Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold82
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: 2626005
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.31
Warning! 196346 characters in sequence are not A, C, G, or T
File 11 of 17
Found at i:1441506 original size:22 final size:22
Alignment explanation
Indices: 1441459--1441524 Score: 75
Period size: 20 Copynumber: 3.1 Consensus size: 22
1441449 GTTTAGCTAA
* *
1441459 AAGAAAAGAGAG-AAAAGAGAG
1 AAGAAAAGAGAGAAAAAAATAG
1441480 AAAGAAAAGAGAGAAAAAAATAG
1 -AAGAAAAGAGAGAAAAAAATAG
*
1441503 AAG-AAA-ATAGAAAAAAATAG
1 AAGAAAAGAGAGAAAAAAATAG
1441523 AA
1 AA
1441525 AAACCCAAGC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
20 15 0.38
21 3 0.08
22 15 0.38
23 7 0.17
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.05
Consensus pattern (22 bp):
AAGAAAAGAGAGAAAAAAATAG
Found at i:1441507 original size:13 final size:13
Alignment explanation
Indices: 1441471--1441509 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
1441461 GAAAAGAGAG
*
1441471 AAAAGAGAGAAAG
1 AAAAGAGAGAAAA
1441484 AAAAGAGAGAAAA
1 AAAAGAGAGAAAA
1441497 AAATAGA-AGAAAA
1 AAA-AGAGAGAAAA
1441510 TAGAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 21 0.88
14 3 0.12
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (13 bp):
AAAAGAGAGAAAA
Found at i:1442636 original size:158 final size:159
Alignment explanation
Indices: 1442432--1442750 Score: 444
Period size: 164 Copynumber: 2.0 Consensus size: 159
1442422 GATAAAATTA
* * * ** *
1442432 AATTTTAATATTTTTTTAATCTTTTATGTTCCTATGGGCATTCGTAGGGGTGTAAAAGATTTC-A
1 AATTTTAATATTTTTCTAATCTTTTATATTCCTATAGGCAACCGTAGGGGTATAAAAGATTTCAA
* * * * *
1442496 -AAAACGTTTCGTATCCTTTTGGGCTTCCATTAGGGTACGAAATTGTATTTTCGAAAATAAATAA
66 GAAAACATTTCGTATCCTTTCGAGCTTCCATTAGGGTACGAAATAGTATTTTCAAAAATAAATAA
1442560 AATTAAATTGAATTAATACTTTCGAGATG
131 AATTAAATTGAATTAATACTTTCGAGATG
1442589 AATTTTAATTATTTTTCTAATCTTTTATATTCCTATAGGCAACCGTAGGGGTATAAAAGATTTCA
1 AATTTTAA-TATTTTTCTAATCTTTTATATTCCTATAGGCAACCGTAGGGGTATAAAAGATTTC-
* *
1442654 AAAAAGAAAACATTTTGTATCCTTTCGAGCTTCCATTAGGGTACGAAATAGTGTTTTCAAAAATA
64 ---AAGAAAACATTTCGTATCCTTTCGAGCTTCCATTAGGGTACGAAATAGTATTTTCAAAAATA
* *
1442719 AATAAAATTAAGTTGAATTAATACTTTTGAGA
126 AATAAAATTAAATTGAATTAATACTTTCGAGA
1442751 AAAATTTTTA
Statistics
Matches: 140, Mismatches: 15, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
157 8 0.06
158 49 0.35
163 1 0.01
164 82 0.59
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (159 bp):
AATTTTAATATTTTTCTAATCTTTTATATTCCTATAGGCAACCGTAGGGGTATAAAAGATTTCAA
GAAAACATTTCGTATCCTTTCGAGCTTCCATTAGGGTACGAAATAGTATTTTCAAAAATAAATAA
AATTAAATTGAATTAATACTTTCGAGATG
Found at i:1446939 original size:18 final size:19
Alignment explanation
Indices: 1446925--1446960 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1446915 ATGAAAAGAG
1446925 AGAAAAAA-TAAAAAAATA
1 AGAAAAAAGTAAAAAAATA
1446943 AGAAAAAAGTAAAAAAAT
1 AGAAAAAAGTAAAAAAAT
1446961 TAAAGATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (19 bp):
AGAAAAAAGTAAAAAAATA
Found at i:1446940 original size:19 final size:19
Alignment explanation
Indices: 1446918--1446959 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
1446908 TTAAAAAATG
1446918 AAAAGAGAGAAAAAA-TAAA
1 AAAAGA-AGAAAAAAGTAAA
*
1446937 AAAATAAGAAAAAAGTAAA
1 AAAAGAAGAAAAAAGTAAA
1446956 AAAA
1 AAAA
1446960 TTAAAGATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (19 bp):
AAAAGAAGAAAAAAGTAAA
Found at i:1446983 original size:33 final size:31
Alignment explanation
Indices: 1446945--1447006 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
1446935 AAAAAATAAG
1446945 AAAAAAGTAAAAAAATTAAAGATTAAAAAAAACC
1 AAAAAA-TAAAAAAA-TAAA-ATTAAAAAAAACC
* *
1446979 AAAAAATTAAAAAATCAAATTAAAAAAA
1 AAAAAATAAAAAAATAAAATTAAAAAAA
1447007 TTTGGTGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 10 0.38
32 3 0.12
33 7 0.27
34 6 0.23
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.16
Consensus pattern (31 bp):
AAAAAATAAAAAAATAAAATTAAAAAAAACC
Found at i:1448375 original size:40 final size:40
Alignment explanation
Indices: 1448141--1448386 Score: 174
Period size: 40 Copynumber: 6.1 Consensus size: 40
1448131 GACTTATTGG
* * * * *
1448141 TTTTGTCCTAGTTAACTTTGTACTCTTAATTGACTTGTCAA
1 TTTTATCCTAGTCAACTTT-TACTATTTATTGACTTGTCGA
* *
1448182 ATTTATCCTAGTCAACTTTTACTATTTATTGACTCGTC-A
1 TTTTATCCTAGTCAACTTTTACTATTTATTGACTTGTCGA
* * * *
1448221 GTTTTATCCCAGTCATCTTTTACTATTTATTGACTTGTTGG
1 -TTTTATCCTAGTCAACTTTTACTATTTATTGACTTGTCGA
* * * * * *
1448262 TTTCATCATGGTCAATCTTTT-TTCATTTGTTGACATGTCGA
1 TTTTATCCTAGTCAA-CTTTTACT-ATTTATTGACTTGTCGA
* * * * * * *
1448303 TTTTATTCTGGTTAATCTTTTGCT-CTCATTGACTTATCGA
1 TTTTATCCTAGTCAA-CTTTTACTATTTATTGACTTGTCGA
* * * *
1448343 TTTTATCCTAGTTAACCTTTACTATTTGTTGACTTATCGA
1 TTTTATCCTAGTCAACTTTTACTATTTATTGACTTGTCGA
1448383 TTTT
1 TTTT
1448387 GTCGATTTTG
Statistics
Matches: 160, Mismatches: 39, Indels: 13
0.75 0.18 0.06
Matches are distributed among these distances:
39 7 0.04
40 101 0.63
41 51 0.32
42 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.12, T:0.50
Consensus pattern (40 bp):
TTTTATCCTAGTCAACTTTTACTATTTATTGACTTGTCGA
Found at i:1448448 original size:41 final size:41
Alignment explanation
Indices: 1448385--1448477 Score: 125
Period size: 41 Copynumber: 2.3 Consensus size: 41
1448375 CTTATCGATT
* *
1448385 TTGTCGATTTTGTTTCAATCAACCTTTTACTCTTTA-TTGAC
1 TTGTCGATTTTGTCTCAATCAACCTGTTACTC-TTAGTTGAC
**
1448426 TTGTCGATTTTGTCTCGGTCAACCTGTTACTCTTAGTTGAC
1 TTGTCGATTTTGTCTCAATCAACCTGTTACTCTTAGTTGAC
*
1448467 TTATCGATTTT
1 TTGTCGATTTT
1448478 ATCCCAGTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 3 0.07
41 43 0.93
ACGTcount: A:0.17, C:0.19, G:0.14, T:0.49
Consensus pattern (41 bp):
TTGTCGATTTTGTCTCAATCAACCTGTTACTCTTAGTTGAC
Found at i:1450237 original size:24 final size:22
Alignment explanation
Indices: 1450198--1450248 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
1450188 ATGATTAATA
*
1450198 ATTTTAATTTTAATTTTCTCTT
1 ATTTTAATTTTAATTTTATCTT
* *
1450220 ATTTTAAATTTTTTATTTTATTTT
1 ATTTT-AA-TTTTAATTTTATCTT
1450244 ATTTT
1 ATTTT
1450249 TAAACTTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 5 0.21
23 2 0.08
24 17 0.71
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.73
Consensus pattern (22 bp):
ATTTTAATTTTAATTTTATCTT
Found at i:1450443 original size:14 final size:13
Alignment explanation
Indices: 1450416--1450456 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
1450406 AAATGCCATG
*
1450416 AAAAAATAAAATA
1 AAAAAAGAAAATA
1450429 AAAAAAGAAAGATA
1 AAAAAAGAAA-ATA
*
1450443 AAAGAAGAAAATA
1 AAAAAAGAAAATA
1450456 A
1 A
1450457 TAGTGGACGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (13 bp):
AAAAAAGAAAATA
Found at i:1451013 original size:13 final size:13
Alignment explanation
Indices: 1450995--1451020 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1450985 CACACCAAGA
1450995 TGTATCGATACAT
1 TGTATCGATACAT
1451008 TGTATCGATACAT
1 TGTATCGATACAT
1451021 GCTCGTTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1451031 original size:19 final size:20
Alignment explanation
Indices: 1451006--1451060 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
1450996 GTATCGATAC
*
1451006 ATTGTATCGATACATGCTC-
1 ATTGTATCGATACATGCCCA
* *
1451025 GTTGTATCGATACATACCCA
1 ATTGTATCGATACATGCCCA
1451045 ATTGTATCGATACATG
1 ATTGTATCGATACATG
1451061 AAATTGGCAG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (20 bp):
ATTGTATCGATACATGCCCA
Found at i:1451119 original size:20 final size:19
Alignment explanation
Indices: 1451091--1451161 Score: 88
Period size: 20 Copynumber: 3.6 Consensus size: 19
1451081 AAGTGAAATA
* *
1451091 TATCGATACATGGGACATTG
1 TATCAATACATGAGA-ATTG
1451111 TATCAATACATGAGAAATTG
1 TATCAATACATGAG-AATTG
*
1451131 TATCGATACATGAAGAATTG
1 TATCAATACATG-AGAATTG
1451151 TATCAATACAT
1 TATCAATACAT
1451162 TATGCCCAAC
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
20 42 0.93
21 3 0.07
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (19 bp):
TATCAATACATGAGAATTG
Found at i:1459856 original size:13 final size:13
Alignment explanation
Indices: 1459838--1459863 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1459828 CATTATGCTC
1459838 TGTATCGATACAT
1 TGTATCGATACAT
1459851 TGTATCGATACAT
1 TGTATCGATACAT
1459864 ACTCATTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1459893 original size:20 final size:19
Alignment explanation
Indices: 1459848--1459902 Score: 92
Period size: 19 Copynumber: 2.8 Consensus size: 19
1459838 TGTATCGATA
*
1459848 CATTGTATCGATACATACT
1 CATTGTATCGATACATACC
1459867 CATTGTATCGATACATACC
1 CATTGTATCGATACATACC
1459886 CAATTGTATCGATACAT
1 C-ATTGTATCGATACAT
1459903 GAAACTGGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.35
Consensus pattern (19 bp):
CATTGTATCGATACATACC
Found at i:1462047 original size:423 final size:423
Alignment explanation
Indices: 1461235--1462087 Score: 1670
Period size: 424 Copynumber: 2.0 Consensus size: 423
1461225 TAAATATAAA
1461235 AAATATAGGTGCTTTTGTGCAAATATCAAAATTTTGTTTTTCTAAGGCCAAATGGAGATGGCCAA
1 AAATATAGGTGCTTTTGTGCAAATATCAAAATTTTGTTTTTCTAAGGCCAAATGGAGATGGCCAA
1461300 ATCTGATTGGGAGATTTTGGATATAATTTTGTGATTATTTTGTATATTGATGCTTATTTTCGTGT
66 ATCTGATTGGGAGATTTTGGATATAATTTTGTGATTATTTTGTATATTGATGCTTATTTTCGTGT
*
1461365 TTTAATCATGTACGGACTAAATTAAAAAAATAAAAAAATTTTGCACTCATTAAGATAAATCATTC
131 TTTAATCATGTACGGACTAAATTAAAAAAATAAAAAAAATTTGCACTCATTAAGATAAATCATTC
1461430 ATTTAGAAGTGGGTCATTTTGAAAAAATTTTCTCATTCTTCTGGCCTTCTAGAGGGGTGAGAAAA
196 ATTTAGAAGTGGGTCATTTTGAAAAAATTTTCTCATTCTTCTGGCCTTCTAGAGGGGTGAGAAAA
1461495 ATTTTAAAACTCTCACATTCTCCTAGTTTTCCAAAAGGGTGTGAAACGTAATTTTGAAAAAATAA
261 ATTTTAAAACTCTCACATTCTCCTAGTTTTCCAAAAGGGTGTGAAACGTAATTTTGAAAAAATAA
1461560 ATTATGGGTAAATTTCATTTTTGCATTTTAAGTTAAAAAATGATAGATAATTATTTCAAAAAAAA
326 ATTATGGGTAAATTTCATTTTTGCATTTTAAGTTAAAAAATGATAGATAATTATTTCAAAAAAAA
1461625 TAAAAAATAAAAAATATTTATTTTGGATTTTTT
391 TAAAAAATAAAAAATATTTATTTTGGATTTTTT
1461658 AAATATAGGTGCTTTTGTGCAAATATCAAAATTTTGTTTTTCTAAGGCCAAATGGAGATGGCCAA
1 AAATATAGGTGCTTTTGTGCAAATATCAAAATTTTGTTTTTCTAAGGCCAAATGGAGATGGCCAA
1461723 ATCTGATTGGGAGATTTTGGATATAATTTTGTGATTATTTTGTATATTGATGCTTATTTTCGTGT
66 ATCTGATTGGGAGATTTTGGATATAATTTTGTGATTATTTTGTATATTGATGCTTATTTTCGTGT
1461788 TTTAATCATGTACGGACTAAATTAAAAAAATAAAAAAAAATTTGCACTCATTAAGATAAATCATT
131 TTTAATCATGTACGGACTAAATTAAAAAAAT-AAAAAAAATTTGCACTCATTAAGATAAATCATT
*
1461853 CATTTAGAGGTGGGTCATTTTGAAAAAATTTTCTCATTCTTCTGGCCTTCTAGAGGGGTGAGAAA
195 CATTTAGAAGTGGGTCATTTTGAAAAAATTTTCTCATTCTTCTGGCCTTCTAGAGGGGTGAGAAA
*
1461918 AATTTTAAAACTTTCACATTCTCCTAGTTTTCCAAAAGGGTGTGAAACGTAATTTTGAAAAAATA
260 AATTTTAAAACTCTCACATTCTCCTAGTTTTCCAAAAGGGTGTGAAACGTAATTTTGAAAAAATA
1461983 AATTATGGGTAAATTTCATTTTTGCATTTTAAGTTAAAAAATGATAGATAATTATTTCAAAAAAA
325 AATTATGGGTAAATTTCATTTTTGCATTTTAAGTTAAAAAATGATAGATAATTATTTCAAAAAAA
1462048 ATAAAAAATAAAAAATATTTATTTTGGATTTTTT
390 ATAAAAAATAAAAAATATTTATTTTGGATTTTTT
1462082 AAATAT
1 AAATAT
1462088 TCTTAGCACT
Statistics
Matches: 426, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
423 161 0.38
424 265 0.62
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (423 bp):
AAATATAGGTGCTTTTGTGCAAATATCAAAATTTTGTTTTTCTAAGGCCAAATGGAGATGGCCAA
ATCTGATTGGGAGATTTTGGATATAATTTTGTGATTATTTTGTATATTGATGCTTATTTTCGTGT
TTTAATCATGTACGGACTAAATTAAAAAAATAAAAAAAATTTGCACTCATTAAGATAAATCATTC
ATTTAGAAGTGGGTCATTTTGAAAAAATTTTCTCATTCTTCTGGCCTTCTAGAGGGGTGAGAAAA
ATTTTAAAACTCTCACATTCTCCTAGTTTTCCAAAAGGGTGTGAAACGTAATTTTGAAAAAATAA
ATTATGGGTAAATTTCATTTTTGCATTTTAAGTTAAAAAATGATAGATAATTATTTCAAAAAAAA
TAAAAAATAAAAAATATTTATTTTGGATTTTTT
Found at i:1462366 original size:29 final size:29
Alignment explanation
Indices: 1462305--1462487 Score: 177
Period size: 29 Copynumber: 6.3 Consensus size: 29
1462295 GGGGTCAACA
* * * *
1462305 TGTAATTTTGAAAAGTTGAAAGGTCAAAA
1 TGTAATTTTGAAAAGTTTAAGGGTTAAAG
** *
1462334 CATAATTTTGAAAATTTTAAGGGTTAAAG
1 TGTAATTTTGAAAAGTTTAAGGGTTAAAG
** * * *
1462363 CATAATTTTAAAAAGTTTAGGGGTTAATG
1 TGTAATTTTGAAAAGTTTAAGGGTTAAAG
* * * *
1462392 TGTAATTTGGAAAATTTTAGGGGTCAAAG
1 TGTAATTTTGAAAAGTTTAAGGGTTAAAG
* * *
1462421 TGTAATTTTGAAAAGCTTATGGGTTAAAA
1 TGTAATTTTGAAAAGTTTAAGGGTTAAAG
* *
1462450 TGTAATTTTGAAAAGCTTAAGGGTTAATG
1 TGTAATTTTGAAAAGTTTAAGGGTTAAAG
1462479 TGTAATTTT
1 TGTAATTTT
1462488 AGGTCACTAC
Statistics
Matches: 127, Mismatches: 27, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 127 1.00
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (29 bp):
TGTAATTTTGAAAAGTTTAAGGGTTAAAG
Found at i:1462417 original size:87 final size:87
Alignment explanation
Indices: 1462326--1462486 Score: 214
Period size: 87 Copynumber: 1.9 Consensus size: 87
1462316 AAAGTTGAAA
** * * *
1462326 GGTCAAAACATAATTTTGAAAATTTTAAGGGTTAAAGCATAATTTTAAAAAGTTTAGGGGTTAAT
1 GGTCAAAACATAATTTTGAAAAGCTTAAGGGTTAAAACATAATTTTAAAAAGCTTAAGGGTTAAT
1462391 GTGTAATTTGGAAAATTTTAGG
66 GTGTAATTTGGAAAATTTTAGG
*** * ** *
1462413 GGTCAAAGTGTAATTTTGAAAAGCTTATGGGTTAAAATGTAATTTTGAAAAGCTTAAGGGTTAAT
1 GGTCAAAACATAATTTTGAAAAGCTTAAGGGTTAAAACATAATTTTAAAAAGCTTAAGGGTTAAT
1462478 GTGTAATTT
66 GTGTAATTT
1462487 TAGGTCACTA
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
87 62 1.00
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (87 bp):
GGTCAAAACATAATTTTGAAAAGCTTAAGGGTTAAAACATAATTTTAAAAAGCTTAAGGGTTAAT
GTGTAATTTGGAAAATTTTAGG
Found at i:1462816 original size:156 final size:154
Alignment explanation
Indices: 1462588--1462879 Score: 340
Period size: 156 Copynumber: 1.9 Consensus size: 154
1462578 CCTAAGGTCC
* ** *
1462588 TTTTGGTAATTTCTCTAGAATCGAGTCCTAGATCGTCACTAGGTTGCTATTATGCCAAATGTGTG
1 TTTTGGTAATTTCTCTAAAATCGAGTCCTAGATCGTCACTAGGTCACTATTATGCCAAAGGTGTG
* * *
1462653 CATTTAGGATAAGTT-AGTCTTTTTCCTTATCTTTTTTA-TGTCTTTTAGAATTACCAAGATACT
66 CATTTAGGATAAGTTCA-TCCTTTT-ATTA-C-CTTTTAGTGTCTTTTAGAATTACCAAGATACT
1462716 TTCACGTCGATAGTATACCATATGGGAA
127 TTCACGTCGATAGTATACCATATGGGAA
* * * * * *
1462744 TTTTGGTAATTTCTCTAAAATTGAGTCTTAGGTCTTCA-TCATGTCACTTTTATGCCAAAGGTGT
1 TTTTGGTAATTTCTCTAAAATCGAGTCCTAGATCGTCACT-AGGTCACTATTATGCCAAAGGTGT
* ** * *
1462808 GCGA-TTAGGATAGGTTCATCCTTTTATTACCTTTTAGTGTCTTTTAGGGTTATCGAGATACTTT
65 GC-ATTTAGGATAAGTTCATCCTTTTATTACCTTTTAGTGTCTTTTAGAATTACCAAGATACTTT
1462872 CACGTCGA
129 CACGTCGA
1462880 AGGTTTACCT
Statistics
Matches: 114, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
153 5 0.04
154 32 0.28
155 4 0.04
156 71 0.62
157 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (154 bp):
TTTTGGTAATTTCTCTAAAATCGAGTCCTAGATCGTCACTAGGTCACTATTATGCCAAAGGTGTG
CATTTAGGATAAGTTCATCCTTTTATTACCTTTTAGTGTCTTTTAGAATTACCAAGATACTTTCA
CGTCGATAGTATACCATATGGGAA
Found at i:1465421 original size:21 final size:21
Alignment explanation
Indices: 1465391--1465444 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 21
1465381 GCCTACAATT
1465391 TGTATCGATACAATAAG-GTAA
1 TGTATCGATACAATAAGTG-AA
*
1465412 TGTATTGATAC-ATAAGTGAA
1 TGTATCGATACAATAAGTGAA
1465432 TGTATCGATACAA
1 TGTATCGATACAA
1465445 CTTTGAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.31
Consensus pattern (21 bp):
TGTATCGATACAATAAGTGAA
Found at i:1470833 original size:16 final size:16
Alignment explanation
Indices: 1470808--1470887 Score: 76
Period size: 16 Copynumber: 5.0 Consensus size: 16
1470798 AACCCTAAAT
1470808 AACCCGAAATGACCTG
1 AACCCGAAATGACCTG
*
1470824 AACTCGAAATGA-CTCG
1 AACCCGAAATGACCT-G
*
1470840 AACCCAAAATGATCC-G
1 AACCCGAAATGA-CCTG
1470856 AACCCGAAATGATCC-G
1 AACCCGAAATGA-CCTG
* *
1470872 AACCCAAAATAACCTG
1 AACCCGAAATGACCTG
1470888 GACAATTAAC
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
15 4 0.07
16 49 0.91
18 1 0.02
ACGTcount: A:0.41, C:0.30, G:0.15, T:0.14
Consensus pattern (16 bp):
AACCCGAAATGACCTG
Found at i:1470850 original size:32 final size:32
Alignment explanation
Indices: 1470808--1470887 Score: 101
Period size: 32 Copynumber: 2.5 Consensus size: 32
1470798 AACCCTAAAT
* *
1470808 AACCCGAAATGACCTGAACTCGAAATGA-CTCG
1 AACCCAAAATGACCTGAACCCGAAATGATC-CG
1470840 AACCCAAAATGATCC-GAACCCGAAATGATCCG
1 AACCCAAAATGA-CCTGAACCCGAAATGATCCG
*
1470872 AACCCAAAATAACCTG
1 AACCCAAAATGACCTG
1470888 GACAATTAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
31 2 0.05
32 37 0.88
33 3 0.07
ACGTcount: A:0.41, C:0.30, G:0.15, T:0.14
Consensus pattern (32 bp):
AACCCAAAATGACCTGAACCCGAAATGATCCG
Found at i:1471723 original size:16 final size:16
Alignment explanation
Indices: 1471702--1471743 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
1471692 TAAACCTGAT
1471702 TGACCCAAA-TTCGAAA
1 TGACCCAAACTT-GAAA
1471718 TGACCCAAACTTGAAA
1 TGACCCAAACTTGAAA
*
1471734 TGATCCAAAC
1 TGACCCAAAC
1471744 CCGAAATAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 22 0.92
17 2 0.08
ACGTcount: A:0.43, C:0.26, G:0.12, T:0.19
Consensus pattern (16 bp):
TGACCCAAACTTGAAA
Found at i:1471749 original size:16 final size:16
Alignment explanation
Indices: 1471713--1471770 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
1471703 GACCCAAATT
* *
1471713 CGAAATGACCCAAACT
1 CGAAATGATCCAAACC
*
1471729 TGAAATGATCCAAACC
1 CGAAATGATCCAAACC
* *
1471745 CGAAAT-AACTCGAACC
1 CGAAATGATC-CAAACC
1471761 CGAAATGATC
1 CGAAATGATC
1471771 TGAACTCGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
15 2 0.06
16 29 0.88
17 2 0.06
ACGTcount: A:0.43, C:0.28, G:0.14, T:0.16
Consensus pattern (16 bp):
CGAAATGATCCAAACC
Found at i:1471775 original size:16 final size:16
Alignment explanation
Indices: 1471730--1471781 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
1471720 ACCCAAACTT
**
1471730 GAAATGATCCAAACCC
1 GAAATGATCTGAACCC
*
1471746 GAAAT-AACTCGAACCC
1 GAAATGATCT-GAACCC
*
1471762 GAAATGATCTGAACTC
1 GAAATGATCTGAACCC
1471778 GAAA
1 GAAA
1471782 ACGACTCGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 2 0.07
16 24 0.83
17 3 0.10
ACGTcount: A:0.44, C:0.25, G:0.15, T:0.15
Consensus pattern (16 bp):
GAAATGATCTGAACCC
Found at i:1473305 original size:23 final size:22
Alignment explanation
Indices: 1473279--1473330 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
1473269 TATTTTAGGA
1473279 AATTTAATTAAAATTCTTAATTT
1 AATTTAATT-AAATTCTTAATTT
*
1473302 AATTCTAATTAAATTGTTAATTT
1 AATT-TAATTAAATTCTTAATTT
*
1473325 TATTTA
1 AATTTA
1473331 CTAAGATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 2 0.08
23 19 0.73
24 5 0.19
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (22 bp):
AATTTAATTAAATTCTTAATTT
Found at i:1473310 original size:11 final size:12
Alignment explanation
Indices: 1473282--1473323 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
1473272 TTTAGGAAAT
1473282 TTAATTAAAATTC
1 TTAATT-AAATTC
*
1473295 TTAATTTAATTC
1 TTAATTAAATTC
*
1473307 -TAATTAAATTG
1 TTAATTAAATTC
1473318 TTAATT
1 TTAATT
1473324 TTATTTACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
11 9 0.36
12 10 0.40
13 6 0.24
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.52
Consensus pattern (12 bp):
TTAATTAAATTC
Found at i:1473620 original size:21 final size:21
Alignment explanation
Indices: 1473570--1473620 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
1473560 TTTATAAATG
*
1473570 AATATTTAAATAAGATTATTTA
1 AATA-TTAAATAAGATTATATA
* *
1473592 GATATTAAATTAGA-TATATA
1 AATATTAAATAAGATTATATA
1473612 AATAGTTAA
1 AATA-TTAA
1473621 TTTACCCATA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 8 0.33
21 13 0.54
22 3 0.12
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (21 bp):
AATATTAAATAAGATTATATA
Found at i:1473736 original size:37 final size:36
Alignment explanation
Indices: 1473695--1473770 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 36
1473685 GAAATGTACT
* * * *
1473695 TATTCTTGTCTTTAATAAATATTTATTTTAAATTAAA
1 TATTCTTGTCTTAAATAAAAATTTA-CTCAAATTAAA
1473732 TATTCTTGTCTTAAATAAAAATTTACTCAAATTAAA
1 TATTCTTGTCTTAAATAAAAATTTACTCAAATTAAA
1473768 TAT
1 TAT
1473771 ATATATCTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
36 12 0.34
37 23 0.66
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.49
Consensus pattern (36 bp):
TATTCTTGTCTTAAATAAAAATTTACTCAAATTAAA
Found at i:1473747 original size:20 final size:20
Alignment explanation
Indices: 1473695--1473747 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 20
1473685 GAAATGTACT
*
1473695 TATTCTTGTCTTTAA-TAAA
1 TATTCTTGTCTTAAATTAAA
1473714 TATT-TAT-T-TTAAATTAAA
1 TATTCT-TGTCTTAAATTAAA
1473732 TATTCTTGTCTTAAAT
1 TATTCTTGTCTTAAAT
1473748 AAAAATTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 9
0.74 0.03 0.24
Matches are distributed among these distances:
17 4 0.14
18 11 0.39
19 7 0.25
20 6 0.21
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.55
Consensus pattern (20 bp):
TATTCTTGTCTTAAATTAAA
Found at i:1475827 original size:15 final size:15
Alignment explanation
Indices: 1475807--1475861 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 15
1475797 TTATTTATGA
1475807 ATATAATTTTAGTAT
1 ATATAATTTTAGTAT
1475822 ATATAATTTTTTAGTATT
1 ATATAA--TTTTAGTA-T
*
1475840 ACATAAGATTTTAGTAT
1 ATAT-A-ATTTTAGTAT
1475857 ATATA
1 ATATA
1475862 TTAAAAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
15 6 0.18
16 1 0.03
17 12 0.36
18 12 0.36
19 1 0.03
20 1 0.03
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (15 bp):
ATATAATTTTAGTAT
Found at i:1475827 original size:33 final size:34
Alignment explanation
Indices: 1475790--1475861 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 34
1475780 AGTTAAATAT
1475790 TATAATTTTATT-TATGA-ATATA-ATTTTAGTATA
1 TATAATTTT-TTATATGACATA-AGATTTTAGTATA
*
1475823 TATAATTTTTTAGTATTACATAAGATTTTAGTATA
1 TATAATTTTTTA-TATGACATAAGATTTTAGTATA
1475858 TATA
1 TATA
1475862 TTAAAAATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
32 2 0.06
33 9 0.26
34 5 0.15
35 18 0.53
ACGTcount: A:0.39, C:0.01, G:0.07, T:0.53
Consensus pattern (34 bp):
TATAATTTTTTATATGACATAAGATTTTAGTATA
Found at i:1475835 original size:17 final size:17
Alignment explanation
Indices: 1475812--1475861 Score: 64
Period size: 18 Copynumber: 2.9 Consensus size: 17
1475802 TATGAATATA
*
1475812 ATTTTAGTATATATAAT
1 ATTTTAGTATATATAAG
* *
1475829 TTTTTAGTATTACATAAG
1 ATTTTAGTA-TATATAAG
1475847 ATTTTAGTATATATA
1 ATTTTAGTATATATA
1475862 TTAAAAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (17 bp):
ATTTTAGTATATATAAG
Found at i:1475903 original size:19 final size:20
Alignment explanation
Indices: 1475862--1475907 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
1475852 AGTATATATA
*
1475862 TTAAAAATATAAAAATACTT
1 TTAAAAATATAAAAATACGT
1475882 TTAAAAATA-AAATAATA-GT
1 TTAAAAATATAAA-AATACGT
1475901 TTAAAAA
1 TTAAAAA
1475908 AAGAGATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
TTAAAAATATAAAAATACGT
Found at i:1477327 original size:39 final size:40
Alignment explanation
Indices: 1477256--1477332 Score: 95
Period size: 39 Copynumber: 1.9 Consensus size: 40
1477246 TTTTTGATAT
* * **
1477256 AATAATTTTTAATTTAGATTAATTTTTTAAATA-ATAAAA
1 AATAATTTTTAATTTAAATTAATTATAAAAATATATAAAA
1477295 AATAATTTTT-ATTTAAATTTAATTATAAAAATATATAA
1 AATAATTTTTAATTTAAA-TTAATTATAAAAATATATAA
1477333 TTATTAATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
38 6 0.19
39 22 0.69
40 4 0.12
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (40 bp):
AATAATTTTTAATTTAAATTAATTATAAAAATATATAAAA
Found at i:1483962 original size:33 final size:32
Alignment explanation
Indices: 1483901--1483965 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
1483891 CCTTAACTGT
1483901 TTGTATCGATACATACAAGATGTATCGATACA
1 TTGTATCGATACATACAAGATGTATCGATACA
*
1483933 TTGTATCGATATATGACCAA-ATGTATCGATACA
1 TTGTATCGATACAT-A-CAAGATGTATCGATACA
1483966 CTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.43
33 14 0.47
34 3 0.10
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACATACAAGATGTATCGATACA
Found at i:1486080 original size:21 final size:20
Alignment explanation
Indices: 1486056--1486106 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
1486046 TAATATTCTT
*
1486056 GAAAAGAAATTAAGTGAATTA
1 GAAAAGAAATCAA-TGAATTA
1486077 GAAAAGAAAATCAATGAATTA
1 GAAAAG-AAATCAATGAATTA
*
1486098 GAAGAGAAA
1 GAAAAGAAA
1486107 AGAAATGAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 3 0.11
21 18 0.67
22 6 0.22
ACGTcount: A:0.61, C:0.02, G:0.20, T:0.18
Consensus pattern (20 bp):
GAAAAGAAATCAATGAATTA
Found at i:1486113 original size:21 final size:21
Alignment explanation
Indices: 1486056--1486114 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
1486046 TAATATTCTT
** *
1486056 GAAAAGAAATTAAGTGAATTA
1 GAAAAGAAAAGAAATGAATTA
**
1486077 GAAAAGAAAATCAATGAATTA
1 GAAAAGAAAAGAAATGAATTA
*
1486098 GAAGAGAAAAGAAATGA
1 GAAAAGAAAAGAAATGA
1486115 GTTGCAAGTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.61, C:0.02, G:0.20, T:0.17
Consensus pattern (21 bp):
GAAAAGAAAAGAAATGAATTA
Found at i:1489883 original size:13 final size:13
Alignment explanation
Indices: 1489865--1489889 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1489855 ATAATGCACA
1489865 GTATCGATACATT
1 GTATCGATACATT
1489878 GTATCGATACAT
1 GTATCGATACAT
1489890 GACCATTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1489996 original size:13 final size:13
Alignment explanation
Indices: 1489978--1490003 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1489968 ACATACAAGA
1489978 TGTATCGATACAT
1 TGTATCGATACAT
1489991 TGTATCGATACAT
1 TGTATCGATACAT
1490004 GACCAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1490001 original size:32 final size:33
Alignment explanation
Indices: 1489958--1490025 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
1489948 CCTTAACTGT
*
1489958 TTGTATTGATACAT-A-CAAGATGTATCGATACA
1 TTGTATCGATACATGACCAA-ATGTATCGATACA
*
1489990 TTGTATCGATACATGACCAAATGTATCGATGCA
1 TTGTATCGATACATGACCAAATGTATCGATACA
1490023 TTG
1 TTG
1490026 GCTTGTAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 13 0.41
33 16 0.50
34 3 0.09
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACATGACCAAATGTATCGATACA
Found at i:1492960 original size:1 final size:1
Alignment explanation
Indices: 1492954--1493032 Score: 68
Period size: 1 Copynumber: 79.0 Consensus size: 1
1492944 AAATCTTCAC
* * ** * ** *
1492954 TTTTTTTTTTGTTTTTTTTTTTTCTTTTTCCTTTTTTTTTTTTTCTTTTTCCTTTTTTTTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
1493019 GTTTTTTTCTTTTT
1 TTTTTTTTTTTTTT
1493033 CCAATTGCCA
Statistics
Matches: 62, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.00, C:0.09, G:0.04, T:0.87
Consensus pattern (1 bp):
T
Found at i:1492989 original size:21 final size:21
Alignment explanation
Indices: 1492965--1493032 Score: 102
Period size: 21 Copynumber: 3.2 Consensus size: 21
1492955 TTTTTTTTTG
1492965 TTTTTTTTTTTTCTTTTTCCT
1 TTTTTTTTTTTTCTTTTTCCT
1492986 TTTTTTTTTTTTCTTTTTCCT
1 TTTTTTTTTTTTCTTTTTCCT
*
1493007 TTTTTTTGTTTTGT-TTTTTTCT
1 TTTTTTT-TTTT-TCTTTTTCCT
1493029 TTTT
1 TTTT
1493033 CCAATTGCCA
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
21 28 0.64
22 15 0.34
23 1 0.02
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (21 bp):
TTTTTTTTTTTTCTTTTTCCT
Found at i:1492989 original size:29 final size:27
Alignment explanation
Indices: 1492954--1493033 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 27
1492944 AAATCTTCAC
1492954 TTTTTTTTTTGTTTTTTTTTTTTCTTT
1 TTTTTTTTTTGTTTTTTTTTTTTCTTT
* *
1492981 TTCCTTTTTTTT-TTTTTCTTTTTCCTTT
1 TT--TTTTTTTTGTTTTTTTTTTTTCTTT
*
1493009 TTTTTGTTTTGTTTTTTTCTTTTTC
1 TTTTTTTTTTGTTTTTTT-TTTTTC
1493034 CAATTGCCAT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
26 7 0.16
27 8 0.18
28 21 0.48
29 8 0.18
ACGTcount: A:0.00, C:0.10, G:0.04, T:0.86
Consensus pattern (27 bp):
TTTTTTTTTTGTTTTTTTTTTTTCTTT
Found at i:1502074 original size:20 final size:20
Alignment explanation
Indices: 1502046--1502120 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
1502036 TTTTACCTTG
1502046 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
1502066 ATATATCGATACATATATGA
1 ATGTATCGATACATTTTTCA
* * *
1502086 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
*
1502106 ATGTATCAATACATT
1 ATGTATCGATACATT
1502121 ATGTCTTTTT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1502118 original size:40 final size:39
Alignment explanation
Indices: 1502046--1502123 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
1502036 TTTTACCTTG
* * *
1502046 ATGTATCGATACATTTTTCAATATATCGATACATATATGA
1 ATGTATCGATACATTCTACAATATATCAATACAT-TATGA
* *
1502086 ATGTATCGATATATTCTACAATGTATCAATACATTATG
1 ATGTATCGATACATTCTACAATATATCAATACATTATG
1502124 TCTTTTTACC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCAATACATTATGA
Found at i:1509243 original size:35 final size:34
Alignment explanation
Indices: 1509166--1509243 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 34
1509156 CCTTTAAATG
*
1509166 ACAAAAAAAAGTCAAAAGCAAAAGCACAAAGAAA
1 ACAAAAAAAAGTCAAAAGCAAAAGCAAAAAGAAA
* * *
1509200 AGAAAAAAAAGTGCAAAAGCAAAA-TAAAAAGAGA
1 ACAAAAAAAAGT-CAAAAGCAAAAGCAAAAAGAAA
*
1509234 ACAACAAAAA
1 ACAAAAAAAA
1509244 TAAAAAACGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
34 26 0.70
35 11 0.30
ACGTcount: A:0.72, C:0.12, G:0.13, T:0.04
Consensus pattern (34 bp):
ACAAAAAAAAGTCAAAAGCAAAAGCAAAAAGAAA
Found at i:1510638 original size:27 final size:27
Alignment explanation
Indices: 1510561--1511079 Score: 815
Period size: 27 Copynumber: 19.0 Consensus size: 27
1510551 TGGCATTTCT
*
1510561 TTTTGAAGTCCACAACTCCGTGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
*
1510589 TTTTAAAGTCCACAACTCTGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
* *
1510617 TTTTAAATCCACAACTCCGTGGCACTC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
1510644 TTTTAAAGTCCACAACTCCGTGGCACTC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
1510672 TTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
1510700 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
** *
1510727 TTCAAAGTCCACAACTCCGTGGCACTC
1 TTTTAAGTCCACAACTCCGTGGCACCC
1510754 TTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
*
1510782 TTTTAAGTCCACAACTCTGTGGCA-CC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* * *
1510808 TTTCAAAGTCCACAACTCCGTAGCACCT
1 TTT-TAAGTCCACAACTCCGTGGCACCC
*
1510836 TTTTAAGTCCACAACTCCGTGGCACCT
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
1510863 TTTTAACTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
1510890 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
1510917 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
1510944 TTTTAAGTCCACAACTCCGTGGCATCCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCC
* *
1510972 CTTTAAGACCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
1510999 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
1511026 TTTTAAGTCCACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
1511053 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
1511080 ATTTCAAAGC
Statistics
Matches: 456, Mismatches: 30, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
26 5 0.01
27 314 0.69
28 137 0.30
ACGTcount: A:0.24, C:0.35, G:0.14, T:0.27
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCACCC
Found at i:1510772 original size:82 final size:82
Alignment explanation
Indices: 1510566--1511077 Score: 802
Period size: 82 Copynumber: 6.3 Consensus size: 82
1510556 TTTCTTTTTG
* *
1510566 AAGTCCACAACTCCGTGGCA-TCCTTTTAAAGTCCACAACTCTGTGGCACCCTTTTAAATCCACA
1 AAGTCCACAACTCCGTGGCACT-CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACA
*
1510630 ACTCCGTGGCACTCTTTTA
65 ACTCCGTGGCAC-CCTTTA
1510649 AAGTCCACAACTCCGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
*
1510714 CTCCGTGGCACCCTTCA
66 CTCCGTGGCACCCTTTA
1510731 AAGTCCACAACTCCGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
*
1510796 CTCTGTGGCA-CCTTTCA
66 CTCCGTGGCACCCTTT-A
* * * *
1510813 AAGTCCACAACTCCGTAGCAC-CTTTTTAAGTCCACAACTCCGTGGCACCTTTTTAACTCCACAA
1 AAGTCCACAACTCCGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
*
1510877 CTCCGTGGCACCCTTTT
66 CTCCGTGGCACCCTTTA
*
1510894 AAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
1510958 CTCCGTGGCATCCCCTTT-
66 CTCCGTGGCA--CCCTTTA
* *
1510976 AAGACCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
* *
1511040 CTCTGTGGCACCCTTTT
66 CTCCGTGGCACCCTTTA
1511057 AAGTCCACAACTCCGTGGCAC
1 AAGTCCACAACTCCGTGGCAC
1511078 CCATTTCAAA
Statistics
Matches: 404, Mismatches: 18, Indels: 16
0.92 0.04 0.04
Matches are distributed among these distances:
80 6 0.01
81 138 0.34
82 181 0.45
83 78 0.19
84 1 0.00
ACGTcount: A:0.24, C:0.36, G:0.14, T:0.26
Consensus pattern (82 bp):
AAGTCCACAACTCCGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
CTCCGTGGCACCCTTTA
Found at i:1511152 original size:64 final size:61
Alignment explanation
Indices: 1511062--1512478 Score: 1279
Period size: 64 Copynumber: 23.7 Consensus size: 61
1511052 CTTTTAAGTC
* * * *
1511062 CACAACTCCGTGGCACCCATTTCAAAGCTCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGC-ACCC-TTTCAAAGCCCA
* * * *
1511125 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCAGTGGC-ACCCATTTCAAAGCCCACACAAGTCAGTGGC-ACCC-TTTCAAAGCCCA
* * * * *
1511189 CACAAGTCGGTGGCAACCCATTCCAAAGCCCAGACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCAGTGGC-ACCCATTTCAAAGCCCACACAAGTCAGTGGC-ACCC-TTTCAAAGCCCA
* * * *
1511253 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCAGTGGC-ACCCATTTCAAAGCCCACACAAGTCAGTGGC-ACCC-TTTCAAAGCCCA
* * * *
1511317 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCAGTGGC-ACCCATTTCAAAGCCCACACAAGTCAGTGGC-ACCC-TTTCAAAGCCCA
* * *
1511381 CACAAGTCGGTGGCAACCCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAG
1 CACAAGTCAGTGG-----C-ACCCATTTCAAAGCCCACACAAGTCAGTGGC-ACCC-TTTCAAAG
1511446 CCCA
58 CCCA
* ** *
1511450 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTTGGTGGCAACCTATTTCAAAGCCCA
1 CACAAGTCAGTGGC-ACCCATTTCAAAGCCCACACAAGTCAGTGGC-ACC-CTTTCAAAGCCCA
* * * * *
1511514 CATAAGTCGGTGGCAACCCATTTCAAAACCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCAGTGGC-ACCCATTTCAAAGCCCACACAAGTCAGTGGC-ACCC-TTTCAAAGCCCA
*
1511578 CACAAGTCAGTGGCACTCC-TTTCAAAG-CC-TACAAGTCAGTGGCACTCCTTTCAAAG-CC-
1 CACAAGTCAGTGGCAC-CCATTTCAAAGCCCACACAAGTCAGTGGCAC-CCTTTCAAAGCCCA
* * * *
1511636 CACAAGTCAGTGGCACTCTTTTCAAAG-CC-CACAAGTTAGTGGCACTCTTTTCAAAG-CC-
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCAC-CCTTTCAAAGCCCA
* * *
1511694 CACAAGTCAGTGGCACCC-TTTCAAAG-CC-CACAAGTTAGTGGCACCCTTTTAGAG-CC-
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCA
* *
1511750 CATAAGTCAGTGGCACCC-TTTTAAAGCCCACACAAGTCAGTGGCACTCCTTTCAAAG-CC-
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCAC-CCTTTCAAAGCCCA
* * *
1511809 CACAAGTCCGTGGCACTCC-TTTAAAAG-CC-CACAAGTCAGTGGCACTCTTTTCAAAGCCCA
1 CACAAGTCAGTGGCAC-CCATTTCAAAGCCCACACAAGTCAGTGGCAC-CCTTTCAAAGCCCA
* *
1511869 CA-AA-TCAGTGGCACTCTTTTCAAAGCCCACA-AA-TCAGTGGCACCCTTTCAAAG-CC-
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCA
* * *
1511924 CACAAGTTAGTGGCACCC-TTTCAAAG-CC-CACAAGTTAGTGGCACCCTTTCGAAG-CC-
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCA
* * * *
1511980 CACAAGTCAGTGGCA-CCATTGCGAAG-CC-CACAATTCAGTGGCACTCTTTCAAAG-CC-
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCA
* * *
1512036 CACAAGTCAGTGGCACCC-TTTTAAAGCCCACACAAGTCAGTGGCACTCCTTTTAAAGCTCA
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCAC-CCTTTCAAAGCCCA
* * * * * *
1512097 CGCAAGTCAGTGGTA-CCTTTTCAAA-TCC-CACGAGTCAGTGGCACTCTTTCAAAG-CC-
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCA
* * *
1512153 CACAAGTCAGTGGCATCC-TTTCAAAG-CC-CACGAGTTAGTGGCACCCTTTCAAAGCCCA
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCA
* *
1512211 CACAAGTCAGTGGCACTCC-TTTCAAAGCCCACGCAAGTCAGTGGCACCTTTTCAAAG-CC-
1 CACAAGTCAGTGGCAC-CCATTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCA
* * *
1512270 CACGAGTCAGTGGCACTC-TTTCAAAG-CC-CACAAGTCAGTGGCACCCTTTC--AGGCC-
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCA
** * * *
1512325 CATGAGTCAGTGGTA-CCTTTTCAAAG-CC-CACGAGTCAGTGGCA-CCTTTCAAAG-CC-
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCA
* * * * *
1512380 CACAAGTTAGTGGCACTC-TTTCAAAG-CC-CACGAGTCAGTGGCATCCTTTTAAAGCCCA
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCA
* * * * *
1512438 CGCAAATCAGTGGCACCC-TTTTAAAGCTCACGCAAGTCAGT
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCACACAAGTCAGT
1512479 AACACTCTTT
Statistics
Matches: 1205, Mismatches: 100, Indels: 101
0.86 0.07 0.07
Matches are distributed among these distances:
54 11 0.01
55 85 0.07
56 209 0.17
57 62 0.05
58 204 0.17
59 85 0.07
60 40 0.03
61 55 0.05
62 2 0.00
63 21 0.02
64 368 0.31
69 63 0.05
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.19
Consensus pattern (61 bp):
CACAAGTCAGTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCA
Found at i:1511184 original size:96 final size:89
Alignment explanation
Indices: 1511062--1512478 Score: 1291
Period size: 96 Copynumber: 15.8 Consensus size: 89
1511052 CTTTTAAGTC
* * *
1511062 CACAACTCCGTGGCACCCATTTCAAAGCTCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACA
1 CACAAGTCAGTGGCACCCATTTCAAAGC-C-CACAAGTCAGTGGC-ACCC-TTTCAAAGCCCACA
* *
1511127 CAAGTCGGTGGCAACCCATTCCAAAGCCCA
62 CAAGTCAGTGGC-ACCC-TTTCAAAGCCCA
* * * * *
1511157 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCAG
1 CACAAGTCAGTGGC-ACCCATTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAGCCCAC
* *
1511222 ACAAGTCGGTGGCAACCCATTCCAAAGCCCA
61 ACAAGTCAGTGGC-ACCC-TTTCAAAGCCCA
* * * *
1511253 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCAC
1 CACAAGTCAGTGGC-ACCCATTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAGCCCAC
* *
1511318 ACAAGTCGGTGGCAACCCATTCCAAAGCCCA
61 ACAAGTCAGTGGC-ACCC-TTTCAAAGCCCA
* * * *
1511349 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCAACCCATTCCAAAG
1 CACAAGTCAGTGGC-ACCCATTTCAAAG-CC-CACAAGTCAGTGG-----C-ACCC-TTTCAAAG
*
1511414 CCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
56 CCCACACAAGTCAGTGGC-ACCC-TTTCAAAGCCCA
* ** *
1511450 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTTGGTGGCAACCTATTTCAAAGCCCAC
1 CACAAGTCAGTGGC-ACCCATTTCAAAG-CC-CACAAGTCAGTGGC-ACC-CTTTCAAAGCCCAC
* * *
1511515 ATAAGTCGGTGGCAACCCATTTCAAAACCCA
61 ACAAGTCAGTGGC-ACCC-TTTCAAAGCCCA
* * *
1511546 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCAGTGGCACTCCTTTCAAAG-CC-TA
1 CACAAGTCAGTGGC-ACCCATTTCAAAG-CC-CACAAGTCAGTGGCAC-CCTTTCAAAGCCCACA
1511609 CAAGTCAGTGGCACTCCTTTCAAAG-CC-
62 CAAGTCAGTGGCAC-CCTTTCAAAGCCCA
* * * *
1511636 CACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAG-CC-CACAA
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACACAA
1511699 GTCAGTGGCACCCTTTCAAAG-CC-
65 GTCAGTGGCACCCTTTCAAAGCCCA
* * * * *
1511722 CACAAGTTAGTGGCACCC-TTTTAGAGCCCATAAGTCAGTGGCACCCTTTTAAAGCCCACACAAG
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAG
1511786 TCAGTGGCACTCCTTTCAAAG-CC-
66 TCAGTGGCAC-CCTTTCAAAGCCCA
* * *
1511809 CACAAGTCCGTGGCACTCC-TTTAAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA-A
1 CACAAGTCAGTGGCAC-CCATTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACACA
*
1511872 A-TCAGTGGCACTCTTTTCAAAGCCCA
64 AGTCAGTGGCAC-CCTTTCAAAGCCCA
*
1511898 CA-AA-TCAGTGGCACCC-TTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAG-CC-CACAAG
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAG
* *
1511958 TTAGTGGCACCCTTTCGAAG-CC-
66 TCAGTGGCACCCTTTCAAAGCCCA
* * * *
1511980 CACAAGTCAGTGGCA-CCATTGCGAAGCCCACAATTCAGTGGCACTCTTTCAAAG-CC-CACAAG
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAG
*
1512042 TCAGTGGCACCCTTTTAAAGCCCA
66 TCAGTGGCACCCTTTCAAAGCCCA
* * * * *
1512066 CACAAGTCAGTGGCACTCC-TTTTAAAGCTCACGCAAGTCAGTGGTACCTTTTCAAA-TCC-CAC
1 CACAAGTCAGTGGCAC-CCATTTCAAAGC-C-CACAAGTCAGTGGCACCCTTTCAAAGCCCACAC
* *
1512128 GAGTCAGTGGCACTCTTTCAAAG-CC-
63 AAGTCAGTGGCACCCTTTCAAAGCCCA
* * *
1512153 CACAAGTCAGTGGCATCC-TTTCAAAGCCCACGAGTTAGTGGCACCCTTTCAAAGCCCACACAAG
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAG
1512217 TCAGTGGCACTCCTTTCAAAGCCCA
66 TCAGTGGCAC-CCTTTCAAAGCCCA
* * * *
1512242 CGCAAGTCAGTGGCA-CCTTTTCAAAGCCCACGAGTCAGTGGCACTCTTTCAAAG-CC-CACAAG
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAG
*
1512304 TCAGTGGCACCCTTTC--AGGCC-
66 TCAGTGGCACCCTTTCAAAGCCCA
** * * *
1512325 CATGAGTCAGTGGTA-CCTTTTCAAAGCCCACGAGTCAGTGGCA-CCTTTCAAAG-CC-CACAAG
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAG
* *
1512386 TTAGTGGCACTCTTTCAAAG-CC-
66 TCAGTGGCACCCTTTCAAAGCCCA
* * * * * * *
1512408 CACGAGTCAGTGGCATCC-TTTTAAAGCCCACGCAAATCAGTGGCACCCTTTTAAAGCTCACGCA
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCA--CAAGTCAGTGGCACCCTTTCAAAGCCCACACA
1512472 AGTCAGT
64 AGTCAGT
1512479 AACACTCTTT
Statistics
Matches: 1179, Mismatches: 100, Indels: 93
0.86 0.07 0.07
Matches are distributed among these distances:
82 33 0.03
83 73 0.06
84 113 0.10
85 58 0.05
86 125 0.11
87 144 0.12
88 53 0.04
89 119 0.10
90 13 0.01
91 2 0.00
92 9 0.01
93 13 0.01
94 2 0.00
95 22 0.02
96 306 0.26
97 1 0.00
101 93 0.08
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.19
Consensus pattern (89 bp):
CACAAGTCAGTGGCACCCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAG
TCAGTGGCACCCTTTCAAAGCCCA
Found at i:1511724 original size:28 final size:28
Alignment explanation
Indices: 1510570--1512478 Score: 1433
Period size: 28 Copynumber: 65.4 Consensus size: 28
1510560 TTTTTGAAGT
* * * * *
1510570 CCACAACTCCGTGGCATCCTTTTAAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
1510598 CCACAACTCTGTGGCACCCTTTTAAA-T
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * * *
1510625 CCACAACTCCGTGGCACTCTTTTAAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * * *
1510653 CCACAACTCCGTGGCACTCTTTTAAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
1510681 CCACAACTCCGTGGCACCCTTT-TAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
1510708 CCACAACTCCGTGGCACCC-TTCAAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * * *
1510735 CCACAACTCCGTGGCACTCTTTTAAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
1510763 CCACAACTCCGTGGCACCCTTT-TAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
1510790 CCACAACTCTGTGGCA-CCTTTCAAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * ** *
1510817 CCACAACTCCGTAGCA-CCTTTTTAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * **
1510844 CCACAACTCCGTGGCA-CCTTTTTAA-C
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
1510870 TCCACAACTCCGTGGCACCCTTT-TAAGT
1 -CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
1510898 CCACAACTCCGTGGCACCCTTT-TAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
1510925 CCACAACTCCGTGGCACCCTTT-TAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
1510952 CCACAACTCCGTGGCATCCCCTTT--AAGA
1 CCACAAGTCAGTGGCA--CCCTTTCAAAGC
* * * *
1510980 CCACAACTCCGTGGCACCCTTT-TAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
1511007 CCACAACTCCGTGGCACCCTTT-TAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
1511034 CCACAACTCTGTGGCACCCTTT-TAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
1511061 CCACAACTCCGTGGCACCCATTTCAAAGC
1 CCACAAGTCAGTGGCACCC-TTTCAAAGC
*
1511090 TCACACAAGTCGGTGGCAACCCATTTCAAAGCC
1 -C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
* *
1511123 CACACAAGTCGGTGGCAACCCATTCCAAAGCC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
* *
1511155 CACACAAGTCGGTGGCAACCCATTCCAAAGCC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
* *
1511187 CACACAAGTCGGTGGCAACCCATTCCAAAGC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAGC
* *
1511218 CCAGACAAGTCGGTGGCAACCCATTCCAAAGCC
1 CC--ACAAGTCAGTGGC-ACCC-TTTCAAAG-C
* *
1511251 CACACAAGTCGGTGGCAACCCATTCCAAAGCC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
* *
1511283 CACACAAGTCGGTGGCAACCCATTCCAAAGCC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
* *
1511315 CACACAAGTCGGTGGCAACCCATTCCAAAGCC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
* *
1511347 CACACAAGTCGGTGGCAACCCATTCCAAAGCC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
* *
1511379 CACACAAGTCGGTGGCAACCCAACCCATTCCAAAGCC
1 C-CACAAGTCAGTGG-----C-ACCC-TTTCAAAG-C
*
1511416 CACACAAGTCGGTGGCAACCCATTTCAAAGCC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
*
1511448 CACACAAGTCGGTGGCAACCCATTTCAAAGCC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
** *
1511480 CACACAAGTTGGTGGCAACCTATTTCAAAGC
1 C-CACAAGTCAGTGGC-ACC-CTTTCAAAGC
* *
1511511 CCACATAAGTCGGTGGCAACCCATTTCAAAACC
1 CCAC--AAGTCAGTGGC-ACCC-TTTC-AAAGC
* *
1511544 CACACAAGTCGGTGGCAACCCATTCCAAAGCC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
1511576 CACACAAGTCAGTGGCACTCCTTTCAAAGC
1 C-CACAAGTCAGTGGCAC-CCTTTCAAAGC
*
1511606 CTACAAGTCAGTGGCACTCCTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
*
1511635 CCACAAGTCAGTGGCACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
* *
1511664 CCACAAGTTAGTGGCACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
1511693 CCACAAGTCAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
1511721 CCACAAGTTAGTGGCACCCTTTTAGAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
1511749 CCATAAGTCAGTGGCACCCTTTTAAAGCC
1 CCACAAGTCAGTGGCACCCTTTCAAAG-C
1511778 CACACAAGTCAGTGGCACTCCTTTCAAAGC
1 C-CACAAGTCAGTGGCAC-CCTTTCAAAGC
* *
1511808 CCACAAGTCCGTGGCACTCCTTTAAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
*
1511837 CCACAAGTCAGTGGCACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
* *
1511866 CCACAAATCAGTGGCACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
*
1511895 CCACAAATCAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
*
1511923 CCACAAGTTAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
1511951 CCACAAGTTAGTGGCACCCTTTCGAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
1511979 CCACAAGTCAGTGGCACCATTGCGAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
1512007 CCACAATTCAGTGGCACTCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
*
1512035 CCACAAGTCAGTGGCACCCTTTTAAAGCC
1 CCACAAGTCAGTGGCACCCTTTCAAAG-C
*
1512064 CACACAAGTCAGTGGCACTCCTTTTAAAGC
1 C-CACAAGTCAGTGGCAC-CCTTTCAAAGC
* * * *
1512094 TCACGCAAGTCAGTGGTACCTTTTCAAATC
1 -C-CACAAGTCAGTGGCACCCTTTCAAAGC
* *
1512124 CCACGAGTCAGTGGCACTCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
*
1512152 CCACAAGTCAGTGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
1512180 CCACGAGTTAGTGGCACCCTTTCAAAGCC
1 CCACAAGTCAGTGGCACCCTTTCAAAG-C
1512209 CACACAAGTCAGTGGCACTCCTTTCAAAGC
1 C-CACAAGTCAGTGGCAC-CCTTTCAAAGC
*
1512239 CCACGCAAGTCAGTGGCACCTTTTCAAAGC
1 CCA--CAAGTCAGTGGCACCCTTTCAAAGC
* *
1512269 CCACGAGTCAGTGGCACTCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
*
1512297 CCACAAGTCAGTGGCACCCTTTC-AGGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
** * *
1512324 CCATGAGTCAGTGGTACCTTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
*
1512352 CCACGAGTCAGTGGCA-CCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
1512379 CCACAAGTTAGTGGCACTCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
1512407 CCACGAGTCAGTGGCATCCTTTTAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
1512435 CCACGCAAATCAGTGGCACCCTTTTAAAGC
1 CCA--CAAGTCAGTGGCACCCTTTCAAAGC
*
1512465 TCACGCAAGTCAGT
1 -C-CACAAGTCAGT
1512479 AACACTCTTT
Statistics
Matches: 1709, Mismatches: 121, Indels: 100
0.89 0.06 0.05
Matches are distributed among these distances:
26 13 0.01
27 349 0.20
28 489 0.29
29 213 0.12
30 108 0.06
31 88 0.05
32 405 0.24
33 8 0.00
34 4 0.00
37 32 0.02
ACGTcount: A:0.28, C:0.34, G:0.17, T:0.21
Consensus pattern (28 bp):
CCACAAGTCAGTGGCACCCTTTCAAAGC
Found at i:1512163 original size:145 final size:143
Alignment explanation
Indices: 1510599--1512478 Score: 1357
Period size: 145 Copynumber: 12.9 Consensus size: 143
1510589 TTTTAAAGTC
* * * * * * * *
1510599 CACAACTCTGTGGCAC-CCTTTTAAA-TCCACAACTCCGTGGCACTCTTTT-AAAGTCCACAACT
1 CACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCACAAGT
* * * * * * * * *
1510661 CCGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCACCCTTT-TAAGTCCACAACTCCGTGGCAC
65 CAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC
*
1510725 CC-TTCAAAG-TC-
130 CCTTTCAAAGCCCA
* * * * * * * *
1510736 CACAACTCCGTGGCACT-CTTTTAAAGTCCACAACTCCGTGGCACCCTTTT--AAGTCCACAACT
1 CACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGT
* * * * * ** * * *
1510798 CTGTGGCAC-CTTTCAAAGTCCACAACTCCGTAGCA-CCTTTTTAAGTCCACAACTCCGTGGCA-
65 CAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC
** *
1510860 CCTTTTTAA-CTC-
130 CCTTTCAAAGCCCA
* * * * * * * *
1510872 CACAACTCCGTGGCAC-CCTTT-TAAGTCCACAACTCCGTGGCACCCTTTT--AAGTCCACAACT
1 CACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGT
* * * * * * * * *
1510933 CCGTGGCACCCTTT-TAAGTCCACAACTCCGTGGCATCCCCTTT--AAGACCACAACTCCGTGGC
65 CAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA--CCCTTTCAAAGCCCACAAGTCAGTGGC
* *
1510995 ACCCTTT-TAAG-TC-
128 ACCCTTTCAAAGCCCA
* * * * * * * *
1511008 CACAACTCCGTGGCAC-CCTTT-TAAGTCCACAACTCTGTGGCACCCTTTT--AAGTCCACAACT
1 CACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGT
* * * *
1511069 CCGTGGCACCCATTTCAAAGCTCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCG
65 CAGTGGCACTC-TTTCAAAGC-C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCA
*
1511134 GTGGCAACCCATTCCAAAGCCCA
123 GTGGC-ACCC-TTTCAAAGCCCA
* * * * *
1511157 CACAAGTCGGTGGCAAC-CCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCAGTGGC-ACTCC-TTTCAAAG-CC-CACAAGTCAGTGGC-A-CCTTTTCAAAGCCC-
* * * * *
1511221 GACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCAC
59 -ACAAGTCAGTGGC-ACTC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC-C
* *
1511286 ACAAGTCGGTGGCAACCCATTCCAAAGCCCA
115 ACAAGTCAGTGGC-ACCC-TTTCAAAGCCCA
* * * * *
1511317 CACAAGTCGGTGGCAAC-CCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCAGTGGC-ACTCC-TTTCAAAG-CC-CACAAGTCAGTGGC-A-CCTTTTCAAAG-CC-
* * * *
1511381 CACAAGTCGGTGGCAACCCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAG
58 CACAAGTCAGTGG-----C-ACTC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAG
*
1511446 CCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
112 -CC-CACAAGTCAGTGGC-ACCC-TTTCAAAGCCCA
** * * * *
1511482 CACAAGTTGGTGGCAAC-CTATTTCAAAGCCCACATAAGTCGGTGGCAACCCATTTCAAAACCCA
1 CACAAGTCAGTGGC-ACTC-CTTTCAAAGCCCAC--AAGTCAGTGGC-A-CCTTTTC-AAAGCC-
* * * *
1511546 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCAGTGGCACTCCTTTCAAAGCCTACA
58 CACAAGTCAGTGGC-ACTC-TTTCAAAG-CC-CACAAGTCAGTGGCAC-CCTTTCAAAGCCCACA
1511611 AGTCAGTGGCACTCCTTTCAAAG-CC-
118 AGTCAGTGGCAC-CCTTTCAAAGCCCA
* *
1511636 CACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGT
1 CACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCACAAGT
* * * * *
1511701 CAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTTAGAGCCCATAAGTCAGTGGCAC
65 CAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC
*
1511766 CCTTTTAAAGCCCA
130 CCTTTCAAAGCCCA
* * *
1511780 CACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCCGTGGCACTCCTTTAAAAGCCCACAAGT
1 CACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCACAAGT
* * *
1511845 CAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGC
65 CAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGC
1511910 ACCCTTTCAAAG-CC-
128 ACCCTTTCAAAGCCCA
* * * *
1511924 CACAAGTTAGTGGCAC-CCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCGAAGCCCACAAGTC
1 CACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTC
* * * *
1511988 AGTGGCAC-CATTGCGAAGCCCACAATTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCAC
66 AGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC
*
1512052 CCTTTTAAAGCCCA
130 CCTTTCAAAGCCCA
* * * * *
1512066 CACAAGTCAGTGGCACTCCTTTTAAAGCTCACGCAAGTCAGTGGTACCTTTTCAAATCCCACGAG
1 CACAAGTCAGTGGCACTCCTTTCAAAGC-C-CACAAGTCAGTGGCACCTTTTCAAAGCCCACAAG
* * *
1512131 TCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTTAGTGGCA
64 TCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
1512196 CCCTTTCAAAGCCCA
129 CCCTTTCAAAGCCCA
*
1512211 CACAAGTCAGTGGCACTCCTTTCAAAGCCCACGCAAGTCAGTGGCACCTTTTCAAAGCCCACGAG
1 CACAAGTCAGTGGCACTCCTTTCAAAGCCCA--CAAGTCAGTGGCACCTTTTCAAAGCCCACAAG
* ** *
1512276 TCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC-AGGCCCATGAGTCAGTGGTA
64 TCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
*
1512340 CCTTTTCAAAG-CC-
129 CCCTTTCAAAGCCCA
* * *
1512353 CACGAGTCAGTGGCA--CCTTTCAAAGCCCACAAGTTAGTGGCA-CTCTTTCAAAGCCCACGAGT
1 CACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCT-TTTCAAAGCCCACAAGT
* * * *
1512415 CAGTGGCA-TCCTTTTAAAGCCCACGCAAATCAGTGGCACCCTTTTAAAGCTCACGCAAGTCAGT
65 CAGTGGCACT-CTTTCAAAGCCCA--CAAGTCAGTGGCACCCTTTCAAAGC-C-CACAAGTCAGT
1512479 AACACTCTTT
Statistics
Matches: 1545, Mismatches: 124, Indels: 142
0.85 0.07 0.08
Matches are distributed among these distances:
135 73 0.05
136 170 0.11
137 54 0.03
138 79 0.05
139 5 0.00
140 81 0.05
141 30 0.02
142 68 0.04
143 74 0.05
144 140 0.09
145 229 0.15
146 42 0.03
147 7 0.00
148 14 0.01
149 18 0.01
150 10 0.01
151 11 0.01
152 3 0.00
153 16 0.01
154 25 0.02
155 8 0.01
156 10 0.01
157 19 0.01
158 2 0.00
159 21 0.01
160 183 0.12
161 3 0.00
162 1 0.00
163 3 0.00
164 2 0.00
165 141 0.09
166 3 0.00
ACGTcount: A:0.28, C:0.34, G:0.17, T:0.21
Consensus pattern (143 bp):
CACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTC
AGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACC
CTTTCAAAGCCCA
Found at i:1512494 original size:31 final size:30
Alignment explanation
Indices: 1512424--1512499 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
1512414 TCAGTGGCAT
**
1512424 CCTTTTAAAGCCCACGCAAATCAGTGGCAC
1 CCTTTTAAAGCCCACGCAAATCAGTAACAC
* *
1512454 CCTTTTAAAGCTCACGCAAGTCAGTAACAC
1 CCTTTTAAAGCCCACGCAAATCAGTAACAC
*
1512484 TCTTTTTAAAGCCCAC
1 -CCTTTTAAAGCCCAC
1512500 ATGTTTCAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
30 26 0.67
31 13 0.33
ACGTcount: A:0.30, C:0.32, G:0.13, T:0.25
Consensus pattern (30 bp):
CCTTTTAAAGCCCACGCAAATCAGTAACAC
Found at i:1513136 original size:20 final size:20
Alignment explanation
Indices: 1513108--1513182 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
1513098 TTTTACCTTG
1513108 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
1513128 ATATATCGATACATATATGA
1 ATGTATCGATACATTTTTCA
* * *
1513148 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
*
1513168 ATGTATCAATACATT
1 ATGTATCGATACATT
1513183 ATGTCTTTTT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1513180 original size:40 final size:39
Alignment explanation
Indices: 1513108--1513185 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
1513098 TTTTACCTTG
* * *
1513108 ATGTATCGATACATTTTTCAATATATCGATACATATATGA
1 ATGTATCGATACATTCTACAATATATCAATACAT-TATGA
* *
1513148 ATGTATCGATATATTCTACAATGTATCAATACATTATG
1 ATGTATCGATACATTCTACAATATATCAATACATTATG
1513186 TCTTTTTACC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCAATACATTATGA
Found at i:1519721 original size:61 final size:62
Alignment explanation
Indices: 1519609--1519732 Score: 171
Period size: 61 Copynumber: 2.0 Consensus size: 62
1519599 ATTTGCCTGC
* * * *
1519609 ATGTATCGATACATTTGGGTTTAAAACCTAGAATGAATCGATATAATGAAAAATCTATCGAT
1 ATGTATCGATACATTTGGGTTCAAAACCCAGAATGAATCAATACAATGAAAAATCTATCGAT
* *
1519671 ATGTATTGATACATTTGGG-TCAAAACCCAGAAT-ATATCAATACAATGAAAAATGTATCGAT
1 ATGTATCGATACATTTGGGTTCAAAACCCAGAATGA-ATCAATACAATGAAAAATCTATCGAT
1519732 A
1 A
1519733 AATTGTCATT
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
60 1 0.02
61 36 0.65
62 18 0.33
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (62 bp):
ATGTATCGATACATTTGGGTTCAAAACCCAGAATGAATCAATACAATGAAAAATCTATCGAT
Found at i:1519837 original size:20 final size:20
Alignment explanation
Indices: 1519796--1519838 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
1519786 TTTAGATGTA
*
1519796 TATCGATACATTCACTTATG
1 TATCGATACATTCACCTATG
1519816 TATCGATACATT-ACCTATTG
1 TATCGATACATTCACCTA-TG
1519836 TAT
1 TAT
1519839 TAATACAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.42
Consensus pattern (20 bp):
TATCGATACATTCACCTATG
Found at i:1521910 original size:52 final size:52
Alignment explanation
Indices: 1521854--1521962 Score: 128
Period size: 52 Copynumber: 2.1 Consensus size: 52
1521844 TTTATTGTAA
* *
1521854 CAATAAATTTTGGGTTTTTGACCCAAATGTATCGATAGATTATTCAACGTAT
1 CAATAAATTCTGAGTTTTTGACCCAAATGTATCGATAGATTATTCAACGTAT
** * * * * **
1521906 CAATACGTTCTGAGTTTTTTAGCCAAATGTATCGATATATTCTTCAGTGTAT
1 CAATAAATTCTGAGTTTTTGACCCAAATGTATCGATAGATTATTCAACGTAT
1521958 CAATA
1 CAATA
1521963 CAAGCAGGTA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (52 bp):
CAATAAATTCTGAGTTTTTGACCCAAATGTATCGATAGATTATTCAACGTAT
Found at i:1525524 original size:39 final size:39
Alignment explanation
Indices: 1525481--1525555 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
1525471 CAAGTATGCA
*
1525481 TCAAAAGATCAATCAAATTCATATATA-ACCAAATATTTG
1 TCAAAAGATCAATCAAATCCATATA-AGACCAAATATTTG
1525520 TCAAAAGATCAATCAAATCCATATAAGACCAAATAT
1 TCAAAAGATCAATCAAATCCATATAAGACCAAATAT
1525556 GCATTTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
38 1 0.03
39 33 0.97
ACGTcount: A:0.51, C:0.17, G:0.05, T:0.27
Consensus pattern (39 bp):
TCAAAAGATCAATCAAATCCATATAAGACCAAATATTTG
Found at i:1526944 original size:19 final size:19
Alignment explanation
Indices: 1526920--1526979 Score: 102
Period size: 19 Copynumber: 3.2 Consensus size: 19
1526910 AAAAAAAACA
1526920 ATCTTTCGTCACTTTTTGC
1 ATCTTTCGTCACTTTTTGC
*
1526939 ATCTTTCATCACTTTTTGC
1 ATCTTTCGTCACTTTTTGC
*
1526958 ATCTTTCGTCACATTTTGC
1 ATCTTTCGTCACTTTTTGC
1526977 ATC
1 ATC
1526980 AAATTTATCA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.15, C:0.27, G:0.08, T:0.50
Consensus pattern (19 bp):
ATCTTTCGTCACTTTTTGC
Found at i:1532457 original size:27 final size:27
Alignment explanation
Indices: 1532422--1532511 Score: 144
Period size: 27 Copynumber: 3.3 Consensus size: 27
1532412 TTTATTTATC
1532422 GAGGATACTTCAATGCCATTCCTTCGA
1 GAGGATACTTCAATGCCATTCCTTCGA
1532449 GAGGATACTTCAATGCCATTCCTTCGA
1 GAGGATACTTCAATGCCATTCCTTCGA
* * *
1532476 GAGGATACTCCACTACCATTCCTTCGA
1 GAGGATACTTCAATGCCATTCCTTCGA
*
1532503 GGGGATACT
1 GAGGATACT
1532512 CAAACCTCGT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (27 bp):
GAGGATACTTCAATGCCATTCCTTCGA
Found at i:1534638 original size:21 final size:20
Alignment explanation
Indices: 1534607--1534659 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
1534597 CTGCCAACAG
*
1534607 ATGTATTGATACATTTAT-GT
1 ATGTATCGATACATTT-TGGT
* *
1534627 AATGTTTCGATATATTTTGGT
1 -ATGTATCGATACATTTTGGT
1534648 ATGTATCGATAC
1 ATGTATCGATAC
1534660 CAATGAGGGT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.28, C:0.08, G:0.17, T:0.47
Consensus pattern (20 bp):
ATGTATCGATACATTTTGGT
Found at i:1534699 original size:92 final size:92
Alignment explanation
Indices: 1534514--1534713 Score: 267
Period size: 92 Copynumber: 2.2 Consensus size: 92
1534504 ATACATTTTT
* * * * *
1534514 AGATATATCGATATA-TTACGTATTGTATCGATATATTTTGGTATGTATCAATACAAATGAAGGT
1 AGATGTATCGATACATTTATGTAATGTTTCGATATATTTTGGTATGTATCAATACAAATGAAGGT
*
1534578 TTTAAGATTTCCTTAGCTACTGCCAAC
66 TATAAGATTTCCTTAGCTACTGCCAAC
* * * *
1534605 AGATGTATTGATACATTTATGTAATGTTTCGATATATTTTGGTATGTATCGATACCAATGAGGGT
1 AGATGTATCGATACATTTATGTAATGTTTCGATATATTTTGGTATGTATCAATACAAATGAAGGT
* * **
1534670 TATAGGATTTTCTTAGCTACTGCTGAC
66 TATAAGATTTCCTTAGCTACTGCCAAC
1534697 AGATGTATCGATACATT
1 AGATGTATCGATACATT
1534714 CAAACTTGAG
Statistics
Matches: 93, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
91 12 0.13
92 81 0.87
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (92 bp):
AGATGTATCGATACATTTATGTAATGTTTCGATATATTTTGGTATGTATCAATACAAATGAAGGT
TATAAGATTTCCTTAGCTACTGCCAAC
Found at i:1537856 original size:88 final size:88
Alignment explanation
Indices: 1537756--1537932 Score: 255
Period size: 88 Copynumber: 2.0 Consensus size: 88
1537746 AAATGAACAT
* * *
1537756 ATACATGGCATGAAATAATTCATGTTCATCCAAAGCATGAAGAAAAATATATTACCATTAAAGAC
1 ATACATGGCATGAAATAATTCATGTTCATCCAAAGCATGAAGAAAAATATATCACAATGAAAGAC
* *
1537821 CTAGCTTGGCTAACAATCATAGA
66 CTAGCTTGGCCAAAAATCATAGA
* * * * * *
1537844 ATACATGTCATGAAATACTTTATGTTTATCCAAAGCATGAAGCAAAATATATCACAATGGAAGAC
1 ATACATGGCATGAAATAATTCATGTTCATCCAAAGCATGAAGAAAAATATATCACAATGAAAGAC
1537909 CTAGCTTGGCCAAAAATCATAGA
66 CTAGCTTGGCCAAAAATCATAGA
1537932 A
1 A
1537933 CTCATAAAAG
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 78 1.00
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (88 bp):
ATACATGGCATGAAATAATTCATGTTCATCCAAAGCATGAAGAAAAATATATCACAATGAAAGAC
CTAGCTTGGCCAAAAATCATAGA
Found at i:1539507 original size:3 final size:3
Alignment explanation
Indices: 1539499--1539539 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
1539489 TTCTGTTGCT
1539499 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1539540 TCATTCGATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1540627 original size:16 final size:17
Alignment explanation
Indices: 1540601--1540633 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
1540591 TCAATACTAT
1540601 ATTTAAATTTAATTCAA
1 ATTTAAATTTAATTCAA
1540618 ATTT-AATTTAATTCAA
1 ATTTAAATTTAATTCAA
1540634 TCATGAATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTTAAATTTAATTCAA
Found at i:1545525 original size:20 final size:22
Alignment explanation
Indices: 1545502--1545541 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1545492 AATCAATTTT
1545502 TTAAA-AA-TAAAAATATAAGA
1 TTAAACAATTAAAAATATAAGA
*
1545522 TTAAACAATTAAATATATAA
1 TTAAACAATTAAAAATATAA
1545542 ATGGATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 2 0.12
22 10 0.59
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (22 bp):
TTAAACAATTAAAAATATAAGA
Found at i:1547549 original size:21 final size:21
Alignment explanation
Indices: 1547525--1547564 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1547515 TCATCTAAAA
1547525 AATGCATTC-TTTCATCCAATC
1 AATGCA-TCATTTCATCCAATC
1547546 AATGCATCATTTCATCCAA
1 AATGCATCATTTCATCCAA
1547565 ATATACCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.35
Consensus pattern (21 bp):
AATGCATCATTTCATCCAATC
Found at i:1553187 original size:52 final size:51
Alignment explanation
Indices: 1553109--1553257 Score: 217
Period size: 52 Copynumber: 2.9 Consensus size: 51
1553099 CGAAATATGA
1553109 AAATTTGCCTGCATGTATCGATACATTGCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* *
1553161 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
* * **
1553213 AAATTTGCCTACATGTATCGATTCAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
1553258 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.95
53 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:1553264 original size:13 final size:13
Alignment explanation
Indices: 1553246--1553270 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1553236 CAAAGATCAG
1553246 TGTATCGATACAA
1 TGTATCGATACAA
1553259 TGTATCGATACA
1 TGTATCGATACA
1553271 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1553348 original size:33 final size:33
Alignment explanation
Indices: 1553311--1553377 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1553301 AGTAGCTTGA
1553311 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1553344 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1553377 A
1 A
1553378 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1553351 original size:13 final size:13
Alignment explanation
Indices: 1553333--1553357 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1553323 CAAAAAAATA
1553333 TGTATCGATACAT
1 TGTATCGATACAT
1553346 TGTATCGATACA
1 TGTATCGATACA
1553358 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1554528 original size:96 final size:94
Alignment explanation
Indices: 1554240--1554530 Score: 365
Period size: 96 Copynumber: 3.0 Consensus size: 94
1554230 TAAAGATGAG
* *
1554240 AAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAATCTTAAAGATGGAAAAGGTGCC
1 AAAAA-GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA-CTTAAAGAT-G--AAGGTGCC
1554305 AATATGCTGATTCAAGGCCAGCTATATTGGACTT
61 AATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
1554339 --AAAGATGCCAATGTGCCGATTCAAGGTCAGCTACATTGGACTTAAATATGAAGGTGCCAATAT
1 AAAAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATAT
* *
1554402 GCTGATTTAAGGCCAGCGATATTGGACTT
66 GCTGATTCAAGGCCAGCTATATTGGACTT
* * *
1554431 AAAGGCAAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAA-A-GCAAGGTGCCA
1 AAA---AAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AAGGTGCCA
* *
1554494 ATATGCTGATTCAAGGCTAGCTATATTGGGCTT
62 ATATGCTGATTCAAGGCCAGCTATATTGGACTT
1554527 AAAA
1 AAAA
1554531 GGAGACGCCA
Statistics
Matches: 170, Mismatches: 16, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
92 40 0.24
93 1 0.01
94 2 0.01
95 9 0.05
96 75 0.44
97 43 0.25
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (94 bp):
AAAAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATAT
GCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:1554530 original size:48 final size:47
Alignment explanation
Indices: 1554251--1554531 Score: 318
Period size: 48 Copynumber: 5.9 Consensus size: 47
1554241 AAAAGGATGT
* * *
1554251 CAATGTGCTGATTCAAGGCCAGCTACATTGAATCTTAAAGATGGAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGA-CTTAAA-A--G--AAGGTGC
1554304 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AAAG-A--TGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAGAAGGTGC
* * * *
1554347 CAATGTGCCGATTCAAGGTCAGCTACATTGGACTTAAATATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA-A-GAAGGTGC
* * * *
1554396 CAATATGCTGATTTAAGGCCAGCGATATTGGACTTAAAGGCAAGATGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAG-AAGGTGC
*
1554444 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAAGCAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAG-AAGGTGC
* *
1554492 CAATATGCTGATTCAAGGCTAGCTATATTGGGCTTAAAAG
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAG
1554532 GAGACGCCAC
Statistics
Matches: 200, Mismatches: 21, Indels: 19
0.83 0.09 0.08
Matches are distributed among these distances:
43 34 0.17
44 2 0.01
45 2 0.01
46 1 0.00
47 2 0.01
48 89 0.44
49 35 0.17
50 1 0.00
51 2 0.01
52 3 0.01
53 29 0.14
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.26
Consensus pattern (47 bp):
CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAGAAGGTGC
Found at i:1554606 original size:28 final size:28
Alignment explanation
Indices: 1554549--1554672 Score: 124
Period size: 28 Copynumber: 4.3 Consensus size: 28
1554539 CACCAACTTG
** *
1554549 TGTGGGCTTTTGAGAGGTTTACA-TCAACT
1 TGTGGGCTTTTGA-AGGTTGCCACT-GACT
* *
1554578 TGTGTGCTTTTGAAGGTTGCTACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* *
1554606 TGTGGGCATTTAAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* *
1554634 TGTGGGCTTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTTG--AAGGTTGCCACTGACT
1554664 TGTGGGCTT
1 TGTGGGCTT
1554673 AAAAAGAAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
28 43 0.54
29 13 0.16
30 23 0.29
ACGTcount: A:0.19, C:0.15, G:0.30, T:0.36
Consensus pattern (28 bp):
TGTGGGCTTTTGAAGGTTGCCACTGACT
Found at i:1554657 original size:30 final size:30
Alignment explanation
Indices: 1554575--1554890 Score: 168
Period size: 29 Copynumber: 10.6 Consensus size: 30
1554565 GTTTACATCA
* * *
1554575 ACTTGTGTGCTTTTG--AAGGTTGCTACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
* *
1554603 ACTTGTGGGCATTT--AAAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
*
1554631 ACTTGTGGGCTTTTGAAAAGGGTGCCACTA
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
** * *
1554661 ACTTGTGGGCTTAAAAAGAAAAAGAGTGCTA-TAG
1 ACTTGTGGGCTT---TTG-AAAAGGGTGCCACT-G
* * ** * *
1554695 AGTTGTGAGC-TTACAAAAGAAAAAGTGCCACGG
1 ACTTGTGGGCTTTTGAAAAG----GGTGCCACTG
* ** * * *
1554728 AGTTGTGGAATTTGGAAAA-GATGCCACCG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
**
1554757 ACTTGTGGGCTTCGGAAAAGGGTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
* *
1554787 ATTTGTGGGC-TTTG--AAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
* ***
1554814 ACTTATGGGCTTTTGAAAAAAAATGCCACTG
1 ACTTGTGGGCTTTTG-AAAAGGGTGCCACTG
* *
1554845 ACTTGTGGGC-TTTGAAAAAGATGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
*
1554874 ACTTGTGGACTTTTGAA
1 ACTTGTGGGCTTTTGAA
1554891 GGGTGAGGAA
Statistics
Matches: 225, Mismatches: 43, Indels: 38
0.74 0.14 0.12
Matches are distributed among these distances:
27 20 0.09
28 41 0.18
29 52 0.23
30 52 0.23
31 19 0.08
33 17 0.08
34 24 0.11
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (30 bp):
ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
Found at i:1554731 original size:33 final size:34
Alignment explanation
Indices: 1554646--1554734 Score: 85
Period size: 34 Copynumber: 2.6 Consensus size: 34
1554636 TGGGCTTTTG
* * *
1554646 AAAAGGGTGCCACTA-ACTTGTGGGCTTAAAAAGA
1 AAAAGAGTGCCAC-AGAGTTGTGAGCTTAAAAAGA
* *
1554680 AAAAGAGTGCTATAGAGTTGTGAGCTTACAAAAG-
1 AAAAGAGTGCCACAGAGTTGTGAGCTTA-AAAAGA
*
1554714 AAAA-AGTGCCACGGAGTTGTG
1 AAAAGAGTGCCACAGAGTTGTG
1554735 GAATTTGGAA
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
33 15 0.33
34 25 0.56
35 5 0.11
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.21
Consensus pattern (34 bp):
AAAAGAGTGCCACAGAGTTGTGAGCTTAAAAAGA
Found at i:1554860 original size:58 final size:59
Alignment explanation
Indices: 1554779--1554890 Score: 163
Period size: 60 Copynumber: 1.9 Consensus size: 59
1554769 CGGAAAAGGG
* * * *
1554779 TGCCACTGATTTGTGGGCTTTG-AAGGTTGCCACTGACTTATGGGCTTTTGAAAAAAAA
1 TGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTATGGACTTTTGAAAAAAAA
*
1554837 TGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGGACTTTTGAA
1 TGCCACTGACTTGTGGGCTTTG-AAAAGATGCCACTGACTTATGGACTTTTGAA
1554891 GGGTGAGGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
58 21 0.45
60 26 0.55
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (59 bp):
TGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTATGGACTTTTGAAAAAAAA
Found at i:1563495 original size:52 final size:51
Alignment explanation
Indices: 1563417--1563565 Score: 199
Period size: 52 Copynumber: 2.9 Consensus size: 51
1563407 CGAAATATGA
1563417 AAATTTGCCTGCATGTATCGATACATTGCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* *
1563469 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
* * * * **
1563521 AAATATGCCTACATGCATCGATTCAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
1563566 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 2 0.02
52 81 0.95
53 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:1563572 original size:13 final size:13
Alignment explanation
Indices: 1563554--1563578 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1563544 CAAAGATCAG
1563554 TGTATCGATACAA
1 TGTATCGATACAA
1563567 TGTATCGATACA
1 TGTATCGATACA
1563579 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1563659 original size:13 final size:13
Alignment explanation
Indices: 1563641--1563665 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1563631 CAAAAAAATA
1563641 TGTATCGATACAT
1 TGTATCGATACAT
1563654 TGTATCGATACA
1 TGTATCGATACA
1563666 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1564836 original size:96 final size:94
Alignment explanation
Indices: 1564548--1564838 Score: 365
Period size: 96 Copynumber: 3.0 Consensus size: 94
1564538 TAAAGATGAG
* *
1564548 AAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAATCTTAAAGATGGAAAAGGTGCC
1 AAAAA-GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA-CTTAAAGAT-G--AAGGTGCC
1564613 AATATGCTGATTCAAGGCCAGCTATATTGGACTT
61 AATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
1564647 --AAAGATGCCAATGTGCCGATTCAAGGTCAGCTACATTGGACTTAAATATGAAGGTGCCAATAT
1 AAAAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATAT
* *
1564710 GCTGATTTAAGGCCAGCGATATTGGACTT
66 GCTGATTCAAGGCCAGCTATATTGGACTT
* * *
1564739 AAAGGCAAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAA-A-GCAAGGTGCCA
1 AAA---AAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AAGGTGCCA
* *
1564802 ATATGCTGATTCAAGGCTAGCTATATTGGGCTT
62 ATATGCTGATTCAAGGCCAGCTATATTGGACTT
1564835 AAAA
1 AAAA
1564839 GGAGACGCCA
Statistics
Matches: 170, Mismatches: 16, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
92 40 0.24
93 1 0.01
94 2 0.01
95 9 0.05
96 75 0.44
97 43 0.25
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (94 bp):
AAAAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATAT
GCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:1564838 original size:48 final size:47
Alignment explanation
Indices: 1564559--1564839 Score: 318
Period size: 48 Copynumber: 5.9 Consensus size: 47
1564549 AAAAGGATGT
* * *
1564559 CAATGTGCTGATTCAAGGCCAGCTACATTGAATCTTAAAGATGGAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGA-CTTAAA-A--G--AAGGTGC
1564612 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AAAG-A--TGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAGAAGGTGC
* * * *
1564655 CAATGTGCCGATTCAAGGTCAGCTACATTGGACTTAAATATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA-A-GAAGGTGC
* * * *
1564704 CAATATGCTGATTTAAGGCCAGCGATATTGGACTTAAAGGCAAGATGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAG-AAGGTGC
*
1564752 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAAGCAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAG-AAGGTGC
* *
1564800 CAATATGCTGATTCAAGGCTAGCTATATTGGGCTTAAAAG
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAG
1564840 GAGACGCCAC
Statistics
Matches: 200, Mismatches: 21, Indels: 19
0.83 0.09 0.08
Matches are distributed among these distances:
43 34 0.17
44 2 0.01
45 2 0.01
46 1 0.00
47 2 0.01
48 89 0.44
49 35 0.17
50 1 0.00
51 2 0.01
52 3 0.01
53 29 0.14
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.26
Consensus pattern (47 bp):
CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAGAAGGTGC
Found at i:1564914 original size:28 final size:28
Alignment explanation
Indices: 1564857--1564980 Score: 124
Period size: 28 Copynumber: 4.3 Consensus size: 28
1564847 CACCAACTTG
** *
1564857 TGTGGGCTTTTGAGAGGTTTACA-TCAACT
1 TGTGGGCTTTTGA-AGGTTGCCACT-GACT
* *
1564886 TGTGTGCTTTTGAAGGTTGCTACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* *
1564914 TGTGGGCATTTAAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* *
1564942 TGTGGGCTTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTTG--AAGGTTGCCACTGACT
1564972 TGTGGGCTT
1 TGTGGGCTT
1564981 AAAAAGAAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
28 43 0.54
29 13 0.16
30 23 0.29
ACGTcount: A:0.19, C:0.15, G:0.30, T:0.36
Consensus pattern (28 bp):
TGTGGGCTTTTGAAGGTTGCCACTGACT
Found at i:1565039 original size:33 final size:34
Alignment explanation
Indices: 1564954--1565042 Score: 85
Period size: 34 Copynumber: 2.6 Consensus size: 34
1564944 TGGGCTTTTG
* * *
1564954 AAAAGGGTGCCACTA-ACTTGTGGGCTTAAAAAGA
1 AAAAGAGTGCCAC-AGAGTTGTGAGCTTAAAAAGA
* *
1564988 AAAAGAGTGCTATAGAGTTGTGAGCTTACAAAAG-
1 AAAAGAGTGCCACAGAGTTGTGAGCTTA-AAAAGA
*
1565022 AAAA-AGTGCCACGGAGTTGTG
1 AAAAGAGTGCCACAGAGTTGTG
1565043 GAATTTGGAA
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
33 15 0.33
34 25 0.56
35 5 0.11
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.21
Consensus pattern (34 bp):
AAAAGAGTGCCACAGAGTTGTGAGCTTAAAAAGA
Found at i:1565070 original size:29 final size:29
Alignment explanation
Indices: 1565023--1565196 Score: 156
Period size: 29 Copynumber: 5.9 Consensus size: 29
1565013 TTACAAAAGA
* * **
1565023 AAAAG-TGCCACGGAGTTGTGGAATTTGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* *
1565051 AAAAGATGCCACCGACTTGTGGGCTTCGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* *
1565080 AAAAGGGTGCCACTGATTTGTGGGCTTT-G
1 AAAA-GATGCCACTGACTTGTGGGCTTTGG
* * *
1565109 -AAGGTTGCCACTGACTTGTGGGCTTTTGAAAA
1 AAAAGATGCCACTGACTTGTGGGC-TTTG---G
* *
1565141 AAAAAATGCCACTGACTTGTGGGCTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
*
1565170 AAAAGATGCCACTGACTTGTGGACTTT
1 AAAAGATGCCACTGACTTGTGGGCTTT
1565197 TGAAGGGTGA
Statistics
Matches: 120, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
27 18 0.15
28 10 0.08
29 49 0.41
30 19 0.16
32 4 0.03
33 20 0.17
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (29 bp):
AAAAGATGCCACTGACTTGTGGGCTTTGG
Found at i:1567108 original size:15 final size:14
Alignment explanation
Indices: 1567067--1567107 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
1567057 CGAAAAACAC
1567067 TTTATATGTTTTTTA
1 TTTATAT-TTTTTTA
*
1567082 TTTATA-CTTTTTA
1 TTTATATTTTTTTA
1567095 TTTATATTTTTTT
1 TTTATATTTTTTT
1567108 TGTAAAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 12 0.52
14 5 0.22
15 6 0.26
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTATATTTTTTTA
Found at i:1568082 original size:51 final size:50
Alignment explanation
Indices: 1568027--1568165 Score: 122
Period size: 51 Copynumber: 2.7 Consensus size: 50
1568017 CTTGCTGTTG
* *
1568027 TCTTTTTGTCAATGATGCTGCCGTTTCTCCTTTGTTTTGATGATTGCTACT
1 TCTTTTTGTCAATG-TGCTGTCGTTTCTCCTTTGTTTTGATGATTGCTACA
* * * ** * *
1568078 TCTTTATTG--ATTGTCCTTTTTTTATCCTCCTTTGTTTCGATGATTGCTGCA
1 TCTTT-TTGTCAATGTGCTGTCGTT-T-CTCCTTTGTTTTGATGATTGCTACA
*
1568129 TCTTCTTGTCAATGCTGCTGTCGTTTCTCCTTT-TTTT
1 TCTTTTTGTCAATG-TGCTGTCGTTTCTCCTTTGTTTT
1568166 CTTTTTTTTC
Statistics
Matches: 66, Mismatches: 16, Indels: 13
0.69 0.17 0.14
Matches are distributed among these distances:
49 5 0.08
50 10 0.15
51 38 0.58
52 7 0.11
53 6 0.09
ACGTcount: A:0.10, C:0.21, G:0.15, T:0.54
Consensus pattern (50 bp):
TCTTTTTGTCAATGTGCTGTCGTTTCTCCTTTGTTTTGATGATTGCTACA
Found at i:1568376 original size:45 final size:46
Alignment explanation
Indices: 1568289--1568380 Score: 114
Period size: 45 Copynumber: 2.0 Consensus size: 46
1568279 TTTATAGCTA
*
1568289 TTTTTCAGCTTGTCGCTTTGCTGTTTCACATTACTTTATCTTCCACT
1 TTTTTCA-CTTGTCGCTTTGCTGTTCCACATTACTTTATCTTCCACT
* ** * *
1568336 TTTTTCA-TTGTTGCTTTGCTGTTCCATGTTGCTTTGTCTTCCACT
1 TTTTTCACTTGTCGCTTTGCTGTTCCACATTACTTTATCTTCCACT
1568381 CCATTGTTGC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
45 32 0.82
47 7 0.18
ACGTcount: A:0.10, C:0.24, G:0.13, T:0.53
Consensus pattern (46 bp):
TTTTTCACTTGTCGCTTTGCTGTTCCACATTACTTTATCTTCCACT
Found at i:1568964 original size:24 final size:24
Alignment explanation
Indices: 1568919--1568965 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
1568909 CTTTTTTTTC
*
1568919 TTTCTTTGATTTTTTTTGTTTTGA
1 TTTCTTTGATTTTTATTGTTTTGA
*
1568943 TTTCTTTGATTTTTGATTTTTTT
1 TTTCTTTGATTTTT-ATTGTTTT
1568966 CTTTTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.09, C:0.04, G:0.11, T:0.77
Consensus pattern (24 bp):
TTTCTTTGATTTTTATTGTTTTGA
Found at i:1568996 original size:18 final size:17
Alignment explanation
Indices: 1568952--1568999 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 17
1568942 ATTTCTTTGA
*
1568952 TTTTTGATTTTTTTCTT
1 TTTTTAATTTTTTTCTT
*
1568969 TTTTAAAATTATTTTTCTT
1 TTTT-TAATT-TTTTTCTT
1568988 TTTTTAATTTTT
1 TTTTTAATTTTT
1569000 GATTTCTACT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 7 0.27
18 7 0.27
19 12 0.46
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTTTAATTTTTTTCTT
Found at i:1569601 original size:42 final size:42
Alignment explanation
Indices: 1569555--1569663 Score: 103
Period size: 44 Copynumber: 2.5 Consensus size: 42
1569545 TCATCGAGGA
* *
1569555 GTAAGAAGTTTATCGGGGACATATCCCATAAGTAAAA-AAAAG
1 GTAAGAAGTTTATCGGGGACAAATCCCACAAG-AAAACAAAAG
* * **
1569597 GTAAGAAAGGTTGACCGGGGACAAATCTGACAAGAAAACAAAAG
1 GTAAG-AA-GTTTATCGGGGACAAATCCCACAAGAAAACAAAAG
* * *
1569641 GTGAGAAATTTATCAGGGACAAA
1 GTAAGAAGTTTATCGGGGACAAA
1569664 GTTTATAGGT
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
42 17 0.32
43 8 0.15
44 28 0.53
ACGTcount: A:0.46, C:0.12, G:0.25, T:0.17
Consensus pattern (42 bp):
GTAAGAAGTTTATCGGGGACAAATCCCACAAGAAAACAAAAG
Found at i:1570015 original size:32 final size:32
Alignment explanation
Indices: 1569963--1570107 Score: 197
Period size: 31 Copynumber: 4.6 Consensus size: 32
1569953 CATCGGGCTT
* *
1569963 AGAAGAGTTACCACCGACTTGTGTGGGCTTTAG
1 AGAAG-GTTGCCACCAACTTGTGTGGGCTTTAG
1569996 AGAAGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGTTGCCACCAACTTGTGTGGGCTTTAG
*
1570028 A-AAGGTTGCCACCAGCTTGTGTAGGG-TTTAG
1 AGAAGGTTGCCACCAACTTGTGT-GGGCTTTAG
* *
1570059 A-AAGGTTGCCACCGACTTATGTGGGCTTTAG
1 AGAAGGTTGCCACCAACTTGTGTGGGCTTTAG
*
1570090 AGAAGGTTACCACCAACT
1 AGAAGGTTGCCACCAACT
1570108 CATACGGGCT
Statistics
Matches: 101, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
30 3 0.03
31 50 0.50
32 43 0.43
33 5 0.05
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (32 bp):
AGAAGGTTGCCACCAACTTGTGTGGGCTTTAG
Found at i:1570139 original size:31 final size:31
Alignment explanation
Indices: 1570099--1570345 Score: 209
Period size: 31 Copynumber: 8.1 Consensus size: 31
1570089 GAGAAGGTTA
* *
1570099 CCACCAACTCATACGGGCTTTGACTAGGGTG
1 CCACCAACTCATGCGGGCTTTAACTAGGGTG
* * * * *
1570130 TCGCCAACTCGTGTGGGCTTTGACTTA-GGTG
1 CCACCAACTCATGCGGGCTTTAAC-TAGGGTG
* *
1570161 CCGCCAACTCATGCGGGCTTTAATTAGGGTG
1 CCACCAACTCATGCGGGCTTTAACTAGGGTG
** ** *
1570192 CCACCAACTTGTATGGGCTTTAACTTA-GATG
1 CCACCAACTCATGCGGGCTTTAAC-TAGGGTG
*
1570223 CCACCAACTCATGCGGGCTTTGACTAGGGTG
1 CCACCAACTCATGCGGGCTTTAACTAGGGTG
* *
1570254 CCATCAACT-A-GTGGGCTTTAACTCA-GGTG
1 CCACCAACTCATGCGGGCTTTAACT-AGGGTG
** * * *
1570283 CTGCCAACTCGTGCGAGCTTTGACTAGGG-G
1 CCACCAACTCATGCGGGCTTTAACTAGGGTG
* *
1570313 CCACCAACTCGTACGGGCTTTAACTAGGGTG
1 CCACCAACTCATGCGGGCTTTAACTAGGGTG
1570344 CC
1 CC
1570346 GTTAACTCAT
Statistics
Matches: 169, Mismatches: 38, Indels: 18
0.75 0.17 0.08
Matches are distributed among these distances:
29 21 0.12
30 32 0.19
31 112 0.66
32 4 0.02
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.26
Consensus pattern (31 bp):
CCACCAACTCATGCGGGCTTTAACTAGGGTG
Found at i:1570178 original size:62 final size:62
Alignment explanation
Indices: 1570102--1570368 Score: 308
Period size: 62 Copynumber: 4.4 Consensus size: 62
1570092 AAGGTTACCA
* * * * *
1570102 CCAACTCATACGGGCTTTGACTAGGGTGTCGCCAACTCGTGTGGGCTTTGACTTAGGTGCCG
1 CCAACTCATGCGGGCTTTGACTAGGGTGCCACCAACTCGTATGGGCTTTAACTTAGGTGCCG
* * * * *
1570164 CCAACTCATGCGGGCTTTAATTAGGGTGCCACCAACTTGTATGGGCTTTAACTTAGATGCCA
1 CCAACTCATGCGGGCTTTGACTAGGGTGCCACCAACTCGTATGGGCTTTAACTTAGGTGCCG
* * * *
1570226 CCAACTCATGCGGGCTTTGACTAGGGTGCCATCAACTAG--TGGGCTTTAACTCAGGTGCTG
1 CCAACTCATGCGGGCTTTGACTAGGGTGCCACCAACTCGTATGGGCTTTAACTTAGGTGCCG
* * *
1570286 CCAACTCGTGCGAGCTTTGACTAGGG-GCCACCAACTCGTACGGGCTTTAAC-TAGGGTGCCG
1 CCAACTCATGCGGGCTTTGACTAGGGTGCCACCAACTCGTATGGGCTTTAACTTA-GGTGCCG
** * *
1570347 TTAACTCATGCAGGTTTTGACT
1 CCAACTCATGCGGGCTTTGACT
1570369 TAGATGCCAA
Statistics
Matches: 171, Mismatches: 31, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
59 10 0.06
60 42 0.25
61 32 0.19
62 87 0.51
ACGTcount: A:0.20, C:0.25, G:0.27, T:0.27
Consensus pattern (62 bp):
CCAACTCATGCGGGCTTTGACTAGGGTGCCACCAACTCGTATGGGCTTTAACTTAGGTGCCG
Found at i:1570366 original size:121 final size:122
Alignment explanation
Indices: 1570099--1570368 Score: 310
Period size: 121 Copynumber: 2.2 Consensus size: 122
1570089 GAGAAGGTTA
* * * ** * * *
1570099 CCACCAACTCATACGGGCTTTGACTAGGGTGTCGCCAACTCGTGTGGGCTTTGACTTAGGTGCCG
1 CCACCAACTCATGCAGGCTTTGACTAGGGTGCCATCAACT--AGTGGGCTTTAACTCAGGTGCCG
* * * *
1570164 CCAACTCATGCGGGCTTTAATTAGGGTGCCACCAACTTGTATGGGCTTTAACTTAGATG
64 CCAACTCATGCGAGCTTTAACTAGGGTGCCACCAACTCGTACGGGCTTTAACTTAGATG
* *
1570223 CCACCAACTCATGCGGGCTTTGACTAGGGTGCCATCAACTAGTGGGCTTTAACTCAGGTGCTGCC
1 CCACCAACTCATGCAGGCTTTGACTAGGGTGCCATCAACTAGTGGGCTTTAACTCAGGTGCCGCC
* * *
1570288 AACTCGTGCGAGCTTTGACTAGGG-GCCACCAACTCGTACGGGCTTTAAC-TAGGGTG
66 AACTCATGCGAGCTTTAACTAGGGTGCCACCAACTCGTACGGGCTTTAACTTA-GATG
*** *
1570344 CCGTTAACTCATGCAGGTTTTGACT
1 CCACCAACTCATGCAGGCTTTGACT
1570369 TAGATGCCAA
Statistics
Matches: 125, Mismatches: 20, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
120 2 0.02
121 46 0.37
122 41 0.33
124 36 0.29
ACGTcount: A:0.20, C:0.26, G:0.27, T:0.27
Consensus pattern (122 bp):
CCACCAACTCATGCAGGCTTTGACTAGGGTGCCATCAACTAGTGGGCTTTAACTCAGGTGCCGCC
AACTCATGCGAGCTTTAACTAGGGTGCCACCAACTCGTACGGGCTTTAACTTAGATG
Found at i:1570499 original size:31 final size:30
Alignment explanation
Indices: 1570464--1570578 Score: 124
Period size: 31 Copynumber: 3.7 Consensus size: 30
1570454 CTTTGAGAGA
*
1570464 GGTTGCCATCGACTTGTGTGGGCTTTAAAAG
1 GGTTGCCA-CAACTTGTGTGGGCTTTAAAAG
* *
1570495 GGTTGCCACCAGTTGTGTGGGCTTTTGAAAA-
1 GGTTGCCACAACTTGTGTGGGC-TTT-AAAAG
* *
1570526 GGTTGCCACCAACTTGTGTGGGCCTTAAGAG
1 GGTTGCCA-CAACTTGTGTGGGCTTTAAAAG
*
1570557 GGTTGCCACTAGCTTGTGTGGG
1 GGTTGCCAC-AACTTGTGTGGG
1570579 TTTTTGAAAC
Statistics
Matches: 72, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
30 16 0.22
31 40 0.56
32 16 0.22
ACGTcount: A:0.17, C:0.18, G:0.34, T:0.30
Consensus pattern (30 bp):
GGTTGCCACAACTTGTGTGGGCTTTAAAAG
Found at i:1570541 original size:62 final size:64
Alignment explanation
Indices: 1570463--1570592 Score: 192
Period size: 62 Copynumber: 2.1 Consensus size: 64
1570453 GCTTTGAGAG
* * *
1570463 AGGTTGCCATCGACTTGTGTGGGCTTTAAAAGGGTTGCCACCAG-TTGTGTGGGCTTTTGAAA-
1 AGGTTGCCACCAACTTGTGTGGGCCTTAAAAGGGTTGCCACCAGCTTGTGTGGGCTTTTGAAAC
* * *
1570525 AGGTTGCCACCAACTTGTGTGGGCCTTAAGAGGGTTGCCACTAGCTTGTGTGGGTTTTTGAAAC
1 AGGTTGCCACCAACTTGTGTGGGCCTTAAAAGGGTTGCCACCAGCTTGTGTGGGCTTTTGAAAC
1570589 AGGT
1 AGGT
1570593 ACCACTGACT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
62 39 0.65
63 17 0.28
64 4 0.07
ACGTcount: A:0.19, C:0.17, G:0.32, T:0.32
Consensus pattern (64 bp):
AGGTTGCCACCAACTTGTGTGGGCCTTAAAAGGGTTGCCACCAGCTTGTGTGGGCTTTTGAAAC
Found at i:1570622 original size:63 final size:62
Alignment explanation
Indices: 1570475--1570606 Score: 158
Period size: 62 Copynumber: 2.1 Consensus size: 62
1570465 GTTGCCATCG
* * *
1570475 ACTTGTGTGGGCTTTAAAAGGGTTGCCACCAGTTGTGTGGGCTTTTGAAAAGGTTGCCACCA
1 ACTTGTGTGAGCCTTAAAAGGGTTGCCACCAGTTGTGTGGGCTTTTGAAAAGGTTACCACCA
* * * * **
1570537 ACTTGTGTGGGCCTTAAGAGGGTTGCCACTAGCTTGTGTGGGTTTTTGAAACAGG-TACCACTG
1 ACTTGTGTGAGCCTTAAAAGGGTTGCCACCAG-TTGTGTGGGCTTTTGAAA-AGGTTACCACCA
1570600 ACTTGTG
1 ACTTGTG
1570607 AGCTTTTGAA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
62 29 0.48
63 29 0.48
64 3 0.05
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.32
Consensus pattern (62 bp):
ACTTGTGTGAGCCTTAAAAGGGTTGCCACCAGTTGTGTGGGCTTTTGAAAAGGTTACCACCA
Found at i:1570759 original size:30 final size:29
Alignment explanation
Indices: 1570729--1570830 Score: 120
Period size: 29 Copynumber: 3.5 Consensus size: 29
1570719 CATGGGGTTG
*
1570729 TGGACTTTGAAAAGTGGTGCCT-CAGAGTTG
1 TGGACTTTGAAAAG-GGTG-CTACAGAGTTA
1570759 TGGACTTTGAAAAGAGGTGCTACAGAGTTA
1 TGGACTTTGAAAAG-GGTGCTACAGAGTTA
* *
1570789 TAGAC-TTAAAAAGGGATGCTACAGAGTTA
1 TGGACTTTGAAAAGGG-TGCTACAGAGTTA
1570818 TGGACTTT-AAAAG
1 TGGACTTTGAAAAG
1570831 AAAAATGTGC
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
28 2 0.03
29 31 0.48
30 31 0.48
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.27
Consensus pattern (29 bp):
TGGACTTTGAAAAGGGTGCTACAGAGTTA
Found at i:1570847 original size:33 final size:32
Alignment explanation
Indices: 1570775--1570867 Score: 102
Period size: 29 Copynumber: 3.0 Consensus size: 32
1570765 TTGAAAAGAG
* ***
1570775 GTGCTACAGAGTTATAGACTT-AAAAAGGGA-
1 GTGCTACAGAGTTATGGACTTAAAAAAAAAAT
*
1570805 -TGCTACAGAGTTATGGACTTTAAAAGAAAAAT
1 GTGCTACAGAGTTATGGAC-TTAAAAAAAAAAT
*
1570837 GTGCTACAGAGTTGTGGACTTAAAAAAAAAA
1 GTGCTACAGAGTTATGGACTTAAAAAAAAAA
1570868 CCATGGAGTT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
29 17 0.33
30 2 0.04
31 5 0.10
32 11 0.21
33 17 0.33
ACGTcount: A:0.43, C:0.10, G:0.23, T:0.25
Consensus pattern (32 bp):
GTGCTACAGAGTTATGGACTTAAAAAAAAAAT
Found at i:1570954 original size:30 final size:30
Alignment explanation
Indices: 1570725--1571561 Score: 255
Period size: 30 Copynumber: 27.4 Consensus size: 30
1570715 GAGCCATGGG
* * *
1570725 GTTGTGGACTTTGAAAAGTGGTGCCTCAGA
1 GTTGTGGACTTTGAAAGGAGGTGCCACAGA
* *
1570755 GTTGTGGACTTTGAAAAGAGGTGCTACAGA
1 GTTGTGGACTTTGAAAGGAGGTGCCACAGA
* * ** * *
1570785 GTTATAGACTTAAAAAGG-GATGCTACAGA
1 GTTGTGGACTTTGAAAGGAGGTGCCACAGA
* * * * *
1570814 GTTATGGACTTTAAAAGAAAAATGTGCTACAGA
1 GTTGTGGACTTTGAAAG---GAGGTGCCACAGA
** **** **
1570847 GTTGTGGAC-TT-AAAAAAAAAACCATGGA
1 GTTGTGGACTTTGAAAGGAGGTGCCACAGA
*
1570875 GTTGTGGACTTTCAGAAA--ATGTATGCCACTA-A
1 GTTGTGGACTTT--GAAAGGA-G-GTGCCAC-AGA
* * *
1570907 GTTATGGGCTTTCAAAGGAGGTGCCACAGA
1 GTTGTGGACTTTGAAAGGAGGTGCCACAGA
1570937 GTTGTGGACTTTGAAAGGGAAAGGTGCCAC-GA
1 GTTGTGGACTTTGAAA-GG--AGGTGCCACAGA
** *
1570969 GTTGTGGACTTAAAAAGGA-GAGCCACAGA
1 GTTGTGGACTTTGAAAGGAGGTGCCACAGA
* * *
1570998 GTTGTGGACTTTAAGAAA-AAGATGCCACTGA
1 GTTGTGGACTTT--GAAAGGAGGTGCCACAGA
** *
1571029 GTTGTAAACTTTGAAAGGAGGTGCCACGGA
1 GTTGTGGACTTTGAAAGGAGGTGCCACAGA
* * *
1571059 GTTGTGGACTTTGAAAAGAGGTACCACAAA
1 GTTGTGGACTTTGAAAGGAGGTGCCACAGA
** * ** *
1571089 GTTACGAACTTAAAAAGGGAAAGGTGCCA-TGAA
1 GTTGTGGACTTTGAAA-GG--AGGTGCCACAG-A
* * *
1571122 GTTGTGGACTTAGAAAAGA-GAGCCAC-GAA
1 GTTGTGGACTTTGAAAGGAGGTGCCACAG-A
* * * * *
1571151 GTTGTGGATTTTAGGAAA-AAGTATGCTACTGA
1 GTTGTGGACTTT--GAAAGGAG-GTGCCACAGA
* * *
1571183 GTCGCGGACTTTGAAAAGAGGTGCCACAGA
1 GTTGTGGACTTTGAAAGGAGGTGCCACAGA
** * *
1571213 GTCATTGACTTTGAAAGGGAAAGGTGTCAC-GAA
1 GTTGTGGACTTTGAAA-GG--AGGTGCCACAG-A
* * *
1571246 GTTGTGGAC-TTAAAAAG-GGAGCCA-AGA
1 GTTGTGGACTTTGAAAGGAGGTGCCACAGA
* * *
1571273 GTTGTGGACTTTAGGAAA-AAGTATGCCACTGA
1 GTTGTGGACTTT--GAAAGGAG-GTGCCACAGA
** *
1571305 GTCATGGACTTTGAAAGGAGGTGCCACGGA
1 GTTGTGGACTTTGAAAGGAGGTGCCACAGA
** * *
1571335 GTTGTGGACTTTGAAAAAAGATGACAC-GAA
1 GTTGTGGACTTTGAAAGGAGGTGCCACAG-A
** **
1571365 GTTGTGGACTTAAAAATGG-GGTGCCATGGA
1 GTTGTGGACTTTGAAA-GGAGGTGCCACAGA
* * * *
1571395 GTTGTGAACTTTGAAAGAAAAATGTGCCACTGAA
1 GTTGTGGACTTTGAAAG---GAGGTGCCACAG-A
** * **
1571429 GTTGTGGACTTAAAAAGGA-GAGCCATGGA
1 GTTGTGGACTTTGAAAGGAGGTGCCACAGA
* * *
1571458 GTTCTGGACTTTAGGAAA-AAGTATGCCACTA-A
1 GTTGTGGACTTT--GAAAGGAG-GTGCCAC-AGA
*** * *
1571490 GTCACGGACTTTGAAAGGAAGTGCCACGGA
1 GTTGTGGACTTTGAAAGGAGGTGCCACAGA
* * * *
1571520 GTCGTAGACTTTGAAA-AAGGGTGCCACGGA
1 GTTGTGGACTTTGAAAGGA-GGTGCCACAGA
*
1571550 GTTATGGACTTT
1 GTTGTGGACTTT
1571562 AGGAAAAAGT
Statistics
Matches: 591, Mismatches: 155, Indels: 122
0.68 0.18 0.14
Matches are distributed among these distances:
27 10 0.02
28 29 0.05
29 78 0.13
30 257 0.43
31 49 0.08
32 84 0.14
33 69 0.12
34 15 0.03
ACGTcount: A:0.34, C:0.13, G:0.30, T:0.24
Consensus pattern (30 bp):
GTTGTGGACTTTGAAAGGAGGTGCCACAGA
Found at i:1571017 original size:152 final size:152
Alignment explanation
Indices: 1570842--1571171 Score: 343
Period size: 152 Copynumber: 2.2 Consensus size: 152
1570832 AAAATGTGCT
* **
1570842 ACAGAGTTGTGGAC-TTAA-AAAAA-AAACCA-TGGAGTTGTGGACTTTCAGAAA-ATGTATGCC
1 ACAGAGTTGTGGACTTTAAGAAAAAGATACCACT-GAGTTGTAAACTTT--GAAAGA-G-ATGCC
* * * * * ** * **
1570902 ACTAAGTTATGGGCTTTCAAAGGAGGTGCCACAGAGTTGTGGACTTTGAAAGGGAAAGGTGCCAC
61 ACGAAGTTATGGACTTTCAAAAGAGGTACCACAAAGTTACGAACTTAAAAAGGGAAAGGTGCCAC
1570967 G-AGTTGTGGACTTA-AAAAGGAGAGCC
126 GAAGTTGTGGACTTAGAAAA-GAGAGCC
* * *
1570993 ACAGAGTTGTGGACTTTAAGAAAAAGATGCCACTGAGTTGTAAACTTTGAAAGGAGGTGCCACGG
1 ACAGAGTTGTGGACTTTAAGAAAAAGATACCACTGAGTTGTAAACTTTGAAA-GAGATGCCACGA
* * *
1571058 AGTTGTGGACTTTGAAAAGAGGTACCACAAAGTTACGAACTTAAAAAGGGAAAGGTGCCATGAAG
65 AGTTATGGACTTTCAAAAGAGGTACCACAAAGTTACGAACTTAAAAAGGGAAAGGTGCCACGAAG
1571123 TTGTGGACTTAGAAAAGAGAGCC
130 TTGTGGACTTAGAAAAGAGAGCC
* *
1571146 AC-GAAGTTGTGGATTTTAGGAAAAAG
1 ACAG-AGTTGTGGACTTTAAGAAAAAG
1571172 TATGCTACTG
Statistics
Matches: 149, Mismatches: 21, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
151 14 0.09
152 65 0.44
153 48 0.32
154 21 0.14
155 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.29, T:0.23
Consensus pattern (152 bp):
ACAGAGTTGTGGACTTTAAGAAAAAGATACCACTGAGTTGTAAACTTTGAAAGAGATGCCACGAA
GTTATGGACTTTCAAAAGAGGTACCACAAAGTTACGAACTTAAAAAGGGAAAGGTGCCACGAAGT
TGTGGACTTAGAAAAGAGAGCC
Found at i:1571025 original size:122 final size:123
Alignment explanation
Indices: 1570751--1571074 Score: 329
Period size: 122 Copynumber: 2.7 Consensus size: 123
1570741 AGTGGTGCCT
* * * ** * *
1570751 CAGAGTTGTGGACTTT--GAAAAGAG-GTGCTAC-AGAGTTATAGACTTAAAAAGG-GATGCTAC
1 CAGAGTTGTGGACTTTAAGAAAA-AGTATGCCACTA-AGTTATAAACTTTCAAAGGAGGTGCCAC
* * * *
1570811 AGAGTTATGGACTTTAAAAGAAAAATGTGCTACAGAGTTGTGGACTTAAAAAAAAAACCA
64 AGAGTTGTGGACTTTGAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAAAAAAACCA
** * * ***
1570871 TGGAGTTGTGGACTTTCAGAAAATGTATGCCACTAAGTTATGGGCTTTCAAAGGAGGTGCCACAG
1 CAGAGTTGTGGACTTTAAGAAAAAGTATGCCACTAAGTTATAAACTTTCAAAGGAGGTGCCACAG
** * * *
1570936 AGTTGTGGACTTTGAAAGGGAAAGGTGCCAC-GAGTTGTGGACTTAAAAAGGAGAGCCA
66 AGTTGTGGACTTTGAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAA-AAAAACCA
* * * *
1570994 CAGAGTTGTGGACTTTAAGAAAAAG-ATGCCACTGAGTTGTAAACTTTGAAAGGAGGTGCCACGG
1 CAGAGTTGTGGACTTTAAGAAAAAGTATGCCACTAAGTTATAAACTTTCAAAGGAGGTGCCACAG
1571058 AGTTGTGGACTTTGAAA
66 AGTTGTGGACTTTGAAA
1571075 AGAGGTACCA
Statistics
Matches: 167, Mismatches: 31, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
120 14 0.08
121 1 0.01
122 92 0.55
123 60 0.36
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (123 bp):
CAGAGTTGTGGACTTTAAGAAAAAGTATGCCACTAAGTTATAAACTTTCAAAGGAGGTGCCACAG
AGTTGTGGACTTTGAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAAAAAAACCA
Found at i:1571055 original size:61 final size:61
Alignment explanation
Indices: 1570632--1571070 Score: 242
Period size: 62 Copynumber: 7.2 Consensus size: 61
1570622 TATCATGGAA
* * * *
1570632 TTGTGGACTTTAA-AAGAGAAGATGCCACGGAGTTATGGACTTTAAGAA-AATGTATGCCACTAG
1 TTGTGGACTTTAAGAA-A-AAGATGCCACTGAGTTGTGGACTTTAA-AAGGA-G-GTGCCAC-AG
1570695 -G
60 AG
** * * * *
1570696 TCATGGACTTTAA-AAGAAGGA-GCCA-TGGGGTTGTGGACTTTGAAAA-GTGGTGCCTCAGAG
1 TTGTGGACTTTAAGAA-AAAGATGCCACT-GAGTTGTGGACTTT-AAAAGGAGGTGCCACAGAG
* * * * * * * *
1570756 TTGTGGACTTT--GAAAAGAGGTGCTACAGAGTTATAGACTTAAAAAGG-GATGCTACAGAG
1 TTGTGGACTTTAAGAAAA-AGATGCCACTGAGTTGTGGACTTTAAAAGGAGGTGCCACAGAG
* * * * **** **
1570815 TTATGGACTTTAAAAGAAAAATG-TGCTACAGAGTTGTGGAC-TTAAAA-AAAAAACCATGGAG
1 TTGTGGACTTT--AAGAAAAA-GATGCCACTGAGTTGTGGACTTTAAAAGGAGGTGCCACAGAG
* * * * * *
1570876 TTGTGGACTTTCAGAAAATGTATGCCACTAAGTTATGGGCTTTCAAAGGAGGTGCCACAGAG
1 TTGTGGACTTTAAGAAAAAG-ATGCCACTGAGTTGTGGACTTTAAAAGGAGGTGCCACAGAG
** * * *
1570938 TTGTGGACTTTGAAAGGGAAAGGTGCCAC-GAGTTGTGGACTTAAAAAGGA-GAGCCACAGAG
1 TTGTGGACTTT--AAGAAAAAGATGCCACTGAGTTGTGGACTTTAAAAGGAGGTGCCACAGAG
** * *
1570999 TTGTGGACTTTAAGAAAAAGATGCCACTGAGTTGTAAACTTTGAAAGGAGGTGCCACGGAG
1 TTGTGGACTTTAAGAAAAAGATGCCACTGAGTTGTGGACTTTAAAAGGAGGTGCCACAGAG
1571060 TTGTGGACTTT
1 TTGTGGACTTT
1571071 GAAAAGAGGT
Statistics
Matches: 283, Mismatches: 70, Indels: 47
0.71 0.17 0.12
Matches are distributed among these distances:
58 3 0.01
59 47 0.17
60 59 0.21
61 68 0.24
62 69 0.24
63 17 0.06
64 20 0.07
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.26
Consensus pattern (61 bp):
TTGTGGACTTTAAGAAAAAGATGCCACTGAGTTGTGGACTTTAAAAGGAGGTGCCACAGAG
Found at i:1571169 original size:153 final size:153
Alignment explanation
Indices: 1570950--1571228 Score: 393
Period size: 154 Copynumber: 1.8 Consensus size: 153
1570940 GTGGACTTTG
1570950 AAAGGGAAAGGTGCCACGAGTTGTGGACTTAAAAAGGAGAGCCACAGAGTTGTGGACTTTAAGAA
1 AAAGGGAAAGGTGCCACGAGTTGTGGACTTAAAAAGGAGAGCCACAGAGTTGTGGACTTTAAGAA
* * * * **
1571015 AAAG-ATGCCACTGAGTTGTAAACTTTGAAAGGAGGTGCCACGGAGTTGTGGACTTTGAAAAGAG
66 AAAGTATGCCACTGAGTCGCAAACTTTGAAAAGAGGTGCCACAGAGTCATGGACTTTGAAAAGAG
1571079 GTACCACAAAGTTACGAACTTAA
131 GTACCACAAAGTTACGAACTTAA
* * *
1571102 AAAGGGAAAGGTGCCATGAAGTTGTGGACTTAGAAAA-GAGAGCCAC-GAAGTTGTGGATTTTAG
1 AAAGGGAAAGGTGCCACG-AGTTGTGGACTTA-AAAAGGAGAGCCACAG-AGTTGTGGACTTTAA
* ** *
1571165 GAAAAAGTATGCTACTGAGTCGCGGACTTTGAAAAGAGGTGCCACAGAGTCATTGACTTTGAAA
63 GAAAAAGTATGCCACTGAGTCGCAAACTTTGAAAAGAGGTGCCACAGAGTCATGGACTTTGAAA
1571229 GGGAAAGGTG
Statistics
Matches: 110, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
152 18 0.16
153 42 0.38
154 50 0.45
ACGTcount: A:0.35, C:0.13, G:0.29, T:0.22
Consensus pattern (153 bp):
AAAGGGAAAGGTGCCACGAGTTGTGGACTTAAAAAGGAGAGCCACAGAGTTGTGGACTTTAAGAA
AAAGTATGCCACTGAGTCGCAAACTTTGAAAAGAGGTGCCACAGAGTCATGGACTTTGAAAAGAG
GTACCACAAAGTTACGAACTTAA
Found at i:1571196 original size:124 final size:122
Alignment explanation
Indices: 1571064--1571331 Score: 367
Period size: 124 Copynumber: 2.2 Consensus size: 122
1571054 ACGGAGTTGT
* * *
1571064 GGACTTTGAAAAGAGGTACCACAAAGTTA-CGAACTTAAAAAGGGAAAGGTGCCATGAAGTTGTG
1 GGACTTTGAAAAGAGGTGCCACAAAGTCATCG-ACTTAAAAAGGGAAAGGTGCCACGAAGTTGTG
* * * *
1571128 GACTTAGAAAAGAGAGCCACGAAGTTGTGGATTTTAGGAAAAAGTATGCTACTGAGTCGC
65 GACTTA-AAAAGAGAGCCAAG-AGTTGTGGACTTTAGGAAAAAGTATGCCACTGAGTCAC
* * ** *
1571188 GGACTTTGAAAAGAGGTGCCACAGAGTCATTGACTTTGAAAGGGAAAGGTGTCACGAAGTTGTGG
1 GGACTTTGAAAAGAGGTGCCACAAAGTCATCGACTTAAAAAGGGAAAGGTGCCACGAAGTTGTGG
* *
1571253 ACTTAAAAAGGGAGCCAAGAGTTGTGGACTTTAGGAAAAAGTATGCCACTGAGTCAT
66 ACTTAAAAAGAGAGCCAAGAGTTGTGGACTTTAGGAAAAAGTATGCCACTGAGTCAC
*
1571310 GGACTTTGAAAGGAGGTGCCAC
1 GGACTTTGAAAAGAGGTGCCAC
1571332 GGAGTTGTGG
Statistics
Matches: 128, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
122 55 0.43
123 12 0.09
124 60 0.47
125 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.22
Consensus pattern (122 bp):
GGACTTTGAAAAGAGGTGCCACAAAGTCATCGACTTAAAAAGGGAAAGGTGCCACGAAGTTGTGG
ACTTAAAAAGAGAGCCAAGAGTTGTGGACTTTAGGAAAAAGTATGCCACTGAGTCAC
Found at i:1571293 original size:154 final size:150
Alignment explanation
Indices: 1570962--1571293 Score: 332
Period size: 154 Copynumber: 2.2 Consensus size: 150
1570952 AGGGAAAGGT
* *
1570962 GCCACGAGTTGTGGACTTA-AAAAGGAGAGCCACAGAGTTGTGGACTTTAAGAAAAAGATGCCAC
1 GCCAAGAGTTGTGGACTTAGAAAAAGAGAGCCACAGAGTTGTGGACTTTAAGAAAAAGATGCCAC
* * * * ** *
1571026 TGAGTTGTAAACTTTGAAAGGAGGTGCCACGGAGTTGTGGACTTTGAAAAGAGGTACCACAAAGT
66 TGAGTCGCAAACTTTGAAAAGAGGTGCCACAGAGTCATGGACTTTGAAAAAAGGTACCACAAAGT
1571091 TACGAACTTAAAAAGGGAAAGG
131 TACGAACTTAAAAAGGG-AA-G
* * *
1571113 TGCCATGAAGTTGTGGACTTAG-AAAAGAGAGCCAC-GAAGTTGTGGATTTTAGGAAAAAGTATG
1 -GCCAAG-AGTTGTGGACTTAGAAAAAGAGAGCCACAG-AGTTGTGGACTTTAAGAAAAAG-ATG
* ** * **
1571176 CTACTGAGTCGCGGACTTTGAAAAGAGGTGCCACAGAGTCATTGACTTTGAAAGGGAAAGGTGTC
62 CCACTGAGTCGCAAACTTTGAAAAGAGGTGCCACAGAGTCATGGACTTTGAAA---AAAGGTACC
* ** *
1571241 ACGAAGTTGTGGACTTAAAAAGGG-A-
124 ACAAAGTTACGAACTTAAAAAGGGAAG
1571266 GCCAAGAGTTGTGGACTTTAGGAAAAAG
1 GCCAAGAGTTGTGGAC-TTA-GAAAAAG
1571294 TATGCCACTG
Statistics
Matches: 148, Mismatches: 22, Indels: 18
0.79 0.12 0.10
Matches are distributed among these distances:
151 10 0.07
152 14 0.09
153 46 0.31
154 51 0.34
155 1 0.01
157 26 0.18
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.22
Consensus pattern (150 bp):
GCCAAGAGTTGTGGACTTAGAAAAAGAGAGCCACAGAGTTGTGGACTTTAAGAAAAAGATGCCAC
TGAGTCGCAAACTTTGAAAAGAGGTGCCACAGAGTCATGGACTTTGAAAAAAGGTACCACAAAGT
TACGAACTTAAAAAGGGAAG
Found at i:1571326 original size:122 final size:123
Alignment explanation
Indices: 1571064--1571380 Score: 399
Period size: 122 Copynumber: 2.6 Consensus size: 123
1571054 ACGGAGTTGT
* * * * * ** * *
1571064 GGACTTTGAAAAGAGGTACCACAAAGTTACGAACTTAAAAAGGGAAAGGTGCCATGAAGTTGTGG
1 GGACTTTGAAAAGAGGTGCCACAGAGTCATGGACTTTGAAAGGGAAAGGTGACACGAAGTTGTGG
* * * *
1571129 ACTTAGAAAAGAGAGCCACGAAGTTGTGGATTTTAGGAAAAAGTATGCTACTGAGTCGC
66 ACTTA-AAAAGAGAGCCAAGAAGTTGTGGACTTTAGGAAAAAGTATGCCACTGAGTCAC
* *
1571188 GGACTTTGAAAAGAGGTGCCACAGAGTCATTGACTTTGAAAGGGAAAGGTGTCACGAAGTTGTGG
1 GGACTTTGAAAAGAGGTGCCACAGAGTCATGGACTTTGAAAGGGAAAGGTGACACGAAGTTGTGG
* *
1571253 ACTTAAAAAGGGAGCCAAG-AGTTGTGGACTTTAGGAAAAAGTATGCCACTGAGTCAT
66 ACTTAAAAAGAGAGCCAAGAAGTTGTGGACTTTAGGAAAAAGTATGCCACTGAGTCAC
* * ** *
1571310 GGACTTTGAAAGGAGGTGCCACGGAGTTGTGGACTTTGAAA---AAAGATGACACGAAGTTGTGG
1 GGACTTTGAAAAGAGGTGCCACAGAGTCATGGACTTTGAAAGGGAAAGGTGACACGAAGTTGTGG
1571372 ACTTAAAAA
66 ACTTAAAAA
1571381 TGGGGTGCCA
Statistics
Matches: 170, Mismatches: 23, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
119 28 0.16
122 70 0.41
123 12 0.07
124 60 0.35
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.22
Consensus pattern (123 bp):
GGACTTTGAAAAGAGGTGCCACAGAGTCATGGACTTTGAAAGGGAAAGGTGACACGAAGTTGTGG
ACTTAAAAAGAGAGCCAAGAAGTTGTGGACTTTAGGAAAAAGTATGCCACTGAGTCAC
Found at i:1571378 original size:276 final size:273
Alignment explanation
Indices: 1570915--1571410 Score: 728
Period size: 276 Copynumber: 1.8 Consensus size: 273
1570905 AAGTTATGGG
* **
1570915 CTTTCAAAGGAGGTGCCACAGAGTTGTGGACTTTGAAAGGGAAAGGTGCCACGAGTTGTGGACTT
1 CTTTCAAAAGAGGTGCCACAGAGTCATGGACTTTGAAAGGGAAAGGTGCCACGAGTTGTGGACTT
**
1570980 AAAAAGGAGAGCCACAGAGTTGTGGACTTTAAGAAAAAGATGCCACTGAGTTGTAAACTTTGAAA
66 AAAAAGGAGAGCCACAGAGTTGTGGACTTTAAGAAAAAGATGCCACTGAGTCATAAACTTTGAAA
* *
1571045 GGAGGTGCCACGGAGTTGTGGACTTTGAAAAGAGGTACCACAAAGTTACGAACTTAAAAAGGGAA
131 GGAGGTGCCACGGAGTTGTGGACTTTGAAAAAAGATACCACAAAGTTACGAACTTAAAAAGGG--
*
1571110 AGGTGCCATGAAGTTGTGGACTTAGAAAAGAGAGCCACGAAGTTGTGGATTTTAGGAAAAAGTAT
194 -GGTGCCATGAAGTTGTGAACTTAGAAAAGAGAGCCACGAAGTTGTGGATTTTAGGAAAAAGTAT
1571175 GCTACTGAGTCGCGGA
258 GCTACTGAGTCGCGGA
* * *
1571191 CTTTGAAAAGAGGTGCCACAGAGTCATTGACTTTGAAAGGGAAAGGTGTCACGAAGTTGTGGACT
1 CTTTCAAAAGAGGTGCCACAGAGTCATGGACTTTGAAAGGGAAAGGTGCCACG-AGTTGTGGACT
* **
1571256 TAAAAAGG-GAGCCA-AGAGTTGTGGACTTTAGGAAAAAGTATGCCACTGAGTCATGGACTTTGA
65 TAAAAAGGAGAGCCACAGAGTTGTGGACTTTAAGAAAAAG-ATGCCACTGAGTCATAAACTTTGA
* ** * *
1571319 AAGGAGGTGCCACGGAGTTGTGGACTTTGAAAAAAGATGA-CACGAAGTTGTGGACTTAAAAATG
129 AAGGAGGTGCCACGGAGTTGTGGACTTTGAAAAAAGAT-ACCACAAAGTTACGAACTTAAAAAGG
* *
1571383 GGGTGCCATGGAGTTGTGAACTTTGAAA
193 GGGTGCCATGAAGTTGTGAACTTAGAAA
1571411 GAAAAATGTG
Statistics
Matches: 196, Mismatches: 21, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
273 24 0.12
275 23 0.12
276 129 0.66
277 20 0.10
ACGTcount: A:0.33, C:0.13, G:0.31, T:0.23
Consensus pattern (273 bp):
CTTTCAAAAGAGGTGCCACAGAGTCATGGACTTTGAAAGGGAAAGGTGCCACGAGTTGTGGACTT
AAAAAGGAGAGCCACAGAGTTGTGGACTTTAAGAAAAAGATGCCACTGAGTCATAAACTTTGAAA
GGAGGTGCCACGGAGTTGTGGACTTTGAAAAAAGATACCACAAAGTTACGAACTTAAAAAGGGGG
TGCCATGAAGTTGTGAACTTAGAAAAGAGAGCCACGAAGTTGTGGATTTTAGGAAAAAGTATGCT
ACTGAGTCGCGGA
Found at i:1571397 original size:122 final size:119
Alignment explanation
Indices: 1571119--1571478 Score: 373
Period size: 122 Copynumber: 2.9 Consensus size: 119
1571109 AAGGTGCCAT
* * * *
1571119 GAAGTTGTGGACTTAGAAAAGAGAGCCACGAAGTTGTGGATTTTAGGAAAAAGTATGCTACTGAG
1 GAAGTTGTGGACTTA-AAAAGGGAGCCA-GGAGTTGTGGACTTTAGGAAAAAGTATGCCACTGAG
* * * * * * *
1571184 TCGCGGACTTTGAAAAGAGGTGCCACAGAGTCATTGACTTTGAAAGGGAAAGGTGTCAC
64 TCGTGGACTTTGAAAGGAGGTGCCACGGAGTTATGGACTTTGAAA---AAAGATGACAC
*
1571243 GAAGTTGTGGACTTAAAAAGGGAGCCAAGAGTTGTGGACTTTAGGAAAAAGTATGCCACTGAGTC
1 GAAGTTGTGGACTTAAAAAGGGAGCCAGGAGTTGTGGACTTTAGGAAAAAGTATGCCACTGAGTC
* *
1571308 ATGGACTTTGAAAGGAGGTGCCACGGAGTTGTGGACTTTGAAAAAAGATGACAC
66 GTGGACTTTGAAAGGAGGTGCCACGGAGTTATGGACTTTGAAAAAAGATGACAC
* * * *
1571362 GAAGTTGTGGACTTAAAAATGGGGTGCCATGGAGTTGTGAACTTTGAAAGAAAAA-TGTGCCACT
1 GAAGTTGTGGACTTAAAAA--GGGAGCCA-GGAGTTGTGGACTTT--AGGAAAAAGTATGCCACT
* ** * * * *
1571426 GAAGTTGTGGACTTAAAAAGGA-GAGCCATGGAGTTCTGGACTTTAGGAAAAAG
61 G-AGTCGTGGACTTTGAAAGGAGGTGCCACGGAGTTATGGACTTT-GAAAAAAG
1571479 TATGCCACTA
Statistics
Matches: 202, Mismatches: 27, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
119 28 0.14
121 7 0.03
122 83 0.41
123 39 0.19
124 45 0.22
ACGTcount: A:0.34, C:0.12, G:0.31, T:0.24
Consensus pattern (119 bp):
GAAGTTGTGGACTTAAAAAGGGAGCCAGGAGTTGTGGACTTTAGGAAAAAGTATGCCACTGAGTC
GTGGACTTTGAAAGGAGGTGCCACGGAGTTATGGACTTTGAAAAAAGATGACAC
Found at i:1571516 original size:185 final size:182
Alignment explanation
Indices: 1571220--1571560 Score: 511
Period size: 185 Copynumber: 1.9 Consensus size: 182
1571210 AGAGTCATTG
** * *
1571220 ACTTTGAAAGGGAAAGGTGTCACGAAGTTGTGGACTTAAAAAGGGAGCCAAGAGTTGTGGACTTT
1 ACTTTGAAAGAAAAAGGTGCCACGAAGTTGTGGACTTAAAAAGGGAGCCAAGAGTTCTGGACTTT
* * * * *
1571285 AGGAAAAAGTATGCCACTGAGTCATGGACTTTGAAAGGAGGTGCCACGGAGTTGTGGACTTTGAA
66 AGGAAAAAGTATGCCACTAAGTCACGGACTTTGAAAGGAAGTGCCACGGAGTCGTAGACTTTGAA
*
1571350 AAAAGATGACACGAAGTTGTGGACTTAAAAATGGGGTGCCATGGAGTTGTGA
131 AAAAGATGACACGAAGTTATGGACTTAAAAATGGGGTGCCATGGAGTTGTGA
* *
1571402 ACTTTGAAAGAAAAATGTGCCACTGAAGTTGTGGACTTAAAAAGGAGAGCCATGGAGTTCTGGAC
1 ACTTTGAAAGAAAAAGGTGCCAC-GAAGTTGTGGACTTAAAAAGG-GAGCCA-AGAGTTCTGGAC
1571467 TTTAGGAAAAAGTATGCCACTAAGTCACGGACTTTGAAAGGAAGTGCCACGGAGTCGTAGACTTT
63 TTTAGGAAAAAGTATGCCACTAAGTCACGGACTTTGAAAGGAAGTGCCACGGAGTCGTAGACTTT
* * * *
1571532 GAAAAAGGGTGCCACGGAGTTATGGACTT
128 GAAAAAAGATGACACGAAGTTATGGACTT
1571561 TAGGAAAAAG
Statistics
Matches: 140, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
182 19 0.14
183 21 0.15
184 6 0.04
185 94 0.67
ACGTcount: A:0.33, C:0.13, G:0.30, T:0.23
Consensus pattern (182 bp):
ACTTTGAAAGAAAAAGGTGCCACGAAGTTGTGGACTTAAAAAGGGAGCCAAGAGTTCTGGACTTT
AGGAAAAAGTATGCCACTAAGTCACGGACTTTGAAAGGAAGTGCCACGGAGTCGTAGACTTTGAA
AAAAGATGACACGAAGTTATGGACTTAAAAATGGGGTGCCATGGAGTTGTGA
Found at i:1571539 original size:276 final size:274
Alignment explanation
Indices: 1570874--1571571 Score: 703
Period size: 276 Copynumber: 2.5 Consensus size: 274
1570864 AAAACCATGG
* * *** * * * *
1570874 AGTTGTGGA-CTTTCAGAAAATGTATGCCACTAAGTTATGGGCTTTCAAAGGAGGTGCCACAGAG
1 AGTTGTGGATC-TT-AGAAAAAGTATGCCACTGAGTCGCGGACTTTGAAAAGAGATGCCACAGAG
***
1570938 TTGTGGACTTTGAAAGGGAAAGGTGCCAC-GAGTTGTGGACTTAAAAAGGAGAGCCACAGAGTTG
64 TCACGGACTTTGAAAGGGAAAGGTGCCACGGAGTTGTGGACTTAAAAAGG-GAGCCACAGAGTTG
* **
1571002 TGGACTTTAAGAAAAAG-ATGCCACTGAGTTGTAAACTTTGAAAGGAGGTGCCACGGAGTTGTGG
128 TGGACTTTAGGAAAAAGTATGCCACTGAGTCATAAACTTTGAAAGGAGGTGCCACGGAGTTGTGG
* * *
1571066 ACTTTGAAAAGAGGTACCACAAAGTTACGAACTTAAAAAGGGAAAGGTGCCATGAAGTTGTGGAC
193 ACTTTGAAAAAAGATACCACAAAGTTACGAACTTAAAAAGGG--AGGTGCCATGAAGTTGTGAAC
1571131 TTAGAAAAGAGAGCCACGA
256 TTAGAAAAGAGAGCCACGA
* * *
1571150 AGTTGTGGATTTTAGGAAAAAGTATGCTACTGAGTCGCGGACTTTGAAAAGAGGTGCCACAGAGT
1 AGTTGTGGATCTTA-GAAAAAGTATGCCACTGAGTCGCGGACTTTGAAAAGAGATGCCACAGAGT
** * *
1571215 CATTGACTTTGAAAGGGAAAGGTGTCACGAAGTTGTGGACTTAAAAAGGGAGCCA-AGAGTTGTG
65 CACGGACTTTGAAAGGGAAAGGTGCCACGGAGTTGTGGACTTAAAAAGGGAGCCACAGAGTTGTG
**
1571279 GACTTTAGGAAAAAGTATGCCACTGAGTCATGGACTTTGAAAGGAGGTGCCACGGAGTTGTGGAC
130 GACTTTAGGAAAAAGTATGCCACTGAGTCATAAACTTTGAAAGGAGGTGCCACGGAGTTGTGGAC
* ** * * *
1571344 TTTGAAAAAAGATGA-CACGAAGTTGTGGACTTAAAAATGG-GGTGCCATGGAGTTGTGAACTTT
195 TTTGAAAAAAGAT-ACCACAAAGTTACGAACTTAAAAAGGGAGGTGCCATGAAGTTGTGAAC-TT
*
1571407 GAAAGAAAA-ATGTGCCACTGA
258 ---AGAAAAGA-GAGCCAC-GA
*
1571428 AGTTGTGGA-CTTA-AAAAGGAG-A-GCCA-TGGAGTTC-TGGACTTTAGGAAAA-AGTATGCCA
1 AGTTGTGGATCTTAGAAAA--AGTATGCCACT-GAG-TCGCGGACTTT--GAAAAGAG-ATGCCA
* * *
1571486 CTA-AGTCACGGACTTTGAAA-GG-AA-GTGCCACGGAGTCGTAGACTTTGAAAAAGGGTGCCAC
59 C-AGAGTCACGGACTTTGAAAGGGAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAAGGGAGCCAC
* *
1571547 GGAGTTATGGACTTTAGGAAAAAGT
121 AGAGTTGTGGACTTTAGGAAAAAGT
1571572 GCAATACTAG
Statistics
Matches: 357, Mismatches: 43, Indels: 43
0.81 0.10 0.10
Matches are distributed among these distances:
273 18 0.05
274 18 0.05
275 45 0.13
276 178 0.50
277 86 0.24
278 12 0.03
ACGTcount: A:0.33, C:0.13, G:0.30, T:0.23
Consensus pattern (274 bp):
AGTTGTGGATCTTAGAAAAAGTATGCCACTGAGTCGCGGACTTTGAAAAGAGATGCCACAGAGTC
ACGGACTTTGAAAGGGAAAGGTGCCACGGAGTTGTGGACTTAAAAAGGGAGCCACAGAGTTGTGG
ACTTTAGGAAAAAGTATGCCACTGAGTCATAAACTTTGAAAGGAGGTGCCACGGAGTTGTGGACT
TTGAAAAAAGATACCACAAAGTTACGAACTTAAAAAGGGAGGTGCCATGAAGTTGTGAACTTAGA
AAAGAGAGCCACGA
Found at i:1577791 original size:7 final size:8
Alignment explanation
Indices: 1577767--1577795 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
1577757 CAAAATAATG
1577767 TTATGTTT
1 TTATGTTT
1577775 TTATGTTT
1 TTATGTTT
1577783 TTATGTTT
1 TTATGTTT
1577791 TTATG
1 TTATG
1577796 CGGGGATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.72
Consensus pattern (8 bp):
TTATGTTT
Found at i:1582594 original size:19 final size:18
Alignment explanation
Indices: 1582556--1582617 Score: 52
Period size: 18 Copynumber: 3.2 Consensus size: 18
1582546 TTAAAATTTT
1582556 AAATTCAAAAATTAATTTTAA
1 AAATT-AAAAATT-A-TTTAA
*
1582577 AAATTAAAAAATTATTTAT
1 AAATT-AAAAATTATTTAA
* * *
1582596 ATATTAACAATTAATTAA
1 AAATTAAAAATTATTTAA
1582614 AAAT
1 AAAT
1582618 ATTAATTTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
18 13 0.38
19 8 0.24
20 1 0.03
21 12 0.35
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATTAAAAATTATTTAA
Found at i:1582908 original size:20 final size:20
Alignment explanation
Indices: 1582885--1582925 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
1582875 ATAATATTTA
1582885 TTTAAAATAT-TTTTTAATAT
1 TTTAAAATATATTTTT-ATAT
*
1582905 TTTAATATATATTTTTATAT
1 TTTAAAATATATTTTTATAT
1582925 T
1 T
1582926 AAATAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTAAAATATATTTTTATAT
Found at i:1582932 original size:22 final size:23
Alignment explanation
Indices: 1582907--1582959 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
1582897 TTTAATATTT
*
1582907 TAATATATATT-TTTA-TATTAAA
1 TAATATAT-TTATTTAGTATAAAA
1582929 TAAT-TATTTATTTAGTATAAAA
1 TAATATATTTATTTAGTATAAAA
1582951 TAA-ATATTT
1 TAATATATTT
1582960 TATATTATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 2 0.07
21 7 0.26
22 18 0.67
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TAATATATTTATTTAGTATAAAA
Found at i:1582936 original size:19 final size:19
Alignment explanation
Indices: 1582861--1582966 Score: 67
Period size: 19 Copynumber: 5.4 Consensus size: 19
1582851 ATATTTTTAA
*
1582861 TTATATTAAATTAAATAATAT
1 TTATATTAAA-TAAAT-ATTT
*
1582882 TTAT-TTAAA-ATAT-TTT
1 TTATATTAAATAAATATTT
* *
1582898 TTAATATTTTAATATATATTT
1 TT-ATA-TTAAATAAATATTT
*
1582919 TTATATTAAATAATTATTTAT
1 TTATATTAAATAAATA-TT-T
*
1582940 TTAGTATAAAATAAATA-TT
1 TTA-TATTAAATAAATATTT
1582959 TTATATTA
1 TTATATTA
1582967 TATTTTCTCA
Statistics
Matches: 68, Mismatches: 9, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
16 4 0.06
17 2 0.03
18 7 0.10
19 16 0.24
20 15 0.22
21 13 0.19
22 11 0.16
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (19 bp):
TTATATTAAATAAATATTT
Found at i:1583213 original size:18 final size:16
Alignment explanation
Indices: 1583190--1583224 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
1583180 ACATAATTTT
1583190 TTATTTATTCATTAATAA
1 TTATTTA-TC-TTAATAA
1583208 TTATTTATCTTAATAA
1 TTATTTATCTTAATAA
1583224 T
1 T
1583225 AATAAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 2 0.12
18 7 0.41
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (16 bp):
TTATTTATCTTAATAA
Done.