Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 24 of 196
Found at i:6904392 original size:33 final size:31
Alignment explanation
Indices: 6904337--6904400 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 31
6904327 GAAATTTAAT
*
6904337 TTTTAATTTTATTTTATTTTATTTTTGTAAA
1 TTTTAATTTTATCTTATTTTATTTTTGTAAA
6904368 TTTTAATTTTTAATCTTATTTTATTTTTGTAAA
1 TTTTAA-TTTT-ATCTTATTTTATTTTTGTAAA
6904401 CTTAAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 6 0.20
32 4 0.13
33 20 0.67
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.69
Consensus pattern (31 bp):
TTTTAATTTTATCTTATTTTATTTTTGTAAA
Found at i:6905887 original size:5 final size:5
Alignment explanation
Indices: 6905877--6905902 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
6905867 TGAGCATTCG
6905877 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
6905903 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:6906713 original size:31 final size:31
Alignment explanation
Indices: 6906656--6906715 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
6906646 AGAGGTGGGA
*
6906656 TGGGAAGGGAATAAAAGTTTTAGGGAAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGAAAAAG
* * *
6906687 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGAAAAA
6906716 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGAAAAAG
Found at i:6909546 original size:42 final size:43
Alignment explanation
Indices: 6909437--6909594 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 43
6909427 AGCTCGTACA
* * **
6909437 ACGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATAACG
1 ACGCCAATGTCCCAGACATGGTCTTACACATAATCAAATAACG
* * * * *
6909480 ATGCCACTGTCCTAGACAGGGTCTTACACATAATCATAT-ACG
1 ACGCCAATGTCCCAGACATGGTCTTACACATAATCAAATAACG
* *
6909522 ACGCCAATGTCCCAAACATGGTCTTACACGTAAATCTCAAAT--CG
1 ACGCCAATGTCCCAGACATGGTCTTACACAT-AA--TCAAATAACG
* *
6909566 ATGCCAACT-TCCCAGACGTGGTCTTACAC
1 ACGCCAA-TGTCCCAGACATGGTCTTACAC
6909595 GATATCACAT
Statistics
Matches: 92, Mismatches: 19, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
42 28 0.30
43 32 0.35
44 26 0.28
45 6 0.07
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.23
Consensus pattern (43 bp):
ACGCCAATGTCCCAGACATGGTCTTACACATAATCAAATAACG
Found at i:6911935 original size:19 final size:20
Alignment explanation
Indices: 6911887--6911935 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
6911877 CACACAGAAG
6911887 CGGTGTTGCAACATCTGAAT
1 CGGTGTTGCAACATCTGAAT
**
6911907 CTTATGTTGCAACATCT-AAT
1 C-GGTGTTGCAACATCTGAAT
6911927 CGGTGTTGC
1 CGGTGTTGC
6911936 GGCATTCGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 6 0.25
20 5 0.21
21 13 0.54
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (20 bp):
CGGTGTTGCAACATCTGAAT
Found at i:6914502 original size:37 final size:37
Alignment explanation
Indices: 6914454--6914533 Score: 124
Period size: 37 Copynumber: 2.2 Consensus size: 37
6914444 GTTTGTGCAC
* *
6914454 AACACTCATCAGTATAACTGAAGTAAAATGTGTGCCT
1 AACACTAATCAGTATAACTAAAGTAAAATGTGTGCCT
* *
6914491 AGCACTAATCAGTATAACTAAAGTAAAATGTGTGTCT
1 AACACTAATCAGTATAACTAAAGTAAAATGTGTGCCT
6914528 AACACT
1 AACACT
6914534 CATCGAAACA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (37 bp):
AACACTAATCAGTATAACTAAAGTAAAATGTGTGCCT
Found at i:6918669 original size:5 final size:5
Alignment explanation
Indices: 6918659--6918686 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
6918649 GCAAAACACA
6918659 ATCAT ATCAT ATCAT ATCAT ATCAT ATC
1 ATCAT ATCAT ATCAT ATCAT ATCAT ATC
6918687 TCACAGGCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (5 bp):
ATCAT
Found at i:6923619 original size:30 final size:30
Alignment explanation
Indices: 6923584--6923647 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
6923574 CAAAACAGGT
* *
6923584 TGAGAAGATTGTAGGGTTGACGAAGGTGCA
1 TGAGAAGATTGGACGGTTGACGAAGGTGCA
* *
6923614 TGAGAAGATTGGACTGTTGATGAAGGTGCA
1 TGAGAAGATTGGACGGTTGACGAAGGTGCA
6923644 TGAG
1 TGAG
6923648 CTGTCAAAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.06, G:0.39, T:0.25
Consensus pattern (30 bp):
TGAGAAGATTGGACGGTTGACGAAGGTGCA
Found at i:6930354 original size:5 final size:6
Alignment explanation
Indices: 6930336--6930361 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6930326 AAGCTTTCGC
6930336 AATAAA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AA
6930362 GCTTTTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:6930752 original size:25 final size:25
Alignment explanation
Indices: 6930724--6930789 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 25
6930714 ACTGTCCTTT
* *
6930724 ATAGTATATCCTGAAACTGCTATAG
1 ATAGTATATACTGAAACTACTATAG
*
6930749 ATAGTATATACTGAGACTACTATAG
1 ATAGTATATACTGAAACTACTATAG
6930774 ATAG-ACTATACTGAAA
1 ATAGTA-TATACTGAAA
6930790 ACACTTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
24 1 0.03
25 35 0.97
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (25 bp):
ATAGTATATACTGAAACTACTATAG
Found at i:6933191 original size:18 final size:17
Alignment explanation
Indices: 6933165--6933212 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
6933155 AATAAAAATA
6933165 AACGTTTTGAAATTGAAT
1 AACGTTTTGAAA-TGAAT
*
6933183 AACGATTTGTAAATGAAT
1 AACGTTTTG-AAATGAAT
*
6933201 AATGTTTTGAAA
1 AACGTTTTGAAA
6933213 ACGAACGACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.42, C:0.04, G:0.17, T:0.38
Consensus pattern (17 bp):
AACGTTTTGAAATGAAT
Found at i:6938450 original size:45 final size:44
Alignment explanation
Indices: 6938399--6938535 Score: 186
Period size: 45 Copynumber: 3.0 Consensus size: 44
6938389 ATGATACTCG
* *
6938399 GTGGAATCAGCACATAGAAACCACCTTCATAATCAATAGTACCCA
1 GTGGAATCAGCACACAGAAACCACCTTTATAATCAAT-GTACCCA
* *
6938444 GTGGAATCAGCACACAGCAACCACCTTTATAATCAATGATACCCG
1 GTGGAATCAGCACACAGAAACCACCTTTATAATCAATG-TACCCA
*
6938489 GTGGAATCAGCACACA-ACAACCACCTTTATAATTAATGGTACCCA
1 GTGGAATCAGCACACAGA-AACCACCTTTATAATCAAT-GTACCCA
6938534 GT
1 GT
6938536 ACACGTAGTA
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
44 1 0.01
45 80 0.98
46 1 0.01
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.21
Consensus pattern (44 bp):
GTGGAATCAGCACACAGAAACCACCTTTATAATCAATGTACCCA
Found at i:6938491 original size:90 final size:88
Alignment explanation
Indices: 6938356--6938535 Score: 238
Period size: 90 Copynumber: 2.0 Consensus size: 88
6938346 CAGATACACG
* * * * *
6938356 GTGGATCAGCACATAGCACCACTCTTATAGTTAATGATACTCGGTGGAATCAGCACATAGA-AAC
1 GTGGATCAGCACACAGCACCACTCTTATAATCAATGATACCCGGTGGAATCAGCACACA-ACAAC
6938420 CACCTTCATAATCAATAGTACCCA
65 CACCTTCATAATCAATAGTACCCA
6938444 GTGGAATCAGCACACAGCAACCAC-CTTTATAATCAATGATACCCGGTGGAATCAGCACACAACA
1 GTGG-ATCAGCACACAGC-ACCACTC-TTATAATCAATGATACCCGGTGGAATCAGCACACAACA
* * *
6938508 ACCACCTTTATAATTAATGGTACCCA
63 ACCACCTTCATAATCAATAGTACCCA
6938534 GT
1 GT
6938536 ACACGTAGTA
Statistics
Matches: 80, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
88 4 0.05
89 14 0.17
90 62 0.77
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.23
Consensus pattern (88 bp):
GTGGATCAGCACACAGCACCACTCTTATAATCAATGATACCCGGTGGAATCAGCACACAACAACC
ACCTTCATAATCAATAGTACCCA
Found at i:6944396 original size:39 final size:39
Alignment explanation
Indices: 6944342--6944518 Score: 255
Period size: 39 Copynumber: 4.5 Consensus size: 39
6944332 AACATGTTTT
* *
6944342 TGAGTATTGTAATATATGCTTGAATGATATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* *
6944381 TGAGTATTATGATATATGCTTGAATGCTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
*
6944420 TGAGTATTGTGATATATGCTTGAATGTTTTGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
** * *
6944459 TTTGTATTGTGATATATACTTGAATGTTGTGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* *
6944498 TGTGTAATGTGATATATGCTT
1 TGAGTATTGTGATATATGCTT
6944519 TAAAGTGAAT
Statistics
Matches: 125, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 125 1.00
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.47
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
Found at i:6944533 original size:23 final size:23
Alignment explanation
Indices: 6944503--6944556 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
6944493 TTATATGTGT
*
6944503 AATGTGATATATGCTTTAAAGTG
1 AATGTGATATATGCTTAAAAGTG
6944526 AATGTGATATATGCTTAAAAGTG
1 AATGTGATATATGCTTAAAAGTG
6944549 AATGTGAT
1 AATGTGAT
6944557 TATAATATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (23 bp):
AATGTGATATATGCTTAAAAGTG
Found at i:6944537 original size:39 final size:40
Alignment explanation
Indices: 6944342--6944538 Score: 167
Period size: 39 Copynumber: 5.0 Consensus size: 40
6944332 AACATGTTTT
* *
6944342 TGAGTATTGTAATATATGC-TTGAA-TGATATGTGATTATA
1 TGAGTATTGTGATATATGCTTTAAAGTGA-ATGTGATTATA
* * *
6944381 TGAGTATTATGATATATGC-TTGAA-TGCTATGTGATTATA
1 TGAGTATTGTGATATATGCTTTAAAGTG-AATGTGATTATA
* * **
6944420 TGAGTATTGTGATATATGCTTGAATGT-TTTGTGATTATA
1 TGAGTATTGTGATATATGCTTTAAAGTGAATGTGATTATA
** * * *
6944459 TTTGTATTGTGATATATACTTGAATGTTG--TGTGATTATA
1 TGAGTATTGTGATATATGCTTTAAAG-TGAATGTGATTATA
* *
6944498 TGTGTAATGTGATATATGCTTTAAAGTGAATGTGA-TATA
1 TGAGTATTGTGATATATGCTTTAAAGTGAATGTGATTATA
6944537 TG
1 TG
6944539 CTTAAAAGTG
Statistics
Matches: 135, Mismatches: 16, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 124 0.92
40 8 0.06
41 1 0.01
ACGTcount: A:0.29, C:0.03, G:0.22, T:0.46
Consensus pattern (40 bp):
TGAGTATTGTGATATATGCTTTAAAGTGAATGTGATTATA
Found at i:6944537 original size:78 final size:79
Alignment explanation
Indices: 6944342--6944538 Score: 222
Period size: 78 Copynumber: 2.5 Consensus size: 79
6944332 AACATGTTTT
* * * *
6944342 TGAGTATTGTAATATATGC-TTGAA-TGATATGTGATTATATGAGTATTATGATATATGCTTGAA
1 TGAGTAATGTGATATATGCTTTAAAGTGA-ATGTGATTATATGAGTATTATGATATATACTTGAA
6944405 TGCTATGTGATTATA
65 TGCTATGTGATTATA
* * * ** ** *
6944420 TGAGTATTGTGATATATGCTTGAATGT-TTTGTGATTATATTTGTATTGTGATATATACTTGAAT
1 TGAGTAATGTGATATATGCTTTAAAGTGAATGTGATTATATGAGTATTATGATATATACTTGAAT
* *
6944484 GTTGTGTGATTATA
66 GCTATGTGATTATA
*
6944498 TGTGTAATGTGATATATGCTTTAAAGTGAATGTGA-TATATG
1 TGAGTAATGTGATATATGCTTTAAAGTGAATGTGATTATATG
6944539 CTTAAAAGTG
Statistics
Matches: 97, Mismatches: 19, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
78 89 0.92
79 7 0.07
80 1 0.01
ACGTcount: A:0.29, C:0.03, G:0.22, T:0.46
Consensus pattern (79 bp):
TGAGTAATGTGATATATGCTTTAAAGTGAATGTGATTATATGAGTATTATGATATATACTTGAAT
GCTATGTGATTATA
Found at i:6946707 original size:3 final size:3
Alignment explanation
Indices: 6946699--6946725 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
6946689 TGAGCTATAG
6946699 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
6946726 CATAACCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:6947973 original size:18 final size:18
Alignment explanation
Indices: 6947950--6947988 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
6947940 CTATTTTTAG
6947950 AAATTG-AATATACTATTT
1 AAATTGAAATATA-TATTT
6947968 AAATTGAAATATATATTT
1 AAATTGAAATATATATTT
6947986 AAA
1 AAA
6947989 AATAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (18 bp):
AAATTGAAATATATATTT
Found at i:6949484 original size:6 final size:5
Alignment explanation
Indices: 6949456--6949486 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
6949446 ATCCAAGTCC
6949456 AAGCA AAGCA AAGCA AAGCA AAGGCA AAGCA
1 AAGCA AAGCA AAGCA AAGCA AA-GCA AAGCA
6949487 TGGCGGCGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.58, C:0.19, G:0.23, T:0.00
Consensus pattern (5 bp):
AAGCA
Found at i:6953001 original size:93 final size:93
Alignment explanation
Indices: 6952842--6953012 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
6952832 GCTTCTTGTG
* ** * *
6952842 TGAATGTTGATGATGAGAAGACTCCTGTTGCATCTCCAACAGGTTCATCTGCTGAAAGGAAGTTA
1 TGAATCTTGATGATGAGAAGAAGCCAGTTGCATCTCCAACAGGTTCATCAGCTGAAAGGAAGTTA
6952907 ACTCCTGTAGCTGATGGTTCATCATGTA
66 ACTCCTGTAGCTGATGGTTCATCATGTA
6952935 TGAATCTTGATGATG-GAATGAAGCCAGTTGCATCTCCAACAGGTTCATCAGCTGAAAGGAAGTT
1 TGAATCTTGATGATGAGAA-GAAGCCAGTTGCATCTCCAACAGGTTCATCAGCTGAAAGGAAGTT
6952999 AACTCCTGTAGCTG
65 AACTCCTGTAGCTG
6953013 GTGAGGTTTT
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 3 0.04
93 69 0.96
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (93 bp):
TGAATCTTGATGATGAGAAGAAGCCAGTTGCATCTCCAACAGGTTCATCAGCTGAAAGGAAGTTA
ACTCCTGTAGCTGATGGTTCATCATGTA
Found at i:6969404 original size:28 final size:28
Alignment explanation
Indices: 6969373--6969431 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
6969363 TACTTAAGAG
*
6969373 TATCTTACGTGGAAAGTCCGCTAAGGAC
1 TATCGTACGTGGAAAGTCCGCTAAGGAC
* *
6969401 TATCGTATGTGGAATGTCCGCTAAGGAC
1 TATCGTACGTGGAAAGTCCGCTAAGGAC
6969429 TAT
1 TAT
6969432 TTGTTCTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (28 bp):
TATCGTACGTGGAAAGTCCGCTAAGGAC
Found at i:6969447 original size:28 final size:28
Alignment explanation
Indices: 6969382--6969449 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
6969372 GTATCTTACG
*
6969382 TGGAAAGTCCGCTAAGGACTATCGTATG
1 TGGAAAGTCCGCTAAGGACTATCGTATC
* *
6969410 TGGAATGTCCGCTAAGGACTATTTGT-TC
1 TGGAAAGTCCGCTAAGGACTA-TCGTATC
*
6969438 TGTAAAGTCCGC
1 TGGAAAGTCCGC
6969450 CAGGAGCTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 31 0.91
29 3 0.09
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (28 bp):
TGGAAAGTCCGCTAAGGACTATCGTATC
Found at i:6969636 original size:15 final size:15
Alignment explanation
Indices: 6969616--6969646 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6969606 GTTATGTAAG
6969616 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
*
6969631 TGAAAGGTTAAGAGT
1 TGAAAGGTCAAGAGT
6969646 T
1 T
6969647 ATGTTGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.32, T:0.26
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:6971550 original size:21 final size:21
Alignment explanation
Indices: 6971526--6971566 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6971516 AAATCCCCCC
6971526 AAGAAAAAAACAAGAAAAATG
1 AAGAAAAAAACAAGAAAAATG
* **
6971547 AAGAAGAAAGGAAGAAAAAT
1 AAGAAAAAAACAAGAAAAAT
6971567 CCCAACAAAA
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:0.73, C:0.02, G:0.20, T:0.05
Consensus pattern (21 bp):
AAGAAAAAAACAAGAAAAATG
Found at i:6973179 original size:8 final size:8
Alignment explanation
Indices: 6973130--6973203 Score: 53
Period size: 8 Copynumber: 9.1 Consensus size: 8
6973120 AAAAAGATAT
6973130 TAAAAA-A
1 TAAAAATA
*
6973137 TAAATATA
1 TAAAAATA
*
6973145 TATAAATA
1 TAAAAATA
**
6973153 TAAAACCA
1 TAAAAATA
6973161 TAATAAA-A
1 TAA-AAATA
6973169 TAAAAATA
1 TAAAAATA
6973177 TAAAAATAA
1 TAAAAAT-A
*
6973186 CAAAAATTA
1 TAAAAA-TA
*
6973195 TGAAAATA
1 TAAAAATA
6973203 T
1 T
6973204 TTTATCATTT
Statistics
Matches: 52, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
7 8 0.15
8 30 0.58
9 13 0.25
10 1 0.02
ACGTcount: A:0.69, C:0.04, G:0.01, T:0.26
Consensus pattern (8 bp):
TAAAAATA
Found at i:6973179 original size:16 final size:16
Alignment explanation
Indices: 6973119--6973179 Score: 52
Period size: 16 Copynumber: 3.7 Consensus size: 16
6973109 ATAAAAATCC
* *
6973119 TAAAAAGATATTAAAA
1 TAAAAATATAATAAAA
6973135 -AATAAATATATATAAATA
1 TAA-AAATATA-ATAAA-A
**
6973153 TAAAACCATAATAAAA
1 TAAAAATATAATAAAA
6973169 TAAAAATATAA
1 TAAAAATATAA
6973180 AAATAACAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
15 2 0.06
16 16 0.46
17 9 0.26
18 6 0.17
19 2 0.06
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (16 bp):
TAAAAATATAATAAAA
Found at i:6974430 original size:16 final size:16
Alignment explanation
Indices: 6974409--6974441 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6974399 TTCTAAATTT
6974409 ATAAAAATATATAAAA
1 ATAAAAATATATAAAA
6974425 ATAAAAATATATAAAA
1 ATAAAAATATATAAAA
6974441 A
1 A
6974442 AACCTATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
ATAAAAATATATAAAA
Found at i:6977883 original size:19 final size:19
Alignment explanation
Indices: 6977859--6977897 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
6977849 GCCTTTATGG
6977859 TTGTTATAAATAAA-AAAAA
1 TTGTTATAAA-AAATAAAAA
6977878 TTGTTATAAAAAATAAAAA
1 TTGTTATAAAAAATAAAAA
6977897 T
1 T
6977898 AAAATGTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
TTGTTATAAAAAATAAAAA
Found at i:6980498 original size:3 final size:3
Alignment explanation
Indices: 6980490--6980554 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
6980480 CAAAGTGCAA
6980490 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
6980538 AAA AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AA
6980555 AATTAACAGT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6983832 original size:16 final size:18
Alignment explanation
Indices: 6983795--6983832 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
6983785 AATGACTTGG
6983795 AAATGAAATTATGTATTTC
1 AAATGAAATTA-GTATTTC
6983814 AAATGAAATTA-TA-TTC
1 AAATGAAATTAGTATTTC
6983830 AAA
1 AAA
6983833 AATAGAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
17 2 0.11
19 11 0.58
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (18 bp):
AAATGAAATTAGTATTTC
Found at i:6990538 original size:15 final size:16
Alignment explanation
Indices: 6990507--6990537 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6990497 AAATTACATT
6990507 TTAAAAAAAATTAAAA
1 TTAAAAAAAATTAAAA
*
6990523 TTAAAAAATATTAAA
1 TTAAAAAAAATTAAA
6990538 TCCTGACATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
TTAAAAAAAATTAAAA
Found at i:6990668 original size:22 final size:23
Alignment explanation
Indices: 6990627--6990685 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
6990617 ATGATTTAAC
* *
6990627 AAAAAAATATAAATTCAAAGATT
1 AAAAAAATATAAATTAAAAGACT
*
6990650 AAAAAAATTTAAA-TAAAAGACT
1 AAAAAAATATAAATTAAAAGACT
*
6990672 -AAAATATATAAATT
1 AAAAAAATATAAATT
6990686 TGGAAGACCA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 10 0.33
22 8 0.27
23 12 0.40
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.27
Consensus pattern (23 bp):
AAAAAAATATAAATTAAAAGACT
Found at i:6992974 original size:17 final size:17
Alignment explanation
Indices: 6992948--6992986 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
6992938 TCATATTTGA
*
6992948 TTTTTTTAAA-TTTAAT
1 TTTTTTTAAAGTTAAAT
6992964 TTTTATTTAAAGTTAAAT
1 TTTT-TTTAAAGTTAAAT
6992982 TTTTT
1 TTTTT
6992987 AACAATGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTTTTTAAAGTTAAAT
Found at i:6993061 original size:15 final size:16
Alignment explanation
Indices: 6993041--6993070 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6993031 ATTTTTTAAC
6993041 ATATT-AAAAATATTT
1 ATATTAAAAAATATTT
6993056 ATATTAAAAAATATT
1 ATATTAAAAAATATT
6993071 ACCATAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATTAAAAAATATTT
Found at i:6996351 original size:15 final size:14
Alignment explanation
Indices: 6996331--6996363 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
6996321 TGTTTTGATC
6996331 AAAAGAAATGAAATG
1 AAAAGAAATGAAA-G
6996346 AAAAGAAATGAAAG
1 AAAAGAAATGAAAG
6996360 AAAA
1 AAAA
6996364 AAGAAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.09
Consensus pattern (14 bp):
AAAAGAAATGAAAG
Found at i:6996364 original size:15 final size:16
Alignment explanation
Indices: 6996331--6996369 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
6996321 TGTTTTGATC
6996331 AAAAGAAATGAAATG-
1 AAAAGAAATGAAATGA
6996346 AAAAGAAATGAAA-GAA
1 AAAAGAAATGAAATG-A
6996362 AAAAGAAA
1 AAAAGAAA
6996370 AAGAGAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.05
15 13 0.59
16 8 0.36
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (16 bp):
AAAAGAAATGAAATGA
Found at i:7000320 original size:3 final size:3
Alignment explanation
Indices: 7000314--7000378 Score: 55
Period size: 3 Copynumber: 21.3 Consensus size: 3
7000304 ATTTCATTAT
* *
7000314 TAA TAA TAA TAA TAAA TAA TAA TGA TATA CAA GTAA TAA T-A TAA T-A
1 TAA TAA TAA TAA T-AA TAA TAA TAA TA-A TAA -TAA TAA TAA TAA TAA
7000360 TAA T-A TAA TAA TAAA TAA T
1 TAA TAA TAA TAA T-AA TAA T
7000379 TAAATAGTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
2 6 0.12
3 35 0.69
4 10 0.20
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:7000333 original size:10 final size:11
Alignment explanation
Indices: 7000314--7000378 Score: 64
Period size: 10 Copynumber: 5.8 Consensus size: 11
7000304 ATTTCATTAT
7000314 TAATAATAATAA
1 TAAT-ATAATAA
7000326 TAA-ATAATAA
1 TAATATAATAA
*
7000336 TGATATACAAGTAA
1 T-A-ATATAA-TAA
7000350 TAATATAAT-A
1 TAATATAATAA
7000360 TAATATAATAA
1 TAATATAATAA
7000371 TAA-ATAAT
1 TAATATAAT
7000379 TAAATAGTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
10 23 0.50
11 6 0.13
12 9 0.20
13 4 0.09
14 4 0.09
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.34
Consensus pattern (11 bp):
TAATATAATAA
Found at i:7000382 original size:8 final size:7
Alignment explanation
Indices: 7000315--7000389 Score: 50
Period size: 7 Copynumber: 10.3 Consensus size: 7
7000305 TTTCATTATT
7000315 AATAAT-
1 AATAATA
7000321 AATAATA
1 AATAATA
7000328 AATAAT-
1 AATAATA
7000334 AATGATATA
1 AAT-A-ATA
7000343 CAAGTAAT-
1 -AA-TAATA
7000351 AAT-ATA
1 AATAATA
7000357 ATATAATA
1 A-ATAATA
7000365 TAATAATA
1 -AATAATA
7000373 AATAATTA
1 AATAA-TA
*
7000381 AATAGTA
1 AATAATA
7000388 AA
1 AA
7000390 ATAGTTCAAA
Statistics
Matches: 57, Mismatches: 1, Indels: 21
0.72 0.01 0.27
Matches are distributed among these distances:
5 2 0.04
6 11 0.19
7 20 0.35
8 17 0.30
9 3 0.05
10 3 0.05
11 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (7 bp):
AATAATA
Found at i:7002225 original size:44 final size:44
Alignment explanation
Indices: 7002103--7002409 Score: 292
Period size: 44 Copynumber: 6.9 Consensus size: 44
7002093 TTTGATCTTT
* * *
7002103 TTCACGCCAATACATGAAGACGAGATCTATTTCCTTCGATCTAC
1 TTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTAC
* * * *** *
7002147 TCCACCACCAGTATGGGAAGACAAGATCTG-TTTCTTTGATCTAC
1 TTCA-CGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTAC
* * * *
7002191 TTCACGCCAGTACATGAAGATAAGATTTGTTTTCTTCGATCAAC
1 TTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTAC
* *** * * *
7002235 TTCACCACCAATATGGGAAGACAAGATCTATTATCTTTGATCTAC
1 TTCA-CGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTAC
* * *
7002280 TTCACGCTAATACATGAAGATAAGATCTTTTTTCTTCGATCTAC
1 TTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTAC
* *** * *
7002324 TTCACCACCAATATGGGAAGACAAGATCTGTTATCTTTGATCTAC
1 TTCA-CGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTAC
* *
7002369 TTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATC
1 TTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATC
7002410 GATTCCACTA
Statistics
Matches: 203, Mismatches: 56, Indels: 8
0.76 0.21 0.03
Matches are distributed among these distances:
43 19 0.09
44 98 0.48
45 86 0.42
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (44 bp):
TTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTAC
Found at i:7002423 original size:89 final size:89
Alignment explanation
Indices: 7001957--7002409 Score: 547
Period size: 89 Copynumber: 5.1 Consensus size: 89
7001947 AAGACTTGTA
** * *
7001957 TCTTCGATCTACTTCACCACCCGTATGGGAAGACAAGATCTGCTT-TCTTCGATCTACTTCACCA
1 TCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTG-TTATCTTTGATCTACTTCA-CG
*
7002021 CCAGT--ATGGATAGATAAGATCTG-TA
64 CCAGTACAT-GA-AGATAAGATCTGTTT
* * * * * * * * * * **
7002046 TATTCGATCCACTTCGCTACCGATATAGGAAGGCAGGACCTATTATCTTTGATCTTTTTCACGCC
1 TCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
* ** *
7002111 AATACATGAAGACGAGATCTATTT
66 AGTACATGAAGATAAGATCTGTTT
* * *
7002135 CCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTGTT-TCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
*
7002199 AGTACATGAAGATAAGATTTGTTT
66 AGTACATGAAGATAAGATCTGTTT
* * *
7002223 TCTTCGATCAACTTCACCACCAATATGGGAAGACAAGATCTATTATCTTTGATCTACTTCACGCT
1 TCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
* *
7002288 AATACATGAAGATAAGATCTTTTT
66 AGTACATGAAGATAAGATCTGTTT
7002312 TCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
* *
7002377 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGATAAGATCTGTTT
7002401 TCTTCGATC
1 TCTTCGATC
7002410 GATTCCACTA
Statistics
Matches: 303, Mismatches: 56, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
88 92 0.30
89 209 0.69
90 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (89 bp):
TCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
AGTACATGAAGATAAGATCTGTTT
Found at i:7002495 original size:177 final size:177
Alignment explanation
Indices: 7002136--7002505 Score: 399
Period size: 177 Copynumber: 2.1 Consensus size: 177
7002126 GATCTATTTC
*
7002136 CTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTGTTTCTTTGATCTACTTCACGCCAG
1 CTTCGATCTACTCCACCACCAATATGGGAAGACAAGATCTGTTTCTTTGATCTACTTCACGCCAG
* * * * *
7002201 TACATGAAGATAAGATTTGTTTTCTTCGATCAACTTCACCACCAATATGGGAAGACAAGATCTAT
66 TACATGAAGACAAGATCTGCTTTCTTCGATCAACTTCACCACCAATACGGGAAGACAAGATCTAC
* ** * * * * *****
7002266 TATCTTTGATCTACTTCACGCTAATACATGAAGATAAGATCTTTTTT
131 TAGCTTCAATATACTCCACGCTAATACAGGAAGATAAAATCCGCCAT
*
7002313 CTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCA
1 CTTCGATCTACTCCACCACCAATATGGGAAGACAAGATCTGTT-TCTTTGATCTACTTCACGCCA
* * * * *
7002378 GTACATGAAGACAAGATCTGCTTTCTTCGATCGA-TTCCACTACCAA-CCGGGGAGA-TAGAAT-
65 GTACATGAAGACAAGATCTGCTTTCTTCGATCAACTT-CACCACCAATACGGGAAGACAAG-ATC
* * * *
7002439 TACTGGCTTCAATATACTCCACTGC-AACTTCAGGGAGGTAAAATCCGCCAT
128 TACTAGCTTCAATATACTCCAC-GCTAA-TACAGGAAGATAAAATCCGCCAT
*
7002490 CTTCGATCTGCTCCAC
1 CTTCGATCTACTCCAC
7002506 TACTGCTTGG
Statistics
Matches: 158, Mismatches: 30, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
176 19 0.12
177 80 0.51
178 59 0.37
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (177 bp):
CTTCGATCTACTCCACCACCAATATGGGAAGACAAGATCTGTTTCTTTGATCTACTTCACGCCAG
TACATGAAGACAAGATCTGCTTTCTTCGATCAACTTCACCACCAATACGGGAAGACAAGATCTAC
TAGCTTCAATATACTCCACGCTAATACAGGAAGATAAAATCCGCCAT
Found at i:7002741 original size:132 final size:132
Alignment explanation
Indices: 7002427--7003690 Score: 1778
Period size: 132 Copynumber: 9.6 Consensus size: 132
7002417 CTACCAACCG
* * *
7002427 GGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCC-GCCATC
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAA-CCTGCCATC
* * *
7002491 TTCGATCTGCTCCACTACTGCTTGGGGAGGCAAGATCTGTAATCTTCAATC-ATTCCACTGTTTC
65 TTCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGTTGC
7002555 CCA
130 CCA
7002558 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAACCTGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAACCTGCCATCT
* *
7002623 TCGATCTGCTCCACTACTGCTTAGGAAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTGCC
66 TCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGTTGCC
7002688 CA
131 CA
7002690 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCC-GCCATC
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAA-CCTGCCATC
* * * * *
7002754 TTCGATCTGCTTCGCTGTCGATGC--AGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTGC
65 TTCGATCTGCTCCACT-AC--TGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGT
* *
7002817 TACCTA
127 TGCCCA
* *
7002823 GGGA-AGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAAGGAGGTAAAATCC-GCCAT
1 GGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAA-CCTGCCAT
* * * * * *
7002886 CTTTGATATTCTCCACTACTGCTTAGGAAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTG
64 CTTCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGTTG
7002951 CCCA
129 CCCA
* * * * *
7002955 GGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGAAGGTAAAATCTGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAACCTGCCATCT
* * *
7003020 TCGATCTACTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTTCC
66 TCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGTTGCC
*
7003085 TA
131 CA
*
7003087 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAAGGAGGTAAAACCTGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAACCTGCCATCT
*
7003152 TCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTGCC
66 TCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGTTGCC
7003217 CA
131 CA
*
7003219 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACTTCAGGGAGGTAAAATCC-GCCATC
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAA-CCTGCCATC
* * * *
7003283 TTCGATCTGCTTCGCTATCGATGC--AGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTGC
65 TTCGATCTGCTCCACTA-C--TGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGT
7003346 TGCCCA
127 TGCCCA
* * * * * *
7003352 GGGA-AGTAGAATTACTGGCTTCAATGTACTCCACTGTAGCCACAAGGAGGTAAAATCTTCTATC
1 GGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAACCTGCCATC
* * *
7003416 TTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGC
65 TTCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGTTGC
7003481 CCA
130 CCA
* * * *
7003484 GGGAGATGGAATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAACCTGCCATCT
* ** *
7003549 TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGTTGCC
66 TCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGTTGCC
7003614 CA
131 CA
* * * *
7003616 AGGA-AGTAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATC
1 GGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAACCTGCCATC
*
7003680 TTTGATCTGCT
65 TTCGATCTGCT
7003691 TCGCTGTCTA
Statistics
Matches: 1031, Mismatches: 81, Indels: 41
0.89 0.07 0.04
Matches are distributed among these distances:
130 8 0.01
131 109 0.11
132 679 0.66
133 229 0.22
135 6 0.01
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (132 bp):
GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAACCTGCCATCT
TCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGTTGCC
CA
Found at i:7002945 original size:44 final size:43
Alignment explanation
Indices: 7002896--7003078 Score: 111
Period size: 44 Copynumber: 4.2 Consensus size: 43
7002886 CTTTGATATT
7002896 CTCCACTACTGCTTAGGAAGACAAGATCTGAAATCTTCAATCTA
1 CTCCACTACTGCTTAGGAAGACAAGATCTG-AATCTTCAATCTA
* * ** * * * *
7002940 TTCCACTGCTGCCCAGGGAGA-TAGAATTACTG--GCTTCAATATA
1 CTCCACTACTGCTTAGGAAGACAAG-A-T-CTGAATCTTCAATCTA
* ** ** * * *
7002983 CTCCACTGCAACTTCAGGAAGGTAAAATCTGCCATCTTCGATCTA
1 CTCCACTACTGCTT-AGGAAGACAAGATCTG-AATCTTCAATCTA
* *
7003028 CTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTA
1 CTCCACTACTGCTTAGGAAGACAAGATCTG-AATCTTCAATCTA
*
7003072 TTCCACT
1 CTCCACT
7003079 GTTTCCTAGG
Statistics
Matches: 101, Mismatches: 30, Indels: 16
0.69 0.20 0.11
Matches are distributed among these distances:
42 3 0.03
43 21 0.21
44 53 0.52
45 21 0.21
46 3 0.03
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (43 bp):
CTCCACTACTGCTTAGGAAGACAAGATCTGAATCTTCAATCTA
Found at i:7003089 original size:44 final size:44
Alignment explanation
Indices: 7003016--7003223 Score: 136
Period size: 44 Copynumber: 4.7 Consensus size: 44
7003006 AAAATCTGCC
* ** *
7003016 ATCTTCGATCTACTCCACTACTGCTTAGGGAGGCAAGATCTGTA
1 ATCTTCAATCTACTCCACTGTTGCCTAGGGAGGCAAGATCTGTA
* * *
7003060 ATCTTCAATCTATTCCACTGTTTCCTAGGGA-G-ATAGA-AT-TA
1 ATCTTCAATCTACTCCACTGTTGCCTAGGGAGGCA-AGATCTGTA
* * ** * * * * **
7003101 CTGGCTTCAATGTACTCCACTGTAACCTCAAGGAGGTAAAACCTGCC
1 AT--CTTCAATCTACTCCACTGTTGCCT-AGGGAGGCAAGATCTGTA
* * ** *
7003148 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGTA
1 ATCTTCAATCTACTCCACTGTTGCCTAGGGAGGCAAGATCTGTA
* *
7003192 ATCTTCAATCTATTCCACTGTTGCCCAGGGAG
1 ATCTTCAATCTACTCCACTGTTGCCTAGGGAG
7003224 ATAGAATTAC
Statistics
Matches: 117, Mismatches: 39, Indels: 16
0.68 0.23 0.09
Matches are distributed among these distances:
41 3 0.03
42 2 0.02
43 24 0.21
44 66 0.56
45 19 0.16
46 2 0.02
47 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (44 bp):
ATCTTCAATCTACTCCACTGTTGCCTAGGGAGGCAAGATCTGTA
Found at i:7003221 original size:529 final size:529
Alignment explanation
Indices: 7002427--7003690 Score: 2208
Period size: 529 Copynumber: 2.4 Consensus size: 529
7002417 CTACCAACCG
*
7002427 GGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCTGCCATCT
*
7002492 TCGATCTGCTCCACTACTGCTTGGGGAGGCAAGATCTGTAATCTTCAATC-ATTCCACTGTTTCC
66 TCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTTCC
7002556 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAACCTGCCAT
131 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAACCTGCCAT
7002621 CTTCGATCTGCTCCACTACTGCTTAGGAAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTG
196 CTTCGATCTGCTCCACTACTGCTTAGGAAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTG
7002686 CCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCC
261 CCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCC
*
7002751 ATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTG
326 ATCTTCGATCTGCTTCGCTATCGATGCAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTG
*
7002816 CTACCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAAGGAGGTAAAATCC
391 CTACCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAAGGAGGTAAAATCC
*
7002881 GCCATCTTTGATATTCTCCACTACTGCTTAGGAAGACAAGATCTGAAATCTTCAATCTATTCCAC
456 GCCATCTTTGATATGCTCCACTACTGCTTAGGAAGACAAGATCTGAAATCTTCAATCTATTCCAC
7002946 TGCTGCCCA
521 TGCTGCCCA
*
7002955 GGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGAAGGTAAAATCTGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCTGCCATCT
*
7003020 TCGATCTACTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTTCC
66 TCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTTCC
* *
7003085 TAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAAGGAGGTAAAACCTGCCAT
131 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAACCTGCCAT
*
7003150 CTTCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTG
196 CTTCGATCTGCTCCACTACTGCTTAGGAAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTG
*
7003215 CCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACTTCAGGGAGGTAAAATCCGCC
261 CCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCC
7003280 ATCTTCGATCTGCTTCGCTATCGATGCAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTG
326 ATCTTCGATCTGCTTCGCTATCGATGCAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTG
* * *
7003345 CTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAGCCACAAGGAGGTAAAATCT
391 CTACCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAAGGAGGTAAAATCC
* * * *
7003410 TCTATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCAC
456 GCCATCTTTGATATGCTCCACTACTGCTTAGGAAGACAAGATCTGAAATCTTCAATCTATTCCAC
7003475 TGCTGCCCA
521 TGCTGCCCA
* * **
7003484 GGGAGATGGAATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCTGCCATCT
* ** * * *
7003549 TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGTTGCC
66 TCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTTCC
* * * *
7003614 CAAGGA-AGTAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCA
131 CAGGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAACCTGCCA
*
7003678 TCTTTGATCTGCT
195 TCTTCGATCTGCT
7003691 TCGCTGTCTA
Statistics
Matches: 697, Mismatches: 37, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
528 112 0.16
529 585 0.84
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (529 bp):
GGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCTGCCATCT
TCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTTCC
CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAACCTGCCAT
CTTCGATCTGCTCCACTACTGCTTAGGAAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTG
CCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCC
ATCTTCGATCTGCTTCGCTATCGATGCAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTG
CTACCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAAGGAGGTAAAATCC
GCCATCTTTGATATGCTCCACTACTGCTTAGGAAGACAAGATCTGAAATCTTCAATCTATTCCAC
TGCTGCCCA
Found at i:7003695 original size:397 final size:395
Alignment explanation
Indices: 7002433--7003690 Score: 1846
Period size: 397 Copynumber: 3.2 Consensus size: 395
7002423 ACCGGGGAGA
* * **
7002433 TAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATCTTCGATC
1 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATC
* * * * *
7002498 TGCTCCACTACTGCTTGGGGAGGCAAGATCTGTAATCTTCAATC-ATTCCACTGTTTCCCAGGGA
66 TGCTCCACTACTGC-TAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGA
* *
7002562 GATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAACCTGCCATCTTCGA
130 GATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAAGGAGGTAAAATCTGCCATCTTCGA
*
7002627 TCTGCTCCACTACTGCTTAGGAAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGG
195 TCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGG
*
7002692 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTC
260 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTC
* * * * * *
7002757 GATCTGCTTCGCTGTCGATGC--AGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTAC
325 GATCTGCTCCACT-AC--TGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGTTGC
* *
7002820 CTAGGGAAG
387 CCAAGGAAG
* * *
7002829 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAAGGAGGTAAAATCCGCCATCTTTGATA
1 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATC
* *
7002894 TTCTCCACTACTGCTTAGGAAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGA
66 TGCTCCACTACTGC-TAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGA
* * *
7002959 GATAGAATTACTGGCTTCAATATACTCCACTGCAACTTC-AGGAAGGTAAAATCTGCCATCTTCG
130 GATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAAGG-AGGTAAAATCTGCCATCTTCG
* * *
7003023 ATCTACTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTTCCTAG
194 ATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAG
* *
7003088 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAAGGAGGTAAAACCTGCCATCTT
259 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTT
*
7003153 CGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCC
324 CGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCC
*
7003218 -AGGGAG
389 AAGGAAG
**
7003224 ATAGAATTACTGGCTTCAATGTACTCCACTGTAACTTCAGGGAGGTAAAATCCGCCATCTTCGAT
1 -TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGAT
* *
7003289 CTGCTTCGCTATCGATGC-AGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAG
65 CTGCTCCACTA-C--TGCTAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAG
* * * *
7003353 GGA-AGTAGAATTACTGGCTTCAATGTACTCCACTGTAGCCACAAGGAGGTAAAATCTTCTATCT
127 GGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAAGGAGGTAAAATCTGCCATCT
* * * *
7003417 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCC
191 TCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTGCC
* * *
7003482 CAGGGAGATGGAATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAGGTAAAATCTGCCAT
256 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCAT
* ** *
7003547 CTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGTTG
321 CTTCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGTTG
7003612 CCCAAGGAAG
386 CCCAAGGAAG
* * *
7003622 TAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATC
1 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATC
7003687 TGCT
66 TGCT
7003691 TCGCTGTCTA
Statistics
Matches: 776, Mismatches: 75, Indels: 21
0.89 0.09 0.02
Matches are distributed among these distances:
394 3 0.00
395 4 0.01
396 207 0.27
397 551 0.71
398 8 0.01
399 3 0.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (395 bp):
TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATC
TGCTCCACTACTGCTAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAG
ATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAAGGAGGTAAAATCTGCCATCTTCGAT
CTGCTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGG
AGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCG
ATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAA
GGAAG
Found at i:7003735 original size:45 final size:45
Alignment explanation
Indices: 7003658--7003744 Score: 102
Period size: 45 Copynumber: 1.9 Consensus size: 45
7003648 ACTGTAACCA
* ** * * *
7003658 CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGTCTATG
1 CAGGAAGGTAAAATCTGCCATCTTCAACCTGCTCCACTGTCTATG
* *
7003703 CAGGAAGGTAAGATCTGCTATCTTCAACCTGCTCCACTGTCT
1 CAGGAAGGTAAAATCTGCCATCTTCAACCTGCTCCACTGTCT
7003745 CCGAGGGAGG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 34 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (45 bp):
CAGGAAGGTAAAATCTGCCATCTTCAACCTGCTCCACTGTCTATG
Found at i:7005985 original size:18 final size:17
Alignment explanation
Indices: 7005962--7006001 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
7005952 TAATTTGGCA
7005962 GAAAAAATCTGAAAGAAT
1 GAAAAAATCTG-AAGAAT
*
7005980 GAAAAAAATGTGAAGAAT
1 G-AAAAAATCTGAAGAAT
7005998 GAAA
1 GAAA
7006002 GAACATTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 3 0.15
18 8 0.40
19 9 0.45
ACGTcount: A:0.62, C:0.03, G:0.20, T:0.15
Consensus pattern (17 bp):
GAAAAAATCTGAAGAAT
Found at i:7005987 original size:19 final size:18
Alignment explanation
Indices: 7005963--7006001 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
7005953 AATTTGGCAG
7005963 AAAAAATCTGAAAGAATGA
1 AAAAAATCTG-AAGAATGA
*
7005982 AAAAAATGTGAAGAATGA
1 AAAAAATCTGAAGAATGA
7006000 AA
1 AA
7006002 GAACATTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.64, C:0.03, G:0.18, T:0.15
Consensus pattern (18 bp):
AAAAAATCTGAAGAATGA
Found at i:7007917 original size:19 final size:19
Alignment explanation
Indices: 7007893--7007938 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
7007883 AATGGTGTCT
* *
7007893 AATGCATATG-ATGTAATG
1 AATGCAAATGCATGAAATG
7007911 AAATGCAAATGCATGAAATG
1 -AATGCAAATGCATGAAATG
7007931 AATGCAAA
1 AATGCAAA
7007939 AAGAGACGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.48, C:0.09, G:0.20, T:0.24
Consensus pattern (19 bp):
AATGCAAATGCATGAAATG
Found at i:7008402 original size:16 final size:16
Alignment explanation
Indices: 7008377--7008407 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7008367 TTCTATAATG
7008377 AAATGCCATGCAGTCT
1 AAATGCCATGCAGTCT
*
7008393 AAATGTCATGCAGTC
1 AAATGCCATGCAGTC
7008408 AAAGTGAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (16 bp):
AAATGCCATGCAGTCT
Found at i:7008771 original size:14 final size:13
Alignment explanation
Indices: 7008752--7008781 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
7008742 CTTAAAGGGT
7008752 AAAATGCAAAATGC
1 AAAATGC-AAATGC
7008766 AAAATGCAAATGC
1 AAAATGCAAATGC
7008779 AAA
1 AAA
7008782 GTTGCCAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.60, C:0.13, G:0.13, T:0.13
Consensus pattern (13 bp):
AAAATGCAAATGC
Found at i:7008778 original size:6 final size:7
Alignment explanation
Indices: 7008752--7008781 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
7008742 CTTAAAGGGT
7008752 AAAATGC
1 AAAATGC
7008759 AAAATGC
1 AAAATGC
7008766 AAAATGC
1 AAAATGC
7008773 -AAATGC
1 AAAATGC
7008779 AAA
1 AAA
7008782 GTTGCCAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.60, C:0.13, G:0.13, T:0.13
Consensus pattern (7 bp):
AAAATGC
Found at i:7010039 original size:3 final size:3
Alignment explanation
Indices: 7010028--7010092 Score: 53
Period size: 3 Copynumber: 21.0 Consensus size: 3
7010018 TAATAATTTC
* * *
7010028 AAT ATT AAT AAT AAT AAT AAAT AAT AAT GAT AAAC AAGT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT -AAT AA-T AAT AAT AAT
7010075 AAT -AT AAT AAT AAAT AAT
1 AAT AAT AAT AAT -AAT AAT
7010093 TAAATTGTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
2 4 0.08
3 37 0.74
4 9 0.18
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7010052 original size:13 final size:13
Alignment explanation
Indices: 7010034--7010092 Score: 75
Period size: 13 Copynumber: 4.5 Consensus size: 13
7010024 TTTCAATATT
7010034 AATAATAATAATA
1 AATAATAATAATA
*
7010047 AATAATAATGATA
1 AATAATAATAATA
*
7010060 AACAAGTAATAATA
1 AATAA-TAATAATA
7010074 TAAT-ATAATAATA
1 -AATAATAATAATA
7010087 AATAAT
1 AATAAT
7010093 TAAATTGTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
12 3 0.08
13 26 0.67
14 8 0.21
15 2 0.05
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (13 bp):
AATAATAATAATA
Found at i:7014320 original size:24 final size:24
Alignment explanation
Indices: 7014217--7014356 Score: 83
Period size: 24 Copynumber: 5.8 Consensus size: 24
7014207 GCTGTATAAT
*
7014217 GGAAAGCTCTTGAGAGCCAATTATC
1 GGAAAGCTCATGAGAGCCAA-TATC
* *
7014242 -GAGAAGCTCAT-ACGAGTC-ATAAAC
1 GGA-AAGCTCATGA-GAGCCAAT-ATC
* *
7014266 GGGAAGCTCAAGAGAGCCAA-ATTC
1 GGAAAGCTCATGAGAGCCAATA-TC
*
7014290 -GATAAGCTCATGCGAGCCAATATC
1 GGA-AAGCTCATGAGAGCCAATATC
* *
7014314 GGAAAGCTCGTGAGAGCCTATTATC
1 GGAAAGCTCATGAGAGCC-AATATC
* * *
7014339 GGGACGCTCATAAGAGCC
1 GGAAAGCTCATGAGAGCC
7014357 GTGGTGTGTC
Statistics
Matches: 87, Mismatches: 17, Indels: 22
0.69 0.13 0.17
Matches are distributed among these distances:
23 3 0.03
24 48 0.55
25 36 0.41
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.19
Consensus pattern (24 bp):
GGAAAGCTCATGAGAGCCAATATC
Found at i:7014322 original size:48 final size:49
Alignment explanation
Indices: 7014217--7014356 Score: 131
Period size: 48 Copynumber: 2.9 Consensus size: 49
7014207 GCTGTATAAT
* * *
7014217 GGAAAGCTCTTGAGAGCCAATTATCGAGAAGCTCATACGAGTCATAAAC
1 GGAAAGCTCATGAGAGCCAAATATCGAGAAGCTCATACGAGCCATAAAC
* * * * *
7014266 GGGAAGCTCAAGAGAGCCAAAT-TCGATAAGCTCATGCGAGCCA-ATATC
1 GGAAAGCTCATGAGAGCCAAATATCGAGAAGCTCATACGAGCCATA-AAC
* * * * * *
7014314 GGAAAGCTCGTGAGAGCCTATTATCGGGACGCTCATAAGAGCC
1 GGAAAGCTCATGAGAGCCAAATATCGAGAAGCTCATACGAGCC
7014357 GTGGTGTGTC
Statistics
Matches: 71, Mismatches: 18, Indels: 4
0.76 0.19 0.04
Matches are distributed among these distances:
47 1 0.01
48 37 0.52
49 33 0.46
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.19
Consensus pattern (49 bp):
GGAAAGCTCATGAGAGCCAAATATCGAGAAGCTCATACGAGCCATAAAC
Found at i:7015643 original size:16 final size:15
Alignment explanation
Indices: 7015617--7015646 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
7015607 AGTGATAGAT
7015617 GACAAAAAGTAAAAG
1 GACAAAAAGTAAAAG
7015632 GACAATAAAGTAAAA
1 GACAA-AAAGTAAAA
7015647 ATTAGTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.67, C:0.07, G:0.17, T:0.10
Consensus pattern (15 bp):
GACAAAAAGTAAAAG
Found at i:7016329 original size:47 final size:46
Alignment explanation
Indices: 7016254--7016436 Score: 240
Period size: 47 Copynumber: 3.9 Consensus size: 46
7016244 GGGGTGTGAC
* * * * *
7016254 AATTAAATAATTTAATCATGAACGTGATAAATGGCAAAATAAAAATA
1 AATTAAATGATATAATCATG-ACATGATAAGTGGCATAATAAAAATA
7016301 AATTAAATGATATAATCATCGACATGATAAGTGGCATAATAAAAATA
1 AATTAAATGATATAATCAT-GACATGATAAGTGGCATAATAAAAATA
* ** *
7016348 AATTAAACGATATAATCATTGATGTGATAAGTGGCATGATAAAAATA
1 AATTAAATGATATAATCA-TGACATGATAAGTGGCATAATAAAAATA
*
7016395 AATTAAATGATATAATCATAGACATGATAAGTGGCAGAATAA
1 AATTAAATGATATAATCAT-GACATGATAAGTGGCATAATAA
7016437 CTACTAGAAG
Statistics
Matches: 119, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
46 1 0.01
47 116 0.97
48 2 0.02
ACGTcount: A:0.51, C:0.07, G:0.14, T:0.28
Consensus pattern (46 bp):
AATTAAATGATATAATCATGACATGATAAGTGGCATAATAAAAATA
Found at i:7018459 original size:32 final size:32
Alignment explanation
Indices: 7018417--7018486 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
7018407 GTGTGTTAGT
*
7018417 CCATGTGGGACACACATG-CTGGACCTTTTGGG
1 CCATGTGGGACACAC-GGACTGGACCTTTTGGG
* *
7018449 TCATGTGGGACACACGGACTGGACTTTTTGGG
1 CCATGTGGGACACACGGACTGGACCTTTTGGG
7018481 CCATGT
1 CCATGT
7018487 AGGCCACATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 1 0.03
32 32 0.97
ACGTcount: A:0.19, C:0.23, G:0.31, T:0.27
Consensus pattern (32 bp):
CCATGTGGGACACACGGACTGGACCTTTTGGG
Found at i:7026364 original size:41 final size:41
Alignment explanation
Indices: 7026289--7026435 Score: 208
Period size: 41 Copynumber: 3.5 Consensus size: 41
7026279 AAAATTTATT
7026289 TTTAAAATTAAAATAAAAATT-AAAAAAAGTATTTTAAAAATAA
1 TTTAAAATT--AA-AAAAATTAAAAAAAAGTATTTTAAAAATAA
*
7026332 TTTAAAATTTAAAAAATTAAAAAAAAGTATTTTAAAAA-AA
1 TTTAAAATTAAAAAAATTAAAAAAAAGTATTTTAAAAATAA
* * *
7026372 TTTTAAAATTAAAAAAATTTAAAAAAAGTATTTTAAAAGTAT
1 -TTTAAAATTAAAAAAATTAAAAAAAAGTATTTTAAAAATAA
7026414 TTTAAAATTAAAAAAATTAAAA
1 TTTAAAATTAAAAAAATTAAAA
7026436 TATTTATTAT
Statistics
Matches: 95, Mismatches: 6, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
40 9 0.09
41 76 0.80
42 1 0.01
43 9 0.09
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (41 bp):
TTTAAAATTAAAAAAATTAAAAAAAAGTATTTTAAAAATAA
Found at i:7026396 original size:17 final size:17
Alignment explanation
Indices: 7026363--7026396 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
7026353 AAAAAGTATT
*
7026363 TTAAAAAAATTTTAAAA
1 TTAAAAAAATTTAAAAA
7026380 TTAAAAAAATTTAAAAA
1 TTAAAAAAATTTAAAAA
7026397 AAGTATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TTAAAAAAATTTAAAAA
Found at i:7028460 original size:59 final size:61
Alignment explanation
Indices: 7028394--7028510 Score: 166
Period size: 62 Copynumber: 1.9 Consensus size: 61
7028384 ATCACTTTAA
* * * *
7028394 TATTAAATTAATATAATATTTA-T-CAAGATAAGTATTAGATTAAAATTCATATTAAATCT
1 TATTAAATTAATAGAATATTTACTACAAGATAAATATTAAATTAAAATTAATATTAAATCT
*
7028453 TATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTAAATTTAATATTAA
1 TATTAAATTAATAGAATATTTA-CTACAAGATAAATATTAAATTAAAATTAATATTAA
7028511 GATAAGATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 21 0.42
61 1 0.02
62 28 0.56
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (61 bp):
TATTAAATTAATAGAATATTTACTACAAGATAAATATTAAATTAAAATTAATATTAAATCT
Found at i:7037833 original size:20 final size:21
Alignment explanation
Indices: 7037805--7037844 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
7037795 TCGACGGAAA
7037805 ACTAAAGAAA-TGGACCAAAG
1 ACTAAAGAAACTGGACCAAAG
* *
7037825 ACTAGAGAAACTGGAGCAAA
1 ACTAAAGAAACTGGACCAAA
7037845 TGAAACGGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.53, C:0.15, G:0.23, T:0.10
Consensus pattern (21 bp):
ACTAAAGAAACTGGACCAAAG
Found at i:7047798 original size:3 final size:3
Alignment explanation
Indices: 7047790--7047832 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
7047780 AATTCCCCTC
* * *
7047790 ATA ATA ATA ATA ATA CTA ATA ATA ATA CTA ATA CTA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
7047833 ATGTACCTCA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7048592 original size:14 final size:17
Alignment explanation
Indices: 7048573--7048610 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
7048563 ATTTATTTCT
7048573 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
7048587 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
7048604 TAATATA
1 TAATATA
7048611 CTTTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 4 0.19
17 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:7048618 original size:12 final size:11
Alignment explanation
Indices: 7048590--7048633 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
7048580 ATATTTATAA
7048590 TATAATTAATT
1 TATAATTAATT
*
7048601 TAATAATATACTT
1 T-ATAAT-TAATT
7048614 TATAATTAATT
1 TATAATTAATT
7048625 TATATATTA
1 TATA-ATTA
7048634 TATAAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 9 0.32
12 14 0.50
13 5 0.18
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (11 bp):
TATAATTAATT
Found at i:7048637 original size:20 final size:23
Alignment explanation
Indices: 7048585--7048647 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
7048575 ATATAATATT
7048585 TATA-ATATAATTAATTTAATAA
1 TATATATATAATTAATTTAATAA
* *
7048607 TATACTTTATAATTAATTTATATAT
1 TATA-TATATAATTAATTTA-ATAA
* *
7048632 TATATAAATAAATAAT
1 TATATATATAATTAAT
7048648 ATAAATATCT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
22 4 0.12
24 22 0.67
25 7 0.21
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TATATATATAATTAATTTAATAA
Found at i:7048649 original size:20 final size:20
Alignment explanation
Indices: 7048602--7048650 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
7048592 TAATTAATTT
*
7048602 AATAATATACTTTATAATTA
1 AATAATATACTTTATAAATA
* *
7048622 ATTTATATA-TTATATAAATA
1 AATAATATACTT-TATAAATA
7048642 AATAATATA
1 AATAATATA
7048651 AATATCTAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
AATAATATACTTTATAAATA
Found at i:7049060 original size:16 final size:15
Alignment explanation
Indices: 7049037--7049082 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
7049027 GCCCATTCAG
7049037 AATAAAAAATAAAAA
1 AATAAAAAATAAAAA
*
7049052 AATTAAAAATCAAAGAA
1 AATAAAAAAT-AAA-AA
*
7049069 AATAATAAATAAAA
1 AATAAAAAATAAAA
7049083 TTCAGTCCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 10 0.38
16 6 0.23
17 10 0.38
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (15 bp):
AATAAAAAATAAAAA
Found at i:7051281 original size:17 final size:17
Alignment explanation
Indices: 7051259--7051291 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7051249 TTGACGTTAA
7051259 TTTTATGTTT-GGGTTTT
1 TTTTAT-TTTAGGGTTTT
7051276 TTTTATTTTAGGGTTT
1 TTTTATTTTAGGGTTT
7051292 GGGGTGCAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.09, C:0.00, G:0.21, T:0.70
Consensus pattern (17 bp):
TTTTATTTTAGGGTTTT
Found at i:7051636 original size:125 final size:125
Alignment explanation
Indices: 7051356--7051622 Score: 403
Period size: 125 Copynumber: 2.1 Consensus size: 125
7051346 CGTTTCGGTT
** * * *
7051356 AAATAGTATAAAATCGCTTCTACCAGGATGCTATCAGAGAAGAAATTGTGAACTCGTGCCCTCGT
1 AAATAGTATAAAATCGCTGATACCAGGATGCTATCAGAGAAGAAATTGAGAAATCGCGCCCTCGT
*
7051421 GGACGCGATTTCGCTATAGTTGGTCATGTAAGAAATAATTTTTTTTGACGTTTTATGAGC
66 GGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTTTTGACGTTTTATGAGC
7051481 AAATAGTATAAAATCGCTGATACCAGGATGCTAT-ATGAGAAGAAATTGAGAAATCGCGCCCTCG
1 AAATAGTATAAAATCGCTGATACCAGGATGCTATCA-GAGAAGAAATTGAGAAATCGCGCCCTCG
* * *
7051545 TGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTATTTTTTGATG-TTTCTGAGC
65 TGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATT-TTTTTTGACGTTTTATGAGC
* *
7051606 AAATAGTGTCAAATCGC
1 AAATAGTATAAAATCGC
7051623 GCCCTCGTGG
Statistics
Matches: 129, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
124 1 0.01
125 119 0.92
126 9 0.07
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (125 bp):
AAATAGTATAAAATCGCTGATACCAGGATGCTATCAGAGAAGAAATTGAGAAATCGCGCCCTCGT
GGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTTTTGACGTTTTATGAGC
Found at i:7054146 original size:14 final size:15
Alignment explanation
Indices: 7054129--7054161 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
7054119 AATAATTATC
7054129 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
7054143 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
7054158 TAAA
1 TAAA
7054162 TTTAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:7054297 original size:29 final size:29
Alignment explanation
Indices: 7054258--7054316 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 29
7054248 TTGAAAATAT
7054258 TAAAAATTTTAAAATTAT-TTTAAAAAAA
1 TAAAAATTTTAAAATTATCTTTAAAAAAA
*
7054286 TAAAAATATTTAAAATTTTCTTTAAAAAAA
1 TAAAAAT-TTTAAAATTATCTTTAAAAAAA
7054316 T
1 T
7054317 GAAATTGAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 7 0.25
29 10 0.36
30 11 0.39
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (29 bp):
TAAAAATTTTAAAATTATCTTTAAAAAAA
Found at i:7054375 original size:22 final size:21
Alignment explanation
Indices: 7054350--7054400 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
7054340 TAATATGGAT
*
7054350 TTGAGAGATTTTTTGAAGGAAA
1 TTGAGAGA-TTTTGGAAGGAAA
*
7054372 TTGAGAGGATTTTGGAAGGAAT
1 TTGAGA-GATTTTGGAAGGAAA
7054394 TTGAGAG
1 TTGAGAG
7054401 TTTAAGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 1 0.04
22 23 0.88
23 2 0.08
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (21 bp):
TTGAGAGATTTTGGAAGGAAA
Found at i:7054423 original size:52 final size:52
Alignment explanation
Indices: 7054353--7054452 Score: 164
Period size: 52 Copynumber: 1.9 Consensus size: 52
7054343 TATGGATTTG
* * * *
7054353 AGAGATTTTTTGAAGGAAATTGAGAGGATTTTGGAAGGAATTTGAGAGTTTA
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAGTTTA
7054405 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAG
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAG
7054453 AATATTTGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.30
Consensus pattern (52 bp):
AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAGTTTA
Found at i:7054469 original size:24 final size:22
Alignment explanation
Indices: 7054405--7054460 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
7054395 TGAGAGTTTA
7054405 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
7054427 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
7054449 AGAGAATATTTG
1 AGAGAAT-TTTG
7054461 TTCGTGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.29
Consensus pattern (22 bp):
AGAGAATTTTGGAAGGAAATTG
Found at i:7056315 original size:13 final size:13
Alignment explanation
Indices: 7056286--7056349 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 13
7056276 TTTAACATTG
*
7056286 CTTTTAATAAA-TG
1 CTTTTAA-AAAGTA
7056299 CTTTTAAAAAGTA
1 CTTTTAAAAAGTA
**
7056312 CTTTGGAAAAGTGA
1 CTTTTAAAAAGT-A
**
7056326 -TTTTGGAAAGTA
1 CTTTTAAAAAGTA
7056338 CTTTTAAAAAGT
1 CTTTTAAAAAGT
7056350 TTGGTTTAAG
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
12 4 0.10
13 36 0.88
14 1 0.02
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (13 bp):
CTTTTAAAAAGTA
Found at i:7056561 original size:43 final size:44
Alignment explanation
Indices: 7056481--7056563 Score: 102
Period size: 44 Copynumber: 1.9 Consensus size: 44
7056471 TAATATTATG
*
7056481 ATATTTTAATAATACAAAAAATAATTTATTATAATTTTTTGTTA
1 ATATTTTAATAATACAAAAAATAATTTATAATAATTTTTTGTTA
7056525 ATATTTTAATATATGA-AAAATAA-AATTTA-AAT-ATTTTTT
1 ATATTTTAATA-AT-ACAAAA-AATAATTTATAATAATTTTTT
7056564 AAGCAATTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
43 7 0.20
44 13 0.37
45 12 0.34
46 3 0.09
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.49
Consensus pattern (44 bp):
ATATTTTAATAATACAAAAAATAATTTATAATAATTTTTTGTTA
Found at i:7058051 original size:21 final size:21
Alignment explanation
Indices: 7058025--7058066 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
7058015 ATTTTCCCTT
*
7058025 TCTCCTTTCTCTTCTAAGCAA
1 TCTCCTCTCTCTTCTAAGCAA
7058046 TCTCCTCTCTCTTCTAAGCAA
1 TCTCCTCTCTCTTCTAAGCAA
7058067 ATTTTCTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.36, G:0.05, T:0.40
Consensus pattern (21 bp):
TCTCCTCTCTCTTCTAAGCAA
Found at i:7058304 original size:15 final size:15
Alignment explanation
Indices: 7058284--7058313 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7058274 TCCAAATTGT
*
7058284 TTGTTGAAGCTTCCA
1 TTGTTGAAGATTCCA
7058299 TTGTTGAAGATTCCA
1 TTGTTGAAGATTCCA
7058314 GAAAATATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (15 bp):
TTGTTGAAGATTCCA
Found at i:7058626 original size:15 final size:13
Alignment explanation
Indices: 7058599--7058625 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7058589 TTCAGGTTAG
7058599 AAGTGAGAGATAT
1 AAGTGAGAGATAT
7058612 AAGTGAGAGATAT
1 AAGTGAGAGATAT
7058625 A
1 A
7058626 TGAATAATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.22
Consensus pattern (13 bp):
AAGTGAGAGATAT
Found at i:7061197 original size:22 final size:20
Alignment explanation
Indices: 7061157--7061205 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
7061147 CAATTTAAAA
7061157 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
* *
7061177 TATATAAATTTATTAATATA
1 TATAAAAATTTATTAATATG
*
7061197 TGTAAAAAT
1 TATAAAAAT
7061206 AACTTTTCCA
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:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:7061737 original size:14 final size:14
Alignment explanation
Indices: 7061718--7061770 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
7061708 TTGGAAAGAT
7061718 TTATAAAAATAAAA
1 TTATAAAAATAAAA
* *
7061732 TTAT-AATATATAGA
1 TTATAAAAATA-AAA
*
7061746 TTATATAAAATAATA
1 TTATA-AAAATAAAA
7061761 TTATAAAAAT
1 TTATAAAAAT
7061771 TCTGTATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
13 5 0.16
14 15 0.47
15 7 0.22
16 5 0.16
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (14 bp):
TTATAAAAATAAAA
Found at i:7061880 original size:2 final size:2
Alignment explanation
Indices: 7061875--7061902 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7061865 ATAAGATTTA
7061875 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7061903 TCATTGATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7066783 original size:4 final size:4
Alignment explanation
Indices: 7066774--7066805 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
7066764 TCTTGAGCCA
7066774 TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG
7066806 GTGTTGAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:7068454 original size:50 final size:50
Alignment explanation
Indices: 7068339--7068587 Score: 318
Period size: 50 Copynumber: 4.8 Consensus size: 50
7068329 GATAATAACA
* ** *
7068339 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
7068390 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
7068440 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
7068490 TGCCCATGCCATGTCCCAGACATGGTCTTACAAGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATC-T-CGG
*
7068545 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
7068588 TTACCTGAAT
Statistics
Matches: 172, Mismatches: 20, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
50 95 0.55
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:7068527 original size:100 final size:104
Alignment explanation
Indices: 7068338--7068587 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 104
7068328 TGATAATAAC
** *
7068338 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
* * *
7068403 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAAGGGACCTCTCAATCTTAAGG
* *
7068440 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
7068504 CCCAGACATGGTCTTACAAGGGACCTCTCATGATCTTAAGG
66 CCCAGACATGGTCTTACAAGGGACCTCTCA--ATCTTAAGG
* *
7068545 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
7068588 TTACCTGAAT
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAAGGGACCTCTCAATCTTAAGG
Found at i:7068703 original size:13 final size:13
Alignment explanation
Indices: 7068682--7068713 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
7068672 ACTTGGATCA
*
7068682 TCATCAAATAAAT
1 TCATAAAATAAAT
7068695 TCATAAAATAAAT
1 TCATAAAATAAAT
7068708 TCATAA
1 TCATAA
7068714 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:7068975 original size:29 final size:31
Alignment explanation
Indices: 7068925--7068982 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
7068915 CCTCGACTCT
* *
7068925 AACTTTTTCAAAATTATGA-TTTTGCCCCTA
1 AACTTTTACAAAATTATCATTTTTGCCCCTA
*
7068955 AACTTTTACATAATTA-CATTTTTGCCCC
1 AACTTTTACAAAATTATCATTTTTGCCCC
7068983 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.29, C:0.22, G:0.05, T:0.43
Consensus pattern (31 bp):
AACTTTTACAAAATTATCATTTTTGCCCCTA
Found at i:7076304 original size:8 final size:8
Alignment explanation
Indices: 7076280--7076320 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
7076270 ATGCAATGCT
7076280 TATGCATG
1 TATGCATG
*
7076288 CATGCATG
1 TATGCATG
7076296 TATGCATG
1 TATGCATG
*
7076304 TATGTATG
1 TATGCATG
*
7076312 TATGTATG
1 TATGCATG
7076320 T
1 T
7076321 GTACAAACCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.41
Consensus pattern (8 bp):
TATGCATG
Found at i:7076316 original size:12 final size:12
Alignment explanation
Indices: 7076280--7076320 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
7076270 ATGCAATGCT
*
7076280 TATGCATGCATG
1 TATGTATGCATG
*
7076292 CATGTATGCATG
1 TATGTATGCATG
*
7076304 TATGTATGTATG
1 TATGTATGCATG
7076316 TATGT
1 TATGT
7076321 GTACAAACCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.41
Consensus pattern (12 bp):
TATGTATGCATG
Found at i:7083646 original size:107 final size:108
Alignment explanation
Indices: 7083459--7083674 Score: 400
Period size: 107 Copynumber: 2.0 Consensus size: 108
7083449 TGTTCCCTCG
*
7083459 CCATGAAACTGTTCAATTAAATGAGAGTAATTTTATTTTTTTGGAAGCATCAAATAAATTTGATT
1 CCATGAAACTATTCAATTAAATGAGAGTAATTTTATTTTTTTGGAAGCATCAAATAAATTTGATT
7083524 CCTGAAGGGTATGGAATGACGGGTTACATTTTGGGAACTCTAT
66 CCTGAAGGGTATGGAATGACGGGTTACATTTTGGGAACTCTAT
7083567 CCATGAAACTATTCAATTAAATGAGAGTAATTTTA-TTTTTTGGAAGCATCAAATAAATTTGATT
1 CCATGAAACTATTCAATTAAATGAGAGTAATTTTATTTTTTTGGAAGCATCAAATAAATTTGATT
7083631 CCT-ATAGGGTATGGAATGACGGGTTACATTTTGGGAACTCTAT
66 CCTGA-AGGGTATGGAATGACGGGTTACATTTTGGGAACTCTAT
7083674 C
1 C
7083675 TATTCCAGCA
Statistics
Matches: 106, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
106 1 0.01
107 71 0.67
108 34 0.32
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (108 bp):
CCATGAAACTATTCAATTAAATGAGAGTAATTTTATTTTTTTGGAAGCATCAAATAAATTTGATT
CCTGAAGGGTATGGAATGACGGGTTACATTTTGGGAACTCTAT
Found at i:7091322 original size:26 final size:25
Alignment explanation
Indices: 7091292--7091377 Score: 82
Period size: 26 Copynumber: 3.3 Consensus size: 25
7091282 AGTACCTACT
*
7091292 TAAATATACATTGGCTCAAAGCCTGC
1 TAAATA-ACATTGGCTCAAGGCCTGC
** *
7091318 TAAATAACCATCAGCTTAAGGCCTGC
1 TAAATAA-CATTGGCTCAAGGCCTGC
* * *
7091344 TAAATAACAACTGGCTCGAGGCTTGC
1 TAAATAAC-ATTGGCTCAAGGCCTGC
7091370 TAAATAAC
1 TAAATAAC
7091378 CACCAGCTCA
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
25 2 0.04
26 46 0.96
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.24
Consensus pattern (25 bp):
TAAATAACATTGGCTCAAGGCCTGC
Found at i:7091393 original size:26 final size:26
Alignment explanation
Indices: 7091305--7091388 Score: 96
Period size: 26 Copynumber: 3.2 Consensus size: 26
7091295 ATATACATTG
* *
7091305 GCTCAAAGCCTGCTAAATAACCATCA
1 GCTCAAGGCCTGCTAAATAACCACCA
* * **
7091331 GCTTAAGGCCTGCTAAATAACAACTG
1 GCTCAAGGCCTGCTAAATAACCACCA
* *
7091357 GCTCGAGGCTTGCTAAATAACCACCA
1 GCTCAAGGCCTGCTAAATAACCACCA
7091383 GCTCAA
1 GCTCAA
7091389 TGCTTATTTT
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.35, C:0.29, G:0.17, T:0.20
Consensus pattern (26 bp):
GCTCAAGGCCTGCTAAATAACCACCA
Found at i:7096837 original size:19 final size:19
Alignment explanation
Indices: 7096802--7096841 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
7096792 CACAAATTAA
7096802 AAAAATTAAAATCAACCATT
1 AAAAATTAAAA-CAACCATT
7096822 AAAAATCTAAAA-AACCATT
1 AAAAAT-TAAAACAACCATT
7096841 A
1 A
7096842 GTAAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
20 6 0.32
21 5 0.26
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAAATTAAAACAACCATT
Found at i:7096925 original size:25 final size:25
Alignment explanation
Indices: 7096892--7096962 Score: 124
Period size: 25 Copynumber: 2.8 Consensus size: 25
7096882 CAATTTTATC
* *
7096892 AAAATTTGAAATTTTATTAAAAATA
1 AAAAATTGAAATTTCATTAAAAATA
7096917 AAAAATTGAAATTTCATTAAAAATA
1 AAAAATTGAAATTTCATTAAAAATA
7096942 AAAAATTGAAATTTCATTAAA
1 AAAAATTGAAATTTCATTAAA
7096963 CTACTAATAC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (25 bp):
AAAAATTGAAATTTCATTAAAAATA
Found at i:7104022 original size:30 final size:30
Alignment explanation
Indices: 7103988--7104050 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
7103978 ACTTATTTTA
*
7103988 TTGTTAATTTTATTATTACTTTAAAGACGT
1 TTGTTAATTTTATTATTACTTTAAAGACAT
* * *
7104018 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTATTATTACTTTAAAGACAT
7104048 TTG
1 TTG
7104051 CTTGTTAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.05, G:0.13, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTATTATTACTTTAAAGACAT
Found at i:7104844 original size:23 final size:23
Alignment explanation
Indices: 7104817--7104862 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
7104807 TAATTATTAA
*
7104817 AATTTTGGTTGTCTTGTAGATTT
1 AATTTTGGTTGTCTTATAGATTT
* *
7104840 AATTTTGTTTTTCTTATAGATTT
1 AATTTTGGTTGTCTTATAGATTT
7104863 TATACAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.20, C:0.04, G:0.15, T:0.61
Consensus pattern (23 bp):
AATTTTGGTTGTCTTATAGATTT
Found at i:7114184 original size:28 final size:27
Alignment explanation
Indices: 7114136--7114199 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
7114126 CTTTAGAATG
* *
7114136 CGCCACGAAGGCATTCCTTTCCATAGAT
1 CGCCACAAAGGCATTCATTT-CATAGAT
7114164 CGCCACAAAGGC-TTCAATTTCATAGAT
1 CGCCACAAAGGCATTC-ATTTCATAGAT
* *
7114191 TGTCACAAA
1 CGCCACAAA
7114200 AGTTTCCATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 17 0.55
28 14 0.45
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (27 bp):
CGCCACAAAGGCATTCATTTCATAGAT
Found at i:7114210 original size:27 final size:28
Alignment explanation
Indices: 7114149--7114210 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 28
7114139 CACGAAGGCA
*
7114149 TTCC-TTTCCATAGATCGCCACAAAGGC
1 TTCCATTTCCATAGATCGCCACAAAAGC
* * * *
7114176 TTCAATTT-CATAGATTGTCACAAAAGT
1 TTCCATTTCCATAGATCGCCACAAAAGC
7114203 TTCCATTT
1 TTCCATTT
7114211 TTCCTGTGTG
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
27 25 0.89
28 3 0.11
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.35
Consensus pattern (28 bp):
TTCCATTTCCATAGATCGCCACAAAAGC
Found at i:7115776 original size:27 final size:27
Alignment explanation
Indices: 7115706--7115795 Score: 76
Period size: 27 Copynumber: 3.3 Consensus size: 27
7115696 GCTGGGATAA
* * *
7115706 TAAACACAGGATAATCTATC-GTGATAG
1 TAAACACAAGATAATCCATCAG-GACAG
*
7115733 TAAACACAAGATAATCC-GCTAGGACAG
1 TAAACACAAGATAATCCATC-AGGACAG
** * *
7115760 TAAACACGGGATGATCCATCAGGATAG
1 TAAACACAAGATAATCCATCAGGACAG
7115787 TAAACACAA
1 TAAACACAA
7115796 AAAATCCTCT
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
26 1 0.02
27 46 0.94
28 2 0.04
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (27 bp):
TAAACACAAGATAATCCATCAGGACAG
Found at i:7128033 original size:13 final size:11
Alignment explanation
Indices: 7128001--7128034 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
7127991 GCAGGAATTA
7128001 GTACAATATAT
1 GTACAATATAT
7128012 GTACAATATAT
1 GTACAATATAT
7128023 GTACAATATAT
1 GTACAATATAT
7128034 G
1 G
7128035 AGAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (11 bp):
GTACAATATAT
Found at i:7134053 original size:20 final size:20
Alignment explanation
Indices: 7134012--7134056 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
7134002 TCATTTTTTG
**
7134012 ATAAAAATGCATAAGATTTT
1 ATAAAAATGCATAAGAAATT
7134032 ATAAAAATGCATATA-AAATT
1 ATAAAAATGCATA-AGAAATT
7134052 ATAAA
1 ATAAA
7134057 TAAATATCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (20 bp):
ATAAAAATGCATAAGAAATT
Found at i:7134130 original size:19 final size:18
Alignment explanation
Indices: 7134101--7134145 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
7134091 TTTATTTATT
* *
7134101 AAAATAATAATTTTATAA
1 AAAACAATAATCTTATAA
*
7134119 ATAAACAATAATCTTATAT
1 A-AAACAATAATCTTATAA
7134138 AAAACAAT
1 AAAACAAT
7134146 TTAAGCGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAACAATAATCTTATAA
Found at i:7140040 original size:14 final size:14
Alignment explanation
Indices: 7140021--7140060 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
7140011 TTGATTGGCA
7140021 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
7140035 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
7140049 GGAAAATGTTTT
1 GTAAAATGTTTT
7140061 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:7140073 original size:34 final size:35
Alignment explanation
Indices: 7140029--7140095 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
7140019 CAGTAAAATG
* * *
7140029 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATAACTTACTGGAAAATATTTTAC
*
7140063 TTTTCTGTAAAATAACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAACTTACTGGAAAATATTTT
7140096 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 13 0.46
35 15 0.54
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATAACTTACTGGAAAATATTTTAC
Found at i:7141466 original size:27 final size:27
Alignment explanation
Indices: 7141436--7141505 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
7141426 AATAATCAAT
*
7141436 TCAATATCCAACAATGTTAAAACATA-A
1 TCAATATCCAACAAT-TCAAAACATATA
* *
7141463 TCAATATCTAACAAATTCAAGACATATA
1 TCAATATCCAAC-AATTCAAAACATATA
*
7141491 TCAAAATCCAACAAT
1 TCAATATCCAACAAT
7141506 CTAAAATTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.51, C:0.20, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCCAACAATTCAAAACATATA
Found at i:7143415 original size:58 final size:56
Alignment explanation
Indices: 7143366--7143512 Score: 170
Period size: 58 Copynumber: 2.6 Consensus size: 56
7143356 TTTACTTCAA
7143366 TATAAACAAAAAAATTTGACAATGTTATAAA-TTTTTTTATTTCTATTTTTTATAATTT
1 TATAAA-AAAAAAATTTGACAATGTTATAAATTTTTTTTATTTCTATTTTTTATAA--T
* ** *
7143424 TTTAAATTATAAATTTGACAATGTTATAAATTTTTTTTATTTCTATTTTTTATAATTT
1 TATAAAAAAAAAATTTGACAATGTTATAAATTTTTTTTATTTCTATTTTTTATAA--T
* ** *
7143482 TTTAAATTATAAATTTGACAATGTTATAAAT
1 TATAAAAAAAAAATTTGACAATGTTATAAAT
7143513 AATGTTTAAC
Statistics
Matches: 84, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
57 21 0.25
58 63 0.75
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (56 bp):
TATAAAAAAAAAATTTGACAATGTTATAAATTTTTTTTATTTCTATTTTTTATAAT
Found at i:7144288 original size:14 final size:14
Alignment explanation
Indices: 7144269--7144296 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7144259 TCTTTAAAAA
7144269 GAATTAACTTATTT
1 GAATTAACTTATTT
7144283 GAATTAACTTATTT
1 GAATTAACTTATTT
7144297 TTAAAGGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
GAATTAACTTATTT
Found at i:7147444 original size:16 final size:16
Alignment explanation
Indices: 7147425--7147457 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7147415 TTCATGTTAC
*
7147425 TTTGGTTATCCTTTGT
1 TTTGCTTATCCTTTGT
7147441 TTTGCTTATCCTTTGT
1 TTTGCTTATCCTTTGT
7147457 T
1 T
7147458 ATATTGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.15, G:0.15, T:0.64
Consensus pattern (16 bp):
TTTGCTTATCCTTTGT
Found at i:7149827 original size:16 final size:16
Alignment explanation
Indices: 7149806--7149847 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
7149796 TTATTAAATT
*
7149806 ATATATTTTAATTATA
1 ATATATTTTAATAATA
7149822 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
7149837 AT-TATGTTTAA
1 ATATAT-TTTAA
7149848 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:7149832 original size:15 final size:15
Alignment explanation
Indices: 7149797--7149838 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
7149787 TTAAGAATTT
*
7149797 TATTAAATTAT-ATA
1 TATTTAATTATAATA
7149811 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
7149825 TATTTAATAATAAT
1 TATTTAATTATAAT
7149839 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:7150073 original size:45 final size:44
Alignment explanation
Indices: 7149992--7150082 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
7149982 ACTTCTATTC
*
7149992 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCATTA
*** *
7150036 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCCATTA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTATTCCATTA
7150081 CA
1 CA
7150083 CCTCTATTCC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 16 0.39
45 25 0.61
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCATTA
Found at i:7150082 original size:16 final size:16
Alignment explanation
Indices: 7150061--7150104 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
7150051 TTGATTTGCT
7150061 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
7150077 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
7150093 ATTACGCCTCTA
1 ATTACACCTCTA
7150105 ATCTAATACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.25, C:0.36, G:0.02, T:0.36
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:7151121 original size:18 final size:18
Alignment explanation
Indices: 7151090--7151150 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
7151080 AAATCTTATA
*
7151090 ATTTTTACAA-TTTTAAT
1 ATTTTTAAAATTTTTAAT
7151107 ATTTTTAAAATTTTTAAT
1 ATTTTTAAAATTTTTAAT
* *
7151125 GTTTTTCAAAATTATTTAGT
1 ATTTTT-AAAATT-TTTAAT
7151145 ATTTTT
1 ATTTTT
7151151 TTTACATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
17 9 0.24
18 12 0.32
19 6 0.16
20 10 0.27
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (18 bp):
ATTTTTAAAATTTTTAAT
Found at i:7151233 original size:20 final size:20
Alignment explanation
Indices: 7151204--7151261 Score: 91
Period size: 20 Copynumber: 2.9 Consensus size: 20
7151194 TTTATAACAT
*
7151204 TTTAATATTTTAAAA-AAAC
1 TTTAATATTTTAAAATAAAA
7151223 TTTATATATTTTAAAATAAAA
1 TTTA-ATATTTTAAAATAAAA
7151244 TTTAATATTTTAAAATAA
1 TTTAATATTTTAAAATAA
7151262 TTTTTACTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
19 4 0.11
20 25 0.69
21 7 0.19
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTAATATTTTAAAATAAAA
Found at i:7151267 original size:20 final size:20
Alignment explanation
Indices: 7151197--7151267 Score: 90
Period size: 20 Copynumber: 3.5 Consensus size: 20
7151187 TACAATTTTT
7151197 ATAACATTTTAATATTTTAAA
1 ATAA-ATTTTAATATTTTAAA
*
7151218 A-AAACTTTATATATTTTAAA
1 ATAAATTTTA-ATATTTTAAA
*
7151238 ATAAAATTTAATATTTTAAA
1 ATAAATTTTAATATTTTAAA
*
7151258 ATAATTTTTA
1 ATAAATTTTA
7151268 CTAATTAGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
19 5 0.11
20 31 0.70
21 8 0.18
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (20 bp):
ATAAATTTTAATATTTTAAA
Done.