:134 final size:132
Alignment explanation
Indices: 1977889--1978143 Score: 296
Period size: 134 Copynumber: 1.9 Consensus size: 132
1977879 AATATCATAG
* * *
1977889 CCCCAAACAGTTAGCGAGAGTTAAAAGTTCCCAGCTATTATTCTAAGACTCGCAGGTTCAATACT
1 CCCCAAACAATTAGCGAGAGTTAAAAGCTCCCAGCTATTATTCTAAGACTCACAGGTTCAATACT
* * * * *
1977954 GCAATCCCCAAATAGTTAACGAGAGTTAAAAGCTCACAACTATCGTTCTAGGGCTCTTATACCTG
66 GCAA--CCCAAATAGTGAACAAAAGTTAAAAGCTCACAACTATCATTCTAAGGCTCTTATACCTG
1978019 TAGC
129 TAGC
* * * * * * *
1978023 CCCCAAATAATTAGTGAGAGTTAAAAGCTCCTAGCTGTTATTCTAAGGCTTATAGGTTCAATATC
1 CCCCAAACAATTAGCGAGAGTTAAAAGCTCCCAGCTATTATTCTAAGACTCACAGGTTCAATA-C
* * *
1978088 GTAGCAA-CCAAATAGTGATCAAAAGTTAAAAGCTCACAACTCTTATTCTAAGGCTC
65 -T-GCAACCCAAATAGTGAACAAAAGTTAAAAGCTCACAACTATCATTCTAAGGCTC
1978144 GCAGGTTCAA
Statistics
Matches: 100, Mismatches: 18, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
134 94 0.94
135 1 0.01
136 1 0.01
137 4 0.04
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.27
Consensus pattern (132 bp):
CCCCAAACAATTAGCGAGAGTTAAAAGCTCCCAGCTATTATTCTAAGACTCACAGGTTCAATACT
GCAACCCAAATAGTGAACAAAAGTTAAAAGCTCACAACTATCATTCTAAGGCTCTTATACCTGTA
GC
Found at i:1978169 original size:70 final size:70
Alignment explanation
Indices: 1978041--1978171 Score: 156
Period size: 70 Copynumber: 1.9 Consensus size: 70
1978031 AATTAGTGAG
* * * * * ** *
1978041 AGTTAAAAGCTCCTAGCTGTTATTCTAAGGCTTATAGGTTCAATATCGTAGCAACCAAATAGTGA
1 AGTTAAAAGCTCCTAACTCTTATTCTAAGGCTCACAGGTTCAATACCACACCAACCAAATAGTGA
1978106 TCAAA
66 TCAAA
* *
1978111 AGTTAAAAGCTCAC-AACTCTTATTCTAAGGCTCGCAGGTTCAATACCACACCACCCAAATA
1 AGTTAAAAGCTC-CTAACTCTTATTCTAAGGCTCACAGGTTCAATACCACACCAACCAAATA
1978172 ACTAGCGAGA
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
70 49 0.98
71 1 0.02
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.27
Consensus pattern (70 bp):
AGTTAAAAGCTCCTAACTCTTATTCTAAGGCTCACAGGTTCAATACCACACCAACCAAATAGTGA
TCAAA
Found at i:1978353 original size:58 final size:58
Alignment explanation
Indices: 1978254--1978368 Score: 167
Period size: 58 Copynumber: 2.0 Consensus size: 58
1978244 TCACGAATTT
* * *
1978254 ACATTCCCAACTAAGTATCTTAGAAAATATGCCTAAGTTCAAAACAACTCGAGGATTC
1 ACATTCCCAACTAAGTATCTTAGAAAATATGACTAACTTCAAAACAACTCGAAGATTC
* * * *
1978312 ACATTCTCAACTGAGTGTTTTAGAAAATATGACTAACTTCAAAACAACTCGAAGATT
1 ACATTCCCAACTAAGTATCTTAGAAAATATGACTAACTTCAAAACAACTCGAAGATT
1978369 TATATGCCTT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (58 bp):
ACATTCCCAACTAAGTATCTTAGAAAATATGACTAACTTCAAAACAACTCGAAGATTC
Found at i:1981743 original size:65 final size:65
Alignment explanation
Indices: 1981663--1981796 Score: 232
Period size: 65 Copynumber: 2.1 Consensus size: 65
1981653 GTCATTTCCC
1981663 AATCAATTAATGACATGTCAGCTAATTTTTACATGTCAATTACACCTCATTTAATTAGATTTTTT
1 AATCAATTAATGACATGTCAGCTAATTTTTACATGTCAATTACACCTCATTTAATTAGATTTTTT
* * * *
1981728 AATCATTTAATGACATGTCAGTTGATTTTTACATGTCATTTACACCTCATTTAATTAGATTTTTT
1 AATCAATTAATGACATGTCAGCTAATTTTTACATGTCAATTACACCTCATTTAATTAGATTTTTT
1981793 AATC
1 AATC
1981797 TTAAATCCCT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.32, C:0.15, G:0.08, T:0.45
Consensus pattern (65 bp):
AATCAATTAATGACATGTCAGCTAATTTTTACATGTCAATTACACCTCATTTAATTAGATTTTTT
Found at i:1982006 original size:57 final size:57
Alignment explanation
Indices: 1981914--1982085 Score: 159
Period size: 60 Copynumber: 2.9 Consensus size: 57
1981904 TCACGTCTCT
* * * * *
1981914 ACCCTGCTGCTATTATTTTTTT-GAAAATTGTTTTGCTGCCTCTTAACGTCTCTTTGCA
1 ACCCT-CTGCCATTATTTTTTTCGGAAACTGCTTTGCTGCCTCTT-ACGTCTCTCTGCA
* * * *
1981972 ACCC-CTGCCATTATTTTTTTCGGCAACTGCTTTGCTACCTCTTCACATCTCTCTGTA
1 ACCCTCTGCCATTATTTTTTTCGGAAACTGCTTTGCTGCCTCTT-ACGTCTCTCTGCA
* * * *
1982029 GCCCTTGTTGCTATTATTTTTTTCGGAAACTGCTTTGTTGCCTCGTTACGTCTCTCT
1 ACCC-T-CTGCCATTATTTTTTTCGGAAACTGCTTTGCTGCCTC-TTACGTCTCTCT
1982086 ATAACCCCTG
Statistics
Matches: 92, Mismatches: 17, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
56 15 0.16
57 30 0.33
58 4 0.04
60 41 0.45
61 2 0.02
ACGTcount: A:0.15, C:0.27, G:0.14, T:0.45
Consensus pattern (57 bp):
ACCCTCTGCCATTATTTTTTTCGGAAACTGCTTTGCTGCCTCTTACGTCTCTCTGCA
Found at i:1986820 original size:60 final size:60
Alignment explanation
Indices: 1986690--1986928 Score: 302
Period size: 60 Copynumber: 4.0 Consensus size: 60
1986680 ATCAATAGGT
* * * * * *
1986690 GTTGCAGAGAGACGTGAAGAGGCAGAAAAGTAGTTGACGGAAAAAA-AATAGCAACAAGG
1 GTTGCAGAGAGACGTGAAGAGGCAGAAAAGCAATTGCCGAAAAAAATAATAGCAGCAGGG
* * * *
1986749 GTTGTAGAGAGACGTGAAAAGGCAGCAAAGCAATTGCCGAAAAAAATAATAGCAGTAGGG
1 GTTGCAGAGAGACGTGAAGAGGCAGAAAAGCAATTGCCGAAAAAAATAATAGCAGCAGGG
* * * *
1986809 GTTGCAGAGAGAGGTGAAGAGGCAGCAAAGCAATTGTCGAAAAAAATAATAGCAGCGGGG
1 GTTGCAGAGAGACGTGAAGAGGCAGAAAAGCAATTGCCGAAAAAAATAATAGCAGCAGGG
* * *
1986869 GTTGCAAAGAGACGCGAAGAGGCAAAAAAAGCAATTGCCG-AAAAAATAATAGCAGCAGGG
1 GTTGCAGAGAGACGTGAAGAGGC-AGAAAAGCAATTGCCGAAAAAAATAATAGCAGCAGGG
1986929 CAGAGACGTG
Statistics
Matches: 155, Mismatches: 23, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
59 39 0.25
60 103 0.66
61 13 0.08
ACGTcount: A:0.44, C:0.12, G:0.31, T:0.13
Consensus pattern (60 bp):
GTTGCAGAGAGACGTGAAGAGGCAGAAAAGCAATTGCCGAAAAAAATAATAGCAGCAGGG
Found at i:1987101 original size:65 final size:65
Alignment explanation
Indices: 1986997--1987128 Score: 210
Period size: 65 Copynumber: 2.0 Consensus size: 65
1986987 GGATTTATGG
* * *
1986997 TTAAAAAATCTAATTAAATGAGATGTAGATGACATGTAAAAATTAGCTAACATGTCATTAAATGA
1 TTAAAAAATCTAATTAAATGAGATGTAAATAACATGTAAAAATTAACTAACATGTCATTAAATGA
* * *
1987062 TTAAAAAATCTAATTAAATGAGATGTAAATAACATGTAAAAATTAACTGACATGTTATTAATTGA
1 TTAAAAAATCTAATTAAATGAGATGTAAATAACATGTAAAAATTAACTAACATGTCATTAAATGA
1987127 TT
1 TT
1987129 GGAAAGAGAC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33
Consensus pattern (65 bp):
TTAAAAAATCTAATTAAATGAGATGTAAATAACATGTAAAAATTAACTAACATGTCATTAAATGA
Found at i:1990433 original size:12 final size:13
Alignment explanation
Indices: 1990418--1990451 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
1990408 TTAAGGGTAA
1990418 AAATTAAATTA-T
1 AAATTAAATTAGT
1990430 AAATTAAATTAGT
1 AAATTAAATTAGT
*
1990443 ATATTAAAT
1 AAATTAAAT
1990452 AAATTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (13 bp):
AAATTAAATTAGT
Found at i:1994037 original size:18 final size:17
Alignment explanation
Indices: 1993993--1994042 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 17
1993983 CATCAAAATT
*
1993993 AAAAATA-TATATTTTC
1 AAAAATATTAAATTTTC
*
1994009 AAAAAT-TTTAATTTTGC
1 AAAAATATTAAATTTT-C
1994026 AAAAATAATTAAATTTT
1 AAAAAT-ATTAAATTTT
1994043 TTTTTACGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
16 12 0.44
17 7 0.26
19 8 0.30
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (17 bp):
AAAAATATTAAATTTTC
Found at i:1994079 original size:91 final size:89
Alignment explanation
Indices: 1993949--1994119 Score: 306
Period size: 91 Copynumber: 1.9 Consensus size: 89
1993939 AAAAAATAGG
1993949 TTTTTTTTTACGATGATTTGAACCAATGGCAATCCATCAAAATTAAAAATATATATTTTCAAAAA
1 TTTTTTTTTACGATGATTTGAACCAATGGCAATCCATCAAAATTAAAAATATATATTTTCAAAAA
1994014 TTTTAATTTTGCAAAAATAATTAAA
66 TTTTAATTTTG-AAAAATAATTAAA
* *
1994039 TTTTTTTTTACGATGATTTGGTACCAATGGCAATCCATCAAAATTAAAAATATATTTTTTCAAAA
1 TTTTTTTTTACGATGATTT-GAACCAATGGCAATCCATCAAAATTAAAAATATATATTTTCAAAA
1994104 ATTTTAATTTTGAAAA
65 ATTTTAATTTTGAAAA
1994120 TAACTTCAAC
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
90 23 0.29
91 55 0.71
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.42
Consensus pattern (89 bp):
TTTTTTTTTACGATGATTTGAACCAATGGCAATCCATCAAAATTAAAAATATATATTTTCAAAAA
TTTTAATTTTGAAAAATAATTAAA
Found at i:1999074 original size:19 final size:21
Alignment explanation
Indices: 1999042--1999080 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
1999032 TCAAGTAATG
*
1999042 AATATAAATGTTAA-AAATAA
1 AATATAAATATTAACAAATAA
1999062 AATA-AAATATTAACAAATA
1 AATATAAATATTAACAAATA
1999081 TCAAATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (21 bp):
AATATAAATATTAACAAATAA
Found at i:2000308 original size:13 final size:13
Alignment explanation
Indices: 2000290--2000314 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2000280 AAAAATCATA
2000290 AAAAATTATAAAC
1 AAAAATTATAAAC
2000303 AAAAATTATAAA
1 AAAAATTATAAA
2000315 AATTTTGTCT
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:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAAATTATAAAC
Found at i:2000459 original size:11 final size:11
Alignment explanation
Indices: 2000443--2000493 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
2000433 ATTATAGTTT
2000443 TAAATTTTTTA
1 TAAATTTTTTA
*
2000454 TAAATTTTTTT
1 TAAATTTTTTA
2000465 TATAA--TTTTA
1 TA-AATTTTTTA
*
2000475 T-GATTTTTTA
1 TAAATTTTTTA
2000485 TAAATTTTT
1 TAAATTTTT
2000494 AAATATATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
8 1 0.03
10 11 0.34
11 18 0.56
12 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (11 bp):
TAAATTTTTTA
Found at i:2000468 original size:30 final size:31
Alignment explanation
Indices: 2000434--2000493 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
2000424 TAATAAAAGA
*
2000434 TTATAGTTTTA-AATTTTTTATAAATTTTTT
1 TTATAATTTTATAATTTTTTATAAATTTTTT
*
2000464 TTATAATTTTATGATTTTTTATAAATTTTT
1 TTATAATTTTATAATTTTTTATAAATTTTT
2000494 AAATATATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (31 bp):
TTATAATTTTATAATTTTTTATAAATTTTTT
Found at i:2021526 original size:24 final size:24
Alignment explanation
Indices: 2021460--2021520 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
2021450 GAAGACAGTA
* *
2021460 GAGATGAAGATGAAGCCAATGGTG
1 GAGATGAAGATGAAGACAAGGGTG
* *
2021484 GAGATAAATATGTAA-ACAAGGGTG
1 GAGATGAAGATG-AAGACAAGGGTG
2021508 GAGATGAAGATGA
1 GAGATGAAGATGA
2021521 GTACAATAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
23 1 0.03
24 27 0.90
25 2 0.07
ACGTcount: A:0.43, C:0.05, G:0.34, T:0.18
Consensus pattern (24 bp):
GAGATGAAGATGAAGACAAGGGTG
Found at i:2024816 original size:25 final size:25
Alignment explanation
Indices: 2024764--2024818 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
2024754 AGGTGCCTTC
* * * *
2024764 GTGGCAATTTACTTGGGAATCCTTT
1 GTGGCAATTTACCTGGAAAGCCTAT
*
2024789 GTGGCAATTTACCTGTAAAGCCTAT
1 GTGGCAATTTACCTGGAAAGCCTAT
2024814 GTGGC
1 GTGGC
2024819 GTAATGTCTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (25 bp):
GTGGCAATTTACCTGGAAAGCCTAT
Found at i:2030104 original size:42 final size:42
Alignment explanation
Indices: 2030042--2030203 Score: 132
Period size: 42 Copynumber: 3.7 Consensus size: 42
2030032 TGCCGTAGTT
**
2030042 CAACTATGGTCTTACACATATTCACATAAT-GATGTCATAGCC
1 CAACTATGGTCTTACACATATTCACAT-ATCGATACCATAGCC
* *
2030084 CAGCTATGGTCTTACACATATTCATATATCGATACCATAGCC
1 CAACTATGGTCTTACACATATTCACATATCGATACCATAGCC
* * * * *
2030126 CAACTATAGCCTTACACGTAATCTCATATGACATATCGATGCCATAGCT
1 CAACTATGGTCTTACAC---A--T-AT-TCACATATCGATACCATAGCC
*
2030175 CAGCTATGGTCTTACACGA-A-TCACATATC
1 CAACTATGGTCTTACAC-ATATTCACATATC
2030204 TCACTGATGC
Statistics
Matches: 96, Mismatches: 16, Indels: 17
0.74 0.12 0.13
Matches are distributed among these distances:
41 10 0.10
42 49 0.51
43 1 0.01
45 1 0.01
47 2 0.02
48 2 0.02
49 31 0.32
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (42 bp):
CAACTATGGTCTTACACATATTCACATATCGATACCATAGCC
Found at i:2030163 original size:49 final size:48
Alignment explanation
Indices: 2030109--2030202 Score: 125
Period size: 49 Copynumber: 1.9 Consensus size: 48
2030099 ACATATTCAT
*
2030109 ATATCGATACCATAGCCCAACTATAGCCTTACACGTAATCTCATATGAC
1 ATATCGATACCATAGCCCAACTATAGCCTTACACG-AATCACATATGAC
* * * * *
2030158 ATATCGATGCCATAGCTCAGCTATGGTCTTACACGAATCACATAT
1 ATATCGATACCATAGCCCAACTATAGCCTTACACGAATCACATAT
2030203 CTCACTGATG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
48 9 0.23
49 30 0.77
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.28
Consensus pattern (48 bp):
ATATCGATACCATAGCCCAACTATAGCCTTACACGAATCACATATGAC
Found at i:2030323 original size:53 final size:51
Alignment explanation
Indices: 2030201--2030355 Score: 183
Period size: 53 Copynumber: 3.0 Consensus size: 51
2030191 CGAATCACAT
* * * *
2030201 ATCTCACTGATGCCATATCCCAGATATGGTCTTATACAGTAGTATATATCAC
1 ATCTC-CTGATGCCATATCCCAGATATGGTCTTATACGGAAGCACATATCAC
2030253 A----CTGATGCCATATCCCAGATATGGTCTTATACGGAAGCACATAATCAC
1 ATCTCCTGATGCCATATCCCAGATATGGTCTTATACGGAAGCACAT-ATCAC
* * *
2030301 ATCTCTCTGATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACATATCAC
1 ATCTC-CTGATGCCATATCCCAGATATGGTCTTATACGG-AAGCACATATCAC
2030354 AT
1 AT
2030356 GTTGCCATGG
Statistics
Matches: 89, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
47 37 0.42
48 6 0.07
52 1 0.01
53 38 0.43
54 7 0.08
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (51 bp):
ATCTCCTGATGCCATATCCCAGATATGGTCTTATACGGAAGCACATATCAC
Done.