Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 101 of 226
Found at i:31234406 original size:15 final size:15
Alignment explanation
Indices: 31234359--31234423 Score: 67
Period size: 15 Copynumber: 4.2 Consensus size: 15
31234349 AAATTTTAGT
* *
31234359 TATAAATTTTTATAA
1 TATATATTTTAATAA
* *
31234374 CATATATTTTTATAA
1 TATATATTTTAATAA
31234389 TATATATTTGTAATATA
1 TATATATTT-TAATA-A
*
31234406 TATAAATTTTAATAA
1 TATATATTTTAATAA
31234421 TAT
1 TAT
31234424 TTTTTACGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
15 25 0.58
16 9 0.21
17 9 0.21
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (15 bp):
TATATATTTTAATAA
Found at i:31234458 original size:10 final size:9
Alignment explanation
Indices: 31234445--31234530 Score: 66
Period size: 10 Copynumber: 9.1 Consensus size: 9
31234435 GCCATTAATA
31234445 TATATTATTT
1 TATA-TATTT
31234455 TATATATATT
1 TATATAT-TT
*
31234465 TCTATGATTT
1 TATAT-ATTT
31234475 TATATATTT
1 TATATATTT
*
31234484 T-TATATAT
1 TATATATTT
*
31234492 TATAGGATTT
1 TATA-TATTT
31234502 TATATATTT
1 TATATATTT
* * *
31234511 AAATAGAATT
1 -TATATATTT
31234521 TATATATTT
1 TATATATTT
31234530 T
1 T
31234531 TCAAAATCAT
Statistics
Matches: 59, Mismatches: 12, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
8 7 0.12
9 21 0.36
10 29 0.49
11 2 0.03
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.59
Consensus pattern (9 bp):
TATATATTT
Found at i:31234508 original size:27 final size:29
Alignment explanation
Indices: 31234445--31234510 Score: 91
Period size: 27 Copynumber: 2.3 Consensus size: 29
31234435 GCCATTAATA
* *
31234445 TATATTATTTTATATATATTTCTATGATTT
1 TATA-TATTTTATATATATTTATAGGATTT
31234475 TATATATTTT-TATATA-TTATAGGATTT
1 TATATATTTTATATATATTTATAGGATTT
31234502 TATATATTT
1 TATATATTT
31234511 AAATAGAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 18 0.53
28 6 0.18
29 6 0.18
30 4 0.12
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.62
Consensus pattern (29 bp):
TATATATTTTATATATATTTATAGGATTT
Found at i:31248733 original size:26 final size:26
Alignment explanation
Indices: 31248704--31248761 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 26
31248694 ATGGTTATTC
*
31248704 GAAATGGATA-TATGAAAT-AAACATTT
1 GAAATGGATACT-TGAAATGAAA-ATGT
31248730 GAAATGGATACTTGAAATGAAAATGT
1 GAAATGGATACTTGAAATGAAAATGT
31248756 GAAATG
1 GAAATG
31248762 TGAAATGGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 25 0.86
27 4 0.14
ACGTcount: A:0.48, C:0.03, G:0.21, T:0.28
Consensus pattern (26 bp):
GAAATGGATACTTGAAATGAAAATGT
Found at i:31254287 original size:26 final size:24
Alignment explanation
Indices: 31254252--31254331 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 24
31254242 TATGGCCATA
31254252 CGAGCATGTAATTGGAAAGCTCTTT
1 CGAGCATGTAA-TGGAAAGCTCTTT
* *
31254277 CGAGCCATGTAATGGGAAGCTCATGT
1 CGAG-CATGTAATGGAAAGCTC-TTT
*
31254303 -GAGC-TGTATAATGGAAAGCTCTTA
1 CGAGCATG--TAATGGAAAGCTCTTT
31254327 CGAGC
1 CGAGC
31254332 CAATTATCAG
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
23 2 0.04
24 2 0.04
25 32 0.71
26 9 0.20
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (24 bp):
CGAGCATGTAATGGAAAGCTCTTT
Found at i:31254404 original size:25 final size:26
Alignment explanation
Indices: 31254278--31254483 Score: 153
Period size: 25 Copynumber: 8.2 Consensus size: 26
31254268 AAGCTCTTTC
* *
31254278 GAGCCATGTAAT-GGGAAGCTCATGT
1 GAGCCATATAATCGGGAAGCTCATGA
** * *
31254303 GAGCTGTATAAT-GGAAAGCTC-TTA
1 GAGCCATATAATCGGGAAGCTCATGA
* * *
31254327 CGAGCCA-ATTATCAGGAAGCTCATGT
1 -GAGCCATATAATCGGGAAGCTCATGA
*
31254353 GAGCCATAT-ATCGGGAAGCTCGTGA
1 GAGCCATATAATCGGGAAGCTCATGA
*
31254378 GAGCCATATAAT-GGGAAGCTCAAGA
1 GAGCCATATAATCGGGAAGCTCATGA
* *
31254403 GAGCTAT-TAATCAGGAAGCTCATGA
1 GAGCCATATAATCGGGAAGCTCATGA
* * * **
31254428 GAGCTAAATAA-CGGCAAGCTTGTGA
1 GAGCCATATAATCGGGAAGCTCATGA
*
31254453 GAGCCA-AGT-ATCGGGAAGCTCGTGA
1 GAGCCATA-TAATCGGGAAGCTCATGA
31254478 GAGCCA
1 GAGCCA
31254484 AATACCTGGA
Statistics
Matches: 143, Mismatches: 29, Indels: 18
0.75 0.15 0.09
Matches are distributed among these distances:
24 11 0.08
25 124 0.87
26 8 0.06
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.21
Consensus pattern (26 bp):
GAGCCATATAATCGGGAAGCTCATGA
Found at i:31271107 original size:26 final size:26
Alignment explanation
Indices: 31271077--31271127 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
31271067 ACCAATGAAC
*
31271077 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
31271103 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
31271128 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:31271167 original size:103 final size:104
Alignment explanation
Indices: 31270983--31271205 Score: 369
Period size: 103 Copynumber: 2.2 Consensus size: 104
31270973 AATGGATATC
31270983 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
31271048 GGATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
31271087 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
31271151 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
**
31271190 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
31271206 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 94 0.84
104 18 0.16
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:31278186 original size:104 final size:104
Alignment explanation
Indices: 31278065--31278286 Score: 374
Period size: 104 Copynumber: 2.1 Consensus size: 104
31278055 AATGGATATC
31278065 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
31278130 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
31278169 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
31278234 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
31278273 GCACACAGCAACCC
1 GCACTTAGCAACCC
31278287 TTTTATATAC
Statistics
Matches: 111, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 110 0.99
105 1 0.01
ACGTcount: A:0.32, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:31279558 original size:27 final size:27
Alignment explanation
Indices: 31279528--31279634 Score: 108
Period size: 27 Copynumber: 4.0 Consensus size: 27
31279518 AGTTAAAACA
* * *
31279528 ACCGTAATACCCTCAAAGGATAAAATT
1 ACCGAAATACCCTCGAAGGGTAAAATT
* *
31279555 ACCGAAATACCTTCGATGGGTAAAATT
1 ACCGAAATACCCTCGAAGGGTAAAATT
* *
31279582 ACCAAAATACCCCCGAAGGGTAAAATT
1 ACCGAAATACCCTCGAAGGGTAAAATT
* **
31279609 ATCGAAATAATCTC-ATAGGGTAAAAT
1 ACCGAAATACCCTCGA-AGGGTAAAAT
31279635 GACTGTTATA
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
26 1 0.02
27 64 0.98
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.22
Consensus pattern (27 bp):
ACCGAAATACCCTCGAAGGGTAAAATT
Found at i:31281187 original size:26 final size:28
Alignment explanation
Indices: 31281149--31281203 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
31281139 TTTAAAATAA
* *
31281149 TTTTAATATATATTTTTTTATTTTTTAT
1 TTTTAATATATATTTTTTTAATGTTTAT
31281177 TTTTAA-A-ATATTTTTTTAATGTTTAT
1 TTTTAATATATATTTTTTTAATGTTTAT
31281203 T
1 T
31281204 AAAAATGGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 18 0.72
27 1 0.04
28 6 0.24
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (28 bp):
TTTTAATATATATTTTTTTAATGTTTAT
Found at i:31289798 original size:18 final size:19
Alignment explanation
Indices: 31289757--31289800 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
31289747 CATTTTAAAA
31289757 AAAAAGGTTAGTTGGCTAT
1 AAAAAGGTTAGTTGGCTAT
31289776 AAAAAGGTTAGTTGGCTAT
1 AAAAAGGTTAGTTGGCTAT
31289795 AAAAAG
1 AAAAAG
31289801 CCACACCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.43, C:0.05, G:0.25, T:0.27
Consensus pattern (19 bp):
AAAAAGGTTAGTTGGCTAT
Found at i:31292849 original size:80 final size:81
Alignment explanation
Indices: 31292715--31292885 Score: 229
Period size: 80 Copynumber: 2.1 Consensus size: 81
31292705 CCCCAAAATA
* * * *
31292715 GGTAAAATGACCAAAATACCCCTATATGGTAGAATTATCGAAGTACCCCTATAGGGTAAAATGAC
1 GGTAAAATGACCAAAATACCCCTATAGGGTAGAATGACCGAAATACCCCTATAGGGTAAAATGAC
31292780 CGAAATACCCCCATAG
66 CGAAATACCCCCATAG
* * * *
31292796 GGTAAAATGACCGAAATACTCC-GTAGGGTAGAATGACCGAAATAACTCC-ATAGGGTAAAATGA
1 GGTAAAATGACCAAAATACCCCTATAGGGTAGAATGACCGAAAT-ACCCCTATAGGGTAAAATGA
* *
31292859 TCGAAATACCCCTATAG
65 CCGAAATACCCCCATAG
31292876 GGTAAAATGA
1 GGTAAAATGA
31292886 TTGTTGTACA
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
80 55 0.70
81 24 0.30
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.20
Consensus pattern (81 bp):
GGTAAAATGACCAAAATACCCCTATAGGGTAGAATGACCGAAATACCCCTATAGGGTAAAATGAC
CGAAATACCCCCATAG
Found at i:31292886 original size:27 final size:27
Alignment explanation
Indices: 31292715--31292885 Score: 211
Period size: 27 Copynumber: 6.4 Consensus size: 27
31292705 CCCCAAAATA
* *
31292715 GGTAAAATGACCAAAATACCCCTATAT
1 GGTAAAATGACCGAAATACCCCTATAG
* * * *
31292742 GGTAGAATTATCGAAGTACCCCTATAG
1 GGTAAAATGACCGAAATACCCCTATAG
*
31292769 GGTAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* *
31292796 GGTAAAATGACCGAAATACTCC-GTAG
1 GGTAAAATGACCGAAATACCCCTATAG
* *
31292822 GGTAGAATGACCGAAATAACTCC-ATAG
1 GGTAAAATGACCGAAAT-ACCCCTATAG
*
31292849 GGTAAAATGATCGAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCTATAG
31292876 GGTAAAATGA
1 GGTAAAATGA
31292886 TTGTTGTACA
Statistics
Matches: 124, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 23 0.19
27 101 0.81
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCTATAG
Found at i:31296824 original size:32 final size:31
Alignment explanation
Indices: 31296766--31296896 Score: 103
Period size: 30 Copynumber: 4.3 Consensus size: 31
31296756 TGTGTATACA
* *
31296766 AATATATATATTAATGG-G-TGTTATATATAT
1 AATATATATATGAGTGGAGTTG-TATATATAT
31296796 AATATATATATGAG-GGAGTTGGTA-ATATA-
1 AATATATATATGAGTGGAGTT-GTATATATAT
* * *
31296825 CATATATATATGAGTGGGGTTGTATCTATAT
1 AATATATATATGAGTGGAGTTGTATATATAT
* * * *
31296856 ACATATATATATGTG-GGTGATTATACATATAT
1 A-ATATATATATGAGTGGAG-TTGTATATATAT
31296888 AATATATAT
1 AATATATAT
31296897 GCATGTTTCT
Statistics
Matches: 82, Mismatches: 11, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
29 18 0.22
30 27 0.33
31 14 0.17
32 23 0.28
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (31 bp):
AATATATATATGAGTGGAGTTGTATATATAT
Found at i:31308003 original size:13 final size:13
Alignment explanation
Indices: 31307985--31308009 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31307975 AAGGAACATA
31307985 AAAAAATAAAAAT
1 AAAAAATAAAAAT
31307998 AAAAAATAAAAA
1 AAAAAATAAAAA
31308010 ATTAGGGATT
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:31319445 original size:14 final size:15
Alignment explanation
Indices: 31319418--31319451 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
31319408 ACCCGAATCT
*
31319418 ATTTTTAGGTAAGAA
1 ATTTTGAGGTAAGAA
31319433 ATTTTGAGG-AAGAA
1 ATTTTGAGGTAAGAA
31319447 ATTTT
1 ATTTT
31319452 CTAAGGGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (15 bp):
ATTTTGAGGTAAGAA
Found at i:31327679 original size:16 final size:16
Alignment explanation
Indices: 31327658--31327688 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31327648 TCAAAAAGAT
31327658 AAATTAAAAACTAAAA
1 AAATTAAAAACTAAAA
*
31327674 AAATTAAAAATTAAA
1 AAATTAAAAACTAAA
31327689 CTAAACAAAA
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:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATTAAAAACTAAAA
Found at i:31328168 original size:19 final size:18
Alignment explanation
Indices: 31328144--31328194 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 18
31328134 ACAAAAACTT
31328144 AAAAATTATAAAATTATAA
1 AAAAATTATAAAATTAT-A
31328163 AAAAATTATAAAATTATA
1 AAAAATTATAAAATTATA
*
31328181 AGAAATATATAAAA
1 AAAAAT-TATAAAA
31328195 AAAATCAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 6 0.20
19 24 0.80
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (18 bp):
AAAAATTATAAAATTATA
Found at i:31335268 original size:26 final size:26
Alignment explanation
Indices: 31335239--31335288 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
31335229 TGGTAAAATG
* *
31335239 AAATGTTTAGATGAAACAATTATACA
1 AAATGTTTAGAGGAAAAAATTATACA
*
31335265 AAATGTTTATAGGAAAAAATTATA
1 AAATGTTTAGAGGAAAAAATTATA
31335289 TGGAATGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.32
Consensus pattern (26 bp):
AAATGTTTAGAGGAAAAAATTATACA
Found at i:31336729 original size:19 final size:18
Alignment explanation
Indices: 31336686--31336740 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 18
31336676 CATATTTCAA
*
31336686 ATAGGTTCACACATGC--
1 ATAGGTTCGCACATGCAT
* *
31336702 ATCGGTTCGCATATAGCAT
1 ATAGGTTCGCACAT-GCAT
31336721 ATAGGTTCGCACATGCAT
1 ATAGGTTCGCACATGCAT
31336739 AT
1 AT
31336741 TGGATCTTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
16 11 0.35
17 2 0.06
18 6 0.19
19 12 0.39
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (18 bp):
ATAGGTTCGCACATGCAT
Found at i:31336953 original size:18 final size:18
Alignment explanation
Indices: 31336932--31336975 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
31336922 GCTTATATAC
31336932 ATAGGCTCAAATAAATGA
1 ATAGGCTCAAATAAATGA
*
31336950 ATAGGCTCACATAAATGA
1 ATAGGCTCAAATAAATGA
*
31336968 ATATGCTC
1 ATAGGCTC
31336976 GCATGCATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (18 bp):
ATAGGCTCAAATAAATGA
Found at i:31339764 original size:9 final size:9
Alignment explanation
Indices: 31339750--31339799 Score: 63
Period size: 9 Copynumber: 6.0 Consensus size: 9
31339740 AGTTTTCTTG
31339750 TAATTTTTA
1 TAATTTTTA
31339759 TAATTTTTA
1 TAATTTTTA
*
31339768 TAA-TTTTG
1 TAATTTTTA
31339776 TAATTTTTA
1 TAATTTTTA
31339785 T-A-TTTTA
1 TAATTTTTA
31339792 T-ATTTTTA
1 TAATTTTTA
31339800 AAAAATTTAG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
7 7 0.19
8 13 0.35
9 17 0.46
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (9 bp):
TAATTTTTA
Found at i:31339765 original size:26 final size:26
Alignment explanation
Indices: 31339747--31339798 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
31339737 TTTAGTTTTC
31339747 TTGTAATTTTTATAATTTTTATAATT
1 TTGTAATTTTTATAATTTTTATAATT
*
31339773 TTGTAATTTTTAT-A-TTTTATATTT
1 TTGTAATTTTTATAATTTTTATAATT
31339797 TT
1 TT
31339799 AAAAAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 11 0.44
25 1 0.04
26 13 0.52
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (26 bp):
TTGTAATTTTTATAATTTTTATAATT
Found at i:31339774 original size:17 final size:16
Alignment explanation
Indices: 31339754--31339799 Score: 67
Period size: 17 Copynumber: 2.9 Consensus size: 16
31339744 TTCTTGTAAT
31339754 TTTTATAATTTTTATAA
1 TTTTATAATTTTTAT-A
*
31339771 TTTTGTAATTTTTATA
1 TTTTATAATTTTTATA
31339787 TTTTAT-ATTTTTA
1 TTTTATAATTTTTA
31339800 AAAAATTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 7 0.26
16 6 0.22
17 14 0.52
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (16 bp):
TTTTATAATTTTTATA
Found at i:31343841 original size:21 final size:21
Alignment explanation
Indices: 31343796--31343857 Score: 101
Period size: 21 Copynumber: 3.0 Consensus size: 21
31343786 ATATTCAAGG
31343796 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
31343815 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
31343836 ATATGCAATCTTGGATATGAT
1 ATATGCAATCTTAGATATGAT
31343857 A
1 A
31343858 CGCAATCTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
19 19 0.47
21 21 0.52
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:31343869 original size:19 final size:19
Alignment explanation
Indices: 31343795--31343866 Score: 108
Period size: 19 Copynumber: 3.7 Consensus size: 19
31343785 AATATTCAAG
31343795 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
31343814 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
31343833 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTAGATAT
*
31343854 GATACGCAATCTT
1 GATATGCAATCTT
31343867 GGAAGATATG
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
19 31 0.63
21 18 0.37
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:31349543 original size:6 final size:6
Alignment explanation
Indices: 31349528--31349561 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
31349518 AAAATATTTC
*
31349528 AAAA-A AAAAGA AAAAGA AAAAGA AAAAGC AAAAG
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAG
31349562 GGAGAGGCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:31350832 original size:44 final size:44
Alignment explanation
Indices: 31350782--31350925 Score: 128
Period size: 44 Copynumber: 3.3 Consensus size: 44
31350772 ATCACAAAGC
* *
31350782 CTTGCCTTCCTGGTTTGCAGCGGAGCAGGTTGAAAATAACAGAT
1 CTTGCCTTCCTGGATTGCAGCGGAGCAGGTTGAAGATAACAGAT
* * * * * * * * *
31350826 CTTGCCTTCCTGCACTGACGGCGAAGCAGATCGGAGATACCAG-C
1 CTTGCCTTCCTGGATTG-CAGCGGAGCAGGTTGAAGATAACAGAT
* * * * *
31350870 CTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
1 CTTGCCTTCCTGGATTGCAGCGGAGCAGGTTGAAGATAACAGAT
31350914 CTTGCCTTCCTG
1 CTTGCCTTCCTG
31350926 CATCGACAGT
Statistics
Matches: 73, Mismatches: 25, Indels: 4
0.72 0.25 0.04
Matches are distributed among these distances:
43 17 0.23
44 38 0.52
45 18 0.25
ACGTcount: A:0.21, C:0.25, G:0.28, T:0.26
Consensus pattern (44 bp):
CTTGCCTTCCTGGATTGCAGCGGAGCAGGTTGAAGATAACAGAT
Found at i:31350907 original size:43 final size:43
Alignment explanation
Indices: 31350860--31350995 Score: 139
Period size: 44 Copynumber: 3.1 Consensus size: 43
31350850 AGCAGATCGG
*
31350860 AGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGA
1 AGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTAGA
* * * ** * * * *
31350903 AGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCA-A
1 AGATACCAG-CCTTGCCTCCCTGGGTTG-TAGTGGAGCAGGT-AGA
*
31350948 AGATACCAGCCTTGCCTCCTTGGGTTGTAGTGGAGCAGGTAGA
1 AGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTAGA
31350991 AGATA
1 AGATA
31350996 GCTGATAGAG
Statistics
Matches: 69, Mismatches: 20, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
42 1 0.01
43 24 0.35
44 25 0.36
45 19 0.28
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (43 bp):
AGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTAGA
Found at i:31350940 original size:88 final size:88
Alignment explanation
Indices: 31350779--31350997 Score: 314
Period size: 88 Copynumber: 2.5 Consensus size: 88
31350769 GAAATCACAA
* * * * * *
31350779 AGCCTTGCCTTCCTGGTTTGCAGCGGAGCAGGTTGAAAATAACAGATCTTGCCTTCCTGCACTGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACTGA
* **
31350844 CGGCGAAGCAGATCGGAGATACC
66 CAGCGAAGCAGATCAAAGATACC
31350867 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCA-TCG
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACT-G
*
31350931 ACAGTGAAGCAGATCAAAGATACC
65 ACAGCGAAGCAGATCAAAGATACC
* *
31350955 AGCCTTGCCTCCTTGGGTTGTAGTGGAGCAGGTAGAAGATAGC
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGC
31350998 TGATAGAGGG
Statistics
Matches: 118, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
87 1 0.01
88 117 0.99
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (88 bp):
AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACTGA
CAGCGAAGCAGATCAAAGATACC
Found at i:31350962 original size:44 final size:44
Alignment explanation
Indices: 31350826--31350964 Score: 120
Period size: 44 Copynumber: 3.2 Consensus size: 44
31350816 AATAACAGAT
* * *
31350826 CTTGCCTTCCTGCA-CTGACGGCGAAGCAGATCGGAGATACCAGC
1 CTTGCCTTCCTGCATC-GACAGTGAAGCAGATCGAAGATACCAGC
* ** * * * * * * *
31350870 CTTGCCTCCCTGGGTTG-TAGTGGAGCAGGTTGAAGATAGCAGAT
1 CTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGATACCAG-C
*
31350914 CTTGCCTTCCTGCATCGACAGTGAAGCAGATCAAAGATACCAGC
1 CTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGATACCAGC
31350958 CTTGCCT
1 CTTGCCT
31350965 CCTTGGGTTG
Statistics
Matches: 68, Mismatches: 24, Indels: 6
0.69 0.24 0.06
Matches are distributed among these distances:
43 17 0.25
44 32 0.47
45 19 0.28
ACGTcount: A:0.23, C:0.27, G:0.27, T:0.23
Consensus pattern (44 bp):
CTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGATACCAGC
Found at i:31356482 original size:43 final size:42
Alignment explanation
Indices: 31356427--31356834 Score: 192
Period size: 43 Copynumber: 9.3 Consensus size: 42
31356417 TCGACAGCGA
*
31356427 AGCAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGG
1 AGCAGATTGAAGATACCAGCCTTGCCTCCCT-GGTTGTAGTGG
* * * * * * * *
31356470 AGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGA
1 AGCAGATTGAAGATACCAG-CCTTGCCTCCCTG-GTTG-TAGTGG
31356515 AGCAGATTGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGG
1 AGCAGATTGAAGATACCAGCCTTGCCTCCCT-GGTTGTAGTGG
* * * * * * *
31356558 AGCAGATTGAAGATAGCAGATCTTGCCTTCCT-GTACCGACAATGA
1 AGCAGATTGAAGATACCAG-CCTTGCCTCCCTGGT--TG-TAGTGG
* * * **
31356603 AGTAGATCGAAGATACCAGCCTTTCCTCCCTAGGTCATAGTGG
1 AGCAGATTGAAGATACCAGCCTTGCCTCCCT-GGTTGTAGTGG
* * * * * * * *
31356646 AGTAGGTTGAAGATAGCAGATCTTGCCTTCCT-GTACCGACAGTGA
1 AGCAGATTGAAGATACCAG-CCTTGCCTCCCTGGT--TG-TAGTGG
* * * *
31356691 AGCAGATCGAAGATACCAACCTTGCCTCTCTGGGTTGTAGTTG
1 AGCAGATTGAAGATACCAGCCTTGCCTCCCT-GGTTGTAGTGG
* * ** * * * *
31356734 AGCAGGTTGAAGATAGCAGATTTTGCCTTCCT-GTACCGACAGTGA
1 AGCAGATTGAAGATACCAG-CCTTGCCTCCCTGGT--TG-TAGTGG
** * *
31356779 AGCAGATCAAAGATACCAGCCTTGCCTCCCTAGGTTGTCGTGA
1 AGCAGATTGAAGATACCAGCCTTGCCTCCCT-GGTTGTAGTGG
* *
31356822 AGTAGATCGAAGA
1 AGCAGATTGAAGA
31356835 AAGCAAATCT
Statistics
Matches: 264, Mismatches: 79, Indels: 44
0.68 0.20 0.11
Matches are distributed among these distances:
42 6 0.02
43 90 0.34
44 86 0.33
45 76 0.29
46 6 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (42 bp):
AGCAGATTGAAGATACCAGCCTTGCCTCCCTGGTTGTAGTGG
Found at i:31356834 original size:88 final size:88
Alignment explanation
Indices: 31356394--31356816 Score: 657
Period size: 88 Copynumber: 4.8 Consensus size: 88
31356384 ACTAGTATCA
* * *
31356394 ATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTA
1 ATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTA
31356459 GGTTGTAGTGGAGCAGGTTGAAG
66 GGTTGTAGTGGAGCAGGTTGAAG
* ** * *
31356482 ATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATTGAAGATACCAGCCTTGCCTCCCTA
1 ATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTA
*
31356547 GGTTGTAGTGGAGCAGATTGAAG
66 GGTTGTAGTGGAGCAGGTTGAAG
* * *
31356570 ATAGCAGATCTTGCCTTCCTGTACCGACAATGAAGTAGATCGAAGATACCAGCCTTTCCTCCCTA
1 ATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTA
** *
31356635 GGTCATAGTGGAGTAGGTTGAAG
66 GGTTGTAGTGGAGCAGGTTGAAG
* * *
31356658 ATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAACCTTGCCTCTCTG
1 ATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTA
*
31356723 GGTTGTAGTTGAGCAGGTTGAAG
66 GGTTGTAGTGGAGCAGGTTGAAG
* *
31356746 ATAGCAGATTTTGCCTTCCTGTACCGACAGTGAAGCAGATCAAAGATACCAGCCTTGCCTCCCTA
1 ATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTA
31356811 GGTTGT
66 GGTTGT
31356817 CGTGAAGTAG
Statistics
Matches: 305, Mismatches: 30, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 305 1.00
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (88 bp):
ATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTA
GGTTGTAGTGGAGCAGGTTGAAG
Found at i:31356889 original size:44 final size:44
Alignment explanation
Indices: 31356819--31357159 Score: 359
Period size: 44 Copynumber: 7.8 Consensus size: 44
31356809 TAGGTTGTCG
* *
31356819 TGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCA
1 TGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCA
* * *
31356863 TGAAGTAGATCAAAGATAGTAGATCTTGTCTTCATATATTGGCA
1 TGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCA
* * * * **
31356907 TGAAGTAGATCGAAGATAGTAGATCTTGTCTTCCCATACTGGTGGC-
1 TGAAGTAGATCAAAGAAAGCAGATCTTGTCTT--CAT-GTATTGGCA
* * *
31356953 -GAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCG
1 TGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCA
* * * * **
31356996 TGAAGTAGATCAAAGATAGCAGATCTTTTCTTTC-TATACTGGGGG
1 TGAAGTAGATCAAAGAAAGCAGATCTTGTC-TTCATGTA-TTGGCA
* *
31357041 CGAAGTAGATCAAAGAAAGTAGATCTTGTCTTCATGTATTGGC-
1 TGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCA
* *
31357084 -GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATCGGCA
1 TGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCA
* **
31357127 TGAAATAGATCAAAGGTAGCAGATCTTGTCTTC
1 TGAAGTAGATCAAAGAAAGCAGATCTTGTCTTC
31357160 CCATACTGGT
Statistics
Matches: 253, Mismatches: 34, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
42 44 0.17
43 3 0.01
44 132 0.52
45 66 0.26
46 3 0.01
47 5 0.02
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.30
Consensus pattern (44 bp):
TGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCA
Found at i:31356923 original size:131 final size:131
Alignment explanation
Indices: 31356776--31357189 Score: 453
Period size: 131 Copynumber: 3.1 Consensus size: 131
31356766 GTACCGACAG
* ** * * *
31356776 TGAAGCAGATCAAAGATACCAG-CCTTGCCTCCCTAGGTTGTCGTGAAGTAGATCGAAGAAAGCA
1 TGAAGTAGATCAAAGATAGTAGATCTTGCCTCCCTA-GTTGTGGCGAAGTAGATCGAAGAAAGCA
* * *
31356840 AATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGTAGATCTTGTCTTCATATA-TTG
65 GATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGATCTTGTCTTC-TATACTGG
31356904 GCA
129 GCA
* * * * *
31356907 TGAAGTAGATCGAAGATAGTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGT
1 TGAAGTAGATCAAAGATAGTAGATCTTG-CCTCCC-TAGTTGTGGCGAAGTAGATCGAAGAAAGC
* *
31356972 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTTTCTTTCTATACTG
64 AGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGATCTTGTC-TTCTATACTG
**
31357037 GGGG
128 GGCA
* * * * *
31357041 CGAAGTAGATCAAAGAAAGTAGATCTTGTCTTCAT-GTAT-TGGCGAAGTAGATCGAAGAAAGCA
1 TGAAGTAGATCAAAGATAGTAGATCTTGCCTCCCTAGT-TGTGGCGAAGTAGATCGAAGAAAGCA
* * * *
31357104 GATCTTGTCTTCATGTATCGGCATGAAATAGATCAAAGGTAGCAGATCTTGTCTTCCCATACTGG
65 GATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGATCTTGTCTT-CTATACT-G
31357169 TGGC-
128 -GGCA
*
31357173 -GAAGTAGACCAAAGATA
1 TGAAGTAGATCAAAGATA
31357190 CAAGTCTTAT
Statistics
Matches: 237, Mismatches: 37, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
130 2 0.01
131 111 0.47
132 6 0.03
133 85 0.36
134 33 0.14
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (131 bp):
TGAAGTAGATCAAAGATAGTAGATCTTGCCTCCCTAGTTGTGGCGAAGTAGATCGAAGAAAGCAG
ATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCTATACTGGGC
A
Found at i:31356924 original size:176 final size:174
Alignment explanation
Indices: 31356394--31356940 Score: 614
Period size: 176 Copynumber: 3.1 Consensus size: 174
31356384 ACTAGTATCA
* * *
31356394 ATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTA
1 ATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTA
* * * *
31356459 GGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATTG
66 GGTTGTAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATTGACAGTGAAGCAGATCG
* *
31356524 AAGATACCAG-CCTTGCCTCCCTAGGTTGTAGTGGAGCAGATTGAAG
131 AAGATACCAGACCTTGCCT-TCTAGGTTGGA-T-GAGCAGATTGAAG
* * *
31356570 ATAGCAGATCTTGCCTTCCTGTACCGACAATGAAGTAGATCGAAGATACCAGCCTTTCCTCCCTA
1 ATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTA
** **
31356635 GGTCATAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCG
66 GGTTGTAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATTGACAGTGAAGCAGATCG
* * *
31356700 AAGATACCA-ACCTTGCCTCTCTGGGTTGTAGTTGAGCAGGTTGAAG
131 AAGATACCAGACCTTGCCT-TCTAGGTTG--GATGAGCAGATTGAAG
* *
31356746 ATAGCAGATTTTGCCTTCCTGTACCGACAGTGAAGCAGATCAAAGATACCAGCCTTGCCTCCCTA
1 ATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTA
* * * * * * * * * * *
31356811 GGTTGTCGTGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCA-TGAAGTAGATCA
66 GGTTGTAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATTGACAGTGAAGCAGATCG
** * * ** * *
31356875 AAGATAGTAGATCTTGTCTTCATATATTGGCATGAAGTAGATCGAAG
131 AAGATACCAGACCTTGCCTTC-TAGGTTGG-ATG-AGCAGATTGAAG
* *
31356922 ATAGTAGATCTTGTCTTCC
1 ATAGCAGATCTTGCCTTCC
31356941 CATACTGGTG
Statistics
Matches: 311, Mismatches: 53, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
174 1 0.00
175 21 0.07
176 288 0.93
177 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (174 bp):
ATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTA
GGTTGTAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATTGACAGTGAAGCAGATCG
AAGATACCAGACCTTGCCTTCTAGGTTGGATGAGCAGATTGAAG
Found at i:31356934 original size:264 final size:263
Alignment explanation
Indices: 31356394--31356880 Score: 688
Period size: 264 Copynumber: 1.9 Consensus size: 263
31356384 ACTAGTATCA
* *
31356394 ATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTA
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCAACCTTGCCTCCCTA
** **
31356459 GGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATTG
66 GGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCA
* * * * *
31356524 AAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGATTGAAGATAGCAGATCTTGCCTTCC
131 AAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGAAGCAGATCGAAGAAAGCAAATCTTGCCTTCA
* * * * *
31356589 TGTACCGACAATGAAGTAGATCGAAGATACCAGCCTTTCCTCCCTAGGTCATAGTGGAGTAGGTT
196 TGTACCGACAATGAAGTAGATCAAAGATACCAGCCTTTCCTCCATAGGTCA-AGTGAAGTAGATC
31356654 GAAG
260 GAAG
* * * *
31356658 ATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAACCTTGCCTCTCTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCAACCTTGCCTCCCTA
* * * *
31356723 GGTTGTAGTTGAGCAGGTTGAAGATAGCAGATTTTGCCTTCCTGTACCGACAGTGAAGCAGATCA
66 GGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCA
* * *
31356788 AAGATACCAGCCTTGCCTCCCTAGGTTGTCGTGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCA
131 AAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGAAGCAGATCGAAGAAAGCAAATCTTGCCTTCA
** *
31356853 TGTATTGGC-ATGAAGTAGATCAAAGATA
196 TGTACCGACAATGAAGTAGATCAAAGATA
31356881 GTAGATCTTG
Statistics
Matches: 197, Mismatches: 26, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
263 18 0.09
264 179 0.91
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (263 bp):
ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCAACCTTGCCTCCCTA
GGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCA
AAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGAAGCAGATCGAAGAAAGCAAATCTTGCCTTCA
TGTACCGACAATGAAGTAGATCAAAGATACCAGCCTTTCCTCCATAGGTCAAGTGAAGTAGATCG
AAG
Found at i:31356967 original size:264 final size:263
Alignment explanation
Indices: 31356394--31356945 Score: 657
Period size: 264 Copynumber: 2.1 Consensus size: 263
31356384 ACTAGTATCA
*
31356394 ATAGCAGATCTTGCCTTCCTGCAT--CGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCC
1 ATAGCAGATCTTGCCTTCC--CATACCGACAGCGAAGCAGATCGAAGATACCAACCTTGCCTCCC
**
31356457 TAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGAT
64 TAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGAT
** * * * *
31356522 TGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGATTGAAGATAGCAGATCTTGCCTT
129 CAAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGAAGCAGATCGAAGAAAGCAAATCTTGCCTT
* * * * *
31356587 CCTGTACCGACAATGAAGTAGATCGAAGATACCAGCCTTTCCTCCCTAGGTCATAGTGGAGTAGG
194 CATGTACCGACAATGAAGTAGATCAAAGATACCAGCCTTTCCTCCATAGGTCA-AGTGAAGTAGA
*
31356652 TTGAAG
258 TCGAAG
** * * *
31356658 ATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAACCTTGCCTCTCTG
1 ATAGCAGATCTTGCCTTCCCATACCGACAGCGAAGCAGATCGAAGATACCAACCTTGCCTCCCTA
* * * *
31356723 GGTTGTAGTTGAGCAGGTTGAAGATAGCAGATTTTGCCTTCCTGTACCGACAGTGAAGCAGATCA
66 GGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCA
* * *
31356788 AAGATACCAGCCTTGCCTCCCTAGGTTGTCGTGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCA
131 AAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGAAGCAGATCGAAGAAAGCAAATCTTGCCTTCA
** * ** * * *
31356853 TGTATTGGC-ATGAAGTAGATCAAAGATAGTAGATCTTGTCTTCATATATTGG-C-A-TGAAGTA
196 TGTACCGACAATGAAGTAGATCAAAGATACCAG-CCTT-TCCTC-CATA--GGTCAAGTGAAGTA
31356914 GATCGAAG
256 GATCGAAG
* *
31356922 ATAGTAGATCTTGTCTTCCCATAC
1 ATAGCAGATCTTGCCTTCCCATAC
31356946 TGGTGGCGAA
Statistics
Matches: 242, Mismatches: 39, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
262 1 0.00
263 20 0.08
264 211 0.87
265 5 0.02
266 2 0.01
267 1 0.00
268 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (263 bp):
ATAGCAGATCTTGCCTTCCCATACCGACAGCGAAGCAGATCGAAGATACCAACCTTGCCTCCCTA
GGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCA
AAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGAAGCAGATCGAAGAAAGCAAATCTTGCCTTCA
TGTACCGACAATGAAGTAGATCAAAGATACCAGCCTTTCCTCCATAGGTCAAGTGAAGTAGATCG
AAG
Found at i:31356985 original size:89 final size:88
Alignment explanation
Indices: 31356819--31357115 Score: 391
Period size: 89 Copynumber: 3.4 Consensus size: 88
31356809 TAGGTTGTCG
* * *** * *** *
31356819 TGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTA-TTGGCATGAAGTAGATCAAAGATAGT
1 TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGGGGCGAAGTAGATCAAAGAAAGT
*
31356883 AGATCTTGTCTTCATATATTGGC
66 AGATCTTGTCTTCATGTATTGGC
* * *
31356906 ATGAAGTAGATCGAAGATAGTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAG
1 -TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGGGGCGAAGTAGATCAAAGAAAG
31356971 TAGATCTTGTCTTCATGTATTGGC
65 TAGATCTTGTCTTCATGTATTGGC
* * * *
31356995 GTGAAGTAGATCAAAGATAGCAGATCTTTTCTTTCTATACTGGGGGCGAAGTAGATCAAAGAAAG
1 -TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGGGGCGAAGTAGATCAAAGAAAG
31357060 TAGATCTTGTCTTCATGTATTGGC
65 TAGATCTTGTCTTCATGTATTGGC
*
31357084 -GAAGTAGATCGAAGAAAGCAGATCTTGTCTTC
1 TGAAGTAGATCGAAGATAGCAGATCTTGTCTTC
31357116 ATGTATCGGC
Statistics
Matches: 182, Mismatches: 26, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
87 28 0.15
88 32 0.18
89 122 0.67
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (88 bp):
TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGGGGCGAAGTAGATCAAAGAAAGT
AGATCTTGTCTTCATGTATTGGC
Found at i:31362721 original size:14 final size:14
Alignment explanation
Indices: 31362702--31362729 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
31362692 GTGGGAGATC
31362702 AGGTTTTCCTTAAG
1 AGGTTTTCCTTAAG
31362716 AGGTTTTCCTTAAG
1 AGGTTTTCCTTAAG
31362730 GTATCACCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.43
Consensus pattern (14 bp):
AGGTTTTCCTTAAG
Found at i:31366445 original size:31 final size:29
Alignment explanation
Indices: 31366394--31366454 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 29
31366384 TACCACTCTA
31366394 TGTCATTTTAAATTTATATTATTATTTTAGG
1 TGTCATTTTAAATTTATATTA--ATTTTAGG
* * *
31366425 TGTCGTTTTAAGTTTTTATTAATTTTAGG
1 TGTCATTTTAAATTTATATTAATTTTAGG
31366454 T
1 T
31366455 ATTTTCCCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 9 0.33
31 18 0.67
ACGTcount: A:0.25, C:0.03, G:0.13, T:0.59
Consensus pattern (29 bp):
TGTCATTTTAAATTTATATTAATTTTAGG
Found at i:31369688 original size:24 final size:24
Alignment explanation
Indices: 31369661--31369714 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
31369651 TTCAACAGCT
* *
31369661 TTGTAAGAGCACAAGTTCATAGTC
1 TTGTAACAACACAAGTTCATAGTC
31369685 TTGTAACAACACAAGTTCATAGTC
1 TTGTAACAACACAAGTTCATAGTC
*
31369709 ATGTAA
1 TTGTAA
31369715 TAGTTTTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (24 bp):
TTGTAACAACACAAGTTCATAGTC
Found at i:31372328 original size:45 final size:44
Alignment explanation
Indices: 31372264--31372406 Score: 182
Period size: 45 Copynumber: 3.2 Consensus size: 44
31372254 AGGAGGAAGA
* *
31372264 ATTGGTGGCTTCGTCCACAACCTACATGACAACTTGTCTGCAAAT
1 ATTGGTGGCTTCGTCCACAACCTACATG-CAGCTTGTCTGCGAAT
**
31372309 ATTGGTGGCTTCGTCCACAACCTACAATGCAGCTTGTCTATGAAT
1 ATTGGTGGCTTCGTCCACAACCTAC-ATGCAGCTTGTCTGCGAAT
** *
31372354 -TTGGTGG-TTTATCCACAACCTACATGGCAGTTTGTCTGCGAAT
1 ATTGGTGGCTTCGTCCACAACCTACAT-GCAGCTTGTCTGCGAAT
31372397 ATTGGTGGCT
1 ATTGGTGGCT
31372407 CCATCCATAT
Statistics
Matches: 85, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
42 2 0.02
43 28 0.33
44 14 0.16
45 38 0.45
46 3 0.04
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (44 bp):
ATTGGTGGCTTCGTCCACAACCTACATGCAGCTTGTCTGCGAAT
Found at i:31375540 original size:20 final size:20
Alignment explanation
Indices: 31375512--31375549 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
31375502 AGTTTCTTGG
31375512 ATTTCTATTATGTTGTTTTT
1 ATTTCTATTATGTTGTTTTT
* *
31375532 ATTTTTATTTTGTTGTTT
1 ATTTCTATTATGTTGTTT
31375550 GGATTGGTGT
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:0.13, C:0.03, G:0.11, T:0.74
Consensus pattern (20 bp):
ATTTCTATTATGTTGTTTTT
Found at i:31375945 original size:20 final size:22
Alignment explanation
Indices: 31375922--31375962 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
31375912 TTTAAAATAA
31375922 TAATAAT-AAT-AATAAATTTT
1 TAATAATCAATCAATAAATTTT
31375942 TAATAATCAATGCAATAAATT
1 TAATAATCAAT-CAATAAATT
31375963 ACAAAGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
23 8 0.44
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (22 bp):
TAATAATCAATCAATAAATTTT
Found at i:31376747 original size:31 final size:31
Alignment explanation
Indices: 31376702--31376769 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
31376692 TTACAAAATG
* *
31376702 GTCACTGAATTATTCAGAAGTTTTTAT-TCAA
1 GTCACTGAACTATTCAAAAGTTTTTATGT-AA
*
31376733 GTCATTGAACTATTCAAAAGTTTTTATGTAA
1 GTCACTGAACTATTCAAAAGTTTTTATGTAA
31376764 GTCACT
1 GTCACT
31376770 AGGCAATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 31 0.97
32 1 0.03
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.41
Consensus pattern (31 bp):
GTCACTGAACTATTCAAAAGTTTTTATGTAA
Found at i:31380164 original size:14 final size:17
Alignment explanation
Indices: 31380130--31380165 Score: 51
Period size: 14 Copynumber: 2.3 Consensus size: 17
31380120 TCTTTTTCCA
31380130 CTTCCACTTATTCCTTT
1 CTTCCACTTATTCCTTT
31380147 CTTCC-CTT-TTCC-TT
1 CTTCCACTTATTCCTTT
31380161 CTTCC
1 CTTCC
31380166 TTACTAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 7 0.37
15 4 0.21
16 3 0.16
17 5 0.26
ACGTcount: A:0.06, C:0.42, G:0.00, T:0.53
Consensus pattern (17 bp):
CTTCCACTTATTCCTTT
Found at i:31387013 original size:57 final size:57
Alignment explanation
Indices: 31386946--31387229 Score: 393
Period size: 57 Copynumber: 5.1 Consensus size: 57
31386936 ATTTTTTAGG
* * * *
31386946 TCATTTTCATTTTA-GAGAAAACCACATTCATTTTCAAATGATTACATTTCTCCATTT
1 TCATTTTCA-TTTAGGAGAAAACCATATTAATTTCCAAATGATTCCATTTCTCCATTT
* *
31387003 TCATTTTCATTTAGGAGAAAACCTTATTTATTTCCAAATGATTCCATTTCTCCATTT
1 TCATTTTCATTTAGGAGAAAACCATATTAATTTCCAAATGATTCCATTTCTCCATTT
* *
31387060 TAATTTTCATTTAGGAGAAAACCATATTAATTTCCAAATGATTTCATTTCTCCATTT
1 TCATTTTCATTTAGGAGAAAACCATATTAATTTCCAAATGATTCCATTTCTCCATTT
*
31387117 TCATTTTCATTTTGGAGAAAACCATATTAATTTCCAAATGATTCCATTTCTCCATTT
1 TCATTTTCATTTAGGAGAAAACCATATTAATTTCCAAATGATTCCATTTCTCCATTT
* *
31387174 TCA---T--TTT-GGAGAAAAGCATAATAATTTCCAAATGATTTCTCATTTCTCCATTT
1 TCATTTTCATTTAGGAGAAAACCATATTAATTTCCAAATGA-TTC-CATTTCTCCATTT
31387227 TCA
1 TCA
31387230 CCCGTTCTAT
Statistics
Matches: 210, Mismatches: 14, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
51 26 0.12
52 6 0.03
53 16 0.08
54 1 0.00
56 4 0.02
57 157 0.75
ACGTcount: A:0.31, C:0.18, G:0.07, T:0.44
Consensus pattern (57 bp):
TCATTTTCATTTAGGAGAAAACCATATTAATTTCCAAATGATTCCATTTCTCCATTT
Found at i:31392624 original size:21 final size:21
Alignment explanation
Indices: 31392582--31392624 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
31392572 TCATCTTCAT
* ** *
31392582 CAACTTCTTCTTCTTCAGTAA
1 CAACTTCTTCTGCAACAATAA
31392603 CAACTTCTTCTGCAACAATAA
1 CAACTTCTTCTGCAACAATAA
31392624 C
1 C
31392625 TTCATTCTCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.05, T:0.35
Consensus pattern (21 bp):
CAACTTCTTCTGCAACAATAA
Found at i:31394270 original size:26 final size:26
Alignment explanation
Indices: 31394247--31394321 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 26
31394237 ATATTATCGT
*
31394247 AACAAAGCTACTAGTAACAGTATCAC
1 AACAAAGCTACTAGTAACAATATCAC
* *
31394273 AGCAAAGCTGCTAGTAACAATATCAC
1 AACAAAGCTACTAGTAACAATATCAC
** **
31394299 AGTAAAGCTGGTAGTAACAATAT
1 AACAAAGCTACTAGTAACAATAT
31394322 AGTTCCTCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (26 bp):
AACAAAGCTACTAGTAACAATATCAC
Found at i:31394566 original size:26 final size:27
Alignment explanation
Indices: 31394479--31394565 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 27
31394469 GGGTATAACA
*
31394479 GTCATTTTACCCTAT-GAGGGTATTTCG
1 GTCATTTTACCCTATAG-GGGTATTTTG
* *
31394506 GTCATTTTATCCTATA-GGGTATTTTA
1 GTCATTTTACCCTATAGGGGTATTTTG
31394532 GTCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTTG
31394559 GTCATTT
1 GTCATTT
31394566 ATTAACCTCT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
26 23 0.43
27 30 0.57
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.46
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTTG
Found at i:31407158 original size:18 final size:18
Alignment explanation
Indices: 31407137--31407181 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
31407127 TTACATATGC
*
31407137 ATAAAGGTTCGCATACAT
1 ATAAAGGTTAGCATACAT
*
31407155 ATAAAGGTTAGCATGCAT
1 ATAAAGGTTAGCATACAT
*
31407173 ATAAGGGTT
1 ATAAAGGTT
31407182 TGTCAATTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (18 bp):
ATAAAGGTTAGCATACAT
Found at i:31422245 original size:27 final size:27
Alignment explanation
Indices: 31422194--31422289 Score: 104
Period size: 27 Copynumber: 3.6 Consensus size: 27
31422184 CCAGACTTTT
* *
31422194 CCGTGTTTAATGTCCTGTCGGACTATC
1 CCGTGTTTAATGTCCTATCGAACTATC
**
31422221 TTGTGTTTAATGT-CTCATCGAACTATC
1 CCGTGTTTAATGTCCT-ATCGAACTATC
* *
31422248 CCATGTTTAACGTCCTATCGAACTATC
1 CCGTGTTTAATGTCCTATCGAACTATC
* *
31422275 CCGTGCTTATTGTCC
1 CCGTGTTTAATGTCC
31422290 CGTCAAACCT
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
26 2 0.04
27 51 0.93
28 2 0.04
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.39
Consensus pattern (27 bp):
CCGTGTTTAATGTCCTATCGAACTATC
Found at i:31422367 original size:45 final size:45
Alignment explanation
Indices: 31422303--31422431 Score: 195
Period size: 45 Copynumber: 2.9 Consensus size: 45
31422293 CAAACCTTCA
* *
31422303 CATGATGTCATAGCGTCTTTTAGCTATAGTCTTACTCATTATTAC
1 CATGATGTCATAGCATCTTTTAGCTATGGTCTTACTCATTATTAC
* * * *
31422348 CATGATGTCATAGCATCTTTCAGCCATGGTCTTACTCATTTTTAT
1 CATGATGTCATAGCATCTTTTAGCTATGGTCTTACTCATTATTAC
*
31422393 CATGATGTCATAGCATCTTTTAACTATGGTCTTACTCAT
1 CATGATGTCATAGCATCTTTTAGCTATGGTCTTACTCAT
31422432 CTTTAGGTGT
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 75 1.00
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (45 bp):
CATGATGTCATAGCATCTTTTAGCTATGGTCTTACTCATTATTAC
Found at i:31422413 original size:23 final size:24
Alignment explanation
Indices: 31422303--31422414 Score: 71
Period size: 22 Copynumber: 4.9 Consensus size: 24
31422293 CAAACCTTCA
*
31422303 CATGATGTCATAGCGTCTTTTAGC
1 CATGATGTCATAGCATCTTTTAGC
* *
31422327 TAT-A-GTCTTA-C-TCATTATTA-C
1 CATGATGTCATAGCATC-TT-TTAGC
*
31422348 CATGATGTCATAGCATCTTTCAGC
1 CATGATGTCATAGCATCTTTTAGC
* * *
31422372 CATG--GTCTTACTCAT-TTTTA-T
1 CATGATGTCATA-GCATCTTTTAGC
31422393 CATGATGTCATAGCATCTTTTA
1 CATGATGTCATAGCATCTTTTA
31422415 ACTATGGTCT
Statistics
Matches: 66, Mismatches: 11, Indels: 23
0.66 0.11 0.23
Matches are distributed among these distances:
20 2 0.03
21 10 0.15
22 21 0.32
23 21 0.32
24 10 0.15
25 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (24 bp):
CATGATGTCATAGCATCTTTTAGC
Found at i:31422432 original size:23 final size:22
Alignment explanation
Indices: 31422372--31422435 Score: 60
Period size: 23 Copynumber: 2.9 Consensus size: 22
31422362 ATCTTTCAGC
*
31422372 CATGGTCTTACTCAT-TTTTAT
1 CATGGTCTTACTCATCTTTTAA
* *
31422393 CATGATGTCATA-GCATCTTTTAA
1 CATG--GTCTTACTCATCTTTTAA
31422416 CTATGGTCTTACTCATCTTT
1 C-ATGGTCTTACTCATCTTT
31422436 AGGTGTATAG
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
21 4 0.12
22 8 0.24
23 18 0.55
24 3 0.09
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (22 bp):
CATGGTCTTACTCATCTTTTAA
Found at i:31429789 original size:22 final size:21
Alignment explanation
Indices: 31429754--31429794 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
31429744 GTCATATATA
*
31429754 TTTAAAAATATAGATATTATC
1 TTTAAAAATATAGAAATTATC
31429775 TTTAAAAGATATAGAAATTA
1 TTTAAAA-ATATAGAAATTA
31429795 AATAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.39
Consensus pattern (21 bp):
TTTAAAAATATAGAAATTATC
Found at i:31429900 original size:21 final size:21
Alignment explanation
Indices: 31429876--31429915 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
31429866 ATTTTTTATT
*
31429876 TAATTTCTATATCTTTAAAGA
1 TAATATCTATATCTTTAAAGA
* *
31429897 TAATATCTATGTTTTTAAA
1 TAATATCTATATCTTTAAA
31429916 TTTCAATTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (21 bp):
TAATATCTATATCTTTAAAGA
Found at i:31433167 original size:50 final size:49
Alignment explanation
Indices: 31433062--31433303 Score: 277
Period size: 50 Copynumber: 4.7 Consensus size: 49
31433052 TAAAGAGATC
* *
31433062 CCATGTAATACCATGTCTGGGACATGGAATTGGCATCCTTGAGATCATGAGAGGT
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATGAGAGGT
* * *
31433117 CTCATGTAAGACTATGTCTGGGACATGGCGTTGGCACCTAGATGAGAGGT
1 C-CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGT
*
31433167 CTCATGAAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGT
1 C-CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGT
* * * **
31433217 CCCTCGTAAGACCATGTCTGGGACATGGCATGGGCACCGACATGAGTACAT
1 CCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG-AGGT
*
31433268 ACCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 -CCATGTAAGACCATGTCTGGGACATGGCATTGGCA
31433304 TGTTATTATC
Statistics
Matches: 165, Mismatches: 18, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
49 2 0.01
50 94 0.57
51 31 0.19
52 3 0.02
53 2 0.01
55 3 0.02
56 30 0.18
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (49 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGT
Found at i:31436224 original size:31 final size:33
Alignment explanation
Indices: 31436186--31436247 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
31436176 GTGATTTTTC
31436186 TAATTAAAT-TTTTTA-TTTTAAATTTTTTAGT
1 TAATTAAATATTTTTAGTTTTAAATTTTTTAGT
**
31436217 TAATTAAATATTTTTAGTTTTATTTTTTTTA
1 TAATTAAATATTTTTAGTTTTAAATTTTTTA
31436248 CTTACCTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 9 0.33
32 6 0.22
33 12 0.44
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (33 bp):
TAATTAAATATTTTTAGTTTTAAATTTTTTAGT
Found at i:31436232 original size:18 final size:17
Alignment explanation
Indices: 31436186--31436235 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 17
31436176 GTGATTTTTC
31436186 TAATTAAATTTTTTA-T
1 TAATTAAATTTTTTAGT
31436202 T--TTAAATTTTTTAGT
1 TAATTAAATTTTTTAGT
31436217 TAATTAAATATTTTTAGT
1 TAATTAAAT-TTTTTAGT
31436235 T
1 T
31436236 TTATTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 12 0.40
15 2 0.07
16 1 0.03
17 6 0.20
18 9 0.30
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (17 bp):
TAATTAAATTTTTTAGT
Found at i:31447677 original size:47 final size:47
Alignment explanation
Indices: 31447564--31447775 Score: 333
Period size: 47 Copynumber: 4.6 Consensus size: 47
31447554 CCCTTCGGGA
* * * * * *
31447564 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACT-CG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31447609 CTGT-T-ACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31447655 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31447702 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31447749 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
31447776 ACCAACCCTT
Statistics
Matches: 156, Mismatches: 6, Indels: 8
0.92 0.04 0.05
Matches are distributed among these distances:
44 32 0.21
45 5 0.03
46 4 0.03
47 115 0.74
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31448030 original size:40 final size:39
Alignment explanation
Indices: 31447981--31448141 Score: 121
Period size: 40 Copynumber: 4.1 Consensus size: 39
31447971 CAGAATTTAA
**
31447981 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGG-CATAGC
* *
31448021 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGCTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGCATAGC
* ** * * *
31448060 CC-GAAATTAGTTTCTCGCACAAATGCCTTCGGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGG-GCATAGC
* * * *
31448100 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGG-CATAGC
31448140 CC
1 CC
31448142 AGACATCATT
Statistics
Matches: 98, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
38 2 0.02
39 31 0.32
40 54 0.55
41 11 0.11
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGCATAGC
Found at i:31453349 original size:41 final size:41
Alignment explanation
Indices: 31453292--31453374 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
31453282 ATCAGGCAAC
31453292 AGAGAATGATAAGAGGACATTGAGGAGACTAGCTATTGACT
1 AGAGAATGATAAGAGGACATTGAGGAGACTAGCTATTGACT
31453333 AGAGAATGATAAGAGGACATTGAGGAGACTAGCTATTGACT
1 AGAGAATGATAAGAGGACATTGAGGAGACTAGCTATTGACT
31453374 A
1 A
31453375 TGTCTTAGAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.40, C:0.10, G:0.29, T:0.22
Consensus pattern (41 bp):
AGAGAATGATAAGAGGACATTGAGGAGACTAGCTATTGACT
Found at i:31455853 original size:44 final size:44
Alignment explanation
Indices: 31455630--31456640 Score: 257
Period size: 44 Copynumber: 23.2 Consensus size: 44
31455620 GGTAACCAAG
* * * * * *
31455630 TCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTA-G-A
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CG-ACGAA
* * * *
31455674 TCTTATCTCCTTAAGCAGTAGTGGAACAGATCGAAGGCGACGAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAA
* * * *
31455718 TCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACCAA
1 TCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGACGAA
* * * * * * * *
31455761 GCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTA-G-A
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CG-ACGAA
* *
31455806 TCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGACGAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAA
* * * *
31455850 TCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACCAA
1 TCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGACGAA
* * * * * * *
31455893 GCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGA-G-TGTAGA
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACG-A-A
31455938 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAA
* * * *
31455982 TCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACCAA
1 TCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGACGAA
* * * * * * * *
31456025 GCCTTGTCTCCCTGAGCAGCAGGGGAGAAGGTTGAAGATTGTA-G-A
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CG-ACGAA
* * * *
31456070 TCTTATCTCCCTAAGCCGTAGTGGAGCAGATCGAAGATGGCGAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAA
* * * *
31456114 TCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACCAA
1 TCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGACGAA
* * * * * *
31456157 GCCTTGTCTCCCTGAGCAGTAGTGGAGAAGGTTGAAGA-G-TGTAGA
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACG-A-A
* * *
31456202 TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGAC-TCG--
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAA
* * *
31456243 -C-T-T-T-CC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACCAA
1 TCTTATCTCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGACGAA
* * * * * * * *
31456280 GCCTTGTCTCTCTGAGCAGCAGTGGAGAAGGTTGAAGA-G-TGTAGA
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACG-A-A
* * *
31456325 TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGATGAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAA
* * * *
31456369 TCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACCAA
1 TCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGACGAA
* * * * ** * * * ** *
31456412 GCCTTGTCTCCCTGAGCAGCAGCAGAGAAGGTTAAAGATTATTG-A
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGA-CGAA
* * * **
31456457 TCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGATGGTGAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAA
** * * *
31456501 TCTTATCTTTCTAAG-A-TAGTGGGAAGCAGATTTAAG-CCACCAAA
1 TCTTATCTCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGA-CGAA
* * * * * * ** *
31456545 CCTTGTCTCCCTAAGCAATAGCGGAGAAGGTTGAAGATTA-TAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGA-A
* * * * *
31456589 TCTTATCTCCCTAAGTAGTAGCGGAGCAGATCGAGGTCGACGAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAA
31456633 TCTTATCT
1 TCTTATCT
31456641 TTCCAAGATA
Statistics
Matches: 677, Mismatches: 203, Indels: 174
0.64 0.19 0.17
Matches are distributed among these distances:
33 4 0.01
34 4 0.01
35 13 0.02
36 2 0.00
37 1 0.00
38 1 0.00
39 2 0.00
40 2 0.00
41 1 0.00
42 27 0.04
43 64 0.09
44 484 0.71
45 48 0.07
46 22 0.03
47 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (44 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAA
Found at i:31455861 original size:132 final size:132
Alignment explanation
Indices: 31455624--31456685 Score: 1683
Period size: 132 Copynumber: 8.1 Consensus size: 132
31455614 CAGATCGGTA
* *
31455624 ACCAAGTCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCTTAAG
1 ACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
* *
31455689 CAGTAGTGGAACAGATCGAAGGCGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
66 CAGTAGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
31455754 CC
131 CC
*
31455756 ACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
1 ACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
*
31455821 CAGTAGTAGAGCAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
66 CAGTAGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
31455886 CC
131 CC
*
31455888 ACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGAGTGTAGATCTTATCTCCCTAAG
1 ACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
*
31455953 CAGTAGTGGAGCAGATTGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
66 CAGTAGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
31456018 CC
131 CC
*
31456020 ACCAAGCCTTGTCTCCCTGAGCAGCAGGGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
1 ACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
* * *
31456085 CCGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
66 CAGTAGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
31456150 CC
131 CC
* *
31456152 ACCAAGCCTTGTCTCCCTGAGCAGTAGTGGAGAAGGTTGAAGAGTGTAGATCTTATCTCCCTAAG
1 ACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
* *
31456217 CAGTAGTGGAGTAGATCG-A-A-GAC---TC---GCTTTCCAAGATAGTGGGAAGCAGATTTAAG
66 CAGTAGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
31456273 CC
131 CC
* *
31456275 ACCAAGCCTTGTCTCTCTGAGCAGCAGTGGAGAAGGTTGAAGAGTGTAGATCTTATCTCCCTAAG
1 ACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
* *
31456340 CAGTAGTGGAGTAGATCGAAGACGATGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
66 CAGTAGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
31456405 CC
131 CC
** * * *
31456407 ACCAAGCCTTGTCTCCCTGAGCAGCAGCAGAGAAGGTTAAAGATTATTGATCTTATCTCCCTAAG
1 ACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
* * ** *
31456472 CAGTAGTGGAGCAAATCGAAGATGGTGAATCTTATCTTTCTAAGATAGTGGGAAGCAGATTTAAG
66 CAGTAGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
31456537 CC
131 CC
* * ** * *
31456539 ACCAAACCTTGTCTCCCTAAGCAATAGCGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAG
1 ACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
* * * * *
31456604 TAGTAGCGGAGCAGATCGAGGTCGACGAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTAAG
66 CAGTAGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
31456669 CC
131 CC
*
31456671 ACCAAGCCTTATCTC
1 ACCAAGCCTTGTCTC
31456686 TCTAAAGTTG
Statistics
Matches: 863, Mismatches: 58, Indels: 18
0.92 0.06 0.02
Matches are distributed among these distances:
123 113 0.13
124 1 0.00
125 1 0.00
126 4 0.00
129 4 0.00
130 1 0.00
131 1 0.00
132 738 0.86
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (132 bp):
ACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
CAGTAGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
CC
Found at i:31456619 original size:519 final size:522
Alignment explanation
Indices: 31455624--31456685 Score: 1691
Period size: 519 Copynumber: 2.0 Consensus size: 522
31455614 CAGATCGGTA
* * *
31455624 ACCAAGTCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCTTAAG
1 ACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGAGTGTAGATCTTATCTCCCTAAG
*
31455689 CAGTAGTGGAACAGATCGAAGGCGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
66 CAGTAGTGGAACAGATCGAA-G-GAC--ATC-T-GCTTTCCAAGATAGTGGGAAGCAGATTTAAG
*
31455754 CCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTA
125 CCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGAGTGTAGATCTTATCTCCCTA
31455819 AGCAGTAGTAGAGCAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
190 AGCAGTAGTAGAGCAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
** * *
31455884 AGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGAGTGTAGATCTTATCTCCC
255 AGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCAGAGAAGGTTAAAGAGTATAGATCTTATCTCCC
* *
31455949 TAAGCAGTAGTGGAGCAGATTGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATT
320 TAAGCAGTAGTGGAGCAAATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATT
* * * * *
31456014 TAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGGGGAGAAGGTTGAAGATTGTAGATCTTATCTC
385 TAAGCCACCAAACCTTGTCTCCCTAAGCAACAGCGGAGAAGGTTGAAGATTATAGATCTTATCTC
* * *
31456079 CCTAAGCCGTAGTGGAGCAGATCGAAGAT-GGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAG
450 CCTAAGCAGTAGCGGAGCAGATCG-AGATCGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAG
31456143 ATTTAAGCC
514 ATTTAAGCC
*
31456152 ACCAAGCCTTGTCTCCCTGAGCAGTAGTGGAGAAGGTTGAAGAGTGTAGATCTTATCTCCCTAAG
1 ACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGAGTGTAGATCTTATCTCCCTAAG
**
31456217 CAGTAGTGGAGTAGATCGAA-GAC-TC-GCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCA
66 CAGTAGTGGAACAGATCGAAGGACATCTGCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCA
* *
31456279 AGCCTTGTCTCTCTGAGCAGCAGTGGAGAAGGTTGAAGAGTGTAGATCTTATCTCCCTAAGCAGT
131 AGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGAGTGTAGATCTTATCTCCCTAAGCAGT
* * *
31456344 AGTGGAGTAGATCGAAGACGATGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
196 AGTAGAGCAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
31456409 CAAGCCTTGTCTCCCTGAGCAGCAGCAGAGAAGGTTAAAGATTATTGATCTTATCTCCCTAAGCA
261 CAAGCCTTGTCTCCCTGAGCAGCAGCAGAGAAGGTTAAAGAGTATAGATCTTATCTCCCTAAGCA
* ** *
31456474 GTAGTGGAGCAAATCGAAGATGGTGAATCTTATCTTTCTAAGATAGTGGGAAGCAGATTTAAGCC
326 GTAGTGGAGCAAATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCC
*
31456539 ACCAAACCTTGTCTCCCTAAGCAATAGCGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAG
391 ACCAAACCTTGTCTCCCTAAGCAACAGCGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAG
* * *
31456604 TAGTAGCGGAGCAGATCGAGGTCGACGAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTAAG
456 CAGTAGCGGAGCAGATCGAGATCGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
31456669 CC
521 CC
*
31456671 ACCAAGCCTTATCTC
1 ACCAAGCCTTGTCTC
31456686 TCTAAAGTTG
Statistics
Matches: 495, Mismatches: 38, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
518 3 0.01
519 408 0.82
522 2 0.00
525 3 0.01
528 79 0.16
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (522 bp):
ACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGAGTGTAGATCTTATCTCCCTAAG
CAGTAGTGGAACAGATCGAAGGACATCTGCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCA
AGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGAGTGTAGATCTTATCTCCCTAAGCAGT
AGTAGAGCAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CAAGCCTTGTCTCCCTGAGCAGCAGCAGAGAAGGTTAAAGAGTATAGATCTTATCTCCCTAAGCA
GTAGTGGAGCAAATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCC
ACCAAACCTTGTCTCCCTAAGCAACAGCGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAG
CAGTAGCGGAGCAGATCGAGATCGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
CC
Found at i:31461158 original size:14 final size:14
Alignment explanation
Indices: 31461139--31461165 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31461129 AAGGATTATT
31461139 TCATAAAAGGTTAA
1 TCATAAAAGGTTAA
31461153 TCATAAAAGGTTA
1 TCATAAAAGGTTA
31461166 TATCGAATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.30
Consensus pattern (14 bp):
TCATAAAAGGTTAA
Found at i:31472163 original size:23 final size:23
Alignment explanation
Indices: 31472137--31472182 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
31472127 AATGAAAGTT
31472137 AATGGACTTGAATGGTAATTATA
1 AATGGACTTGAATGGTAATTATA
31472160 AATGGACTTGAATGGTAATTATA
1 AATGGACTTGAATGGTAATTATA
31472183 CCATATATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.04, G:0.22, T:0.35
Consensus pattern (23 bp):
AATGGACTTGAATGGTAATTATA
Found at i:31474629 original size:37 final size:37
Alignment explanation
Indices: 31474579--31474657 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
31474569 TTATTACGAA
* * *
31474579 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
31474616 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
31474653 GTCTT
1 GTCTT
31474658 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:31474953 original size:49 final size:49
Alignment explanation
Indices: 31474776--31475334 Score: 882
Period size: 49 Copynumber: 11.6 Consensus size: 49
31474766 CCCTTCGGGA
* * * * *
31474776 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31474823 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31474870 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31474917 CTTATCACATATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31474966 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31475013 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31475062 CTTATCACGTATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
31475111 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCTATTAGGT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31475160 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31475209 CTTATCACATGTATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31475258 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31475307 CTTATCACATGTATATACACTTTCACAT
1 CTTATCACATATATATACACTTTCACAT
31475335 ATGGGTTTAA
Statistics
Matches: 478, Mismatches: 28, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 135 0.28
49 342 0.72
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31478353 original size:58 final size:58
Alignment explanation
Indices: 31478263--31478386 Score: 203
Period size: 58 Copynumber: 2.1 Consensus size: 58
31478253 GAGAATCGTT
* *
31478263 CTTGTTTGCGATGATTGCAAGAAAAGGCATTTTGGTGAATGTTGATCAAAGTAGGGAG
1 CTTGTTTTCGATGATTGCAACAAAAGGCATTTTGGTGAATGTTGATCAAAGTAGGGAG
* *
31478321 CTTGTTTTCGTTGATTGCAACAAAAGGCATTTTGGTGAATGTTGATCAAAGTCGGGAG
1 CTTGTTTTCGATGATTGCAACAAAAGGCATTTTGGTGAATGTTGATCAAAGTAGGGAG
*
31478379 CATGTTTT
1 CTTGTTTT
31478387 TGTTATGGAT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.27, C:0.10, G:0.28, T:0.35
Consensus pattern (58 bp):
CTTGTTTTCGATGATTGCAACAAAAGGCATTTTGGTGAATGTTGATCAAAGTAGGGAG
Found at i:31493613 original size:12 final size:12
Alignment explanation
Indices: 31493598--31493628 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
31493588 TGTGACATTG
*
31493598 ATTGCCAATAGT
1 ATTGCCAATAGA
31493610 ATTGCCAATAGA
1 ATTGCCAATAGA
31493622 ATTGCCA
1 ATTGCCA
31493629 TGGAAATTTC
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:0.35, C:0.19, G:0.16, T:0.29
Consensus pattern (12 bp):
ATTGCCAATAGA
Found at i:31494073 original size:29 final size:29
Alignment explanation
Indices: 31494041--31494098 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
31494031 ACTTCTTTAA
*
31494041 ATGTTGATGAATGATTTAAATTTGGTGTT
1 ATGTTGATGAATGATTCAAATTTGGTGTT
*
31494070 ATGTTGATGAATGGTTCAAATTTGGTGTT
1 ATGTTGATGAATGATTCAAATTTGGTGTT
31494099 TACTTTTCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.26, C:0.02, G:0.26, T:0.47
Consensus pattern (29 bp):
ATGTTGATGAATGATTCAAATTTGGTGTT
Found at i:31494482 original size:76 final size:76
Alignment explanation
Indices: 31494356--31494500 Score: 254
Period size: 76 Copynumber: 1.9 Consensus size: 76
31494346 AGAATATTTG
* * *
31494356 TAGCACTCTAGACATAGATGTTTCAAGTTGTGCAGAGAAGAACATTCATTGCAGTTATTAATCCA
1 TAGCACTCTAGACATAGATGTTGCAAGTTGTGCAGAGAAGAAAATTCATTGCAGTTATTAATCAA
31494421 GAGTATTTTCC
66 GAGTATTTTCC
*
31494432 TAGCACTCTAGACATAGATGTTGCGAGTTGTGCAGAGAAGAAAATTCATTGCAGTTATTAATCAA
1 TAGCACTCTAGACATAGATGTTGCAAGTTGTGCAGAGAAGAAAATTCATTGCAGTTATTAATCAA
31494497 GAGT
66 GAGT
31494501 TCTATAAACA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 65 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (76 bp):
TAGCACTCTAGACATAGATGTTGCAAGTTGTGCAGAGAAGAAAATTCATTGCAGTTATTAATCAA
GAGTATTTTCC
Found at i:31496181 original size:21 final size:21
Alignment explanation
Indices: 31496155--31496206 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
31496145 GGAGACTGTC
31496155 AGTGATGTCGCGTCATAAGAT
1 AGTGATGTCGCGTCATAAGAT
**
31496176 AGTGATGTCATGTCATAAGAT
1 AGTGATGTCGCGTCATAAGAT
*
31496197 AGTGGTGTCG
1 AGTGATGTCG
31496207 AGACATCAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.12, G:0.31, T:0.31
Consensus pattern (21 bp):
AGTGATGTCGCGTCATAAGAT
Found at i:31498240 original size:39 final size:42
Alignment explanation
Indices: 31498197--31498277 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
31498187 TTATCCTAGA
* *
31498197 AAAAAAGAATTT-TAAAA-AA-AAGATAATCTTGGGTTGTTG
1 AAAAAAGAATTTAGAAAAGAAGAAGATAAACTTGGGTTGTTG
31498236 AAAAAAGAATTTAGAAAAGAAGAAGATAAACTTGGGTTGTTG
1 AAAAAAGAATTTAGAAAAGAAGAAGATAAACTTGGGTTGTTG
31498278 GATTTACCCT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
39 12 0.32
40 4 0.11
41 2 0.05
42 19 0.51
ACGTcount: A:0.49, C:0.02, G:0.21, T:0.27
Consensus pattern (42 bp):
AAAAAAGAATTTAGAAAAGAAGAAGATAAACTTGGGTTGTTG
Found at i:31509669 original size:19 final size:18
Alignment explanation
Indices: 31509643--31509693 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
31509633 AATAAAAAAT
31509643 AAAAAATTAAAAGATTT-A
1 AAAAAATTAAAA-ATTTCA
31509661 AATAAAATTCAAAAATTTCA
1 AA-AAAATT-AAAAATTTCA
31509681 AAAAAA-TAAAAAT
1 AAAAAATTAAAAAT
31509694 ATAAGAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 6 0.20
18 3 0.10
19 14 0.47
20 7 0.23
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (18 bp):
AAAAAATTAAAAATTTCA
Found at i:31509736 original size:19 final size:19
Alignment explanation
Indices: 31509714--31509757 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
31509704 TTAAAATTAT
31509714 AAAAAAATGAAAAA-ATAG
1 AAAAAAATGAAAAATATAG
* *
31509732 AAAAACATTAAAAATATAG
1 AAAAAAATGAAAAATATAG
31509751 AAAAAAA
1 AAAAAAA
31509758 ATTAAATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.14
Consensus pattern (19 bp):
AAAAAAATGAAAAATATAG
Found at i:31513732 original size:17 final size:17
Alignment explanation
Indices: 31513710--31513756 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
31513700 CTCTATCTAA
31513710 TAATATAATAAATTATT
1 TAATATAATAAATTATT
** *
31513727 TAATATTTTAATTTATT
1 TAATATAATAAATTATT
*
31513744 TTA-ATAATAAATT
1 TAATATAATAAATT
31513757 TTAAAATTAA
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TAATATAATAAATTATT
Found at i:31522327 original size:10 final size:11
Alignment explanation
Indices: 31522308--31522366 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 11
31522298 CCTAAGTATT
31522308 ATCACTAAATA
1 ATCACTAAATA
31522319 ATC-CTAAATA
1 ATCACTAAATA
31522329 TTATCACTAAATA
1 --ATCACTAAATA
**
31522342 AT-TTTAAATA
1 ATCACTAAATA
31522352 TTATCACTAAATA
1 --ATCACTAAATA
31522365 AT
1 AT
31522367 TCAAAATTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
10 13 0.34
11 7 0.18
12 5 0.13
13 13 0.34
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (11 bp):
ATCACTAAATA
Found at i:31522340 original size:13 final size:13
Alignment explanation
Indices: 31522299--31522364 Score: 65
Period size: 13 Copynumber: 5.5 Consensus size: 13
31522289 TAGATTTTTC
*
31522299 CTAAGTATTATCA
1 CTAAATATTATCA
31522312 CTAAATA--ATC-
1 CTAAATATTATCA
31522322 CTAAATATTATCA
1 CTAAATATTATCA
31522335 CTAAATAATT-T--
1 CTAAAT-ATTATCA
31522346 -TAAATATTATCA
1 CTAAATATTATCA
31522358 CTAAATA
1 CTAAATA
31522365 ATTCAAAATT
Statistics
Matches: 44, Mismatches: 1, Indels: 16
0.72 0.02 0.26
Matches are distributed among these distances:
9 3 0.07
10 13 0.30
11 3 0.07
12 3 0.07
13 19 0.43
14 3 0.07
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.38
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:31522367 original size:23 final size:23
Alignment explanation
Indices: 31522299--31522373 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
31522289 TAGATTTTTC
* *
31522299 CTAAGTATTATCACTAAATAATC
1 CTAAATATTATCACTAAATAATT
31522322 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
31522345 TTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
31522368 CAAAAT
1 CTAAAT
31522374 TTAAAAATCA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.37
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:31528494 original size:12 final size:13
Alignment explanation
Indices: 31528479--31528508 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
31528469 TTACTTACTC
31528479 ACTTACTTG-TTT
1 ACTTACTTGCTTT
31528491 ACTTACTTGCTTT
1 ACTTACTTGCTTT
31528504 ACTTA
1 ACTTA
31528509 AATAACTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (13 bp):
ACTTACTTGCTTT
Found at i:31528833 original size:50 final size:50
Alignment explanation
Indices: 31528708--31528949 Score: 175
Period size: 50 Copynumber: 4.7 Consensus size: 50
31528698 TGATAATACA
* * * * ** * *
31528708 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGA--TGTTTTCAGTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-ATTAG
* ** * *
31528757 TGCCAATGCCATATTGCAGATATGGTCTTACATGGGAGCTCTCATATTAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATTAG
* * * **
31528807 TGCCCATGCCATGTCCCAGACATGGTCTTAC-GGGGAACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGG-ACCTCTCATATTAG
* * *
31528857 TGCCAACGCCATGTCCAAGACATGGTCTTACATGAGACCTCTCATAATCTCAATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-AT-T--A-G
* * *
31528912 ATGCCAATGCCGTGTCCCATACATGGTCTTTCATGGGA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
31528950 TCTCATTCCC
Statistics
Matches: 147, Mismatches: 36, Indels: 13
0.75 0.18 0.07
Matches are distributed among these distances:
49 33 0.22
50 76 0.52
51 6 0.04
55 1 0.01
56 31 0.21
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATTAG
Found at i:31537685 original size:4 final size:4
Alignment explanation
Indices: 31537676--31537712 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
31537666 TTGGTCCCTT
31537676 TTTA TTTA TTT- TTTA TTTA TTT- TTTA TTTA TTT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
31537713 ATTAAATGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
3 9 0.30
4 21 0.70
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (4 bp):
TTTA
Found at i:31537690 original size:11 final size:11
Alignment explanation
Indices: 31537674--31537712 Score: 78
Period size: 11 Copynumber: 3.5 Consensus size: 11
31537664 ATTTGGTCCC
31537674 TTTTTATTTAT
1 TTTTTATTTAT
31537685 TTTTTATTTAT
1 TTTTTATTTAT
31537696 TTTTTATTTAT
1 TTTTTATTTAT
31537707 TTTTTA
1 TTTTTA
31537713 ATTAAATGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTATTTAT
Found at i:31537692 original size:7 final size:8
Alignment explanation
Indices: 31537676--31537712 Score: 53
Period size: 7 Copynumber: 5.0 Consensus size: 8
31537666 TTGGTCCCTT
31537676 TTTATTTA
1 TTTATTTA
31537684 TTT-TTTA
1 TTTATTTA
31537691 TTTATTT-
1 TTTATTTA
31537698 TTTATTTA
1 TTTATTTA
31537706 TTT-TTTA
1 TTTATTTA
31537713 ATTAAATGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
7 18 0.67
8 9 0.33
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTATTTA
Found at i:31544050 original size:44 final size:44
Alignment explanation
Indices: 31543912--31544231 Score: 171
Period size: 44 Copynumber: 7.3 Consensus size: 44
31543902 AATAGCAGAT
* * * ** * *
31543912 CTTGCCTTCCTGCACTGACAACGAAATAGATCAAAGACACCAAC
1 CTTGCCTCCCTGCATTGACAGCGAAGCAGATCAAAAACACCAGC
* ** * * * * * * *
31543956 CTTACCTCCCTGGGTTG-CAGTGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGCATTGACAGCGAAGCAGATCAAAAACACCAG-C
* * *
31544000 CTTGCCTTCCTGCACTGACAGCGAAGCAGATCAAAGACACCAGC
1 CTTGCCTCCCTGCATTGACAGCGAAGCAGATCAAAAACACCAGC
* ** * * * ** *
31544044 CTTGCCTCCCAGGGTTG-CAGCGAAGCAGGTTAAAAATAGTAGAT
1 CTTGCCTCCCTGCATTGACAGCGAAGCAGATCAAAAACACCAG-C
* ** * *
31544088 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAATACACCAGC
1 CTTGCCTCCCTGCATTGACAGCGAAGCAGATCAAAAACACCAGC
* * * * * * *
31544132 CTTGCCTCCCT-TAGTTG-CAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGCA-TTGACAGCGAAGCAGATCAAAAACACCAG-C
* * * *
31544176 CTTGCCTTCCTGCATTGACAACGAAGCAGATCAAAGACACTAGC
1 CTTGCCTCCCTGCATTGACAGCGAAGCAGATCAAAAACACCAGC
31544220 CTTGCCTCCCTG
1 CTTGCCTCCCTG
31544232 GGTTGCAGCA
Statistics
Matches: 188, Mismatches: 80, Indels: 16
0.66 0.28 0.06
Matches are distributed among these distances:
43 52 0.28
44 82 0.44
45 54 0.29
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (44 bp):
CTTGCCTCCCTGCATTGACAGCGAAGCAGATCAAAAACACCAGC
Found at i:31544268 original size:44 final size:43
Alignment explanation
Indices: 31543960--31544270 Score: 150
Period size: 44 Copynumber: 7.1 Consensus size: 43
31543950 ACCAACCTTA
* *
31543960 CCTCCCTGGGTTGCAGTGGAGCAGGTTAAAAATAGCAGATCTTG
1 CCTCCCTGAGTTGCAG-CGAGCAGGTTAAAAATAGCAGATCTTG
* * * * * * * *
31544004 CCTTCCTGCA-CTGACAGCGAAGCAGATCAAAGACACCAG-CCTTG
1 CCTCCCTG-AGTTG-CAGCG-AGCAGGTTAAAAATAGCAGATCTTG
* * *
31544048 CCTCCCAGGGTTGCAGCGAAGCAGGTTAAAAATAGTAGATCTTG
1 CCTCCCTGAGTTGCAGCG-AGCAGGTTAAAAATAGCAGATCTTG
* ** * ** * * * *
31544092 CCTTCCTGCA-CCGACAGCGAAGCAGATCGAATACACCAG-CCTTG
1 CCTCCCTG-AGTTG-CAGCG-AGCAGGTTAAAAATAGCAGATCTTG
*
31544136 CCTCCCTTAGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTG
1 CCTCCCTGAGTTGCAGC-GAGCAGGTTAAAAATAGCAGATCTTG
* * * * * * *
31544180 CCTTCCTGCA-TTGACAACGAAGCAGATCAAAGACA-CTAG-CCTTG
1 CCTCCCTG-AGTTG-CAGCG-AGCAGGTTAAAAATAGC-AGATCTTG
* *
31544224 CCTCCCTGGGTTGCAGCAGAGTAGGTTAAAAATAGCAGATCTTG
1 CCTCCCTGAGTTGCAGC-GAGCAGGTTAAAAATAGCAGATCTTG
31544268 CCT
1 CCT
31544271 TTCTGCACCG
Statistics
Matches: 187, Mismatches: 62, Indels: 36
0.66 0.22 0.13
Matches are distributed among these distances:
43 52 0.28
44 83 0.44
45 52 0.28
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.22
Consensus pattern (43 bp):
CCTCCCTGAGTTGCAGCGAGCAGGTTAAAAATAGCAGATCTTG
Found at i:31544290 original size:264 final size:264
Alignment explanation
Indices: 31543815--31544294 Score: 746
Period size: 264 Copynumber: 1.8 Consensus size: 264
31543805 ATCAGTGAAG
*
31543815 ATAGCAGATCTTGCCTTCCTACACCGACAGCAAAGCAGATTGAAGACACCAGCCTTGCCTCCTTG
1 ATAGCAGATCTTGCCTTCCTACACCGACAGCAAAGCAGATCGAAGACACCAGCCTTGCCTCCTTG
* * * * *
31543880 GGTTATAGCATAGTAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACTGACAACGAAATAGATCA
66 AGTTACAGCAGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACTGACAACGAAACAGATCA
**
31543945 AAGACACCAACCTTACCTCCCTGGGTTGCAGTGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCC
131 AAGACACCAACCTTACCTCCCTGGGTTGCAGCAGAGCAGGTTAAAAATAGCAGATCTTGCCTTCC
*
31544010 TGCACTGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCAGGGTTGCAGCGAAGCAGGTT
196 TGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCAGGGTTGCAGCGAAGCAGGTT
31544075 AAAA
261 AAAA
* * * *
31544079 ATAGTAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAATACACCAGCCTTGCCTCCCTT
1 ATAGCAGATCTTGCCTTCCTACACCGACAGCAAAGCAGATCGAAGACACCAGCCTTGCCT-CCTT
* * * *
31544144 -AGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCATTGACAACGAAGCAGATC
65 GAGTTACAGCAGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACTGACAACGAAACAGATC
* * * * *
31544208 AAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCAGAGTAGGTTAAAAATAGCAGATCTTGCCTTT
130 AAAGACACCAACCTTACCTCCCTGGGTTGCAGCAGAGCAGGTTAAAAATAGCAGATCTTGCCTTC
31544273 CTGCACCGACAGCGAAGCAGAT
195 CTGCACCGACAGCGAAGCAGAT
31544295 TGATGACCCT
Statistics
Matches: 193, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
264 189 0.98
265 4 0.02
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.22
Consensus pattern (264 bp):
ATAGCAGATCTTGCCTTCCTACACCGACAGCAAAGCAGATCGAAGACACCAGCCTTGCCTCCTTG
AGTTACAGCAGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACTGACAACGAAACAGATCA
AAGACACCAACCTTACCTCCCTGGGTTGCAGCAGAGCAGGTTAAAAATAGCAGATCTTGCCTTCC
TGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCAGGGTTGCAGCGAAGCAGGTT
AAAA
Found at i:31544320 original size:88 final size:88
Alignment explanation
Indices: 31543815--31544294 Score: 665
Period size: 88 Copynumber: 5.5 Consensus size: 88
31543805 ATCAGTGAAG
* * ** *
31543815 ATAGCAGATCTTGCCTTCCTACACCGACAGCAAAGCAGATTGAAGACACCAGCCTTGCCTCCTTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTG
** * *
31543880 GGTTATAGCATAGTAGGTTAAAA
66 GGTTGCAGCAGAGCAGGTTAAAA
* * ** * *
31543903 ATAGCAGATCTTGCCTTCCTGCACTGACAACGAAATAGATCAAAGACACCAACCTTACCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTG
**
31543968 GGTTGCAGTGGAGCAGGTTAAAA
66 GGTTGCAGCAGAGCAGGTTAAAA
* *
31543991 ATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCAG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTG
31544056 GGTTGCAGC-GAAGCAGGTTAAAA
66 GGTTGCAGCAG-AGCAGGTTAAAA
* * * *
31544079 ATAGTAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAATACACCAGCCTTGCCTCCCTT
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTG
* *
31544144 AGTTGCAGCGGAGCAGGTTAAAA
66 GGTTGCAGCAGAGCAGGTTAAAA
** * *
31544167 ATAGCAGATCTTGCCTTCCTGCATTGACAACGAAGCAGATCAAAGACACTAGCCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTG
*
31544232 GGTTGCAGCAGAGTAGGTTAAAA
66 GGTTGCAGCAGAGCAGGTTAAAA
*
31544255 ATAGCAGATCTTGCCTTTCTGCACCGACAGCGAAGCAGAT
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGAT
31544295 TGATGACCCT
Statistics
Matches: 344, Mismatches: 46, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
87 1 0.00
88 342 0.99
89 1 0.00
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.22
Consensus pattern (88 bp):
ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTG
GGTTGCAGCAGAGCAGGTTAAAA
Found at i:31544371 original size:44 final size:44
Alignment explanation
Indices: 31544308--31544599 Score: 373
Period size: 44 Copynumber: 6.8 Consensus size: 44
31544298 TGACCCTAGC
*
31544308 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* *
31544352 CCTATCTCCATGGTCAGCAGTGGAATAGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* * *
31544396 TCTATCTCCCTGGGCAGCAGTGGAATAGATT-AA-A----GAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* ** *
31544434 CCTATCTCCCTGGACAATAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* *
31544478 CCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* * * *
31544522 TCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGT-AGGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGA-AT
*
31544566 CCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAA
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAA
31544600 AATAGCAGGT
Statistics
Matches: 213, Mismatches: 28, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
38 30 0.14
39 2 0.01
40 1 0.00
42 1 0.00
43 3 0.01
44 176 0.83
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
Found at i:31544468 original size:126 final size:126
Alignment explanation
Indices: 31544308--31544557 Score: 446
Period size: 126 Copynumber: 2.0 Consensus size: 126
31544298 TGACCCTAGC
* * *
31544308 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCATGGTCAGCAGT
1 CCTATCTCCCTGGACAACAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCATAGTCAGCAGT
31544373 GGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGAAT
66 GGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGAAT
* *
31544434 CCTATCTCCCTGGACAATAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTAGTCAGCAGT
1 CCTATCTCCCTGGACAACAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCATAGTCAGCAGT
*
31544499 GGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGA
66 GGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGA
31544558 TTGTAGGTCC
Statistics
Matches: 118, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 118 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.28
Consensus pattern (126 bp):
CCTATCTCCCTGGACAACAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCATAGTCAGCAGT
GGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGAAT
Found at i:31545052 original size:44 final size:43
Alignment explanation
Indices: 31544957--31545062 Score: 106
Period size: 44 Copynumber: 2.4 Consensus size: 43
31544947 TCGCATCTGG
*
31544957 TCTTATCTCCCTAAAATTGCAGTGGGGTAGACTGAATGAGCAAA
1 TCTTATCTCCCTAAAATTGCAGTGGAGTAGACTGAATGAG-AAA
* * * * *
31545001 TCCTATCTCCCTAAAGTTGTAGTGGAGTAGATTAGAATGATG-GA
1 TCTTATCTCCCTAAAATTGCAGTGGAGTAGACT-GAATGA-GAAA
* *
31545045 TCTTATCTCTCTGAAATT
1 TCTTATCTCCCTAAAATT
31545063 ACAGAAGAGC
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
44 43 0.86
45 6 0.12
46 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (43 bp):
TCTTATCTCCCTAAAATTGCAGTGGAGTAGACTGAATGAGAAA
Found at i:31548791 original size:12 final size:12
Alignment explanation
Indices: 31548774--31548817 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
31548764 TTATTTCCCT
31548774 TTTTTTTCTTT-
1 TTTTTTTCTTTC
*
31548785 ATTTTTT-TTTC
1 TTTTTTTCTTTC
31548796 TTTTTTTCTTTC
1 TTTTTTTCTTTC
*
31548808 TTTCTTTCTT
1 TTTTTTTCTT
31548818 CAAGAACAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 3 0.11
11 12 0.43
12 13 0.46
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTTCTTTC
Found at i:31548801 original size:8 final size:8
Alignment explanation
Indices: 31548774--31548814 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
31548764 TTATTTCCCT
31548774 TTTTTTTC
1 TTTTTTTC
*
31548782 -TTTATT-
1 TTTTTTTC
31548788 TTTTTTTC
1 TTTTTTTC
31548796 TTTTTTTC
1 TTTTTTTC
*
31548804 TTTCTTTC
1 TTTTTTTC
31548812 TTT
1 TTT
31548815 CTTCAAGAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
7 10 0.36
8 18 0.64
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTTTC
Found at i:31563945 original size:53 final size:53
Alignment explanation
Indices: 31563855--31563960 Score: 131
Period size: 53 Copynumber: 2.0 Consensus size: 53
31563845 TCATGACAGT
* * * *
31563855 AAAGTAGACAATATCGTGTAAAACTATAATTAGTGGGTTATGATATCATATGG
1 AAAGAAGACAATATCGTGTAAAACCATAACTAGTGGGTTATGACATCATATGG
* * * * *
31563908 AAAGAAGACCATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGG
1 AAAGAAGACAATATCGTGTAAAACCATAACTAGTGGGTTATGACATCATATGG
31563961 GAAAATTTAA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (53 bp):
AAAGAAGACAATATCGTGTAAAACCATAACTAGTGGGTTATGACATCATATGG
Found at i:31564118 original size:29 final size:29
Alignment explanation
Indices: 31564086--31564184 Score: 90
Period size: 29 Copynumber: 3.3 Consensus size: 29
31564076 AAAAGAAAAA
*
31564086 CTTTGTGGCAAAACTCTAGACAGGAAAGC
1 CTTTGTGGCAAAACTCTAGAAAGGAAAGC
* * * * * *
31564115 CTTTGTAGTAAGTACTGGATGGAAAGGACAGC
1 CTTTGTGGCAA-AACT--CTAGAAAGGAAAGC
* *
31564147 CTTTATGGCAAAACTCTAGATAGGAAAGC
1 CTTTGTGGCAAAACTCTAGAAAGGAAAGC
31564176 CTTTGTGGC
1 CTTTGTGGC
31564185 GAGTACTAGA
Statistics
Matches: 51, Mismatches: 16, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
29 27 0.53
30 3 0.06
31 3 0.06
32 18 0.35
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (29 bp):
CTTTGTGGCAAAACTCTAGAAAGGAAAGC
Found at i:31564190 original size:61 final size:61
Alignment explanation
Indices: 31564086--31564340 Score: 253
Period size: 61 Copynumber: 4.2 Consensus size: 61
31564076 AAAAGAAAAA
* * * *
31564086 CTTTGTGGCAAAACTCTAGACAGGAAAGCCTTTGTAGTAAGTACTGGATGGAAAGGACAGC
1 CTTTGTGGCAAAACTCTAGACAGGAAAGCCTTTGTGGCAAGTACTGGATGTAAAGAACAGC
* * * * * *
31564147 CTTTATGGCAAAACTCTAGATAGGAAAGCCTTTGTGGCGAGTACTAGATATAAAGAACAAC
1 CTTTGTGGCAAAACTCTAGACAGGAAAGCCTTTGTGGCAAGTACTGGATGTAAAGAACAGC
* * * * * * * *
31564208 CTTTGTGGAAAAATTTTGGACAAGAAAACCTTTGTGGTAAGTACTGGATGTAAAGAACA-A
1 CTTTGTGGCAAAACTCTAGACAGGAAAGCCTTTGTGGCAAGTACTGGATGTAAAGAACAGC
* * * * * *
31564268 CTGTTGTGGCAAAAATCTGGACATGAAAGCCTTTATGGCAAGTATTGAATGTAAA-AGACAGC
1 CT-TTGTGGCAAAACTCTAGACAGGAAAGCCTTTGTGGCAAGTACTGGATGTAAAGA-ACAGC
*
31564330 TTTTGTGGCAA
1 CTTTGTGGCAA
31564341 GTACTGGATG
Statistics
Matches: 157, Mismatches: 34, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
60 3 0.02
61 153 0.97
62 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.26
Consensus pattern (61 bp):
CTTTGTGGCAAAACTCTAGACAGGAAAGCCTTTGTGGCAAGTACTGGATGTAAAGAACAGC
Found at i:31564337 original size:122 final size:122
Alignment explanation
Indices: 31564077--31564311 Score: 285
Period size: 122 Copynumber: 1.9 Consensus size: 122
31564067 ACACCAGCTA
* * * * * * *
31564077 AAAGAA-AAACTTTGTGGCAAAACTCTAGACAGGAAAGCCTTTGTAGTAAGTACTGGATGGAAAG
1 AAAGAACAACCTTTGTGGAAAAATTTTGGACAAGAAAACCTTTGTAGTAAGTACTGGATGGAAAG
* * * * * *
31564141 GACAGCCTTTATGGCAAAACTCTAGATAGGAAAGCCTTTGTGGCGAGTACTAGATAT
66 AACAGACTTTATGGCAAAAATCTAGACAGGAAAGCCTTTATGGCAAGTACTAGATAT
* *
31564198 AAAGAACAACCTTTGTGGAAAAATTTTGGACAAGAAAACCTTTGTGGTAAGTACTGGATGTAAAG
1 AAAGAACAACCTTTGTGGAAAAATTTTGGACAAGAAAACCTTTGTAGTAAGTACTGGATGGAAAG
* * *
31564263 AACA-ACTGTTGTGGCAAAAATCTGGACATGAAAGCCTTTATGGCAAGTA
66 AACAGACT-TTATGGCAAAAATCTAGACAGGAAAGCCTTTATGGCAAGTA
31564312 TTGAATGTAA
Statistics
Matches: 94, Mismatches: 18, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
121 8 0.09
122 86 0.91
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (122 bp):
AAAGAACAACCTTTGTGGAAAAATTTTGGACAAGAAAACCTTTGTAGTAAGTACTGGATGGAAAG
AACAGACTTTATGGCAAAAATCTAGACAGGAAAGCCTTTATGGCAAGTACTAGATAT
Found at i:31564339 original size:32 final size:32
Alignment explanation
Indices: 31564295--31564372 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
31564285 TGGACATGAA
* *
31564295 AGCCTTTATGGCAAGTATTGAATGTAAAAGAC
1 AGCCTTTGTGGCAAGTACTGAATGTAAAAGAC
* * * *
31564327 AGCTTTTGTGGCAAGTACTGGATGTAAAGGTC
1 AGCCTTTGTGGCAAGTACTGAATGTAAAAGAC
31564359 AGCCTTTGTGGCAA
1 AGCCTTTGTGGCAA
31564373 AAATCTAGAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.29
Consensus pattern (32 bp):
AGCCTTTGTGGCAAGTACTGAATGTAAAAGAC
Found at i:31564354 original size:93 final size:93
Alignment explanation
Indices: 31564229--31564431 Score: 246
Period size: 93 Copynumber: 2.2 Consensus size: 93
31564219 AATTTTGGAC
* * * *
31564229 AAGAAAACCTTTGTGGTAAGTACTGGATGTAAAGAACA-ACTGTTGTGGCAAAAATCTGGACATG
1 AAGACAACCTTTGTGGCAAGTACTGGATGTAAAGAACAGACT-TTGTGGCAAAAATCTAGACAGG
* *
31564293 AAAGCCTTTATGGCAAGTATTGAATGTAA
65 AAAGACTTTATGGCAAGTATTGAATATAA
* * ** * *
31564322 AAGACAGCTTTTGTGGCAAGTACTGGATGTAAAGGTCAGCCTTTGTGGCAAAAATCTAGATAGGA
1 AAGACAACCTTTGTGGCAAGTACTGGATGTAAAGAACAGACTTTGTGGCAAAAATCTAGACAGGA
* * *
31564387 AAGATTTTATGGCGAGTATTGGATATAA
66 AAGACTTTATGGCAAGTATTGAATATAA
*
31564415 AGGACAACCTTTGTGGC
1 AAGACAACCTTTGTGGC
31564432 GAAACTTTGG
Statistics
Matches: 91, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
93 89 0.98
94 2 0.02
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (93 bp):
AAGACAACCTTTGTGGCAAGTACTGGATGTAAAGAACAGACTTTGTGGCAAAAATCTAGACAGGA
AAGACTTTATGGCAAGTATTGAATATAA
Found at i:31576265 original size:16 final size:16
Alignment explanation
Indices: 31576244--31576277 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
31576234 TTCTAAGAAG
31576244 TGTGCATGGAATTGAA
1 TGTGCATGGAATTGAA
31576260 TGTGCATGGAATTGAA
1 TGTGCATGGAATTGAA
31576276 TG
1 TG
31576278 GTTTCAATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.32, T:0.32
Consensus pattern (16 bp):
TGTGCATGGAATTGAA
Found at i:31576727 original size:39 final size:39
Alignment explanation
Indices: 31576673--31576782 Score: 175
Period size: 39 Copynumber: 2.8 Consensus size: 39
31576663 TGTAAAAACT
* *
31576673 AAGACACATAATTAAAGTGCAGTGTTTAAGACACATTTA
1 AAGACTCATAATTAAAGTGCAGTATTTAAGACACATTTA
*
31576712 AAGACTTATAATTAAAGTGCAGTATTTAAGACACATTTA
1 AAGACTCATAATTAAAGTGCAGTATTTAAGACACATTTA
* *
31576751 ATGACTCATAATTAAAGTGCAATATTTAAGAC
1 AAGACTCATAATTAAAGTGCAGTATTTAAGAC
31576783 GCATATTTAA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 65 1.00
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.31
Consensus pattern (39 bp):
AAGACTCATAATTAAAGTGCAGTATTTAAGACACATTTA
Found at i:31580493 original size:76 final size:77
Alignment explanation
Indices: 31580357--31580511 Score: 285
Period size: 76 Copynumber: 2.0 Consensus size: 77
31580347 TGTTTAACTG
31580357 AAAAACTACGTTTTCTGAAAACTATCAATATTTGAAATTTTTTTTTCTAAAAGATAAACAATTTC
1 AAAAACTACGTTTTCTGAAAACTATCAATATTTGAAA-TTTTTTTTCTAAAAGATAAACAATTTC
31580422 TTTCAAAAGGAAA
65 TTTCAAAAGGAAA
*
31580435 AAAAACTACGTTTTGTGAAAACTATCAATATTTGAAA-TTTTTTTCTAAAAGATAAACAATTTCT
1 AAAAACTACGTTTTCTGAAAACTATCAATATTTGAAATTTTTTTTCTAAAAGATAAACAATTTCT
31580499 TTCAAAAGGAAA
66 TTCAAAAGGAAA
31580511 A
1 A
31580512 TTATAGACAA
Statistics
Matches: 76, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
76 40 0.53
78 36 0.47
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.36
Consensus pattern (77 bp):
AAAAACTACGTTTTCTGAAAACTATCAATATTTGAAATTTTTTTTCTAAAAGATAAACAATTTCT
TTCAAAAGGAAA
Found at i:31595925 original size:24 final size:25
Alignment explanation
Indices: 31595893--31595941 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
31595883 CACAAGATTA
31595893 GTAAATTCA-CATGT-ATGAAAACGT
1 GTAAATTCATCATGTCAT-AAAACGT
*
31595917 GTAACTTCATCATGTCATAAAACGT
1 GTAAATTCATCATGTCATAAAACGT
31595942 ATACTAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 8 0.36
25 12 0.55
26 2 0.09
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (25 bp):
GTAAATTCATCATGTCATAAAACGT
Found at i:31602898 original size:21 final size:20
Alignment explanation
Indices: 31602850--31602898 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
31602840 TTGCACCCCA
31602850 GTGCCCTTGTAAACACTTCG
1 GTGCCCTTGTAAACACTTCG
* *
31602870 GTGTCCTTG-AATGCACTTCAG
1 GTGCCCTTGTAA-ACACTTC-G
31602891 GTGCCCTT
1 GTGCCCTT
31602899 AACAGCACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 2 0.08
20 14 0.58
21 8 0.33
ACGTcount: A:0.16, C:0.29, G:0.22, T:0.33
Consensus pattern (20 bp):
GTGCCCTTGTAAACACTTCG
Found at i:31605367 original size:13 final size:13
Alignment explanation
Indices: 31605334--31605372 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
31605324 AGCCATAAGC
*
31605334 TTTTTGTATTTTTT
1 TTTTTGT-TTTGTT
31605348 TTGTTTGTTTTGTT
1 TT-TTTGTTTTGTT
31605362 TTTTTGTTTTG
1 TTTTTGTTTTG
31605373 GCTTGAGCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 9 0.39
14 9 0.39
15 5 0.22
ACGTcount: A:0.03, C:0.00, G:0.15, T:0.82
Consensus pattern (13 bp):
TTTTTGTTTTGTT
Found at i:31608334 original size:115 final size:115
Alignment explanation
Indices: 31608215--31608446 Score: 455
Period size: 115 Copynumber: 2.0 Consensus size: 115
31608205 ATGAATTTGA
31608215 AAAAATATATATATCAAAAATAGCAATGTTGATGACAATGTGAAAATTTTATATGCATATATACA
1 AAAAATATATATATCAAAAATAGCAATGTTGATGACAATGTGAAAATTTTATATGCATATATACA
31608280 CTTATCTTTGACGTGTTATTATTATGCATAATATCTACATCTAGAATGTT
66 CTTATCTTTGACGTGTTATTATTATGCATAATATCTACATCTAGAATGTT
*
31608330 AAAAATATATATATCAAAAATAGCAATGTTGATGACAATGTGAAAATTTTCTATGCATATATACA
1 AAAAATATATATATCAAAAATAGCAATGTTGATGACAATGTGAAAATTTTATATGCATATATACA
31608395 CTTATCTTTGACGTGTTATTATTATGCATAATATCTACATCTAGAATGTT
66 CTTATCTTTGACGTGTTATTATTATGCATAATATCTACATCTAGAATGTT
31608445 AA
1 AA
31608447 TTAACTAAGT
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
115 116 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (115 bp):
AAAAATATATATATCAAAAATAGCAATGTTGATGACAATGTGAAAATTTTATATGCATATATACA
CTTATCTTTGACGTGTTATTATTATGCATAATATCTACATCTAGAATGTT
Found at i:31610783 original size:5 final size:5
Alignment explanation
Indices: 31610773--31610800 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
31610763 TTTTTCCACT
31610773 TTTTC TTTTC TTTTC TTTTC TTTTC TTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTT
31610801 AAAAAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:31616343 original size:11 final size:11
Alignment explanation
Indices: 31616329--31616365 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
31616319 AAAAAAATAA
31616329 AAAAATATTTT
1 AAAAATATTTT
31616340 AAAAATATTTT
1 AAAAATATTTT
31616351 --AAA-ATTTT
1 AAAAATATTTT
31616359 AAAAATA
1 AAAAATA
31616366 AAAAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
8 5 0.22
9 3 0.13
10 3 0.13
11 12 0.52
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:31616345 original size:19 final size:19
Alignment explanation
Indices: 31616321--31616379 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
31616311 TTTAAAATAA
31616321 AAAAATAAAAAAATATTTT
1 AAAAATAAAAAAATATTTT
***
31616340 AAAAATATTTTAAA-ATTTT
1 AAAAATA-AAAAAATATTTT
31616359 AAAAATAAAAAAATATATTT
1 AAAAATAAAAAAATAT-TTT
31616379 A
1 A
31616380 TTATATTCGG
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
18 3 0.10
19 21 0.68
20 7 0.23
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAATAAAAAAATATTTT
Found at i:31633792 original size:30 final size:30
Alignment explanation
Indices: 31633733--31633813 Score: 121
Period size: 30 Copynumber: 2.7 Consensus size: 30
31633723 TTTTGACCCC
* *
31633733 AACTTTCCTTAAATAACA-TTTAACGCCTA
1 AACTTTCCTAAAATTACATTTTAACGCCTA
31633762 AACTTTCCTAAAATTACATTTTAAAC-CCTA
1 AACTTTCCTAAAATTACATTTT-AACGCCTA
31633792 AACTTTCCTAAAATTACATTTT
1 AACTTTCCTAAAATTACATTTT
31633814 GACATCAAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
29 16 0.33
30 29 0.60
31 3 0.06
ACGTcount: A:0.38, C:0.22, G:0.01, T:0.38
Consensus pattern (30 bp):
AACTTTCCTAAAATTACATTTTAACGCCTA
Found at i:31635536 original size:75 final size:75
Alignment explanation
Indices: 31635339--31635850 Score: 684
Period size: 75 Copynumber: 6.7 Consensus size: 75
31635329 TCAAGAATTA
* * * * *
31635339 TTTTCAATTTCTGTGTTTCAAAAATCAAATTATAATGCGAGAGGTGAGTTGAGCCTCGGGCAAAT
1 TTTTCAATTTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACAT
* *
31635404 GCCGCGATAT
66 GCCGAGGTAT
* * * *
31635414 TTTTAAATTTATATGTTTTTCAAAAATCAACTCATAATGCGTGAGGTGAGTTGAGCGTCGGACAC
1 TTTTCAA-TT-TATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCAC
31635479 ATGCCGAGGTAT
64 ATGCCGAGGTAT
* *
31635491 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGGGAGAGGTGAGTTGAGCCTCGGGCACAT
1 TTTTCAATTTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACAT
31635556 GCCGAGGTAT
66 GCCGAGGTAT
* * *
31635566 TTTTCAATTTATGTTTTTCAAAAATTAAGTCAGAATGCGAGAGGTGAGTTGAGCCTCGGGCACAT
1 TTTTCAATTTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACAT
31635631 GCCGAGGTAT
66 GCCGAGGTAT
* * *
31635641 TTTTCAATTTATATTTTTTCAAAAATCAACTCAAAATGCGAGAGGTGAGTTTAGCCTCGGGCACA
1 TTTTCAATTTAT-GTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACA
*
31635706 TGCTGAGGTAT
65 TGCCGAGGTAT
* * * * *
31635717 TTTTCAAATTCTGTTTTTTCAAAAATCAACTCATAATGCGAGAGGTAAGTTAAGCCTCAGGTCAC
1 TTTTCAATTTATG-TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GGGCAC
31635782 ACT-CCGAGGTAT
64 A-TGCCGAGGTAT
* *
31635794 TTTCCAATTTATGTTTTTTTAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAG
1 TTTTCAATTTATG--TTTTT--CAAAAATCAACTCATAATGCGAGAGGTGAGTTGAG
31635851 GTTCGGGTCA
Statistics
Matches: 386, Mismatches: 42, Indels: 13
0.88 0.10 0.03
Matches are distributed among these distances:
75 149 0.39
76 112 0.29
77 86 0.22
78 7 0.02
80 32 0.08
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (75 bp):
TTTTCAATTTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACAT
GCCGAGGTAT
Found at i:31635737 original size:227 final size:228
Alignment explanation
Indices: 31635339--31635850 Score: 733
Period size: 227 Copynumber: 2.2 Consensus size: 228
31635329 TCAAGAATTA
* * *
31635339 TTTTCAATTTCTGTGTTTCAAAAATCAAATTATAATGCGAGAGGTGAGTTGAGCCTCGGGCAAAT
1 TTTTCAATTTATGTTTTTCAAAAATCAAATCATAATGCGAGAGGTGAGTTGAGCCTCGGGCAAAT
* * *
31635404 GCCGCGATATTTTTAAATTTATATGTTTTTCAAAAATCAACTCATAATGCGTGAGGTGAGTTGAG
66 GCCGAGATATTTTTAAATTTATATGTTTTTCAAAAATCAACTCAAAATGCGAGAGGTGAGTTGAG
* * *
31635469 CGTCGGACACATGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGGGAGAG
131 CCTCGGACACATGCCGAGGTATTTTTCAAATTCTGTTTTTCAAAAATCAACTCATAATGCGAGAG
* *
31635534 GTGAGTTGAGCCTC-GGGCACA-TGCCGAGGTAT
196 GTAAGTTAAGCCTCAGGGCACACT-CCGAGGTAT
* * * *
31635566 TTTTCAATTTATGTTTTTCAAAAATTAAGTCAGAATGCGAGAGGTGAGTTGAGCCTCGGGCACAT
1 TTTTCAATTTATGTTTTTCAAAAATCAAATCATAATGCGAGAGGTGAGTTGAGCCTCGGGCAAAT
* * *
31635631 GCCGAGGTATTTTTCAATTTATAT-TTTTTCAAAAATCAACTCAAAATGCGAGAGGTGAGTTTAG
66 GCCGAGATATTTTTAAATTTATATGTTTTTCAAAAATCAACTCAAAATGCGAGAGGTGAGTTGAG
* *
31635695 CCTCGGGCACATGCTGAGGTATTTTTCAAATTCTGTTTTTTCAAAAATCAACTCATAATGCGAGA
131 CCTCGGACACATGCCGAGGTATTTTTCAAATTCTG-TTTTTCAAAAATCAACTCATAATGCGAGA
*
31635760 GGTAAGTTAAGCCTCAGGTCACACTCCGAGGTAT
195 GGTAAGTTAAGCCTCAGGGCACACTCCGAGGTAT
* * *
31635794 TTTCCAATTTATGTTTTTTTAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAG
1 TTTTCAATTTATG--TTTTT--CAAAAATCAAATCATAATGCGAGAGGTGAGTTGAG
31635851 GTTCGGGTCA
Statistics
Matches: 252, Mismatches: 26, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
226 68 0.27
227 120 0.48
228 27 0.11
229 1 0.00
230 5 0.02
232 31 0.12
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (228 bp):
TTTTCAATTTATGTTTTTCAAAAATCAAATCATAATGCGAGAGGTGAGTTGAGCCTCGGGCAAAT
GCCGAGATATTTTTAAATTTATATGTTTTTCAAAAATCAACTCAAAATGCGAGAGGTGAGTTGAG
CCTCGGACACATGCCGAGGTATTTTTCAAATTCTGTTTTTCAAAAATCAACTCATAATGCGAGAG
GTAAGTTAAGCCTCAGGGCACACTCCGAGGTAT
Found at i:31636085 original size:30 final size:29
Alignment explanation
Indices: 31636040--31636124 Score: 102
Period size: 29 Copynumber: 2.9 Consensus size: 29
31636030 TAATAATATC
* * *
31636040 ATTTTGACCCT-AACTTTCCAAAAATTAT
1 ATTTTGAACCTAAACTTTCCTAAAATTAA
31636068 ATTTT-AACTCCTAAACTTTCCTAAAATTAA
1 ATTTTGAA--CCTAAACTTTCCTAAAATTAA
*
31636098 ATTTTGAACCTAAAATTTCCTAAAATT
1 ATTTTGAACCTAAACTTTCCTAAAATT
31636125 TCACTTTGAC
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
27 1 0.02
28 5 0.10
29 21 0.43
30 20 0.41
31 2 0.04
ACGTcount: A:0.39, C:0.19, G:0.02, T:0.40
Consensus pattern (29 bp):
ATTTTGAACCTAAACTTTCCTAAAATTAA
Found at i:31636132 original size:29 final size:29
Alignment explanation
Indices: 31636077--31636133 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
31636067 TATTTTAACT
* *
31636077 CCTAAACTTTCCTAAAATTAAATTTTGAA
1 CCTAAAATTTCCTAAAATTAAACTTTGAA
**
31636106 CCTAAAATTTCCTAAAATTTCACTTTGA
1 CCTAAAATTTCCTAAAATTAAACTTTGA
31636134 CCCCAGAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.39, C:0.19, G:0.04, T:0.39
Consensus pattern (29 bp):
CCTAAAATTTCCTAAAATTAAACTTTGAA
Found at i:31637451 original size:27 final size:29
Alignment explanation
Indices: 31637420--31637491 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
31637410 TTTTTAAAAA
31637420 AAAATT-CATTTTGACCCTAA-CTTTCCT
1 AAAATTACATTTTGACCCTAACCTTTCCT
*
31637447 TAAATTACA-TTTGACCCCTAACCTTTCCT
1 AAAATTACATTTTGA-CCCTAACCTTTCCT
31637476 AAAATTACATTTTGAC
1 AAAATTACATTTTGAC
31637492 ATCAAATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
27 10 0.26
28 8 0.21
29 16 0.41
30 5 0.13
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.39
Consensus pattern (29 bp):
AAAATTACATTTTGACCCTAACCTTTCCT
Done.