Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 117 of 144
Found at i:27284553 original size:18 final size:19
Alignment explanation
Indices: 27284530--27284602 Score: 139
Period size: 19 Copynumber: 3.9 Consensus size: 19
27284520 TATTGTTTAA
27284530 TTTTTTTACCAATTTAATT
1 TTTTTTTACCAATTTAATT
27284549 TTTTTTTACCAATTTAATT
1 TTTTTTTACCAATTTAATT
27284568 TTTTTTTACCAATTTAA-T
1 TTTTTTTACCAATTTAATT
27284586 TTTTTTTACCAATTTAA
1 TTTTTTTACCAATTTAA
27284603 GGCTAAAGCA
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
18 18 0.33
19 36 0.67
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTTTTACCAATTTAATT
Found at i:27284572 original size:38 final size:37
Alignment explanation
Indices: 27284530--27284602 Score: 137
Period size: 37 Copynumber: 1.9 Consensus size: 37
27284520 TATTGTTTAA
27284530 TTTTTTTACCAATTTAATTTTTTTTTACCAATTTAATT
1 TTTTTTTACCAATTTAA-TTTTTTTTACCAATTTAATT
27284568 TTTTTTTACCAATTTAATTTTTTTTACCAATTTAA
1 TTTTTTTACCAATTTAATTTTTTTTACCAATTTAA
27284603 GGCTAAAGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 18 0.51
38 17 0.49
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.62
Consensus pattern (37 bp):
TTTTTTTACCAATTTAATTTTTTTTACCAATTTAATT
Found at i:27291062 original size:19 final size:18
Alignment explanation
Indices: 27291038--27291077 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
27291028 AATTCACATC
* *
27291038 TATTTTCTTATTTTTATTT
1 TATTTTATT-TTTTTAATT
27291057 TATTTTATTTTTTTAATT
1 TATTTTATTTTTTTAATT
27291075 TAT
1 TAT
27291078 ATAATTGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (18 bp):
TATTTTATTTTTTTAATT
Found at i:27298407 original size:13 final size:13
Alignment explanation
Indices: 27298386--27298416 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
27298376 TTTTAAAAAA
27298386 AATAATTTTAATT
1 AATAATTTTAATT
*
27298399 AATATTTTTAATT
1 AATAATTTTAATT
27298412 AATAA
1 AATAA
27298417 ATATATTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATAATTTTAATT
Found at i:27298513 original size:27 final size:28
Alignment explanation
Indices: 27298456--27298514 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
27298446 ACTCTTTTAT
*
27298456 TTATATAAATAAAATAATAAATATGTAA
1 TTATATAAATAAAATAATAAATATATAA
* *
27298484 TTATAT-AATAAAA-AATATTATATATTA
1 TTATATAAATAAAATAATA-AATATATAA
27298511 TTAT
1 TTAT
27298515 GTTAAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 4 0.15
27 17 0.63
28 6 0.22
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (28 bp):
TTATATAAATAAAATAATAAATATATAA
Found at i:27305077 original size:17 final size:18
Alignment explanation
Indices: 27305043--27305080 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
27305033 GCTCTTGGAA
*
27305043 TTATAAATTTTATTAATT
1 TTATAAAATTTATTAATT
27305061 TTATAAAATTT-TTAATT
1 TTATAAAATTTATTAATT
27305078 TTA
1 TTA
27305081 CTTAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTATAAAATTTATTAATT
Found at i:27306910 original size:11 final size:11
Alignment explanation
Indices: 27306879--27306920 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
27306869 TCCAATTTGG
27306879 ATTTTAAATTA
1 ATTTTAAATTA
* *
27306890 AGTTTGAATTA
1 ATTTTAAATTA
*
27306901 ATTTTAAATTT
1 ATTTTAAATTA
27306912 A-TTTAAATT
1 ATTTTAAATT
27306921 TAAATTTGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (11 bp):
ATTTTAAATTA
Found at i:27306920 original size:17 final size:17
Alignment explanation
Indices: 27306881--27306942 Score: 74
Period size: 17 Copynumber: 3.8 Consensus size: 17
27306871 CAATTTGGAT
*
27306881 TTTAAA-TTAAGTTTGA
1 TTTAAATTTAAATTTGA
* *
27306897 ATTAATTTTAAATTT-A
1 TTTAAATTTAAATTTGA
*
27306913 TTTAAATTTAAATTTGT
1 TTTAAATTTAAATTTGA
27306930 TTTAAATTTAAAT
1 TTTAAATTTAAAT
27306943 ACATTTAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
16 18 0.47
17 20 0.53
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
TTTAAATTTAAATTTGA
Found at i:27306923 original size:22 final size:22
Alignment explanation
Indices: 27306879--27306920 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
27306869 TCCAATTTGG
*
27306879 ATTTTAAATTAAGTTTGAATTA
1 ATTTTAAATTAAGTTTAAATTA
*
27306901 ATTTTAAATTTA-TTTAAATT
1 ATTTTAAATTAAGTTTAAATT
27306921 TAAATTTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (22 bp):
ATTTTAAATTAAGTTTAAATTA
Found at i:27306926 original size:27 final size:27
Alignment explanation
Indices: 27306885--27306976 Score: 76
Period size: 27 Copynumber: 3.3 Consensus size: 27
27306875 TTGGATTTTA
* *
27306885 AATTAAGTTTGAATTAATTTTAAATTT
1 AATTAAATTTAAATTAATTTTAAATTT
* **
27306912 ATTTAAATTTAAATTTGTTTTAAATTT
1 AATTAAATTTAAATTAATTTTAAATTT
* * * * *
27306939 AAATACATTTAAAATAATTTGAAACTTAA
1 AATTAAATTTAAATTAATTTTAAA-TT-T
27306968 AATTAAATT
1 AATTAAATT
27306977 AATAATGTCC
Statistics
Matches: 48, Mismatches: 15, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
27 39 0.81
28 2 0.04
29 7 0.15
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (27 bp):
AATTAAATTTAAATTAATTTTAAATTT
Found at i:27306951 original size:16 final size:16
Alignment explanation
Indices: 27306898--27306951 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
27306888 TAAGTTTGAA
* *
27306898 TTAATTTTAAATTTAT
1 TTAAATTTAAATTCAT
**
27306914 TTAAATTTAAATTTGTT
1 TTAAATTTAAA-TTCAT
*
27306931 TTAAATTTAAATACAT
1 TTAAATTTAAATTCAT
27306947 TTAAA
1 TTAAA
27306952 ATAATTTGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
16 17 0.55
17 14 0.45
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
TTAAATTTAAATTCAT
Found at i:27307830 original size:16 final size:16
Alignment explanation
Indices: 27307805--27307839 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
27307795 TATTTTTTGG
*
27307805 TAATAGTAAATAATAA
1 TAATACTAAATAATAA
27307821 TAATACTAAATAATAA
1 TAATACTAAATAATAA
27307837 TAA
1 TAA
27307840 AAGAAATACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (16 bp):
TAATACTAAATAATAA
Found at i:27308669 original size:28 final size:28
Alignment explanation
Indices: 27308616--27308669 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
27308606 GGGTTATTTG
**
27308616 TTCAATTAGTCCTTTCATATTTTTTTCT
1 TTCAATTAGTCCTTTCATATACTTTTCT
*
27308644 TTCAATTTAGTCCTTT-TTATACTTTT
1 TTCAA-TTAGTCCTTTCATATACTTTT
27308670 AATTATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 12 0.55
29 10 0.45
ACGTcount: A:0.19, C:0.17, G:0.04, T:0.61
Consensus pattern (28 bp):
TTCAATTAGTCCTTTCATATACTTTTCT
Found at i:27309009 original size:30 final size:29
Alignment explanation
Indices: 27308973--27309034 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
27308963 AGAAATTATA
* *
27308973 TTTTGACCTCGAAACTTTAGAAAATTCCAT
1 TTTTGACCTC-AAACTTTACAAAATCCCAT
*
27309003 TTTTGACCTCAAACTTTCCAAAATCCCAT
1 TTTTGACCTCAAACTTTACAAAATCCCAT
27309032 TTT
1 TTT
27309035 AACCCTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 19 0.66
30 10 0.34
ACGTcount: A:0.31, C:0.24, G:0.06, T:0.39
Consensus pattern (29 bp):
TTTTGACCTCAAACTTTACAAAATCCCAT
Found at i:27309108 original size:58 final size:60
Alignment explanation
Indices: 27309012--27309151 Score: 171
Period size: 59 Copynumber: 2.4 Consensus size: 60
27309002 TTTTTGACCT
* *
27309012 CAAACTTTCCAAAATCCCA-TTTTAACCCTAAAACTTCC-AAAAATTACTATTTTACCCC
1 CAAACTTTCCAAAATTCCATTTTTAACCCTAAAACTTCCAAAAAATTACTATTTAACCCC
** **
27309070 CAAACTTTCCAAAATTCCATTTTTAA-CCTTGATTTTCCAAAAAATTACTATTTAACCCC
1 CAAACTTTCCAAAATTCCATTTTTAACCCTAAAACTTCCAAAAAATTACTATTTAACCCC
* *
27309129 AAAAC-ATCCAAAATTACCATTTT
1 CAAACTTTCCAAAATT-CCATTTT
27309152 ACCCCTTAAC
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
58 35 0.49
59 36 0.51
ACGTcount: A:0.39, C:0.27, G:0.01, T:0.34
Consensus pattern (60 bp):
CAAACTTTCCAAAATTCCATTTTTAACCCTAAAACTTCCAAAAAATTACTATTTAACCCC
Found at i:27309166 original size:59 final size:58
Alignment explanation
Indices: 27309013--27309169 Score: 167
Period size: 59 Copynumber: 2.7 Consensus size: 58
27309003 TTTTGACCTC
* * * * *
27309013 AAACTTTCCAAAATCCCATTTTAACCCTAAAAC-TTCC-AAAAATTACTATTTTACCCCC
1 AAACTATCCAAAATTCCATTTT-ACCCT-TAACTTTCCAAAAAATTACTATTTAACCCCA
* * * *
27309071 AAACTTTCCAAAATTCCATTTTTAACCTTGATTTTCCAAAAAATTACTATTTAACCCCA
1 AAACTATCCAAAATTCCA-TTTTACCCTTAACTTTCCAAAAAATTACTATTTAACCCCA
27309130 AAAC-ATCCAAAATTACCATTTTACCCCTTAACTTTCCAAA
1 AAACTATCCAAAATT-CCATTTTA-CCCTTAACTTTCCAAA
27309170 TCTCATTTTT
Statistics
Matches: 83, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
57 1 0.01
58 39 0.47
59 43 0.52
ACGTcount: A:0.38, C:0.28, G:0.01, T:0.33
Consensus pattern (58 bp):
AAACTATCCAAAATTCCATTTTACCCTTAACTTTCCAAAAAATTACTATTTAACCCCA
Found at i:27309228 original size:29 final size:29
Alignment explanation
Indices: 27309013--27309228 Score: 155
Period size: 28 Copynumber: 7.5 Consensus size: 29
27309003 TTTTGACCTC
* * *
27309013 AAACTTTCCAAAA-TCCCATTTTAACCCT
1 AAACTTTCCAAAATTACTATTTTACCCCT
*
27309041 AAAAC-TTCCAAAAATTACTATTTTACCCCC
1 -AAACTTTCC-AAAATTACTATTTTACCCCT
* *
27309071 AAACTTTCCAAAATT-CCATTTTTA-ACCT
1 AAACTTTCCAAAATTACTA-TTTTACCCCT
** * * *
27309099 TGATTTTCCAAAAAATTACTATTTAACCCCA
1 AAACTTTCC--AAAATTACTATTTTACCCCT
* *
27309130 AAAC-ATCCAAAATTACCATTTTACCCCT
1 AAACTTTCCAAAATTACTATTTTACCCCT
*
27309158 TAACTTTCC-AAA-T-CTCATTTTTA-CCCT
1 AAACTTTCCAAAATTACT-A-TTTTACCCCT
*
27309185 -AATTTTACCAAAATTACTATTTTACCCCT
1 AAACTTT-CCAAAATTACTATTTTACCCCT
27309214 AAACTTTCCAAAATT
1 AAACTTTCCAAAATT
27309229 TCATTTTTGA
Statistics
Matches: 144, Mismatches: 26, Indels: 34
0.71 0.13 0.17
Matches are distributed among these distances:
26 6 0.04
27 8 0.06
28 50 0.35
29 40 0.28
30 35 0.24
31 5 0.03
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.36
Consensus pattern (29 bp):
AAACTTTCCAAAATTACTATTTTACCCCT
Found at i:27309236 original size:29 final size:29
Alignment explanation
Indices: 27308984--27309236 Score: 145
Period size: 29 Copynumber: 8.8 Consensus size: 29
27308974 TTTGACCTCG
** *
27308984 AAACTTTAGAAAATTCCATTTTTGACCTC-
1 AAACTTTCCAAAATTCCATTTTT-ACCCCT
* *
27309013 AAACTTTCCAAAATCCCA-TTTTAACCCT
1 AAACTTTCCAAAATTCCATTTTTACCCCT
* *
27309041 AAAAC-TTCCAAAAATTAC-TATTTTACCCCC
1 -AAACTTTCC-AAAATTCCAT-TTTTACCCCT
*
27309071 AAACTTTCCAAAATTCCATTTTTA-ACCT
1 AAACTTTCCAAAATTCCATTTTTACCCCT
** * * * *
27309099 TGATTTTCCAAAAAATTAC-TATTTAACCCCA
1 AAACTTTCC--AAAATTCCAT-TTTTACCCCT
*
27309130 AAAC-ATCCAAAATTACCA-TTTTACCCCT
1 AAACTTTCCAAAATT-CCATTTTTACCCCT
*
27309158 TAACTTTCC-AAA-TCTCATTTTTA-CCCT
1 AAACTTTCCAAAATTC-CATTTTTACCCCT
* *
27309185 -AATTTTACCAAAATTAC-TATTTTACCCCT
1 AAACTTT-CCAAAATTCCAT-TTTTACCCCT
*
27309214 AAACTTTCCAAAATTTCATTTTT
1 AAACTTTCCAAAATTCCATTTTT
27309237 GACCTCGATT
Statistics
Matches: 169, Mismatches: 32, Indels: 46
0.68 0.13 0.19
Matches are distributed among these distances:
26 6 0.04
27 13 0.08
28 50 0.30
29 64 0.38
30 33 0.20
31 3 0.02
ACGTcount: A:0.36, C:0.26, G:0.01, T:0.37
Consensus pattern (29 bp):
AAACTTTCCAAAATTCCATTTTTACCCCT
Found at i:27309283 original size:143 final size:145
Alignment explanation
Indices: 27309014--27309283 Score: 375
Period size: 143 Copynumber: 1.9 Consensus size: 145
27309004 TTTGACCTCA
27309014 AACTTTCCAAAATCCCATTTTAACCCTAAAACTTCCAAAAATTACTATTTTACCCCCAAACTTTC
1 AACTTTCCAAAATCCCATTTTAACCCTAAAACTTCCAAAAATTACTATTTTACCCCCAAACTTTC
* * *
27309079 CAAAATTCCATTTTTAACCTTGATTTTCCAAAAAATTACTATTTAACCCCAAAACATCCAAAATT
66 CAAAATTCCATTTTTAACCTCGATTTTCCAAAAAATTACCATTTAACCCCAAAACAGCCAAAATT
27309144 ACCATTTTACCCCTT
131 ACCATTTTACCCCTT
* * ** *
27309159 AACTTTCC-AAATCTCATTTTTACCCT-AATTTTACC-AAAATTACTATTTTACCCCTAAACTTT
1 AACTTTCCAAAATCCCATTTTAACCCTAAAACTT-CCAAAAATTACTATTTTACCCCCAAACTTT
* * * ** **
27309221 CCAAAATTTCATTTTTGACCTCGATTTTCCTAAAAATTACCATTTTGCCCCCGAACAGCCAAA
65 CCAAAATTCCATTTTTAACCTCGATTTTCCAAAAAATTACCATTTAACCCCAAAACAGCCAAA
27309284 GGTCCCATTT
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
143 83 0.76
144 18 0.17
145 8 0.07
ACGTcount: A:0.35, C:0.28, G:0.02, T:0.35
Consensus pattern (145 bp):
AACTTTCCAAAATCCCATTTTAACCCTAAAACTTCCAAAAATTACTATTTTACCCCCAAACTTTC
CAAAATTCCATTTTTAACCTCGATTTTCCAAAAAATTACCATTTAACCCCAAAACAGCCAAAATT
ACCATTTTACCCCTT
Found at i:27322093 original size:23 final size:23
Alignment explanation
Indices: 27322063--27322185 Score: 113
Period size: 23 Copynumber: 5.3 Consensus size: 23
27322053 ACACTAGCGC
*
27322063 GCTCTCTGTTTAGCACGTCT-CGT
1 GCTCTCTGATTAGCAC-TCTGCGT
* *
27322086 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTCTGCGT
* *
27322109 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTCTGCGT
* * * *
27322132 GCTCTCCGATTAGTACTTTGTGT
1 GCTCTCTGATTAGCACTCTGCGT
* * * *
27322155 ACTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTCTGCGT
27322178 GCTCTCTG
1 GCTCTCTG
27322186 TTGCCCAGCA
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
22 2 0.02
23 86 0.98
ACGTcount: A:0.11, C:0.24, G:0.22, T:0.42
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTCTGCGT
Found at i:27322177 original size:69 final size:66
Alignment explanation
Indices: 27322087--27322231 Score: 184
Period size: 69 Copynumber: 2.1 Consensus size: 66
27322077 ACGTCTCGTG
* *
27322087 CTCTCTGATTAGCACTTTGTGTGCTCTCTGATT-AGCACTTTGTGTGCTCTCCGATTAGTACTTT
1 CTCTCTGATTAGCACTGTGTGTGCTCTCTG-TTCAGCAC-TTATGTGCTCTCCG-TTAGTACTTT
27322151 GTGTA
63 G-GTA
* *
27322156 CTCTCTGTTTAGCACTGTGTGTGCTCTCTGTTGCCCAGCACTTATGTGCTCTCTGTTAGTACTTT
1 CTCTCTGATTAGCACTGTGTGTGCTCTCTGTT---CAGCACTTATGTGCTCTCCGTTAGTACTTT
27322221 GGTA
63 GGTA
27322225 CTCTCTG
1 CTCTCTG
27322232 CTTGTTCCGT
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
68 2 0.03
69 38 0.56
70 11 0.16
71 12 0.18
72 5 0.07
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.43
Consensus pattern (66 bp):
CTCTCTGATTAGCACTGTGTGTGCTCTCTGTTCAGCACTTATGTGCTCTCCGTTAGTACTTTGGT
A
Found at i:27322186 original size:23 final size:23
Alignment explanation
Indices: 27322084--27322231 Score: 160
Period size: 23 Copynumber: 6.4 Consensus size: 23
27322074 AGCACGTCTC
27322084 GTGCTCTCTGATTAGCACTTTGT
1 GTGCTCTCTGATTAGCACTTTGT
27322107 GTGCTCTCTGATTAGCACTTTGT
1 GTGCTCTCTGATTAGCACTTTGT
* *
27322130 GTGCTCTCCGATTAGTACTTTGT
1 GTGCTCTCTGATTAGCACTTTGT
* * *
27322153 GTACTCTCTGTTTAGCACTGTGT
1 GTGCTCTCTGATTAGCACTTTGT
*
27322176 GTGCTCTCTG-TTGCCCAGCAC-TTAT
1 GTGCTCTCTGATT----AGCACTTTGT
*
27322201 GTGCTCTCTG-TTAGTACTTTG-
1 GTGCTCTCTGATTAGCACTTTGT
*
27322222 GTACTCTCTG
1 GTGCTCTCTG
27322232 CTTGTTCCGT
Statistics
Matches: 107, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
21 13 0.12
22 4 0.04
23 71 0.66
25 14 0.13
26 5 0.05
ACGTcount: A:0.12, C:0.24, G:0.22, T:0.43
Consensus pattern (23 bp):
GTGCTCTCTGATTAGCACTTTGT
Found at i:27329522 original size:23 final size:23
Alignment explanation
Indices: 27329422--27329523 Score: 116
Period size: 23 Copynumber: 4.4 Consensus size: 23
27329412 ACACTAGCGC
*
27329422 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGTTTAGCACTGTGT-GT
* *
27329445 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
* * * *
27329468 GCTCTCCGATTAGTACTTTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
*
27329491 ACTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
27329514 GCTCTCTGTT
1 GCTCTCTGTT
27329524 GCCCAGCACT
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
23 65 0.97
24 2 0.03
ACGTcount: A:0.11, C:0.25, G:0.22, T:0.43
Consensus pattern (23 bp):
GCTCTCTGTTTAGCACTGTGTGT
Found at i:27330462 original size:200 final size:200
Alignment explanation
Indices: 27330119--27330733 Score: 991
Period size: 200 Copynumber: 3.1 Consensus size: 200
27330109 TCATCTTCCT
*
27330119 GATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGCAAATCTTCGAGCCCAGCTTCCTGATG
1 GATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGCAAATCTTCGAACCCAGCTTCCTGATG
*
27330184 AGACACTGAGAAGCAGGTCGAAA-CAATAAAATGGTTAGCTTCCTGATGAGACACAGAGAAGTTG
66 AGACACTGAGAAGCAGGTC-AAAGCAATAAAATGGTTAGCTTCCTGATGAGACACAGAGAAGTGG
* *
27330248 ACCAAATTCGTCTTCCTGGGGAGATCCAGAGAAGCGAATTAAAACAAGCGAGGCGGTCATCTTTC
130 ACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAACAAGCGAGGCGGTCATCTTCC
27330313 TGATGA
195 TGATGA
*
27330319 GATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGCAAATCTTCGAACCCGGCTTCCTGATG
1 GATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGCAAATCTTCGAACCCAGCTTCCTGATG
* *
27330384 AGACACTGAGAAGCAGCTCAAAGTAATAAAATGGTTAGCTTCCTGATGAGACACAGAGAAGTGGA
66 AGACACTGAGAAGCAGGTCAAAGCAATAAAATGGTTAGCTTCCTGATGAGACACAGAGAAGTGGA
* * *
27330449 CCAAATTCGTCTTCTTGAGGAGATCCAGAGAAGCGAATTAAAACAAGCGAGACGGTTATCTTCCT
131 CCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAACAAGCGAGGCGGTCATCTTCCT
27330514 GATGA
196 GATGA
*
27330519 GATACAGAGAAGAATACCAACTCAACGCTCAACGCGAGCAAATCTTCGAACCCAGCTTCCTGATG
1 GATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGCAAATCTTCGAACCCAGCTTCCTGATG
** * * * * *
27330584 AGGTACTAAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTTCTGATGAGACACAAAGAAGTGGA
66 AGACACTGAGAAGCAGGTCAAAGCAATAAAATGGTTAGCTTCCTGATGAGACACAGAGAAGTGGA
* * *
27330649 CCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAAC-AGATGATTGCGGTCATCCTC
131 CCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAACAAG-CGA-GGCGGTCATCTTC
27330713 CTGATGA
194 CTGATGA
*
27330720 GACACAGAGAAGAA
1 GATACAGAGAAGAA
27330734 GGCCAGGTCA
Statistics
Matches: 384, Mismatches: 28, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
199 5 0.01
200 350 0.91
201 29 0.08
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (200 bp):
GATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGCAAATCTTCGAACCCAGCTTCCTGATG
AGACACTGAGAAGCAGGTCAAAGCAATAAAATGGTTAGCTTCCTGATGAGACACAGAGAAGTGGA
CCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAACAAGCGAGGCGGTCATCTTCCT
GATGA
Found at i:27331102 original size:11 final size:11
Alignment explanation
Indices: 27331071--27331112 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
27331061 CCCAACTTGG
27331071 ATTTTAAATTA
1 ATTTTAAATTA
* *
27331082 AGTTTGAATTA
1 ATTTTAAATTA
*
27331093 ATTTTAAATTT
1 ATTTTAAATTA
27331104 A-TTTAAATT
1 ATTTTAAATT
27331113 TAAATTTGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (11 bp):
ATTTTAAATTA
Found at i:27331112 original size:17 final size:17
Alignment explanation
Indices: 27331073--27331134 Score: 74
Period size: 17 Copynumber: 3.8 Consensus size: 17
27331063 CAACTTGGAT
*
27331073 TTTAAA-TTAAGTTTGA
1 TTTAAATTTAAATTTGA
* *
27331089 ATTAATTTTAAATTT-A
1 TTTAAATTTAAATTTGA
*
27331105 TTTAAATTTAAATTTGT
1 TTTAAATTTAAATTTGA
27331122 TTTAAATTTAAAT
1 TTTAAATTTAAAT
27331135 ACATTTAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
16 18 0.47
17 20 0.53
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
TTTAAATTTAAATTTGA
Found at i:27331115 original size:22 final size:22
Alignment explanation
Indices: 27331071--27331112 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
27331061 CCCAACTTGG
*
27331071 ATTTTAAATTAAGTTTGAATTA
1 ATTTTAAATTAAGTTTAAATTA
*
27331093 ATTTTAAATTTA-TTTAAATT
1 ATTTTAAATTAAGTTTAAATT
27331113 TAAATTTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (22 bp):
ATTTTAAATTAAGTTTAAATTA
Found at i:27331118 original size:27 final size:27
Alignment explanation
Indices: 27331077--27331168 Score: 76
Period size: 27 Copynumber: 3.3 Consensus size: 27
27331067 TTGGATTTTA
* *
27331077 AATTAAGTTTGAATTAATTTTAAATTT
1 AATTAAATTTAAATTAATTTTAAATTT
* **
27331104 ATTTAAATTTAAATTTGTTTTAAATTT
1 AATTAAATTTAAATTAATTTTAAATTT
* * * * *
27331131 AAATACATTTAAAATAATTTGAAACTTAA
1 AATTAAATTTAAATTAATTTTAAA-TT-T
27331160 AATTAAATT
1 AATTAAATT
27331169 AATAATGTCC
Statistics
Matches: 48, Mismatches: 15, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
27 39 0.81
28 2 0.04
29 7 0.15
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (27 bp):
AATTAAATTTAAATTAATTTTAAATTT
Found at i:27331143 original size:16 final size:16
Alignment explanation
Indices: 27331090--27331143 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
27331080 TAAGTTTGAA
* *
27331090 TTAATTTTAAATTTAT
1 TTAAATTTAAATTCAT
**
27331106 TTAAATTTAAATTTGTT
1 TTAAATTTAAA-TTCAT
*
27331123 TTAAATTTAAATACAT
1 TTAAATTTAAATTCAT
27331139 TTAAA
1 TTAAA
27331144 ATAATTTGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
16 17 0.55
17 14 0.45
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
TTAAATTTAAATTCAT
Found at i:27332006 original size:20 final size:20
Alignment explanation
Indices: 27331955--27332008 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
27331945 GGTAATGACA
*
27331955 ATAATAGTAATAAATATTTTT
1 ATAATAGTAA-ATATATTTTT
* *
27331976 ATAATAATAAATATTTTTTT
1 ATAATAGTAAATATATTTTT
*
27331996 GTAATAGTAAATA
1 ATAATAGTAAATA
27332009 ATAATAATAC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (20 bp):
ATAATAGTAAATATATTTTT
Found at i:27332022 original size:16 final size:16
Alignment explanation
Indices: 27331997--27332031 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
27331987 TATTTTTTTG
*
27331997 TAATAGTAAATAATAA
1 TAATACTAAATAATAA
27332013 TAATACTAAATAATAA
1 TAATACTAAATAATAA
27332029 TAA
1 TAA
27332032 AAGAAATACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (16 bp):
TAATACTAAATAATAA
Found at i:27332596 original size:59 final size:59
Alignment explanation
Indices: 27332449--27332643 Score: 218
Period size: 59 Copynumber: 3.3 Consensus size: 59
27332439 CGAAACTTTC
* * * * *
27332449 AAAATTACCATTTTACCCTTGAACTTTCTAAAATCTCATTATTAACC-CTGATTTCACC-
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATCTTATTTTTAACCTC-GATTTCACCA
* * * *
27332507 GAAATTATCGTTTTACCCCCAAACTTTCCAAAATCTTATTTTTAACCTCGATTTCACCA
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATCTTATTTTTAACCTCGATTTCACCA
* * * *
27332566 AAAATTACCATTTTACCCCTAAAATTTCCAAAAT-TTCATTTTTGACCTTGATTTTC-CTA
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATCTT-ATTTTTAACCTCGA-TTTCACCA
27332625 AAAATTACCATTTTACCCC
1 AAAATTACCATTTTACCCC
27332644 CGGGCAACCA
Statistics
Matches: 116, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
58 49 0.42
59 63 0.54
60 4 0.03
ACGTcount: A:0.32, C:0.26, G:0.04, T:0.38
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCTAAACTTTCCAAAATCTTATTTTTAACCTCGATTTCACCA
Found at i:27332597 original size:30 final size:30
Alignment explanation
Indices: 27332563--27332643 Score: 76
Period size: 28 Copynumber: 2.7 Consensus size: 30
27332553 CTCGATTTCA
27332563 CCAAAAATTACCATTTTACCCCTAAAATTT
1 CCAAAAATTACCATTTTACCCCTAAAATTT
* *** ** *
27332593 CC-AAAATT-TCATTTTTGACCTTGATTTT
1 CCAAAAATTACCATTTTACCCCTAAAATTT
27332621 CCTAAAAATTACCATTTTACCCC
1 CC-AAAAATTACCATTTTACCCC
27332644 CGGGCAACCA
Statistics
Matches: 37, Mismatches: 11, Indels: 5
0.70 0.21 0.09
Matches are distributed among these distances:
28 15 0.41
29 6 0.16
30 8 0.22
31 8 0.22
ACGTcount: A:0.33, C:0.26, G:0.02, T:0.38
Consensus pattern (30 bp):
CCAAAAATTACCATTTTACCCCTAAAATTT
Found at i:27349814 original size:55 final size:55
Alignment explanation
Indices: 27349743--27349848 Score: 151
Period size: 56 Copynumber: 1.9 Consensus size: 55
27349733 TAAGCAAAAA
*
27349743 ATTTATTGTTTCATAAA-TGGTTTTTGCTATTAATTTATAAATGTTATTATGAGG
1 ATTTATTGTTTCATAAATTGGTTTTTACTATTAATTTATAAATGTTATTATGAGG
* * * *
27349797 ATTTGATTGTTTTATAAATTGTTTTTTATTATTAATTTATAATTGTTATTAT
1 ATTT-ATTGTTTCATAAATTGGTTTTTACTATTAATTTATAAATGTTATTAT
27349849 TAAAGTAAAG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
54 4 0.09
55 12 0.27
56 29 0.64
ACGTcount: A:0.29, C:0.02, G:0.11, T:0.58
Consensus pattern (55 bp):
ATTTATTGTTTCATAAATTGGTTTTTACTATTAATTTATAAATGTTATTATGAGG
Found at i:27349955 original size:20 final size:19
Alignment explanation
Indices: 27349932--27349969 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
27349922 TCTTCAAGTA
27349932 TATTTTAATATGATTTATTT
1 TATTTTAATATG-TTTATTT
27349952 TATTTTAATATGTTTATT
1 TATTTTAATATGTTTATT
27349970 CTAATAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (19 bp):
TATTTTAATATGTTTATTT
Found at i:27355349 original size:26 final size:25
Alignment explanation
Indices: 27355292--27355374 Score: 73
Period size: 27 Copynumber: 3.2 Consensus size: 25
27355282 GTTAAATATA
27355292 ATTTTAAATTATTTAATTTTTAATC-T
1 ATTTTAAATTATTTAA-TTTT-ATCAT
*
27355318 A-ATTAAATATATTTAATTTTATCAT
1 ATTTTAAAT-TATTTAATTTTATCAT
*
27355343 ATTTTAAAATGTAATTAATTTT-TCATT
1 ATTTT-AAAT-TATTTAATTTTATCA-T
27355370 ATTTT
1 ATTTT
27355375 GTAATTAAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
24 3 0.06
25 12 0.25
26 13 0.27
27 20 0.42
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (25 bp):
ATTTTAAATTATTTAATTTTATCAT
Found at i:27368825 original size:24 final size:24
Alignment explanation
Indices: 27368764--27368826 Score: 101
Period size: 24 Copynumber: 2.6 Consensus size: 24
27368754 AGAAACAATC
*
27368764 TTTCAATTAAACTATGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
27368788 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
27368812 TTT-AATTCAAACTCT
1 TTTCAATT-AAACTCT
27368827 TATTACTCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
23 4 0.11
24 33 0.89
ACGTcount: A:0.29, C:0.13, G:0.06, T:0.52
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATTTG
Found at i:27370267 original size:12 final size:12
Alignment explanation
Indices: 27370252--27370282 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
27370242 TGTCAAATTA
27370252 AATTAATTCAAT
1 AATTAATTCAAT
*
27370264 AATTAATTTAAT
1 AATTAATTCAAT
27370276 AATTAAT
1 AATTAAT
27370283 GTGATAGCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (12 bp):
AATTAATTCAAT
Found at i:27373255 original size:9 final size:9
Alignment explanation
Indices: 27373236--27373271 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
27373226 ACATTATTAA
*
27373236 TTAATAATT
1 TTAAAAATT
*
27373245 TTTAAAATT
1 TTAAAAATT
27373254 TTAAAAATT
1 TTAAAAATT
27373263 TTAAAAATT
1 TTAAAAATT
27373272 ATTGAAACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
TTAAAAATT
Found at i:27374210 original size:25 final size:25
Alignment explanation
Indices: 27374181--27374230 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
27374171 TTCATTTTAA
27374181 CCTGAATTTACCTTTATCTAAAATG
1 CCTGAATTTACCTTTATCTAAAATG
*
27374206 CCTGAATTTATCTTTATCTAAAATG
1 CCTGAATTTACCTTTATCTAAAATG
27374231 ACTCTAACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.32, C:0.18, G:0.08, T:0.42
Consensus pattern (25 bp):
CCTGAATTTACCTTTATCTAAAATG
Found at i:27380480 original size:18 final size:18
Alignment explanation
Indices: 27380457--27380500 Score: 65
Period size: 17 Copynumber: 2.5 Consensus size: 18
27380447 AAGTATCTTA
27380457 TAAAAAATAATATAAA-AT
1 TAAAAAATAA-ATAAATAT
27380475 T-AAAAATAAATAAATAT
1 TAAAAAATAAATAAATAT
27380492 TAAAAAATA
1 TAAAAAATA
27380501 TGTGATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.21
17 11 0.46
18 8 0.33
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
TAAAAAATAAATAAATAT
Found at i:27392868 original size:3 final size:3
Alignment explanation
Indices: 27392860--27392886 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
27392850 CCTCTTACAC
27392860 CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT
27392887 GTATACATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:27395892 original size:50 final size:50
Alignment explanation
Indices: 27395829--27395955 Score: 150
Period size: 50 Copynumber: 2.5 Consensus size: 50
27395819 CAAACATAAA
* *
27395829 ATATTTATATAAAATA-CAAGATTTGAACAAAAC-AATATAAATGAATATTT
1 ATATTTATATAAAACATCAA-ATTTGAACAAAACAAATA-AAATAAATATTT
* * * * *
27395879 ATGTTTATGTAAAACATCATATCTAAACAAAACAAATAAAATAAATATTT
1 ATATTTATATAAAACATCAAATTTGAACAAAACAAATAAAATAAATATTT
*
27395929 ATATTTATTTAAAACATCAAATTTGAA
1 ATATTTATATAAAACATCAAATTTGAA
27395956 AATAATTTAA
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
50 57 0.90
51 6 0.10
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.35
Consensus pattern (50 bp):
ATATTTATATAAAACATCAAATTTGAACAAAACAAATAAAATAAATATTT
Found at i:27398111 original size:24 final size:24
Alignment explanation
Indices: 27398083--27398139 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
27398073 TAGACTAATA
*
27398083 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTCAAACAAATAAAC
* *
27398107 AGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAACTCAAACAAATAAAC
27398131 AGAGTTTAA
1 AGAGTTTAA
27398140 TTGAAAGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.51, C:0.11, G:0.14, T:0.25
Consensus pattern (24 bp):
AGAGTTTAACTCAAACAAATAAAC
Found at i:27398140 original size:24 final size:24
Alignment explanation
Indices: 27398095--27398145 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
27398085 AGTTTGACTC
27398095 AAACAAATAAACAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
27398119 AAACAAATAAACAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
27398143 AAA
1 AAA
27398146 GATTATTTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.57, C:0.08, G:0.12, T:0.24
Consensus pattern (24 bp):
AAACAAATAAACAGAGTTTAATTG
Found at i:27403276 original size:19 final size:19
Alignment explanation
Indices: 27403228--27403280 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
27403218 CTTTTATGCT
27403228 TTTTTAATATTTT-TTCAA
1 TTTTTAATATTTTATTCAA
* *
27403246 TTTTGAGTTATTTTATT-ATA
1 TTTTTA-ATATTTTATTCA-A
27403266 TTTTTAATATTTTAT
1 TTTTTAATATTTTAT
27403281 AATTATTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
18 5 0.18
19 15 0.54
20 8 0.29
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (19 bp):
TTTTTAATATTTTATTCAA
Found at i:27412074 original size:21 final size:20
Alignment explanation
Indices: 27412046--27412085 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
27412036 AAACTGTTAG
**
27412046 ACTAAAAATCATTTAAAAAA
1 ACTAAAAAAAATTTAAAAAA
27412066 ACTATAAAAAAATTTAAAAA
1 ACTA-AAAAAAATTTAAAAA
27412086 CAATATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (20 bp):
ACTAAAAAAAATTTAAAAAA
Found at i:27416324 original size:15 final size:16
Alignment explanation
Indices: 27416298--27416327 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
27416288 CTAGTGGAAG
27416298 ATAAATACAAGGAATA
1 ATAAATACAAGGAATA
27416314 ATAAATA-AAGGAAT
1 ATAAATACAAGGAAT
27416328 GGCATGCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.63, C:0.03, G:0.13, T:0.20
Consensus pattern (16 bp):
ATAAATACAAGGAATA
Found at i:27417609 original size:13 final size:13
Alignment explanation
Indices: 27417591--27417615 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27417581 TATTATACAT
27417591 TGCAAAATAATAC
1 TGCAAAATAATAC
27417604 TGCAAAATAATA
1 TGCAAAATAATA
27417616 AGTGAATTTC
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:0.12, G:0.08, T:0.24
Consensus pattern (13 bp):
TGCAAAATAATAC
Found at i:27420896 original size:197 final size:195
Alignment explanation
Indices: 27420559--27421133 Score: 790
Period size: 197 Copynumber: 3.0 Consensus size: 195
27420549 ATCAATCCTT
* * * * * *
27420559 TTTTTCTTTCTTTTTCTCATTCACTCCATTCGTCTTTTTTTTTTTCAGTTTACAGATCTATTTTG
1 TTTTTCTTTCTTCTTCTCATTCACTCCATGCATCTTCTCTCTTTTCAGTTTACAGATCTATTTTG
27420624 TGGATACCTTTGTTGTCTTCACAAGTTGTGATAGACAGATGACGGTAGCTATCATTGTTGAAACA
66 TGGATACCTTTGTTGTCTTCACAAGTTGTGATAGACAGATGACGGTAGCTATCATTGTTGAAACA
*
27420689 CT-TCCGACCACCGACAGCTTCTTTTCGAAAGTAGATAGCTCTTCGTTGATTTCTTCATCTGTTT
131 CTAT-CGACCACCGACAGCTTCTTTTAGAAAGTAGATAGCTCTT-GTTGA-TTCTTCATCTGTTT
*
27420753 TTG
193 CTG
* * *
27420756 TTTTTCTTTCTTCTTCTCATTCACTCCATGCTTCTTCTCTCTTCTCAATTTACAGATCTATTTTG
1 TTTTTCTTTCTTCTTCTCATTCACTCCATGCATCTTCTCTCTTTTCAGTTTACAGATCTATTTTG
*
27420821 TGGATACCTTTGTTGTCTTCACAAGTTATGATAGACAGATGACGGTAGCTATCATTGTTGAAACA
66 TGGATACCTTTGTTGTCTTCACAAGTTGTGATAGACAGATGACGGTAGCTATCATTGTTGAAACA
27420886 CTATCGACCACCGACAGCTTCTTTTAG-AA--AGA-A---------GA----TCATCTGTTTCTG
131 CTATCGACCACCGACAGCTTCTTTTAGAAAGTAGATAGCTCTTGTTGATTCTTCATCTGTTTCTG
*
27420934 TTTTTCTTTCTTCTTCTCATTCACTCCATGCATCTTCTCTCTTTTCAGTTTACGGATCTATTTTG
1 TTTTTCTTTCTTCTTCTCATTCACTCCATGCATCTTCTCTCTTTTCAGTTTACAGATCTATTTTG
* * * * *
27420999 TGAATACTTTTGTTGCCTTCACAAGTTGTGATAGACAGATAACGGTAGCTATCATCGTTGAAACA
66 TGGATACCTTTGTTGTCTTCACAAGTTGTGATAGACAGATGACGGTAGCTATCATTGTTGAAACA
* * *
27421064 CTACCGACCACCGACAACTTCTTTTAGAAAGTAGATAGCTCTTTGTTGACTTCTTCATTTGTTTC
131 CTATCGACCACCGACAGCTTCTTTTAGAAAGTAGATAGCTC-TTGTTGA-TTCTTCATCTGTTTC
27421129 TG
194 TG
27421131 TTT
1 TTT
27421134 AAAGAGTTTC
Statistics
Matches: 334, Mismatches: 24, Indels: 40
0.84 0.06 0.10
Matches are distributed among these distances:
178 157 0.47
179 2 0.01
181 3 0.01
182 1 0.00
183 2 0.01
192 2 0.01
193 1 0.00
194 3 0.01
196 2 0.01
197 160 0.48
198 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.14, T:0.43
Consensus pattern (195 bp):
TTTTTCTTTCTTCTTCTCATTCACTCCATGCATCTTCTCTCTTTTCAGTTTACAGATCTATTTTG
TGGATACCTTTGTTGTCTTCACAAGTTGTGATAGACAGATGACGGTAGCTATCATTGTTGAAACA
CTATCGACCACCGACAGCTTCTTTTAGAAAGTAGATAGCTCTTGTTGATTCTTCATCTGTTTCTG
Found at i:27421046 original size:178 final size:178
Alignment explanation
Indices: 27420743--27421099 Score: 588
Period size: 178 Copynumber: 2.0 Consensus size: 178
27420733 GTTGATTTCT
* *
27420743 TCATCTGTTTTTGTTTTTCTTTCTTCTTCTCATTCACTCCATGCTTCTTCTCTCTTCTCAATTTA
1 TCATCTGTTTCTGTTTTTCTTTCTTCTTCTCATTCACTCCATGCATCTTCTCTCTTCTCAATTTA
* * *
27420808 CAGATCTATTTTGTGGATACCTTTGTTGTCTTCACAAGTTATGATAGACAGATGACGGTAGCTAT
66 CAGATCTATTTTGTGAATACCTTTGTTGCCTTCACAAGTTATGATAGACAGATAACGGTAGCTAT
* * *
27420873 CATTGTTGAAACACTATCGACCACCGACAGCTTCTTTTAGAAAGAAGA
131 CATCGTTGAAACACTACCGACCACCGACAACTTCTTTTAGAAAGAAGA
* *
27420921 TCATCTGTTTCTGTTTTTCTTTCTTCTTCTCATTCACTCCATGCATCTTCTCTCTTTTCAGTTTA
1 TCATCTGTTTCTGTTTTTCTTTCTTCTTCTCATTCACTCCATGCATCTTCTCTCTTCTCAATTTA
* * *
27420986 CGGATCTATTTTGTGAATACTTTTGTTGCCTTCACAAGTTGTGATAGACAGATAACGGTAGCTAT
66 CAGATCTATTTTGTGAATACCTTTGTTGCCTTCACAAGTTATGATAGACAGATAACGGTAGCTAT
*
27421051 CATCGTTGAAACACTACCGACCACCGACAACTTCTTTTAGAAAGTAGA
131 CATCGTTGAAACACTACCGACCACCGACAACTTCTTTTAGAAAGAAGA
27421099 T
1 T
27421100 AGCTCTTTGT
Statistics
Matches: 165, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
178 165 1.00
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (178 bp):
TCATCTGTTTCTGTTTTTCTTTCTTCTTCTCATTCACTCCATGCATCTTCTCTCTTCTCAATTTA
CAGATCTATTTTGTGAATACCTTTGTTGCCTTCACAAGTTATGATAGACAGATAACGGTAGCTAT
CATCGTTGAAACACTACCGACCACCGACAACTTCTTTTAGAAAGAAGA
Found at i:27421980 original size:15 final size:16
Alignment explanation
Indices: 27421950--27421989 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
27421940 TAATAAAAAT
27421950 ATAATTTCACTATTTTA
1 ATAATTT-ACTATTTTA
*
27421967 ATAATTTA-TATTTTT
1 ATAATTTACTATTTTA
27421982 ATAATTTA
1 ATAATTTA
27421990 AAAAAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.64
16 1 0.05
17 7 0.32
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (16 bp):
ATAATTTACTATTTTA
Found at i:27422972 original size:17 final size:17
Alignment explanation
Indices: 27422932--27422973 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
27422922 CCCAATGAAA
27422932 TAAATTTAGTTTTAAAT
1 TAAATTTAGTTTTAAAT
* *
27422949 TAGATTTA-TTTTGAATT
1 TAAATTTAGTTTT-AAAT
27422966 TAAATTTA
1 TAAATTTA
27422974 AAATTAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (17 bp):
TAAATTTAGTTTTAAAT
Found at i:27424949 original size:29 final size:29
Alignment explanation
Indices: 27424891--27425177 Score: 95
Period size: 30 Copynumber: 9.8 Consensus size: 29
27424881 GTAGGTCCCT
*
27424891 GAACTGTCCAAAAATTA-TATTTTTAACCCC
1 GAACT-TCCAAAAATTACCA-TTTTAACCCC
27424921 GAAACTTCCAAAAATTACCATTTT-ACCCC
1 G-AACTTCCAAAAATTACCATTTTAACCCC
* * *
27424950 TGAACTTTTC-AAAA-TCCCATTTTGACCCC
1 -GAAC-TTCCAAAAATTACCATTTTAACCCC
*
27424979 G-ATTTCACCAAAAATTACCATTTT-ACCCC
1 GAACTT--CCAAAAATTACCATTTTAACCCC
* * * **
27425008 TAAACTTTTC-AAAA-TCCCATTTTAACCTT
1 -GAAC-TTCCAAAAATTACCATTTTAACCCC
* *
27425037 G-ATTTCACCAAAAATTACCATTTT-ACACTC
1 GAACTT--CCAAAAATTACCATTTTAAC-CCC
* * *
27425067 AAACCTTTC-AAAATT-CCATTTTTAACCAC
1 GAA-CTTCCAAAAATTACCA-TTTTAACCCC
* *
27425096 GATTCCTT-CAAAAATTATCATTTT-ACCCTC
1 GA--ACTTCCAAAAATTACCATTTTAACCC-C
*
27425126 GAACTTTCC-AAAATT-CCATTTTTAACCCT
1 GAAC-TTCCAAAAATTACCA-TTTTAACCCC
*
27425155 G-ATTTCACCAAAAATTACCATTT
1 GAACTT--CCAAAAATTACCATTT
27425178 CACCCCTAAA
Statistics
Matches: 193, Mismatches: 29, Indels: 70
0.66 0.10 0.24
Matches are distributed among these distances:
26 4 0.02
27 4 0.02
28 26 0.13
29 71 0.37
30 72 0.37
31 12 0.06
32 4 0.02
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.35
Consensus pattern (29 bp):
GAACTTCCAAAAATTACCATTTTAACCCC
Found at i:27424992 original size:58 final size:59
Alignment explanation
Indices: 27424928--27425213 Score: 339
Period size: 59 Copynumber: 4.9 Consensus size: 59
27424918 CCCGAAACTT
* *
27424928 CCAAAAATTACCATTTTACCCCTGAACTTTTCAAAATCCCA-TTTTGACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTTCAAAATCCCATTTTTAACCCCGATTTCA
**
27424986 CCAAAAATTACCATTTTACCCCTAAACTTTTCAAAATCCCA-TTTTAACCTTGATTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTTCAAAATCCCATTTTTAACCCCGATTTCA
* * * * * *
27425044 CCAAAAATTACCATTTTA-CACTCAAACCTTTCAAAATTCCATTTTTAACCACGATTCCT
1 CCAAAAATTACCATTTTACCCCT-AAACTTTTCAAAATCCCATTTTTAACCCCGATTTCA
* * * * * *
27425103 TCAAAAATTATCATTTTA-CCCTCGAACTTTCCAAAATTCCATTTTTAACCCTGATTTCA
1 CCAAAAATTACCATTTTACCCCT-AAACTTTTCAAAATCCCATTTTTAACCCCGATTTCA
* * *
27425162 CCAAAAATTACCATTTCACCCCTAAAC-TTTCTAAAATTCTATTTTTAACCCC
1 CCAAAAATTACCATTTTACCCCTAAACTTTTC-AAAATCCCATTTTTAACCCC
27425214 AAATTTTCTC
Statistics
Matches: 196, Mismatches: 28, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
57 3 0.02
58 91 0.46
59 98 0.50
60 4 0.02
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.35
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCTAAACTTTTCAAAATCCCATTTTTAACCCCGATTTCA
Found at i:27425263 original size:118 final size:116
Alignment explanation
Indices: 27425018--27425265 Score: 265
Period size: 118 Copynumber: 2.1 Consensus size: 116
27425008 TAAACTTTTC
* * *
27425018 AAAATCCCA-TTTTAACCTTGATTTCACCAAAAATTACCATTTTACACTCAAACCTTTCAAAATT
1 AAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACCATTTCACACTCAAACCTTTCAAAATT
* * * *
27425082 CCATTTTTAACCACGATTCCTTCAAAAATTATCATTTTACCCTCGAACTTTCC
66 CCATTTTTAACCACAATT-CTTCAAAAATTATCATTTTACCATCGAAC-GTCA
*
27425135 AAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACCATTTCAC-CCCTAAA-CTTTCTAAAA
1 AAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACCATTTCACACTC-AAACCTTTC-AAAA
* * **
27425198 TTCTATTTTTAACCCCAAATT-TTCTCGAAATTA-CATTTTCACCATCGAGA-GTCA
64 TTCCATTTTTAACCAC-AATTCTTC-AAAAATTATCATTTT-ACCATCGA-ACGTCA
27425252 AAAATTACCATTTT
1 AAAATT-CCATTTT
27425266 GCCCCCGGGC
Statistics
Matches: 111, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
117 32 0.29
118 75 0.68
119 4 0.04
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (116 bp):
AAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACCATTTCACACTCAAACCTTTCAAAATT
CCATTTTTAACCACAATTCTTCAAAAATTATCATTTTACCATCGAACGTCA
Found at i:27430946 original size:26 final size:25
Alignment explanation
Indices: 27430914--27430964 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
27430904 TCAAAATTAA
*
27430914 TTAAGCATA-TACATGTGAATGATAAT
1 TTAAGCAGAGTACAT-TGAAT-ATAAT
27430940 TTAAGCAGAGTACATTGAATATAAT
1 TTAAGCAGAGTACATTGAATATAAT
27430965 AAACAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 5 0.22
26 13 0.57
27 5 0.22
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (25 bp):
TTAAGCAGAGTACATTGAATATAAT
Found at i:27433808 original size:23 final size:23
Alignment explanation
Indices: 27433782--27433826 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
27433772 AAATTCAAAT
**
27433782 TTCGAATTATTCGAATCGAGTTA
1 TTCGAATTAAACGAATCGAGTTA
*
27433805 TTCGAGTTAAACGAATCGAGTT
1 TTCGAATTAAACGAATCGAGTT
27433827 GAAATTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (23 bp):
TTCGAATTAAACGAATCGAGTTA
Found at i:27434117 original size:42 final size:42
Alignment explanation
Indices: 27434058--27434141 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
27434048 CAAATATTTT
*
27434058 TAAACCCAAATATAATTTCATTCTTCAAA-AACACTCATAAAC
1 TAAACCCAAATATAATTTCATTCCT-AAATAACACTCATAAAC
* *
27434100 TAAACCTAAATATAATTTTATTCCTAAATAACACTCATAAAC
1 TAAACCCAAATATAATTTCATTCCTAAATAACACTCATAAAC
27434142 AACTCCTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 3 0.08
42 35 0.92
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (42 bp):
TAAACCCAAATATAATTTCATTCCTAAATAACACTCATAAAC
Found at i:27436076 original size:19 final size:19
Alignment explanation
Indices: 27436052--27436110 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
27436042 AGATGATCAT
*
27436052 AATCTAAAAAATATTTTAA
1 AATCTAAAAAATATTTGAA
* *
27436071 AATCTAAATATTATTTGAA
1 AATCTAAAAAATATTTGAA
*
27436090 AAT-TATAAAAA-AATTGAA
1 AATCTA-AAAAATATTTGAA
27436108 AAT
1 AAT
27436111 ATATATCTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
18 11 0.33
19 22 0.67
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (19 bp):
AATCTAAAAAATATTTGAA
Found at i:27436333 original size:20 final size:20
Alignment explanation
Indices: 27436308--27436346 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
27436298 TAAATTTTAA
*
27436308 ATATAAAAAATTCATCAATT
1 ATATAAAAAACTCATCAATT
*
27436328 ATATAAAATACTCATCAAT
1 ATATAAAAAACTCATCAAT
27436347 AAACTCCTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (20 bp):
ATATAAAAAACTCATCAATT
Found at i:27436335 original size:18 final size:19
Alignment explanation
Indices: 27436309--27436346 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
27436299 AAATTTTAAA
27436309 TATAAAAAAT-TCATCAAT
1 TATAAAAAATATCATCAAT
*
27436327 TATATAAAATACTCATCAAT
1 TATAAAAAATA-TCATCAAT
27436347 AAACTCCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (19 bp):
TATAAAAAATATCATCAAT
Found at i:27441745 original size:17 final size:16
Alignment explanation
Indices: 27441707--27441737 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27441697 ATAAATAAAA
27441707 AATATATAAAATTAAT
1 AATATATAAAATTAAT
*
27441723 AATATATTAAATTAA
1 AATATATAAAATTAA
27441738 ATGATATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATATATAAAATTAAT
Found at i:27449439 original size:6 final size:6
Alignment explanation
Indices: 27449428--27449458 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
27449418 TCACAAAAGC
27449428 ATGGCT ATGGCT ATGGCT ATGGCT ATGGCT A
1 ATGGCT ATGGCT ATGGCT ATGGCT ATGGCT A
27449459 ATAGCTAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.19, C:0.16, G:0.32, T:0.32
Consensus pattern (6 bp):
ATGGCT
Found at i:27452104 original size:145 final size:145
Alignment explanation
Indices: 27451841--27452132 Score: 566
Period size: 145 Copynumber: 2.0 Consensus size: 145
27451831 ATCTCCCAAC
27451841 AGCCCTTAGCTACAATTATTTCACAACAAATCCCCTTACTTTATCACATTTAACAATTAAATCCC
1 AGCCCTTAGCTACAATTATTTCACAACAAATCCCCTTACTTTATCACATTTAACAATTAAATCCC
* *
27451906 TAAATGTCAAATTCATCGAAAACAACTTTACAAAATAGTCTAATCCAACAACCAAGCTTACTAAA
66 TAAATGTCAAATTCATCAAAAACAACTTTACAAAATAGTCTAATCCAACAACCAAGCTTAATAAA
27451971 CTTCCATAAATTTCA
131 CTTCCATAAATTTCA
27451986 AGCCCTTAGCTACAATTATTTCACAACAAATCCCCTTACTTTATCACATTTAACAATTAAATCCC
1 AGCCCTTAGCTACAATTATTTCACAACAAATCCCCTTACTTTATCACATTTAACAATTAAATCCC
27452051 TAAATGTCAAATTCATCAAAAACAACTTTACAAAATAGTCTAATCCAACAACCAAGCTTAATAAA
66 TAAATGTCAAATTCATCAAAAACAACTTTACAAAATAGTCTAATCCAACAACCAAGCTTAATAAA
27452116 CTTCCATAAATTTCA
131 CTTCCATAAATTTCA
27452131 AG
1 AG
27452133 AAACATCTCA
Statistics
Matches: 145, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
145 145 1.00
ACGTcount: A:0.41, C:0.25, G:0.04, T:0.29
Consensus pattern (145 bp):
AGCCCTTAGCTACAATTATTTCACAACAAATCCCCTTACTTTATCACATTTAACAATTAAATCCC
TAAATGTCAAATTCATCAAAAACAACTTTACAAAATAGTCTAATCCAACAACCAAGCTTAATAAA
CTTCCATAAATTTCA
Found at i:27454114 original size:15 final size:15
Alignment explanation
Indices: 27454094--27454123 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27454084 CATTATTTGA
*
27454094 TTCATTTGATTTAAT
1 TTCATTTCATTTAAT
27454109 TTCATTTCATTTAAT
1 TTCATTTCATTTAAT
27454124 CTTGAGTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.10, G:0.03, T:0.60
Consensus pattern (15 bp):
TTCATTTCATTTAAT
Found at i:27454576 original size:6 final size:6
Alignment explanation
Indices: 27454557--27454600 Score: 79
Period size: 6 Copynumber: 7.3 Consensus size: 6
27454547 TTAATATATA
*
27454557 AATAGG AATGGG AATAGG AATAGG AATAGG AATAGG AATAGG AA
1 AATAGG AATAGG AATAGG AATAGG AATAGG AATAGG AATAGG AA
27454601 ATTGAGTACG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.34, T:0.16
Consensus pattern (6 bp):
AATAGG
Found at i:27458741 original size:3 final size:3
Alignment explanation
Indices: 27458733--27458759 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
27458723 AAATAGGCAT
27458733 TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA
27458760 AGAAGAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:27474162 original size:19 final size:20
Alignment explanation
Indices: 27474122--27474175 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 20
27474112 TTAATGTTAT
* *
27474122 AATTTT-ATTTTACTAAATA
1 AATTTTAATATTAATAAATA
27474141 AATTTTAATATTAATAAA-A
1 AATTTTAATATTAATAAATA
*
27474160 AATTTAAATA-TAATAA
1 AATTTTAATATTAATAA
27474176 TATACTTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 6 0.19
19 16 0.52
20 9 0.29
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTTTAATATTAATAAATA
Found at i:27474276 original size:23 final size:22
Alignment explanation
Indices: 27474223--27474286 Score: 56
Period size: 23 Copynumber: 2.8 Consensus size: 22
27474213 ATTTATAAAT
* * *
27474223 ATCTAAACATAAATGTTTTATA
1 ATCTAAATATGAATATTTTATA
*
27474245 ATATAAAATATGAATATTTTAATA
1 ATCT-AAATATGAATATTTT-ATA
* *
27474269 ATCTAAATAGGAGTATTT
1 ATCTAAATATGAATATTT
27474287 ATTTAAATCC
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
22 3 0.09
23 24 0.73
24 6 0.18
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.41
Consensus pattern (22 bp):
ATCTAAATATGAATATTTTATA
Found at i:27476249 original size:17 final size:17
Alignment explanation
Indices: 27476227--27476259 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
27476217 CTTTTAAAAT
27476227 TAAAATTAAAAATAAAG
1 TAAAATTAAAAATAAAG
27476244 TAAAATTAAAAATAAA
1 TAAAATTAAAAATAAA
27476260 TTAATGATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (17 bp):
TAAAATTAAAAATAAAG
Found at i:27480607 original size:3 final size:3
Alignment explanation
Indices: 27480592--27480639 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
27480582 GCACATAAAA
*
27480592 TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
27480640 ATAACCTACT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:27487331 original size:17 final size:18
Alignment explanation
Indices: 27487311--27487348 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
27487301 TTAACTGTTT
*
27487311 AATATTTTTAATAAA-AA
1 AATATTTTTAAGAAATAA
27487328 AATATTTTTAAGAAATAA
1 AATATTTTTAAGAAATAA
27487346 AAT
1 AAT
27487349 GTTCATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
AATATTTTTAAGAAATAA
Found at i:27487588 original size:21 final size:19
Alignment explanation
Indices: 27487533--27487588 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 19
27487523 TTAGAATGTA
*
27487533 TAAATTATATTTTAAATATT
1 TAAATTA-ATATTAAATATT
27487553 TAAATATAATCATTAAATATT
1 TAAAT-TAAT-ATTAAATATT
27487574 TATAATTAGATATTA
1 TA-AATTA-ATATTA
27487589 GCATAGTTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 7 0.23
21 19 0.61
22 5 0.16
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (19 bp):
TAAATTAATATTAAATATT
Found at i:27490520 original size:30 final size:29
Alignment explanation
Indices: 27490481--27490580 Score: 87
Period size: 31 Copynumber: 3.3 Consensus size: 29
27490471 TGAAAAGTTC
*
27490481 AGGGGTAAAATGGTAATTTTTGCTGAAAT
1 AGGGGTAAAATGGTAATTTTTGGTGAAAT
* * **
27490510 CGGGGTTAAAAATGG-GA-TTTTGGAAAAATTT
1 AGGGG-T-AAAATGGTAATTTTTGGTGAAA--T
27490541 AGGGGTAAAATGGTAATTTTTGGTGAAATT
1 AGGGGTAAAATGGTAATTTTTGGTGAAA-T
*
27490571 AGGGTTAAAA
1 AGGGGTAAAA
27490581 ATGAGATTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 11
0.72 0.13 0.14
Matches are distributed among these distances:
29 19 0.35
30 15 0.27
31 21 0.38
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.33
Consensus pattern (29 bp):
AGGGGTAAAATGGTAATTTTTGGTGAAAT
Found at i:27490561 original size:60 final size:58
Alignment explanation
Indices: 27490371--27490619 Score: 284
Period size: 59 Copynumber: 4.2 Consensus size: 58
27490361 TTCGGGGATA
* * *
27490371 AAAATGTAATTTTTGGTGAAACCGGGGCTAAAAATG-GGTTTTGGAAAGTTCAAGGGT
1 AAAATGTAATTTTTGGTGAAACCGGGGTTAAAAATGAGATTTTGGAAAGTTCAGGGGT
** ** * *
27490428 AAAATAGTAATTTTTGGTGAAACCGAAGTTAAAAACAAAATTTTGAAAAGTTCAGGGGT
1 AAAAT-GTAATTTTTGGTGAAACCGGGGTTAAAAATGAGATTTTGGAAAGTTCAGGGGT
* * * * *
27490487 AAAATGGTAATTTTTGCTGAAATCGGGGTTAAAAATGGGATTTTGGAAAAATTTAGGGGT
1 AAAAT-GTAATTTTTGGTGAAACCGGGGTTAAAAATGAGATTTTGG-AAAGTTCAGGGGT
*** *
27490547 AAAATGGTAATTTTTGGTGAAATTAGGGTTAAAAATGAGATTTTGGAAAGTTCTGGGGT
1 AAAAT-GTAATTTTTGGTGAAACCGGGGTTAAAAATGAGATTTTGGAAAGTTCAGGGGT
27490606 AAAAATGTAATTTT
1 -AAAATGTAATTTT
27490620 AGAATATTTT
Statistics
Matches: 160, Mismatches: 28, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
57 5 0.03
58 26 0.16
59 71 0.44
60 58 0.36
ACGTcount: A:0.37, C:0.04, G:0.26, T:0.33
Consensus pattern (58 bp):
AAAATGTAATTTTTGGTGAAACCGGGGTTAAAAATGAGATTTTGGAAAGTTCAGGGGT
Found at i:27490590 original size:119 final size:117
Alignment explanation
Indices: 27490364--27490619 Score: 318
Period size: 119 Copynumber: 2.2 Consensus size: 117
27490354 TTTGACTTTC
* *
27490364 GGGGATAAAAATGTAATTTTTGGTGAAACCGGGGCTAAAAATGGGTTTTGGAAAGTTCAAGGGTA
1 GGGG-TAAAAATGTAATTTTTGCTGAAACCGGGGCTAAAAATGGGTTTTGGAAAATTCAAGGGTA
*
27490429 AAATAGTAATTTTTGGTGAAACCGAAGTTAAAAACAAAATTTTGAAAAGTTCA
65 AAATAGTAATTTTTGGTGAAACAGAAGTTAAAAACAAAATTTTGAAAAGTTCA
* * * *
27490482 GGGGT-AAAATGGTAATTTTTGCTGAAATCGGGGTTAAAAATGGGATTTTGGAAAAATTTAGGGG
1 GGGGTAAAAAT-GTAATTTTTGCTGAAACCGGGGCTAAAAATGGG-TTTTGG-AAAATTCAAGGG
* * * ** * * *
27490546 TAAAATGGTAATTTTTGGTGAAATTAG-GGTTAAAAATGAGATTTTGGAAAGTTCT
63 TAAAATAGTAATTTTTGGTGAAA-CAGAAGTTAAAAACAAAATTTTGAAAAGTTCA
27490601 GGGGTAAAAATGTAATTTT
1 GGGGTAAAAATGTAATTTT
27490620 AGAATATTTT
Statistics
Matches: 118, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
116 5 0.04
117 31 0.26
118 10 0.08
119 66 0.56
120 6 0.05
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.32
Consensus pattern (117 bp):
GGGGTAAAAATGTAATTTTTGCTGAAACCGGGGCTAAAAATGGGTTTTGGAAAATTCAAGGGTAA
AATAGTAATTTTTGGTGAAACAGAAGTTAAAAACAAAATTTTGAAAAGTTCA
Found at i:27490618 original size:29 final size:28
Alignment explanation
Indices: 27490466--27490619 Score: 86
Period size: 29 Copynumber: 5.2 Consensus size: 28
27490456 TTAAAAACAA
*
27490466 AATTTTGAAAAGTTCAGGGGT-AAAATGGT
1 AATTTTGGAAA-TTCAGGGGTAAAAAT-GT
*
27490495 AATTTTTGCTGAAA-TC-GGGGTTAAAAATGG
1 AA-TTTTG--GAAATTCAGGGG-TAAAAATGT
* *
27490525 GATTTTGGAAAAATTTAGGGGT-AAAATGGT
1 AATTTTGG--AAATTCAGGGGTAAAAAT-GT
*
27490555 AATTTTTGGTGAAATT-AGGGTTAAAAATG-
1 AA-TTTT-G-GAAATTCAGGGGTAAAAATGT
*
27490584 AGATTTTGGAAAGTTCTGGGGTAAAAATGT
1 A-ATTTTGGAAA-TTCAGGGGTAAAAATGT
27490614 AATTTT
1 AATTTT
27490620 AGAATATTTT
Statistics
Matches: 98, Mismatches: 9, Indels: 36
0.69 0.06 0.25
Matches are distributed among these distances:
27 5 0.05
28 3 0.03
29 40 0.41
30 22 0.22
31 23 0.23
32 4 0.04
33 1 0.01
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.35
Consensus pattern (28 bp):
AATTTTGGAAATTCAGGGGTAAAAATGT
Found at i:27491593 original size:6 final size:6
Alignment explanation
Indices: 27491573--27491617 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
27491563 TTAATACTAT
* *
27491573 TTTAAA TTT-AA -TTAAA TTTAAA CTTAAA -GTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
27491618 ATCAATTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
4 2 0.06
5 8 0.24
6 23 0.70
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (6 bp):
TTTAAA
Found at i:27491617 original size:17 final size:17
Alignment explanation
Indices: 27491573--27491628 Score: 69
Period size: 17 Copynumber: 3.4 Consensus size: 17
27491563 TTAATACTAT
*
27491573 TTTAAATTT-AATTAAA
1 TTTAAATTTAAAATAAA
* *
27491589 TTTAAACTTAAAGTAAA
1 TTTAAATTTAAAATAAA
*
27491606 TTTAAATTTAAAATCAA
1 TTTAAATTTAAAATAAA
27491623 TTTAAA
1 TTTAAA
27491629 ATCAATTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 8 0.24
17 26 0.76
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:27491647 original size:12 final size:11
Alignment explanation
Indices: 27491610--27491655 Score: 67
Period size: 11 Copynumber: 4.2 Consensus size: 11
27491600 AGTAAATTTA
27491610 AATTTAAAATC
1 AATTTAAAATC
27491621 AATTTAAAATC
1 AATTTAAAATC
*
27491632 AATTTAAACCTC
1 AATTTAAA-ATC
27491644 AA-TTAAAATC
1 AATTTAAAATC
27491654 AA
1 AA
27491656 AAGCTCAAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
10 4 0.12
11 24 0.75
12 4 0.12
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (11 bp):
AATTTAAAATC
Found at i:27492379 original size:200 final size:200
Alignment explanation
Indices: 27492033--27492824 Score: 1167
Period size: 200 Copynumber: 4.0 Consensus size: 200
27492023 TGCAATCATC
** * *
27492033 TGTTTTGATTCGCTTCTCGGGATCCCCTCAAGAAGACG-ATCCTGGTCCACTTC-CTTGTGTCTC
1 TGTTTTGATTCGCTTCTCTAGATCTCCTCAGGAAGACGAAT-CTGGTCCACTTCTC-TGTGTCTC
* * * * * * *
27492096 ATCAAGAAGTTAACCTTTTTATTGCTTCGACTTGCTTCTCGGTGCCTCATCTGGGAGCTGAGTTC
64 ATCAGGAAGCTAACCTTTTTATTGCTTCGACTTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTC
* * * * * * *
27492161 GAAGATTTACTCGTGTTGAGCGCTGAGTTAGTGTTCTTCTCTGTATCTAATTAGGAAGATGACCA
129 GAAGATTTGCTAGTGTTGAGCGCTGAGTTGGTGTTCTTCTCTGTATCTCATCAAGAAGATGACCG
27492226 CCTCGCT
194 CCTCGCT
* * * * *
27492233 CGTTTTGATTTGCTTCTCTAAATCTCCTCATGAAGACGAATCTGGTCCACTTCTCTATGTCTCAT
1 TGTTTTGATTCGCTTCTCTAGATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTGTCTCAT
*
27492298 CAGGAAGCTAACATTTTTATTGCTTCGACTTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGA
66 CAGGAAGCTAACCTTTTTATTGCTTCGACTTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGA
*
27492363 AGATTTGCTAGTGTTGAGCGCTGAGTTGGTGTTCTTCTCTGTATCTCATCACGAAGATGACCGCC
131 AGATTTGCTAGTGTTGAGCGCTGAGTTGGTGTTCTTCTCTGTATCTCATCAAGAAGATGACCGCC
27492428 TCGCT
196 TCGCT
* ** *
27492433 TGTTTTGATTTGCTTCTCTAGATCTCCTCAGGAAGACGAATCTAATCCACTTTTCTGTGTCTCAT
1 TGTTTTGATTCGCTTCTCTAGATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTGTCTCAT
* *
27492498 CAGGAAGCTAACCTTTTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTTGA
66 CAGGAAGCTAACCTTTTTATTGCTTCGACTTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGA
* * * * * *
27492563 AGATTTGTTCGTGTTGAGCGCTGAGTTGGTGTTATTCTCTATATCTCATCAAGAAGCTGGCCGCC
131 AGATTTGCTAGTGTTGAGCGCTGAGTTGGTGTTCTTCTCTGTATCTCATCAAGAAGATGACCGCC
27492628 TCGCT
196 TCGCT
* * *
27492633 TGTTTTGATTCGCTTCTCTGGATCTCCTCAGGAAGACGAATCTGGTCCACTTATATGTGTCTCAT
1 TGTTTTGATTCGCTTCTCTAGATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTGTCTCAT
27492698 CAGGAAGCTAACC-TTTTATTGCTTCGACTTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGA
66 CAGGAAGCTAACCTTTTTATTGCTTCGACTTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGA
* *
27492762 AGATTTGCTAGTGTTGAGCGCTGTGTTGGTGTTCTTCTCTGTATCTCATCAAGAAGATTACCG
131 AGATTTGCTAGTGTTGAGCGCTGAGTTGGTGTTCTTCTCTGTATCTCATCAAGAAGATGACCG
27492825 GCTTACCATT
Statistics
Matches: 534, Mismatches: 56, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
199 104 0.19
200 427 0.80
201 3 0.01
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (200 bp):
TGTTTTGATTCGCTTCTCTAGATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTGTCTCAT
CAGGAAGCTAACCTTTTTATTGCTTCGACTTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGA
AGATTTGCTAGTGTTGAGCGCTGAGTTGGTGTTCTTCTCTGTATCTCATCAAGAAGATGACCGCC
TCGCT
Found at i:27505011 original size:29 final size:29
Alignment explanation
Indices: 27504974--27505075 Score: 84
Period size: 29 Copynumber: 3.4 Consensus size: 29
27504964 TGGTGAAATC
27504974 GGGGTTAAAAATGGGATTTTGAAAAATTTA
1 GGGG-TAAAAATGGGATTTTGAAAAATTTA
* * *
27505004 AGGGT-AAAATGGTAATTTTTTGGTAAAA-TT-
1 GGGGTAAAAATGG-GA--TTTT-GAAAAATTTA
* *
27505034 GGGGTTAAAAATGGGATTTTGGAAAGTTTA
1 GGGG-TAAAAATGGGATTTTGAAAAATTTA
27505064 GGGGTAAAAATG
1 GGGGTAAAAATG
27505076 TAATTTTAGA
Statistics
Matches: 57, Mismatches: 7, Indels: 17
0.70 0.09 0.21
Matches are distributed among these distances:
28 11 0.19
29 16 0.28
30 10 0.18
31 8 0.14
32 12 0.21
ACGTcount: A:0.37, C:0.00, G:0.29, T:0.33
Consensus pattern (29 bp):
GGGGTAAAAATGGGATTTTGAAAAATTTA
Found at i:27505048 original size:60 final size:58
Alignment explanation
Indices: 27504892--27505082 Score: 249
Period size: 60 Copynumber: 3.2 Consensus size: 58
27504882 ACTTTCGGGA
* * * * *
27504892 TAAAATGTAATTTTTGGTGAAACTGAGGCTAAAACTGGG-TTTTGGAAAGTTTGGGGG
1 TAAAATGTAATTTTTGGTGAAATTGGGGTTAAAAATGGGATTTTGGAAAGTTTAGGGG
* * * *
27504949 TAAAATAGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGAAAAATTTAAGGG
1 TAAAAT-GTAATTTTTGGTGAAATTGGGGTTAAAAATGGGATTTTGGAAAGTTTAGGGG
*
27505008 TAAAATGGTAATTTTTTGGTAAAATTGGGGTTAAAAATGGGATTTTGGAAAGTTTAGGGG
1 TAAAAT-GTAA-TTTTTGGTGAAATTGGGGTTAAAAATGGGATTTTGGAAAGTTTAGGGG
27505068 TAAAAATGTAATTTT
1 T-AAAATGTAATTTT
27505083 AGAATATTTT
Statistics
Matches: 115, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
57 6 0.05
58 28 0.24
59 28 0.24
60 48 0.42
61 5 0.04
ACGTcount: A:0.35, C:0.02, G:0.27, T:0.36
Consensus pattern (58 bp):
TAAAATGTAATTTTTGGTGAAATTGGGGTTAAAAATGGGATTTTGGAAAGTTTAGGGG
Found at i:27505053 original size:31 final size:31
Alignment explanation
Indices: 27504960--27505053 Score: 81
Period size: 31 Copynumber: 3.1 Consensus size: 31
27504950 AAAATAGTAA
* *
27504960 TTTTTGGTGAAATCGGGGTTAAAAATGGGA-
1 TTTTTGGTAAAATTGGGGTTAAAAATGGGAT
* * *
27504990 -TTTT-GAAAAATTTAAGGG-T-AAAATGGTAAT
1 TTTTTGGTAAAA-TT-GGGGTTAAAAATGG-GAT
27505020 TTTTTGGTAAAATTGGGGTTAAAAATGGGAT
1 TTTTTGGTAAAATTGGGGTTAAAAATGGGAT
27505051 TTT
1 TTT
27505054 GGAAAGTTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 15
0.68 0.11 0.21
Matches are distributed among these distances:
28 11 0.23
29 7 0.15
30 6 0.12
31 12 0.25
32 12 0.25
ACGTcount: A:0.34, C:0.01, G:0.27, T:0.38
Consensus pattern (31 bp):
TTTTTGGTAAAATTGGGGTTAAAAATGGGAT
Found at i:27505081 original size:29 final size:28
Alignment explanation
Indices: 27504931--27505096 Score: 72
Period size: 29 Copynumber: 5.6 Consensus size: 28
27504921 TAAAACTGGG
*
27504931 TTTTGGAAAGTTTGGGGGT-AAAATAGTAA
1 TTTTGGAAA-TTTAGGGGTAAAAAT-GTAA
* **
27504960 TTTTTGGTGAAA--TCGGGGTTAAAAATGGGA
1 -TTTT-G-GAAATTTAGGGG-TAAAAATGTAA
* *
27504990 TTTTGAAAAATTTAAGGGT-AAAATGGTAA
1 TTTTG-GAAATTTAGGGGTAAAAAT-GTAA
* **
27505019 TTTTTTGGTAAAATT-GGGGTTAAAAATGGGA
1 --TTTTGG-AAATTTAGGGG-TAAAAATGTAA
27505050 TTTTGGAAAGTTTAGGGGTAAAAATGTAA
1 TTTTGGAAA-TTTAGGGGTAAAAATGTAA
*
27505079 TTTTAGAATATTTTAGGG
1 TTTTGGAA-A-TTTAGGG
27505097 ACCTATAAGC
Statistics
Matches: 102, Mismatches: 19, Indels: 30
0.68 0.13 0.20
Matches are distributed among these distances:
28 12 0.12
29 36 0.35
30 26 0.25
31 19 0.19
32 9 0.09
ACGTcount: A:0.35, C:0.01, G:0.28, T:0.37
Consensus pattern (28 bp):
TTTTGGAAATTTAGGGGTAAAAATGTAA
Found at i:27505094 original size:30 final size:30
Alignment explanation
Indices: 27505034--27505096 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
27505024 TGGTAAAATT
* *
27505034 GGGGTTAAAAATGGGATTTTGGAAAGTTTA
1 GGGGTTAAAAATGGAATTTTAGAAAGTTTA
* *
27505064 GGGG-TAAAAATGTAATTTTAGAATATTTTA
1 GGGGTTAAAAATGGAATTTTAGAA-AGTTTA
27505094 GGG
1 GGG
27505097 ACCTATAAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 16 0.57
30 12 0.43
ACGTcount: A:0.35, C:0.00, G:0.30, T:0.35
Consensus pattern (30 bp):
GGGGTTAAAAATGGAATTTTAGAAAGTTTA
Found at i:27505483 original size:5 final size:5
Alignment explanation
Indices: 27505473--27505508 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
27505463 TCCTAGAGGC
27505473 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG G
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG G
27505509 TCCTTGGGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.00, C:0.19, G:0.61, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:27506150 original size:13 final size:13
Alignment explanation
Indices: 27506132--27506156 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27506122 TTTTATTAAT
27506132 ATTATTAATATTA
1 ATTATTAATATTA
27506145 ATTATTAATATT
1 ATTATTAATATT
27506157 GCATTTATTT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTATTAATATTA
Found at i:27507053 original size:6 final size:6
Alignment explanation
Indices: 27507033--27507088 Score: 57
Period size: 6 Copynumber: 10.0 Consensus size: 6
27507023 TTAATACTAT
* *
27507033 TTTAAA TTT-AA -TTAAA TTTAAA CTTAAA -GTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
27507078 -ATAAA TTTAAA
1 TTTAAA TTTAAA
27507089 ATCAATTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
4 2 0.05
5 12 0.29
6 27 0.66
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (6 bp):
TTTAAA
Found at i:27507099 original size:17 final size:17
Alignment explanation
Indices: 27507033--27507088 Score: 78
Period size: 17 Copynumber: 3.4 Consensus size: 17
27507023 TTAATACTAT
*
27507033 TTTAAATTT-AATTAAA
1 TTTAAATTTAAAATAAA
* *
27507049 TTTAAACTTAAAGTAAA
1 TTTAAATTTAAAATAAA
27507066 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
27507083 TTTAAA
1 TTTAAA
27507089 ATCAATTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
16 8 0.23
17 27 0.77
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:27507107 original size:12 final size:11
Alignment explanation
Indices: 27507070--27507115 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
27507060 AGTAAATTTA
*
27507070 AATTTAAAATA
1 AATTTAAAATC
27507081 AATTTAAAATC
1 AATTTAAAATC
*
27507092 AATTTAAACCTC
1 AATTTAAA-ATC
27507104 AA-TTAAAATC
1 AATTTAAAATC
27507114 AA
1 AA
27507116 AAGCTCAAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
10 4 0.13
11 23 0.74
12 4 0.13
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.33
Consensus pattern (11 bp):
AATTTAAAATC
Found at i:27529141 original size:10 final size:9
Alignment explanation
Indices: 27529112--27529137 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
27529102 TGATAGACAA
27529112 AAAGAAAAT
1 AAAGAAAAT
27529121 AAAGAAAAT
1 AAAGAAAAT
27529130 AAAGAAAA
1 AAAGAAAA
27529138 ATAACATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.08
Consensus pattern (9 bp):
AAAGAAAAT
Found at i:27532623 original size:6 final size:6
Alignment explanation
Indices: 27532612--27532639 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
27532602 TTTAAAATGT
27532612 TTTTTG TTTTTG TTTTTG TTTTTG TTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTT
27532640 CATTCTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (6 bp):
TTTTTG
Found at i:27537582 original size:5 final size:5
Alignment explanation
Indices: 27537572--27537603 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
27537562 TTCCAATGTA
27537572 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TT
27537604 CTCTCCTTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:27547479 original size:6 final size:6
Alignment explanation
Indices: 27547420--27547478 Score: 109
Period size: 6 Copynumber: 9.8 Consensus size: 6
27547410 TAACAAACCT
27547420 TATCCC TATCCC TATCCC TATCCC TATCCC TATCCC TATCCC TATCCC
1 TATCCC TATCCC TATCCC TATCCC TATCCC TATCCC TATCCC TATCCC
*
27547468 TATCCT TATCC
1 TATCCC TATCC
27547479 TAGAACTAGA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.17, C:0.47, G:0.00, T:0.36
Consensus pattern (6 bp):
TATCCC
Found at i:27550917 original size:17 final size:17
Alignment explanation
Indices: 27550887--27550962 Score: 73
Period size: 17 Copynumber: 4.4 Consensus size: 17
27550877 AACTTTAGAA
*
27550887 TTTAAATCTT-AATTCAT
1 TTTAAAT-TTAAATTTAT
*
27550904 TTTAATTTTAAATTTAT
1 TTTAAATTTAAATTTAT
*
27550921 TATAAATTTAAATTTAT
1 TTTAAATTTAAATTTAT
** *
27550938 TTGGAGTTTAAATTTAT
1 TTTAAATTTAAATTTAT
27550955 TTTGAAAT
1 TTT-AAAT
27550963 AAAAATTTAA
Statistics
Matches: 46, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
16 2 0.04
17 42 0.91
18 2 0.04
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (17 bp):
TTTAAATTTAAATTTAT
Found at i:27550927 original size:34 final size:34
Alignment explanation
Indices: 27550889--27550955 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
27550879 CTTTAGAATT
* *
27550889 TAAATCTT-AATTCATTTTAATTTTAAATTTATTA
1 TAAAT-TTAAATTCATTTGAAGTTTAAATTTATTA
* *
27550923 TAAATTTAAATTTATTTGGAGTTTAAATTTATT
1 TAAATTTAAATTCATTTGAAGTTTAAATTTATT
27550956 TTGAAATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 2 0.07
34 26 0.93
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.55
Consensus pattern (34 bp):
TAAATTTAAATTCATTTGAAGTTTAAATTTATTA
Found at i:27551176 original size:15 final size:15
Alignment explanation
Indices: 27551156--27551196 Score: 82
Period size: 15 Copynumber: 2.7 Consensus size: 15
27551146 CACGTCAGCA
27551156 TTGCCACATCACTCC
1 TTGCCACATCACTCC
27551171 TTGCCACATCACTCC
1 TTGCCACATCACTCC
27551186 TTGCCACATCA
1 TTGCCACATCA
27551197 GCAGACACGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.22, C:0.44, G:0.07, T:0.27
Consensus pattern (15 bp):
TTGCCACATCACTCC
Found at i:27554277 original size:25 final size:25
Alignment explanation
Indices: 27554216--27554286 Score: 101
Period size: 23 Copynumber: 2.9 Consensus size: 25
27554206 AAGTGCTGGG
*
27554216 TAACAGAGGGCATACAAAGTGCTAA
1 TAACAGAGGGCACACAAAGTGCTAA
*
27554241 T--TAGAGGGCACACAAAGTGCTAA
1 TAACAGAGGGCACACAAAGTGCTAA
*
27554264 TAACAGAGGGCACACACAGTGCT
1 TAACAGAGGGCACACAAAGTGCT
27554287 GAACAGAGGG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
23 21 0.52
25 19 0.47
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.15
Consensus pattern (25 bp):
TAACAGAGGGCACACAAAGTGCTAA
Found at i:27554291 original size:23 final size:22
Alignment explanation
Indices: 27554216--27554297 Score: 92
Period size: 23 Copynumber: 3.5 Consensus size: 22
27554206 AAGTGCTGGG
*
27554216 TAACAGAGGGCATACAAAGTGC
1 TAACAGAGGGCACACAAAGTGC
*
27554238 TAATTAGAGGGCACACAAAGTGC
1 TAA-CAGAGGGCACACAAAGTGC
*
27554261 TAATAACAGAGGGCACACACAGTGC
1 ---TAACAGAGGGCACACAAAGTGC
27554286 TGAACAGAGGGC
1 T-AACAGAGGGC
27554298 GCGCCAGTGT
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
22 4 0.08
23 27 0.53
25 17 0.33
26 3 0.06
ACGTcount: A:0.39, C:0.20, G:0.28, T:0.13
Consensus pattern (22 bp):
TAACAGAGGGCACACAAAGTGC
Found at i:27559223 original size:16 final size:16
Alignment explanation
Indices: 27559202--27559232 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27559192 TTCTATTGTT
27559202 ATTTAATAGATACATA
1 ATTTAATAGATACATA
*
27559218 ATTTAATATATACAT
1 ATTTAATAGATACAT
27559233 TGTAAACTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (16 bp):
ATTTAATAGATACATA
Found at i:27560386 original size:113 final size:113
Alignment explanation
Indices: 27560162--27560386 Score: 321
Period size: 113 Copynumber: 2.0 Consensus size: 113
27560152 ACATTTTGAG
* *
27560162 AAATTTAAGGAGGATACTCGATTGTGCAAATTTCACAAAAAATCACACCCAATACGTTAGGGCAC
1 AAATTTAAGGAGGATACTCGATTATGCAAATTTCACAAAAAATCACACCCAAAACGTTAGGGCAC
* * **
27560227 AATTCTTTGAAGTTTTCACACAAAAGACTATTACCTTGATTATGAAAA
66 AATTATTCGAAGTTTTCACACAAAAGACTATTACCTCAATTATGAAAA
*
27560275 AAATTTAAAGGAGGATACTCGATTATGCAAA-TTCTATAAAAAAT-ACACCCAAAACGTTAGGGC
1 AAATTT-AAGGAGGATACTCGATTATGCAAATTTC-ACAAAAAATCACACCCAAAACGTTAGGGC
* *
27560338 ACAATTATTCGAAGTTTTCACACAAAAAGA-TATTGCCTCAATTTTGAAA
64 ACAATTATTCGAAGTTTTCACAC-AAAAGACTATTACCTCAATTATGAAA
27560387 TTATTAAGGT
Statistics
Matches: 100, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
113 63 0.63
114 37 0.37
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (113 bp):
AAATTTAAGGAGGATACTCGATTATGCAAATTTCACAAAAAATCACACCCAAAACGTTAGGGCAC
AATTATTCGAAGTTTTCACACAAAAGACTATTACCTCAATTATGAAAA
Found at i:27560642 original size:54 final size:54
Alignment explanation
Indices: 27560581--27560742 Score: 220
Period size: 54 Copynumber: 3.0 Consensus size: 54
27560571 AAAAATAAAG
* * * *
27560581 ACATGAATTACATAAATTAGATAATGCGATTTCAAAAAGATGCTAAGGGACAAA
1 ACATGAATTGCATAAATTAGATGATGTGATTTGAAAAAGATGCTAAGGGACAAA
*
27560635 ACATGAATTGCATAAATTACG-TGATGTGGTTTGAAAAAGATGCTAAGGGACAAA
1 ACATGAATTGCATAAATTA-GATGATGTGATTTGAAAAAGATGCTAAGGGACAAA
* * *
27560689 ACATAAATTGTATAAATTACATGATGTGATTTGAAAAAGATGCT-AGTGGACAAA
1 ACATGAATTGCATAAATTAGATGATGTGATTTGAAAAAGATGCTAAG-GGACAAA
27560743 TTTAGTAAAG
Statistics
Matches: 96, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
53 2 0.02
54 93 0.97
55 1 0.01
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.27
Consensus pattern (54 bp):
ACATGAATTGCATAAATTAGATGATGTGATTTGAAAAAGATGCTAAGGGACAAA
Found at i:27561386 original size:21 final size:22
Alignment explanation
Indices: 27561346--27561387 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
27561336 AAAAAAAAAA
*
27561346 AAACAGATCTGAGCCTAGATCG
1 AAACAGATCTGAGCCCAGATCG
*
27561368 AAACCGATCT-AGCCCAGATC
1 AAACAGATCTGAGCCCAGATC
27561388 TAAAAATGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.36, C:0.29, G:0.19, T:0.17
Consensus pattern (22 bp):
AAACAGATCTGAGCCCAGATCG
Found at i:27562131 original size:20 final size:21
Alignment explanation
Indices: 27562106--27562144 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
27562096 TTGGTTAAAT
*
27562106 TTGTAATTGGA-TTTTTTTAA
1 TTGTAAATGGACTTTTTTTAA
27562126 TTGTAAATGGACTTTTTTT
1 TTGTAAATGGACTTTTTTT
27562145 TAAAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.23, C:0.03, G:0.15, T:0.59
Consensus pattern (21 bp):
TTGTAAATGGACTTTTTTTAA
Found at i:27562174 original size:12 final size:12
Alignment explanation
Indices: 27562143--27562181 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
27562133 TGGACTTTTT
*
27562143 TTTAAAAATTAA
1 TTTAAAATTTAA
*
27562155 ATTAAAATTTAA
1 TTTAAAATTTAA
27562167 TTTAAAATTTTAA
1 TTTAAAA-TTTAA
27562180 TT
1 TT
27562182 ATTAATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 16 0.70
13 7 0.30
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
TTTAAAATTTAA
Found at i:27562199 original size:20 final size:20
Alignment explanation
Indices: 27562163--27562200 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27562153 AAATTAAAAT
**
27562163 TTAATTTAAAATTTTAATTA
1 TTAATTTAAAAAATTAATTA
27562183 TTAATTTAAAAAATTAAT
1 TTAATTTAAAAAATTAAT
27562201 GATGTTCGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAATTTAAAAAATTAATTA
Found at i:27568426 original size:15 final size:14
Alignment explanation
Indices: 27568382--27568435 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 14
27568372 AATTTTGCTT
27568382 TCAATTAAAA-TTA
1 TCAATTAAAATTTA
* *
27568395 TAAATTAAAA--AA
1 TCAATTAAAATTTA
27568407 T-AATTTAAAATTTA
1 TCAA-TTAAAATTTA
27568421 TCAATTAAAATTTA
1 TCAATTAAAATTTA
27568435 T
1 T
27568436 TATTCAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
11 2 0.06
12 8 0.24
13 9 0.26
14 13 0.38
15 2 0.06
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (14 bp):
TCAATTAAAATTTA
Found at i:27568435 original size:14 final size:13
Alignment explanation
Indices: 27568382--27568432 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
27568372 AATTTTGCTT
27568382 TCAATTAAAATTA
1 TCAATTAAAATTA
* *
27568395 TAAATTAAAA-AA
1 TCAATTAAAATTA
27568407 T-AATTTAAAATTTA
1 TCAA-TTAAAA-TTA
27568421 TCAATTAAAATT
1 TCAATTAAAATT
27568433 TATTATTCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
11 2 0.06
12 8 0.26
13 11 0.35
14 8 0.26
15 2 0.06
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (13 bp):
TCAATTAAAATTA
Found at i:27581281 original size:3 final size:3
Alignment explanation
Indices: 27581275--27581304 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
27581265 CTTGACATTC
27581275 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
27581305 ATTCCATCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:27589092 original size:6 final size:6
Alignment explanation
Indices: 27589057--27589136 Score: 63
Period size: 6 Copynumber: 13.0 Consensus size: 6
27589047 TTTTAATTTT
* * *
27589057 ATTTAA TTTTAA ATTTAA ATTTAA TTATTTAA ATTT-A CTTTGA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA --ATTTAA ATTTAA ATTTAA ATTTAA
** * *
27589106 ATTTAA ATAAAA ATTAAA ACATTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA A-TTTAA ATTTAA
27589137 CATTAAAAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
5 4 0.07
6 45 0.76
7 4 0.07
8 6 0.10
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (6 bp):
ATTTAA
Found at i:27591009 original size:30 final size:30
Alignment explanation
Indices: 27590963--27591380 Score: 502
Period size: 30 Copynumber: 14.0 Consensus size: 30
27590953 CCCTAAATTA
*
27590963 TCCAGAAATTATATTTTAACCCCAAAACTTT
1 TCCA-AAATTACATTTTAACCCCAAAACTTT
*
27590994 TCCAAAATTACATTTTAACCCTAAAACTTT
1 TCCAAAATTACATTTTAACCCCAAAACTTT
*
27591024 TCCAAAATTACATTTTAACCCAAAAACTTT
1 TCCAAAATTACATTTTAACCCCAAAACTTT
* * *
27591054 TCCTAAACTATATTTTAACCCCAAAACTTT
1 TCCAAAATTACATTTTAACCCCAAAACTTT
* * *
27591084 TCTAAAATTATATTTTAACCTCAAAACTTT
1 TCCAAAATTACATTTTAACCCCAAAACTTT
* ** **
27591114 TCCTAAATTATTTTTTAACCTTAAAACTTT
1 TCCAAAATTACATTTTAACCCCAAAACTTT
* *
27591144 TCCAAAATTATATTTTAACACCAAAAC-TT
1 TCCAAAATTACATTTTAACCCCAAAACTTT
*
27591173 TCCTAAAATTACATTTTGACCCCAAAACTTT
1 TCC-AAAATTACATTTTAACCCCAAAACTTT
* *
27591204 TCCAAAATTATATTTTAACCCTAAAAC-TT
1 TCCAAAATTACATTTTAACCCCAAAACTTT
* *
27591233 TCCAAAATTATATTTTGACCCCAAAAC-TT
1 TCCAAAATTACATTTTAACCCCAAAACTTT
* *
27591262 TCCTAAAATTACATTTTGACCCTAAAACTTT
1 TCC-AAAATTACATTTTAACCCCAAAACTTT
* * *
27591293 CCCAAAATTACATTTTGACCCTAAAACTTT
1 TCCAAAATTACATTTTAACCCCAAAACTTT
* *
27591323 TCTAAAATTACATTTTGA-CCCAAAACTTT
1 TCCAAAATTACATTTTAACCCCAAAACTTT
* * *
27591352 TCCAAAATTACATATTGACCCCCAAACTT
1 TCCAAAATTACATTTTAACCCCAAAACTT
27591381 CCCTAAATCC
Statistics
Matches: 345, Mismatches: 37, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
29 63 0.18
30 269 0.78
31 13 0.04
ACGTcount: A:0.39, C:0.23, G:0.02, T:0.37
Consensus pattern (30 bp):
TCCAAAATTACATTTTAACCCCAAAACTTT
Found at i:27591130 original size:90 final size:90
Alignment explanation
Indices: 27590963--27591364 Score: 558
Period size: 90 Copynumber: 4.5 Consensus size: 90
27590953 CCCTAAATTA
*
27590963 TCCAGAAATTATATTTTAACCCCAAAACTTTTCCAAAATTACATTTTAACCCTAAAACTTTTCCA
1 TCCA-AAATTATATTTTAACCCCAAAACTTTTCTAAAATTACATTTTAACCCTAAAACTTTTCCA
*
27591028 AAATTACATTTTAACCCAAAAACTTT
65 AAATTACATTTTAACCCTAAAACTTT
* * * *
27591054 TCCTAAACTATATTTTAACCCCAAAACTTTTCTAAAATTATATTTTAA-CCTCAAAACTTTTCCT
1 TCCAAAATTATATTTTAACCCCAAAACTTTTCTAAAATTACATTTTAACCCT-AAAACTTTTCCA
** *
27591118 AAATTATTTTTTAACCTTAAAACTTT
65 AAATTACATTTTAACCCTAAAACTTT
* * * *
27591144 TCCAAAATTATATTTTAACACCAAAACTTTCCTAAAATTACATTTTGACCCCAAAACTTTTCCAA
1 TCCAAAATTATATTTTAACCCCAAAACTTTTCTAAAATTACATTTTAACCCTAAAACTTTTCCAA
*
27591209 AATTATATTTTAACCCTAAAAC-TT
66 AATTACATTTTAACCCTAAAACTTT
* * * *
27591233 TCCAAAATTATATTTTGACCCCAAAACTTTCCTAAAATTACATTTTGACCCTAAAACTTTCCCAA
1 TCCAAAATTATATTTTAACCCCAAAACTTTTCTAAAATTACATTTTAACCCTAAAACTTTTCCAA
*
27591298 AATTACATTTTGACCCTAAAACTTT
66 AATTACATTTTAACCCTAAAACTTT
* * * *
27591323 TCTAAAATTACATTTTGA-CCCAAAACTTTTCCAAAATTACAT
1 TCCAAAATTATATTTTAACCCCAAAACTTTTCTAAAATTACAT
27591365 ATTGACCCCC
Statistics
Matches: 279, Mismatches: 29, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
89 108 0.39
90 166 0.59
91 5 0.02
ACGTcount: A:0.39, C:0.22, G:0.01, T:0.37
Consensus pattern (90 bp):
TCCAAAATTATATTTTAACCCCAAAACTTTTCTAAAATTACATTTTAACCCTAAAACTTTTCCAA
AATTACATTTTAACCCTAAAACTTT
Found at i:27591287 original size:19 final size:19
Alignment explanation
Indices: 27591263--27591318 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 19
27591253 CCAAAACTTT
27591263 CCTAAAATTACATTTTGAC
1 CCTAAAATTACATTTTGAC
27591282 CCT-AAA--AC--TTT--C
1 CCTAAAATTACATTTTGAC
27591294 CC-AAAATTACATTTTGAC
1 CCTAAAATTACATTTTGAC
27591312 CCTAAAA
1 CCTAAAA
27591319 CTTTTCTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 16
0.64 0.00 0.36
Matches are distributed among these distances:
12 6 0.21
14 5 0.17
16 5 0.17
18 6 0.21
19 7 0.24
ACGTcount: A:0.39, C:0.25, G:0.04, T:0.32
Consensus pattern (19 bp):
CCTAAAATTACATTTTGAC
Found at i:27591513 original size:59 final size:58
Alignment explanation
Indices: 27591371--27591549 Score: 157
Period size: 59 Copynumber: 3.1 Consensus size: 58
27591361 ACATATTGAC
** * *
27591371 CCCCAAACTTCCCTAAATCCCATTTTTAACCTCGATTTTACCAAAACTTACCGTTTTG
1 CCCCAAACTTTTCAAAATTCCATTTTTAACCTCGATTTTACCAAAACTTACCGTTTTG
* * * * * * *
27591429 CCTCCGAACTTTTCAAAAATT-CATTTTTGACCTTGTTTTTGCCAAAACTTACCATTTTATT
1 CC-CCAAACTTTTC-AAAATTCCATTTTTAACCTCGATTTTACCAAAACTTACC-GTTT-TG
* * * * *
27591490 CCCCAAACTTTTC-AAATTCCATTTTTAGCCCCGATTTTA-CAAAAATTACCATTTTA
1 CCCCAAACTTTTCAAAATTCCATTTTTAACCTCGATTTTACCAAAACTTACCGTTTTG
27591546 CCCC
1 CCCC
27591550 TAAAAAACCC
Statistics
Matches: 95, Mismatches: 21, Indels: 12
0.74 0.16 0.09
Matches are distributed among these distances:
56 5 0.05
57 3 0.03
58 17 0.18
59 50 0.53
60 17 0.18
61 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.05, T:0.38
Consensus pattern (58 bp):
CCCCAAACTTTTCAAAATTCCATTTTTAACCTCGATTTTACCAAAACTTACCGTTTTG
Found at i:27603472 original size:68 final size:68
Alignment explanation
Indices: 27603141--27603895 Score: 1087
Period size: 69 Copynumber: 10.9 Consensus size: 68
27603131 GACCTTTTCT
* * * *
27603141 ATCCGTTTGAAATTGTAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGTAA
1 ATCCGCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTAATCTCTGAAATTGAAGTAAGAGCAA
27603206 CGTC
65 CGTC
* *
27603210 ATCCGCTTTGAAATTGAAGTAGAGTGGATAACAAGTCTTAATCTCTGAAATTGAAGTAAGAGTAA
1 ATCCGC-TTGAAATTGAAGTAGAGTGGATAACACGTCTTAATCTCTGAAATTGAAGTAAGAGCAA
27603275 CGTC
65 CGTC
* * * *
27603279 ATCCACTTTGAAATTGAAGTAGAGTGGATAACAAGCCTTAATCTCTGAAATTGAAGTAAGAGTAA
1 ATCCGC-TTGAAATTGAAGTAGAGTGGATAACACGTCTTAATCTCTGAAATTGAAGTAAGAGCAA
**
27603344 CCCC
65 CGTC
* *
27603348 ATCCGCTTTGAAATCGAAATAAGTAGAGTGGATAACAAGTCTTAATCTCTGAAATTGAAGTAAGA
1 ATCCGC-TTGAAATTG----AAGTAGAGTGGATAACACGTCTTAATCTCTGAAATTGAAGTAAGA
*
27603413 ACAACGTC
61 GCAACGTC
* **
27603421 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTCCATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTAATCTCTGAAATTGAAGTAAGAGCAAC
27603486 GTC
66 GTC
* *
27603489 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTAATCTCTGAAATTGAAGTAAGAGCAAT
1 ATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTAATCTCTGAAATTGAAGTAAGAGCAAC
*
27603554 GCC
66 GTC
* *
27603557 AATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGCAAGAGCAA
1 -ATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTAATCTCTGAAATTGAAGTAAGAGCAA
27603622 CGTC
65 CGTC
* *
27603626 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTAATCTCTGAAATTGAAGTAAGAGCAAT
1 ATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTAATCTCTGAAATTGAAGTAAGAGCAAC
*
27603691 GCC
66 GTC
* * *
27603694 AATCCGCTTGAAATCGAAGTAGAGTGGATAACAAGTCTTAATCTCTGAAACTGAAGTAAGAGCAA
1 -ATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTAATCTCTGAAATTGAAGTAAGAGCAA
27603759 CGTC
65 CGTC
* * * *
27603763 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATGGAAGTAAGAGCAAT
1 ATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTAATCTCTGAAATTGAAGTAAGAGCAAC
*
27603828 GCC
66 GTC
* *
27603831 AATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAATAAGAGCAA
1 -ATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTAATCTCTGAAATTGAAGTAAGAGCAA
27603896 GATCATTTCC
Statistics
Matches: 625, Mismatches: 53, Indels: 16
0.90 0.08 0.02
Matches are distributed among these distances:
68 235 0.38
69 313 0.50
70 16 0.03
72 8 0.01
73 53 0.08
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.27
Consensus pattern (68 bp):
ATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTAATCTCTGAAATTGAAGTAAGAGCAAC
GTC
Found at i:27603607 original size:137 final size:137
Alignment explanation
Indices: 27603141--27603895 Score: 1136
Period size: 137 Copynumber: 5.5 Consensus size: 137
27603131 GACCTTTTCT
* * *
27603141 ATCCGTTTGAAATTGTAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGTAA
1 ATCCGCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
* *
27603206 CGTCATCCGCTTTGAAATTGAAGTAGAGTGGATAACAAGTCTTAATCTCTGAAATTGAAGTAAGA
65 CGTCATCC-CCTTGAAATTGAAGTAGAGTGGATAACACGTCTTAATCTCTGAAATTGAAGTAAGA
* * *
27603271 GTAACGTC-
129 GCAATGCCA
* * * * *
27603279 ATCCACTTTGAAATTGAAGTAGAGTGGATAACAAGCCTTAATCTCTGAAATTGAAGTAAGAGTAA
1 ATCCGC-TTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
** * * *
27603344 CCCCATCCGCTTTGAAATCGAAATAAGTAGAGTGGATAACAAGTCTTAATCTCTGAAATTGAAGT
65 CGTCATCC-CCTTGAAATTG----AAGTAGAGTGGATAACACGTCTTAATCTCTGAAATTGAAGT
* * *
27603409 AAGAACAACGTC-
125 AAGAGCAATGCCA
* *
27603421 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTCCATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
27603486 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTAATCTCTGAAATTGAAGTAAGAGC
66 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTAATCTCTGAAATTGAAGTAAGAGC
27603551 AATGCCA
131 AATGCCA
*
27603558 ATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGCAAGAGCAAC
1 ATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
*
27603623 GTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTAATCTCTGAAATTGAAGTAAGAGC
66 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTAATCTCTGAAATTGAAGTAAGAGC
27603688 AATGCCA
131 AATGCCA
* * * *
27603695 ATCCGCTTGAAATCGAAGTAGAGTGGATAACAAGTCTTAATCTCTGAAACTGAAGTAAGAGCAAC
1 ATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
* *
27603760 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATGGAAGTAAGAGC
66 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTAATCTCTGAAATTGAAGTAAGAGC
27603825 AATGCCA
131 AATGCCA
*
27603832 ATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAATAAGAGCAA
1 ATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
27603896 GATCATTTCC
Statistics
Matches: 569, Mismatches: 42, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
136 49 0.09
137 321 0.56
138 59 0.10
139 16 0.03
140 9 0.02
141 59 0.10
142 56 0.10
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.27
Consensus pattern (137 bp):
ATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTAATCTCTGAAATTGAAGTAAGAGC
AATGCCA
Found at i:27604262 original size:12 final size:12
Alignment explanation
Indices: 27604247--27604314 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 12
27604237 AGTTAAATTG
* *
27604247 ATTTTTAATTTT
1 ATTTTAAATTTA
27604259 A-TTTAAATTTA
1 ATTTTAAATTTA
*
27604270 AATTTAAATTTA
1 ATTTTAAATTTA
*
27604282 ATTATTTAATTT-
1 ATT-TTAAATTTA
* *
27604294 ACTTTGAATTTA
1 ATTTTAAATTTA
*
27604306 AATTTAAAT
1 ATTTTAAAT
27604315 AAAAATTAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
11 16 0.36
12 22 0.49
13 7 0.16
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (12 bp):
ATTTTAAATTTA
Found at i:27604268 original size:6 final size:6
Alignment explanation
Indices: 27604259--27604345 Score: 70
Period size: 6 Copynumber: 14.2 Consensus size: 6
27604249 TTTTAATTTT
* *
27604259 ATTTAA ATTTAA ATTTAA ATTTAA TTATTT-A ATTT-A CTTTGA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA --ATTTAA ATTTAA ATTTAA ATTTAA
** * *
27604307 ATTTAA ATAAAA ATTAAA ACATTAA ATTTAA CATTTAA A
1 ATTTAA ATTTAA ATTTAA A-TTTAA ATTTAA -ATTTAA A
27604346 AATTAAAAGT
Statistics
Matches: 67, Mismatches: 9, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
5 8 0.12
6 44 0.66
7 11 0.16
8 4 0.06
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (6 bp):
ATTTAA
Done.