Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold446
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: 3567220
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 22
Found at i:1411443 original size:12 final size:11
Alignment explanation
Indices: 1411387--1411444 Score: 73
Period size: 11 Copynumber: 5.2 Consensus size: 11
1411377 CTTTGCACTC
1411387 TTTTTTTGTTT
1 TTTTTTTGTTT
*
1411398 GTTTTTTGTTT
1 TTTTTTTGTTT
1411409 TTGTTTTTGTTT
1 TT-TTTTTGTTT
1411421 TTTGTTTT-TTT
1 TTT-TTTTGTTT
*
1411432 TTTTTGTGTTT
1 TTTTTTTGTTT
1411443 TT
1 TT
1411445 ACTTTTGACT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
10 3 0.07
11 23 0.56
12 15 0.37
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:1418904 original size:13 final size:13
Alignment explanation
Indices: 1418886--1418911 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1418876 GTCTACAATC
1418886 ATGTATCGATACA
1 ATGTATCGATACA
1418899 ATGTATCGATACA
1 ATGTATCGATACA
1418912 TTGTCCCCTA
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1419008 original size:19 final size:19
Alignment explanation
Indices: 1418960--1419033 Score: 76
Period size: 20 Copynumber: 3.8 Consensus size: 19
1418950 ACTGCCAATC
*
1418960 TCATGTATCGATACAATTG
1 TCATGTATCGATACAATTA
*
1418979 TCCATGTATCGATACGATTA
1 T-CATGTATCGATACAATTA
* **
1418999 TCATGCATCGATACAAAGCA
1 TCATGTATCGATAC-AATTA
*
1419019 TAATGTATCGATACA
1 TCATGTATCGATACA
1419034 TTTGGGTGTA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 14 0.31
20 31 0.69
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (19 bp):
TCATGTATCGATACAATTA
Found at i:1421682 original size:20 final size:20
Alignment explanation
Indices: 1421657--1421697 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
1421647 CTATAGACCC
*
1421657 TAATTCATATCA-AGCAAACA
1 TAATTCA-ATCATAACAAACA
1421677 TAATTCAATCATAACAAACA
1 TAATTCAATCATAACAAACA
1421697 T
1 T
1421698 CAAAATTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.51, C:0.20, G:0.02, T:0.27
Consensus pattern (20 bp):
TAATTCAATCATAACAAACA
Found at i:1427710 original size:13 final size:13
Alignment explanation
Indices: 1427669--1427717 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
1427659 CCGTTACAAG
*
1427669 CAATGTATCAATA
1 CAATGTATCGATA
1427682 CAAT-T-TC-AT-
1 CAATGTATCGATA
1427691 C-ATGTATCGATA
1 CAATGTATCGATA
1427703 CAATGTATCGATA
1 CAATGTATCGATA
1427716 CA
1 CA
1427718 TTGTCCCATG
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
8 2 0.06
9 2 0.06
10 4 0.13
11 4 0.13
12 2 0.06
13 17 0.55
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1427733 original size:33 final size:34
Alignment explanation
Indices: 1427669--1427738 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 34
1427659 CCGTTACAAG
*
1427669 CAATGTATCAATACAATTTCATCATGTATCGATA
1 CAATGTATCAATACAATTTCACCATGTATCGATA
*
1427703 CAATGTATCGATAC-ATTGTC-CCATGTATCGATA
1 CAATGTATCAATACAATT-TCACCATGTATCGATA
1427736 CAA
1 CAA
1427739 ATAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 18 0.55
34 15 0.45
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (34 bp):
CAATGTATCAATACAATTTCACCATGTATCGATA
Found at i:1429558 original size:50 final size:51
Alignment explanation
Indices: 1429470--1429582 Score: 147
Period size: 50 Copynumber: 2.2 Consensus size: 51
1429460 TTATTTTTGA
* * * *
1429470 GGGGATACTCCAGCCCCAATTTTATTTCTAAAATACCAATTTTTCATAATC
1 GGGGATACTCCAGCCCCAATTTTATTTCCAAAACACCAATTTCTCACAATC
** * *
1429521 GGGGATACTCCA-CTTCGATTTTATTTCCAAAACACCAATTTCTCACAATT
1 GGGGATACTCCAGCCCCAATTTTATTTCCAAAACACCAATTTCTCACAATC
1429571 GGGGATACTCCA
1 GGGGATACTCCA
1429583 ATCTCGTTAT
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
50 42 0.78
51 12 0.22
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAGCCCCAATTTTATTTCCAAAACACCAATTTCTCACAATC
Found at i:1429639 original size:79 final size:78
Alignment explanation
Indices: 1429521--1429816 Score: 316
Period size: 79 Copynumber: 3.8 Consensus size: 78
1429511 TTTCATAATC
* * * *
1429521 GGGGATACTCC-ACTTCGATTTTATTTCCAAAACACCAATTTCTCACAATTGGGGATACTCCAAT
1 GGGGATACTCCAACCTCGATTTTATTTCTAAAACACCAATTTCTCACAATCGGGGATACTCCAAC
1429585 CTCGTTATTTTCA
66 CTCGTTATTTTCA
*** * *
1429598 TGGGGATACTCCAACCTCGGCCTTATTTCTAAAGCATCAATTT-TCCACAATCGGGGATACTCCA
1 -GGGGATACTCCAACCTCGATTTTATTTCTAAAACACCAATTTCT-CACAATCGGGGATACTCCA
*
1429662 ACCTCGTTATTTTTGA
64 ACCTCGTTA-TTTTCA
* * * *
1429678 GGGGATACTCTAACC-CTGATTTTATTT-TCAAAACACCAATTGCT-ATAATCGGGGATACTCTA
1 GGGGATACTCCAACCTC-GATTTTATTTCT-AAAACACCAATTTCTCACAATCGGGGATACTCCA
* *
1429740 ACCCCGTTATTTCCAA
64 ACCTCGTTATTTTC-A
* * *
1429756 GGGGATACTCCAACCTCGATTTTATTTCTAAAACATCAATTT-TCCATAATCAGGGATACTC
1 GGGGATACTCCAACCTCGATTTTATTTCTAAAACACCAATTTCT-CACAATCGGGGATACTC
1429817 TAACTCTGAT
Statistics
Matches: 181, Mismatches: 26, Indels: 21
0.79 0.11 0.09
Matches are distributed among these distances:
77 4 0.02
78 74 0.41
79 97 0.54
80 6 0.03
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (78 bp):
GGGGATACTCCAACCTCGATTTTATTTCTAAAACACCAATTTCTCACAATCGGGGATACTCCAAC
CTCGTTATTTTCA
Found at i:1429813 original size:51 final size:52
Alignment explanation
Indices: 1429757--1429872 Score: 173
Period size: 51 Copynumber: 2.3 Consensus size: 52
1429747 TATTTCCAAG
* * *
1429757 GGGATACTCCAACCTC-GATTTTATTTCTAAAACATCAATTTTCCATAATCA
1 GGGATACTCTAACCTCTGATTTTATTTCCAAAACATCAATTTTCCACAATCA
*
1429808 GGGATACTCTAA-CTCTGATTTTATTTCCAAAACATCAATTTTTCACAATCA
1 GGGATACTCTAACCTCTGATTTTATTTCCAAAACATCAATTTTCCACAATCA
*
1429859 GGGGTACTCTAACC
1 GGGATACTCTAACC
1429873 CTGTTATTTC
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
50 3 0.05
51 54 0.93
52 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.34
Consensus pattern (52 bp):
GGGATACTCTAACCTCTGATTTTATTTCCAAAACATCAATTTTCCACAATCA
Found at i:1429894 original size:28 final size:28
Alignment explanation
Indices: 1429855--1429933 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 28
1429845 ATTTTTCACA
* * *
1429855 ATCAGGGGTACTCTAACCCTGTTATTTC
1 ATCAGGGATACTCCAACCCCGTTATTTC
1429883 ATCAGGGATACTCCAACCCCGTTATTTC
1 ATCAGGGATACTCCAACCCCGTTATTTC
* *
1429911 -TGAGGGGATACTCCAGCCCCGTT
1 ATCA-GGGATACTCCAACCCCGTT
1429934 GTTATCTCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
27 2 0.04
28 43 0.96
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (28 bp):
ATCAGGGATACTCCAACCCCGTTATTTC
Found at i:1439950 original size:514 final size:516
Alignment explanation
Indices: 1438950--1439976 Score: 1292
Period size: 514 Copynumber: 2.0 Consensus size: 516
1438940 TACCAATTGT
1438950 AAGCTCAAAGATTGAATGAACCAAGAGAGGGAGTGAATTAGTTCTTATCGAAAATTGAAGATTTT
1 AAGCTCAAAGATTGAATGAACCAAGAGAGGGAGTGAATTAGTTCTTATCGAAAATTGAAGATTTT
* * *
1439015 GAAAGAATTGATGCAAAAACTAATCAAAGATAAAAAGAGTTAGGCAAAGAGAAAGCTTGATACAA
66 GAAAGAATTGATGCAAAAACTAATCAAAGATAAAAAGAGTTAGGAAAAGAGAAAGCTCGACACAA
* * ** * *
1439080 GTGTTTATAGAGGTTCGGTCCAAACACGACACCTACTCCTCTCTCCTCGATGCTTCCTTACCGAT
131 ATATTTATAGAGGTTCGGTCCAAACACGACACCTACTCCTCTCTCCTCGACACTTCCCTACCGAG
* *
1439145 TGTATACTACAATTCACTACTTAGAATTGTTTACTTTTAAGACAAAGGTATAACCTTACAACACT
196 TGTATACCACAATTCACTAC-TAGAATTGTTTACCTTTAAGACAAAGGTATAACCTTACAACACT
* * *
1439210 TATCTTTTGAAGGCTAAGATAAGAACCTCTCAATCTCTCCAAGAATTATACCTCAAATCCTTGAG
260 TATCTTTTCAAGGCTAAGATAAGAACCTCTCAATCTCTCCAAGAATTATACCCCAAATCCTTAAG
* * ** * ** *
1439275 AGATTGTACCCCAAGGTCAGATACAACCTTTTACAATACAAAAAGATTTTACAAACTCGAAATGC
325 AGATTATAACCCAAGGTCAGATACAACCTTAGACAATACAAAAAAATTTTACAAACGAGAAATAC
*
1439340 CTCTAAATAGGCTAGTGTTTGTGAAAATATAAGAACAAAAAAAATATAAATGAGCTTTCAAAGAA
390 CTCTAAATAGGCTAGTGTTTGTGAAAATATAAGAACAAAAAAAATACAAATGAGCTTTCAAAGAA
* * * *
1439405 TAATAATAATGAAATAAAAGCTCTTTGAAATGT-AAAATGATAAAACTTTGATTGCTTGGTGA
455 TAACAACAAAGAAATAAAAGCTCTTTGAAATGTAAAAATGATAAAAC-TTGAATGCTTGGTGA
* * * * *
1439467 AAGCTCAAGGATTGGATGAACCAAGAG-GGG-GTGAATTGGTTCTTTTC-AAAATTCTAAGATTT
1 AAGCTCAAAGATTGAATGAACCAAGAGAGGGAGTGAATTAGTTCTTATCGAAAATT-GAAGATTT
* * * **
1439529 TGAAAGAATTGTTTCGAAAAC-AACTTGAAGATAAAGAA-AG-TAGGGAAAAGAGAAAGCTCGAC
65 TGAAAGAATTGATGCAAAAACTAA-TCAAAGATAAA-AAGAGTTA-GGAAAAGAGAAAGCTCGAC
* *
1439591 ACAAATATTTATAGAGGTTCGGTCCAAACACGGCACCTACATCCTCTCTCCTCGACACTTCCCTG
127 ACAAATATTTATAGAGGTTCGGTCCAAACACGACACCTAC-TCCTCTCTCCTCGACACTTCCCTA
** * * *
1439656 TTGAGTGT-TACCACAATTCACTAC-ACGAATTGTTTACCTTTCAGGCAAAGGTATAACCTTTCA
191 CCGAGTGTATACCACAATTCACTACTA-GAATTGTTTACCTTTAAGACAAAGGTATAACCTTACA
* * * * *
1439719 ACACTTATCTTTTCAAGGTTAAGATAATAACCTCTCAATCTCTTCAAGAATTATCCCCCAAATTC
255 ACACTTATCTTTTCAAGGCTAAGATAAGAACCTCTCAATCTCTCCAAGAATTATACCCCAAATCC
*
1439784 TTAAGAGATTATAACCCAAGGT-TGAATACAACCTTAGACAACT-CAAAAAAATTTTACAAACGA
320 TTAAGAGATTATAACCCAAGGTCAG-ATACAACCTTAGACAA-TACAAAAAAATTTTACAAACGA
* * * * * **
1439847 GAATTACCTCTAAGTAGGCTGGTGTTTGTGGGAAGA-AT-AGCAC-AAAGGAATACAAATGAGCT
383 GAAATACCTCTAAATAGGCTAGTGTTTGT--GAAAATATAAGAACAAAAAAAATACAAATGAGCT
*
1439909 TTGAAAGAATAACAACAAAG-AATGCAAAAGCTCTTTGAAATGTAGAAAATGATAAAACTTGAAT
446 TTCAAAGAATAACAACAAAGAAAT--AAAAGCTCTTTGAAATGTA-AAAATGATAAAACTTGAAT
1439973 GCTT
508 GCTT
1439977 TGATTTTTTG
Statistics
Matches: 438, Mismatches: 58, Indels: 30
0.83 0.11 0.06
Matches are distributed among these distances:
512 3 0.01
513 34 0.08
514 198 0.45
515 131 0.30
516 47 0.11
517 25 0.06
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (516 bp):
AAGCTCAAAGATTGAATGAACCAAGAGAGGGAGTGAATTAGTTCTTATCGAAAATTGAAGATTTT
GAAAGAATTGATGCAAAAACTAATCAAAGATAAAAAGAGTTAGGAAAAGAGAAAGCTCGACACAA
ATATTTATAGAGGTTCGGTCCAAACACGACACCTACTCCTCTCTCCTCGACACTTCCCTACCGAG
TGTATACCACAATTCACTACTAGAATTGTTTACCTTTAAGACAAAGGTATAACCTTACAACACTT
ATCTTTTCAAGGCTAAGATAAGAACCTCTCAATCTCTCCAAGAATTATACCCCAAATCCTTAAGA
GATTATAACCCAAGGTCAGATACAACCTTAGACAATACAAAAAAATTTTACAAACGAGAAATACC
TCTAAATAGGCTAGTGTTTGTGAAAATATAAGAACAAAAAAAATACAAATGAGCTTTCAAAGAAT
AACAACAAAGAAATAAAAGCTCTTTGAAATGTAAAAATGATAAAACTTGAATGCTTGGTGA
Found at i:1440306 original size:19 final size:20
Alignment explanation
Indices: 1440282--1440330 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
1440272 CTTTTTAAGG
*
1440282 TGTATCGATACTATG-AACA
1 TGTATCGATACTAAGCAACA
*
1440301 TGTATCGATACTAAGCAATA
1 TGTATCGATACTAAGCAACA
1440321 TGTATCGATA
1 TGTATCGATA
1440331 TATCTGGGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (20 bp):
TGTATCGATACTAAGCAACA
Found at i:1444961 original size:19 final size:20
Alignment explanation
Indices: 1444916--1444967 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
1444906 TTACAAGCCA
*
1444916 ATGTATCGATACATTTTGGG
1 ATGTATCGATACATATTGGG
*
1444936 ATGTATCGATACATATTGTG
1 ATGTATCGATACATATTGGG
1444956 -TGTATCGATACA
1 ATGTATCGATACA
1444968 AATAGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATATTGGG
Found at i:1445052 original size:20 final size:21
Alignment explanation
Indices: 1445010--1445061 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
1445000 CCAATGACCT
**
1445010 GTATCGATACATTCTTTTCAA
1 GTATCGATACATTCTGGTCAA
1445031 GTATCGATACATT-TGGTCAA
1 GTATCGATACATTCTGGTCAA
*
1445051 GTACCGATACA
1 GTATCGATACA
1445062 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (21 bp):
GTATCGATACATTCTGGTCAA
Found at i:1447089 original size:20 final size:21
Alignment explanation
Indices: 1447045--1447096 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
1447035 GCTGCTAGTG
* *
1447045 TGGGGGCTGCCCGATTGCGACC
1 TGGGGG-TGCCCGATCGCAACC
1447067 TGGGGGTGCCCG-TCGCAACC
1 TGGGGGTGCCCGATCGCAACC
1447087 TGGTGGGTGC
1 TGG-GGGTGC
1447097 TGCCTAGAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 9 0.33
21 12 0.44
22 6 0.22
ACGTcount: A:0.08, C:0.29, G:0.44, T:0.19
Consensus pattern (21 bp):
TGGGGGTGCCCGATCGCAACC
Found at i:1447558 original size:13 final size:13
Alignment explanation
Indices: 1447540--1447564 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1447530 CAGAGAATGC
1447540 TGTATCGATACAA
1 TGTATCGATACAA
1447553 TGTATCGATACA
1 TGTATCGATACA
1447565 GAGAATGTTG
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:1447562 original size:33 final size:33
Alignment explanation
Indices: 1447520--1447583 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
1447510 ATAAACCCTT
1447520 TGTATCGATACAGAGAATGCTGTATCGATACAA
1 TGTATCGATACAGAGAATGCTGTATCGATACAA
* *
1447553 TGTATCGATACAGAGAATGTTGTATTGATAC
1 TGTATCGATACAGAGAATGCTGTATCGATAC
1447584 TTCTGGGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (33 bp):
TGTATCGATACAGAGAATGCTGTATCGATACAA
Found at i:1448580 original size:61 final size:62
Alignment explanation
Indices: 1448369--1448674 Score: 341
Period size: 61 Copynumber: 5.0 Consensus size: 62
1448359 GGTTTTAGAA
* * ** * *
1448369 AAAAAGGCGTCCTACTTTTTGAGGACTAAAGGGTGCCACCTACTTATGTGGGCTTTAAAAAG
1 AAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTTAAAAAG
* * * * * *
1448431 AAAAAGGTGTTCTACTCTTTGAAGACTAAAGAGTGCCACCAACTCGTGTGGGCTTTGAAAAA-
1 AAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTT-AAAAAG
* * * * *
1448493 AAAAAGGCATCCTGCTCTTT-AGGGACTAAAAAGTACCACTAATTTATGT-GGCTTTAAAAAG
1 AAAAAGGCGTCCTGCTCTTTGA-GGACTAAAAAGTGCCACCAACTCATGTGGGCTTTAAAAAG
* *
1448554 AAAAAGGCGTCGTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCATGTGGGCTTT-AAAAG
1 AAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTTAAAAAG
* * * * * *
1448615 AAAAAGGCATCTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGAGCTTTAAAA
1 AAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTTAAAA
1448675 CATAAAAGCG
Statistics
Matches: 207, Mismatches: 31, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
60 5 0.02
61 103 0.50
62 94 0.45
63 5 0.02
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (62 bp):
AAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTTAAAAAG
Found at i:1448670 original size:123 final size:122
Alignment explanation
Indices: 1448367--1450761 Score: 885
Period size: 123 Copynumber: 19.5 Consensus size: 122
1448357 TGGGTTTTAG
* * * *
1448367 AAAAAAAGGCGTCCTACTTTTTGAGGACTAAAGGGTGCCACCTACTTATGTGGGCTTTAAAAAGA
1 AAAAAAAGGCATCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTATGT-GGCTTTAAAAAGA
* *
1448432 AAAAGGTGTTCTACTCTTTGAAGACTAAAGAGTGCCACCAACTCGTGTGGGCTTTGAAA
64 AAAAGGCGTTCTACTCTTTGAAGACTAAAGAGTGCCACCAACTCATGTGGGCTTTGAAA
* * * *
1448491 AAAAAAAGGCATCCTGCTCTTT-AGGGACTAAAAAGTACCACTAATTTATGTGGCTTTAAAAAGA
1 AAAAAAAGGCATCCTGCTCTTTGA-GGACT-AAAGGTGCCACCAACTTATGTGGCTTTAAAAAGA
* *
1448555 AAAAGGCG-TCGTGCTCTTTGAGGACTGAAA-AGTGCCACCAACTCATGTGGGCTTT-AAA
64 AAAAGGCGTTC-TACTCTTTGAAGACT-AAAGAGTGCCACCAACTCATGTGGGCTTTGAAA
* * **
1448613 AGAAAAAGGCATCTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGAGCTTTAAAACA-
1 AAAAAAAGGCATCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTATGTG-GCTTTAAAA-AG
* *** * * ** * *
1448677 TAAAA-GCG-TCTTACTCTTT--A-ACTTGTGTGGGTTCTGCCAACTCGTGTGGACTTT-AAA
63 AAAAAGGCGTTC-TACTCTTTGAAGAC-T-AAAGAGTGCCACCAACTCATGTGGGCTTTGAAA
* ** * * * *
1448734 AGAAAAA-G-A--C-G-TC-TT----ACT---CTTTCCAAC-TCGTATG-GGCTTTAAAAGA-AA
1 AAAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTATGTGGCTTTAAAA-AGAA
* ** * *
1448782 AAAGGCG-TCTTACTCATT-AAGGACTAAA-AGGTGCTGCCAATTCATATGGGCTTT-AAA
65 AAAGGCGTTC-TACTCTTTGAA-GACTAAAGA-GTGCCACCAACTCATGTGGGCTTTGAAA
* * * * * * * * **
1448839 AGAAAATGACGTTCTACTCTTTGAGGACAAAAATGTGCCACCAACTCCTGTGGGCTTT-AAAAGA
1 AAAAAAAGGCATCCTGCTCTTTGAGGAC-TAAAGGTGCCACCAACTTATGT-GGCTTTAAAAAGA
* *
1448903 AAAAGGCGTCCTACTCTTT-ATAGACTAAA-AGGTGCCACCAACTCGTGTGGGCTTT-AAA
64 AAAAGGCGTTCTACTCTTTGA-AGACTAAAGA-GTGCCACCAACTCATGTGGGCTTTGAAA
* ** * * *
1448961 AGAAAAAAGCGC--CTTGCTCTTTGTTGACTAAAGGGTGCCACCAACTCATGTGGACCTTGAAAA
1 A-AAAAAAG-GCATCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTATGTGG-CTTTAAAAA
* * * **
1449024 GAAAAAAGGCG-TCGTGCTCTTTGAGGATTAAAGAGTG-CACCAACTTGTGTGGGCTTTGAAA
62 G-AAAAAGGCGTTC-TACTCTTTGAAGACTAAAGAGTGCCACCAACTCATGTGGGCTTTGAAA
* * * ** * *
1449085 ACAAAAAGGCATCCTGCTTTTTGAGGATTAAAAGGTATCACCAACTCGTAT-AGGATTTAAAAAG
1 AAAAAAAGGCATCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACT--TATGTGGCTTTAAAAAG
* * * * *
1449149 AAAAAGACG-TCTTACGCTTTGAGGACTAAAG-GTTGCCACCAACTCGTATGGGCTTTGAATA
63 AAAAAGGCGTTC-TACTCTTTGAAGACTAAAGAG-TGCCACCAACTCATGTGGGCTTTGAA-A
* * ** * * *** * *
1449210 GAAAAACGGTGTCCTACTCTTTGAGGACTAAAAGGTGCCGCCAACTCGGGTGGACTTT-GATA-A
1 AAAAAAAGGCATCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTATGTGG-CTTTAAAAAGA
* * * * *
1449273 AAAAGGCATCCCACTCTTTGACGACTAAA-AGGTG--------TC-T-T--GCTTTTTAAGGA
64 AAAAGGCGTTCTACTCTTTGAAGACTAAAGA-GTGCCACCAACTCATGTGGGC-TTTGAA--A
* * * * * * ** * ***
1449323 CTAAAAAATGCCATCAACTCCTATGGGCTTTGAAAGA-AAAAGGTG--TCTGAC-TATTTGAAAA
1 --AAAAAAAGGCATC--CTGC--T---CTTTG-AGGACTAAAGGTGCCACCAACTTATGTG-GCT
* ** ** *** ** * *
1449384 CTAAAAAGTGCCACCAACTCGTGTGGGCT-TTAAAAAGA-AAAAG-GTGTCCTACTCTTTAACTT
55 TTAAAAA--G--AAAAAGGCGT-TCTACTCTT-TGAAGACTAAAGAGTG-CC-AC-C---AACTC
* * *
1449446 GTGTGGGTTTTAAAA
108 ATGTGGGCTTTGAAA
* * * **
1449461 AAAAAAAGGCATCATACTCTTTGAGGACAAAAGGGTGCCACCAACTCGTGTGGGCTTTAAAAAGA
1 AAAAAAAGGCATCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTATGT-GGCTTTAAAAAGA
* * ** * * * * * *
1449526 AAATGGTGACCTGCTCATTGAGGACTAAAGCGTGCCACCAACTCGTCTGGGCTTTGAAA
64 AAAAGGCGTTCTACTCTTTGAAGACTAAAGAGTGCCACCAACTCATGTGGGCTTTGAAA
* * * * * * * **
1449585 AGAAAAAA-GCTGTCCTACTTTTTTGTGGACTAAAAAGTGACACTAACTGGTGTGGGCTTT-AAA
1 A-AAAAAAGGC-ATCCTGC-TCTTTGAGGACT-AAAGGTGCCACCAACTTATGT-GGCTTTAAAA
* * *
1449648 AGAAAAAGG-GATCCTACTCTTTGAGGACTAAA-AGGTGCCACCAACTCTTGTGGGCTTT-AAA
61 AGAAAAAGGCG-TTCTACTCTTTGAAGACTAAAGA-GTGCCACCAACTCATGTGGGCTTTGAAA
* * * * * ** *
1449709 AGAAAAAGGCATCTTACTCTCTGAGAACTAAAAGGTGCCACCAACTCGTGTAGGCTTTATAAAGA
1 AAAAAAAGGCATCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTATGT-GGCTTTAAAAAGA
* * * * *
1449774 AAAAGGC-TTCCTGCTCGTTGAGGACTAAAGGGTGCCACCAACTTATGTGGGCTTTGAAA
64 AAAAGGCGTT-CTACTCTTTGAAGACTAAAGAGTGCCACCAACTCATGTGGGCTTTGAAA
* * * ** *
1449833 AAAAAATAGG--TCCTGCTATTTGAGGACTAAAGTGTACCCCCAACTCGTGTGGGCTTTGAAAAG
1 AAAAAA-AGGCATCCTGCTCTTTGAGGACTAAAG-GTGCCACCAACTTATGT-GGCTTTAAAAAG
* * * * **
1449896 AAAAAGGCGTCCTGCTCTTTGAGGACTAAA-AGATGCCACCAACTCGTGTAAGCTTT-AAA
63 AAAAAGGCGTTCTACTCTTTGAAGACTAAAGAG-TGCCACCAACTCATGTGGGCTTTGAAA
* * * ** *
1449955 AGAAAAAAGACATCCTGCTCTTTAAGGAATAAAAGGTGCCACCAACTCCTGTGGGCTTT-AACAG
1 A-AAAAAAGGCATCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTATGT-GGCTTTAAAAAG
* * *** ** * *
1450019 AAAAAGGC-ATCTTGCTGAATGTGGACTAAA-AGGTGCCACCAACTCGTGTGGGC-TTCAAA
63 AAAAAGGCGTTC-TACTCTTTGAAGACTAAAGA-GTGCCACCAACTCATGTGGGCTTTGAAA
* * ** * ** *
1450078 AGAACAAGGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAAATCGTGTGGGC-TTCAAAAGA
1 AAAAAAAGGCATCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTATGT-GGCTTTAAAAAGA
* * * * * *
1450142 AAAAGGCATCCTGCTCTTTGAGGACTAAA-AGGTGCCACAAACCCATGTGGGCTTT-AAA
64 AAAAGGCGTTCTACTCTTTGAAGACTAAAGA-GTGCCACCAACTCATGTGGGCTTTGAAA
* * * * * * **
1450200 AGAAAAAGACATCCAGCTCTTTAAGGACCAAAAGGCGCCACCAACTCGTGTGGGCTTTAAAAAGA
1 AAAAAAAGGCATCCTGCTCTTTGAGGA-CTAAAGGTGCCACCAACTTATGT-GGCTTTAAAAAGA
* * * * * * *
1450265 AAAAAGTG-TCTTGCTCTTTGAAGACTAAAGGGTGCCACCAATTCATATGGGCTATGAAA
64 AAAAGGCGTTC-TACTCTTTGAAGACTAAAGAGTGCCACCAACTCATGTGGGCTTTGAAA
* * * * ** * *
1450324 AGAAAAAAAGCGTCCCGCTCTTTGAGGATTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAT
1 A-AAAAAAGGCATCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTATGT-GGCTTTAAAAAG
* * * * * *
1450389 AAAAAGGCATCCTGCTCTTTGAGGA-TAAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAA
63 AAAAAGGCGTTCTACTCTTTGAAGACTAAAGA-GTGCCACCAACTCATGTGGGCTTTGAAA
* * ** *
1450448 AAAAAAAGACATCCTACTCTTTGAGGA-TAAAGGGTGCCACCAACTCGTGTGCGCTTTGAAAAGA
1 AAAAAAAGGCATCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTATGTG-GCTTTAAAAAGA
* * * * **
1450512 GAAAAGGCATCCTACTCTTT-AAGGACTAAA-AGGTGCCAACAACT-AGTATGCTCTTTGAAA
64 -AAAAGGCGTTCTACTCTTTGAA-GACTAAAGA-GTGCCACCAACTCA-TGTGGGCTTTGAAA
* * ** *
1450572 AGAAAAAGGCGTCCTGCTCTTTGACAACCAAAAGGTGCCACCAACTCATATG-GGCTTTAAAAAG
1 AAAAAAAGGCATCCTGCTCTTTGAGGA-CTAAAGGTGCCACCAACT--TATGTGGCTTTAAAAAG
* * * * * * * *
1450636 GAAAAGGCATCCTACTCGTTGACA-ACTAAA-AGGTGCCATCAACTCCTATGGGCTTT-AGA
63 AAAAAGGCGTTCTACTCTTTGA-AGACTAAAGA-GTGCCACCAACTCATGTGGGCTTTGAAA
* ** *
1450695 AGAAAAAGGTGTCATGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATG-GGCTTTAAAAA-
1 AAAAAAAGGCATCCTGCTCTTTGAGGACT-AAAGGTGCCACCAAC-T-TATGTGGCTTTAAAAAG
1450758 AAAA
63 AAAA
1450762 GGCATCCTAC
Statistics
Matches: 1737, Mismatches: 377, Indels: 316
0.71 0.16 0.13
Matches are distributed among these distances:
103 14 0.01
104 14 0.01
105 32 0.02
106 6 0.00
107 2 0.00
109 1 0.00
110 3 0.00
111 4 0.00
112 7 0.00
113 2 0.00
114 3 0.00
115 12 0.01
116 3 0.00
117 3 0.00
118 3 0.00
119 9 0.01
120 8 0.00
121 48 0.03
122 373 0.21
123 540 0.31
124 299 0.17
125 233 0.13
126 38 0.02
127 6 0.00
128 11 0.01
129 19 0.01
130 7 0.00
131 1 0.00
132 4 0.00
133 8 0.00
134 3 0.00
136 11 0.01
137 1 0.00
138 2 0.00
139 1 0.00
140 5 0.00
141 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.25
Consensus pattern (122 bp):
AAAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTATGTGGCTTTAAAAAGAAA
AAGGCGTTCTACTCTTTGAAGACTAAAGAGTGCCACCAACTCATGTGGGCTTTGAAA
Found at i:1448774 original size:43 final size:44
Alignment explanation
Indices: 1448713--1448796 Score: 134
Period size: 43 Copynumber: 1.9 Consensus size: 44
1448703 GTGGGTTCTG
*
1448713 CCAACTCGTGTGGACTTTAAAAG-AAAAAGACGTCTTACTCTTT
1 CCAACTCGTATGGACTTTAAAAGAAAAAAGACGTCTTACTCTTT
* *
1448756 CCAACTCGTATGGGCTTTAAAAGAAAAAAGGCGTCTTACTC
1 CCAACTCGTATGGACTTTAAAAGAAAAAAGACGTCTTACTC
1448797 ATTAAGGACT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
43 21 0.57
44 16 0.43
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.27
Consensus pattern (44 bp):
CCAACTCGTATGGACTTTAAAAGAAAAAAGACGTCTTACTCTTT
Found at i:1449068 original size:62 final size:63
Alignment explanation
Indices: 1448756--1450740 Score: 945
Period size: 61 Copynumber: 32.1 Consensus size: 63
1448746 CTTACTCTTT
* * * * * * * **
1448756 CCAACTCGTATGGGCTTTAAAAGAAAAAAGGCGTCTTACTCATTAAGGACTAAA-AGGTGCTG
1 CCAACTCGTGTGGCCTTGAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGAGGTGCCA
* * * * * * * * * * *
1448818 CCAATTCATATGGGCTTTAAAAG-AAAATGACGTTCTACTCTTTGAGGAC-AAAAATGTGCCA
1 CCAACTCGTGTGGCCTTGAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGAGGTGCCA
* * * * *
1448879 CCAACTCCTGTGGGCTTTAAAAG-AAAAAGGCGTCCTACTCTTT-ATAGACTAAA-AGGTGCCA
1 CCAACTCGTGTGGCCTTGAAAAGAAAAAAGGCGTCCTGCTCTTTGA-GGACTAAAGAGGTGCCA
* * **
1448940 CCAACTCGTGTGGGCTTTAAAAGAAAAAA-GCG-CCTTGCTCTTTGTTGACTAAAG-GGTGCCA
1 CCAACTCGTGTGGCCTTGAAAAGAAAAAAGGCGTCC-TGCTCTTTGAGGACTAAAGAGGTGCCA
* * *
1449001 CCAACTCATGTGGACCTTGAAAAGAAAAAAGGCGTCGTGCTCTTTGAGGATTAAAGA-GTG-CA
1 CCAACTCGTGTGG-CCTTGAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGAGGTGCCA
* * * * * * **
1449063 CCAACTTGTGTGGGCTTTGAAAA-CAAAAAGGCATCCTGCTTTTTGAGGATTAAA-AGGTATCA
1 CCAACTCGTGT-GGCCTTGAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGAGGTGCCA
* ** * * * * * *
1449125 CCAACTCGTATAGGATTTAAAAAG-AAAAAGACGTCTTACGCTTTGAGGACTAAAG-GTTGCCA
1 CCAACTCGTGT-GGCCTTGAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGAGGTGCCA
* * * * * * *
1449187 CCAACTCGTATGGGCTTTGAATAGAAAAACGGTGTCCTACTCTTTGAGGACTAAA-AGGTGCCG
1 CCAACTCGTGT-GGCCTTGAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGAGGTGCCA
* * * * ** * *
1449250 CCAACTCGGGTGGACTTTG---ATAAAAAAGGCATCCCACTCTTTGACGACTAAA-AGGTG--T
1 CCAACTCGTGTGG-CCTTGAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGAGGTGCCA
*** * * * ** * ** ** *
1449308 CTTGCT-TTTTAAGGACTAAAAAATGCCATCAA--C-TCCTATGGGCTTTGAAAGA--AAA-AGG
1 CCAACTCGTGT--GGCCTTGAAAA-G-AAAAAAGGCGTCC--TGCTCTTTG-AGGACTAAAGAGG
*
1449366 TG--T
59 TGCCA
** * ** ** ** *
1449369 CTGA--C-TAT----TTGAAAACTAAAAAGTGCCACCAACTCGTGTG-GG-CTTTAAAAAGAAAA
1 CCAACTCGTGTGGCCTTGAAAAGAAAAAAG-GCGTCCTGCTC-TTTGAGGAC--T--AAAG----
1449425 AGGTGTCCTA
56 AGGTG-CC-A
* ** * * * * * *
1449435 CTCTTTAACTTGTGTGGGTTTTAAAAAAAAAAAGGCATCATACTCTTTGAGGACAAAAG-GGTGC
1 C-C---AACTCGTGTGGCCTTGAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGAGGTGC
1449499 CA
62 CA
* * * * * * *
1449501 CCAACTCGTGTGGGCTTTAAAA-AGAAAATGGTGACCTGCTCATTGAGGACTAAAG-CGTGCCA
1 CCAACTCGTGTGGCCTTGAAAAGA-AAAAAGGCGTCCTGCTCTTTGAGGACTAAAGAGGTGCCA
* * * * * * *
1449563 CCAACTCGTCTGGGCTTTGAAAAGAAAAAA-GCTGTCCTACTTTTTTGTGGACTAAA-AAGTGAC
1 CCAACTCGTGT-GGCCTTGAAAAGAAAAAAGGC-GTCCTGC-TCTTTGAGGACTAAAGAGGTGCC
1449626 A
63 A
* * * * *
1449627 CTAACTGGTGTGGGCTTTAAAAG-AAAAAGG-GATCCTACTCTTTGAGGACTAAA-AGGTGCCA
1 CCAACTCGTGTGGCCTTGAAAAGAAAAAAGGCG-TCCTGCTCTTTGAGGACTAAAGAGGTGCCA
* * * * * * * *
1449688 CCAACTCTTGTGGGCTTTAAAAG-AAAAAGGCATCTTACTCTCTGAGAACTAAA-AGGTGCCA
1 CCAACTCGTGTGGCCTTGAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGAGGTGCCA
* * *
1449749 CCAACTCGTGTAGG-CTTTATAAAG-AAAAAGGCTTCCTGCTCGTTGAGGACTAAAG-GGTGCCA
1 CCAACTCGTGT-GGCCTTGA-AAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGAGGTGCCA
** * * * * *
1449811 CCAACTTATGTGGGCTTTGAAAA-AAAAATA-G-GTCCTGCTATTTGAGGACTAAAG-TGTACCC
1 CCAACTCGTGT-GGCCTTGAAAAGAAAAA-AGGCGTCCTGCTCTTTGAGGACTAAAGAGGTGCCA
* *
1449872 CCAACTCGTGTGGGCTTTGAAAAG-AAAAAGGCGTCCTGCTCTTTGAGGACTAAA-AGATGCCA
1 CCAACTCGTGT-GGCCTTGAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGAGGTGCCA
* * * * * *
1449934 CCAACTCGTGTAAG-CTTTAAAAGAAAAAAGACATCCTGCTCTTTAAGGAATAAA-AGGTGCCA
1 CCAACTCGTGT-GGCCTTGAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGAGGTGCCA
* * * * * * *** *
1449996 CCAACTCCTGTGGGCTTTAACAG-AAAAAGGCATCTTGCTGAATGTGGACTAAA-AGGTGCCA
1 CCAACTCGTGTGGCCTTGAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGAGGTGCCA
* * * *
1450057 CCAACTCGTGTGGGCTTCAAAAG-AACAAGGTGTCCTGCTCTTTGAGGACTAAA-AGGTGCCA
1 CCAACTCGTGTGGCCTTGAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGAGGTGCCA
* * * *
1450118 CCAAATCGTGTGGGCTTCAAAAG-AAAAAGGCATCCTGCTCTTTGAGGACTAAA-AGGTGCCA
1 CCAACTCGTGTGGCCTTGAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGAGGTGCCA
* * * * * * * * * * *
1450179 CAAACCCATGTGGGCTTTAAAAG-AAAAAGACATCCAGCTCTTTAAGGACCAAA-AGGCGCCA
1 CCAACTCGTGTGGCCTTGAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGAGGTGCCA
* * * * *
1450240 CCAACTCGTGTGGGCTTTAAAAAGAAAAAA-GTGTCTTGCTCTTTGAAGACTAAAG-GGTGCCA
1 CCAACTCGTGT-GGCCTTGAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGAGGTGCCA
* * * * * * *
1450302 CCAATTCATATGGGCTATGAAAAGAAAAAAAGCGTCCCGCTCTTTGAGGATTAAAG-GGTGCCA
1 CCAACTCGTGTGGCCT-TGAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGAGGTGCCA
* * * *
1450365 CCAACTCGTGTGGGCTTTGAAAA-TAAAAAGGCATCCTGCTCTTTGAGGA-TAAAAAGGTGCCA
1 CCAACTCGTGT-GGCCTTGAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGAGGTGCCA
* * * * *
1450427 CCAACTCGTGTGGGCTTTAAAA-AAAAAAGACATCCTACTCTTTGAGGA-TAAAG-GGTGCCA
1 CCAACTCGTGTGGCCTTGAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGAGGTGCCA
* * * * *
1450487 CCAACTCGTGTGCGCTTTGAAAAGAGAAAAGGCATCCTACTCTTTAAGGACTAAA-AGGTGCCA
1 CCAACTCGTGTG-GCCTTGAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGAGGTGCCA
* * * ** *
1450550 ACAACTAGTAT-GCTCTTTGAAAAG-AAAAAGGCGTCCTGCTCTTTGACAACCAAA-AGGTGCCA
1 CCAACTCGTGTGGC-C-TTGAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGAGGTGCCA
* * * * * * * * **
1450612 CCAACTCATATGGGCTTTAAAA-AGGAAAAGGCATCCTACTCGTTGACAACTAAA-AGGTGCCA
1 CCAACTCGTGTGGCCTTGAAAAGA-AAAAAGGCGTCCTGCTCTTTGAGGACTAAAGAGGTGCCA
* * * * * * * *
1450674 TCAACTCCTATGGGCTTTAGAAG-AAAAAGGTGTCATGCTCTTTGAGGACTAAA-AGGTGCCA
1 CCAACTCGTGTGGCCTTGAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGAGGTGCCA
1450735 CCAACT
1 CCAACT
1450741 TGTATGGGCT
Statistics
Matches: 1507, Mismatches: 315, Indels: 203
0.74 0.16 0.10
Matches are distributed among these distances:
51 3 0.00
52 1 0.00
53 6 0.00
54 4 0.00
55 2 0.00
57 4 0.00
58 4 0.00
59 4 0.00
60 62 0.04
61 607 0.40
62 559 0.37
63 179 0.12
64 30 0.02
65 1 0.00
66 3 0.00
67 2 0.00
68 4 0.00
70 1 0.00
73 6 0.00
75 3 0.00
76 9 0.01
77 13 0.01
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.24
Consensus pattern (63 bp):
CCAACTCGTGTGGCCTTGAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGAGGTGCCA
Found at i:1449127 original size:124 final size:122
Alignment explanation
Indices: 1448756--1450772 Score: 964
Period size: 123 Copynumber: 16.3 Consensus size: 122
1448746 CTTACTCTTT
* * * * * * * **
1448756 CCAACTCGTATGGGCTTTAAAAGAAAAAAGGCGTCTTACTCATTAAGGACTAAA-AGGTGCTGCC
1 CCAACTCATGTGGACTTAAAAAG-AAAAAGGCGTCCTACTCTTTGAGGACTAAAGA-GTGCCACC
* * * * * * * * * *
1448820 AATTCATATGGGCTTT-AAAAGAAAATGACGTTCTACTCTTTGAGGACAAAAATGTGCCA
64 AACTCGTGTGGGCTTTGAAAAGAAAAAGGC-TCCTGCTCTTTGAGGACTAAAAGGTACCA
* * * *
1448879 CCAACTCCTGTGGGCTTTAAAAGAAAAAGGCGTCCTACTCTTT-ATAGACTAAA-AGGTGCCACC
1 CCAACTCATGTGGACTTAAAAAGAAAAAGGCGTCCTACTCTTTGA-GGACTAAAGA-GTGCCACC
* * ** * *
1448942 AACTCGTGTGGGCTTT-AAAAGAAAAAAGCGCCTTGCTCTTTGTTGACTAAAGGGTGCCA
64 AACTCGTGTGGGCTTTGAAAAGAAAAAGGCTCC-TGCTCTTTGAGGACTAAAAGGTACCA
* * * *
1449001 CCAACTCATGTGGACCTTGAAAAGAAAAAAGGCGTCGTGCTCTTTGAGGATTAAAGAGTG-CACC
1 CCAACTCATGTGGA-CTTAAAAAG-AAAAAGGCGTCCTACTCTTTGAGGACTAAAGAGTGCCACC
* * * * *
1449065 AACTTGTGTGGGCTTTGAAAACAAAAAGGCATCCTGCTTTTTGAGGATTAAAAGGTATCA
64 AACTCGTGTGGGCTTTGAAAAGAAAAAGGC-TCCTGCTCTTTGAGGACTAAAAGGTACCA
* * * * * *
1449125 CCAACTCGTATAGGATTTAAAAAGAAAAAGACGTCTTACGCTTTGAGGACTAAAG-GTTGCCACC
1 CCAACTCATGT-GGACTTAAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAGAG-TGCCACC
* * * * * *
1449189 AACTCGTATGGGCTTTGAATAGAAAAACGGTGTCCTACTCTTTGAGGACTAAAAGGTGCCG
64 AACTCGTGTGGGCTTTGAAAAGAAAAA-GG-CTCCTGCTCTTTGAGGACTAAAAGGTACCA
** ** * * * * * **
1449250 CCAACTCGGGTGGACTTTGATA-AAAAAGGCATCCCACTCTTTGACGACTAAA-AGGTG--TCTT
1 CCAACTCATGTGGACTTAAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAGA-GTGCCACCA
* * * * ** ** ** * *
1449311 GCT-TTTTAAGGAC-TAAAAAATGCCATCAA--CTCCTATGGGCTTTGAAAGA--AAAAGGT--G
65 ACTCGTGT--GGGCTTTGAAAA-G--AAAAAGGCTCC--TGCTCTTTG-AGGACTAAAAGGTACC
*
1449368 T
122 A
** * ** ** * *
1449369 CTGACT-AT-T----TGAAAACTAAAAAGTGCCACCAACTCGTGTG-GG-CTTTAAAAAGAAAAA
1 CCAACTCATGTGGACTTAAAAAGAAAAAG-GCGTCCTACTC-TTTGAGGAC--T--AAAG----A
* * * * * *
1449426 GGTGTCCTACTCTTTAACTTGTGTGGGTTTTAAAAAAAAAAAGGCATCATACTCTTTGAGGAC-A
56 -GTG-CC-AC-C---AACTCGTGTGGGCTTTGAAAAGAAAAAGGC-TCCTGCTCTTTGAGGACTA
*
1449490 AAAGGGTGCCA
113 AAA-GGTACCA
* * * * * * * *
1449501 CCAACTCGTGTGGGCTTTAAAAAGAAAATGGTGACCTGCTCATTGAGGACTAAAGCGTGCCACCA
1 CCAACTCATGTGGAC-TTAAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAGAGTGCCACCA
* * * * * *
1449566 ACTCGTCTGGGCTTTGAAAAGAAAAAAGCTGTCCTACTTTTTTGTGGACTAAAAAGTGA-CA
65 ACTCGTGTGGGCTTTGAAAAGAAAAAGGC--TCCTGC-TCTTTGAGGACTAAAAGGT-ACCA
* ** * *
1449627 CTAACTGGTGTGGGCTTTAAAAGAAAAAGG-GATCCTACTCTTTGAGGACTAAA-AGGTGCCACC
1 CCAACTCATGTGGACTTAAAAAGAAAAAGGCG-TCCTACTCTTTGAGGACTAAAGA-GTGCCACC
* * * * * *
1449690 AACTCTTGTGGGCTTT-AAAAGAAAAAGGCATCTTACTCTCTGAGAACTAAAAGGTGCCA
64 AACTCGTGTGGGCTTTGAAAAGAAAAAGGC-TCCTGCTCTTTGAGGACTAAAAGGTACCA
* * * * * *
1449749 CCAACTCGTGTAGG-CTTTATAAAGAAAAAGGCTTCCTGCTCGTTGAGGACTAAAGGGTGCCACC
1 CCAACTCATGT-GGAC-TTAAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAGAGTGCCACC
** * * *
1449813 AACTTATGTGGGCTTTGAAAAAAAAATAGG-TCCTGCTATTTGAGGACT-AAAGTGTACCC
64 AACTCGTGTGGGCTTTGAAAAGAAAA-AGGCTCCTGCTCTTTGAGGACTAAAAG-GTACCA
* * * *
1449872 CCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAA-AGATGCCACC
1 CCAACTCATGTGGAC-TTAAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAGAG-TGCCACC
** * * * *
1449936 AACTCGTGTAAGCTTT-AAAAGAAAAAAGACATCCTGCTCTTTAAGGAATAAAAGGTGCCA
64 AACTCGTGTGGGCTTTGAAAAG-AAAAAGGC-TCCTGCTCTTTGAGGACTAAAAGGTACCA
* * * * * * * *** *
1449996 CCAACTCCTGTGGGCTTTAACAGAAAAAGGCATCTTGCTGAATGTGGACTAAA-AGGTGCCACCA
1 CCAACTCATGTGGACTTAAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAGA-GTGCCACCA
* * * *
1450060 ACTCGTGTGGGC-TTCAAAAGAACAAGGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCA
65 ACTCGTGTGGGCTTTGAAAAGAAAAAGG-CTCCTGCTCTTTGAGGACTAAAAGGTACCA
* * * * * * *
1450118 CCAAATCGTGTGGGCTTCAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAA-AGGTGCCACAA
1 CCAACTCATGTGGACTTAAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAGA-GTGCCACCA
* * * * * * **
1450182 ACCCATGTGGGCTTT-AAAAGAAAAAGACATCCAGCTCTTTAAGGACCAAAAGGCGCCA
65 ACTCGTGTGGGCTTTGAAAAGAAAAAGGC-TCCTGCTCTTTGAGGACTAAAAGGTACCA
* * * * * * * *
1450240 CCAACTCGTGTGGGCTTTAAAAAGAAAAAAGTGTCTTGCTCTTTGAAGACTAAAGGGTGCCACCA
1 CCAACTCATGTGGAC-TTAAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAGAGTGCCACCA
* * * * * * * * *
1450305 ATTCATATGGGCTATGAAAAGAAAAAAAGCGTCCCGCTCTTTGAGGATTAAAGGGTGCCA
65 ACTCGTGTGGGCTTTGAAAAG-AAAAAGGC-TCCTGCTCTTTGAGGACTAAAAGGTACCA
* * * * * * *
1450365 CCAACTCGTGTGGGCTTTGAAAATAAAAAGGCATCCTGCTCTTTGAGGA-TAAAAAGGTGCCACC
1 CCAACTCATGTGGAC-TTAAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAGA-GTGCCACC
* * * * *
1450429 AACTCGTGTGGGCTTT-AAAAAAAAAAGACATCCTACTCTTTGAGGA-TAAAGGGTGCCA
64 AACTCGTGTGGGCTTTGAAAAGAAAAAGGC-TCCTGCTCTTTGAGGACTAAAAGGTACCA
* * * *
1450487 CCAACTCGTGTGCG-CTTTGAAAAGAGAAAAGGCATCCTACTCTTTAAGGACTAAA-AGGTGCCA
1 CCAACTCATGTG-GAC-TTAAAAAGA-AAAAGGCGTCCTACTCTTTGAGGACTAAAGA-GTGCCA
* * * ** ** * *
1450550 ACAACTAGTATGCTCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGACAACCAAAAGGTGCCA
62 CCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC-TCCTGCTCTTTGAGGACTAAAAGGTACCA
* * * * * ** *
1450612 CCAACTCATATGGGCTTTAAAAAGGAAAAGGCATCCTACTCGTTGACAACTAAA-AGGTGCCATC
1 CCAACTCATGTGGAC-TTAAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAGA-GTGCCACC
* * * * * *
1450676 AACTCCTATGGGCTTT-AGAAGAAAAAGGTGTCATGCTCTTTGAGGACTAAAAGGTGCCA
64 AACTCGTGTGGGCTTTGAAAAGAAAAAGG-CTCCTGCTCTTTGAGGACTAAAAGGTACCA
** * * * *
1450735 CCAACTTGTATGGGCTTTAAAA-AAAAAGGCATCCTACT
1 CCAACTCATGTGGACTTAAAAAGAAAAAGGCGTCCTACT
1450773 TTTTAATTTG
Statistics
Matches: 1479, Mismatches: 317, Indels: 198
0.74 0.16 0.10
Matches are distributed among these distances:
113 2 0.00
114 7 0.00
115 9 0.01
116 4 0.00
117 1 0.00
118 3 0.00
119 4 0.00
120 5 0.00
121 31 0.02
122 325 0.22
123 478 0.32
124 278 0.19
125 226 0.15
126 26 0.02
127 6 0.00
128 8 0.01
129 12 0.01
130 9 0.01
131 10 0.01
132 6 0.00
133 1 0.00
134 1 0.00
135 4 0.00
137 3 0.00
138 9 0.01
139 11 0.01
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.24
Consensus pattern (122 bp):
CCAACTCATGTGGACTTAAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAGAGTGCCACCAA
CTCGTGTGGGCTTTGAAAAGAAAAAGGCTCCTGCTCTTTGAGGACTAAAAGGTACCA
Found at i:1449479 original size:42 final size:42
Alignment explanation
Indices: 1449399--1449482 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
1449389 AAGTGCCACC
* ** *
1449399 AACTCGTGTGGGCTTTAAAAAGAAAAAGGTGTCCTACTCTTT
1 AACTCGTGTGGGCTTTAAAAAAAAAAAGGCATCATACTCTTT
* *
1449441 AACTTGTGTGGGTTTTAAAAAAAAAAAGGCATCATACTCTTT
1 AACTCGTGTGGGCTTTAAAAAAAAAAAGGCATCATACTCTTT
1449483 GAGGACAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (42 bp):
AACTCGTGTGGGCTTTAAAAAAAAAAAGGCATCATACTCTTT
Found at i:1450878 original size:61 final size:61
Alignment explanation
Indices: 1450812--1451624 Score: 889
Period size: 61 Copynumber: 13.3 Consensus size: 61
1450802 ACATCGTACA
* * * * * *
1450812 CTTTGAGGACTAAGAGGTGTCACCAACTCATGTGGGCTTAAAAATAAAAAGGCATTCTGCT
1 CTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCATCCTGCT
* *
1450873 CTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAAGTCATCCTGCT
1 CTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAG-AAAAAGGCATCCTGCT
* * * * *** *
1450936 -TTCTAAGGACTAAAAAGTGCCACCAACTCGTATAGGCTTTAAAAAGAAAAAGATGTCTTGCT
1 CTT-TGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGGCATCCTGCT
* * * * * * *
1450998 GTTTGAGGACT-AAAGGTACAACCAACTTGTGTAGGCTTTAAAAGAAAAAGGCGTCCTGTT
1 CTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCATCCTGCT
* **
1451058 CTTTGAGGACTAAAAGGGGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCATTTTGCT
1 CTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCATCCTGCT
* * * *** *
1451119 CTTTGAGGACTAAAAAGTGCCACCAACTCGTATAGGCTTTAAAAGAAAAAGATGTCCTGAT
1 CTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCATCCTGCT
* * * * *
1451180 GTTTAAGGACTAAAAGGTGCCACCAACTCCTATGGGCTTTAAAAGAAAAAGGCATCCTACT
1 CTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCATCCTGCT
** * **
1451241 CTTT-ATGGACTAAAAGGTGCTGCCAACTCGTGTGGGCTTTAAAAGAAAAATGTGTCCTGCT
1 CTTTGA-GGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCATCCTGCT
* ** * * *
1451302 CTTTAAGGACTAAAAGGCACCACCAACTCGTGTGAGCTTTAAAAGAAAAAGGCGTCCTACT
1 CTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCATCCTGCT
* * * * * *
1451363 TTTTAAGGACTAGAAGGTGCCACCAACTCGTTTGGGTTTTAAAAAGAAAAAGGCGTCCTGCT
1 CTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGGCATCCTGCT
** * * * ** * *
1451425 CTTTGATTATTAAAAGGTGCCACTAACTCGTGTAGGCTTTAAAAGAAAAAAACGTCCTTCT
1 CTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCATCCTGCT
* * * *
1451486 CTTTGAGGTCT-AAATGTGCCACCAAATCGTGTGGGCTTTAAAAAGAAAAAGGTATCCTGCT
1 CTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGGCATCCTGCT
* *
1451547 CTTTGAGGATTAAATA-GTGCCACCAACTCGTGTAGGCTTTAAAAGAAAAAGGCATCCTGCT
1 CTTTGAGGACTAAA-AGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCATCCTGCT
1451608 CTTTGAGGACTAAAAGG
1 CTTTGAGGACTAAAAGG
1451625 ATAAAAAGGT
Statistics
Matches: 625, Mismatches: 115, Indels: 24
0.82 0.15 0.03
Matches are distributed among these distances:
60 53 0.08
61 418 0.67
62 100 0.16
63 54 0.09
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (61 bp):
CTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCATCCTGCT
Found at i:1451717 original size:32 final size:31
Alignment explanation
Indices: 1451636--1451723 Score: 88
Period size: 32 Copynumber: 2.8 Consensus size: 31
1451626 TAAAAAGGTG
* * *
1451636 CCACGGAGCCATGGACTTTG-AAAAGAAATG
1 CCACTGAGTCATGGACTTTGAAAAAGAAATA
* * * * *
1451666 TCACTAAGTTATGGTCTTTGAAGAAAGAGATA
1 CCACTGAGTCATGGACTTTGAA-AAAGAAATA
1451698 CCACTGAGTCATGGACTTTGAAAAAG
1 CCACTGAGTCATGGACTTTGAAAAAG
1451724 GTTACTTTAT
Statistics
Matches: 44, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
30 14 0.32
31 5 0.11
32 25 0.57
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
CCACTGAGTCATGGACTTTGAAAAAGAAATA
Found at i:1452712 original size:58 final size:59
Alignment explanation
Indices: 1452622--1452737 Score: 162
Period size: 58 Copynumber: 2.0 Consensus size: 59
1452612 GATTTTGTTT
* *
1452622 TTTTTTAACCAAGATTGGATGAGTCTCGAAGCTTATGTCTCACTAAG-TTTTGTTTTTA
1 TTTTTTAACCAAGATTAGATGAGTCTCAAAGCTTATGTCTCACTAAGATTTTGTTTTTA
* * * * *
1452680 TTTTTTGACCAAGATTAGTTGATTCTCAAAGCTTGTGTCTCACTAAGATTTTTTTTTT
1 TTTTTTAACCAAGATTAGATGAGTCTCAAAGCTTATGTCTCACTAAGATTTTGTTTTT
1452738 GGTTGAAGAG
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
58 41 0.82
59 9 0.18
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (59 bp):
TTTTTTAACCAAGATTAGATGAGTCTCAAAGCTTATGTCTCACTAAGATTTTGTTTTTA
Found at i:1456205 original size:87 final size:87
Alignment explanation
Indices: 1456059--1456227 Score: 320
Period size: 87 Copynumber: 1.9 Consensus size: 87
1456049 AAAAAATTAT
*
1456059 CGACTAGGCAGTGTACGTCAAGCCATAATTTGGATAGCATGACGGCTTATTGATGATATAGGGTA
1 CGACTAGGCAGTGTACGTCAAGCCATAATTTGGATAGCATGACGGCTTATTGATGATATAGGGCA
1456124 ATATGGTGATGGCATTCATGAC
66 ATATGGTGATGGCATTCATGAC
*
1456146 CGACTAGGTAGTGTACGTCAAGCCATAATTTGGATAGCATGACGGCTTATTGATGATATAGGGCA
1 CGACTAGGCAGTGTACGTCAAGCCATAATTTGGATAGCATGACGGCTTATTGATGATATAGGGCA
1456211 ATATGGTGATGGCATTC
66 ATATGGTGATGGCATTC
1456228 GCTTACCATC
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 80 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (87 bp):
CGACTAGGCAGTGTACGTCAAGCCATAATTTGGATAGCATGACGGCTTATTGATGATATAGGGCA
ATATGGTGATGGCATTCATGAC
Found at i:1458124 original size:79 final size:78
Alignment explanation
Indices: 1457921--1458387 Score: 431
Period size: 79 Copynumber: 6.0 Consensus size: 78
1457911 ATTTAAAAAG
* * * *
1457921 AAACAGGGTTAGG-GTATCCCCTC-TAAAT-ATGGGGTTGGAGTATCCCCGAGATAAAAATTTTA
1 AAACAGGGTT-GGAGTATCCCCTCAGAAATAATGAGGTTAGAGTATCCCCGAGATGAAAATTTTA
1457983 ATA-TTT-AAA-AA
65 ATATTTTGAAATAA
* * * * * *
1457994 AAA-AAGGTTGGGGTATCCCCTC-GAAAATAA-CACGGTTGGAGTGTCCTCGAGATGAAAATTTT
1 AAACAGGGTTGGAGTATCCCCTCAG-AAATAATGA-GGTTAGAGTATCCCCGAGATGAAAATTTT
1458056 AATATTTTGAAGATAA
64 AATATTTTGAA-ATAA
* *
1458072 AAGCAGGGTTGGAGTATCCCCTCAGAAATAATGAGGTTAGAGTATCCCCGAGATGAAACA-ATTA
1 AAACAGGGTTGGAGTATCCCCTCAGAAATAATGAGGTTAGAGTATCCCCGAGATGAAA-ATTTTA
*
1458136 ATATTTCAGAAAT-A
65 ATATTT-TGAAATAA
* * **
1458150 AAGCAGGGTTGGAGTATCCCCTCAGAAATAACGAGGTTAGAGTAT-CCTAAGATGAAAATTTTAA
1 AAACAGGGTTGGAGTATCCCCTCAGAAATAATGAGGTTAGAGTATCCCCGAGATGAAAATTTTAA
1458214 TATTTTTGAAATAA
66 TA-TTTTGAAATAA
** * * * * * *
1458228 AAATGGGGTTGGAGTATCCTCTCAAAAATAACGGGGTTGGAGTATCCCCGTGATGAAAGA-TTTA
1 AAACAGGGTTGGAGTATCCCCTCAGAAATAATGAGGTTAGAGTATCCCCGAGATGAAA-ATTTTA
1458292 ATATTTTGAAAATAA
65 ATATTTTG-AAATAA
* * * * * * * * *
1458307 AAACGGGGTTGGAGTATCCCTTAAGAATTGATGGGGTTAGAGTATCCCCAAGATGAAAA-ATCAA
1 AAACAGGGTTGGAGTATCCCCTCAGAAATAATGAGGTTAGAGTATCCCCGAGATGAAAATTTTAA
*
1458371 TATTTTGGAAAGAA
66 TATTTT-GAAATAA
1458385 AAA
1 AAA
1458388 TTTAGAAAAT
Statistics
Matches: 329, Mismatches: 45, Indels: 35
0.80 0.11 0.09
Matches are distributed among these distances:
71 2 0.01
72 15 0.05
73 7 0.02
74 31 0.09
75 3 0.01
76 3 0.01
77 22 0.07
78 114 0.35
79 125 0.38
80 7 0.02
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.27
Consensus pattern (78 bp):
AAACAGGGTTGGAGTATCCCCTCAGAAATAATGAGGTTAGAGTATCCCCGAGATGAAAATTTTAA
TATTTTGAAATAA
Found at i:1458194 original size:28 final size:30
Alignment explanation
Indices: 1458141--1458196 Score: 80
Period size: 28 Copynumber: 1.9 Consensus size: 30
1458131 AATTAATATT
*
1458141 TCAGAAATAAAGCAGGGTTGGAGTATCCCC
1 TCAGAAATAAAGCAGGGTTAGAGTATCCCC
*
1458171 TCAGAAATAACG-A-GGTTAGAGTATCC
1 TCAGAAATAAAGCAGGGTTAGAGTATCC
1458197 TAAGATGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 12 0.50
29 1 0.04
30 11 0.46
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (30 bp):
TCAGAAATAAAGCAGGGTTAGAGTATCCCC
Found at i:1458239 original size:156 final size:153
Alignment explanation
Indices: 1457925--1458388 Score: 453
Period size: 157 Copynumber: 3.0 Consensus size: 153
1457915 AAAAAGAAAC
*
1457925 AGGGTTAGG-GTATCCCCTC-TAAAT-ATGGGGTTGGAGTATCCCCGAGAT-AAAAATTTTAATA
1 AGGGTT-GGAGTATCCCCTCAAAAATAATGGGGTTGGAGTATCCCCGAGATGAAAAA--TTAATA
* * * * * *
1457986 TTTA-AAA-AAAAAAGGTTGGGGTATCCCCTC-GAAAATAAC-ACGGTTGGAGTGTCCTCGAGAT
63 TTTAGAAATAAACAGGGTTGGAGTATCCCCTCAG-AAATAACGA-GGTTAGAGTATCCT-AAGAT
**
1458047 GAAAATTTTAATA-TTTTGAAGATAAAAGC
125 GAAAATTTTAATATTTTTGAA-ATAAAAAT
* * *
1458076 AGGGTTGGAGTATCCCCTCAGAAATAATGAGGTTAGAGTATCCCCGAGATGAAACAATTAATATT
1 AGGGTTGGAGTATCCCCTCAAAAATAATGGGGTTGGAGTATCCCCGAGATGAAA-AATTAATATT
1458141 TCAGAAATAAAGCAGGGTTGGAGTATCCCCTCAGAAATAACGAGGTTAGAGTATCCTAAGATGAA
65 T-AGAAATAAA-CAGGGTTGGAGTATCCCCTCAGAAATAACGAGGTTAGAGTATCCTAAGATGAA
1458206 AATTTTAATATTTTTGAAATAAAAAT
128 AATTTTAATATTTTTGAAATAAAAAT
* * * * *
1458232 GGGGTTGGAGTATCCTCTCAAAAATAACGGGGTTGGAGTATCCCCGTGATGAAAGATTTAATATT
1 AGGGTTGGAGTATCCCCTCAAAAATAATGGGGTTGGAGTATCCCCGAGATGAAA-AATTAATATT
* * * * * * * * *
1458297 TTGAAAATAAAAACGGGGTTGGAGTATCCCTTAAGAATTGATGGGGTTAGAGTATCCCCAAGATG
65 TAG-AAAT--AAACAGGGTTGGAGTATCCCCTCAGAAATAACGAGGTTAGAGTAT-CCTAAGATG
* * * *
1458362 AAAA-ATCAATATTTTGGAAAGAAAAAT
126 AAAATTTTAATATTTTTGAAATAAAAAT
1458389 TTAGAAAATT
Statistics
Matches: 264, Mismatches: 33, Indels: 26
0.82 0.10 0.08
Matches are distributed among these distances:
150 2 0.01
151 16 0.06
152 4 0.02
153 31 0.12
154 4 0.02
155 6 0.02
156 87 0.33
157 97 0.37
158 17 0.06
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (153 bp):
AGGGTTGGAGTATCCCCTCAAAAATAATGGGGTTGGAGTATCCCCGAGATGAAAAATTAATATTT
AGAAATAAACAGGGTTGGAGTATCCCCTCAGAAATAACGAGGTTAGAGTATCCTAAGATGAAAAT
TTTAATATTTTTGAAATAAAAAT
Found at i:1458407 original size:19 final size:19
Alignment explanation
Indices: 1458383--1458425 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
1458373 TTTTGGAAAG
1458383 AAAAATTTAGAAAATTGAC
1 AAAAATTTAGAAAATTGAC
*
1458402 AAAAATTTAGAAATTTGAC
1 AAAAATTTAGAAAATTGAC
1458421 AAAAA
1 AAAAA
1458426 CACTTTTGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.60, C:0.05, G:0.09, T:0.26
Consensus pattern (19 bp):
AAAAATTTAGAAAATTGAC
Found at i:1464813 original size:20 final size:20
Alignment explanation
Indices: 1464762--1464820 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
1464752 TCCAATGAGA
1464762 AATGTATCGATACAATTGTAAG
1 AATGTATCGATAC-ATT-TAAG
* * *
1464784 CATATATCGATACATTTAAT
1 AATGTATCGATACATTTAAG
*
1464804 AATGTATCGATATATTT
1 AATGTATCGATACATTT
1464821 TCTTTGCAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 17 0.55
21 3 0.10
22 11 0.35
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTTAAG
Found at i:1465191 original size:13 final size:13
Alignment explanation
Indices: 1465173--1465197 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1465163 CATAAAATGT
1465173 TGTATCGATACAA
1 TGTATCGATACAA
1465186 TGTATCGATACA
1 TGTATCGATACA
1465198 TATTTTTTTT
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:1465197 original size:33 final size:34
Alignment explanation
Indices: 1465155--1465223 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 34
1465145 CAACGATTTA
1465155 TATCGATACATA-AAATGTTGTATCGATACAATG
1 TATCGATACATATAAATGTTGTATCGATACAATG
*** *
1465188 TATCGATACATATTTTTTTTGTATCGATACAATG
1 TATCGATACATATAAATGTTGTATCGATACAATG
1465222 TA
1 TA
1465224 AGCTACTGCC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 12 0.39
34 19 0.61
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.41
Consensus pattern (34 bp):
TATCGATACATATAAATGTTGTATCGATACAATG
Found at i:1465281 original size:13 final size:13
Alignment explanation
Indices: 1465263--1465287 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1465253 ATTCCTCACA
1465263 TGTATCGATACAT
1 TGTATCGATACAT
1465276 TGTATCGATACA
1 TGTATCGATACA
1465288 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1465352 original size:52 final size:52
Alignment explanation
Indices: 1465296--1465420 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
1465286 CACTGATCTT
*
1465296 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1465348 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1465400 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
1465421 CTTTTCATAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1470283 original size:6 final size:7
Alignment explanation
Indices: 1470265--1470310 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
1470255 ATTTTTTTAA
1470265 TAAAAAT
1 TAAAAAT
1470272 TAAAAAT
1 TAAAAAT
1470279 TAAAAAT
1 TAAAAAT
* *
1470286 TAGACAT
1 TAAAAAT
*
1470293 AAAAAAT
1 TAAAAAT
1470300 TAAAAAT
1 TAAAAAT
1470307 TAAA
1 TAAA
1470311 CAAAGCAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (7 bp):
TAAAAAT
Found at i:1471088 original size:29 final size:26
Alignment explanation
Indices: 1471056--1471119 Score: 65
Period size: 29 Copynumber: 2.3 Consensus size: 26
1471046 AAGAATAGAA
* *
1471056 AAAAAATTTAATAATTATTTTTAAAAGAT
1 AAAAAATTT-ATAA-AAGTTTTAAAAG-T
1471085 AAAAATTATTTATAAAAGTTTTAAAAGT
1 AAAAA--ATTTATAAAAGTTTTAAAAGT
1471113 AAAAAAT
1 AAAAAAT
1471120 CATTTTAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
26 2 0.06
28 6 0.19
29 15 0.48
30 4 0.13
31 4 0.13
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.38
Consensus pattern (26 bp):
AAAAAATTTATAAAAGTTTTAAAAGT
Found at i:1474419 original size:13 final size:12
Alignment explanation
Indices: 1474365--1474421 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 12
1474355 TAACCGTTTT
*
1474365 AAAAATTAAAACC
1 AAAATTTAAAA-C
*
1474378 AAAA-TTAAAGAA
1 AAAATTTAAA-AC
1474390 AACAATTTAAAAC
1 AA-AATTTAAAAC
1474403 AAAATTTAAATAC
1 AAAATTTAAA-AC
1474416 AAAATT
1 AAAATT
1474422 ATTATCGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
12 15 0.39
13 18 0.47
14 5 0.13
ACGTcount: A:0.67, C:0.09, G:0.02, T:0.23
Consensus pattern (12 bp):
AAAATTTAAAAC
Found at i:1475403 original size:82 final size:82
Alignment explanation
Indices: 1475304--1475556 Score: 427
Period size: 82 Copynumber: 3.1 Consensus size: 82
1475294 ACTTAACCAA
*
1475304 ATTTTTAATATATTATATGTAAAACAACTTTTATCTTAATAATTACCGATAACAACTCGACCTAA
1 ATTTTTAATATATTATATGTAAAACAGCTTTTATCTTAATAATTACCGATAACAACTCGACCTAA
1475369 ACTTTTGTTTGACCTCC
66 ACTTTTGTTTGACCTCC
* * *
1475386 ATTTTTAATATATTATATGTAAAACAGCTTTTATCTTAATAATTACTGATAACAATTCGATCTAA
1 ATTTTTAATATATTATATGTAAAACAGCTTTTATCTTAATAATTACCGATAACAACTCGACCTAA
*
1475451 AC-TTTGTTTTGACTTCC
66 ACTTTTG-TTTGACCTCC
* *
1475468 ATTTTTAATATATTATATGTAAAACAGCTTTCATCTTAATAATTACCGATAAAAACTCGACCTAA
1 ATTTTTAATATATTATATGTAAAACAGCTTTTATCTTAATAATTACCGATAACAACTCGACCTAA
1475533 ACTTTTGTTTGACCTCC
66 ACTTTTGTTTGACCTCC
1475550 ATTTTTA
1 ATTTTTA
1475557 CTCGTTTGCT
Statistics
Matches: 158, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
81 4 0.03
82 150 0.95
83 4 0.03
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.42
Consensus pattern (82 bp):
ATTTTTAATATATTATATGTAAAACAGCTTTTATCTTAATAATTACCGATAACAACTCGACCTAA
ACTTTTGTTTGACCTCC
Found at i:1478398 original size:2 final size:2
Alignment explanation
Indices: 1478391--1478440 Score: 50
Period size: 2 Copynumber: 26.0 Consensus size: 2
1478381 TATTTACATA
* * *
1478391 AT AT AT AT AT AT AT AT GT AC AT AT AT A- AT AT AA AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
1478431 AT AT AC AT AT
1 AT AT AT AT AT
1478441 TTTACACTAT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:1480174 original size:2 final size:2
Alignment explanation
Indices: 1480161--1480201 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
1480151 TCTATTTCAT
*
1480161 TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1480202 TTTTAACAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:1480324 original size:21 final size:21
Alignment explanation
Indices: 1480295--1480335 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1480285 GAAATTTTAT
* *
1480295 TTTTATTCACTCCATTTTCAA
1 TTTTATTCACTACATCTTCAA
*
1480316 TTTTGTTCACTACATCTTCA
1 TTTTATTCACTACATCTTCA
1480336 TATCTTTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.24, G:0.02, T:0.51
Consensus pattern (21 bp):
TTTTATTCACTACATCTTCAA
Found at i:1489257 original size:17 final size:18
Alignment explanation
Indices: 1489214--1489258 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
1489204 GATTTCTTTG
1489214 TTTTGA-TTTGAAAGTGA
1 TTTTGATTTTGAAAGTGA
*
1489231 TTTTCG-TTTTGATA-TGA
1 TTTT-GATTTTGAAAGTGA
1489248 TTTTGATTTTG
1 TTTTGATTTTG
1489259 TTCAAGTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
16 1 0.04
17 16 0.67
18 7 0.29
ACGTcount: A:0.20, C:0.02, G:0.20, T:0.58
Consensus pattern (18 bp):
TTTTGATTTTGAAAGTGA
Found at i:1489672 original size:36 final size:36
Alignment explanation
Indices: 1489585--1489727 Score: 126
Period size: 36 Copynumber: 3.9 Consensus size: 36
1489575 GTGCCACCGG
* * * * **
1489585 TAAGAATAGTGATTTTTGTT-CGATCCGTACTACTGG
1 TAAGAATAATGGTTTTTGTTCCGATCCGTGCCAC-AA
* * * *
1489621 TAAAAATAATAGTTTTTGTCCCGATCTGTGCCACAA
1 TAAGAATAATGGTTTTTGTTCCGATCCGTGCCACAA
* * *
1489657 TAAGAATAGTGGTTTTTGTTTCGATCCGTGCCACCAG
1 TAAGAATAATGGTTTTTGTTCCGATCCGTGCCA-CAA
* *
1489694 TAAGACTAATGGTTTTTGTTCCGAGCCGTGCCAC
1 TAAGAATAATGGTTTTTGTTCCGATCCGTGCCAC
1489728 TGGTAAAAAT
Statistics
Matches: 84, Mismatches: 21, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
36 43 0.51
37 41 0.49
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (36 bp):
TAAGAATAATGGTTTTTGTTCCGATCCGTGCCACAA
Found at i:1489680 original size:73 final size:74
Alignment explanation
Indices: 1489585--1489754 Score: 200
Period size: 73 Copynumber: 2.3 Consensus size: 74
1489575 GTGCCACCGG
* ** * *
1489585 TAAGAATAGTGATTTTTG-TTCGATCCGTACTACTGGTAAAAATAATAGTTTTTGTCCCGATCTG
1 TAAGAATAGTGATTTTTGTTTCGATCCGTACCACCAGTAAAAATAATAGTTTTTGTCCCGAGCCG
1489649 TGCCAC-AA
66 TGCCACTAA
* * * * * *
1489657 TAAGAATAGTGGTTTTTGTTTCGATCCGTGCCACCAGTAAGACTAATGGTTTTTGTTCCGAGCCG
1 TAAGAATAGTGATTTTTGTTTCGATCCGTACCACCAGTAAAAATAATAGTTTTTGTCCCGAGCCG
**
1489722 TGCCACTGG
66 TGCCACTAA
*
1489731 TAAAAATAGTGATTTTTGTTTCGA
1 TAAGAATAGTGATTTTTGTTTCGA
1489755 ACCGCCCTAC
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
72 17 0.21
73 42 0.52
74 22 0.27
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.36
Consensus pattern (74 bp):
TAAGAATAGTGATTTTTGTTTCGATCCGTACCACCAGTAAAAATAATAGTTTTTGTCCCGAGCCG
TGCCACTAA
Found at i:1489707 original size:37 final size:37
Alignment explanation
Indices: 1489575--1489754 Score: 166
Period size: 37 Copynumber: 4.9 Consensus size: 37
1489565 ATTTTCACTT
*
1489575 GTGCCACCGGTAAGAATAGTGATTTTTG-TTCGATCC
1 GTGCCACCGGTAAGAATAGTGGTTTTTGTTTCGATCC
* * * * * * ** *
1489611 GTACTACTGGTAAAAATAATAGTTTTTGTCCCGATCT
1 GTGCCACCGGTAAGAATAGTGGTTTTTGTTTCGATCC
**
1489648 GTGCCA-CAATAAGAATAGTGGTTTTTGTTTCGATCC
1 GTGCCACCGGTAAGAATAGTGGTTTTTGTTTCGATCC
* * * * *
1489684 GTGCCACCAGTAAGACTAATGGTTTTTGTTCCGAGCC
1 GTGCCACCGGTAAGAATAGTGGTTTTTGTTTCGATCC
* * *
1489721 GTGCCACTGGTAAAAATAGTGATTTTTGTTTCGA
1 GTGCCACCGGTAAGAATAGTGGTTTTTGTTTCGA
1489755 ACCGCCCTAC
Statistics
Matches: 109, Mismatches: 33, Indels: 3
0.75 0.23 0.02
Matches are distributed among these distances:
36 48 0.44
37 61 0.56
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (37 bp):
GTGCCACCGGTAAGAATAGTGGTTTTTGTTTCGATCC
Found at i:1506156 original size:10 final size:11
Alignment explanation
Indices: 1506141--1506174 Score: 50
Period size: 11 Copynumber: 2.9 Consensus size: 11
1506131 GTATTTCATA
1506141 TTTTTTTCTTT
1 TTTTTTTCTTT
1506152 TTTTTTTCTTT
1 TTTTTTTCTTT
1506163 TCTTTCTTTCTT
1 T-TTT-TTTCTT
1506175 CTTCATCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 12 0.57
12 3 0.14
13 6 0.29
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:1506168 original size:4 final size:4
Alignment explanation
Indices: 1506145--1506198 Score: 51
Period size: 4 Copynumber: 13.5 Consensus size: 4
1506135 TTCATATTTT
*
1506145 TTTC TTT- TTTT TTTC TTTTC TTTC TTTC -TTC -TTC ATCTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC -TTTC TTTC TTTC TTTC TTTC -T-TTC TTTC TTTC
1506193 TTTC TT
1 TTTC TT
1506199 ACCTAACTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
3 9 0.20
4 27 0.61
5 5 0.11
6 3 0.07
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:1512512 original size:11 final size:11
Alignment explanation
Indices: 1512496--1512553 Score: 64
Period size: 11 Copynumber: 5.4 Consensus size: 11
1512486 CTTCATACCC
1512496 AAAAAAACAAA
1 AAAAAAACAAA
1512507 AAAAAAACAAA
1 AAAAAAACAAA
*
1512518 AAAAATA-AAA
1 AAAAAAACAAA
** *
1512528 AAACCAAGAAA
1 AAAAAAACAAA
*
1512539 AAAATAACAAA
1 AAAAAAACAAA
1512550 AAAA
1 AAAA
1512554 CAGAAAGGGG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
10 7 0.18
11 32 0.82
ACGTcount: A:0.86, C:0.09, G:0.02, T:0.03
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:1512521 original size:20 final size:21
Alignment explanation
Indices: 1512496--1512559 Score: 71
Period size: 20 Copynumber: 3.0 Consensus size: 21
1512486 CTTCATACCC
1512496 AAAAAAACAAAAAAA-AA-ACA
1 AAAAAAACAAAAAAACAAGA-A
*
1512516 AAAAAAATAAAAAAACCAAGAA
1 AAAAAAACAAAAAAA-CAAGAA
1512538 AAAAATAACAAAAAAAC-AGAA
1 AAAAA-AACAAAAAAACAAGAA
1512559 A
1 A
1512560 GGGGTCCAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
20 14 0.37
21 5 0.13
22 9 0.24
23 10 0.26
ACGTcount: A:0.84, C:0.09, G:0.03, T:0.03
Consensus pattern (21 bp):
AAAAAAACAAAAAAACAAGAA
Found at i:1513814 original size:28 final size:28
Alignment explanation
Indices: 1513774--1514146 Score: 397
Period size: 28 Copynumber: 12.9 Consensus size: 28
1513764 ACGTTCATCT
* *
1513774 TTTCAAAGCCCACAAGTCAATGGCACCA
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
1513802 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
1513830 TTTCAAAGCACACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* **
1513858 TTTCAAAGCCCACACGAGTCGGTGGCAACTTT
1 TTTCAAAGCCCACA--AGTCAGTGGC-AC-CC
*
1513890 TTTTAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
1513918 TTTCAAAGCCCACAAGTCAGT-GCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
1513945 TTTCAAAGCCCGCAAGTCAGCGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
1513973 TTTCAAAGCCCACAAGTCAGCGGTACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* * * *
1514002 TTTCAATGCCCATATGAGTCGGTGGCAACTCT
1 TTTCAAAGCCCACA--AGTCAGTGGC-AC-CC
* *
1514034 TTTCAAAGCCCACAAGTCAGTGGCATCA
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
1514062 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * **
1514090 TTTTAAAGCCCACACGAGTCGGTGGTAACTTT
1 TTTCAAAGCCCACA--AGTCAGTGG-CAC-CC
1514122 TTTCAAAGCCCACAAGTCAGTGGCA
1 TTTCAAAGCCCACAAGTCAGTGGCA
1514147 TCTGTCGCAA
Statistics
Matches: 291, Mismatches: 41, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
27 24 0.08
28 153 0.53
29 17 0.06
30 43 0.15
31 11 0.04
32 43 0.15
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:1514042 original size:144 final size:144
Alignment explanation
Indices: 1513774--1514103 Score: 484
Period size: 144 Copynumber: 2.3 Consensus size: 144
1513764 ACGTTCATCT
* * * *
1513774 TTTCAAAGCCCACAAGTCAATGGCACCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
1 TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGCGGCACCCTTTCAAAGC
* * *
1513839 ACACAAGTCAGTGGCACCCTTTCAAAGCCCACACGAGTCGGTGGCAACTTTTTTTAAAGCCCACA
66 ACACAAGTCAGCGGCACCCTTTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCACA
*
1513904 AGTCAGTGGCACCC
131 AGTCAGTGGCACCA
*
1513918 TTTCAAAGCCCACAAGTCAGT-GCACCTTTTCAAAGCCCGCAAGTCAGCGGCACCCTTTCAAAGC
1 TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGCGGCACCCTTTCAAAGC
* * * * * *
1513982 CCACAAGTCAGCGGTACTCTTTTCAATGCCCATATGAGTCGGTGGCAACTCTTTTCAAAGCCCAC
66 ACACAAGTCAGCGGCAC-CCTTTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCAC
*
1514047 AAGTCAGTGGCATCA
130 AAGTCAGTGGCACCA
1514062 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTT-AAAGCCCACA
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACA
1514104 CGAGTCGGTG
Statistics
Matches: 166, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
143 53 0.32
144 95 0.57
145 12 0.07
146 6 0.04
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.22
Consensus pattern (144 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGCGGCACCCTTTCAAAGC
ACACAAGTCAGCGGCACCCTTTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCACA
AGTCAGTGGCACCA
Found at i:1514045 original size:61 final size:57
Alignment explanation
Indices: 1513769--1514146 Score: 354
Period size: 60 Copynumber: 6.5 Consensus size: 57
1513759 CTAGAACGTT
* * * *
1513769 CATCTTTTCAAAGCCCACAAGTCAATGGCA-CCATTTCAAAGCCCACAAGTCAGTGG
1 CATCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGCGG
* * * *
1513825 CATCCTTTCAAAGCACACAAGTCAGTGGCACCC-TTTCAAAGCCCACACGAGTCGGTGG
1 CATCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACA--AGTCAGCGG
** * *
1513883 CAACTTTTTTTAAAGCCCACAAGTCAGTGGCACCC-TTTCAAAGCCCACAAGTCAG-TG
1 C-A-TCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGCGG
* * * *
1513940 CACCTTTTCAAAGCCCGCAAGTCAGCGGCACCC-TTTCAAAGCCCACAAGTCAGCGG
1 CATCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGCGG
* * * * * * *
1513996 TACTCTTTTCAATGCCCATATGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGG
1 CA-TCATTTCAAAGCCCACA--AGTCAGTGGC-ACCCTTTTCAAAGCCCACAAGTCAGCGG
* *
1514057 CATCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTT-AAAGCCCACACGAGTCGGTGG
1 CATCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACA--AGTCAGCGG
* **
1514115 TAACTTTTTTCAAAGCCCACAAGTCAGTGGCA
1 -CA-TCATTTCAAAGCCCACAAGTCAGTGGCA
1514147 TCTGTCGCAA
Statistics
Matches: 272, Mismatches: 35, Indels: 26
0.82 0.11 0.08
Matches are distributed among these distances:
55 46 0.17
56 54 0.20
57 24 0.09
58 31 0.11
59 10 0.04
60 84 0.31
61 23 0.08
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (57 bp):
CATCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGCGG
Found at i:1514138 original size:88 final size:86
Alignment explanation
Indices: 1513772--1514148 Score: 413
Period size: 88 Copynumber: 4.3 Consensus size: 86
1513762 GAACGTTCAT
* * *
1513772 CTTTTCAAAGCCCACAAGTCAATGGCACCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
* *
1513837 G--CACACAAGTCAGTGGCAC
66 GCCCACACGAGTCAGTGGAAC
* * ** *
1513856 CCTTTCAAAGCCCACACGAGTCGGTGGCAACTTTTTTTAAAGCCCACAAGTCAGTGGCACCCTTT
1 CTTTTCAAAGCCCACA--AGTCAGTGGC-A-TCATTTCAAAGCCCACAAGTCAGTGGCACCCTTT
*
1513921 CAAAGCCCACA--AGTCAGT-GCAC
62 CAAAGCCCACACGAGTCAGTGGAAC
* * * * * * *
1513943 CTTTTCAAAGCCCGCAAGTCAGCGGCACCCTTTCAAAGCCCACAAGTCAGCGGTACTCTTTTCAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAA
* * * *
1514008 TGCCCATATGAGTCGGTGGCAAC
65 AGCCCACACGAGTCAGTGG-AAC
*
1514031 TCTTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAA
1 -CTTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
*
1514096 AGCCCACACGAGTCGGTGGTAAC
65 AGCCCACACGAGTCAGTGG-AAC
*
1514119 TTTTTTCAAAGCCCACAAGTCAGTGGCATC
1 -CTTTTCAAAGCCCACAAGTCAGTGGCATC
1514149 TGTCGCAATA
Statistics
Matches: 245, Mismatches: 36, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
83 23 0.09
84 29 0.12
85 8 0.03
86 14 0.06
87 20 0.08
88 97 0.40
89 50 0.20
90 4 0.02
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.23
Consensus pattern (86 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
GCCCACACGAGTCAGTGGAAC
Found at i:1517417 original size:20 final size:20
Alignment explanation
Indices: 1517363--1517418 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
1517353 ATAATTCCCA
**
1517363 AATGTATCGATACAAAGATC
1 AATGTATCGATACATTGATC
1517383 AATGTATCGATACATTGAAT-
1 AATGTATCGATACATTG-ATC
1517403 AATGTATCGATACATT
1 AATGTATCGATACATT
1517419 TCCTTGGCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 31 0.94
21 2 0.06
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATTGATC
Found at i:1518506 original size:43 final size:44
Alignment explanation
Indices: 1518313--1518534 Score: 204
Period size: 49 Copynumber: 5.0 Consensus size: 44
1518303 ATGTGAAAGA
*
1518313 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-----G
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAAGG
* * * * * *
1518352 TGCCAATGTGTTGATTAAAGGCCAACGACATTGGTCTTAAAGGGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A--GAAGG
*
1518400 TGCCAATATGATGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A-GAAGG
* * *
1518449 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTA-AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAAGG
* *
1518492 TGCCAACATGCTGATTCAAGGCTAGCGATATTGGACTTAGAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAAG
1518535 AAGATGCCAC
Statistics
Matches: 148, Mismatches: 23, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
39 32 0.22
43 38 0.26
44 3 0.02
45 1 0.01
48 33 0.22
49 39 0.26
50 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (44 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAAGG
Found at i:1518611 original size:28 final size:29
Alignment explanation
Indices: 1518552--1519097 Score: 554
Period size: 28 Copynumber: 19.3 Consensus size: 29
1518542 CACCAACTTG
* * *
1518552 TGTGGGCTTTTGAAAGGTTTG-CATTGAAT
1 TGTGGGCTTTTGAAAGG-ATGCCACTGACT
* * *
1518581 TGTGTGCTTTTG-AAGGTTGCCACTGCCT
1 TGTGGGCTTTTGAAAGGATGCCACTGACT
*
1518609 TGTGGGC-TTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGATGCCACTGACT
* ** *
1518636 TGTGGAC-TTTGAAAAAATGCCACTAACT
1 TGTGGGCTTTTGAAAGGATGCCACTGACT
* * *
1518664 TGTGGGCTTTTG-AAGGTTGGCACTGCCT
1 TGTGGGCTTTTGAAAGGATGCCACTGACT
* *
1518692 TGTAGGC-TTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGATGCCACTGACT
* *
1518719 TGTGGGCTTTTG-AAGGTTGCCACTAACT
1 TGTGGGCTTTTGAAAGGATGCCACTGACT
*
1518747 TGTGGGC-TTTGAAAAGG-TGCCACTAACT
1 TGTGGGCTTTTG-AAAGGATGCCACTGACT
* * *
1518775 TGTGAGCTTTTGAAAAGATGCCACTAACT
1 TGTGGGCTTTTGAAAGGATGCCACTGACT
* * *
1518804 TGTGGGC-TTTAAAAAGATGCCACTGATT
1 TGTGGGCTTTTGAAAGGATGCCACTGACT
* * *
1518832 TGTAGGATTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAAGGATGCCACTGACT
* * *
1518861 TGTGGGCTTTCGAAAAGATGCCATTGACT
1 TGTGGGCTTTTGAAAGGATGCCACTGACT
* * *
1518890 TGTAGGCTTCTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGATGCCACTGACT
*
1518918 TGTGGAC-TTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTTG-AAAGGATGCCACTGACT
*
1518946 TGTGGGCTTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAAGGATGCCACTGACT
* *
1518975 TGTGGGC-TTTGAAAAGATGCCACTAACT
1 TGTGGGCTTTTGAAAGGATGCCACTGACT
* *
1519003 TGTGGGCTTCTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGATGCCACTGACT
1519031 TGTGGGC-TTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTTG-AAAGGATGCCACTGACT
*
1519059 TGTGGGCTTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAAGGATGCCACTGACT
1519088 TGTGGGCTTT
1 TGTGGGCTTT
1519098 GGAAGGTGAG
Statistics
Matches: 444, Mismatches: 55, Indels: 36
0.83 0.10 0.07
Matches are distributed among these distances:
27 66 0.15
28 227 0.51
29 151 0.34
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (29 bp):
TGTGGGCTTTTGAAAGGATGCCACTGACT
Found at i:1518801 original size:57 final size:56
Alignment explanation
Indices: 1518598--1519098 Score: 619
Period size: 57 Copynumber: 8.9 Consensus size: 56
1518588 TTTTGAAGGT
* * * * *
1518598 TGCCACTGCCTTGTGGGC-TTTGAAGGTTGCCACTGACTTGTGGACTTTGAAAAAA
1 TGCCACTGACTTGTGGGCTTTTGAAAGATGCCACTGACTTGTGGGCTTTGAAAAGA
* * * * * * * *
1518653 TGCCACTAACTTGTGGGCTTTTGAAGGTTGGCACTGCCTTGTAGGCTTTG-AAGGT
1 TGCCACTGACTTGTGGGCTTTTGAAAGATGCCACTGACTTGTGGGCTTTGAAAAGA
* * * *
1518708 TGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTAACTTGTGGGCTTTGAAAAGG
1 TGCCACTGACTTGTGGGCTTTTGAAAGATGCCACTGACTTGTGGGCTTTGAAAAGA
* * * *
1518764 TGCCACTAACTTGTGAGCTTTTGAAAAGATGCCACTAACTTGTGGGCTTTAAAAAGA
1 TGCCACTGACTTGTGGGCTTTTG-AAAGATGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
1518821 TGCCACTGATTTGTAGGATTTTGAAAAGATGCCACTGACTTGTGGGCTTTCGAAAAGA
1 TGCCACTGACTTGTGGGCTTTTG-AAAGATGCCACTGACTTGTGGGCTTT-GAAAAGA
* * * * * * *
1518879 TGCCATTGACTTGTAGGCTTCTGAAGGTTGCCACTGACTTGTGGACTTTGAAAAGG
1 TGCCACTGACTTGTGGGCTTTTGAAAGATGCCACTGACTTGTGGGCTTTGAAAAGA
1518935 TGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTTG-AAAGATGCCACTGACTTGTGGGCTTTGAAAAGA
* * * * *
1518992 TGCCACTAACTTGTGGGCTTCTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGG
1 TGCCACTGACTTGTGGGCTTTTGAAAGATGCCACTGACTTGTGGGCTTTGAAAAGA
1519048 TGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTG
1 TGCCACTGACTTGTGGGCTTTTG-AAAGATGCCACTGACTTGTGGGCTTTG
1519099 GAAGGTGAGG
Statistics
Matches: 387, Mismatches: 53, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
55 63 0.16
56 128 0.33
57 171 0.44
58 25 0.06
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (56 bp):
TGCCACTGACTTGTGGGCTTTTGAAAGATGCCACTGACTTGTGGGCTTTGAAAAGA
Found at i:1518961 original size:85 final size:85
Alignment explanation
Indices: 1518593--1519098 Score: 593
Period size: 85 Copynumber: 6.0 Consensus size: 85
1518583 TGTGCTTTTG
* * * * *
1518593 AAGGTTGCCACTGCCTTGTGGGCTTTG-AAGGTTGCCACTGACTTGTGGACTTTGAAAAAATGCC
1 AAGGTTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGATGCC
1518657 ACTAACTTGTGGGCTTTTG--
66 ACTAACTTGTGGGC-TTTGAA
* * * * * * *
1518676 AAGGTTGGCACTGCCTTGTAGGCTTTG-AAGGTTGCCACTGACTTGTGGGCTTTTG-AAGGTTGC
1 AAGGTTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGC-TTTGAAAAGATGC
1518739 CACTAACTTGTGGGCTTTGAA
65 CACTAACTTGTGGGCTTTGAA
* * * *
1518760 AAGG-TGCCACTAACTTGTGAGCTTTTGAAAAGATGCCACTAACTTGTGGGCTTTAAAAAGATGC
1 AAGGTTGCCACTGACTTGTGGGC-TTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGATGC
* * **
1518824 CACTGATTTGTAGGATTTTGAA
65 CACTAACTTGT-GGGCTTTGAA
* * * * *
1518846 AA-GATGCCACTGACTTGTGGGCTTTCGAAAAGATGCCATTGACTTGTAGGCTTCTG-AAGGTTG
1 AAGGTTGCCACTGACTTGTGGGCTTT-GAAAAGATGCCACTGACTTGTGGGCTT-TGAAAAGATG
* *
1518909 CCACTGACTTGTGGACTTTGAA
64 CCACTAACTTGTGGGCTTTGAA
1518931 AAGG-TGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGATGC
1 AAGGTTGCCACTGACTTGTGGGC-TTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGATGC
1518995 CACTAACTTGTGGGCTTCTG--
65 CACTAACTTGTGGGCTT-TGAA
*
1519015 AAGGTTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTTGAAAAGATGC
1 AAGGTTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGC-TTTGAAAAGATGC
*
1519080 CACTGACTTGTGGGCTTTG
65 CACTAACTTGTGGGCTTTG
1519099 GAAGGTGAGG
Statistics
Matches: 368, Mismatches: 39, Indels: 31
0.84 0.09 0.07
Matches are distributed among these distances:
82 4 0.01
83 80 0.22
84 50 0.14
85 161 0.44
86 72 0.20
87 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (85 bp):
AAGGTTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGATGCC
ACTAACTTGTGGGCTTTGAA
Found at i:1519503 original size:37 final size:37
Alignment explanation
Indices: 1519461--1519582 Score: 235
Period size: 37 Copynumber: 3.3 Consensus size: 37
1519451 AAAAATGAAG
*
1519461 CACAAATGCATCATGCAAAATGAAATTTTATGAATGT
1 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
1519498 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
1 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
1519535 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
1 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
1519572 CACAAATGCAT
1 CACAAATGCAT
1519583 GATTGTGGCA
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 84 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (37 bp):
CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
Found at i:1520628 original size:17 final size:17
Alignment explanation
Indices: 1520606--1520640 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1520596 ATCCGGACCC
1520606 TTTTTG-TTGTTTGTTTT
1 TTTTTGTTTGTTT-TTTT
1520623 TTTTTGTTTGTTTTTTT
1 TTTTTGTTTGTTTTTTT
1520640 T
1 T
1520641 ACAGAGGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (17 bp):
TTTTTGTTTGTTTTTTT
Found at i:1520629 original size:14 final size:14
Alignment explanation
Indices: 1520606--1520640 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
1520596 ATCCGGACCC
*
1520606 TTTTTGTTGTTTGT
1 TTTTTTTTGTTTGT
1520620 TTTTTTTTGTTTGT
1 TTTTTTTTGTTTGT
1520634 TTTTTTT
1 TTTTTTT
1520641 ACAGAGGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (14 bp):
TTTTTTTTGTTTGT
Found at i:1535027 original size:29 final size:29
Alignment explanation
Indices: 1534932--1535110 Score: 211
Period size: 28 Copynumber: 6.1 Consensus size: 29
1534922 TACAGCATCC
*
1534932 TTTCAAAGCCCACAAGTTACTGGCACTC-
1 TTTCAAAGCCCACAAGTTAGTGGCACTCT
*
1534960 TTTCAAAGCCCACAAGTTAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTTAGTGGCACTCT
* ** *
1534988 TTTCAAAGCCCATAAGACAGTGGCATTCT
1 TTTCAAAGCCCACAAGTTAGTGGCACTCT
*
1535017 TTTCAAAGCCCAGAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTTAGTGGCACTCT
* *
1535046 TTTCAAAGCCCACATGAGTCAGTGGAAACTCT
1 TTTCAAAGCCCACA--AGTTAGTGG-CACTCT
1535078 TTTCAAAGCCCACACAAGTTAGTGGCAC-CT
1 TTTCAAAG-CC-CACAAGTTAGTGGCACTCT
1535108 TTT
1 TTT
1535111 TTTTAAAAAA
Statistics
Matches: 129, Mismatches: 15, Indels: 12
0.83 0.10 0.08
Matches are distributed among these distances:
27 1 0.01
28 47 0.36
29 39 0.30
30 5 0.04
31 10 0.08
32 21 0.16
33 2 0.02
34 4 0.03
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (29 bp):
TTTCAAAGCCCACAAGTTAGTGGCACTCT
Found at i:1536005 original size:20 final size:20
Alignment explanation
Indices: 1535982--1536052 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
1535972 AAGTACCCAG
* *
1535982 ATGTATCGATATATTTTTTA
1 ATGTATCGATACATTTTTCA
* * *
1536002 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
1536022 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
1536042 ATGTATCGATA
1 ATGTATCGATA
1536053 TATTCTATCT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1539662 original size:13 final size:13
Alignment explanation
Indices: 1539646--1539689 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
1539636 GTTATATAAT
1539646 ATATAATATTTAA
1 ATATAATATTTAA
* *
1539659 ATATATTATTTAT
1 ATATAATATTTAA
*
1539672 ATATAAAATTATAA
1 ATATAATATT-TAA
1539686 ATAT
1 ATAT
1539690 TTATATAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 19 0.76
14 6 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATATAATATTTAA
Found at i:1539672 original size:24 final size:24
Alignment explanation
Indices: 1539614--1539703 Score: 62
Period size: 27 Copynumber: 3.7 Consensus size: 24
1539604 TCTATTCTTA
* *
1539614 TATTTATATTATATTAAATAATGT
1 TATTTATATAATATTAAATAATAT
1539638 TATATAATATATAATATTTAAAT-ATAT
1 TAT-T--TATATAATA-TTAAATAATAT
* *
1539665 TATTTATAT-ATA--AAATTATAAA
1 TATTTATATAATATTAAATAAT-AT
1539687 TATTTATATAAATATTA
1 TATTTATAT-AATATTA
1539704 TGTATTTTGA
Statistics
Matches: 53, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
20 4 0.08
21 2 0.04
22 10 0.19
23 3 0.06
24 11 0.21
25 1 0.02
26 2 0.04
27 14 0.26
28 6 0.11
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (24 bp):
TATTTATATAATATTAAATAATAT
Found at i:1539693 original size:26 final size:26
Alignment explanation
Indices: 1539644--1539693 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
1539634 ATGTTATATA
*
1539644 ATATATAATATTTAAATATATTATTT
1 ATATATAAAATTTAAATATATTATTT
1539670 ATATATAAAATTATAAATAT-TTAT
1 ATATATAAAATT-TAAATATATTAT
1539694 ATAAATATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
ATATATAAAATTTAAATATATTATTT
Found at i:1540620 original size:52 final size:51
Alignment explanation
Indices: 1540497--1540687 Score: 238
Period size: 52 Copynumber: 3.7 Consensus size: 51
1540487 TCTAGAATGA
* * * * *
1540497 AAATGTATCAATACATTTTTTATTGTATCGATACATTCTAGGTTTTGACCT
1 AAATATATCGATACATTTTTCATTGTATCGATACATTCTAGTTTTTGACCC
* * *
1540548 AAATATATCGATACATTTTTCATTGTATCGTTATATTCTAAGTTTTTAACCC
1 AAATATATCGATACATTTTTCATTGTATCGATACATTCT-AGTTTTTGACCC
* * * *
1540600 AAATATATTGATACATTTTTCATTGTATCGATACGTTTTGGGTTTTTGACCC
1 AAATATATCGATACATTTTTCATTGTATCGATACATTCT-AGTTTTTGACCC
* *
1540652 AAATATATCGATACATTCTTCAATGTATCGATACAT
1 AAATATATCGATACATTTTTCATTGTATCGATACAT
1540688 GTATGCTATT
Statistics
Matches: 119, Mismatches: 20, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
51 34 0.29
52 85 0.71
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (51 bp):
AAATATATCGATACATTTTTCATTGTATCGATACATTCTAGTTTTTGACCC
Found at i:1541701 original size:24 final size:23
Alignment explanation
Indices: 1541645--1541725 Score: 76
Period size: 24 Copynumber: 3.4 Consensus size: 23
1541635 ATTTCTTTTT
*
1541645 TTAAAATTAAAATAATAAAACAAA
1 TTAAAATAAAAATAATAAAA-AAA
*
1541669 -AAAATATAAAAATAATCAAAAAAA
1 TTAAA-ATAAAAATAAT-AAAAAAA
*
1541693 TTAAAATAAATTAA-AATTAAAAAA
1 TTAAAATAAA--AATAATAAAAAAA
1541717 TTAAAATAA
1 TTAAAATAA
1541726 TCAAAAAATT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
23 3 0.06
24 33 0.69
25 10 0.21
26 2 0.04
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (23 bp):
TTAAAATAAAAATAATAAAAAAA
Found at i:1541732 original size:24 final size:25
Alignment explanation
Indices: 1541687--1541768 Score: 78
Period size: 24 Copynumber: 3.2 Consensus size: 25
1541677 AAAATAATCA
*
1541687 AAAAAATTAAAATAAAT-TAAAATT
1 AAAAAATTAAAATAAATAAAAAATT
1541711 AAAAAATTAAAAT-AATCAAAAAATT
1 AAAAAATTAAAATAAAT-AAAAAATT
* * *
1541736 AAAGTTAATGAAAATTAAATAAAAAAAT
1 AAA--AAATTAAAA-TAAATAAAAAATT
1541764 AAAAA
1 AAAAA
1541769 TCTTAAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
23 3 0.06
24 13 0.28
25 9 0.19
26 1 0.02
27 7 0.15
28 11 0.23
29 3 0.06
ACGTcount: A:0.72, C:0.01, G:0.02, T:0.24
Consensus pattern (25 bp):
AAAAAATTAAAATAAATAAAAAATT
Found at i:1541749 original size:18 final size:17
Alignment explanation
Indices: 1541647--1541738 Score: 61
Period size: 17 Copynumber: 5.5 Consensus size: 17
1541637 TTCTTTTTTT
1541647 AAAATTAAAATAAT-AA
1 AAAATTAAAATAATCAA
* *
1541663 AACAA-AAAAAT-ATAAA
1 AA-AATTAAAATAATCAA
* * *
1541679 AATAATCAAAAAAATTAAA
1 AA-AATTAAAATAA-TCAA
1541698 ATAAATTAAAAT--T-AA
1 A-AAATTAAAATAATCAA
1541713 AAAATTAAAATAATCAA
1 AAAATTAAAATAATCAA
1541730 AAAATTAAA
1 AAAATTAAA
1541739 GTTAATGAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
14 10 0.16
15 5 0.08
16 15 0.25
17 17 0.28
18 1 0.02
19 12 0.20
20 1 0.02
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (17 bp):
AAAATTAAAATAATCAA
Found at i:1541750 original size:41 final size:44
Alignment explanation
Indices: 1541647--1541754 Score: 136
Period size: 41 Copynumber: 2.6 Consensus size: 44
1541637 TTCTTTTTTT
**
1541647 AAAATTAAAAT-AAT-AAAACAAAAAAATATAAAAATAATCAAA
1 AAAATTAAAATAAATGAAAATTAAAAAATATAAAAATAATCAAA
*
1541689 AAAATTAAAATAAATTAAAATTAAAAAAT-T-AAAATAATC-AA
1 AAAATTAAAATAAATGAAAATTAAAAAATATAAAAATAATCAAA
* *
1541730 AAAATTAAAGTTAATGAAAATTAAA
1 AAAATTAAAATAAATGAAAATTAAA
1541755 TAAAAAAATA
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
41 24 0.41
42 20 0.34
43 4 0.07
44 11 0.19
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (44 bp):
AAAATTAAAATAAATGAAAATTAAAAAATATAAAAATAATCAAA
Found at i:1542027 original size:58 final size:59
Alignment explanation
Indices: 1541915--1542041 Score: 202
Period size: 58 Copynumber: 2.2 Consensus size: 59
1541905 AAGCAAAGTA
*
1541915 ACATGAAGCAATACACGAGCAAAAGCTGTAAAACATGGAAAAAGATGAAGGCCAAGAAC
1 ACATGAAGCAATACACGAGCAAAAGCTATAAAACATGGAAAAAGATGAAGGCCAAGAAC
* * * *
1541974 ACGTGAAGCAATACACGGGCAAAAGCTAT-AAACATGGAAGAAGATGAGGGCCAAGAAC
1 ACATGAAGCAATACACGAGCAAAAGCTATAAAACATGGAAAAAGATGAAGGCCAAGAAC
1542032 ACATGAAGCA
1 ACATGAAGCA
1542042 GAACAAAGCA
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
58 36 0.58
59 26 0.42
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.10
Consensus pattern (59 bp):
ACATGAAGCAATACACGAGCAAAAGCTATAAAACATGGAAAAAGATGAAGGCCAAGAAC
Found at i:1543745 original size:5 final size:5
Alignment explanation
Indices: 1543735--1543774 Score: 66
Period size: 5 Copynumber: 8.4 Consensus size: 5
1543725 CAAGGCATAA
1543735 TTATT TTA-T TT-TT TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TT
1543775 TTGCTATCCT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 6 0.18
5 27 0.82
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:1543885 original size:79 final size:79
Alignment explanation
Indices: 1543796--1543985 Score: 222
Period size: 79 Copynumber: 2.4 Consensus size: 79
1543786 ATATGCACCG
* * * *
1543796 ATTTTCCACCATTGGGGATACACCAATCCCGT-T-ATTTTTGAGGGGATACTCCAACCCCGATTT
1 ATTTTTCACCATCGGGGATACACCAA-CCC-TATAATTTTCGAAGGGATACTCCAACCCCGATTT
1543859 TATTTCTAAAATACCA
64 TATTTCTAAAATACCA
** * *
1543875 ATTTTTCACCATCGGGGATATTCTAACCCTATAATTTTCGAAGGGATACTCCAACCTCGATTTTA
1 ATTTTTCACCATCGGGGATACACCAACCCTATAATTTTCGAAGGGATACTCCAACCCCGATTTTA
* **
1543940 TTTCTTAAATACTG
66 TTTCTAAAATACCA
* * *
1543954 ATTTTTCACAATCGAGGATACTCCAACCCTAT
1 ATTTTTCACCATCGGGGATACACCAACCCTAT
1543986 TCCTCTAAGG
Statistics
Matches: 94, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
77 1 0.01
78 4 0.04
79 89 0.95
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (79 bp):
ATTTTTCACCATCGGGGATACACCAACCCTATAATTTTCGAAGGGATACTCCAACCCCGATTTTA
TTTCTAAAATACCA
Found at i:1556905 original size:28 final size:28
Alignment explanation
Indices: 1556865--1556920 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
1556855 TTCTCAAAGC
*
1556865 CCACTAGTCAGTGGCACCTTTTCGAAGT
1 CCACAAGTCAGTGGCACCTTTTCGAAGT
* *
1556893 CCACAAGTTAGTGGCATCTTTTCGAAGT
1 CCACAAGTCAGTGGCACCTTTTCGAAGT
1556921 TCGCAATCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.30
Consensus pattern (28 bp):
CCACAAGTCAGTGGCACCTTTTCGAAGT
Found at i:1557207 original size:31 final size:31
Alignment explanation
Indices: 1557163--1557292 Score: 140
Period size: 31 Copynumber: 4.2 Consensus size: 31
1557153 CACGAGTCAA
*
1557163 TGGC-ACCTTTTCAAAGTCCACACAAGTTGG
1 TGGCAACCTTTTCAAAGTCCACACAAGCTGG
**
1557193 TGGCAACCCCTTCAAAGTCCACACAAGCTGG
1 TGGCAACCTTTTCAAAGTCCACACAAGCTGG
*
1557224 TGGCAAACCTTTTCAAA-TCC-CACTTGAGCTGG
1 TGGC-AACCTTTTCAAAGTCCACAC--AAGCTGG
* * *
1557256 TGGTAACCTTTTCAAAAGCCCACACAAGTTGG
1 TGGCAACCTTTTC-AAAGTCCACACAAGCTGG
1557288 TGGCA
1 TGGCA
1557293 TCTCATTCTA
Statistics
Matches: 82, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
30 7 0.09
31 39 0.48
32 31 0.38
33 2 0.02
34 3 0.04
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (31 bp):
TGGCAACCTTTTCAAAGTCCACACAAGCTGG
Found at i:1557239 original size:63 final size:63
Alignment explanation
Indices: 1557167--1557292 Score: 148
Period size: 63 Copynumber: 2.0 Consensus size: 63
1557157 AGTCAATGGC
* *
1557167 ACCTTTTCAAAGTCCACAC-AAGTTGGTGGCAACCCCTTC-AAAGTCCACACAAGCTGGTGGCAA
1 ACCTTTTCAAA-TCC-CACTAAGCTGGTGGCAACCCCTTCAAAAGCCCACACAAGCTGGTGGCAA
* * ** *
1557230 ACCTTTTCAAATCCCACTTGAGCTGGTGGTAACCTTTTCAAAAGCCCACACAAGTTGGTGGCA
1 ACCTTTTCAAATCCCAC-TAAGCTGGTGGCAACCCCTTCAAAAGCCCACACAAGCTGGTGGCA
1557293 TCTCATTCTA
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
61 3 0.06
62 3 0.06
63 26 0.49
64 21 0.40
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (63 bp):
ACCTTTTCAAATCCCACTAAGCTGGTGGCAACCCCTTCAAAAGCCCACACAAGCTGGTGGCAA
Found at i:1557289 original size:32 final size:31
Alignment explanation
Indices: 1557167--1557290 Score: 122
Period size: 32 Copynumber: 3.9 Consensus size: 31
1557157 AGTCAATGGC
* * *
1557167 ACCTTTTCAAAGTCCACACAAGTTGGTGGCA
1 ACCTTTTCAAAGCCCACACAAGCTGGTGGAA
** *
1557198 ACCCCTTCAAAGTCCACACAAGCTGGTGGCAA
1 ACCTTTTCAAAGCCCACACAAGCTGGTGG-AA
* *** *
1557230 ACCTTTTCAAATCCCACTTGAGCTGGTGGTA
1 ACCTTTTCAAAGCCCACACAAGCTGGTGGAA
*
1557261 ACCTTTTCAAAAGCCCACACAAGTTGGTGG
1 ACCTTTTC-AAAGCCCACACAAGCTGGTGG
1557291 CATCTCATTC
Statistics
Matches: 74, Mismatches: 17, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
31 35 0.47
32 39 0.53
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (31 bp):
ACCTTTTCAAAGCCCACACAAGCTGGTGGAA
Found at i:1557575 original size:122 final size:120
Alignment explanation
Indices: 1557346--1557575 Score: 354
Period size: 122 Copynumber: 1.9 Consensus size: 120
1557336 GGCACCTCAA
* *
1557346 TCTTTAAGTCCAGTATCACTGGCCTTGAATCAGCATATTGGCCCCTTTATCAGTTTTCTCATCTT
1 TCTTTAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCCCCTTTATCAGTTTTCTCATCTT
* * * * *
1557411 CAAGCCCGATGTCGTTGGCTTTGAATCAACACATTGGCATTTTTCAAATCTTCTT
66 CAAGCCCGATGTCGCTAGCCTTCAATCAACACATTAGCATTTTTCAAATCTTCTT
1557466 TCTTTCAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCC-TTATCAGTTTTTCTCAT
1 TCTTT-AAGCCCAATATCACTGGCCTTGAATCAGCATATTGGC-CCCTTTATCAG-TTTTCTCAT
*
1557530 CTTCAAGCCCGATGTCGCTAGCCTTCAATCAACATATTAGCATTTT
63 CTTCAAGCCCGATGTCGCTAGCCTTCAATCAACACATTAGCATTTT
1557576 AACATCCCCA
Statistics
Matches: 99, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
120 5 0.05
121 42 0.42
122 52 0.53
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.37
Consensus pattern (120 bp):
TCTTTAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCCCCTTTATCAGTTTTCTCATCTT
CAAGCCCGATGTCGCTAGCCTTCAATCAACACATTAGCATTTTTCAAATCTTCTT
Found at i:1557659 original size:52 final size:52
Alignment explanation
Indices: 1557598--1557774 Score: 182
Period size: 52 Copynumber: 3.4 Consensus size: 52
1557588 CCCAGTATCA
* *
1557598 CTAGCCTTGAATCAGCACATTCGCATTCTTCTCATCTTCAAGTCTAATGTCG
1 CTAGCCTTGAATCAGCACATTCGCATTCTTCTCATCTTTAAGTCCAATGTCG
* * * * *
1557650 CTAGCCTTGAATCAACACATT-GACATTCTTCGCACCTTTAAGCCCAATATCG
1 CTAGCCTTGAATCAGCACATTCG-CATTCTTCTCATCTTTAAGTCCAATGTCG
* * * * *
1557702 CTAGCCTAGAATCAGTATC-TTGGCGC-CT-TTGTCATTTTTAAGTCCAATGTCG
1 CTAGCCTTGAATCAGCA-CATT--CGCATTCTTCTCATCTTTAAGTCCAATGTCG
1557754 CTAGCCTTGAATCAGCACATT
1 CTAGCCTTGAATCAGCACATT
1557775 AGCACCTTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
51 2 0.02
52 94 0.94
53 2 0.02
54 1 0.01
55 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.33
Consensus pattern (52 bp):
CTAGCCTTGAATCAGCACATTCGCATTCTTCTCATCTTTAAGTCCAATGTCG
Found at i:1557804 original size:43 final size:43
Alignment explanation
Indices: 1557738--1557827 Score: 117
Period size: 43 Copynumber: 2.1 Consensus size: 43
1557728 CTTTGTCATT
** * *
1557738 TTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTAGCACC
1 TTTAAGTCCAAAATCACTAGCCTTGAATCAACACATTAGCACC
* * *
1557781 TTTAAGTCCAAAATCACTGGCCTTGAATCAACATATTGGCACC
1 TTTAAGTCCAAAATCACTAGCCTTGAATCAACACATTAGCACC
1557824 TTTA
1 TTTA
1557828 TCATTCTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (43 bp):
TTTAAGTCCAAAATCACTAGCCTTGAATCAACACATTAGCACC
Found at i:1558794 original size:58 final size:58
Alignment explanation
Indices: 1558683--1558808 Score: 182
Period size: 58 Copynumber: 2.2 Consensus size: 58
1558673 AACAAAGTAG
* *
1558683 CGTGAAGCAATACATGAGCAAAAGCTGTAAAACATGGAAGAAGATGAAGGCCAAGAACA
1 CGTGAAGCAATACACGAGCAAAAGC-GTAAAACATGGAAAAAGATGAAGGCCAAGAACA
* *
1558742 CGTGAAGCAATACACGGGCAAAAGC-TACAAACATGGAAAAAGATGAGGGCCAAGAACA
1 CGTGAAGCAATACACGAGCAAAAGCGTA-AAACATGGAAAAAGATGAAGGCCAAGAACA
*
1558800 CATGAAGCA
1 CGTGAAGCA
1558809 GAACAAAACA
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
57 2 0.03
58 36 0.59
59 23 0.38
ACGTcount: A:0.47, C:0.17, G:0.25, T:0.10
Consensus pattern (58 bp):
CGTGAAGCAATACACGAGCAAAAGCGTAAAACATGGAAAAAGATGAAGGCCAAGAACA
Found at i:1560541 original size:3 final size:3
Alignment explanation
Indices: 1560535--1560589 Score: 94
Period size: 3 Copynumber: 18.7 Consensus size: 3
1560525 TTTTATTTTT
1560535 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
1560582 TTT TTA TT
1 TTA TTA TT
1560590 TTTTTGCTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:1561718 original size:19 final size:19
Alignment explanation
Indices: 1561694--1561761 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1561684 AATTCAACGA
1561694 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1561713 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1561728 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1561745 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1561762 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1561732 original size:32 final size:32
Alignment explanation
Indices: 1561696--1561758 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1561686 TTCAACGATT
*
1561696 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1561728 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1561759 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1561733 original size:13 final size:13
Alignment explanation
Indices: 1561715--1561739 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1561705 ACATAAGTTT
1561715 TGTATCGATACAA
1 TGTATCGATACAA
1561728 TGTATCGATACA
1 TGTATCGATACA
1561740 TAAGTATTGT
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:1561824 original size:20 final size:20
Alignment explanation
Indices: 1561781--1561829 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
1561771 GCCAAGGAAA
***
1561781 TGTATCGATACATTTTTCTG
1 TGTATCGATACATGGATCTG
*
1561801 TGTATCGATACATGGATCTT
1 TGTATCGATACATGGATCTG
1561821 TGTATCGAT
1 TGTATCGAT
1561830 GCATTTGGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.14, G:0.18, T:0.45
Consensus pattern (20 bp):
TGTATCGATACATGGATCTG
Found at i:1564362 original size:31 final size:28
Alignment explanation
Indices: 1564281--1564351 Score: 85
Period size: 26 Copynumber: 2.6 Consensus size: 28
1564271 TTCACAATCA
* *
1564281 GGGACACTCCAACCCCGTTA-ATCTC--G
1 GGGATACTCCAACCCCGTTATTTC-CGAG
1564307 GGGATACTCCAACCCCGTTATTTCCGAG
1 GGGATACTCCAACCCCGTTATTTCCGAG
*
1564335 GGGATACTCTAACCCCG
1 GGGATACTCCAACCCCG
1564352 ACTTTATTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 20 0.51
27 2 0.05
28 17 0.44
ACGTcount: A:0.23, C:0.35, G:0.21, T:0.21
Consensus pattern (28 bp):
GGGATACTCCAACCCCGTTATTTCCGAG
Found at i:1564392 original size:51 final size:51
Alignment explanation
Indices: 1564334--1564483 Score: 176
Period size: 51 Copynumber: 2.9 Consensus size: 51
1564324 TTATTTCCGA
* * **
1564334 GGGGATACTCTAACCCCGACTTTATTTCCAAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAATATCAATTTTTCATAATC
* * * * *
1564385 GGGGATACTCCAACCCCGGTTTTAATTT-CAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTT-ATTTCCAAAATATCAATTTTTC-ATAATC
*
1564437 GGGGATACTCCAACACCGATTTTATTTCCAAAAATATCAATTTTTCA
1 GGGGATACTCCAACCCCGATTTTATTTCC-AAAATATCAATTTTTCA
1564484 CAATTAAGGA
Statistics
Matches: 80, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
51 36 0.45
52 31 0.39
53 13 0.16
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.35
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAATATCAATTTTTCATAATC
Found at i:1564562 original size:211 final size:210
Alignment explanation
Indices: 1564171--1564562 Score: 563
Period size: 211 Copynumber: 1.9 Consensus size: 210
1564161 AATTCTCCAC
* * * *
1564171 AATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACTC
1 AATCGGGGATACTCCAACCCCGATTTTAATTTCAAAACACCAATTTTCTATAATCGGGGATACTC
* * *
1564236 CAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCAGGGACACTCCAACCCCGTTA
66 CAACACCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCAAGGACACTCCAACCCCGTCA
* * * *
1564301 ATCTCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCTAACCCCGACTTTATTTCCAAA
131 ATCTCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCGACTTTATTTCCAAA
1564366 ATATTGATTTTTCAT
196 ATATTGATTTTTCAT
* *
1564381 AATCGGGGATACTCCAACCCCGGTTTTAATTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAACCCCGATTTTAATTTCAAAACACCAATTTT-CTATAATCGGGGATACT
* * * * * *
1564446 CCAACACCGATTTTATTTCC-AAAAATATCAATTT-TTCACAATTAAGGATATTCCAACCTCGTC
65 CCAACACCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCAAGGACACTCCAACCCCGTC
*
1564509 AATTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACGCTCCAACCCCG
130 AA-TC-TCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCG
1564563 TTATTATCTC
Statistics
Matches: 159, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
209 25 0.16
210 56 0.35
211 78 0.49
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (210 bp):
AATCGGGGATACTCCAACCCCGATTTTAATTTCAAAACACCAATTTTCTATAATCGGGGATACTC
CAACACCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCAAGGACACTCCAACCCCGTCA
ATCTCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCGACTTTATTTCCAAA
ATATTGATTTTTCAT
Found at i:1570900 original size:61 final size:57
Alignment explanation
Indices: 1570665--1571888 Score: 1326
Period size: 55 Copynumber: 21.4 Consensus size: 57
1570655 TTAGCCCTTC
*
1570665 CCAGTCCTCAAAGAGCAGGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGATG-C-TC-T-TTTCAAAGCCCACACAAGTTGGTGGCATTTT
* * *
1570726 CCAATCCTCAAAGAGCAAGATGC-C-TTTCGAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGATGCTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT
* * *
1570781 TCAGTCCTCAAATAGCAGGATGC-C-TTTCAAAGCCCACACAAGTTGGTGGCACTTT
1 CCAGTCCTCAAAGAGCAGGATGCTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT
*
1570836 CTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGATGC----TCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT
* * *
1570897 CTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA-CTT
1 CCAGTCCTCAAAGAGCAGGATGC----TCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT
* *
1570957 CCTAGTCCTCAAAAAGCAGGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CC-AGTCCTCAAAGAGCAGGATG-C-TC-T-TTTCAAAGCCCACACAAGTTGGTGGCATTTT
*
1571019 CCAATCCTCAAAGAGCAGGATGC-C-TTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGATGCTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT
* * **
1571074 CCAATCCTCAAAGAGCAGGATGC-CTTTT-AAAGCCCACCCAAGTTGGTGGCACCTT
1 CCAGTCCTCAAAGAGCAGGATGCTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1571129 -CAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGATGC----TCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT
* * *
1571189 CCAGTCCCCAAAGAGTAGGATGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGATG-C-TCT-TTTCAAAGCCCACACAAGTTGGTGGCATTTT
* * **
1571249 CCAATCCTCAAAGAGCAGGATGC-CTTTT-AAAG-CCACCCAAGTTGGTGGCACCTT
1 CCAGTCCTCAAAGAGCAGGATGCTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT
*
1571303 -CAGTCCTCAAAGAGTAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGATGC----TCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT
* * *
1571363 CCAGTCCCCAAAGAGCAGGACGCCTTTTCTCTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGATG-CTCTT-T-TCAAAGCCCACACAAGTTGGTGGCATTTT
* * **
1571423 CCAATCCTCAAAGAGCAGGATGC-CTTTT-AAAGCCCACCCAAGTTGGTGGCACCTT
1 CCAGTCCTCAAAGAGCAGGATGCTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT
* *
1571478 -CAGTCCTCAAAGAGCAAGATACTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGATGC----TCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT
** * *
1571538 CCAGTCCTCAAAGAGCAGGACAC-CTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT
1 CCAGTCCTCAAAGAGCAGGATGCTCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTT
* * * *
1571594 -CAGTCCCCAAAGAGCAGGA--CACCTTTCAAAGCCCACATAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGATGCTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT
** * *
1571648 CCAGTCCTCAAAGAGCAGGACAC-CTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT
1 CCAGTCCTCAAAGAGCAGGATGCTCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTT
* * *
1571704 -CAGTCCCCAAAGAGCAGGA--CACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGATGCTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT
** * *
1571758 CCAGTCCTCAAAGAGCAGGACAC-CTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT
1 CCAGTCCTCAAAGAGCAGGATGCTCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTT
* * *
1571814 -CAGTCCTCAAAGAGTAGGACGC-C-TTTCAAAGCCCACACGAGTTGGTGGCACTTTT
1 CCAGTCCTCAAAGAGCAGGATGCTCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTT
* * *
1571869 -TACTCCTCAATGAGCAGGAT
1 CCAGTCCTCAAAGAGCAGGAT
1571889 ACACTTTATT
Statistics
Matches: 1015, Mismatches: 95, Indels: 112
0.83 0.08 0.09
Matches are distributed among these distances:
53 22 0.02
54 73 0.07
55 453 0.45
56 26 0.03
57 4 0.00
58 12 0.01
59 23 0.02
60 172 0.17
61 223 0.22
62 7 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (57 bp):
CCAGTCCTCAAAGAGCAGGATGCTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT
Found at i:1571046 original size:27 final size:27
Alignment explanation
Indices: 1571016--1571100 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
1571006 TTGGTGGCAT
1571016 TTTCCAATCCTCAAAGAGCAGGATGCC
1 TTTCCAATCCTCAAAGAGCAGGATGCC
* * ** *
1571043 TTTCAAAGCC-CACACA-AGTTGG-TGGCAT
1 TTTCCAATCCTCA-A-AGAGCAGGAT-GC-C
1571071 TTTCCAATCCTCAAAGAGCAGGATGCC
1 TTTCCAATCCTCAAAGAGCAGGATGCC
1571098 TTT
1 TTT
1571101 TAAAGCCCAC
Statistics
Matches: 41, Mismatches: 10, Indels: 14
0.63 0.15 0.22
Matches are distributed among these distances:
26 3 0.07
27 19 0.46
28 16 0.39
29 3 0.07
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (27 bp):
TTTCCAATCCTCAAAGAGCAGGATGCC
Found at i:1571620 original size:26 final size:26
Alignment explanation
Indices: 1571587--1571731 Score: 75
Period size: 26 Copynumber: 5.3 Consensus size: 26
1571577 AAGTTGGTGG
1571587 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCCCAAAGAGCAGGA
* **
1571613 CACCTTTCAAAG-CCCACATAAGTTGGTGG-
1 CACCTTTC--AGTCCC-CA-AAG-AGCAGGA
* *
1571642 CA-TTTTCCAGTCCTCAAAGAGCAGGA
1 CACCTTT-CAGTCCCCAAAGAGCAGGA
* * **
1571668 CACCTCTTAAAG-CCCACACAAGTTGGTGG-
1 CACCT-TT-CAGTCCC-CA-AAG-AGCAGGA
1571697 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCCCAAAGAGCAGGA
1571723 CACCTTTCA
1 CACCTTTCA
1571732 AAGCCCACAC
Statistics
Matches: 85, Mismatches: 19, Indels: 30
0.63 0.14 0.22
Matches are distributed among these distances:
25 6 0.07
26 25 0.29
27 14 0.16
28 20 0.24
29 14 0.16
30 6 0.07
ACGTcount: A:0.29, C:0.32, G:0.19, T:0.21
Consensus pattern (26 bp):
CACCTTTCAGTCCCCAAAGAGCAGGA
Found at i:1572550 original size:19 final size:19
Alignment explanation
Indices: 1572526--1572593 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
1572516 AATTCAACGA
*
1572526 TTTGTATTGATACATAAGT
1 TTTGTATCGATACATAAGT
1572545 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1572560 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1572577 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1572594 TTAGCTACTG
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 27 0.64
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1572564 original size:32 final size:32
Alignment explanation
Indices: 1572528--1572590 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
1572518 TTCAACGATT
* *
1572528 TGTATTGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1572560 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1572591 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1572565 original size:13 final size:13
Alignment explanation
Indices: 1572547--1572571 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1572537 ACATAAGTTT
1572547 TGTATCGATACAA
1 TGTATCGATACAA
1572560 TGTATCGATACA
1 TGTATCGATACA
1572572 TAAGTATTGT
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:1572656 original size:20 final size:20
Alignment explanation
Indices: 1572613--1572661 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
1572603 GCCAAGGAAA
***
1572613 TGTATCGATACATTTTTCTG
1 TGTATCGATACATGGATCTG
*
1572633 TGTATCGATACATGGATCTT
1 TGTATCGATACATGGATCTG
1572653 TGTATCGAT
1 TGTATCGAT
1572662 GCAGTTGGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.14, G:0.18, T:0.45
Consensus pattern (20 bp):
TGTATCGATACATGGATCTG
Found at i:1574578 original size:28 final size:26
Alignment explanation
Indices: 1574510--1574583 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 26
1574500 TCTTCACAAT
*
1574510 CGGGGGCACTCCAACCCCGTTAATCA
1 CGGGGGTACTCCAACCCCGTTAATCA
*
1574536 TCGGGGGTACTCCAACCCCGTTATTTC-
1 -CGGGGGTACTCCAACCCCGTTA-ATCA
1574563 CGAGGGGATACTCCAACCCCG
1 CG-GGGG-TACTCCAACCCCG
1574584 ACTTTATTTC
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
26 2 0.05
27 25 0.60
28 15 0.36
ACGTcount: A:0.20, C:0.36, G:0.24, T:0.19
Consensus pattern (26 bp):
CGGGGGTACTCCAACCCCGTTAATCA
Found at i:1574628 original size:51 final size:51
Alignment explanation
Indices: 1574566--1574735 Score: 180
Period size: 52 Copynumber: 3.3 Consensus size: 51
1574556 TTATTTCCGA
* *
1574566 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAATATTAATTTTTCATAATC
* * * * *
1574617 GGGGATACTCCAACCCCGGTTTTAATTT-CAAAACACTAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTT-ATTTCCAAAATATTAATTTTTC-ATAATC
* * * * *
1574669 GGGGATATTCCAACACCGATTTTATTTCCAAAAATATCAATTTTTCACAATT
1 GGGGATACTCCAACCCCGATTTTATTTCC-AAAATATTAATTTTTCATAATC
**
1574721 AAGGATACTCCAACC
1 GGGGATACTCCAACC
1574736 TCGTCAATTC
Statistics
Matches: 94, Mismatches: 21, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
51 38 0.40
52 44 0.47
53 12 0.13
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAATATTAATTTTTCATAATC
Found at i:1574674 original size:52 final size:51
Alignment explanation
Indices: 1574392--1574701 Score: 186
Period size: 51 Copynumber: 5.9 Consensus size: 51
1574382 TGAGTTTCTC
* * * * *
1574392 AATTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACT
1 AATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACT
* * *
1574443 AATTTTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACC
1 AATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCC--AAAACACT
* * ** * * *
1574496 AATTTCTTCACAATCGGGGGCACTCCAACCCCG-TTAATCATCGGGGGTACTCC-AACCCCGT
1 AATTT-TCCATAATCGGGGATACTCCAACCCCGATT--TTAT------T--TCCAAAACAC-T
* * * * *
1574557 TA-TTTCC--GA--GGGGATACTCCAACCCCGACTTTATTTCCAAAATATT
1 AATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACT
* * *
1574603 GATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTAATTT-CAAAACACT
1 AATTTTCCATAATCGGGGATACTCCAACCCCGATTTT-ATTTCCAAAACACT
* * *
1574654 AATTTTCCTTTAATCGGGGATATTCCAACACCGATTTTATTTCCAAAA
1 AATTTTCC-ATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAA
1574702 ATATCAATTT
Statistics
Matches: 195, Mismatches: 40, Indels: 47
0.69 0.14 0.17
Matches are distributed among these distances:
46 5 0.03
47 6 0.03
48 1 0.01
49 1 0.01
51 76 0.39
52 34 0.17
53 14 0.07
54 24 0.12
55 19 0.10
56 1 0.01
57 1 0.01
59 2 0.01
60 6 0.03
61 2 0.01
63 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (51 bp):
AATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACT
Found at i:1574777 original size:211 final size:211
Alignment explanation
Indices: 1574402--1574794 Score: 556
Period size: 211 Copynumber: 1.9 Consensus size: 211
1574392 AATTCTCCAC
* * *
1574402 AATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACTC
1 AATCGGGGATACTCCAACCCCGATTTTAATTTCAAAACACTAATTTTCTATAATCGGGGATACTC
* ** * *
1574467 CAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGGCACTCCAACCCCGTTA
66 CAACACCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCAAGGACACTCCAACCCCGTCA
* * * * *
1574532 ATCATCGGGGGTACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAA
131 ATCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCGACTTTATTTCCAA
1574597 AATATTGATTTTTCAT
196 AATATTGATTTTTCAT
* * *
1574613 AATCGGGGATACTCCAACCCCGGTTTTAATTTCAAAACACTAATTTTCCTTTAATCGGGGATATT
1 AATCGGGGATACTCCAACCCCGATTTTAATTTCAAAACACTAATTTT-CTATAATCGGGGATACT
* * * * *
1574678 CCAACACCGATTTTATTTCC-AAAAATATCAATTT-TTCACAATTAAGGATACTCCAACCTCGTC
65 CCAACACCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCAAGGACACTCCAACCCCGTC
*
1574741 AATTCATCAGGGATACTCCAACCTCGTTACTTCCGAGGGAACACTCCAACCCCG
130 AA-TCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCG
1574795 TTATTATCTC
Statistics
Matches: 158, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
210 24 0.15
211 100 0.63
212 34 0.22
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (211 bp):
AATCGGGGATACTCCAACCCCGATTTTAATTTCAAAACACTAATTTTCTATAATCGGGGATACTC
CAACACCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCAAGGACACTCCAACCCCGTCA
ATCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCGACTTTATTTCCAA
AATATTGATTTTTCAT
Found at i:1576619 original size:21 final size:21
Alignment explanation
Indices: 1576595--1576635 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1576585 ATTTATTTTA
1576595 AATCCTAAAAGATTTTTCATG
1 AATCCTAAAAGATTTTTCATG
* * *
1576616 AATCTTATAATATTTTTCAT
1 AATCCTAAAAGATTTTTCAT
1576636 TGAAAATATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (21 bp):
AATCCTAAAAGATTTTTCATG
Found at i:1578231 original size:28 final size:28
Alignment explanation
Indices: 1578150--1578231 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
1578140 TTTTGGAGAT
*
1578150 AATAACGAGGTTGGAGTGTTCCCTCG--GA
1 AATAACGAGGTTGGAGT-AT-CCTCGATGA
* * *
1578178 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGAGGTTGGAGTATCCTCGATGA
1578206 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGAGGTTGGAGTATCCTCGAT
1578232 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (28 bp):
AATAACGAGGTTGGAGTATCCTCGATGA
Found at i:1578374 original size:51 final size:51
Alignment explanation
Indices: 1578214--1578384 Score: 189
Period size: 51 Copynumber: 3.3 Consensus size: 51
1578204 GAAATAACGA
* * * *
1578214 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCAG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
1578266 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
1578319 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
1578370 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1578385 TCAGAAATAA
Statistics
Matches: 96, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
51 39 0.41
52 16 0.17
53 31 0.32
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:1578430 original size:27 final size:28
Alignment explanation
Indices: 1578367--1578442 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
1578357 AAAATAAAGT
*
1578367 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
1578395 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
1578422 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
1578443 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:1580937 original size:13 final size:13
Alignment explanation
Indices: 1580919--1580944 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1580909 ACAAAGATCC
1580919 ATGTATCGATACA
1 ATGTATCGATACA
1580932 ATGTATCGATACA
1 ATGTATCGATACA
1580945 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1580940 original size:33 final size:33
Alignment explanation
Indices: 1580898--1580964 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1580888 AAAATTTTCA
***
1580898 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1580931 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1580964 A
1 A
1580965 TTTCCTTGGC
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:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1581005 original size:13 final size:13
Alignment explanation
Indices: 1580987--1581011 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1580977 TAGCTAATTA
1580987 TGTATCGATACAT
1 TGTATCGATACAT
1581000 TGTATCGATACA
1 TGTATCGATACA
1581012 AAACTTATGT
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:1581926 original size:55 final size:55
Alignment explanation
Indices: 1581843--1582692 Score: 987
Period size: 55 Copynumber: 14.9 Consensus size: 55
1581833 ATAAAGTGTA
* * ** * **
1581843 TCCTGCTCATTGAGGAGTAAAAAATGCCACAAACACGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
1581898 TCCTACTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGCG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* **
1581953 TCCTGCTCTTTGAGGATTGGAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
*
1582008 TCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG--A----AAGGCG
* * *
1582069 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCG
* * *
1582130 TCCTGCTCTTTGGGGAC---AAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAA--TGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
1582184 TCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
**
1582239 TCCTGCTCTTTGAGGACTGGAGGATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCG
* *
1582300 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCG
* * * *
1582361 TCCTGCTCTTTGGGGAC--GAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
1582415 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
1582470 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
1582525 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
1582580 TCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCG
*
1582641 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
1582693 AAAAAGGCGT
Statistics
Matches: 714, Mismatches: 46, Indels: 65
0.87 0.06 0.08
Matches are distributed among these distances:
54 43 0.06
55 398 0.56
56 11 0.02
57 4 0.01
58 3 0.00
59 3 0.00
60 53 0.07
61 196 0.27
62 1 0.00
64 1 0.00
66 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:1582173 original size:231 final size:231
Alignment explanation
Indices: 1581892--1582687 Score: 1131
Period size: 231 Copynumber: 3.5 Consensus size: 231
1581882 TGGGCTTTGA
1581892 AAGGCGTCCTACTCTTTGAGGACTG-AAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCC
1 AAGGCGTCCTACTCTTTGAGGAC-GAAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCC
* ** *
1581956 TGCTCTTTGAGGATTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTTTGA
65 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGA
*
1582021 GGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGAAGGCGTCCTGCTCTTTGAGGAC
130 GGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG-GAAGGCGTCCTGCTCTTTGAGGAC
1582086 TGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAG
194 TGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAG
* * * * *
1582124 AAGGCATCCTGCTCTTTGGGGAC-AAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCT
1 AAGGCGTCCTACTCTTTGAGGACGAAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCT
*
1582188 ACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGA
66 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGA
** *
1582252 GGACTGGAGGATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGAC
130 GGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG-GAAGGCGTCCTGCTCTTTGAGGAC
1582317 TGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAG
194 TGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAG
* * * *
1582355 AAGGCGTCCTGCTCTTTGGGGACG-AAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCT
1 AAGGCGTCCTACTCTTTGAGGACGAAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCT
*
1582419 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTGCTCTTTGAG
66 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAG
*
1582484 GACTGGAAAATGCCACCAACTTGTGTGGGCTTTG--A--G-AGGTGTCCTGCTCTTTGAGGACTG
131 GACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGGAAGGCGTCCTGCTCTTTGAGGACTG
* *
1582544 GAAAATGCCACCAACTTGTGTGGGCTTT-----GA-
196 GGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAG
*
1582574 AAGGTGTCCTACTCTTTGAGGACTGGAAAA--TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAA
1 AAGGCGTCCTACTCTTTGAGGAC--GAAAAGGTGCCACCAACTTGTGTGGGCTTT---AAG---A
* * *
1582637 AGCATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
58 GGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
1582688 GAAAGAAAAA
Statistics
Matches: 519, Mismatches: 32, Indels: 32
0.89 0.05 0.05
Matches are distributed among these distances:
219 20 0.04
220 25 0.05
221 1 0.00
222 3 0.01
223 2 0.00
225 49 0.09
226 49 0.09
229 1 0.00
230 1 0.00
231 346 0.67
232 22 0.04
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.27
Consensus pattern (231 bp):
AAGGCGTCCTACTCTTTGAGGACGAAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCT
GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAG
GACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGGAAGGCGTCCTGCTCTTTGAGGACTG
GGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAG
Found at i:1582500 original size:341 final size:341
Alignment explanation
Indices: 1581863--1582717 Score: 1134
Period size: 341 Copynumber: 2.5 Consensus size: 341
1581853 TGAGGAGTAA
* ** * *
1581863 AAAATGCCACAAACACGTGTGGGCTTTGAAAGGCGTCCTACTCTTTGAGGACTGAAAGG-TGCCA
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTACTCTTTGAGGACTG-GAGGATGCCA
*
1581927 CCAACTTGTGTGGGCTTT---A-AG-AGGCGTCCTGCTCTTTGAGGA-TTGGAAGGTGCCACCAA
65 CCAACTTGTGTGGGCTTTAAAAGAGAAGGCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAA
*
1581986 CTTGTGTGGGCTTT--A-AG-AGGCGTCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTG
129 CTTGTGTGGGCTTTAAAGAGAAGGCGTCCTGCTCTTTGAGGA-TCGAAAATGCCACCAACTTGTG
* *
1582047 TGGGCTTTGAAAGGTGAAGGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGG
193 TGGGCTTTG-AA-G-GAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGG
*
1582112 CTTTAAAAGGAGAAGGCATCCTGCTCTTTGGGGACAAAAGGTGCCACCAACTTGTGTGGGCTTTG
255 CTTT---A-GAGAAGGCATCCTGCTCTTTGAGGACAAAA-GTGCCACCAACTTGTGTGGGCTTTG
1582177 AGAGGTGTCCTACTCTTTGAGGACTGG
315 AGAGGTGTCCTACTCTTTGAGGACTGG
*
1582204 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAGGATGCCAC
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTACTCTTTGAGGACTGGAGGATGCCAC
*
1582269 CAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAAC
66 CAACTTGTGTGGGCTTTAAAA-GAGAAGGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAAC
* *
1582334 TTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGGGGA-CGAAAGGTGCCACCAACTTGT
130 TTGTGTGGGCTTT-AAA-GAGAAGGCGTCCTGCTCTTTGAGGATCGAAA-ATGCCACCAACTTGT
*
1582398 GTGGGCTTTG-A-G-AGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCT
192 GTGGGCTTTGAAGGAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCT
**
1582460 TT-GAG-AGGTGTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAGAG
257 TTAGAGAAGGCATCCTGCTCTTTGAGGAC---AAAAGTGCCACCAACTTGTGTGGGCTTTGAGAG
*
1582522 GTGTCCTGCTCTTTGAGGACTGG
319 GTGTCCTACTCTTTGAGGACTGG
**
1582545 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTACTCTTTGAGGACTGGAAAATGCCAC
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTACTCTTTGAGGACTGGAGGATGCCAC
* * * * *
1582610 CAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTAGAAAATGCCACCAAC
66 CAACTTGTGTGGGCTTT-AAAAGAGAAGGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAAC
* * * *
1582675 TTGTGTGGGCTTTGAAAGAAAAAGGCGTCTTGCTTTTTCAGGA
130 TTGTGTGGGCTTT-AAAG-AGAAGGCGTCCTGCTCTTTGAGGA
1582718 CTGGGAAGGG
Statistics
Matches: 462, Mismatches: 32, Indels: 40
0.87 0.06 0.07
Matches are distributed among these distances:
340 23 0.05
341 276 0.60
342 4 0.01
343 4 0.01
344 1 0.00
346 51 0.11
347 46 0.10
348 5 0.01
350 2 0.00
351 4 0.01
352 26 0.06
353 20 0.04
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (341 bp):
AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTACTCTTTGAGGACTGGAGGATGCCAC
CAACTTGTGTGGGCTTTAAAAGAGAAGGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACT
TGTGTGGGCTTTAAAGAGAAGGCGTCCTGCTCTTTGAGGATCGAAAATGCCACCAACTTGTGTGG
GCTTTGAAGGAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAG
AGAAGGCATCCTGCTCTTTGAGGACAAAAGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCT
ACTCTTTGAGGACTGG
Found at i:1588900 original size:28 final size:27
Alignment explanation
Indices: 1588819--1588900 Score: 94
Period size: 28 Copynumber: 3.0 Consensus size: 27
1588809 TTTTGGAGAT
*
1588819 AATAACGAGGTTGGAGTGTTCCCTCGA-A
1 AATAACGAGGTTGGAGT-AT-CCTCGATA
* * *
1588847 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGAGGTTGGAGTATCCTCGAT-A
1588875 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGAGGTTGGAGTATCCTCGAT
1588901 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 5 0.11
27 1 0.02
28 39 0.87
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.24
Consensus pattern (27 bp):
AATAACGAGGTTGGAGTATCCTCGATA
Found at i:1589043 original size:51 final size:51
Alignment explanation
Indices: 1588883--1589053 Score: 189
Period size: 51 Copynumber: 3.3 Consensus size: 51
1588873 GAAATAACGA
* * * *
1588883 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCAG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
1588935 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
1588988 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
1589039 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1589054 TCAGAAATAA
Statistics
Matches: 96, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
51 39 0.41
52 16 0.17
53 31 0.32
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:1589099 original size:27 final size:28
Alignment explanation
Indices: 1589036--1589111 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
1589026 AAAATAAAGT
*
1589036 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
1589064 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
1589091 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
1589112 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:1591607 original size:13 final size:13
Alignment explanation
Indices: 1591589--1591614 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1591579 ACAAAGATCC
1591589 ATGTATCGATACA
1 ATGTATCGATACA
1591602 ATGTATCGATACA
1 ATGTATCGATACA
1591615 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1591610 original size:33 final size:33
Alignment explanation
Indices: 1591568--1591634 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1591558 AAAATTTCCA
***
1591568 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1591601 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1591634 A
1 A
1591635 TTTCCTTGGC
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:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1591675 original size:13 final size:13
Alignment explanation
Indices: 1591657--1591681 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1591647 TAGCTAATTA
1591657 TGTATCGATACAT
1 TGTATCGATACAT
1591670 TGTATCGATACA
1 TGTATCGATACA
1591682 AAACTTATGT
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:1593256 original size:20 final size:20
Alignment explanation
Indices: 1593231--1593420 Score: 93
Period size: 20 Copynumber: 9.8 Consensus size: 20
1593221 TTTTCACAAT
1593231 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
*
1593251 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
* *
1593271 TTGCATCGAGACATTG-T-A
1 TTGTATCGATACATTGTTCA
* * *
1593289 TCG-ATAC-ATTC-TGGGTTTACCCA
1 TTGTAT-CGATACAT-TG-TT---CA
*
1593312 GATGTATCGATACATT-TTGCA
1 -TTGTATCGATACATTGTT-CA
* *
1593333 TTGTATCGAAACATTGCTCA
1 TTGTATCGATACATTGTTCA
1593353 TTGTATCGATACA----TC-
1 TTGTATCGATACATTGTTCA
**
1593368 --GTATCGATACATTACTCA
1 TTGTATCGATACATTGTTCA
1593386 TTGTATCGATACATT-TTACA
1 TTGTATCGATACATTGTT-CA
*
1593406 ATGTATCGATACATT
1 TTGTATCGATACATT
1593421 CAGGCATTTT
Statistics
Matches: 131, Mismatches: 18, Indels: 42
0.69 0.09 0.22
Matches are distributed among these distances:
13 11 0.08
16 3 0.02
17 7 0.05
18 4 0.03
19 3 0.02
20 89 0.68
21 3 0.02
23 3 0.02
24 2 0.02
25 5 0.04
26 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.38
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Done.