Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 106 of 135
Found at i:32578410 original size:8 final size:8
Alignment explanation
Indices: 32578397--32578423 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
32578387 AACATAAAAT
32578397 AAAATTTA
1 AAAATTTA
32578405 AAAATTTA
1 AAAATTTA
32578413 AAAATTTA
1 AAAATTTA
32578421 AAA
1 AAA
32578424 GGAGATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AAAATTTA
Found at i:32581436 original size:7 final size:7
Alignment explanation
Indices: 32581424--32581448 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
32581414 GTGCTGTTCA
32581424 TCATCAT
1 TCATCAT
32581431 TCATCAT
1 TCATCAT
32581438 TCATCAT
1 TCATCAT
32581445 TCAT
1 TCAT
32581449 GTATCTCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (7 bp):
TCATCAT
Found at i:32582696 original size:6 final size:6
Alignment explanation
Indices: 32582678--32582736 Score: 61
Period size: 6 Copynumber: 10.0 Consensus size: 6
32582668 TTAAATTGAT
* *
32582678 TTTAAA TTT--A TTTAAA TTTAAA TTTAATTA TTTAGA TTT-AC TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAA--A TTTAAA TTTAAA TTTAAA
32582725 TTTAAA TTTAAA
1 TTTAAA TTTAAA
32582737 ATAAAATTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
4 4 0.09
5 3 0.07
6 32 0.73
8 5 0.11
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:32582706 original size:11 final size:11
Alignment explanation
Indices: 32582668--32582736 Score: 56
Period size: 11 Copynumber: 6.5 Consensus size: 11
32582658 TAATTTGGAG
* *
32582668 TTAAATTGATT
1 TTAAATTTAAT
32582679 TTAAATTT-AT
1 TTAAATTTAAT
32582689 TTAAATTTAAAT
1 TTAAATTT-AAT
32582701 TT-AA-TT-AT
1 TTAAATTTAAT
* *
32582709 TTAGATTTACT
1 TTAAATTTAAT
32582720 TTAAATTTAAAT
1 TTAAATTT-AAT
32582732 TTAAA
1 TTAAA
32582737 ATAAAATTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
8 4 0.09
9 1 0.02
10 13 0.28
11 17 0.37
12 11 0.24
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:32583134 original size:25 final size:25
Alignment explanation
Indices: 32583092--32583140 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
32583082 AAAGGGTTAG
32583092 AAAACCCTGTTCTTAAAATCAATAA
1 AAAACCCTGTTCTTAAAATCAATAA
32583117 AAAACCC-GTTCTTGAAAATCAATA
1 AAAACCCTGTTCTT-AAAATCAATA
32583141 GAGGCAGCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.47, C:0.20, G:0.06, T:0.27
Consensus pattern (25 bp):
AAAACCCTGTTCTTAAAATCAATAA
Found at i:32583529 original size:13 final size:13
Alignment explanation
Indices: 32583511--32583548 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
32583501 TAATGACATT
*
32583511 AATATTACTAATA
1 AATATTAATAATA
*
32583524 AATATTATTAATA
1 AATATTAATAATA
32583537 AATATTAATAAT
1 AATATTAATAAT
32583549 CTAATAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (13 bp):
AATATTAATAATA
Found at i:32583645 original size:38 final size:38
Alignment explanation
Indices: 32583594--32583681 Score: 176
Period size: 38 Copynumber: 2.3 Consensus size: 38
32583584 TATTGTTGCT
32583594 TCGCCGTCGTTGATGCACCGCCGTCGGAACCACCATCG
1 TCGCCGTCGTTGATGCACCGCCGTCGGAACCACCATCG
32583632 TCGCCGTCGTTGATGCACCGCCGTCGGAACCACCATCG
1 TCGCCGTCGTTGATGCACCGCCGTCGGAACCACCATCG
32583670 TCGCCGTCGTTG
1 TCGCCGTCGTTG
32583682 TTAGGACCTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.14, C:0.39, G:0.27, T:0.20
Consensus pattern (38 bp):
TCGCCGTCGTTGATGCACCGCCGTCGGAACCACCATCG
Found at i:32584634 original size:30 final size:30
Alignment explanation
Indices: 32584583--32584900 Score: 336
Period size: 30 Copynumber: 10.6 Consensus size: 30
32584573 AAATTGTCCA
* * *
32584583 AAAATTACA-TTTCAACCCAAAACTTTTTG
1 AAAATTACATTTTGACCCCAAAACTTTTTC
*
32584612 AAAATTACATTTTGACCCCAAAACTTTCT-
1 AAAATTACATTTTGACCCCAAAACTTTTTC
* * *
32584641 AGAAATTATATTTTAACCCCAAAACTTTTCC
1 A-AAATTACATTTTGACCCCAAAACTTTTTC
* *
32584672 AAAATTACATTTTGACCCCTAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTTC
* * *
32584702 AAAATTATATTTTGACCCTAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTTC
* *
32584732 AAAATTATATTTTGACCCTAAAAC-TTTTC
1 AAAATTACATTTTGACCCCAAAACTTTTTC
* * *
32584761 TAAAATTACATTTTGACCCTAAAACTTTCTA
1 -AAAATTACATTTTGACCCCAAAACTTTTTC
* * * * *
32584792 AAAATTATATTTTGGCCCTAAAACTTTCTA
1 AAAATTACATTTTGACCCCAAAACTTTTTC
* * *
32584822 AAAATTACATTTTGACCCCAAAACATTCTA
1 AAAATTACATTTTGACCCCAAAACTTTTTC
* *
32584852 AAAATTACATTTTGACCCCTAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTTC
* *
32584882 AAAATCATATTTTGACCCC
1 AAAATTACATTTTGACCCC
32584901 GTAATTTCCA
Statistics
Matches: 254, Mismatches: 30, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
29 14 0.06
30 236 0.93
31 4 0.02
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.36
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCAAAACTTTTTC
Found at i:32584668 original size:60 final size:60
Alignment explanation
Indices: 32584583--32584937 Score: 367
Period size: 60 Copynumber: 5.9 Consensus size: 60
32584573 AAATTGTCCA
* * *
32584583 AAAATTACA-TTTCAACCCAAAACTTTTTGAAAATTACATTTTGACCCCAAAAC-TTTCT
1 AAAATTACATTTTGACCCCAAAACTTTTTAAAAATTACATTTTGACCCCAAAACTTTTCT
* * ** * *
32584641 AGAAATTATATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACCCCTAAACTTTTCC
1 A-AAATTACATTTTGACCCCAAAACTTTTTAAAAATTACATTTTGACCCCAAAACTTTTCT
* * ** * *
32584702 AAAATTATATTTTGACCCTAAAACTTTTCCAAAATTATATTTTGACCCTAAAACTTTTCT
1 AAAATTACATTTTGACCCCAAAACTTTTTAAAAATTACATTTTGACCCCAAAACTTTTCT
* * * * *
32584762 AAAATTACATTTTGACCCTAAAACTTTCTAAAAATTATATTTTGGCCCTAAAAC-TTTCT
1 AAAATTACATTTTGACCCCAAAACTTTTTAAAAATTACATTTTGACCCCAAAACTTTTCT
* * * *
32584821 AAAAATTACATTTTGACCCCAAAACATTCTAAAAATTACATTTTGACCCCTAAACTTTTCC
1 -AAAATTACATTTTGACCCCAAAACTTTTTAAAAATTACATTTTGACCCCAAAACTTTTCT
* * ** ** * *
32584882 AAAATCATATTTTGACCCCGTAA-TTTCCAAAAAATTACATTTTTACCCCGAAACTT
1 AAAATTACATTTTGACCCCAAAACTTT-TTAAAAATTACATTTTGACCCCAAAACTT
32584938 CAAAAATTAT
Statistics
Matches: 258, Mismatches: 33, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
58 1 0.00
59 14 0.05
60 234 0.91
61 9 0.03
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.36
Consensus pattern (60 bp):
AAAATTACATTTTGACCCCAAAACTTTTTAAAAATTACATTTTGACCCCAAAACTTTTCT
Found at i:32584737 original size:90 final size:89
Alignment explanation
Indices: 32584581--32584965 Score: 399
Period size: 90 Copynumber: 4.3 Consensus size: 89
32584571 CTAAATTGTC
* * * ** * * *
32584581 CAAAAATTACA-TTTCAACCCAAAACTTTTTGAAAATTACATTTTGACCCCAAAACTTTCTAGAA
1 CAAAAATTACATTTTGACCCCTAAACTTTTCCAAAATTATATTTTGACCCTAAAACTTTC-AAAA
*
32584645 ATTATATTTTAACCCCAAAACTTTT
65 ATTATATTTTGACCCCAAAACTTTT
* *
32584670 CCAAAATTACATTTTGACCCCTAAACTTTTCCAAAATTATATTTTGACCCTAAAACTTTTCCAAA
1 CAAAAATTACATTTTGACCCCTAAACTTTTCCAAAATTATATTTTGACCCTAAAAC-TTTCAAAA
*
32584735 ATTATATTTTGACCCTAAAACTTTT
65 ATTATATTTTGACCCCAAAACTTTT
* * *
32584760 CTAAAATTACATTTTGA-CCCTAAAAC-TTTCTAAAAATTATATTTTGGCCCTAAAACTTTCTAA
1 CAAAAATTACATTTTGACCCCT-AAACTTTTC-CAAAATTATATTTTGACCCTAAAACTTTC-AA
* *
32584823 AAATTACATTTTGACCCCAAAAC-ATT
63 AAATTATATTTTGACCCCAAAACTTTT
* ***
32584849 CTAAAAATTACATTTTGACCCCTAAACTTTTCCAAAATCATATTTTGACCCCGTAA-TTTCCAAA
1 C-AAAAATTACATTTTGACCCCTAAACTTTTCCAAAATTATATTTTGACCCTAAAACTTT-C-AA
* * *
32584913 AAATTACATTTTTACCCCGAAAC--TT
63 AAATTATATTTTGACCCCAAAACTTTT
* *
32584938 CAAAAATTATCA-TTTCACCCCCAAACTT
1 CAAAAATTA-CATTTTGACCCCTAAACTT
32584966 CCTTAAATCC
Statistics
Matches: 255, Mismatches: 31, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
88 22 0.09
89 33 0.13
90 188 0.74
91 12 0.05
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.36
Consensus pattern (89 bp):
CAAAAATTACATTTTGACCCCTAAACTTTTCCAAAATTATATTTTGACCCTAAAACTTTCAAAAA
TTATATTTTGACCCCAAAACTTTT
Found at i:32584957 original size:28 final size:28
Alignment explanation
Indices: 32584581--32584966 Score: 146
Period size: 30 Copynumber: 13.0 Consensus size: 28
32584571 CTAAATTGTC
* *
32584581 CAAAAATTACA-TTTCAACCCAAAACTTTT
1 CAAAAATTACATTTTCACCCCCAAAC--TT
** * *
32584610 TGAAAATTACATTTTGACCCCAAAACTTT
1 CAAAAATTACATTTTCACCCCCAAAC-TT
* * * *
32584639 CTAGAAATTATATTTTAACCCCAAAACTTTT
1 C-AAAAATTACATTTTCACCCCCAAAC--TT
* * *
32584670 CCAAAATTACATTTTGACCCCTAAACTTTT
1 CAAAAATTACATTTTCACCCCCAAAC--TT
* * * **
32584700 CCAAAATTATATTTTGACCCTAAAACTTTT
1 CAAAAATTACATTTTCACCCCCAAAC--TT
* * * **
32584730 CCAAAATTATATTTTGACCCTAAAACTTTT
1 CAAAAATTACATTTTCACCCCCAAAC--TT
* * **
32584760 CTAAAATTACATTTTGACCCTAAAACTTT
1 CAAAAATTACATTTTCACCCCCAAAC-TT
* ** **
32584789 CTAAAAATTATATTTTGGCCCTAAAACTTT
1 C-AAAAATTACATTTTCACCCCCAAAC-TT
* *
32584819 CTAAAAATTACATTTTGACCCCAAAACATT
1 C-AAAAATTACATTTTCACCCCCAAAC-TT
* *
32584849 CTAAAAATTACATTTTGACCCCTAAACTTTT
1 C-AAAAATTACATTTTCACCCCCAAAC--TT
* * * * ** *
32584880 CCAAAATCATATTTTGACCCCGTAATTT
1 CAAAAATTACATTTTCACCCCCAAACTT
* *
32584908 CCAAAAAATTACATTTTTACCCCGAAACTT
1 -C-AAAAATTACATTTTCACCCCCAAACTT
32584938 CAAAAATTATCA-TTTCACCCCCAAACTT
1 CAAAAATTA-CATTTTCACCCCCAAACTT
32584966 C
1 C
32584967 CTTAAATCCC
Statistics
Matches: 307, Mismatches: 42, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
28 25 0.08
29 20 0.07
30 255 0.83
31 7 0.02
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.35
Consensus pattern (28 bp):
CAAAAATTACATTTTCACCCCCAAACTT
Found at i:32584973 original size:29 final size:29
Alignment explanation
Indices: 32584941--32585031 Score: 67
Period size: 28 Copynumber: 3.1 Consensus size: 29
32584931 GAAACTTCAA
32584941 AAATTATCATTTCACCCCCAAACTTCCTT
1 AAATTATCATTTCACCCCCAAACTTCCTT
** * * ** * * *
32584970 AAA-TCCCTTTTTAAACCCTAATTTCACTA
1 AAATTATCATTTCACCCCCAAACTTC-CTT
* *
32584999 AAATTATCATTTCACCCTCAAACTTCCCT
1 AAATTATCATTTCACCCCCAAACTTCCTT
32585028 AAAT
1 AAAT
32585032 CTTATTTTTA
Statistics
Matches: 40, Mismatches: 20, Indels: 4
0.62 0.31 0.06
Matches are distributed among these distances:
28 14 0.35
29 13 0.32
30 13 0.32
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.35
Consensus pattern (29 bp):
AAATTATCATTTCACCCCCAAACTTCCTT
Found at i:32585002 original size:58 final size:58
Alignment explanation
Indices: 32584940--32585069 Score: 172
Period size: 58 Copynumber: 2.2 Consensus size: 58
32584930 CGAAACTTCA
* *
32584940 AAAATTATCATTTCACCCCCAAACTTCCTTAAATCCCT-TTTTAAACCCTAATTTCACT
1 AAAATTATCATTTCACCCCCAAACTTCCCTAAAT-CCTATTTTAAACCCCAATTTCACT
* * * *
32584998 AAAATTATCATTTCACCCTCAAACTTCCCTAAATCTTATTTTTAACCCCGATTTCACT
1 AAAATTATCATTTCACCCCCAAACTTCCCTAAATCCTATTTTAAACCCCAATTTCACT
*
32585056 AAAATCTACCATTT
1 AAAAT-TATCATTT
32585070 TATCCCCGGG
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
57 2 0.03
58 54 0.86
59 7 0.11
ACGTcount: A:0.33, C:0.29, G:0.01, T:0.37
Consensus pattern (58 bp):
AAAATTATCATTTCACCCCCAAACTTCCCTAAATCCTATTTTAAACCCCAATTTCACT
Found at i:32596886 original size:68 final size:68
Alignment explanation
Indices: 32596777--32597998 Score: 2156
Period size: 68 Copynumber: 17.9 Consensus size: 68
32596767 AGATCATTTC
*
32596777 TCATCCCCTTGAAATTGAAGTAAAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
*
32596842 ATG
66 ACG
*
32596845 TCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
32596910 ACG
66 ACG
*
32596913 TCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
32596978 ACG
66 ACG
* *
32596981 TCATCCCTTTGAAATTGAAATAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
32597046 ACG
66 ACG
* *
32597049 TCATCCCCTTGAAATGGAAGTAGAGTGGATAACACGTCTTTATCTTTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
32597114 ACG
66 ACG
* *
32597117 TCATCCCCTTGAAATTAAAGTAGAGTGGATAACACGTCTTTATCTCTGAAAATGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
32597182 ACG
66 ACG
*
32597185 TCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
32597250 ACG
66 ACG
*
32597253 TCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
32597318 ACG
66 ACG
** *
32597321 TCATCCTTTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGTA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
32597386 ACG
66 ACG
32597389 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
32597454 ACG
66 ACG
*
32597457 TCATCCCCTTGAAATGGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
32597522 ACG
66 ACG
32597525 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
32597590 ACG
66 ACG
* *
32597593 TCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTTTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
32597658 ACG
66 ACG
*
32597661 TCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
32597726 ACG
66 ACG
*
32597729 TCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
32597794 ACG
66 ACG
*
32597797 TCATCCCCTTGAAATTGAAGTAAAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
32597862 ACG
66 ACG
* *
32597865 TCATCCCCTTGAAATGGAAGTAGAGTGGATAACACGTCTTTATCTTTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
32597930 ACG
66 ACG
* * * * **
32597933 TCATCCCTTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCTTCTGAAATTGAAGTAAGA
1 TCATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTAT-C-TCTGAAATTGAAGTAAGA
32597998 G
63 G
32597999 TAAGACGAAG
Statistics
Matches: 1111, Mismatches: 40, Indels: 3
0.96 0.03 0.00
Matches are distributed among these distances:
68 1078 0.97
69 14 0.01
70 1 0.00
71 18 0.02
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.29
Consensus pattern (68 bp):
TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
ACG
Found at i:32598098 original size:92 final size:92
Alignment explanation
Indices: 32597941--32598198 Score: 489
Period size: 92 Copynumber: 2.8 Consensus size: 92
32597931 CGTCATCCCT
*
32597941 TTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCTTCTGAAATTGAAGTAAGAGTAAGACG
1 TTGAAATTGAAGTAAAGCTGGAAAACAAGCCTTCGTCCTTCTGAAATTGAAGTAAGAGTAAGACG
32598006 AAGCATCAACGTCATTTTCCTATCCTC
66 AAGCATCAACGTCATTTTCCTATCCTC
32598033 TTGAAATTGAAGTAAAGCTGGAAAACAAGCCTTCGTCCTTCTGAAATTGAAGTAAGAGTAAGACG
1 TTGAAATTGAAGTAAAGCTGGAAAACAAGCCTTCGTCCTTCTGAAATTGAAGTAAGAGTAAGACG
32598098 AAGCATCAACGTCATTTTCCTATCCTC
66 AAGCATCAACGTCATTTTCCTATCCTC
* *
32598125 TTGAAATTGAAGTAAAGCTGGAAAACAAGCCTTCGTCCTTCTGAAATTGAAGTAAGAGTAAAATG
1 TTGAAATTGAAGTAAAGCTGGAAAACAAGCCTTCGTCCTTCTGAAATTGAAGTAAGAGTAAGACG
32598190 AAGCATCAA
66 AAGCATCAA
32598199 ACCTACTTTT
Statistics
Matches: 163, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 163 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (92 bp):
TTGAAATTGAAGTAAAGCTGGAAAACAAGCCTTCGTCCTTCTGAAATTGAAGTAAGAGTAAGACG
AAGCATCAACGTCATTTTCCTATCCTC
Found at i:32598477 original size:27 final size:27
Alignment explanation
Indices: 32598447--32598501 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
32598437 TTTTGTTTTA
* *
32598447 ATTTAGAGTTAAATTGATTTTAAATTT
1 ATTTAAAGTTAAATTGATCTTAAATTT
* *
32598474 ATTTAAATTTAAATTTATCTTAAATTT
1 ATTTAAAGTTAAATTGATCTTAAATTT
32598501 A
1 A
32598502 AATTTAATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (27 bp):
ATTTAAAGTTAAATTGATCTTAAATTT
Found at i:32598483 original size:6 final size:6
Alignment explanation
Indices: 32598465--32598540 Score: 72
Period size: 6 Copynumber: 13.0 Consensus size: 6
32598455 TTAAATTGAT
32598465 TTTAAA TTT--A TTTAAA TTTAAA TTT--A TCTTAAA TTTAAA TTTAATTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTAA--A
* *
32598512 TTTAGA TTT-AC TTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
32598541 ATAAAATTAA
Statistics
Matches: 58, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
4 6 0.10
5 5 0.09
6 40 0.69
7 2 0.03
8 5 0.09
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:32598483 original size:17 final size:16
Alignment explanation
Indices: 32598465--32598538 Score: 98
Period size: 17 Copynumber: 4.6 Consensus size: 16
32598455 TTAAATTGAT
32598465 TTTAAATTTATTTAAA
1 TTTAAATTTATTTAAA
32598481 TTTAAATTTATCTTAAA
1 TTTAAATTTAT-TTAAA
*
32598498 TTTAAATTTAATT--A
1 TTTAAATTTATTTAAA
*
32598512 TTTAGATTTACTTTAAA
1 TTTAAATTTA-TTTAAA
32598529 TTTAAATTTA
1 TTTAAATTTA
32598539 AAATAAAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
14 10 0.20
15 2 0.04
16 13 0.26
17 25 0.50
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:32598510 original size:11 final size:11
Alignment explanation
Indices: 32598455--32598540 Score: 57
Period size: 11 Copynumber: 7.5 Consensus size: 11
32598445 TAATTTAGAG
* *
32598455 TTAAATTGATT
1 TTAAATTTAAT
32598466 TTAAATTT-AT
1 TTAAATTTAAT
32598476 TTAAATTTAAAT
1 TTAAATTT-AAT
** *
32598488 TTATCTTAAAT
1 TTAAATTTAAT
32598499 TTAAATTTAATTAT
1 TTAAATTT-A--AT
* *
32598513 TTAGATTTACT
1 TTAAATTTAAT
32598524 TTAAATTTAAAT
1 TTAAATTT-AAT
32598536 TTAAA
1 TTAAA
32598541 ATAAAATTAA
Statistics
Matches: 57, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
10 9 0.16
11 23 0.40
12 15 0.26
13 1 0.02
14 9 0.16
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:32598521 original size:31 final size:32
Alignment explanation
Indices: 32598465--32598539 Score: 100
Period size: 31 Copynumber: 2.3 Consensus size: 32
32598455 TTAAATTGAT
*
32598465 TTTAAATTTATTTAAATTTAAATTTA-TCTTAAA
1 TTTAAATTTAATT-AATTTAAATTTACT-TTAAA
*
32598498 TTTAAATTTAATT-ATTTAGATTTACTTTAAA
1 TTTAAATTTAATTAATTTAAATTTACTTTAAA
32598529 TTTAAATTTAA
1 TTTAAATTTAA
32598540 AATAAAATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
31 26 0.67
32 1 0.03
33 12 0.31
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (32 bp):
TTTAAATTTAATTAATTTAAATTTACTTTAAA
Found at i:32598545 original size:17 final size:16
Alignment explanation
Indices: 32598465--32598551 Score: 52
Period size: 17 Copynumber: 5.4 Consensus size: 16
32598455 TTAAATTGAT
**
32598465 TTTAAATTTATTTAAA
1 TTTAAATTTAAATAAA
**
32598481 TTTAAATTTATCTTAAA
1 TTTAAATTTA-AATAAA
*
32598498 TTTAAATTT-AAT-TA
1 TTTAAATTTAAATAAA
* **
32598512 TTTAGATTTACTTTAAA
1 TTTAAATTTA-AATAAA
32598529 TTTAAATTTAAAATAAA
1 TTTAAATTT-AAATAAA
*
32598546 ATTAAA
1 TTTAAA
32598552 ATACTAAACA
Statistics
Matches: 54, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
14 9 0.17
15 1 0.02
16 11 0.20
17 32 0.59
18 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:32598938 original size:25 final size:25
Alignment explanation
Indices: 32598896--32598944 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
32598886 AAAGGGTTAG
*
32598896 AAAACCCTGTTCTTAAAATCAATAA
1 AAAACCCTGTTCTGAAAATCAATAA
32598921 AAAACCC-GTTCCTGAAAATCAATA
1 AAAACCCTGTT-CTGAAAATCAATA
32598945 GAGGCAGCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 19 0.86
ACGTcount: A:0.47, C:0.22, G:0.06, T:0.24
Consensus pattern (25 bp):
AAAACCCTGTTCTGAAAATCAATAA
Found at i:32599333 original size:13 final size:13
Alignment explanation
Indices: 32599315--32599352 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
32599305 TAATGACATT
*
32599315 AATATTACTAATA
1 AATATTAATAATA
*
32599328 AATATTATTAATA
1 AATATTAATAATA
32599341 AATATTAATAAT
1 AATATTAATAAT
32599353 CTAATAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (13 bp):
AATATTAATAATA
Found at i:32599449 original size:38 final size:38
Alignment explanation
Indices: 32599398--32599479 Score: 164
Period size: 38 Copynumber: 2.2 Consensus size: 38
32599388 TATTGTTGCT
32599398 TCGCCGTCGTTGATGCACCGTCGTCGGAACCACCATCG
1 TCGCCGTCGTTGATGCACCGTCGTCGGAACCACCATCG
32599436 TCGCCGTCGTTGATGCACCGTCGTCGGAACCACCATCG
1 TCGCCGTCGTTGATGCACCGTCGTCGGAACCACCATCG
32599474 TCGCCG
1 TCGCCG
32599480 CTGTTGTTAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.15, C:0.38, G:0.27, T:0.21
Consensus pattern (38 bp):
TCGCCGTCGTTGATGCACCGTCGTCGGAACCACCATCG
Found at i:32600425 original size:30 final size:30
Alignment explanation
Indices: 32600384--32600801 Score: 390
Period size: 30 Copynumber: 14.0 Consensus size: 30
32600374 CCTTAAATTG
* * *
32600384 TCTAGAAATTACATTTCGATCCCAAAACTT
1 TCTAAAAATTACATTTTGACCCCAAAACTT
*
32600414 TCTAAAAATTACATTTTAACCCCAAAACTT
1 TCTAAAAATTACATTTTGACCCCAAAACTT
* *
32600444 TCTAAAAATTATATTTTGACCCTAAAACTT
1 TCTAAAAATTACATTTTGACCCCAAAACTT
* *
32600474 T-TCCAAAATTACATTTTGACCCCTAAACTTT
1 TCT-AAAAATTACATTTTGACCCCAAAAC-TT
*
32600505 TCT-AAAATTATATTTTGACCCCAAAACTT
1 TCTAAAAATTACATTTTGACCCCAAAACTT
* * *
32600534 T-TCCAAAATTATATTTTGACCCTAAAACTT
1 TCT-AAAAATTACATTTTGACCCCAAAACTT
* *
32600564 T-TCCAAAATTACATTTTAACCCCAAAACTT
1 TCT-AAAAATTACATTTTGACCCCAAAACTT
* *
32600594 T-TCCAAAATTACATTTTGACCCTAAAACTT
1 TCT-AAAAATTACATTTTGACCCCAAAACTT
* **
32600624 TCTAAAAATTATATTTT-AGCCTTAAAACTT
1 TCTAAAAATTACATTTTGA-CCCCAAAACTT
32600654 TCTAAAAATTACATTTTGACCCCAAAACTT
1 TCTAAAAATTACATTTTGACCCCAAAACTT
* **
32600684 TCTAAAAATTACATTTTAACCCTTAAACTT
1 TCTAAAAATTACATTTTGACCCCAAAACTT
* * * **
32600714 T-TCCAAAATCATATTTTGACCCCGCAA-TT
1 TCT-AAAAATTACATTTTGACCCCAAAACTT
* * *
32600743 TCCAAAAAATTACATTTTTACCCCGAAAC-T
1 T-CTAAAAATTACATTTTGACCCCAAAACTT
* *
32600773 TC-AAAAATTACCA-TTTCACCCCCAAACTT
1 TCTAAAAATTA-CATTTTGACCCCAAAACTT
32600802 CCATAAATCC
Statistics
Matches: 331, Mismatches: 43, Indels: 29
0.82 0.11 0.07
Matches are distributed among these distances:
28 21 0.06
29 13 0.04
30 291 0.88
31 5 0.02
32 1 0.00
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.36
Consensus pattern (30 bp):
TCTAAAAATTACATTTTGACCCCAAAACTT
Found at i:32600542 original size:90 final size:90
Alignment explanation
Indices: 32600389--32600798 Score: 462
Period size: 90 Copynumber: 4.6 Consensus size: 90
32600379 AATTGTCTAG
* *
32600389 AAATTACATTTCGATCCCAAAACTTTCTAAAAATTACATTTTAACCCCAAAACTTTCTAAAAATT
1 AAATTACATTTTGACCCCAAAACTTTCTAAAAATTACATTTTAACCCCAAAACTTTCTAAAAATT
32600454 ATATTTTGACCCTAAAACTTTTCCA
66 ATATTTTGACCCTAAAACTTTTCCA
* * * *
32600479 AAATTACATTTTGACCCCTAAACTTTTCT-AAAATTATATTTTGACCCCAAAACTTT-TCCAAAA
1 AAATTACATTTTGACCCCAAAAC-TTTCTAAAAATTACATTTTAACCCCAAAACTTTCT-AAAAA
32600542 TTATATTTTGACCCTAAAACTTTTCCA
64 TTATATTTTGACCCTAAAACTTTTCCA
* * * *
32600569 AAATTACATTTTAACCCCAAAACTTT-TCCAAAATTACATTTTGACCCTAAAACTTTCTAAAAAT
1 AAATTACATTTTGACCCCAAAACTTTCT-AAAAATTACATTTTAACCCCAAAACTTTCTAAAAAT
* *
32600633 TATATTTT-AGCCTTAAAAC-TTTCTAA
65 TATATTTTGA-CCCTAAAACTTTTC-CA
** *
32600659 AAATTACATTTTGACCCCAAAACTTTCTAAAAATTACATTTTAACCCTTAAACTTT-TCCAAAAT
1 AAATTACATTTTGACCCCAAAACTTTCTAAAAATTACATTTTAACCCCAAAACTTTCT-AAAAAT
* ***
32600723 CATATTTTGACCCCGCAA--TTTCCAAA
65 TATATTTTGACCCTAAAACTTTTCC--A
* * * *
32600749 AAATTACATTTTTACCCCGAAAC-TTC-AAAAATTACCATTTCACCCCCAAA
1 AAATTACATTTTGACCCCAAAACTTTCTAAAAATTA-CATTTTAACCCCAAA
32600799 CTTCCATAAA
Statistics
Matches: 277, Mismatches: 30, Indels: 27
0.83 0.09 0.08
Matches are distributed among these distances:
88 9 0.03
89 28 0.10
90 232 0.84
91 8 0.03
ACGTcount: A:0.39, C:0.23, G:0.03, T:0.36
Consensus pattern (90 bp):
AAATTACATTTTGACCCCAAAACTTTCTAAAAATTACATTTTAACCCCAAAACTTTCTAAAAATT
ATATTTTGACCCTAAAACTTTTCCA
Found at i:32600793 original size:28 final size:28
Alignment explanation
Indices: 32600389--32600860 Score: 164
Period size: 30 Copynumber: 15.9 Consensus size: 28
32600379 AATTGTCTAG
* *
32600389 AAATTACA-TTTCGATCCCAAAACTTTCTAA
1 AAATTACATTTTC-ACCCCCAAAC-TTC-AA
* *
32600419 AAATTACATTTTAACCCCAAAACTTTCTAA
1 AAATTACATTTTCACCCCCAAAC-TTC-AA
* * ** *
32600449 AAATTATATTTTGACCCTAAAACTTTTCCA
1 AAATTACATTTTCACCCCCAAAC--TTCAA
* * *
32600479 AAATTACATTTTGACCCCTAAACTTTTCTA
1 AAATTACATTTTCACCCCCAAAC--TTCAA
* * * *
32600509 AAATTATATTTTGACCCCAAAACTTTTCCA
1 AAATTACATTTTCACCCCCAAAC--TTCAA
* * ** *
32600539 AAATTATATTTTGACCCTAAAACTTTTCCA
1 AAATTACATTTTCACCCCCAAAC--TTCAA
* * *
32600569 AAATTACATTTTAACCCCAAAACTTTTCCA
1 AAATTACATTTTCACCCCCAAAC--TTCAA
* **
32600599 AAATTACATTTTGACCCTAAAACTTTCTAA
1 AAATTACATTTTCACCCCCAAAC-TTC-AA
* ***
32600629 AAATTATATTTT-AGCCTTAAAACTTTCTAA
1 AAATTACATTTTCA-CCCCCAAAC-TTC-AA
* *
32600659 AAATTACATTTTGACCCCAAAACTTTCTAA
1 AAATTACATTTTCACCCCCAAAC-TTC-AA
* ** *
32600689 AAATTACATTTTAACCCTTAAACTTTTCCA
1 AAATTACATTTTCACCCCCAAAC--TTCAA
* * * *
32600719 AAATCATATTTTGACCCCGC-AATTTCCAAA
1 AAATTACATTTTCACCCC-CAAACTT-C-AA
* *
32600749 AAATTACATTTTTACCCCGAAACTTCAA
1 AAATTACATTTTCACCCCCAAACTTCAA
*
32600777 AAATTACCA-TTTCACCCCCAAACTTCCAT
1 AAATTA-CATTTTCACCCCCAAACTT-CAA
** * * *
32600806 AAATCCCATTTTAAACCCC-AATTTCACTA
1 AAATTACATTTTCACCCCCAAACTTCA--A
*
32600835 AAATTACCA-TTTCACCCTCAAACTTC
1 AAATTA-CATTTTCACCCCCAAACTTC
32600861 CCTAAATCCT
Statistics
Matches: 369, Mismatches: 56, Indels: 34
0.80 0.12 0.07
Matches are distributed among these distances:
27 2 0.01
28 30 0.08
29 34 0.09
30 291 0.79
31 12 0.03
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.35
Consensus pattern (28 bp):
AAATTACATTTTCACCCCCAAACTTCAA
Found at i:32600809 original size:29 final size:30
Alignment explanation
Indices: 32600749--32600867 Score: 90
Period size: 29 Copynumber: 4.1 Consensus size: 30
32600739 AATTTCCAAA
* * *
32600749 AAATTA-CATTTTTACCCCGAAACTT-CAA
1 AAATTACCATTTTCACCCCCAAACTTCCAT
32600777 AAATTACCA-TTTCACCCCCAAACTTCCAT
1 AAATTACCATTTTCACCCCCAAACTTCCAT
* * * *
32600806 AAA-TCCCATTTTAAACCCC-AA-TTTCACT
1 AAATTACCATTTTCACCCCCAAACTTCCA-T
* *
32600834 AAAATTACCA-TTTCACCCTCAAACTTCCCT
1 -AAATTACCATTTTCACCCCCAAACTTCCAT
32600864 AAAT
1 AAAT
32600868 CCTATTTTTA
Statistics
Matches: 70, Mismatches: 13, Indels: 15
0.71 0.13 0.15
Matches are distributed among these distances:
27 4 0.06
28 27 0.39
29 29 0.41
30 7 0.10
31 3 0.04
ACGTcount: A:0.37, C:0.32, G:0.01, T:0.30
Consensus pattern (30 bp):
AAATTACCATTTTCACCCCCAAACTTCCAT
Found at i:32600824 original size:58 final size:59
Alignment explanation
Indices: 32600762--32600884 Score: 171
Period size: 58 Copynumber: 2.1 Consensus size: 59
32600752 TTACATTTTT
32600762 ACCCCGAAACTTCA-AAAATTACCATTTCACCCCCAAACTTCCATAAATCCCATTTTAA
1 ACCCCGAAACTTCACAAAATTACCATTTCACCCCCAAACTTCCATAAATCCCATTTTAA
* * * * *
32600820 ACCCC--AATTTCACTAAAATTACCATTTCACCCTCAAACTTCCCTAAATCCTATTTTTA
1 ACCCCGAAACTTCAC-AAAATTACCATTTCACCCCCAAACTTCCATAAATCCCATTTTAA
32600878 ACCCCGA
1 ACCCCGA
32600885 TTTTACCAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
56 6 0.11
58 50 0.89
ACGTcount: A:0.35, C:0.35, G:0.02, T:0.28
Consensus pattern (59 bp):
ACCCCGAAACTTCACAAAATTACCATTTCACCCCCAAACTTCCATAAATCCCATTTTAA
Found at i:32600896 original size:58 final size:58
Alignment explanation
Indices: 32600776--32600905 Score: 188
Period size: 58 Copynumber: 2.2 Consensus size: 58
32600766 CGAAACTTCA
*
32600776 AAAATTACCATTTCACCCCCAAACTTCCATAAATCCCATTTTAAACCCCAATTTCACT
1 AAAATTACCATTTCACCCCCAAACTTCCATAAATCCCATTTTAAACCCCAATTTCACC
* * * * * *
32600834 AAAATTACCATTTCACCCTCAAACTTCCCTAAATCCTATTTTTAACCCCGATTTTACC
1 AAAATTACCATTTCACCCCCAAACTTCCATAAATCCCATTTTAAACCCCAATTTCACC
32600892 AAAATCTACCATTT
1 AAAAT-TACCATTT
32600906 TGTCCTCGGG
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
58 56 0.88
59 8 0.12
ACGTcount: A:0.35, C:0.32, G:0.01, T:0.32
Consensus pattern (58 bp):
AAAATTACCATTTCACCCCCAAACTTCCATAAATCCCATTTTAAACCCCAATTTCACC
Found at i:32604893 original size:13 final size:14
Alignment explanation
Indices: 32604877--32604907 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
32604867 CCAAAGTATA
32604877 AAACCCTAAA-CTC
1 AAACCCTAAATCTC
32604890 AAACCCTAAATCTC
1 AAACCCTAAATCTC
32604904 AAAC
1 AAAC
32604908 TTGTAACTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.16
Consensus pattern (14 bp):
AAACCCTAAATCTC
Found at i:32604899 original size:21 final size:21
Alignment explanation
Indices: 32604856--32604899 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
32604846 TTAGAATCTC
**
32604856 AAACCCTAAACCCAAAGTATA
1 AAACCCTAAACCCAAACCATA
* *
32604877 AAACCCTAAACTCAAACCCTA
1 AAACCCTAAACCCAAACCATA
32604898 AA
1 AA
32604900 TCTCAAACTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.52, C:0.32, G:0.02, T:0.14
Consensus pattern (21 bp):
AAACCCTAAACCCAAACCATA
Found at i:32605269 original size:21 final size:21
Alignment explanation
Indices: 32605230--32605277 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
32605220 GAGCTCTAAA
*
32605230 CCTAAACCTTACACATCAAAC
1 CCTAAACCTTAAACATCAAAC
**
32605251 CCTAAACCTTAAATTTCAAAC
1 CCTAAACCTTAAACATCAAAC
32605272 CC-AAAC
1 CCTAAAC
32605278 TCACTACAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.44, C:0.35, G:0.00, T:0.21
Consensus pattern (21 bp):
CCTAAACCTTAAACATCAAAC
Found at i:32605445 original size:40 final size:41
Alignment explanation
Indices: 32605353--32605542 Score: 208
Period size: 40 Copynumber: 4.7 Consensus size: 41
32605343 GGTAAAACAA
*
32605353 TAGCGGCG-TTTCTTCATAAACGCCGCTAAAGATCAGAGGAT
1 TAGCGGCGCTTTC-TCATAAACGCCGCTAAAGATCAGAGCAT
* * * * *
32605394 TAGTGGCGCTTTATCATAAACACCGTTAAAG-TTAGAGCAT
1 TAGCGGCGCTTTCTCATAAACGCCGCTAAAGATCAGAGCAT
* * * *
32605434 TAGCGGCGCTTTCTTACAAACGTCGTTAAAGATCAGAGCAT
1 TAGCGGCGCTTTCTCATAAACGCCGCTAAAGATCAGAGCAT
* *
32605475 TAGCGACGCTTTCCCATAAACGCCGCTAAAGATC-GAGCAT
1 TAGCGGCGCTTTCTCATAAACGCCGCTAAAGATCAGAGCAT
* *
32605515 TAGCGACGCTTT-TCCATAAATGCCGCTA
1 TAGCGGCGCTTTCT-CATAAACGCCGCTA
32605543 TTTTATTTAA
Statistics
Matches: 125, Mismatches: 21, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
40 63 0.50
41 59 0.47
42 3 0.02
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (41 bp):
TAGCGGCGCTTTCTCATAAACGCCGCTAAAGATCAGAGCAT
Found at i:32605493 original size:81 final size:82
Alignment explanation
Indices: 32605353--32605526 Score: 217
Period size: 81 Copynumber: 2.1 Consensus size: 82
32605343 GGTAAAACAA
* * * * *
32605353 TAGCGGCG-TTTCTTCATAAACGCCGCTAAAGATCAGAGGATTAGTGGCGCTTTATCATAAACAC
1 TAGCGGCGCTTTCTTCACAAACGCCGCTAAAGATCAGAGCATTAGCGACGCTTTACCATAAACAC
* *
32605417 CGTTAAAGTTAGAGCAT
66 CGCTAAAGATAGAGCAT
* * * *
32605434 TAGCGGCGCTTTCTT-ACAAACGTCGTTAAAGATCAGAGCATTAGCGACGCTTTCCCATAAACGC
1 TAGCGGCGCTTTCTTCACAAACGCCGCTAAAGATCAGAGCATTAGCGACGCTTTACCATAAACAC
*
32605498 CGCTAAAGATCGAGCAT
66 CGCTAAAGATAGAGCAT
*
32605515 TAGCGACGCTTT
1 TAGCGGCGCTTT
32605527 TCCATAAATG
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
81 73 0.92
82 6 0.08
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (82 bp):
TAGCGGCGCTTTCTTCACAAACGCCGCTAAAGATCAGAGCATTAGCGACGCTTTACCATAAACAC
CGCTAAAGATAGAGCAT
Found at i:32605574 original size:5 final size:5
Alignment explanation
Indices: 32605564--32605593 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
32605554 TTTTATATAT
32605564 ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA
1 ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA
32605594 TTTTCTATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATTAA
Found at i:32605808 original size:17 final size:17
Alignment explanation
Indices: 32605786--32605822 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
32605776 TTGTGAAACC
32605786 TCATATTCAACTAACTA
1 TCATATTCAACTAACTA
*
32605803 TCATATTCCACTAACTA
1 TCATATTCAACTAACTA
32605820 TCA
1 TCA
32605823 ATAAGAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.27, G:0.00, T:0.35
Consensus pattern (17 bp):
TCATATTCAACTAACTA
Found at i:32606741 original size:21 final size:20
Alignment explanation
Indices: 32606717--32606759 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
32606707 TTTATATACA
32606717 TAATAATTT-AAATAATATTTT
1 TAATAATTTCAAAT-AT-TTTT
*
32606738 TAATTATTTCAAATATTTTT
1 TAATAATTTCAAATATTTTT
32606758 TA
1 TA
32606760 CCATCTCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 10 0.50
22 4 0.20
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
TAATAATTTCAAATATTTTT
Found at i:32607046 original size:41 final size:41
Alignment explanation
Indices: 32607000--32607088 Score: 126
Period size: 41 Copynumber: 2.2 Consensus size: 41
32606990 GCAAGAGCAT
* *
32607000 TAGCGGCGTTTAT-GAGAAAAACGCCGCTAAAAGTAAAGTAA
1 TAGCGGCGTTTATAG-GAAAAACACCGCTAAAAGTAAAGAAA
* *
32607041 TAGCGGCGTTTATAGGAAAAACACTGCTAAATGTAAAGAAA
1 TAGCGGCGTTTATAGGAAAAACACCGCTAAAAGTAAAGAAA
32607082 TAGCGGC
1 TAGCGGC
32607089 ATTTTTCCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 42 0.98
42 1 0.02
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (41 bp):
TAGCGGCGTTTATAGGAAAAACACCGCTAAAAGTAAAGAAA
Found at i:32607492 original size:8 final size:7
Alignment explanation
Indices: 32607474--32607530 Score: 55
Period size: 7 Copynumber: 7.9 Consensus size: 7
32607464 TTTTTATTAA
32607474 ATAAAAT
1 ATAAAAT
*
32607481 A-AAATT
1 ATAAAAT
32607487 ATAAAAATT
1 AT-AAAA-T
32607496 ATAAAAT
1 ATAAAAT
32607503 AT-AAAT
1 ATAAAAT
32607509 ATAAAACT
1 ATAAAA-T
32607517 AATAAAAT
1 -ATAAAAT
32607525 ATAAAA
1 ATAAAA
32607531 ATTTGTTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
6 11 0.26
7 13 0.31
8 9 0.21
9 9 0.21
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (7 bp):
ATAAAAT
Found at i:32607499 original size:22 final size:22
Alignment explanation
Indices: 32607473--32607529 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
32607463 TTTTTTATTA
32607473 AATAAAATA-AAATTATAAAAAT
1 AATAAAATATAAA-TATAAAAAT
* *
32607495 TATAAAATATAAATATAAAACT
1 AATAAAATATAAATATAAAAAT
32607517 AATAAAATATAAA
1 AATAAAATATAAA
32607530 AATTTGTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 28 0.90
23 3 0.10
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (22 bp):
AATAAAATATAAATATAAAAAT
Found at i:32607532 original size:30 final size:29
Alignment explanation
Indices: 32607474--32607530 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
32607464 TTTTTATTAA
*
32607474 ATAAAATAAAATTATAAAAATTATAAAAT
1 ATAAAATAAAATAATAAAAATTATAAAAT
32607503 ATAAATATAAAACTAAT-AAAA-TATAAAA
1 ATAAA-ATAAAA-TAATAAAAATTATAAAA
32607531 ATTTGTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 12 0.48
30 10 0.40
31 3 0.12
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (29 bp):
ATAAAATAAAATAATAAAAATTATAAAAT
Found at i:32607627 original size:20 final size:20
Alignment explanation
Indices: 32607602--32607667 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 20
32607592 GCCCCGACAC
32607602 ATTATTTTTATAATTAAAAT
1 ATTATTTTTATAATTAAAAT
* *
32607622 ATTATTTTTATTATT---GT
1 ATTATTTTTATAATTAAAAT
*
32607639 ATT-TATTT-T-ATTAAAAT
1 ATTATTTTTATAATTAAAAT
32607656 ATTATTTTTATA
1 ATTATTTTTATA
32607668 GGTGATATCA
Statistics
Matches: 35, Mismatches: 5, Indels: 12
0.67 0.10 0.23
Matches are distributed among these distances:
14 3 0.09
15 1 0.03
16 4 0.11
17 8 0.23
18 4 0.11
19 1 0.03
20 14 0.40
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
ATTATTTTTATAATTAAAAT
Found at i:32607634 original size:17 final size:17
Alignment explanation
Indices: 32607614--32607666 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
32607604 TATTTTTATA
32607614 ATTAAAATATTATTTTT
1 ATTAAAATATTATTTTT
***
32607631 ATTATTGTATT-TATTTT
1 ATTAAAATATTAT-TTTT
32607648 ATTAAAATATTATTTTT
1 ATTAAAATATTATTTTT
32607665 AT
1 AT
32607667 AGGTGATATC
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
16 1 0.04
17 26 0.93
18 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
ATTAAAATATTATTTTT
Found at i:32607940 original size:19 final size:20
Alignment explanation
Indices: 32607916--32607953 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
32607906 TACAAATTCA
32607916 ATAAATAGTTTATT-TTGTT
1 ATAAATAGTTTATTATTGTT
*
32607935 ATAAATATTTTATTATTGT
1 ATAAATAGTTTATTATTGT
32607954 AGAGTTAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
ATAAATAGTTTATTATTGTT
Found at i:32609845 original size:127 final size:127
Alignment explanation
Indices: 32609619--32609850 Score: 313
Period size: 127 Copynumber: 1.8 Consensus size: 127
32609609 TATATATTCG
* * * * *
32609619 CTGTGTATCCACAGCTTAACAAATTACAATTGCGGCAATATGAACAGAGCATCCACGACTTTCTC
1 CTGTGTATCCACAGCTTAACAAATTACAACTGCGACAATATGAACAGAGCATCCACGAATTCCGC
**
32609684 TAATAGCTTTTATCAACGAGGGGTTGTGGATCCTCAACCATATGGTAGCTTGTGTTCACCCT
66 TAATAGCTTTTATCAACGAGGAATTGTGGATCCTCAACCATATGGTAGCTTGTGTTCACCCT
* * * * *
32609746 CTGTGTATCCATAGCTTAGCAGATTCCAACTGCGACTATATGAAC-GAAGCATCCACGAATTCCG
1 CTGTGTATCCACAGCTTAACAAATTACAACTGCGACAATATGAACAG-AGCATCCACGAATTCCG
* * *
32609810 CTGATAGCTTTTATCTATGAGGAATTGTGGATCCTCAACCA
65 CTAATAGCTTTTATCAACGAGGAATTGTGGATCCTCAACCA
32609851 AACGGCAACT
Statistics
Matches: 89, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
126 1 0.01
127 88 0.99
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (127 bp):
CTGTGTATCCACAGCTTAACAAATTACAACTGCGACAATATGAACAGAGCATCCACGAATTCCGC
TAATAGCTTTTATCAACGAGGAATTGTGGATCCTCAACCATATGGTAGCTTGTGTTCACCCT
Found at i:32610339 original size:3 final size:3
Alignment explanation
Indices: 32610331--32610383 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
32610321 TGTTACAAAG
32610331 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
32610379 ATT AT
1 ATT AT
32610384 GGATTCTATG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:32612676 original size:27 final size:27
Alignment explanation
Indices: 32612627--32612682 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
32612617 TTACAAACAG
*
32612627 AATAATATAATTTTTTTGATAAAATAA
1 AATAATATAATTTCTTTGATAAAATAA
*
32612654 AATAATATAATTTACTTTG-TAAAGTAA
1 AATAATATAATTT-CTTTGATAAAATAA
32612681 AA
1 AA
32612683 ATATTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (27 bp):
AATAATATAATTTCTTTGATAAAATAA
Found at i:32620189 original size:21 final size:21
Alignment explanation
Indices: 32620143--32620189 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
32620133 AAAATTTTCT
* *
32620143 AAAAATATTAAAATATATATG
1 AAAAAGATTAAAATATATATA
*
32620164 TAAAAGATCTAAAA-ATATATA
1 AAAAAGAT-TAAAATATATATA
32620185 AAAAA
1 AAAAA
32620190 AAAATCTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (21 bp):
AAAAAGATTAAAATATATATA
Found at i:32624847 original size:19 final size:19
Alignment explanation
Indices: 32624803--32624853 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
32624793 ATAAATATAA
*
32624803 ATTAAATACAAATTTAAAT
1 ATTAAATACATATTTAAAT
**
32624822 AACAAATA-ATATCTTAAAT
1 ATTAAATACATAT-TTAAAT
*
32624841 ATTAAATATATAT
1 ATTAAATACATAT
32624854 ATAATTAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 3 0.12
19 18 0.72
20 4 0.16
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (19 bp):
ATTAAATACATATTTAAAT
Found at i:32625309 original size:13 final size:13
Alignment explanation
Indices: 32625291--32625317 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32625281 AAATTTATAT
32625291 TACCCAAGCCCAA
1 TACCCAAGCCCAA
32625304 TACCCAAGCCCAA
1 TACCCAAGCCCAA
32625317 T
1 T
32625318 TTACTATACC
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:0.37, C:0.44, G:0.07, T:0.11
Consensus pattern (13 bp):
TACCCAAGCCCAA
Found at i:32625472 original size:58 final size:58
Alignment explanation
Indices: 32625407--32625516 Score: 186
Period size: 58 Copynumber: 1.9 Consensus size: 58
32625397 AAATTAAACT
* *
32625407 CAAATATTTTTAAACTCAAATATAATTTTATTCTTCAAA-AACACTTATAAACTAAATC
1 CAAATATTTTTAAACTCAAATATAATTTTATTCCT-AAATAACACTCATAAACTAAATC
32625465 CAAATATTTTTAAACTCAAATATAATTTTATTCCTAAATAACACTCATAAAC
1 CAAATATTTTTAAACTCAAATATAATTTTATTCCTAAATAACACTCATAAAC
32625517 AACTCCTTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
57 3 0.06
58 46 0.94
ACGTcount: A:0.46, C:0.16, G:0.00, T:0.37
Consensus pattern (58 bp):
CAAATATTTTTAAACTCAAATATAATTTTATTCCTAAATAACACTCATAAACTAAATC
Found at i:32645076 original size:50 final size:51
Alignment explanation
Indices: 32644993--32645127 Score: 220
Period size: 50 Copynumber: 2.7 Consensus size: 51
32644983 GCTATAAACG
32644993 AAAGGTCTGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATC
1 AAAGGTCTGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATC
* * *
32645044 AAAGTTC-GATGACTAAATGTCATCGTGAGTAAATGAATCCTTTACGGATT
1 AAAGGTCTGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATC
*
32645094 AAAGGTCTGGTGACTAAGTGTCATCGTGAG-AAAT
1 AAAGGTCTGATGACTAAGTGTCATCGTGAGTAAAT
32645128 AAATGCGAGT
Statistics
Matches: 77, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
50 51 0.66
51 26 0.34
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.30
Consensus pattern (51 bp):
AAAGGTCTGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATC
Found at i:32646202 original size:22 final size:21
Alignment explanation
Indices: 32646176--32646278 Score: 73
Period size: 22 Copynumber: 4.6 Consensus size: 21
32646166 GGCCCAAACC
*
32646176 ATTTACTTTGAAATTTAATTTA
1 ATTTAATTT-AAATTTAATTTA
* *
32646198 ATTTATTTTAATTTTAAATTTA
1 ATTTAATTTAAATTT-AATTTA
* * *
32646220 TTTTAAATTCAATTTTAATTTGA
1 ATTT-AATTTAAATTTAATTT-A
*
32646243 ATTTAATCTAAATTTAATATT-
1 ATTTAATTTAAATTTAAT-TTA
32646264 ATTATAAATTTAAAT
1 ATT-T-AATTTAAAT
32646279 AAAAGAAAGA
Statistics
Matches: 65, Mismatches: 10, Indels: 11
0.76 0.12 0.13
Matches are distributed among these distances:
21 8 0.12
22 34 0.52
23 23 0.35
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (21 bp):
ATTTAATTTAAATTTAATTTA
Found at i:32646213 original size:6 final size:6
Alignment explanation
Indices: 32646189--32646246 Score: 52
Period size: 6 Copynumber: 10.3 Consensus size: 6
32646179 TACTTTGAAA
* * *
32646189 TTTAA- TTTAA- TTT-AT TTTAAT TTTAAA TTT-AT TTTAAA TTCAAT
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT
*
32646233 TTTAAT TTGAAT TT
1 TTTAAT TTTAAT TT
32646247 AATCTAAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
4 1 0.02
5 15 0.35
6 27 0.63
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (6 bp):
TTTAAT
Found at i:32646219 original size:17 final size:15
Alignment explanation
Indices: 32646189--32646249 Score: 59
Period size: 17 Copynumber: 3.7 Consensus size: 15
32646179 TACTTTGAAA
32646189 TTTAATTTAATTTAT
1 TTTAATTTAATTTAT
32646204 TTTAATTTTAAATTTAT
1 TTTAA-TTT-AATTTAT
*
32646221 TTTAAATTCAATTTTAAT
1 TTT-AATTTAA-TTT-AT
*
32646239 TTGAATTTAAT
1 TTTAATTTAAT
32646250 CTAAATTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
15 5 0.13
16 6 0.16
17 21 0.55
18 6 0.16
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (15 bp):
TTTAATTTAATTTAT
Found at i:32646222 original size:4 final size:5
Alignment explanation
Indices: 32646187--32646260 Score: 58
Period size: 5 Copynumber: 13.6 Consensus size: 5
32646177 TTTACTTTGA
* * *
32646187 AATTT AATTT AATTT ATTTT AATTTT AAATTT ATTTT AAATTC AATTTT
1 AATTT AATTT AATTT AATTT AA-TTT -AATTT AATTT -AATTT AA-TTT
*
32646236 AATTT GAATTT AATCTA AATTT AAT
1 AATTT -AATTT AAT-TT AATTT AAT
32646261 ATTATTATAA
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
5 31 0.56
6 22 0.40
7 2 0.04
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (5 bp):
AATTT
Found at i:32646239 original size:11 final size:11
Alignment explanation
Indices: 32646189--32646260 Score: 60
Period size: 11 Copynumber: 6.5 Consensus size: 11
32646179 TACTTTGAAA
32646189 TTTAATTTAA-
1 TTTAATTTAAT
*
32646199 TTTATTTTAAT
1 TTTAATTTAAT
32646210 TTTAAATTT-AT
1 TTT-AATTTAAT
*
32646221 TTTAAATTCAAT
1 TTT-AATTTAAT
32646233 TTTAATTTGAA-
1 TTTAATTT-AAT
* *
32646244 TTTAATCTAAA
1 TTTAATTTAAT
32646255 TTTAAT
1 TTTAAT
32646261 ATTATTATAA
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
10 11 0.21
11 30 0.58
12 11 0.21
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (11 bp):
TTTAATTTAAT
Found at i:32646348 original size:36 final size:37
Alignment explanation
Indices: 32646303--32646372 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
32646293 CCAAAATGTC
* *
32646303 CAAAGTCCAA-ATACATGGCCTAATTGGGCCCAAAACT
1 CAAAGTCCAACATACAAGGCCCAATT-GGCCCAAAACT
32646340 CAAA-TCCAACATACAAGGCCCAATTGGCCCAAA
1 CAAAGTCCAACATACAAGGCCCAATTGGCCCAAA
32646373 CACCCCAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
36 13 0.43
37 17 0.57
ACGTcount: A:0.40, C:0.30, G:0.14, T:0.16
Consensus pattern (37 bp):
CAAAGTCCAACATACAAGGCCCAATTGGCCCAAAACT
Found at i:32646559 original size:28 final size:28
Alignment explanation
Indices: 32646506--32646559 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
32646496 GCAGACCCCT
* * *
32646506 ATCTCCACTTGCTTCTGCCACGGCCATC
1 ATCTCCACGTGCTGCTGCCACCGCCATC
32646534 ATCTCCACGTGCTGCT-CCAACCGCCA
1 ATCTCCACGTGCTGCTGCC-ACCGCCA
32646560 CTGTGGAGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 2 0.09
28 20 0.91
ACGTcount: A:0.17, C:0.44, G:0.15, T:0.24
Consensus pattern (28 bp):
ATCTCCACGTGCTGCTGCCACCGCCATC
Found at i:32648292 original size:30 final size:30
Alignment explanation
Indices: 32648210--32648307 Score: 110
Period size: 30 Copynumber: 3.3 Consensus size: 30
32648200 AAAATTACTG
*
32648210 TTTTACCCCCGAACCTTCT-AAAATT-CCAT
1 TTTTACCCTCGAACC-TCTAAAAATTACCAT
* ** * *
32648239 TTTTAACCTCGATTTCACCAAAAATTACCAT
1 TTTTACCCTCGA-ACCTCTAAAAATTACCAT
32648270 TTTTACCCTCGAACCTCTAAAAATTACCAT
1 TTTTACCCTCGAACCTCTAAAAATTACCAT
32648300 TTTTACCC
1 TTTTACCC
32648308 CCGGGTATCC
Statistics
Matches: 55, Mismatches: 11, Indels: 5
0.77 0.15 0.07
Matches are distributed among these distances:
29 11 0.20
30 29 0.53
31 15 0.27
ACGTcount: A:0.31, C:0.31, G:0.03, T:0.36
Consensus pattern (30 bp):
TTTTACCCTCGAACCTCTAAAAATTACCAT
Found at i:32661052 original size:59 final size:59
Alignment explanation
Indices: 32660977--32661643 Score: 934
Period size: 59 Copynumber: 11.3 Consensus size: 59
32660967 TATGGATACC
* * * *
32660977 CGGGGGCAAAACGGTAATTTTCGGTGAAATCAGGGTTAAAAATGGAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
* * * *
32661036 CGAGGGTAAAATGGTAATTTTTGGGGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
*
32661095 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTT-AAAATGGAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
* * * **
32661153 TGGGGGTGAAATGGTAATTTTTGGTGAAATTAGGGTTAAAAATGGAATTTTA-AGAGATT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGA-AGATT
* * * *
32661212 CGGGGGTAAAATGATAATTTTCGGTGAAATCGGGTTTAAAAACGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
* * *
32661271 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTT-GAAATAGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
* *
32661329 CGGGGGTAAAATGGTAATTTTCGATGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
* *
32661388 CGGGGGTAAAATGGTAATTTTCGATGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
* *
32661447 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAGCAA---AATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAA--AATGGAATTTTAGAAGATT
* *
32661505 CGGGGGTAAAATGGTAATTTTCGATGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
** * *
32661564 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATATAATTTTGGAAAAGTTT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTT--AGAAGATT
*
32661625 GGGGGGTAAAAT-GTAATTT
1 CGGGGGTAAAATGGTAATTT
32661644 CTGGACAATT
Statistics
Matches: 550, Mismatches: 47, Indels: 21
0.89 0.08 0.03
Matches are distributed among these distances:
56 2 0.00
58 160 0.29
59 361 0.66
60 8 0.01
61 19 0.03
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
Found at i:32661166 original size:28 final size:29
Alignment explanation
Indices: 32661015--32661584 Score: 259
Period size: 29 Copynumber: 19.5 Consensus size: 29
32661005 ATCAGGGTTA
*
32661015 AAAATGG-AATTTTAGAAGCTTCGAGGGT
1 AAAATGGTAATTTTAGAAGCTTCGGGGGT
* ** ** *
32661043 AAAATGGTAATTTTTGGGGAAATCGGGGTT
1 AAAATGGTAATTTTAGAAG-CTTCGGGGGT
32661073 AAAAATGG-AATTTTAGAAGCTTCGGGGGT
1 -AAAATGGTAATTTTAGAAGCTTCGGGGGT
* ** ** *
32661102 AAAATGGTAATTTTCGGTGAAATCGGGGTT
1 AAAATGGTAATTTTAGAAG-CTTCGGGGGT
*
32661132 AAAATGG-AATTTTAGAAGCTTTGGGGGT
1 AAAATGGTAATTTTAGAAGCTTCGGGGGT
* * * * *
32661160 GAAATGGTAATTTTTGGTGAA-ATT-AGGGTT
1 AAAATGGTAA-TTTT--AGAAGCTTCGGGGGT
*
32661190 AAAAATGG-AATTTTA-AGAGATTCGGGGGT
1 -AAAATGGTAATTTTAGA-AGCTTCGGGGGT
* * ** ** **
32661219 AAAATGATAATTTTCGGTGAAATCGGGTTT
1 AAAATGGTAATTTTAGAAG-CTTCGGGGGT
* * *
32661249 AAAAACGG-AATTTTAAAAGATTCGGGGGT
1 -AAAATGGTAATTTTAGAAGCTTCGGGGGT
* ** ** *
32661278 AAAATGGTAATTTTCGGTGAAATCGGGGTT
1 AAAATGGTAATTTTAGAAG-CTTCGGGGGT
* * * *
32661308 GAAATAG-AATTTTAAAAGATTCGGGGGT
1 AAAATGGTAATTTTAGAAGCTTCGGGGGT
* * ** *
32661336 AAAATGGTAATTTTCGATGAAATCGGGGTT
1 AAAATGGTAATTTTAGAAG-CTTCGGGGGT
32661366 AAAAATGG-AATTTTAGAAGCTTCGGGGGT
1 -AAAATGGTAATTTTAGAAGCTTCGGGGGT
* * ** *
32661395 AAAATGGTAATTTTCGATGAAATCGGGGTT
1 AAAATGGTAATTTTAGAAG-CTTCGGGGGT
* *
32661425 AAAAATGG-AATTTTAAAAGATTCGGGGGT
1 -AAAATGGTAATTTTAGAAGCTTCGGGGGT
* ** **
32661454 AAAATGGTAATTTTTGGTGAAATC-GGGGT
1 AAAATGGTAATTTTAGAAG-CTTCGGGGGT
* ** * *
32661483 TAAA-GCAAAATTTTAAAAGATTCGGGGGT
1 AAAATG-GTAATTTTAGAAGCTTCGGGGGT
* * ** *
32661512 AAAATGGTAATTTTCGATGAAATCGGGGTT
1 AAAATGGTAATTTTAGAAG-CTTCGGGGGT
32661542 AAAAATGG-AATTTTAGAAGCTTCGGGGGT
1 -AAAATGGTAATTTTAGAAGCTTCGGGGGT
32661571 AAAATGGTAATTTT
1 AAAATGGTAATTTT
32661585 CGGTGAAATC
Statistics
Matches: 395, Mismatches: 114, Indels: 65
0.69 0.20 0.11
Matches are distributed among these distances:
26 1 0.00
27 1 0.00
28 79 0.20
29 152 0.38
30 118 0.30
31 41 0.10
32 3 0.01
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.31
Consensus pattern (29 bp):
AAAATGGTAATTTTAGAAGCTTCGGGGGT
Found at i:32661189 original size:117 final size:118
Alignment explanation
Indices: 32660977--32661643 Score: 950
Period size: 117 Copynumber: 5.7 Consensus size: 118
32660967 TATGGATACC
* * * *
32660977 CGGGGGCAAAACGGTAATTTTCGGTGAAATCAGGGTTAAAAATGGAATTTTAGAAGCTTCGAGGG
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGG
* * * *
32661042 TAAAATGGTAATTTTTGGGGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
66 TAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
*
32661095 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTT-AAAATGGAATTTTAGAAGCTTTGGGGG
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGG
* * ** *
32661159 TGAAATGGTAATTTTTGGTGAAATTAGGGTTAAAAATGGAATTTTAAGAGATT
66 TAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
* * * * *
32661212 CGGGGGTAAAATGATAATTTTCGGTGAAATCGGGTTTAAAAACGGAATTTTAAAAGATTCGGGGG
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGG
* *
32661277 TAAAATGGTAATTTTCGGTGAAATCGGGGTT-GAAATAGAATTTTAAAAGATT
66 TAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
*
32661329 CGGGGGTAAAATGGTAATTTTCGATGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGG
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGG
*
32661394 TAAAATGGTAATTTTCGATGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
66 TAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
* * *
32661447 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAGCAA---AATTTTAAAAGATTCGGG
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAA--AATGGAATTTTAGAAGCTTCGGG
* * *
32661509 GGTAAAATGGTAATTTTCGATGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
64 GGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
** * * *
32661564 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATATAATTTTGGAAAAGTTTGGGG
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTT--AGAAGCTTCGGG
32661629 GGTAAAAT-GTAATTT
64 GGTAAAATGGTAATTT
32661644 CTGGACAATT
Statistics
Matches: 497, Mismatches: 43, Indels: 17
0.89 0.08 0.03
Matches are distributed among these distances:
115 2 0.00
117 321 0.65
118 147 0.30
119 7 0.01
120 20 0.04
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (118 bp):
CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGG
TAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
Found at i:32661253 original size:176 final size:176
Alignment explanation
Indices: 32660977--32661643 Score: 1005
Period size: 176 Copynumber: 3.8 Consensus size: 176
32660967 TATGGATACC
* * * *
32660977 CGGGGGCAAAACGGTAATTTTCGGTGAAATCAGGGTTAAAAATGGAATTTTAGAAGCTTCGAGGG
1 CGGGGGTAAAATGGTAATTTTCGATGAAATCAGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGG
* * * *
32661042 TAAAATGGTAATTTTTGGGGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGGTAAAAT
66 TAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGTAAAAT
* * *
32661107 GGTAATTTTCGGTGAAATCGGGGTTAAAATGGAATTTTAGAAGCTT
131 GGTAATTTTCGGTGAAATCGGGGTTAAAATAGAATTTTAAAAGATT
* * * * * *
32661153 TGGGGGTGAAATGGTAATTTTTGGTGAAATTAGGGTTAAAAATGGAATTTTA-AGAGATTCGGGG
1 CGGGGGTAAAATGGTAATTTTCGATGAAATCAGGGTTAAAAATGGAATTTTAGA-AGCTTCGGGG
* * *
32661217 GTAAAATGATAATTTTCGGTGAAATCGGGTTTAAAAACGGAATTTTAAAAGATTCGGGGGTAAAA
65 GTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGTAAAA
*
32661282 TGGTAATTTTCGGTGAAATCGGGGTTGAAATAGAATTTTAAAAGATT
130 TGGTAATTTTCGGTGAAATCGGGGTTAAAATAGAATTTTAAAAGATT
*
32661329 CGGGGGTAAAATGGTAATTTTCGATGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGG
1 CGGGGGTAAAATGGTAATTTTCGATGAAATCAGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGG
*
32661394 TAAAATGGTAATTTTCGATGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGTAAAAT
66 TAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGTAAAAT
* ** *
32661459 GGTAATTTTTGGTGAAATCGGGGTTAAAGCAAAATTTTAAAAGATT
131 GGTAATTTTCGGTGAAATCGGGGTTAAAATAGAATTTTAAAAGATT
*
32661505 CGGGGGTAAAATGGTAATTTTCGATGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGG
1 CGGGGGTAAAATGGTAATTTTCGATGAAATCAGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGG
** * *
32661570 TAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATATAATTTTGGAAAAGTTTGGGGGGTAAA
66 TAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTT--AAAAGATTCGGGGGTAAA
32661635 AT-GTAATTT
129 ATGGTAATTT
32661644 CTGGACAATT
Statistics
Matches: 447, Mismatches: 40, Indels: 7
0.90 0.08 0.01
Matches are distributed among these distances:
175 1 0.00
176 420 0.94
177 8 0.02
178 18 0.04
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (176 bp):
CGGGGGTAAAATGGTAATTTTCGATGAAATCAGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGG
TAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGTAAAAT
GGTAATTTTCGGTGAAATCGGGGTTAAAATAGAATTTTAAAAGATT
Found at i:32661933 original size:162 final size:163
Alignment explanation
Indices: 32661740--32662065 Score: 446
Period size: 163 Copynumber: 2.0 Consensus size: 163
32661730 AATTTGGAAA
*
32661740 CTTGAAAAAATTTTGGACCAATTTTGTAATT-AAATAAAAGTCGATTTAAGGATTAAATTAAAAC
1 CTTGAAAAAATTTTGGACCAATTTCGTAATTAAAAT-AAAGTCGATTTAAGGATTAAATTAAAAC
*
32661804 AAATTAAAA-AT-AAAAAGGACTAAATGAAGGAATAATCCAA-AGAATGACACGTGGCAACCTCT
65 AAA-TAAAAGATAAAAAAGGACTAAATGAAGAAATAATCCAATA-AATGACACGTGGCAACCTCT
*** **
32661866 GGTGTAGTCAAACAGTCAAAGGACTAGTTTATAAAC
128 GGCACAGTCAAACAGTCAAAGGACTAAATTATAAAC
* * * **
32661902 CTTG-AAAAATTATTGGGCTAATTTCGTAATTAAAATAAAGTTGATTTGGGGATTAAATTAAAAC
1 CTTGAAAAAATT-TTGGACCAATTTCGTAATTAAAATAAAGTCGATTTAAGGATTAAATTAAAAC
* * *
32661966 AAATAAAAGATAAAAAAGGACTAAATGCATAAATAATCCAATACATGACACGTGGCAACCTCTGG
65 AAATAAAAGATAAAAAAGGACTAAATGAAGAAATAATCCAATAAATGACACGTGGCAACCTCTGG
32662031 CACAGTCAAACAGTCAAAGGACTAAATTATAAAC
130 CACAGTCAAACAGTCAAAGGACTAAATTATAAAC
32662065 C
1 C
32662066 AATTAAAATT
Statistics
Matches: 144, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
161 12 0.08
162 50 0.35
163 81 0.56
164 1 0.01
ACGTcount: A:0.46, C:0.13, G:0.16, T:0.25
Consensus pattern (163 bp):
CTTGAAAAAATTTTGGACCAATTTCGTAATTAAAATAAAGTCGATTTAAGGATTAAATTAAAACA
AATAAAAGATAAAAAAGGACTAAATGAAGAAATAATCCAATAAATGACACGTGGCAACCTCTGGC
ACAGTCAAACAGTCAAAGGACTAAATTATAAAC
Found at i:32662134 original size:163 final size:160
Alignment explanation
Indices: 32661786--32662137 Score: 388
Period size: 163 Copynumber: 2.2 Consensus size: 160
32661776 AAAGTCGATT
*
32661786 TAAGGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGAAGGAATAATCCAAAGAATGA
1 TAAGGATTAAATTAAAACAAA-TAAAAATAAAAAGGACTAAATGAAGAAATAATCCAAAGAATGA
*** ** **
32661851 CACGTGGCAACCTCTGGTGTAGTCAAACAGTCAAAGGACTAGTTTATAAACCTTGAAAAATTATT
65 CACGTGGCAACCTCTGGCACAGTCAAACAGTCAAAGGACTAAATTATAAACCTT-AAAAATTACA
* * * * **
32661916 GGGCTAATTTCGTAATTAAAATAAAGTTGATT
129 GGGCAAATTTCGCAAATAAAATAAAGATGACA
** * * *
32661948 TGGGGATTAAATTAAAACAAATAAAAGATAAAAAAGGACTAAATGCATAAATAATCCAATA-CAT
1 TAAGGATTAAATTAAAACAAATAAAA-AT-AAAAAGGACTAAATGAAGAAATAATCCAA-AGAAT
32662012 GACACGTGGCAACCTCTGGCACAGTCAAACAGTCAAAGGACTAAATTATAAACCAATT-AAAATT
63 GACACGTGGCAACCTCTGGCACAGTCAAACAGTCAAAGGACTAAATTATAAACC--TTAAAAATT
*
32662076 ACAGGGCAAATTT-GCAAATAATTAA-AAAGATGCCA
126 ACAGGGCAAATTTCGCAAATAA--AATAAAGATGACA
* * *
32662111 TAAGGACTAAATTGAAGCAAATAAAAA
1 TAAGGATTAAATTAAAACAAATAAAAA
32662138 AGCGGAAGGA
Statistics
Matches: 158, Mismatches: 25, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
161 5 0.03
162 28 0.18
163 120 0.76
164 3 0.02
165 2 0.01
ACGTcount: A:0.48, C:0.13, G:0.16, T:0.23
Consensus pattern (160 bp):
TAAGGATTAAATTAAAACAAATAAAAATAAAAAGGACTAAATGAAGAAATAATCCAAAGAATGAC
ACGTGGCAACCTCTGGCACAGTCAAACAGTCAAAGGACTAAATTATAAACCTTAAAAATTACAGG
GCAAATTTCGCAAATAAAATAAAGATGACA
Found at i:32662258 original size:12 final size:11
Alignment explanation
Indices: 32662241--32662279 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
32662231 TATATATGTA
32662241 TTTTTTTCATAT
1 TTTTTTTCAT-T
32662253 TTTTTTTCATT
1 TTTTTTTCATT
*
32662264 TCATTTTTCATT
1 T-TTTTTTCATT
32662276 TTTT
1 TTTT
32662280 AGAAAATTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 4 0.17
12 20 0.83
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTTTCATT
Found at i:32663663 original size:6 final size:6
Alignment explanation
Indices: 32663652--32663718 Score: 77
Period size: 6 Copynumber: 11.2 Consensus size: 6
32663642 TTTAATCTTT
*
32663652 ATTTAA ATTTAA ATTTAA A-TTAA ATTTAA ATATCTAA TTTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT-T-TAA ATTTAA ATTTAA
32663701 GA--TAA ATTTAA ATTTAA A
1 -ATTTAA ATTTAA ATTTAA A
32663719 CAAATTTAGA
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
4 1 0.02
5 8 0.15
6 37 0.70
7 3 0.06
8 4 0.08
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (6 bp):
ATTTAA
Found at i:32663674 original size:11 final size:11
Alignment explanation
Indices: 32663652--32663682 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
32663642 TTTAATCTTT
32663652 ATTTAAATTTAA
1 ATTTAAA-TTAA
32663664 ATTTAAATTAA
1 ATTTAAATTAA
32663675 ATTTAAAT
1 ATTTAAAT
32663683 ATCTAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.63
12 7 0.37
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
ATTTAAATTAA
Found at i:32664048 original size:38 final size:37
Alignment explanation
Indices: 32664006--32664875 Score: 213
Period size: 31 Copynumber: 25.0 Consensus size: 37
32663996 GATAGAGACT
*
32664006 TTGCTATCCAACTTTACTTCAATTTCAAGAGGATGACA
1 TTGCTATCC-ACTCTACTTCAATTTCAAGAGGATGACA
* *
32664044 TTGC--T---CT-TACTTCAATTTCAGAGATGAAGAC-
1 TTGCTATCCACTCTACTTCAATTTCA-AGAGGATGACA
* * *
32664075 GTGCTATCCACTCTACTTCAATTCCAAG-GGATGAAGA
1 TTGCTATCCACTCTACTTCAATTTCAAGAGGATG-ACA
* * * * * *
32664112 CGTGTTATCCACTCTACGTCAATTTAAAGGGGATGACGT
1 -TTGCTATCCACTCTACTTCAATTTCAAGAGGATGAC-A
* * *
32664151 TATGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
1 T-TGCTATCCACTCTACTTCAATTTCAAGAGGATGACA
* * ** *
32664189 TTGC--T---CT-TACTTCAATCTCGGAGATAAAGAC-
1 TTGCTATCCACTCTACTTCAATTTC-AAGAGGATGACA
* * *
32664220 TTGATATCCAACTCTACTTCAATTTCAAGAGGATGCCG
1 TTGCTATCC-ACTCTACTTCAATTTCAAGAGGATGACA
** *
32664258 TTGC--T---CT-TACTTCAATTTCAGAGATAAAGAC-
1 TTGCTATCCACTCTACTTCAATTTCA-AGAGGATGACA
* * * *
32664289 CTGATATCCAACTCTACTTCAATTTCGAGAGGATGACG
1 TTGCTATCC-ACTCTACTTCAATTTCAAGAGGATGACA
** *
32664327 TTGC--T---CT-TACTTCAATTTCAGAGATAAAGAC-
1 TTGCTATCCACTCTACTTCAATTTCA-AGAGGATGACA
** * * * *
32664358 CCGATATCCAATTCTACTTCAATTTCGAGAGGATGACG
1 TTGCTATCC-ACTCTACTTCAATTTCAAGAGGATGACA
** *
32664396 TTGC--T---CT-TACTTCAATTTCGAAGATAAAGAC-
1 TTGCTATCCACTCTACTTCAATTTC-AAGAGGATGACA
* *
32664427 TTGATATCCAACTCTACTTCAATTTCAAGAGGATGACG
1 TTGCTATCC-ACTCTACTTCAATTTCAAGAGGATGACA
** *
32664465 TTGC--T---CT-TACTTCAATTTCAGAGATAAAGAC-
1 TTGCTATCCACTCTACTTCAATTTCA-AGAGGATGACA
* * ** *
32664496 TCGATATCCAACTCTACTTCAATTTTGAGAGGATGACG
1 TTGCTATCC-ACTCTACTTCAATTTCAAGAGGATGACA
* ** *
32664534 TTGC--T---CT-TACTTAAATTTCAGAGATAAAGAC-
1 TTGCTATCCACTCTACTTCAATTTCA-AGAGGATGACA
** * * *
32664565 CCGATATCCAACTCTACTTCAATTTCAAGAGGATGCCG
1 TTGCTATCC-ACTCTACTTCAATTTCAAGAGGATGACA
** *
32664603 TTGC--T---CT-TACTTCAATTTCAGAGATAAAGAC-
1 TTGCTATCCACTCTACTTCAATTTCA-AGAGGATGACA
** * * *
32664634 CCGATATCCAACTCTACTTCAATTTCGAGAGGATGACG
1 TTGCTATCC-ACTCTACTTCAATTTCAAGAGGATGACA
** *
32664672 TTGC--T---CT-TACTTCAATTTCAGAGATAAAGAC-
1 TTGCTATCCACTCTACTTCAATTTCA-AGAGGATGACA
* * * *
32664703 GTGTTATCCACTCTACTTCAATTTCAAAGGGGATGACG
1 TTGCTATCCACTCTACTTCAATTTC-AAGAGGATGACA
* *
32664741 TTGC--T---CT-TACTTCAATTTCAGAGATGAAGACA
1 TTGCTATCCACTCTACTTCAATTTCA-AGAGGATGACA
* * * *
32664773 -TGTTATCCACTCTACTTCAATTTCAAGGGGACGACG
1 TTGCTATCCACTCTACTTCAATTTCAAGAGGATGACA
* *
32664809 TTGC--T---CT-TACTTCAATTTCAGAGATGAAGACA
1 TTGCTATCCACTCTACTTCAATTTCA-AGAGGATGACA
*
32664841 -TGCTATCCACTCTACTTCAATTTCAAGGGGATGAC
1 TTGCTATCCACTCTACTTCAATTTCAAGAGGATGAC
32664876 GTTGAGATCT
Statistics
Matches: 591, Mismatches: 141, Indels: 202
0.63 0.15 0.22
Matches are distributed among these distances:
31 146 0.25
32 106 0.18
33 13 0.02
35 5 0.01
36 34 0.06
37 121 0.20
38 128 0.22
39 38 0.06
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (37 bp):
TTGCTATCCACTCTACTTCAATTTCAAGAGGATGACA
Found at i:32664157 original size:39 final size:39
Alignment explanation
Indices: 32664079--32664190 Score: 154
Period size: 39 Copynumber: 2.9 Consensus size: 39
32664069 GAAGACGTGC
* * ***
32664079 TATCCACTCTACTTCAATTCCAA-GGGATGAAGACGTGT
1 TATCCACTCTACTTCAATTTCAAGGGGATGACGTTATGT
* *
32664117 TATCCACTCTACGTCAATTTAAAGGGGATGACGTTATGT
1 TATCCACTCTACTTCAATTTCAAGGGGATGACGTTATGT
32664156 TATCCACTCTACTTCAATTTCAAGGGGATGACGTT
1 TATCCACTCTACTTCAATTTCAAGGGGATGACGTT
32664191 GCTCTTACTT
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
38 20 0.31
39 44 0.69
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (39 bp):
TATCCACTCTACTTCAATTTCAAGGGGATGACGTTATGT
Found at i:32664243 original size:69 final size:69
Alignment explanation
Indices: 32664156--32664879 Score: 1118
Period size: 69 Copynumber: 10.5 Consensus size: 69
32664146 GACGTTATGT
* * *
32664156 TATCC-ACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATCTCGGAGATAAAGAC
1 TATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGAC
*
32664220 TTGA
66 CTGA
*
32664224 TATCCAACTCTACTTCAATTTCAAGAGGATGCCGTTGCTCTTACTTCAATTTCAGAGATAAAGAC
1 TATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGAC
32664289 CTGA
66 CTGA
*
32664293 TATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGAC
1 TATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGAC
*
32664358 CCGA
66 CTGA
* *
32664362 TATCCAATTCTACTTCAATTTCGAGAGGATGACGTTGCTCTTACTTCAATTTC-GAAGATAAAGA
1 TATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAG-AGATAAAGA
*
32664426 CTTGA
65 CCTGA
32664431 TATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGA-
1 TATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGAC
32664495 CTCGA
66 CT-GA
** *
32664500 TATCCAACTCTACTTCAATTTTGAGAGGATGACGTTGCTCTTACTTAAATTTCAGAGATAAAGAC
1 TATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGAC
*
32664565 CCGA
66 CTGA
*
32664569 TATCCAACTCTACTTCAATTTCAAGAGGATGCCGTTGCTCTTACTTCAATTTCAGAGATAAAGAC
1 TATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGAC
*
32664634 CCGA
66 CTGA
*
32664638 TATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGAC
1 TATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGAC
* *
32664703 GTGT
66 CTGA
* *
32664707 TATCC-ACTCTACTTCAATTTCAAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGA
1 TATCCAACTCTACTTCAATTTC-AAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGA
* *
32664771 CATGT
65 CCTGA
* * *
32664776 TATCC-ACTCTACTTCAATTTCAAGGGGACGACGTTGCTCTTACTTCAATTTCAGAGATGAAGAC
1 TATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGAC
* *
32664840 ATGC
66 CTGA
*
32664844 TATCC-ACTCTACTTCAATTTCAAGGGGATGACGTTG
1 TATCCAACTCTACTTCAATTTCAAGAGGATGACGTTG
32664880 AGATCTGCAA
Statistics
Matches: 616, Mismatches: 34, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
68 103 0.17
69 511 0.83
70 2 0.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (69 bp):
TATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGAC
CTGA
Found at i:32664334 original size:138 final size:137
Alignment explanation
Indices: 32664010--32664879 Score: 1136
Period size: 138 Copynumber: 6.3 Consensus size: 137
32664000 GAGACTTTGC
* * *
32664010 TATCCAACTTTACTTCAATTTCAAGAGGATGACATTGCTCTTACTTCAATTTCAGAGATGAAGAC
1 TATCC-ACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGAC
** * * * * * *
32664075 GTGCTATCC-ACTCTACTTCAATTCCAAG-GGATGAAGACGTGTTATCCACTCTACGTCAATTTA
65 CCGATATCCAACTCTACTTCAATTTCGAGAGGAT---GAC--G-T-TGCTCT-TACTTCAATTT-
* * * * *** *
32664138 AAGGGGATGACGTTATGT
121 CA-GAGATAAAGACCTGA
* * * *
32664156 TATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATCTCGGAGATAAAGACT
1 TATCCACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACC
* * *
32664221 TGATATCCAACTCTACTTCAATTTCAAGAGGATGCCGTTGCTCTTACTTCAATTTCAGAGATAAA
66 CGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAA
32664286 GACCTGA
131 GACCTGA
*
32664293 TATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGAC
1 TATCC-ACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGAC
*
32664358 CCGATATCCAATTCTACTTCAATTTCGAGAGGATGACGTTGCTCTTACTTCAATTTC-GAAGATA
65 CCGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTCTTACTTCAATTTCAG-AGATA
*
32664422 AAGACTTGA
129 AAGACCTGA
32664431 TATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGAC
1 TATCC-ACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGAC
* * *
32664496 TCGATATCCAACTCTACTTCAATTTTGAGAGGATGACGTTGCTCTTACTTAAATTTCAGAGATAA
65 CCGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAA
*
32664561 AGACCCGA
130 AGACCTGA
*
32664569 TATCCAACTCTACTTCAATTTCAAGAGGATGCCGTTGCTCTTACTTCAATTTCAGAGATAAAGAC
1 TATCC-ACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGAC
32664634 CCGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAA
65 CCGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAA
* *
32664699 AGACGTGT
130 AGACCTGA
* *
32664707 TATCCACTCTACTTCAATTTCAAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGAC
1 TATCCACTCTACTTCAATTTC-AAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGAC
** * * * * *
32664772 ATGTTATCC-ACTCTACTTCAATTTCAAGGGGACGACGTTGCTCTTACTTCAATTTCAGAGATGA
65 CCGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAA
* *
32664836 AGACATGC
130 AGACCTGA
*
32664844 TATCCACTCTACTTCAATTTCAAGGGGATGACGTTG
1 TATCCACTCTACTTCAATTTCAAGAGGATGACGTTG
32664880 AGATCTGCAA
Statistics
Matches: 661, Mismatches: 57, Indels: 22
0.89 0.08 0.03
Matches are distributed among these distances:
136 15 0.02
137 108 0.16
138 432 0.65
139 11 0.02
140 4 0.01
141 1 0.00
142 1 0.00
144 2 0.00
145 60 0.09
146 23 0.03
147 4 0.01
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (137 bp):
TATCCACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACC
CGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAA
GACCTGA
Found at i:32664433 original size:207 final size:205
Alignment explanation
Indices: 32663994--32664879 Score: 1159
Period size: 207 Copynumber: 4.3 Consensus size: 205
32663984 GCTCTTCAGG
* * * *
32663994 GAGATAGAGACTTTGCTATCCAACTTTACTTCAATTTCAAGAGGATGACATTGCTCTTACTTCAA
1 GAGATAAAGAC-TTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAA
* * * * * *
32664059 TTTCAGAGATGAAGACGTGCTATCCACTCTACTTCAATTCCAAG-GGATGAAGACGTGTTATCCA
65 TTTCAGAGATAAAGACCTGATATCCACTCTACTTCAATTTCAAGAGGAT---GAC--G-T-TGCT
* * * * * ** * * *
32664123 CTCTACGTCAATTTAAAGGGGATGACGTTATGTTATCCACTCTACTTCAATTTCAAGGGGATGAC
123 CT-TACTTCAATTT-CA-GAGATAAAGACACGATATCCACTCTACTTCAATTTCAAGAGGATGAC
* *
32664188 GTTGCTCTTACTTCAATCTCG
185 GTTGCTCTTACTTCAATTTCA
*
32664209 GAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGCCGTTGCTCTTACTTCAAT
1 GAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
*
32664274 TTCAGAGATAAAGACCTGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTCTTACTT
66 TTCAGAGATAAAGACCTGATATCC-ACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTT
* * *
32664339 CAATTTCAGAGATAAAGACCCGATATCCAATTCTACTTCAATTTCGAGAGGATGACGTTGCTCTT
130 CAATTTCAGAGATAAAGACACGATATCC-ACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTT
32664404 ACTTCAATTTC-
194 ACTTCAATTTCA
32664415 GAAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAA
1 G-AGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAA
**
32664480 TTTCAGAGATAAAGA-CTCGATATCCAACTCTACTTCAATTTTGAGAGGATGACGTTGCTCTTAC
65 TTTCAGAGATAAAGACCT-GATATCC-ACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTAC
* * *
32664544 TTAAATTTCAGAGATAAAGACCCGATATCCAACTCTACTTCAATTTCAAGAGGATGCCGTTGCTC
128 TTCAATTTCAGAGATAAAGACACGATATCC-ACTCTACTTCAATTTCAAGAGGATGACGTTGCTC
32664609 TTACTTCAATTTCA
192 TTACTTCAATTTCA
** *
32664623 GAGATAAAGACCCGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTCTTACTTCAAT
1 GAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
* * *
32664688 TTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAAGGGGATGACGTTGCTCTTACTT
66 TTCAGAGATAAAGACCTGATATCCACTCTACTTCAATTTC-AAGAGGATGACGTTGCTCTTACTT
* * * * *
32664753 CAATTTCAGAGATGAAGACATGTTATCCACTCTACTTCAATTTCAAGGGGACGACGTTGCTCTTA
130 CAATTTCAGAGATAAAGACACGATATCCACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTA
32664818 CTTCAATTTCA
195 CTTCAATTTCA
* * * *
32664829 GAGATGAAGACATGCTATCC-ACTCTACTTCAATTTCAAGGGGATGACGTTG
1 GAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTG
32664880 AGATCTGCAA
Statistics
Matches: 609, Mismatches: 54, Indels: 26
0.88 0.08 0.04
Matches are distributed among these distances:
205 29 0.05
206 91 0.15
207 366 0.60
208 12 0.02
209 4 0.01
210 1 0.00
211 1 0.00
213 3 0.00
214 71 0.12
215 27 0.04
216 4 0.01
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (205 bp):
GAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
TTCAGAGATAAAGACCTGATATCCACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTC
AATTTCAGAGATAAAGACACGATATCCACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTAC
TTCAATTTCA
Found at i:32664741 original size:37 final size:35
Alignment explanation
Indices: 32664638--32664871 Score: 132
Period size: 37 Copynumber: 6.8 Consensus size: 35
32664628 AAAGACCCGA
* * *
32664638 TATCCAACTCTACTTCAATTTC-GAGAGGATGAC-G
1 TATCC-ACTCTACTTCAATTTCAAAGGGGAAGACTG
* * * ***
32664672 T-TGCTCT-TACTTCAATTTCAGAGATAAAGACGTG
1 TATCCACTCTACTTCAATTTCAAAGGGGAAGAC-TG
*
32664706 TTATCCACTCTACTTCAATTTCAAAGGGGATGAC-G
1 -TATCCACTCTACTTCAATTTCAAAGGGGAAGACTG
* * * **
32664741 T-TGCTCT-TACTTCAATTTCAGAGATGAAGACATG
1 TATCCACTCTACTTCAATTTCAAAGGGGAAGAC-TG
*
32664775 TTATCCACTCTACTTCAATTTC-AAGGGGACGAC-G
1 -TATCCACTCTACTTCAATTTCAAAGGGGAAGACTG
* * * **
32664809 T-TGCTCT-TACTTCAATTTCAGAGATGAAGACATG
1 TATCCACTCTACTTCAATTTCAAAGGGGAAGAC-TG
32664843 CTATCCACTCTACTTCAATTTC-AAGGGGA
1 -TATCCACTCTACTTCAATTTCAAAGGGGA
32664872 TGACGTTGAG
Statistics
Matches: 148, Mismatches: 35, Indels: 32
0.69 0.16 0.15
Matches are distributed among these distances:
31 24 0.16
32 41 0.28
33 7 0.05
34 6 0.04
35 4 0.03
36 23 0.16
37 43 0.29
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (35 bp):
TATCCACTCTACTTCAATTTCAAAGGGGAAGACTG
Found at i:32676811 original size:29 final size:29
Alignment explanation
Indices: 32676779--32676870 Score: 69
Period size: 29 Copynumber: 3.2 Consensus size: 29
32676769 AAATCGGGGT
32676779 TAAAAACGAAATTTTAGAAGCTTCGAGGG
1 TAAAAACGAAATTTTAGAAGCTTCGAGGG
** * * ** **
32676808 TAAAATGGTAATTTTTGGGGAAATCG-GGG
1 TAAAAACGAAATTTTAGAAG-CTTCGAGGG
* * *
32676837 TTAAAATGGAATTTTAGAAGCTTCGAGGG
1 TAAAAACGAAATTTTAGAAGCTTCGAGGG
32676866 TAAAA
1 TAAAA
32676871 TGGTAATTTT
Statistics
Matches: 43, Mismatches: 18, Indels: 4
0.66 0.28 0.06
Matches are distributed among these distances:
28 3 0.07
29 37 0.86
30 3 0.07
ACGTcount: A:0.38, C:0.07, G:0.27, T:0.28
Consensus pattern (29 bp):
TAAAAACGAAATTTTAGAAGCTTCGAGGG
Found at i:32676818 original size:59 final size:59
Alignment explanation
Indices: 32676743--32677233 Score: 693
Period size: 59 Copynumber: 8.3 Consensus size: 59
32676733 TATGGATACC
* * * * *
32676743 CGGGGGCAAAACGGTAATTTTTGGTGAAATCGGGGTTAAAAACGAAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
* * *
32676802 CGAGGGTAAAATGGTAATTTTTGGGGAAATCGGGGTT-AAAATGGAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
*
32676860 CGAGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
* * * *
32676919 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGTTTAAAAACGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
* *
32676978 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
* * * *
32677037 TGGGGGTAAAATGGTAATTTTCGGTAAAATCGGGGTTAAAACA--GAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAA-ATGGAATTTTAGAAGCTT
* * *
32677095 CGGGGGTAAAATGGTAATTTTTGATGAAATCAGGGTTAAAAATGGAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
** * *
32677154 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATATAATTTTGGAAAAGTTT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTT--AGAAGCTT
32677215 CGGGGGTAAAAT-GTAATTT
1 CGGGGGTAAAATGGTAATTT
32677234 CTGGACAATT
Statistics
Matches: 395, Mismatches: 31, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
57 1 0.00
58 105 0.27
59 263 0.67
60 8 0.02
61 18 0.05
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
Found at i:32677009 original size:176 final size:174
Alignment explanation
Indices: 32676743--32677233 Score: 689
Period size: 176 Copynumber: 2.8 Consensus size: 174
32676733 TATGGATACC
* * * *
32676743 CGGGGGCAAAACGGTAATTTTTGGTGAAATCGGGGTTAAAAACGAAATTTTAGAAGCTTCGAGGG
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATC-GGGTTAAAAACGGAATTTTAGAAGCTTCGGGGG
* * * *
32676808 TAAAATGGTAATTTTTGGGGAAATCGGGGTTAAAATGGAATTTTAGAAGCTTCGAGGGTAAAATG
65 TAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAATGGAATTTTAAAAGATTCGAGGGTAAAATG
* * *
32676873 GTAATTTTCGGTGAAATCGGGGTTAAAA-ATGGAATTTTAGAAGCTT
130 GTAATTTTCGGTAAAATCGGGGTTAAAACA--GAATTTTAAAAGATT
* * *
32676919 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGTTTAAAAACGGAATTTTAAAAGATTCGGGGG
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGG-TTAAAAACGGAATTTTAGAAGCTTCGGGGG
* *
32676984 TAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTTGGGGGTAAAAT
65 TAAAATGGTAATTTTCGGTGAAATCGGGGTT-AAAATGGAATTTTAAAAGATTCGAGGGTAAAAT
32677049 GGTAATTTTCGGTAAAATCGGGGTTAAAACAGAATTTTAAAAGATT
129 GGTAATTTTCGGTAAAATCGGGGTTAAAACAGAATTTTAAAAGATT
* *
32677095 CGGGGGTAAAATGGTAATTTTTGATGAAATCAGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGG
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATC-GGGTTAAAAACGGAATTTTAGAAGCTTCGGGGG
** * *
32677160 TAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATATAATTTTGGAAAAGTTTCGGGGGTAAA
65 TAAAATGGTAATTTTCGGTGAAATCGGGGTT-AAAATGGAATTTT--AAAAGATTCGAGGGTAAA
32677225 AT-GTAATTT
127 ATGGTAATTT
32677234 CTGGACAATT
Statistics
Matches: 284, Mismatches: 25, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
175 3 0.01
176 195 0.69
177 67 0.24
178 19 0.07
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (174 bp):
CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGTTAAAAACGGAATTTTAGAAGCTTCGGGGGT
AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAATGGAATTTTAAAAGATTCGAGGGTAAAATGG
TAATTTTCGGTAAAATCGGGGTTAAAACAGAATTTTAAAAGATT
Found at i:32677159 original size:117 final size:118
Alignment explanation
Indices: 32676743--32677233 Score: 718
Period size: 117 Copynumber: 4.2 Consensus size: 118
32676733 TATGGATACC
* * * * * *
32676743 CGGGGGCAAAACGGTAATTTTTGGTGAAATCGGGGTTAAAAACGAAATTTTAGAAGCTTCGAGGG
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGG
* * ** * *
32676808 TAAAATGGTAATTTTTGGGGAAATCGGGGTT-AAAATGGAATTTTAGAAGCTT
66 TAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAACAGAATTTTAAAAGATT
*
32676860 CGAGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGG
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGG
* *
32676925 TAAAATGGTAATTTTCGGTGAAATCGGGTTTAAAAACGGAATTTTAAAAGATT
66 TAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAACAGAATTTTAAAAGATT
* * *
32676978 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTTGGGGG
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGG
*
32677043 TAAAATGGTAATTTTCGGTAAAATCGGGGTT-AAAACAGAATTTTAAAAGATT
66 TAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAACAGAATTTTAAAAGATT
* * *
32677095 CGGGGGTAAAATGGTAATTTTTGATGAAATCAGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGG
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGG
* * *
32677160 TAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATATAATTTTGGAAAAGTTT
66 TAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAACAGAATTTT--AAAAGATT
32677215 CGGGGGTAAAAT-GTAATTT
1 CGGGGGTAAAATGGTAATTT
32677234 CTGGACAATT
Statistics
Matches: 340, Mismatches: 30, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
117 195 0.57
118 119 0.35
119 7 0.02
120 19 0.06
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (118 bp):
CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGG
TAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAACAGAATTTTAAAAGATT
Found at i:32677516 original size:162 final size:163
Alignment explanation
Indices: 32677331--32677656 Score: 469
Period size: 163 Copynumber: 2.0 Consensus size: 163
32677321 ATTTGGAAAT
* *
32677331 CTTGAAAAATTTTTGAACCAATTTTGTAATT-AAATAAAAGTCGATTTAAGGATTAAATTAAAAC
1 CTTGAAAAATTATTGAACCAATTTCGTAATTAAAAT-AAAGTCGATTTAAGGATTAAATTAAAAC
* *
32677395 AAATTAAAAAT-AAAAAGGACTAAATGAAGGAATAATCCAA-AGAATGACACGTGGCAACCTCTG
65 AAATAAAAAATAAAAAAGGACTAAATGAAGAAATAATCCAATA-AATGACACGTGGCAACCTCTG
** **
32677458 GTGCAGTCAAACAGTCAAAGGACTAGTTTATAAAC
129 GCACAGTCAAACAGTCAAAGGACTAAATTATAAAC
** * **
32677493 CTTGAAAAATTATTGGGCCAATTTCGTAATTAAAATAAAGTTGATTTGGGGATTAAATTAAAACA
1 CTTGAAAAATTATTGAACCAATTTCGTAATTAAAATAAAGTCGATTTAAGGATTAAATTAAAACA
* * *
32677558 AATAAAAAATAAAAAAGGACTAAATGCATAAATAATCCAATACATGACACGTGGCAACCTCTGGC
66 AATAAAAAATAAAAAAGGACTAAATGAAGAAATAATCCAATAAATGACACGTGGCAACCTCTGGC
32677623 ACAGTCAAACAGTCAAAGGACTAAATTATAAAC
131 ACAGTCAAACAGTCAAAGGACTAAATTATAAAC
32677656 C
1 C
32677657 AATTAAAATT
Statistics
Matches: 145, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
162 62 0.43
163 82 0.57
164 1 0.01
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.25
Consensus pattern (163 bp):
CTTGAAAAATTATTGAACCAATTTCGTAATTAAAATAAAGTCGATTTAAGGATTAAATTAAAACA
AATAAAAAATAAAAAAGGACTAAATGAAGAAATAATCCAATAAATGACACGTGGCAACCTCTGGC
ACAGTCAAACAGTCAAAGGACTAAATTATAAAC
Found at i:32677725 original size:163 final size:161
Alignment explanation
Indices: 32677377--32677729 Score: 408
Period size: 163 Copynumber: 2.2 Consensus size: 161
32677367 AAAGTCGATT
* *
32677377 TAAGGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGAAGGAATAATCCAAAGAATGA
1 TAAGGATTAAATTAAAACAAATAAAAAATAAAAAGGACTAAATGAAGAAATAATCCAAAGAATGA
** ** **
32677442 CACGTGGCAACCTCTGGTGCAGTCAAACAGTCAAAGGACTAGTTTATAAACCTTGAAAAATTATT
66 CACGTGGCAACCTCTGGCACAGTCAAACAGTCAAAGGACTAAATTATAAACCTT-AAAAATTACA
* * * * **
32677507 GGGCCAATTTCGTAATTAAAATAAAGTTGATT
130 GGGCAAATTTCGCAAATAAAATAAAGATGACA
** * * *
32677539 TGGGGATTAAATTAAAACAAATAAAAAATAAAAAAGGACTAAATGCATAAATAATCCAATA-CAT
1 TAAGGATTAAATTAAAACAAATAAAAAAT-AAAAAGGACTAAATGAAGAAATAATCCAA-AGAAT
32677603 GACACGTGGCAACCTCTGGCACAGTCAAACAGTCAAAGGACTAAATTATAAACCAATT-AAAATT
64 GACACGTGGCAACCTCTGGCACAGTCAAACAGTCAAAGGACTAAATTATAAACC--TTAAAAATT
*
32677667 ACAGGGCAAATTT-GCAAATAATTAA-AAAGATGCCA
127 ACAGGGCAAATTTCGCAAATAA--AATAAAGATGACA
* * *
32677702 TAAGGACTAAATTGAAGCAAATAAAAAA
1 TAAGGATTAAATTAAAACAAATAAAAAA
32677730 GCGAAAGGAT
Statistics
Matches: 160, Mismatches: 25, Indels: 11
0.82 0.13 0.06
Matches are distributed among these distances:
162 32 0.20
163 123 0.77
164 3 0.02
165 2 0.01
ACGTcount: A:0.49, C:0.13, G:0.15, T:0.23
Consensus pattern (161 bp):
TAAGGATTAAATTAAAACAAATAAAAAATAAAAAGGACTAAATGAAGAAATAATCCAAAGAATGA
CACGTGGCAACCTCTGGCACAGTCAAACAGTCAAAGGACTAAATTATAAACCTTAAAAATTACAG
GGCAAATTTCGCAAATAAAATAAAGATGACA
Found at i:32679265 original size:6 final size:6
Alignment explanation
Indices: 32679254--32679320 Score: 84
Period size: 6 Copynumber: 11.2 Consensus size: 6
32679244 TTTAATCTTT
*
32679254 ATTTAA ATTTAA ATTTAA A-TTAA ATTTAA ATATCTAA TTTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT-T-TAA ATTTAA ATTTAA
*
32679303 A-ATAA ATTTAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA A
32679321 CAAATTTAGA
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
5 9 0.17
6 38 0.72
7 2 0.04
8 4 0.08
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (6 bp):
ATTTAA
Found at i:32680480 original size:78 final size:76
Alignment explanation
Indices: 32679798--32681155 Score: 1969
Period size: 76 Copynumber: 17.8 Consensus size: 76
32679788 ATCAAACCGC
* * *
32679798 AGCAAGATCATTTCCTATCCTCTTGAAATTTAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
1 AGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAA
32679863 ATTGAAGTAAG
66 ATTGAAGTAAG
* * * *
32679874 AGCAACGTCATTTCCTATCCTCTTAAAATTTAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
1 AGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAA
*
32679939 ATTGAAGTAAT
66 ATTGAAGTAAG
* * * *
32679950 AGCAACGTCATTTCCTACCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAA
1 AGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAA
32680015 ATTGAAGTAAG
66 ATTGAAGTAAG
* * *
32680026 AGCAACGTCATTTCCTATCCTCTTGAAATTTAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
1 AGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAA
32680091 ATTGAAGTAAG
66 ATTGAAGTAAG
* * * * *
32680102 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACACGTCTTTATCTCTGAA
1 AGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAA
*
32680167 ATTAAAGTAAG
66 ATTGAAGTAAG
* * *
32680178 AGCAACGTCATTTCCTATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAA
1 AGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAA
32680242 ATTGAAGTAAG
66 ATTGAAGTAAG
* * * * * *
32680253 AGCAAGATCATTTCCCATCCTCTTGAAATTGAAGTAAAGCT-G---TCAAGTCTTTATCTATAAA
1 AGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAA
32680314 ATTGAAGTAAG
66 ATTGAAGTAAG
* * * *
32680325 AGCAAGATCATTTCAC-ATCCTCTTGAAATTGAAGTAAAGCTGGATGTCAAGTCTTTATCTCTGA
1 AGCAACATCATTTC-CTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGA
*
32680389 AATTAAAGTAAG
65 AATTGAAGTAAG
* * * *
32680401 AGCAACATCATCTCTTATCCTCTTGAAGTTGAAGTAGAGTTGGATATCACGTCTTTATCTTTCTG
1 AGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATC--TCTG
32680466 AAATTGAAGTAAG
64 AAATTGAAGTAAG
* * * * *
32680479 AGCAACGTCATTTCCTATCCTCTTGAAATTGAAGTAAAG-TGGATAACACGTTTTTATCTCTGAA
1 AGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAA
32680543 ATTGAAGTAAG
66 ATTGAAGTAAG
*
32680554 AGCAACATCATCTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTCTG
1 AGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTA--TCTCTG
32680619 AAATTGAAGTAAG
64 AAATTGAAGTAAG
* * *
32680632 AGCAACATCATCTCCTATCCTCTTGAAGTTGAAGTAGAGTTGGATATCACGTCTTTATCTCTCTG
1 AGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTA--TCTCTG
32680697 AAATTGAAGTAAG
64 AAATTGAAGTAAG
* * * *
32680710 AGCAACATCATCTCCTATCCTCTTGAAGTTGAAGTAGAAG-TGGATAACACGTCTTTATCTCTGA
1 AGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAG-AGTTGGATATCAAGTCTTTATCTCTGA
*
32680774 AATTAAAGTAAG
65 AATTGAAGTAAG
*
32680786 AGCAACATCATCTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTTTG
1 AGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTC--TG
32680851 AAATTGAAGTAAG
64 AAATTGAAGTAAG
* *
32680864 AGCAACATCATCTCCTATCCTCTT-AAATTTGAAGTAGAGTTGGATATCACGTCTTTATCTCTCT
1 AGCAACATCATTTCCTATCCTCTTGAAA-TTGAAGTAGAGTTGGATATCAAGTCTTTA--TCTCT
32680928 GAAATTGAAGTAAG
63 GAAATTGAAGTAAG
* * *
32680942 AGCAACATCATCTCCTATCCTCTTGAAGTTGAAGTAGAGTTGGATATCACGTCTTTATCTCTGAA
1 AGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAA
32681007 ATTGAAGTAAG
66 ATTGAAGTAAG
*
32681018 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAA
1 AGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAA
32681083 ATTGAAGTAAG
66 ATTGAAGTAAG
* * *
32681094 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTCTCTCT
1 AGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCT
32681156 CTGGAATTGA
Statistics
Matches: 1190, Mismatches: 72, Indels: 40
0.91 0.06 0.03
Matches are distributed among these distances:
72 65 0.05
73 2 0.00
75 126 0.11
76 637 0.54
77 20 0.02
78 332 0.28
79 4 0.00
80 4 0.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (76 bp):
AGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAA
ATTGAAGTAAG
Found at i:32681464 original size:22 final size:22
Alignment explanation
Indices: 32681429--32681507 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 22
32681419 GGCCCAAACC
* *
32681429 ATTTACTTTGAAATTTAATTTA
1 ATTTAATTTTAAATTTAATTTA
* *
32681451 TTTTAATTTTAAATTTATTTTAA
1 ATTTAATTTTAAATTTAATTT-A
*
32681474 ATTCAATTTT-AATTTGAATTTA
1 ATTTAATTTTAAATTT-AATTTA
* *
32681496 ATCTAAATTTAA
1 ATTTAATTTTAA
32681508 TATTATTATA
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
22 30 0.68
23 14 0.32
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.56
Consensus pattern (22 bp):
ATTTAATTTTAAATTTAATTTA
Found at i:32681484 original size:17 final size:17
Alignment explanation
Indices: 32681445--32681484 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
32681435 TTTGAAATTT
* *
32681445 AATTTATTTTAATTTTA
1 AATTTATTTTAAATTCA
32681462 AATTTATTTTAAATTCA
1 AATTTATTTTAAATTCA
*
32681479 ATTTTA
1 AATTTA
32681485 ATTTGAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (17 bp):
AATTTATTTTAAATTCA
Found at i:32681493 original size:12 final size:11
Alignment explanation
Indices: 32681440--32681508 Score: 54
Period size: 11 Copynumber: 6.3 Consensus size: 11
32681430 TTTACTTTGA
32681440 AATTTAA-TTT
1 AATTTAATTTT
*
32681450 ATTTTAATTTT
1 AATTTAATTTT
32681461 AAATTT-ATTTT
1 -AATTTAATTTT
*
32681472 AAATTCAATTTT
1 -AATTTAATTTT
32681484 AATTTGAA-TTT
1 AATTT-AATTTT
* *
32681495 AATCTAAATTT
1 AATTTAATTTT
32681506 AAT
1 AAT
32681509 ATTATTATAA
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
10 8 0.16
11 30 0.61
12 11 0.22
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (11 bp):
AATTTAATTTT
Found at i:32681596 original size:36 final size:38
Alignment explanation
Indices: 32681551--32681625 Score: 111
Period size: 37 Copynumber: 2.0 Consensus size: 38
32681541 CCAAAATGTC
*
32681551 CAAAGTCCAA-ATACATGGCCCAATTGGGCCCAAA-ACT
1 CAAAGTCCAACATACAAGGCCCAATT-GGCCCAAACACT
32681588 CAAA-TCCAACATACAAGGCCCAATTGGCCCAAACACT
1 CAAAGTCCAACATACAAGGCCCAATTGGCCCAAACACT
32681625 C
1 C
32681626 CAAACCCATT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.39, C:0.33, G:0.13, T:0.15
Consensus pattern (38 bp):
CAAAGTCCAACATACAAGGCCCAATTGGCCCAAACACT
Found at i:32681807 original size:28 final size:28
Alignment explanation
Indices: 32681754--32681807 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
32681744 ACAGACCCCT
* * *
32681754 ATCTCCACTTGCTTCTGCCACGGCCATC
1 ATCTCCACCTGCTGCTGCCACCGCCATC
32681782 ATCTCCACCTGCTGCT-CCAACCGCCA
1 ATCTCCACCTGCTGCTGCC-ACCGCCA
32681808 CTGTGGAGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 2 0.09
28 20 0.91
ACGTcount: A:0.17, C:0.46, G:0.13, T:0.24
Consensus pattern (28 bp):
ATCTCCACCTGCTGCTGCCACCGCCATC
Found at i:32683448 original size:30 final size:28
Alignment explanation
Indices: 32683384--32683448 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 28
32683374 AACAGTCTAG
* * * *
32683384 AAATTGCATTTTGACCCCAAATTTCAAG
1 AAATTACATTCTGACCCCAAATTCCAAA
32683412 AAATTACATTCTGACCCCGAAACTTCCAAA
1 AAATTACATTCTGACCCC-AAA-TTCCAAA
32683442 AAATTAC
1 AAATTAC
32683449 CGTTTTACCC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 16 0.52
29 3 0.10
30 12 0.39
ACGTcount: A:0.40, C:0.25, G:0.08, T:0.28
Consensus pattern (28 bp):
AAATTACATTCTGACCCCAAATTCCAAA
Found at i:32683581 original size:117 final size:116
Alignment explanation
Indices: 32683440--32683814 Score: 551
Period size: 117 Copynumber: 3.2 Consensus size: 116
32683430 GAAACTTCCA
* *
32683440 AAAAATTACCGTTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCCCAATTTCACCAAAAAT
1 AAAAATTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAAAT
32683505 TACCATTTCCCCCACAAACGTTCTAAAATTCCATTTTTAACCTCGATTTCACC
66 TACCATTTCCCCC-CAAAC-TTCTAAAATTCCATTTTTAACCTCGATTTCACC
32683558 AAAAATTACCATTTT-CCCCCGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAAAT
1 AAAAATTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAAAT
* *
32683622 TACCATTTGCCCCCCGAACCTTTTAAAATTCCATTTTTAACCTC-ACTTTCACC
66 TACCATTT-CCCCCC-AAACTTCTAAAATTCCATTTTTAACCTCGA-TTTCACC
* * * *
32683675 AAAAATTACCATTTTTACCCTCGAACCTCCTAAAATTCTATTTTTAACCCCGATTCCACCAAAAA
1 AAAAATTACCA-TTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAAA
* * *
32683740 TTACCATTTTACCCCCAAAC-TCTTAAAATTCCATTTTTAACCCCGATTGCACC
65 TTACCA-TTTCCCCCCAAACTTC-TAAAATTCCATTTTTAACCTCGATTTCACC
32683793 -AAAATTACCATTTTACCCCCGA
1 AAAAATTACCATTTTACCCCCGA
32683815 GTATCCAAAA
Statistics
Matches: 235, Mismatches: 14, Indels: 18
0.88 0.05 0.07
Matches are distributed among these distances:
116 12 0.05
117 109 0.46
118 55 0.23
119 56 0.24
120 3 0.01
ACGTcount: A:0.33, C:0.32, G:0.03, T:0.32
Consensus pattern (116 bp):
AAAAATTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAAAT
TACCATTTCCCCCCAAACTTCTAAAATTCCATTTTTAACCTCGATTTCACC
Found at i:32683610 original size:58 final size:59
Alignment explanation
Indices: 32683440--32683814 Score: 528
Period size: 59 Copynumber: 6.4 Consensus size: 59
32683430 GAAACTTCCA
* *
32683440 AAAAATTACCGTTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCCCAATTTCACC
1 AAAAATTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCACC
* * * *
32683499 AAAAATTACCA-TTTCCCCCACAAACGTTCTAAAATTCCATTTTTAACCTCGATTTCACC
1 AAAAATTACCATTTTACCCC-CGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCACC
32683558 AAAAATTACCATTTT-CCCCCGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCACC
1 AAAAATTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCACC
** * *
32683616 AAAAATTACCATTTGCCCCCCGAACCTTTTAAAATTCCATTTTTAACCTC-ACTTTCACC
1 AAAAATTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCCCGA-TTTCACC
* * * *
32683675 AAAAATTACCATTTTTACCCTCGAACCTCCTAAAATTCTATTTTTAACCCCGATTCCACC
1 AAAAATTACCA-TTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCACC
* *
32683735 AAAAATTACCATTTTACCCCC-AAAC-TCTTAAAATTCCATTTTTAACCCCGATTGCACC
1 AAAAATTACCATTTTACCCCCGAACCTTC-TAAAATTCCATTTTTAACCCCGATTTCACC
32683793 -AAAATTACCATTTTACCCCCGA
1 AAAAATTACCATTTTACCCCCGA
32683815 GTATCCAAAA
Statistics
Matches: 283, Mismatches: 25, Indels: 17
0.87 0.08 0.05
Matches are distributed among these distances:
57 21 0.07
58 90 0.32
59 119 0.42
60 52 0.18
61 1 0.00
ACGTcount: A:0.33, C:0.32, G:0.03, T:0.32
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCACC
Found at i:32683822 original size:28 final size:28
Alignment explanation
Indices: 32683736--32683824 Score: 69
Period size: 28 Copynumber: 3.1 Consensus size: 28
32683726 GATTCCACCA
*
32683736 AAAATTACCATTTTACCCCC-A-AACTCTT
1 AAAATTACCATTTTACCCCCGAGAA-TC-C
* *
32683764 AAAATT-CCATTTTTAACCCCGATTGCA-CC
1 AAAATTACCA-TTTTACCCCCGA--GAATCC
*
32683793 AAAATTACCATTTTACCCCCGAGTATCC
1 AAAATTACCATTTTACCCCCGAGAATCC
32683821 AAAA
1 AAAA
32683825 GTCTCATTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
27 5 0.10
28 21 0.43
29 18 0.37
30 4 0.08
32 1 0.02
ACGTcount: A:0.36, C:0.30, G:0.04, T:0.29
Consensus pattern (28 bp):
AAAATTACCATTTTACCCCCGAGAATCC
Found at i:32686156 original size:19 final size:20
Alignment explanation
Indices: 32686134--32686182 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
32686124 ATAAAAATCC
*
32686134 TATAATATTTTG-AAAATTA
1 TATAATATTTTGTAAAATAA
* *
32686153 TATAAAAATTTGTAAAATAA
1 TATAATATTTTGTAAAATAA
32686173 TATATATATT
1 TATA-ATATT
32686183 AAAAATTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 10 0.43
20 10 0.43
21 3 0.13
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (20 bp):
TATAATATTTTGTAAAATAA
Found at i:32687731 original size:11 final size:11
Alignment explanation
Indices: 32687717--32687807 Score: 67
Period size: 11 Copynumber: 8.1 Consensus size: 11
32687707 GGACCAAACC
32687717 ATTTTAAATTT
1 ATTTTAAATTT
*
32687728 ATTTTGAAATTA
1 ATTTT-AAATTT
* *
32687740 AATTT-ATTTT
1 ATTTTAAATTT
*
32687750 AAATTTAAATTT
1 -ATTTTAAATTT
*
32687762 ATTTTAAATTCA
1 ATTTTAAATT-T
*
32687774 ATTTTAATTTT
1 ATTTTAAATTT
* *
32687785 AATTTCAATTT
1 ATTTTAAATTT
*
32687796 AGTTTAAATTT
1 ATTTTAAATTT
32687807 A
1 A
32687808 ATATTATTGT
Statistics
Matches: 62, Mismatches: 14, Indels: 8
0.74 0.17 0.10
Matches are distributed among these distances:
10 3 0.05
11 37 0.60
12 22 0.35
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (11 bp):
ATTTTAAATTT
Found at i:32687742 original size:17 final size:16
Alignment explanation
Indices: 32687720--32687822 Score: 107
Period size: 17 Copynumber: 6.1 Consensus size: 16
32687710 CCAAACCATT
32687720 TTAAATTTATTTTGAAA
1 TTAAATTTATTTT-AAA
32687737 TTAAATTTATTTTAAA
1 TTAAATTTATTTTAAA
32687753 TTTAAATTTATTTTAAA
1 -TTAAATTTATTTTAAA
* *
32687770 TTCAATTTTAATTTTAAT
1 TT-AAATTT-ATTTTAAA
* *
32687788 TTCAATTTAGTTTAAA
1 TTAAATTTATTTTAAA
* *
32687804 TTTAATATTATTGTAAA
1 TTAAAT-TTATTTTAAA
32687821 TT
1 TT
32687823 TAATAAAATG
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
16 16 0.22
17 48 0.66
18 9 0.12
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (16 bp):
TTAAATTTATTTTAAA
Found at i:32687757 original size:34 final size:33
Alignment explanation
Indices: 32687719--32687825 Score: 126
Period size: 34 Copynumber: 3.2 Consensus size: 33
32687709 ACCAAACCAT
32687719 TTTAAATTTATTTTGAAATTAAATTTATTTTAAA
1 TTTAAATTTATTTT-AAATTAAATTTATTTTAAA
*
32687753 TTTAAATTTATTTTAAATTCAATTTTAATTTT-AA
1 TTTAAATTTATTTTAAATT-AAATTT-ATTTTAAA
* * * *
32687787 TTTCAATTTAGTTTAAATTTAATATTATTGTAAA
1 TTTAAATTTATTTTAAATTAAAT-TTATTTTAAA
32687821 TTTAA
1 TTTAA
32687826 TAAAATGTCA
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
33 11 0.18
34 46 0.74
35 5 0.08
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (33 bp):
TTTAAATTTATTTTAAATTAAATTTATTTTAAA
Found at i:32687758 original size:6 final size:6
Alignment explanation
Indices: 32687719--32687808 Score: 57
Period size: 6 Copynumber: 15.8 Consensus size: 6
32687709 ACCAAACCAT
* * *
32687719 TTTAAA TTT-AT TTTGAAA -TTAAA TTT-AT TTTAAA TTTAAA TTT-AT
1 TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * * *
32687764 TTTAAA -TTCAA TTTTAA TTTTAA TTTCAA TTT-AG TTTAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
32687809 TATTATTGTA
Statistics
Matches: 66, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
5 23 0.35
6 42 0.64
7 1 0.02
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (6 bp):
TTTAAA
Found at i:32687805 original size:23 final size:23
Alignment explanation
Indices: 32687751--32687806 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
32687741 ATTTATTTTA
*
32687751 AATTTAAA-TTTATTTTAAATTC
1 AATTTAAATTTTAATTTAAATTC
* * *
32687773 AATTTTAATTTTAATTTCAATTT
1 AATTTAAATTTTAATTTAAATTC
*
32687796 AGTTTAAATTT
1 AATTTAAATTT
32687807 AATATTATTG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 7 0.26
23 20 0.74
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (23 bp):
AATTTAAATTTTAATTTAAATTC
Found at i:32688667 original size:13 final size:13
Alignment explanation
Indices: 32688649--32688673 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32688639 AATTTCAGTA
32688649 ATTAATAATAATT
1 ATTAATAATAATT
32688662 ATTAATAATAAT
1 ATTAATAATAAT
32688674 AAATAAGTAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTAATAATAATT
Found at i:32689900 original size:59 final size:59
Alignment explanation
Indices: 32689836--32690054 Score: 194
Period size: 59 Copynumber: 3.7 Consensus size: 59
32689826 TTTTGACCTG
* * * *
32689836 AAACTTACAAAAATTACA-TGTTGACCTCGAAACTTCCAAAAATTATATTTTTAACCCCA
1 AAACTTCCAAAAATTACATTTTTTACCTCAAAACTTCCAAAAATTATATTTTT-ACCCCA
* * * *
32689895 AAACTTCCGAAAATTACA-TTTTTACC-CTAAAACTTTCAAAAATCATATTTTTGACCCCG
1 AAACTTCCAAAAATTACATTTTTTACCTC-AAAACTTCCAAAAATTATATTTTT-ACCCCA
* * * * * * *
32689954 AAGCTTCCAAAAATTATATTTTTTACCCCAAAACTTTCAAAAATTACATTTTTGCCCCT
1 AAACTTCCAAAAATTACATTTTTTACCTCAAAACTTCCAAAAATTATATTTTTACCCCA
** * * *
32690013 AAACTTTTAAAAATT-CTATTTTTAACCTCGACACTTCCAAAA
1 AAACTTCCAAAAATTAC-ATTTTTTACCTCAAAACTTCCAAAA
32690055 TTACCATTTT
Statistics
Matches: 131, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
58 1 0.01
59 99 0.76
60 30 0.23
61 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.04, T:0.34
Consensus pattern (59 bp):
AAACTTCCAAAAATTACATTTTTTACCTCAAAACTTCCAAAAATTATATTTTTACCCCA
Found at i:32689901 original size:30 final size:29
Alignment explanation
Indices: 32689836--32690054 Score: 195
Period size: 30 Copynumber: 7.4 Consensus size: 29
32689826 TTTTGACCTG
* * * * * *
32689836 AAACTTACAAAAATTACATGTTGACCTCG
1 AAACTTCCAAAAATTATATTTTTACCCCA
32689865 AAACTTCCAAAAATTATATTTTTAACCCCA
1 AAACTTCCAAAAATTATATTTTT-ACCCCA
* * *
32689895 AAACTTCCGAAAATTACATTTTTACCCTA
1 AAACTTCCAAAAATTATATTTTTACCCCA
* * *
32689924 AAACTTTCAAAAATCATATTTTTGACCCCG
1 AAACTTCCAAAAATTATATTTTT-ACCCCA
*
32689954 AAGCTTCCAAAAATTATATTTTTTACCCCA
1 AAACTTCCAAAAATTATA-TTTTTACCCCA
* * * *
32689984 AAACTTTCAAAAATTACATTTTTGCCCCT
1 AAACTTCCAAAAATTATATTTTTACCCCA
** * * *
32690013 AAACTTTTAAAAATTCTATTTTTAACCTCG
1 AAACTTCCAAAAATTATATTTTT-ACCCCA
*
32690043 ACACTTCCAAAA
1 AAACTTCCAAAA
32690055 TTACCATTTT
Statistics
Matches: 153, Mismatches: 33, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
29 72 0.47
30 76 0.50
31 5 0.03
ACGTcount: A:0.39, C:0.23, G:0.04, T:0.34
Consensus pattern (29 bp):
AAACTTCCAAAAATTATATTTTTACCCCA
Found at i:32689926 original size:29 final size:29
Alignment explanation
Indices: 32689814--32690069 Score: 173
Period size: 29 Copynumber: 8.7 Consensus size: 29
32689804 CTGAACTTTT
* * *
32689814 CAAAAATTACAGTTTTGA-CCTGAAACTTA
1 CAAAAATTACA-TTTTTACCCTAAAACTTC
* * *
32689843 CAAAAATTACATGTTGA-CCTCGAAACTTC
1 CAAAAATTACATTTTTACCCT-AAAACTTC
* *
32689872 CAAAAATTATATTTTTAACCCCAAAACTTC
1 CAAAAATTACATTTTT-ACCCTAAAACTTC
* *
32689902 CGAAAATTACATTTTTACCCTAAAACTTT
1 CAAAAATTACATTTTTACCCTAAAACTTC
* * ** *
32689931 CAAAAATCATATTTTTGACCCCGAAGCTTC
1 CAAAAATTACATTTTT-ACCCTAAAACTTC
* * *
32689961 CAAAAATTATATTTTTTACCCCAAAACTTT
1 CAAAAATTACA-TTTTTACCCTAAAACTTC
* *
32689991 CAAAAATTACATTTTTGCCCCT-AAACTTT
1 CAAAAATTACATTTTT-ACCCTAAAACTTC
* * * *
32690020 TAAAAATT-CTATTTTTAACCTCGACACTTC
1 CAAAAATTAC-ATTTTTACCCT-AAAACTTC
32690050 C-AAAATTACCA-TTTTACCCT
1 CAAAAATTA-CATTTTTACCCT
32690070 CGAATGCCCG
Statistics
Matches: 184, Mismatches: 32, Indels: 22
0.77 0.13 0.09
Matches are distributed among these distances:
28 12 0.07
29 94 0.51
30 70 0.38
31 8 0.04
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.35
Consensus pattern (29 bp):
CAAAAATTACATTTTTACCCTAAAACTTC
Found at i:32690064 original size:89 final size:88
Alignment explanation
Indices: 32689811--32690054 Score: 298
Period size: 89 Copynumber: 2.8 Consensus size: 88
32689801 CCCCTGAACT
* * * * *
32689811 TTTCAAAAATTACAGTTTTGACCTGAAACTTACAAAAATTAC-A-TGTTGACCTCGAAACTTCCA
1 TTTCAAAAATTACATTTTTGCCCTAAAACTTTCAAAAATT-CTATTTTTGACCTCG-AACTTCCA
32689874 AAAATTATATTTTTAACCCCAAAAC
64 AAAATTATATTTTTAACCCCAAAAC
* * * *
32689899 TTCCGAAAATTACATTTTTACCCTAAAACTTTCAAAAA-TCATATTTTTGACCCCGAAGCTTCCA
1 TTTCAAAAATTACATTTTTGCCCTAAAACTTTCAAAAATTC-TATTTTTGACCTCGAA-CTTCCA
*
32689963 AAAATTATATTTTTTACCCCAAAAC
64 AAAATTATATTTTTAACCCCAAAAC
* *
32689988 TTTCAAAAATTACATTTTTGCCCCT-AAACTTTTAAAAATTCTATTTTTAACCTCGACACTTCCA
1 TTTCAAAAATTACATTTTTG-CCCTAAAACTTTCAAAAATTCTATTTTTGACCTCGA-ACTTCCA
32690052 AAA
64 AAA
32690055 TTACCATTTT
Statistics
Matches: 133, Mismatches: 16, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
86 1 0.01
87 1 0.01
88 34 0.26
89 90 0.68
90 7 0.05
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (88 bp):
TTTCAAAAATTACATTTTTGCCCTAAAACTTTCAAAAATTCTATTTTTGACCTCGAACTTCCAAA
AATTATATTTTTAACCCCAAAAC
Found at i:32690084 original size:58 final size:59
Alignment explanation
Indices: 32690021--32690192 Score: 152
Period size: 59 Copynumber: 2.9 Consensus size: 59
32690011 CTAAACTTTT
* *
32690021 AAAAATTCTATTTTT-AACCTCGACACTTC-CAAAATTACCATTTTACCCTCGAATGCCC
1 AAAAATTCCATTTTTGAACC-CGACACTTCTAAAAATTACCATTTTACCCTCGAATGCCC
* * *** * *
32690079 GAAAATTCCATTTTTGATCCCGATTTTTCTAAAAATTACCATTTTACCCTCGGATGTCC
1 AAAAATTCCATTTTTGAACCCGACACTTCTAAAAATTACCATTTTACCCTCGAATGCCC
* ** *** * *
32690138 AAAAATT-CAGTTTTTGATCTTGATTTTTCTAAAAATTACTATTTTACCCTTGAAT
1 AAAAATTCCA-TTTTTGAACCCGACACTTCTAAAAATTACCATTTTACCCTCGAAT
32690193 TTCTAAAATT
Statistics
Matches: 96, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
58 21 0.22
59 75 0.78
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.40
Consensus pattern (59 bp):
AAAAATTCCATTTTTGAACCCGACACTTCTAAAAATTACCATTTTACCCTCGAATGCCC
Found at i:32690116 original size:59 final size:59
Alignment explanation
Indices: 32690051--32690192 Score: 205
Period size: 59 Copynumber: 2.4 Consensus size: 59
32690041 CGACACTTCC
*
32690051 AAAATTACCATTTTACCCTCGAATGCCCGAAAATTCCA-TTTTTGATCCCGATTTTTCTA
1 AAAATTACCATTTTACCCTCGAATGCCCAAAAATT-CAGTTTTTGATCCCGATTTTTCTA
* * **
32690110 AAAATTACCATTTTACCCTCGGATGTCCAAAAATTCAGTTTTTGATCTTGATTTTTCTA
1 AAAATTACCATTTTACCCTCGAATGCCCAAAAATTCAGTTTTTGATCCCGATTTTTCTA
* *
32690169 AAAATTACTATTTTACCCTTGAAT
1 AAAATTACCATTTTACCCTCGAAT
32690193 TTCTAAAATT
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
58 2 0.03
59 72 0.97
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.40
Consensus pattern (59 bp):
AAAATTACCATTTTACCCTCGAATGCCCAAAAATTCAGTTTTTGATCCCGATTTTTCTA
Found at i:32690144 original size:29 final size:29
Alignment explanation
Indices: 32690051--32690144 Score: 77
Period size: 29 Copynumber: 3.2 Consensus size: 29
32690041 CGACACTTCC
* * *
32690051 AAAATTACCATTTTACCCTCGAATGCCCG
1 AAAATTACCATTTTACCCTCGGATGTCCA
* * *
32690080 AAAATT-CCATTTTTGATCC-C-GATTTTTCTA
1 AAAATTACCA-TTTT-ACCCTCGGA--TGTCCA
32690110 AAAATTACCATTTTACCCTCGGATGTCCA
1 AAAATTACCATTTTACCCTCGGATGTCCA
32690139 AAAATT
1 AAAATT
32690145 CAGTTTTTGA
Statistics
Matches: 49, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
28 4 0.08
29 24 0.49
30 16 0.33
31 5 0.10
ACGTcount: A:0.32, C:0.24, G:0.09, T:0.35
Consensus pattern (29 bp):
AAAATTACCATTTTACCCTCGGATGTCCA
Found at i:32690196 original size:29 final size:29
Alignment explanation
Indices: 32690104--32690200 Score: 81
Period size: 29 Copynumber: 3.3 Consensus size: 29
32690094 GATCCCGATT
* * *
32690104 TTTCTAAAAATTACCATTTTACCCTCGGA
1 TTTCTAAAAATTACTATTTTACCCTTGAA
* * * * *
32690133 TGTCCAAAAATTCAGT-TTTTGA-TCTTGATT
1 TTTCTAAAAATT-ACTATTTT-ACCCTTGA-A
32690163 TTTCTAAAAATTACTATTTTACCCTTGAA
1 TTTCTAAAAATTACTATTTTACCCTTGAA
32690192 TTTCTAAAA
1 TTTCTAAAA
32690201 TTTCAATTTT
Statistics
Matches: 50, Mismatches: 13, Indels: 10
0.68 0.18 0.14
Matches are distributed among these distances:
29 29 0.58
30 21 0.42
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.43
Consensus pattern (29 bp):
TTTCTAAAAATTACTATTTTACCCTTGAA
Found at i:32690223 original size:59 final size:59
Alignment explanation
Indices: 32690051--32690240 Score: 154
Period size: 59 Copynumber: 3.2 Consensus size: 59
32690041 CGACACTTCC
* * * * **
32690051 AAAATTACCATTTTACCCTCGAATGCCCGAAAATTCCA-TTTTTGATCC-CGATTTTTCTA
1 AAAATTACCATTTTACCCTCGAATGTCCAAAAATT-CAGATTTT-AACCTAAATTTTTCTA
* * * * **
32690110 AAAATTACCATTTTACCCTCGGATGTCCAAAAATTCAGTTTTTGATCTTGATTTTTCTA
1 AAAATTACCATTTTACCCTCGAATGTCCAAAAATTCAGATTTTAACCTAAATTTTTCTA
* * * * * **
32690169 AAAATTACTATTTTACCCTTGAATTTCTAAAATTTCA-ATTTTAACCCTAAA-TTTTCCC
1 AAAATTACCATTTTACCCTCGAATGTCCAAAAATTCAGATTTTAA-CCTAAATTTTTCTA
32690227 AAAATTACCATTTT
1 AAAATTACCATTTT
32690241 GCCCCTCAAG
Statistics
Matches: 107, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
58 26 0.24
59 81 0.76
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.41
Consensus pattern (59 bp):
AAAATTACCATTTTACCCTCGAATGTCCAAAAATTCAGATTTTAACCTAAATTTTTCTA
Found at i:32690224 original size:29 final size:30
Alignment explanation
Indices: 32690162--32690240 Score: 74
Period size: 28 Copynumber: 2.7 Consensus size: 30
32690152 TGATCTTGAT
* *
32690162 TTTTCTAAAAATTACTATTTTACCCTTGAA
1 TTTTCTAAAAATTACAATTTTACCCTTAAA
*
32690192 -TTTCT-AAAATTTCAATTTTAACCC-TAAA
1 TTTTCTAAAAATTACAATTTT-ACCCTTAAA
** *
32690220 TTTTCCCAAAATTACCATTTT
1 TTTTCTAAAAATTACAATTTT
32690241 GCCCCTCAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
28 15 0.38
29 13 0.32
30 12 0.30
ACGTcount: A:0.34, C:0.19, G:0.01, T:0.46
Consensus pattern (30 bp):
TTTTCTAAAAATTACAATTTTACCCTTAAA
Found at i:32690317 original size:29 final size:29
Alignment explanation
Indices: 32690225--32690316 Score: 152
Period size: 29 Copynumber: 3.2 Consensus size: 29
32690215 CTAAATTTTC
32690225 CCAAAATTACCATTTTGCCCCTCAAGAGT
1 CCAAAATTACCATTTTGCCCCTCAAGAGT
32690254 CCAAAATTACCATTTTGCCCCTCAAGAGT
1 CCAAAATTACCATTTTGCCCCTCAAGAGT
*
32690283 CCAAAATTACCATTTT-ACCCTCAAGTA-T
1 CCAAAATTACCATTTTGCCCCTCAAG-AGT
32690311 CCAAAA
1 CCAAAA
32690317 AATCTCATTT
Statistics
Matches: 61, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
28 15 0.25
29 46 0.75
ACGTcount: A:0.35, C:0.30, G:0.08, T:0.27
Consensus pattern (29 bp):
CCAAAATTACCATTTTGCCCCTCAAGAGT
Found at i:32692575 original size:18 final size:17
Alignment explanation
Indices: 32692554--32692588 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
32692544 TATACCCTTA
*
32692554 TAAAAATATTATTATTTT
1 TAAAAAAATTATT-TTTT
32692572 TAAAAAAATTATTTTTT
1 TAAAAAAATTATTTTTT
32692589 AATCTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TAAAAAAATTATTTTTT
Found at i:32692936 original size:26 final size:23
Alignment explanation
Indices: 32692893--32692959 Score: 64
Period size: 26 Copynumber: 2.7 Consensus size: 23
32692883 ATCGTTGTCA
32692893 ATTTTTTTCTCTTCTTATATTAT-AT
1 ATTTTTTTCT-TT-TTAT-TTATAAT
*
32692918 ATTGTTTTTCCATTTTTATTTTTAAT
1 ATT-TTTTT-C-TTTTTATTTATAAT
32692944 ATTTTTTTCTTTTTAT
1 ATTTTTTTCTTTTTAT
32692960 GTGATTCACT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
23 7 0.19
24 1 0.03
25 11 0.30
26 14 0.38
27 3 0.08
28 1 0.03
ACGTcount: A:0.18, C:0.09, G:0.01, T:0.72
Consensus pattern (23 bp):
ATTTTTTTCTTTTTATTTATAAT
Found at i:32693502 original size:30 final size:28
Alignment explanation
Indices: 32693447--32693515 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
32693437 AAAAAAATTT
32693447 AATTTTTAAAGGTCCAAAATTTTTTTACC
1 AATTTTTAAAGGTCCAAAATTTTTTT-CC
** * *
32693476 AATTTTTAAAGGATTTAAATTTTTTTTTC
1 AATTTTTAAAGG-TCCAAAATTTTTTTCC
*
32693505 AACTTTTAAAG
1 AATTTTTAAAG
32693516 AACTTAAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 23 0.68
30 11 0.32
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (28 bp):
AATTTTTAAAGGTCCAAAATTTTTTTCC
Found at i:32693522 original size:29 final size:29
Alignment explanation
Indices: 32693463--32693523 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
32693453 TAAAGGTCCA
* * *
32693463 AAATTTTTTTACCAATTTTTAAAGGATTT
1 AAATTTTTTTACCAACTTTTAAAGAACTT
**
32693492 AAATTTTTTTTTCAACTTTTAAAGAACTT
1 AAATTTTTTTACCAACTTTTAAAGAACTT
32693521 AAA
1 AAA
32693524 ACCCTATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (29 bp):
AAATTTTTTTACCAACTTTTAAAGAACTT
Found at i:32695388 original size:2 final size:2
Alignment explanation
Indices: 32695383--32695434 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
32695373 ACACACACAC
32695383 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
32695425 AT AT AT AT AT
1 AT AT AT AT AT
32695435 GTCTGAAAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32698925 original size:81 final size:81
Alignment explanation
Indices: 32698747--32698925 Score: 197
Period size: 82 Copynumber: 2.2 Consensus size: 81
32698737 CAGAAATTTT
* *
32698747 TTTTAAAAGATCAAAATTAAATTGTAATTTTTAAGATGGTAAAATGTAATTTCATCATTTTAATA
1 TTTTAAAAGATCTAAATTAAATTGTAATTTTTAAGA-GGTAAAATATAATTTCATCATTTTAATA
* * *
32698812 GTTTATATCTTTATAAA
65 ATTTAAATCTTTAAAAA
* * * *
32698829 TTTTAAAGGAT-TAAATTAAATTTTTATATTTTTAAGCA-GTAAAATATAATTTTA-CA-TTTAT
1 TTTTAAAAGATCTAAATTAAA-TTGTA-ATTTTTAAG-AGGTAAAATATAATTTCATCATTTTAA
32698890 TAATTTAAAAT-TTTAAAAA
63 TAATTT-AAATCTTTAAAAA
32698909 TTTTAAAAGATCTAAAT
1 TTTTAAAAGATCTAAAT
32698926 AAAAAATGTC
Statistics
Matches: 82, Mismatches: 10, Indels: 11
0.80 0.10 0.11
Matches are distributed among these distances:
80 26 0.32
81 18 0.22
82 28 0.34
83 9 0.11
84 1 0.01
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.46
Consensus pattern (81 bp):
TTTTAAAAGATCTAAATTAAATTGTAATTTTTAAGAGGTAAAATATAATTTCATCATTTTAATAA
TTTAAATCTTTAAAAA
Found at i:32700093 original size:28 final size:29
Alignment explanation
Indices: 32700062--32700122 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
32700052 AAAATGAGAC
*
32700062 TTTGGA-TGCCCGGGGGCAAAATGGTAAT
1 TTTGGACTGCACGGGGGCAAAATGGTAAT
** *
32700090 TTTGGACTTTAGGGGGGCAAAATGGTAAT
1 TTTGGACTGCACGGGGGCAAAATGGTAAT
32700119 TTTG
1 TTTG
32700123 AAAAAATTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 6 0.21
29 22 0.79
ACGTcount: A:0.25, C:0.10, G:0.34, T:0.31
Consensus pattern (29 bp):
TTTGGACTGCACGGGGGCAAAATGGTAAT
Found at i:32700177 original size:58 final size:59
Alignment explanation
Indices: 32700108--32700238 Score: 151
Period size: 59 Copynumber: 2.2 Consensus size: 59
32700098 TTAGGGGGGC
** * * *
32700108 AAAATGGTAATTTTGA-AAAAATTTGGAGTTAAAAAT-GACATTTTAGGCA-TCCGAGGGT
1 AAAATGGTAATTTTGAGAAAAATCGGGA-TCAAAAATAGA-ATTTTAGGAAGTCCGAAGGT
* * *
32700166 AAAATGATAATTTTTAGAAAAATCGGGATCAAAAATAGAATTTTTGGAAGTCCGAAGGT
1 AAAATGGTAATTTTGAGAAAAATCGGGATCAAAAATAGAATTTTAGGAAGTCCGAAGGT
32700225 AAAATGGTAATTTT
1 AAAATGGTAATTTT
32700239 TGCAAGTTTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
58 29 0.48
59 32 0.52
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (59 bp):
AAAATGGTAATTTTGAGAAAAATCGGGATCAAAAATAGAATTTTAGGAAGTCCGAAGGT
Found at i:32700251 original size:59 final size:56
Alignment explanation
Indices: 32700138--32700360 Score: 141
Period size: 58 Copynumber: 3.8 Consensus size: 56
32700128 ATTTGGAGTT
* * * ***
32700138 AAAAATGACATTTTAGGCA-TCCGAGGGT-AAAATGATAATTTTTAGAAAAATCGGGATC
1 AAAAATGA-ATTTTTGGAAGTCCGAAGGTAAAAAT-ATAATTTTT-GAAGTTTCGGG-TC
*
32700196 AAAAATAGAATTTTTGGAAGTCCGAAGGT-AAAATGGTAATTTTTGCAAGTTTCGGGGTC
1 AAAAAT-GAATTTTTGGAAGTCCGAAGGTAAAAAT-ATAATTTTTG-AAGTTTC-GGGTC
* * * * *
32700255 AAAAATGGAA-TTTTAGAAGTTC-AGGGGTAAAAATGTAATTTTTGGAAGTTTCAAGGTC
1 AAAAAT-GAATTTTTGGAAGTCCGA-AGGTAAAAATATAATTTTT-GAAGTTTC-GGGTC
* ** *
32700313 AAAAATGTAATTTTGGAGAAGTTTGAAGGTCAAAATATAATTTTTGAA
1 AAAAATG-AATTTTTG-GAAGTCCGAAGGTAAAAATATAATTTTTGAA
32700361 CGGTTTAGGG
Statistics
Matches: 135, Mismatches: 19, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
57 2 0.01
58 56 0.41
59 51 0.38
60 25 0.19
61 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (56 bp):
AAAAATGAATTTTTGGAAGTCCGAAGGTAAAAATATAATTTTTGAAGTTTCGGGTC
Done.