Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 108 of 295
Found at i:32313291 original size:9 final size:10
Alignment explanation
Indices: 32313236--32313292 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
32313226 GCATTTCATA
32313236 CATATCATGT
1 CATATCATGT
*
32313246 GCATATCAT-A
1 -CATATCATGT
32313256 CATATCATGT
1 CATATCATGT
*
32313266 GCATATCATAT
1 -CATATCATGT
32313277 CA-ATCATGT
1 CATATCATGT
32313286 -ATATCAT
1 CATATCAT
32313293 ATCCCACGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (10 bp):
CATATCATGT
Found at i:32315698 original size:96 final size:95
Alignment explanation
Indices: 32315524--32315842 Score: 304
Period size: 96 Copynumber: 3.3 Consensus size: 95
32315514 GGTGAATTGT
* * * *
32315524 CGATGCCATATTCCAAACATGGTCTTACACTGG--CTCACATGTTGAGGCTGATGCCATGTCCTA
1 CGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCACATG-TG-GTC-GATGCCATGTCCCA
* * * * **
32315587 GACATGGTTTTACACTAGCTCTCGTCTTAATGT
63 GACATGGTCTTACACTAGCTCTCATATCAATAC
* *
32315620 TGATGTCATGTTCCAGACATGGTCTTACACTGGCTCTCACAATGTGGTCGATGCCATGTCCCAGA
1 CGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCAC-ATGTGGTCGATGCCATGTCCCAGA
* *
32315685 CATGGTCTTACACTAG-TGCACATATCAGTAC
65 CATGGTCTTACACTAGCT-CTCATATCAATAC
* * * * * * * *
32315716 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATTATATTGTCGATGCCATTTTCCAAA
1 CGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCA-CATGTGGTCGATGCCATGTCCCAGA
* * *
32315781 CATAGTCTTACACTGGCTCTCATATC-ATGGC
65 CATGGTCTTACACTAGCTCTCATATCAAT-AC
* *
32315812 CGAAGCCATGTCCCAGACATGGTCTTACACT
1 CGATGCCATGTTCCAGACATGGTCTTACACT
32315843 AGCGCACATA
Statistics
Matches: 186, Mismatches: 30, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
95 2 0.01
96 171 0.92
97 3 0.02
98 7 0.04
99 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (95 bp):
CGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCACATGTGGTCGATGCCATGTCCCAGAC
ATGGTCTTACACTAGCTCTCATATCAATAC
Found at i:32315789 original size:144 final size:144
Alignment explanation
Indices: 32315573--32315855 Score: 408
Period size: 144 Copynumber: 2.0 Consensus size: 144
32315563 TGTTGAGGCT
* * * * * *
32315573 GATGCCATGTCCTAGACATGGTTTTACACTAGCTCTCGTCTTAATGTTGATGTCATGTTCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTTAATGTCGATGCCATGTTCCAAAC
* * * * *
32315638 ATGGTCTTACACTGGCTCTCACAAT-GTGGTCGATGCCATGTCCCAGACATGGTCTTACACTAGT
66 ATAGTCTTACACTGGCTCTCA-AATCATGGCCGAAGCCATGTCCCAGACATGGTCTTACACTAGC
32315702 GCACATATCAGTACC
130 GCACATATCAGTACC
* *
32315717 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-TATATTGTCGATGCCATTTTCCAAA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCT-TAATGTCGATGCCATGTTCCAAA
*
32315781 CATAGTCTTACACTGGCTCTCATATCATGGCCGAAGCCATGTCCCAGACATGGTCTTACACTAGC
65 CATAGTCTTACACTGGCTCTCAAATCATGGCCGAAGCCATGTCCCAGACATGGTCTTACACTAGC
32315846 GCACATATCA
130 GCACATATCA
32315856 CTCAAATGCC
Statistics
Matches: 123, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
143 3 0.02
144 120 0.98
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.30
Consensus pattern (144 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTTAATGTCGATGCCATGTTCCAAAC
ATAGTCTTACACTGGCTCTCAAATCATGGCCGAAGCCATGTCCCAGACATGGTCTTACACTAGCG
CACATATCAGTACC
Found at i:32315853 original size:48 final size:48
Alignment explanation
Indices: 32315524--32315855 Score: 264
Period size: 48 Copynumber: 6.9 Consensus size: 48
32315514 GGTGAATTGT
* * * * * *
32315524 CGATGCCATATTCCAAACATGGTCTTACACTGGCTCACATGTTGA-GGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-ATCATGGC
* * * * * * * *
32315572 TGATGCCATGTCCTAGACATGGTTTTACACTAGCTCTCGTCTTAAT-GT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-ATCATGGC
* * * * * *
32315620 TGATGTCATGTTCCAGACATGGTCTTACACTGGCTCTCACA-AT-GTGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG--CTCACATATCATGGC
*
32315668 CGATGCCATGTCCCAGACATGGTCTTACACTAG-TGCACATATCA-GTAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCT-CACATATCATG-GC
* * *
32315716 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATTAT-ATTGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACA-TATCATGGC
* * * * * *
32315764 CGATGCCATTTTCCAAACATAGTCTTACACTGGCTCTCATATCATGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCATGGC
* *
32315812 CGAAGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCA
32315856 CTCAAATGCC
Statistics
Matches: 225, Mismatches: 47, Indels: 24
0.76 0.16 0.08
Matches are distributed among these distances:
45 1 0.00
46 4 0.02
47 7 0.03
48 205 0.91
49 4 0.02
50 4 0.02
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCATGGC
Found at i:32322322 original size:19 final size:18
Alignment explanation
Indices: 32322291--32322326 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
32322281 TTAAAATATT
*
32322291 TTTTAAACAAATTTAAAG
1 TTTTAAAAAAATTTAAAG
32322309 TTTTAAAAATAATTTAAA
1 TTTTAAAAA-AATTTAAA
32322327 ATCATTTAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (18 bp):
TTTTAAAAAAATTTAAAG
Found at i:32329985 original size:31 final size:31
Alignment explanation
Indices: 32329944--32330022 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
32329934 CAGCATATAG
32329944 TGGGCCGAAGCCTTTACATTATTCATATCAC
1 TGGGCCGAAGCCTTTACATTATTCATATCAC
* *
32329975 TGGGCAGAAGCCTTTTCATTATTCATATCAC
1 TGGGCCGAAGCCTTTACATTATTCATATCAC
32330006 TGGGCCGAAGCCTTTAC
1 TGGGCCGAAGCCTTTAC
32330023 TGTAACAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (31 bp):
TGGGCCGAAGCCTTTACATTATTCATATCAC
Found at i:32330255 original size:25 final size:25
Alignment explanation
Indices: 32330227--32330309 Score: 98
Period size: 26 Copynumber: 3.3 Consensus size: 25
32330217 CTGGAGGCCT
32330227 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCC-CTTTTAATAAACTGGGGCAAA
*
32330252 AGCCCTTTTTGATAAACTGGGGCAAA
1 AGCCC-TTTTAATAAACTGGGGCAAA
**
32330278 AGCCCTTTTCGGTAAACTGGGGC-AA
1 AGCCCTTTT-AATAAACTGGGGCAAA
32330303 AGCCCTT
1 AGCCCTT
32330310 AGCCCTTTTG
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
24 1 0.02
25 23 0.43
26 29 0.55
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCAAA
Found at i:32330276 original size:26 final size:26
Alignment explanation
Indices: 32330240--32330309 Score: 115
Period size: 26 Copynumber: 2.7 Consensus size: 26
32330230 CTCTTTTAAT
*
32330240 AACTGGGGCAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTCGATA
*
32330266 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGATA
32330292 AACTGGGGC-AAAGCCCTT
1 AACTGGGGCAAAAGCCCTT
32330310 AGCCCTTTTG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
25 9 0.21
26 33 0.79
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.23
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGATA
Found at i:32341855 original size:31 final size:31
Alignment explanation
Indices: 32341820--32341929 Score: 150
Period size: 31 Copynumber: 3.5 Consensus size: 31
32341810 TTTAAATTAT
32341820 TGGGCCAAAGCCTTTACATTATTCATATCTC
1 TGGGCCAAAGCCTTTACATTATTCATATCTC
** * *
32341851 TGGGCTGAAGCCTTTTCATTATTCATATCAC
1 TGGGCCAAAGCCTTTACATTATTCATATCTC
* *
32341882 TGGGCCGAAGCCTTTTCATTATTCATATCAT-
1 TGGGCCAAAGCCTTTACATTATTCATATC-TC
32341913 TGGGCCAAAGCCTTTAC
1 TGGGCCAAAGCCTTTAC
32341930 TGTAACAATA
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
31 70 1.00
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (31 bp):
TGGGCCAAAGCCTTTACATTATTCATATCTC
Found at i:32342162 original size:25 final size:25
Alignment explanation
Indices: 32342134--32342193 Score: 86
Period size: 26 Copynumber: 2.4 Consensus size: 25
32342124 CTGGAGGCCT
32342134 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCC-CTTTTAATAAACTGGGGCAAA
*
32342159 AGCCCTTTTTGATAAACTGGGGCAAA
1 AGCCC-TTTTAATAAACTGGGGCAAA
32342185 AGCCCTTTT
1 AGCCCTTTT
32342194 TGGTAACTGG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 1 0.03
25 14 0.44
26 17 0.53
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCAAA
Found at i:32342216 original size:24 final size:25
Alignment explanation
Indices: 32342146--32342241 Score: 133
Period size: 24 Copynumber: 3.9 Consensus size: 25
32342136 CCTCTTTTAA
*
32342146 TAACTGGGGCAAAAGCCCTTTTTGA
1 TAACTGGGGCAAAAGCCCTTTTTGG
32342171 TAAACTGGGGCAAAAGCCCTTTTTGG
1 T-AACTGGGGCAAAAGCCCTTTTTGG
* *
32342197 TAACTGGGGC-GAAGCCCTTTTCGG
1 TAACTGGGGCAAAAGCCCTTTTTGG
*
32342221 TAACTGGGGC-ATAGCCCTTTT
1 TAACTGGGGCAAAAGCCCTTTT
32342242 GCACTTCCTC
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
24 31 0.48
25 10 0.15
26 24 0.37
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (25 bp):
TAACTGGGGCAAAAGCCCTTTTTGG
Found at i:32342304 original size:11 final size:11
Alignment explanation
Indices: 32342288--32342321 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
32342278 AAATGAAAAC
32342288 ATCATGTGCAT
1 ATCATGTGCAT
32342299 ATCA--TGCAT
1 ATCATGTGCAT
32342308 ATCATGTGCAT
1 ATCATGTGCAT
32342319 ATC
1 ATC
32342322 GTATCAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 9 0.43
11 12 0.57
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:32345751 original size:14 final size:14
Alignment explanation
Indices: 32345732--32345758 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
32345722 TAACTCAAGC
32345732 ATTAAGAACAAATA
1 ATTAAGAACAAATA
32345746 ATTAAGAACAAAT
1 ATTAAGAACAAAT
32345759 CAAGTATTTA
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:0.63, C:0.07, G:0.07, T:0.22
Consensus pattern (14 bp):
ATTAAGAACAAATA
Found at i:32348154 original size:6 final size:6
Alignment explanation
Indices: 32348136--32348173 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
32348126 CTTTCAAATG
*
32348136 AAATGA AAA-TA AAATTA AAATTA AAATTA AAATTA AAA
1 AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA AAA
32348174 AGATAAGAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 4 0.13
6 26 0.87
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (6 bp):
AAATTA
Found at i:32350731 original size:79 final size:80
Alignment explanation
Indices: 32350628--32350812 Score: 200
Period size: 79 Copynumber: 2.3 Consensus size: 80
32350618 GCTACTCGTT
* *
32350628 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGAGA-CTTAACCC
1 CAAATGCCTTCGGGAC-TAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCG-GATCTTAACCC
* *
32350691 GGATTTAGTAAC-TCGCA
63 GGATATAGTAACTTAGCA
* **
32350708 CAAATGCCTTCGGG-CTCAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACT-AGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
32350772 ATATGGTCACTTAGCA
65 ATATAGTAACTTAGCA
*
32350788 CAAA-GCCTTCGGGTCTTAGCCCGGA
1 CAAATGCCTTCGGGAC-TAGCCCGGA
32350813 CATCATTCAA
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
78 3 0.03
79 54 0.60
80 32 0.36
81 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCA
Found at i:32350745 original size:39 final size:38
Alignment explanation
Indices: 32350628--32350812 Score: 158
Period size: 40 Copynumber: 4.6 Consensus size: 38
32350618 GCTACTCGTT
32350628 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-C-TAGCCCGGATT-TAGTAACTCGCA
* * *
32350668 CAATTGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCG-GGC-TAGCCCGGATTTAGTAACTCGCA
* *
32350708 CAAATGCCTTCGGGCTCAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCT-AGCCCGGATTTAGTAACTCGCA
* * * * * *
32350747 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGG-GC-TAGCCCGGATTTAGTAAC-TCGCA
32350788 CAAA-GCCTTCGGGTCTTAGCCCGGA
1 CAAATGCCTTCGGG-C-TAGCCCGGA
32350813 CATCATTCAA
Statistics
Matches: 119, Mismatches: 19, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
38 1 0.01
39 34 0.29
40 72 0.61
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (38 bp):
CAAATGCCTTCGGGCTAGCCCGGATTTAGTAACTCGCA
Found at i:32358615 original size:40 final size:40
Alignment explanation
Indices: 32358578--32358671 Score: 145
Period size: 40 Copynumber: 2.4 Consensus size: 40
32358568 GCTACTCGTT
*
32358578 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
* *
32358618 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
32358658 CAAATGCCTTCGGG
1 CAAATGCCTTCGGG
32358672 CTCAGCCCGA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 47 0.96
41 2 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:32361117 original size:28 final size:28
Alignment explanation
Indices: 32361085--32361138 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
32361075 AACCCATGGA
32361085 GAGGGCACCTCCTTAGTAAGTCCTTGGT
1 GAGGGCACCTCCTTAGTAAGTCCTTGGT
*
32361113 GAGGGCACCTTCTTAGTAAGTCCTTG
1 GAGGGCACCTCCTTAGTAAGTCCTTG
32361139 TATCTCTCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.19, C:0.24, G:0.28, T:0.30
Consensus pattern (28 bp):
GAGGGCACCTCCTTAGTAAGTCCTTGGT
Found at i:32366963 original size:27 final size:26
Alignment explanation
Indices: 32366902--32367015 Score: 133
Period size: 27 Copynumber: 4.3 Consensus size: 26
32366892 AGTATGGCTG
* * *
32366902 CCAGAATAGATAATGTGACGGAG-CA
1 CCAGAACAGATAATGTGGCAGAGCCA
32366927 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
32366955 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
32366982 CCAGATCAGATAATTGTGGC-GTAGCCA
1 CCAGAACAGATAA-TGTGGCAG-AGCCA
32367009 CCAGAAC
1 CCAGAAC
32367016 GCTTCCTCCA
Statistics
Matches: 78, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
25 5 0.06
26 10 0.13
27 54 0.69
28 9 0.12
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:32366993 original size:54 final size:53
Alignment explanation
Indices: 32366902--32367015 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 53
32366892 AGTATGGCTG
* *
32366902 CCAGAATAGATAATGTGACGGAGCACCAGATACAGATAATCGTGGCAG-AGCCA
1 CCAGAACAGATAATGTGACAGAGCACCAGATACAGATAATCGTGGC-GTAGCCA
* *
32366955 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCGTAGCCA
1 CCAGAACAGATA-ATGTGACAGAG-CACCAGATACAGATAATCGTGGCGTAGCCA
32367009 CCAGAAC
1 CCAGAAC
32367016 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
53 12 0.22
54 34 0.63
55 8 0.15
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGAGCACCAGATACAGATAATCGTGGCGTAGCCA
Found at i:32369461 original size:20 final size:19
Alignment explanation
Indices: 32369436--32369475 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
32369426 GTAGAAATTA
32369436 TTATTCCGAGAAAATAGAAT
1 TTATTCCGAGAAAATA-AAT
**
32369456 TTATTCTTAGAAAATAAAT
1 TTATTCCGAGAAAATAAAT
32369475 T
1 T
32369476 CTCACTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (19 bp):
TTATTCCGAGAAAATAAAT
Found at i:32378529 original size:14 final size:14
Alignment explanation
Indices: 32378510--32378538 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
32378500 AAAGGAAAGA
32378510 AGCCCAATATTTTT
1 AGCCCAATATTTTT
32378524 AGCCCAATATTTTT
1 AGCCCAATATTTTT
32378538 A
1 A
32378539 ATATAGCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (14 bp):
AGCCCAATATTTTT
Found at i:32389036 original size:22 final size:22
Alignment explanation
Indices: 32388989--32389038 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
32388979 TAATAACAAC
* *
32388989 AAAATAGTAGCAACATAATAGT
1 AAAATAGTAGCAAAATAAGAGT
*
32389011 AAAATGGTAGCAAAATAGAGAG-
1 AAAATAGTAGCAAAATA-AGAGT
32389033 AAAATA
1 AAAATA
32389039 ACAAGAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.58, C:0.06, G:0.18, T:0.18
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAAGAGT
Found at i:32389865 original size:3 final size:3
Alignment explanation
Indices: 32389857--32389881 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
32389847 AGTATGTGAA
32389857 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
32389882 GTTGAACTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:32395419 original size:26 final size:25
Alignment explanation
Indices: 32395389--32395448 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 25
32395379 TCTCATTCTT
32395389 ATTTTACCCCCAATAAAATTTTAACA
1 ATTTTACCCCCAATAAAA-TTTAACA
* * * *
32395415 ATTTTACCCCTAGTAAAATTTGACG
1 ATTTTACCCCCAATAAAATTTAACA
32395440 ATTTTACCC
1 ATTTTACCC
32395449 TAGTAAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 14 0.47
26 16 0.53
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.37
Consensus pattern (25 bp):
ATTTTACCCCCAATAAAATTTAACA
Found at i:32395454 original size:24 final size:26
Alignment explanation
Indices: 32395389--32395469 Score: 103
Period size: 25 Copynumber: 3.2 Consensus size: 26
32395379 TCTCATTCTT
* * * *
32395389 ATTTTACCCCCAATAAAATTTTAACA
1 ATTTTACCCCTAGTAAAATTTTGACG
32395415 ATTTTACCCCTAGTAAAA-TTTGACG
1 ATTTTACCCCTAGTAAAATTTTGACG
*
32395440 ATTTTA-CCCTAGTAAAATTTTGATG
1 ATTTTACCCCTAGTAAAATTTTGACG
32395465 ATTTT
1 ATTTT
32395470 GCCATTGGTA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
24 11 0.22
25 22 0.45
26 16 0.33
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.41
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACG
Found at i:32400930 original size:29 final size:29
Alignment explanation
Indices: 32400888--32400946 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
32400878 CTTGATTGAA
*
32400888 TCTTAGATTCCATGAGTGGGACTCTTGCT
1 TCTTAGATTCCATGAGTGGGACACTTGCT
32400917 TCTTAGATTCCATGAGTGGGACACTTGCT
1 TCTTAGATTCCATGAGTGGGACACTTGCT
32400946 T
1 T
32400947 AACTCCATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (29 bp):
TCTTAGATTCCATGAGTGGGACACTTGCT
Found at i:32400953 original size:25 final size:27
Alignment explanation
Indices: 32400888--32400954 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 27
32400878 CTTGATTGAA
* *
32400888 TCTTAGATTCCATGAGTGGGACTCTTG
1 TCTTAGACTCCATGAGTGGGACACTTG
*
32400915 CTTCTTAGATTCCATGAGTGGGACACTTG
1 --TCTTAGACTCCATGAGTGGGACACTTG
32400944 -CTTA-ACTCCAT
1 TCTTAGACTCCAT
32400955 ATATGGATCT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
25 6 0.17
26 4 0.11
29 26 0.72
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (27 bp):
TCTTAGACTCCATGAGTGGGACACTTG
Found at i:32403758 original size:4 final size:4
Alignment explanation
Indices: 32403745--32403792 Score: 50
Period size: 4 Copynumber: 12.5 Consensus size: 4
32403735 ATCACCTTAT
32403745 TTTC -TTC TTTC TTT- TTTC -TT- TTTC TTTC TTTTC TTTC TTTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTTC TTTC -TTTC TTTC
32403791 TT
1 TT
32403793 AGTTTTGTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
3 10 0.26
4 20 0.53
5 8 0.21
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (4 bp):
TTTC
Found at i:32403768 original size:13 final size:13
Alignment explanation
Indices: 32403744--32403785 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
32403734 CATCACCTTA
32403744 TTTTCTTCTTTCTT
1 TTTTCTT-TTTCTT
32403758 TTTTCTTTTTCTT
1 TTTTCTTTTTCTT
*
32403771 TCTTT-TCTTTCTT
1 T-TTTCTTTTTCTT
32403784 TT
1 TT
32403786 CTTTCTTAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 1 0.04
13 15 0.58
14 10 0.38
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTCTTTTTCTT
Found at i:32403778 original size:9 final size:9
Alignment explanation
Indices: 32403749--32403792 Score: 65
Period size: 9 Copynumber: 5.0 Consensus size: 9
32403739 CCTTATTTTC
32403749 TTCTTTC-T
1 TTCTTTCTT
32403757 TT-TTTCTTT
1 TTCTTTC-TT
32403766 TTCTTTCTT
1 TTCTTTCTT
32403775 TTCTTTCTT
1 TTCTTTCTT
32403784 TTCTTTCTT
1 TTCTTTCTT
32403793 AGTTTTGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
7 4 0.12
8 2 0.06
9 23 0.70
10 4 0.12
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (9 bp):
TTCTTTCTT
Found at i:32403790 original size:13 final size:13
Alignment explanation
Indices: 32403744--32403792 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 13
32403734 CATCACCTTA
32403744 TTTTC-TTCTTTC
1 TTTTCTTTCTTTC
*
32403756 -TTT-TTTCTTTT
1 TTTTCTTTCTTTC
32403767 TCTTTCTTTTCTTTC
1 T-TTTC-TTTCTTTC
32403782 TTTTCTTTCTT
1 TTTTCTTTCTT
32403793 AGTTTTGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
11 9 0.30
13 9 0.30
14 4 0.13
15 8 0.27
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTCTTTCTTTC
Found at i:32403790 original size:22 final size:22
Alignment explanation
Indices: 32403745--32403810 Score: 57
Period size: 22 Copynumber: 3.1 Consensus size: 22
32403735 ATCACCTTAT
*
32403745 TTTC-TTC-TTTCTTT-TTTCTT
1 TTTCTTTCTTTTCTTTCTTT-TC
32403765 TTTCTTTCTTTTCTTTCTTTTC
1 TTTCTTTCTTTTCTTTCTTTTC
** * *
32403787 TTTCTTAGTTTTGTATCTTTTC
1 TTTCTTTCTTTTCTTTCTTTTC
32403809 TT
1 TT
32403811 ACTTATCAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
20 4 0.11
21 3 0.08
22 28 0.74
23 3 0.08
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (22 bp):
TTTCTTTCTTTTCTTTCTTTTC
Found at i:32410066 original size:20 final size:20
Alignment explanation
Indices: 32410029--32410066 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
32410019 CATTTTCGAA
*
32410029 TTATAAAAAACATGAAAAAC
1 TTATAAAAAACATAAAAAAC
32410049 TTAT-AAAAACTATAAAAA
1 TTATAAAAAAC-ATAAAAA
32410067 TTATTAAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.66, C:0.08, G:0.03, T:0.24
Consensus pattern (20 bp):
TTATAAAAAACATAAAAAAC
Found at i:32410074 original size:19 final size:19
Alignment explanation
Indices: 32410027--32410091 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 19
32410017 TTCATTTTCG
*
32410027 AATTATAAAAAAC-ATGAAA
1 AATTATTAAAAACTAT-AAA
32410046 AACTTA-TAAAAACTATAAA
1 AA-TTATTAAAAACTATAAA
32410065 AATTATT--AAACTATATAA
1 AATTATTAAAAACTATA-AA
32410083 TAATTATTA
1 -AATTATTA
32410092 TAAATTAACT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
17 8 0.21
18 5 0.13
19 21 0.54
20 5 0.13
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (19 bp):
AATTATTAAAAACTATAAA
Found at i:32410579 original size:19 final size:20
Alignment explanation
Indices: 32410555--32410599 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
32410545 TGGTTTTAAT
*
32410555 TAATTTCTGATAAT-TCTTA
1 TAATTTCTAATAATCTCTTA
* *
32410574 TAATTTTTAATAATCTTTTA
1 TAATTTCTAATAATCTCTTA
32410594 TAATTT
1 TAATTT
32410600 TATAATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (20 bp):
TAATTTCTAATAATCTCTTA
Found at i:32410586 original size:10 final size:10
Alignment explanation
Indices: 32410548--32410612 Score: 55
Period size: 10 Copynumber: 6.5 Consensus size: 10
32410538 AATATTATGG
32410548 TTTTAATTAAT
1 TTTTAA-TAAT
* *
32410559 TTCTGATAAT
1 TTTTAATAAT
*
32410569 TCTT-ATAAT
1 TTTTAATAAT
32410578 TTTTAATAAT
1 TTTTAATAAT
32410588 CTTTT-ATAAT
1 -TTTTAATAAT
32410598 TTTATAAT-AT
1 TTT-TAATAAT
32410608 TTTTA
1 TTTTA
32410613 TGTTTTTATA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
9 13 0.29
10 22 0.49
11 10 0.22
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.60
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:32410587 original size:29 final size:30
Alignment explanation
Indices: 32410548--32410610 Score: 78
Period size: 29 Copynumber: 2.1 Consensus size: 30
32410538 AATATTATGG
32410548 TTTTAATTAAT-TTCTGATAATTCTTATAAT-
1 TTTTAATTAATCTT-TGATAATT-TTATAATA
*
32410578 TTTTAA-TAATCTTTTATAATTTTATAATA
1 TTTTAATTAATCTTTGATAATTTTATAATA
32410607 TTTT
1 TTTT
32410611 TATGTTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 7 0.23
29 15 0.50
30 8 0.27
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (30 bp):
TTTTAATTAATCTTTGATAATTTTATAATA
Found at i:32410611 original size:19 final size:21
Alignment explanation
Indices: 32410571--32410624 Score: 69
Period size: 19 Copynumber: 2.7 Consensus size: 21
32410561 CTGATAATTC
32410571 TTATAATTTT-TAATAATCTT
1 TTATAATTTTATAATAATCTT
32410591 TTATAATTTTATAAT-AT-TT
1 TTATAATTTTATAATAATCTT
**
32410610 TTATGTTTTTATAAT
1 TTATAATTTTATAAT
32410625 TTTAGAATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 15 0.48
20 12 0.39
21 4 0.13
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (21 bp):
TTATAATTTTATAATAATCTT
Found at i:32410657 original size:16 final size:17
Alignment explanation
Indices: 32410636--32410668 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
32410626 TTAGAATGTA
32410636 TCTAGA-CAAATGAATG
1 TCTAGATCAAATGAATG
32410652 TCTAGATTCAAATGAAT
1 TCTAGA-TCAAATGAAT
32410669 CTAAACATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
TCTAGATCAAATGAATG
Found at i:32410819 original size:32 final size:32
Alignment explanation
Indices: 32410773--32410838 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 32
32410763 GACAATAACG
* * **
32410773 TGGAGCTATCACGTCAGCCTTCGATGATGACA
1 TGGAACTATCACGTCAACAGTCGATGATGACA
*
32410805 TGGAACTATCACGTCAACAGTCGGTGATGACA
1 TGGAACTATCACGTCAACAGTCGATGATGACA
32410837 TG
1 TG
32410839 ATATTGCCAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (32 bp):
TGGAACTATCACGTCAACAGTCGATGATGACA
Found at i:32411339 original size:20 final size:20
Alignment explanation
Indices: 32411254--32411330 Score: 73
Period size: 20 Copynumber: 3.6 Consensus size: 20
32411244 ATTGTACTAG
* *
32411254 AATTTTTAACAACATACCAA
1 AATTTGTAACAAAATACCAA
* * *
32411274 TATTTCTAACATGAAACATATCAA
1 AATTTGTAAC---AAA-ATACCAA
32411298 AATTTGTAACAAAATACCAA
1 AATTTGTAACAAAATACCAA
32411318 AATTTGTAACAAA
1 AATTTGTAACAAA
32411331 TATTGAAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
20 27 0.59
21 3 0.07
23 2 0.04
24 14 0.30
ACGTcount: A:0.51, C:0.16, G:0.04, T:0.30
Consensus pattern (20 bp):
AATTTGTAACAAAATACCAA
Found at i:32411435 original size:20 final size:20
Alignment explanation
Indices: 32411410--32411457 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
32411400 ATAAACTTTT
*
32411410 CAAAATTTCTAATAAAATAC
1 CAAAATTTCTAACAAAATAC
*
32411430 CAAAATTTGTAACAAAATAC
1 CAAAATTTCTAACAAAATAC
*
32411450 TAAAATTT
1 CAAAATTT
32411458 TTGACGGAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.31
Consensus pattern (20 bp):
CAAAATTTCTAACAAAATAC
Found at i:32412567 original size:21 final size:23
Alignment explanation
Indices: 32412543--32412584 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
32412533 ATGAATAGAA
32412543 TTAAA-TTAAATAAA-ATAAATT
1 TTAAATTTAAATAAATATAAATT
32412564 TTAAATTTAAATAAATATAAA
1 TTAAATTTAAATAAATATAAA
32412585 AATATATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 5 0.26
22 9 0.47
23 5 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
TTAAATTTAAATAAATATAAATT
Found at i:32414524 original size:40 final size:40
Alignment explanation
Indices: 32414469--32414553 Score: 161
Period size: 40 Copynumber: 2.1 Consensus size: 40
32414459 TATCTCCATC
32414469 TTTTGTACTCTTTGTTCTTTTGCCATTGTAATAAAATTAT
1 TTTTGTACTCTTTGTTCTTTTGCCATTGTAATAAAATTAT
32414509 TTTTGTACTCTTTGTTCTTTTGCCATTGTAATAAAATTAT
1 TTTTGTACTCTTTGTTCTTTTGCCATTGTAATAAAATTAT
*
32414549 CTTTG
1 TTTTG
32414554 CCCGTGGTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.21, C:0.13, G:0.11, T:0.55
Consensus pattern (40 bp):
TTTTGTACTCTTTGTTCTTTTGCCATTGTAATAAAATTAT
Found at i:32419617 original size:42 final size:42
Alignment explanation
Indices: 32419553--32419651 Score: 108
Period size: 42 Copynumber: 2.4 Consensus size: 42
32419543 TAGCCCAGCT
* * *
32419553 ATGGACTTACACGAAATTTCATATCGATGCCATGTCCAAGAC
1 ATGGTCTTACACGTAATATCATATCGATGCCATGTCCAAGAC
* ** * * *
32419595 ATGGTCTTACACGTAATATCATATTGATGCTTTTTCCCAGAT
1 ATGGTCTTACACGTAATATCATATCGATGCCATGTCCAAGAC
*
32419637 ATGGTCTTATACGTA
1 ATGGTCTTACACGTA
32419652 TTCTCATCTC
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.34
Consensus pattern (42 bp):
ATGGTCTTACACGTAATATCATATCGATGCCATGTCCAAGAC
Found at i:32423941 original size:8 final size:8
Alignment explanation
Indices: 32423928--32423953 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
32423918 TTGTTTCACT
32423928 CACCCTGG
1 CACCCTGG
32423936 CACCCTGG
1 CACCCTGG
32423944 CACCCTGG
1 CACCCTGG
32423952 CA
1 CA
32423954 TGTCTTCTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.50, G:0.23, T:0.12
Consensus pattern (8 bp):
CACCCTGG
Found at i:32424549 original size:16 final size:16
Alignment explanation
Indices: 32424530--32424560 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32424520 AATATTATTA
32424530 TATTATTAGATTAGTT
1 TATTATTAGATTAGTT
*
32424546 TATTATTTGATTAGT
1 TATTATTAGATTAGT
32424561 AGTTTTAATA
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:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (16 bp):
TATTATTAGATTAGTT
Found at i:32434008 original size:33 final size:33
Alignment explanation
Indices: 32433965--32434060 Score: 106
Period size: 33 Copynumber: 2.9 Consensus size: 33
32433955 CATTTCCAAG
**
32433965 TGGTACACACAAAGTATACCTTTCCTTTTCATA
1 TGGTACACACAAAGTATACCTAACCTTTTCATA
*
32433998 TGGTATACACAAAGTATACCTAACCTTTTCA-A
1 TGGTACACACAAAGTATACCTAACCTTTTCATA
* * * *
32434030 -GTGTACACATAAGGTGTACATAACCTTTTCA
1 TG-GTACACACAAAGTATACCTAACCTTTTCA
32434061 AATTGTACCA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
31 1 0.02
32 25 0.46
33 28 0.52
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (33 bp):
TGGTACACACAAAGTATACCTAACCTTTTCATA
Found at i:32465040 original size:13 final size:13
Alignment explanation
Indices: 32465022--32465051 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
32465012 TGTTCTAAGT
32465022 AATGTGTTTTATA
1 AATGTGTTTTATA
32465035 AATGTGTTTTATA
1 AATGTGTTTTATA
32465048 AATG
1 AATG
32465052 GTTGTAATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (13 bp):
AATGTGTTTTATA
Found at i:32469301 original size:39 final size:40
Alignment explanation
Indices: 32469204--32469426 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
32469194 TTGAATGATG
*
32469204 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
32469242 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
32469283 TCCGGGCTAAG-CCTGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
32469322 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
32469361 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
32469400 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
32469427 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
39 91 0.56
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:32469348 original size:78 final size:80
Alignment explanation
Indices: 32469204--32469426 Score: 262
Period size: 79 Copynumber: 2.8 Consensus size: 80
32469194 TTGAATGATG
* * * * *
32469204 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
32469266 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
* *
32469283 TCCGGGCTAAG-CCTGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATA-ACCGGGCTAAGTCCCGAAGGCAT
*
32469344 TTGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAAA
* *
32469361 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
32469426 G
66 G
32469427 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 11, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
78 45 0.36
79 56 0.45
80 22 0.18
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:32469448 original size:79 final size:79
Alignment explanation
Indices: 32469256--32469459 Score: 195
Period size: 79 Copynumber: 2.6 Consensus size: 79
32469246 GGACTAAGAT
** * * * *
32469256 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCT-AAGCCTGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACT
*
32469319 AATTCCGGGCTAAGC
65 AATACCGGGCTAAGC
** * *
32469334 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGA-TACT
*
32469398 -ATAACCGGGCTATGTC
65 AAT-ACCGGGCTAAG-C
* *
32469414 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
32469460 TACGTGATTT
Statistics
Matches: 107, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
77 1 0.01
78 34 0.32
79 47 0.44
80 25 0.23
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:32474572 original size:46 final size:47
Alignment explanation
Indices: 32474425--32474691 Score: 230
Period size: 46 Copynumber: 5.7 Consensus size: 47
32474415 TTATTTGTAT
* * *
32474425 GCCAGTGTAAGA-CATGTCCGGGATATGCATTGGCCACATTATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTATGAGA
32474471 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG---CATTGA-GACGA
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCACATT-ATGA-GA
*
32474517 GTGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCACATTATGAGA
1 --GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTATGAGA
* * * * * *
32474565 GCCAGTGTAAGA-CATGTCTAGGACATGCATTGGCTA-A-GA-GTTGT
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTATG-AGA
* * * * ** *
32474609 GCTAGTATAAGACCATGTCTGGGACATGGCATCGACCTCTATGGTGATA
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCAC-ATTATGAGA
32474658 GCCAGTGTAAGACCATGTCTGGGACATGACATCG
1 GCCAGTGTAAGACCATGTCTGGGACATG-CATCG
32474692 ACAACTTATC
Statistics
Matches: 179, Mismatches: 24, Indels: 33
0.76 0.10 0.14
Matches are distributed among these distances:
43 1 0.01
44 12 0.07
45 20 0.11
46 60 0.34
47 26 0.15
48 22 0.12
49 37 0.21
50 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTATGAGA
Found at i:32476443 original size:130 final size:132
Alignment explanation
Indices: 32476206--32476471 Score: 428
Period size: 130 Copynumber: 2.0 Consensus size: 132
32476196 CCAGTAGAGA
*
32476206 GCGAGCCCGTGAGTATGGGCCAAGGTGGAGGGGCTAGCGAAGCCTACCTCCAAATGATGGATGCT
1 GCGAGCCCGTGAGTATGGGCCAAGGCGGAGGGGCTAGCGAA--CTACCTCCAAATGATGGATGCT
** *
32476271 TGGTATTCGGAGTTTGTACGTGCGAACCCAAATAGTCCACCTCCCCCACCTCCTCCGATTCCTCA
64 TGGTATTCAAAGTTTGTACGTGCGAACCCAAACAGTCCACCTCCCCCACCTCCTCCGATTCCTCA
32476336 GTAT
129 GTAT
* *
32476340 GCGAGCCCGTGAGTATGGGCTAAGGCGGAGGGGTTAGCG-A-TACCTCCAAATGATGGATGCTTG
1 GCGAGCCCGTGAGTATGGGCCAAGGCGGAGGGGCTAGCGAACTACCTCCAAATGATGGATGCTTG
* *
32476403 GTATTCAAAGTTTGTACGTGCGAACCCAAACAGTCCACCTCCTCCACCTTCTCCGATTCCTCAGT
66 GTATTCAAAGTTTGTACGTGCGAACCCAAACAGTCCACCTCCCCCACCTCCTCCGATTCCTCAGT
32476468 AT
131 AT
32476470 GC
1 GC
32476472 CCCGGTAGCT
Statistics
Matches: 124, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
130 87 0.70
133 1 0.01
134 36 0.29
ACGTcount: A:0.22, C:0.28, G:0.26, T:0.23
Consensus pattern (132 bp):
GCGAGCCCGTGAGTATGGGCCAAGGCGGAGGGGCTAGCGAACTACCTCCAAATGATGGATGCTTG
GTATTCAAAGTTTGTACGTGCGAACCCAAACAGTCCACCTCCCCCACCTCCTCCGATTCCTCAGT
AT
Found at i:32482015 original size:15 final size:15
Alignment explanation
Indices: 32481995--32482028 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
32481985 GAATTTTCAT
32481995 TGAATTGATATAGTG
1 TGAATTGATATAGTG
* *
32482010 TGAATTGCTATATTG
1 TGAATTGATATAGTG
32482025 TGAA
1 TGAA
32482029 CTAAGAATGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.24, T:0.41
Consensus pattern (15 bp):
TGAATTGATATAGTG
Found at i:32482287 original size:46 final size:47
Alignment explanation
Indices: 32482125--32482444 Score: 187
Period size: 46 Copynumber: 6.7 Consensus size: 47
32482115 TTATTTGTGT
* * * *
32482125 GCCAGTGTAAGACACGTCTTGGACAT-GCATCGGCCATATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGACCACATTATGAGA
* * *
32482171 GCCAGTGCAAGAACATGTCTGGGACATGGCAAT--A--GCATTGA-GACAAGT
1 GCCAGTGTAAG-ACATGTCTGGGACATGGC-ATCGACCACATT-ATG---AGA
* *
32482219 GCTAGTGTAAGACATGTTTGGGACAT-GCATCGACCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGACCACATTATGAGA
* * * * *
32482265 GCCAGTGTAACACATGTCTGGGACAT-GCATC-AGCTA-A-GA-GTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGA-CCACATTATG-AGA
* * * * *
32482309 GCTAGTATAAGACCATGTCTGGGACATGGCGTCAACACACATATATACTAGA
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGAC-CACAT-TAT--GAGA
* * * *
32482361 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGATGATGATA
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGACCAC-ATTATGAGA
* *
32482410 GCCAGTGTAAGACCATGTCTAGGACATAGCATCGA
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGA
32482445 TAACTTATCC
Statistics
Matches: 211, Mismatches: 38, Indels: 47
0.71 0.13 0.16
Matches are distributed among these distances:
43 1 0.00
44 11 0.05
45 22 0.10
46 50 0.24
47 30 0.14
48 15 0.07
49 41 0.19
50 1 0.00
51 4 0.02
52 36 0.17
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.23
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGGCATCGACCACATTATGAGA
Found at i:32491538 original size:38 final size:38
Alignment explanation
Indices: 32491482--32491791 Score: 467
Period size: 38 Copynumber: 8.1 Consensus size: 38
32491472 GATGTTTATT
* *
32491482 CGGGTTAAATCCTGCAGGCTTCATGCTGGTATTATATC
1 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
*
32491520 CGGGTTAAATCCCACAGGCTTCGTGCTGGTATTATATC
1 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
* * **
32491558 CGGGCTTAAAGACCCACAGGCTTCGTGCTGGTAAAATATC
1 CGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTATTATATC
*
32491598 CGGGTTAAATCCCACAGGCTTCGTGCTGGTATTATATC
1 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
* *
32491636 CGGGTTAAATCCCGCAGGCTTCGTGTTGGTAATATATC
1 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
32491674 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
32491712 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
* * * * *
32491750 CGGGATAAATCCCGCAAGCCTAGTGCTGGTATTATATT
1 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
32491788 CGGG
1 CGGG
32491792 CCTTCGTGCC
Statistics
Matches: 251, Mismatches: 19, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
38 211 0.84
39 10 0.04
40 30 0.12
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (38 bp):
CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
Found at i:32491861 original size:43 final size:43
Alignment explanation
Indices: 32491784--32491865 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
32491774 GCTGGTATTA
* * **
32491784 TATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
32491827 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
32491866 AATGATATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.12, C:0.24, G:0.34, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
Found at i:32519465 original size:20 final size:21
Alignment explanation
Indices: 32519440--32519492 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
32519430 TTGAATTTTA
32519440 TGAAAAAGAAAACTTT-GAG-T
1 TGAAAAAGAAAA-TTTAGAGCT
*
32519460 TGAAAATG-AAATTTGAGAGCT
1 TGAAAAAGAAAATTT-AGAGCT
32519481 TGAAAAAGAAAA
1 TGAAAAAGAAAA
32519493 ATGAAATCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
18 3 0.11
19 3 0.11
20 10 0.37
21 8 0.30
22 3 0.11
ACGTcount: A:0.53, C:0.04, G:0.21, T:0.23
Consensus pattern (21 bp):
TGAAAAAGAAAATTTAGAGCT
Found at i:32520879 original size:20 final size:20
Alignment explanation
Indices: 32520854--32520894 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
32520844 CAGAATAAAG
32520854 TCCTATGCCACAGTCCATAC
1 TCCTATGCCACAGTCCATAC
32520874 TCCTATGCCACAGTCCATAC
1 TCCTATGCCACAGTCCATAC
32520894 T
1 T
32520895 TACACTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.39, G:0.10, T:0.27
Consensus pattern (20 bp):
TCCTATGCCACAGTCCATAC
Found at i:32521136 original size:49 final size:49
Alignment explanation
Indices: 32521081--32521175 Score: 181
Period size: 49 Copynumber: 1.9 Consensus size: 49
32521071 TATAAACATA
*
32521081 TACATTATACAATCATAACAATCATATCAATTTCATATAACTCAATATT
1 TACATTATACAATCATAACAATCATATCAATTGCATATAACTCAATATT
32521130 TACATTATACAATCATAACAATCATATCAATTGCATATAACTCAAT
1 TACATTATACAATCATAACAATCATATCAATTGCATATAACTCAAT
32521176 TTTTCACTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.45, C:0.19, G:0.01, T:0.35
Consensus pattern (49 bp):
TACATTATACAATCATAACAATCATATCAATTGCATATAACTCAATATT
Found at i:32524792 original size:27 final size:27
Alignment explanation
Indices: 32524761--32524814 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
32524751 ATAATTTGGT
32524761 TATGAACTATCAAATTGAATTTAAATA
1 TATGAACTATCAAATTGAATTTAAATA
*
32524788 TATGAACTATCAAATTTAATTTAAATA
1 TATGAACTATCAAATTGAATTTAAATA
32524815 CCTTCTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.48, C:0.07, G:0.06, T:0.39
Consensus pattern (27 bp):
TATGAACTATCAAATTGAATTTAAATA
Found at i:32533290 original size:59 final size:59
Alignment explanation
Indices: 32533223--32533343 Score: 233
Period size: 59 Copynumber: 2.1 Consensus size: 59
32533213 TAACTGCTAT
*
32533223 ATTATTGAAATGAAATGTGAATATTATTGAGTATGGTGCTACGGAAATGACCAATAGAG
1 ATTATTGAAATGAAATGTGAATATTATTGAGTATGGTGCTACAGAAATGACCAATAGAG
32533282 ATTATTGAAATGAAATGTGAATATTATTGAGTATGGTGCTACAGAAATGACCAATAGAG
1 ATTATTGAAATGAAATGTGAATATTATTGAGTATGGTGCTACAGAAATGACCAATAGAG
32533341 ATT
1 ATT
32533344 CGGTACAGTG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (59 bp):
ATTATTGAAATGAAATGTGAATATTATTGAGTATGGTGCTACAGAAATGACCAATAGAG
Found at i:32534964 original size:28 final size:28
Alignment explanation
Indices: 32534928--32534983 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
32534918 CATGGGTAGA
32534928 CACACGGGCGTGTG-TCTAGGCCGTGTGT
1 CACACGGGCGTGTGATCT-GGCCGTGTGT
* *
32534956 CACATGGGCGTGTGATCTTGCCGTGTGT
1 CACACGGGCGTGTGATCTGGCCGTGTGT
32534984 TCCCTACACC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 22 0.88
29 3 0.12
ACGTcount: A:0.11, C:0.23, G:0.38, T:0.29
Consensus pattern (28 bp):
CACACGGGCGTGTGATCTGGCCGTGTGT
Found at i:32552840 original size:20 final size:20
Alignment explanation
Indices: 32552815--32552855 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
32552805 TTGATGCTCA
*
32552815 AAGTAAGCTACTAGTGAATT
1 AAGTAAGCCACTAGTGAATT
*
32552835 AAGTAAGCCACTTGTGAATT
1 AAGTAAGCCACTAGTGAATT
32552855 A
1 A
32552856 TGTTGAGGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (20 bp):
AAGTAAGCCACTAGTGAATT
Found at i:32560486 original size:50 final size:50
Alignment explanation
Indices: 32560411--32560510 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
32560401 AAGGCTTTGT
*
32560411 ATGTAACCAATCCCAACTTGAATAGCTGTATTAATCACTTTGTAACAGCC
1 ATGTAACCAATCCCAACTTGAATAGCTGCATTAATCACTTTGTAACAGCC
32560461 ATGTAACCAATCCCAACTTGAATAGCTGCATTAATCACTTTGTAACAGCC
1 ATGTAACCAATCCCAACTTGAATAGCTGCATTAATCACTTTGTAACAGCC
32560511 CTTGTACATA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (50 bp):
ATGTAACCAATCCCAACTTGAATAGCTGCATTAATCACTTTGTAACAGCC
Found at i:32561711 original size:27 final size:26
Alignment explanation
Indices: 32561680--32561755 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 26
32561670 AATCTCATAT
* *
32561680 CTGTAGGCTAGTATTACTGAATTGCCC
1 CTGTAGG-TAGAATTACTGAAATGCCC
32561707 CTGTATGGTAGAATTACTGAAATGCCC
1 CTGTA-GGTAGAATTACTGAAATGCCC
*
32561734 TTGTAGAGTAGAATTACT-AAAT
1 CTGTAG-GTAGAATTACTGAAAT
32561756 ACCCTTGGTT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
26 5 0.11
27 37 0.84
28 2 0.05
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (26 bp):
CTGTAGGTAGAATTACTGAAATGCCC
Found at i:32561755 original size:26 final size:27
Alignment explanation
Indices: 32561692--32561762 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
32561682 GTAGGCTAGT
* *
32561692 ATTACTGAATTGCCCCTGTATGGTAGA
1 ATTACTGAAATGCCCTTGTATGGTAGA
32561719 ATTACTGAAATGCCCTTGTA-GAGTAGA
1 ATTACTGAAATGCCCTTGTATG-GTAGA
*
32561746 ATTACT-AAATACCCTTG
1 ATTACTGAAATGCCCTTG
32561763 GTTTACAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 11 0.28
27 29 0.73
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (27 bp):
ATTACTGAAATGCCCTTGTATGGTAGA
Found at i:32561817 original size:54 final size:54
Alignment explanation
Indices: 32561752--32561975 Score: 225
Period size: 54 Copynumber: 4.1 Consensus size: 54
32561742 TAGAATTACT
** * **
32561752 AAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCA
1 AAATACCCTTGGTTTGTAAAATTACCGAAATACCCCTAATTTGTAAAATTACCA
* * * ** * *
32561806 AAATACCCTTGGTTTGTGAAATTATCGAAATACCCCCAACCTATAAAATTACCG
1 AAATACCCTTGGTTTGTAAAATTACCGAAATACCCCTAATTTGTAAAATTACCA
* * *
32561860 AAATACCCTCGATTTGTAAAATTACCGAAATACCCTTAATTTGTAAAATTACCA
1 AAATACCCTTGGTTTGTAAAATTACCGAAATACCCCTAATTTGTAAAATTACCA
* ** * * * * *
32561914 AAATACCCCTAATTTGGAAAATTATCGAAATACCCTTAAATTGGAAAATTA-CA
1 AAATACCCTTGGTTTGTAAAATTACCGAAATACCCCTAATTTGTAAAATTACCA
32561967 GAAATACCC
1 -AAATACCC
32561976 CTAATTTACA
Statistics
Matches: 140, Mismatches: 29, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
53 2 0.01
54 138 0.99
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (54 bp):
AAATACCCTTGGTTTGTAAAATTACCGAAATACCCCTAATTTGTAAAATTACCA
Found at i:32561935 original size:81 final size:81
Alignment explanation
Indices: 32561769--32561991 Score: 232
Period size: 81 Copynumber: 2.8 Consensus size: 81
32561759 CTTGGTTTAC
* * * ** * * *
32561769 AAAATTACCAAAATACCC-CTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTGAAATTATCG
1 AAAATTACCGAAATACCCTC-GATTTGTAAAATTACCGAAATACCCTTAATTTGTAAAATTACCA
*
32561833 AAATACCCCCAACCTAT
65 AAATACCCCCAACCTAG
32561850 AAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTAATTTGTAAAATTACCAA
1 AAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTAATTTGTAAAATTACCAA
* ** *
32561915 AATACCCCTAATTTGG
66 AATACCCCCAACCTAG
* ** * * * * **
32561931 AAAATTATCGAAATACCCTTAAATTGGAAAATTACAGAAATACCCCTAATTTACAAAATTA
1 AAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTAATTTGTAAAATTA
32561992 TAGAAATACC
Statistics
Matches: 119, Mismatches: 22, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
81 118 0.99
82 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
AAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTAATTTGTAAAATTACCAA
AATACCCCCAACCTAG
Found at i:32561996 original size:27 final size:27
Alignment explanation
Indices: 32561769--32562002 Score: 183
Period size: 27 Copynumber: 8.7 Consensus size: 27
32561759 CTTGGTTTAC
**
32561769 AAAATTACCA-AAATACCCCTGGTTTGT
1 AAAATTA-CAGAAATACCCCTAATTTGT
* **
32561796 AAAATTACCA-AAATACCCTTGGTTTGT
1 AAAATTA-CAGAAATACCCCTAATTTGT
* * ** *
32561823 GAAATTATC-GAAATACCCCCAACCTAT
1 AAAATTA-CAGAAATACCCCTAATTTGT
* *
32561850 AAAATTACCGAAATA-CCCTCGATTTGT
1 AAAATTACAGAAATACCCCT-AATTTGT
* *
32561877 AAAATTACCGAAATACCCTTAATTTGT
1 AAAATTACAGAAATACCCCTAATTTGT
*
32561904 AAAATTACCA-AAATACCCCTAATTTGG
1 AAAATTA-CAGAAATACCCCTAATTTGT
* * *
32561931 AAAATTATC-GAAATACCCTTAAATTGG
1 AAAATTA-CAGAAATACCCCTAATTTGT
**
32561958 AAAATTACAGAAATACCCCTAATTTAC
1 AAAATTACAGAAATACCCCTAATTTGT
*
32561985 AAAATTATAGAAATACCC
1 AAAATTACAGAAATACCC
32562003 TTGACTTTCA
Statistics
Matches: 171, Mismatches: 29, Indels: 14
0.80 0.14 0.07
Matches are distributed among these distances:
26 5 0.03
27 162 0.95
28 4 0.02
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (27 bp):
AAAATTACAGAAATACCCCTAATTTGT
Found at i:32562062 original size:27 final size:27
Alignment explanation
Indices: 32561745--32562066 Score: 165
Period size: 27 Copynumber: 11.9 Consensus size: 27
32561735 TGTAGAGTAG
*
32561745 AATTACT-AAATACCCTTGGTTT-ACAA
1 AATTACTGAAATACCCTTGATTTGA-AA
** * * *
32561771 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACTGAAATACCCTTGATTTGAAA
** * **
32561798 AATTACCAAAATACCCTTGGTTTGTGA
1 AATTACTGAAATACCCTTGATTTGAAA
*** **
32561825 AATTA-TCGAAATACCCCCAACCT-ATAA
1 AATTACT-GAAATACCCTTGATTTGA-AA
* * *
32561852 AATTACCGAAATACCCTCGATTTGTAA
1 AATTACTGAAATACCCTTGATTTGAAA
* * *
32561879 AATTACCGAAATACCCTTAATTTGTAA
1 AATTACTGAAATACCCTTGATTTGAAA
** * * *
32561906 AATTACCAAAATACCCCTAATTTGGAA
1 AATTACTGAAATACCCTTGATTTGAAA
* * *
32561933 AATTA-TCGAAATACCCTTAAATTGGAA
1 AATTACT-GAAATACCCTTGATTTGAAA
* * *
32561960 AATTACAGAAATACCCCTAATTT-ACAA
1 AATTACTGAAATACCCTTGATTTGA-AA
*
32561987 AATTA-TAGAAATACCCTTGACTTTCAAAA
1 AATTACT-GAAATACCCTTGA-TTT-GAAA
* * *
32562016 AATTA-TAGATATACCATTGGTTTGAAA
1 AATTACT-GAAATACCCTTGATTTGAAA
*
32562043 AATTACTGAAATACCCTTGGTTTG
1 AATTACTGAAATACCCTTGATTTG
32562067 TAGATTTACT
Statistics
Matches: 239, Mismatches: 43, Indels: 27
0.77 0.14 0.09
Matches are distributed among these distances:
26 6 0.03
27 206 0.86
28 7 0.03
29 19 0.08
30 1 0.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGATTTGAAA
Found at i:32562140 original size:27 final size:28
Alignment explanation
Indices: 32562110--32562167 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
32562100 GACTAAAATA
32562110 CCCCTAGCA-GGTAAAAAGACCGTAA-TG
1 CCCCT-GCAGGGTAAAAAGACCGTAATTG
* **
32562137 CCCCTGTAGGGTAAAGTGACCGTAATTG
1 CCCCTGCAGGGTAAAAAGACCGTAATTG
32562165 CCC
1 CCC
32562168 TGTATGGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 2 0.08
27 19 0.73
28 5 0.19
ACGTcount: A:0.29, C:0.28, G:0.24, T:0.19
Consensus pattern (28 bp):
CCCCTGCAGGGTAAAAAGACCGTAATTG
Found at i:32562168 original size:27 final size:26
Alignment explanation
Indices: 32562127--32562182 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
32562117 CAGGTAAAAA
32562127 GACCGTAATGCCCCTGTAGGGTAAAGT
1 GACCGTAATGCCCCTGTAGGGTAAA-T
*
32562154 GACCGTAATTG-CCCTGTATGGTAAAT
1 GACCGTAA-TGCCCCTGTAGGGTAAAT
32562180 GAC
1 GAC
32562183 GATTATGCCC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 4 0.15
27 21 0.78
28 2 0.07
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (26 bp):
GACCGTAATGCCCCTGTAGGGTAAAT
Found at i:32562623 original size:28 final size:26
Alignment explanation
Indices: 32562570--32562628 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
32562560 ACTGCATTAT
*
32562570 TACTGCATTGGGCTAGGCCTGCACTG
1 TACTGCATAGGGCTAGGCCTGCACTG
*
32562596 CTACTGTATAGGGCTTAGGCCTAG-ACTG
1 -TACTGCATAGGGC-TAGGCCT-GCACTG
32562624 TACTG
1 TACTG
32562629 ATACTGAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 16 0.57
28 11 0.39
29 1 0.04
ACGTcount: A:0.19, C:0.24, G:0.29, T:0.29
Consensus pattern (26 bp):
TACTGCATAGGGCTAGGCCTGCACTG
Found at i:32562640 original size:33 final size:33
Alignment explanation
Indices: 32562592--32562667 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
32562582 CTAGGCCTGC
* * *
32562592 ACTGCTACTGTATAGGGCTTAGGCCTAGACTGT
1 ACTGATACTGAATAGGGCTTAGGCCCAGACTGT
* *
32562625 ACTGATACTGAATAGGGCTTTGGCCCAGAGTGT
1 ACTGATACTGAATAGGGCTTAGGCCCAGACTGT
32562658 ACTGATACTG
1 ACTGATACTG
32562668 TGTTATTCAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (33 bp):
ACTGATACTGAATAGGGCTTAGGCCCAGACTGT
Found at i:32562966 original size:17 final size:18
Alignment explanation
Indices: 32562926--32562975 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
32562916 ATTCTAGGAA
*
32562926 AACACGAGTTTTCAAAAT
1 AACACGAGTTTTCAAAAG
* *
32562944 AGCACGA-TTTTCTAAAG
1 AACACGAGTTTTCAAAAG
*
32562961 AACACGAGCTTTCAA
1 AACACGAGTTTTCAA
32562976 CAACAAAGTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (18 bp):
AACACGAGTTTTCAAAAG
Found at i:32565225 original size:35 final size:35
Alignment explanation
Indices: 32565159--32565244 Score: 86
Period size: 36 Copynumber: 2.4 Consensus size: 35
32565149 CTCACTCTCC
*
32565159 TTTTCAATTTTC-TTTTCTTTCTTACAATCTTTCACT
1 TTTTC-ATTTTCATTTTCTTTCATAC-ATCTTTCACT
**
32565195 TTTTCATTTTCATTTTCTTTCATATC-TCTTTTTCT
1 TTTTCATTTTCATTTTCTTTCATA-CATCTTTCACT
*
32565230 TCTTTCAATTTCATT
1 T-TTTCATTTTCATT
32565245 ATTAGATGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
35 14 0.33
36 28 0.65
37 1 0.02
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.64
Consensus pattern (35 bp):
TTTTCATTTTCATTTTCTTTCATACATCTTTCACT
Found at i:32569661 original size:9 final size:9
Alignment explanation
Indices: 32569634--32569670 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
32569624 ACCTACAAAC
32569634 AAACACATT
1 AAACACATT
*
32569643 AAAACTCATT
1 -AAACACATT
32569653 AAACACATT
1 AAACACATT
32569662 AAACACATT
1 AAACACATT
32569671 TAGACACATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.54, C:0.22, G:0.00, T:0.24
Consensus pattern (9 bp):
AAACACATT
Found at i:32569679 original size:19 final size:19
Alignment explanation
Indices: 32569634--32569670 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
32569624 ACCTACAAAC
*
32569634 AAACACATTAAAACTCATT
1 AAACACATTAAAACACATT
32569653 AAACACATT-AAACACATT
1 AAACACATTAAAACACATT
32569671 TAGACACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.54, C:0.22, G:0.00, T:0.24
Consensus pattern (19 bp):
AAACACATTAAAACACATT
Found at i:32569801 original size:19 final size:19
Alignment explanation
Indices: 32569777--32569815 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
32569767 TTATTCCAAC
32569777 AACTTAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
32569796 AACTTAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
32569815 A
1 A
32569816 GTAATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (19 bp):
AACTTAATTAACTAAGATG
Found at i:32594890 original size:28 final size:28
Alignment explanation
Indices: 32594828--32594924 Score: 142
Period size: 28 Copynumber: 3.5 Consensus size: 28
32594818 TATTAAGTCT
*
32594828 GCACACTCAGTGCTATATAATC-AACTC
1 GCACACTTAGTGCTATATAATCAAACTC
32594855 GCACACTTAGTGCTATATAATCAAACTC
1 GCACACTTAGTGCTATATAATCAAACTC
* * *
32594883 GCACACTTAGTGCTGTACAATTTAAACTC
1 GCACACTTAGTGCTATATAA-TCAAACTC
32594912 GCACACTTAGTGC
1 GCACACTTAGTGC
32594925 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 21 0.33
28 23 0.36
29 20 0.31
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (28 bp):
GCACACTTAGTGCTATATAATCAAACTC
Found at i:32606946 original size:27 final size:27
Alignment explanation
Indices: 32606916--32607093 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
32606906 ATATTGAGTC
* * * *
32606916 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
32606943 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
32606970 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
32606998 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
32607025 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
32607052 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
32607079 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
32607094 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:32607055 original size:82 final size:81
Alignment explanation
Indices: 32606937--32607092 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
32606927 TGCTATATAA
* *
32606937 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
32607002 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
32607019 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
32607083 CACTTAGTGC
65 CACTTAGTGC
32607093 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:32612898 original size:26 final size:25
Alignment explanation
Indices: 32612852--32612901 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
32612842 ATAATATTAA
*
32612852 AGAGAATATTTTTCATAATTAATTT
1 AGAGAATAATTTTCATAATTAATTT
* *
32612877 AGAGAATAAATTTTGATTATTAATT
1 AGAGAAT-AATTTTCATAATTAATT
32612902 AATTAAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (25 bp):
AGAGAATAATTTTCATAATTAATTT
Found at i:32613936 original size:15 final size:15
Alignment explanation
Indices: 32613916--32613945 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
32613906 ATCAAATTAA
32613916 ATTTATCAATATAAT
1 ATTTATCAATATAAT
32613931 ATTTATCAATATAAT
1 ATTTATCAATATAAT
32613946 TGTAATTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTTATCAATATAAT
Found at i:32616600 original size:422 final size:422
Alignment explanation
Indices: 32615816--32616663 Score: 1615
Period size: 422 Copynumber: 2.0 Consensus size: 422
32615806 TGGAACTAAA
*
32615816 TATATATTTTTTACACCTGCAACATGATACTACTGTTAACAAATAGATAATTTTAAGCTTATTTT
1 TATATATATTTTACACCTGCAACATGATACTACTGTTAACAAATAGATAATTTTAAGCTTATTTT
32615881 TGAGGATGCAGAATTGCTAGAGAGGGAAGAACATAGACAGTCTAAGGCACAAAATACAGTTCCAG
66 TGAGGATGCAGAATTGCTAGAGAGGGAAGAACATAGACAGTCTAAGGCACAAAATACAGTTCCAG
* * *
32615946 GATGGGGGACAATTAACTTTGAGGTATGTACAAGGAATGCTGCAAACATAATAACCAAATAACAG
131 GATGGGGGACAATTAACTTTGAGATATGTACAAGGAATGCAGCAAACACAATAACCAAATAACAG
32616011 AATCTATAATTAACTCCTTGGGCTTTTTCTGGATATATCATAGGCTCTGAATTTACAACACGGAT
196 AATCTATAATTAACTCCTTGGGCTTTTTCTGGATATATCATAGGCTCTGAATTTACAACACGGAT
32616076 ACCACTAATAATATGTTCAACTCAATGTAACATGAAGTCCATCCAAACAATAAATAAAACAATAC
261 ACCACTAATAATATGTTCAACTCAATGTAACATGAAGTCCATCCAAACAATAAATAAAACAATAC
32616141 TTAGGGGACTATACCTCTTGTTGAAATTCCGATGGACCTTGCAAGCTATTAGAATGCAACATCTT
326 TTAGGGGACTATACCTCTTGTTGAAATTCCGATGGACCTTGCAAGCTATTAGAATGCAACATCTT
32616206 TATAGCCACAGTGGTATGACACAGATTACCTT
391 TATAGCCACAGTGGTATGACACAGATTACCTT
*
32616238 TATATATATTTTACACGTGCAACATGATACTACTGTTAACAAATAGATAATTTTAAGCTTATTTT
1 TATATATATTTTACACCTGCAACATGATACTACTGTTAACAAATAGATAATTTTAAGCTTATTTT
*
32616303 TGAGGATGCAGAATTGCTAGAGAGGGAAGAACATAGACAGTCTGAGGCACAAAATACAGTTCCAG
66 TGAGGATGCAGAATTGCTAGAGAGGGAAGAACATAGACAGTCTAAGGCACAAAATACAGTTCCAG
32616368 GATGGGGGACAATTAACTTTGAGATATGTACAAGGAATGCAGCAAACACAATAACCAAATAACAG
131 GATGGGGGACAATTAACTTTGAGATATGTACAAGGAATGCAGCAAACACAATAACCAAATAACAG
**
32616433 AATCTATAATTAACTCCTTGGGCTTTTTCTGGATATATCATAGGCTCTGAATTTATGACACGGAT
196 AATCTATAATTAACTCCTTGGGCTTTTTCTGGATATATCATAGGCTCTGAATTTACAACACGGAT
32616498 ACCACTAATAATATGTTCAACTCAATGTAACATGAAGTCCATCCAAACAATAAATAAAACAATAC
261 ACCACTAATAATATGTTCAACTCAATGTAACATGAAGTCCATCCAAACAATAAATAAAACAATAC
32616563 TTAGGGGACTATACCTCTTGTTGAAATTCCGATGGACCTTGCAAGCTATTAGAATGCAACATCTT
326 TTAGGGGACTATACCTCTTGTTGAAATTCCGATGGACCTTGCAAGCTATTAGAATGCAACATCTT
*
32616628 TATAGCCACAGTGGTATGACGCAGATTACCTT
391 TATAGCCACAGTGGTATGACACAGATTACCTT
32616660 TATA
1 TATA
32616664 AATACTCCCA
Statistics
Matches: 417, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
422 417 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (422 bp):
TATATATATTTTACACCTGCAACATGATACTACTGTTAACAAATAGATAATTTTAAGCTTATTTT
TGAGGATGCAGAATTGCTAGAGAGGGAAGAACATAGACAGTCTAAGGCACAAAATACAGTTCCAG
GATGGGGGACAATTAACTTTGAGATATGTACAAGGAATGCAGCAAACACAATAACCAAATAACAG
AATCTATAATTAACTCCTTGGGCTTTTTCTGGATATATCATAGGCTCTGAATTTACAACACGGAT
ACCACTAATAATATGTTCAACTCAATGTAACATGAAGTCCATCCAAACAATAAATAAAACAATAC
TTAGGGGACTATACCTCTTGTTGAAATTCCGATGGACCTTGCAAGCTATTAGAATGCAACATCTT
TATAGCCACAGTGGTATGACACAGATTACCTT
Found at i:32632487 original size:40 final size:40
Alignment explanation
Indices: 32632389--32632651 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
32632379 TCCTCGTTCA
* * * * *
32632389 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
32632428 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
32632468 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
32632508 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
32632548 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
32632588 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
32632628 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
32632652 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:32640429 original size:40 final size:40
Alignment explanation
Indices: 32640331--32640553 Score: 317
Period size: 40 Copynumber: 5.6 Consensus size: 40
32640321 TCCTCGTTCA
* * * * *
32640331 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
32640370 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
32640410 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
32640450 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
32640490 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
32640529 AAAGCCTTC-GGATCTTAATCCGGAT
1 AATGCCTTCGGGA-CTTAACCCGGAT
32640554 ATATTCACTT
Statistics
Matches: 171, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
38 3 0.02
39 53 0.31
40 115 0.67
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:32640600 original size:40 final size:40
Alignment explanation
Indices: 32640525--32640600 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
32640515 TTAGTATCTC
* * *
32640525 GCACAAAGCCTTCGGATCTTAATCCGGATATATTCACTTA
1 GCACAAAGCCTTCGGATCTTAACCCGGACACATTCACTTA
*
32640565 GCACAAAGCCTTCGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGCCTTCGGATCTTAACCCGGACA-CATTCA
32640601 ATTAATCATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 10 0.32
40 21 0.68
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (40 bp):
GCACAAAGCCTTCGGATCTTAACCCGGACACATTCACTTA
Found at i:32646060 original size:28 final size:28
Alignment explanation
Indices: 32646020--32646078 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
32646010 TACTAGTGTA
32646020 ATTGCATTGATTGATCCTAGTTCGACTC
1 ATTGCATTGATTGATCCTAGTTCGACTC
*
32646048 ATTGCATTGATTGATCCTGGTTCGACTC
1 ATTGCATTGATTGATCCTAGTTCGACTC
32646076 ATT
1 ATT
32646079 CTTATGTGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (28 bp):
ATTGCATTGATTGATCCTAGTTCGACTC
Found at i:32658774 original size:19 final size:20
Alignment explanation
Indices: 32658742--32658784 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
32658732 GATTCAATTT
*
32658742 CAGATTTAGATTTAAATA-G
1 CAGATTCAGATTTAAATATG
* *
32658761 CAGATTCAGTTTTAGATATG
1 CAGATTCAGATTTAAATATG
32658781 CAGA
1 CAGA
32658785 ATCCTACCCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (20 bp):
CAGATTCAGATTTAAATATG
Found at i:32659284 original size:21 final size:21
Alignment explanation
Indices: 32659254--32659302 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
32659244 CCCGTGTGGC
* *
32659254 CCACATGGCCTGGCCTAGAAT
1 CCACACGGCCTGGCCCAGAAT
32659275 CCACACGGCCTGGCCCAGAAT
1 CCACACGGCCTGGCCCAGAAT
32659296 CCACACG
1 CCACACG
32659303 CCCGTGTGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.24, C:0.41, G:0.22, T:0.12
Consensus pattern (21 bp):
CCACACGGCCTGGCCCAGAAT
Found at i:32674143 original size:16 final size:18
Alignment explanation
Indices: 32674116--32674148 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
32674106 TATAATTGAG
32674116 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
32674133 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
32674149 TTTAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:32676327 original size:17 final size:17
Alignment explanation
Indices: 32676279--32676327 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
32676269 AATTTAATTC
*
32676279 ATTTGTTTATTTCTTGTT
1 ATTTATTTATTT-TTGTT
**
32676297 ATTTATTTCCTTTTGTT
1 ATTTATTTATTTTTGTT
32676314 ATTTATTTATTTTT
1 ATTTATTTATTTTT
32676328 ATTCCTCTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 17 0.65
18 9 0.35
ACGTcount: A:0.14, C:0.06, G:0.06, T:0.73
Consensus pattern (17 bp):
ATTTATTTATTTTTGTT
Found at i:32676698 original size:14 final size:14
Alignment explanation
Indices: 32676679--32676711 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
32676669 CTAGAGATAC
32676679 GATTTTTAATTTTT
1 GATTTTTAATTTTT
32676693 GATTTTTAATTTTT
1 GATTTTTAATTTTT
32676707 -ATTTT
1 GATTTT
32676712 CTTTCATGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (14 bp):
GATTTTTAATTTTT
Found at i:32679862 original size:75 final size:75
Alignment explanation
Indices: 32679758--32679933 Score: 212
Period size: 75 Copynumber: 2.3 Consensus size: 75
32679748 TGCTTTACAA
* * * *
32679758 GCTTTCCAAATAACTCACCACAAAGGCTTCCCAAACAATATACCACATAGGCT-CTTCAGATAAT
1 GCTTTACAGATAACTCACCACAAAGGCTTCCAAAACAATACACCACATAGGCTCCTT-AGATAAT
*
32679822 TCACTAAAAAG
65 TCACCAAAAAG
* * *
32679833 G-TATTACAGATAATTCACCACAAAGGCTTCCAAAACAATACGCCACATATGCTCCTTAGATAAT
1 GCT-TTACAGATAACTCACCACAAAGGCTTCCAAAACAATACACCACATAGGCTCCTTAGATAAT
*
32679897 TCACCACAAAG
65 TCACCAAAAAG
* * *
32679908 GCTTTACAGATATCTCGCCATAAAGG
1 GCTTTACAGATAACTCACCACAAAGG
32679934 TTTGGTTTGG
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
74 1 0.01
75 80 0.94
76 4 0.05
ACGTcount: A:0.39, C:0.27, G:0.11, T:0.23
Consensus pattern (75 bp):
GCTTTACAGATAACTCACCACAAAGGCTTCCAAAACAATACACCACATAGGCTCCTTAGATAATT
CACCAAAAAG
Found at i:32679918 original size:25 final size:25
Alignment explanation
Indices: 32679758--32679919 Score: 84
Period size: 25 Copynumber: 6.5 Consensus size: 25
32679748 TGCTTTACAA
* *
32679758 GCTTTCCAAATAACTCACCACAAAG
1 GCTTTCCAGATAATTCACCACAAAG
* * * *
32679783 GCTTCCCAAACAATAT-ACCACATAG
1 GCTTTCCAGATAAT-TCACCACAAAG
* *
32679808 GCTCTT-CAGATAATTCACTAAAAAG
1 GCT-TTCCAGATAATTCACCACAAAG
*
32679833 G-TATTACAGATAATTCACCACAAAG
1 GCT-TTCCAGATAATTCACCACAAAG
* * * * * *
32679858 GC-TTCCAAAACAATACGCCACATAT
1 GCTTTCC-AGATAATTCACCACAAAG
32679883 GC--TCCTTAGATAATTCACCACAAAG
1 GCTTTCC--AGATAATTCACCACAAAG
*
32679908 GCTTTACAGATA
1 GCTTTCCAGATA
32679920 TCTCGCCATA
Statistics
Matches: 100, Mismatches: 28, Indels: 18
0.68 0.19 0.12
Matches are distributed among these distances:
24 10 0.10
25 86 0.86
26 2 0.02
27 2 0.02
ACGTcount: A:0.40, C:0.27, G:0.10, T:0.23
Consensus pattern (25 bp):
GCTTTCCAGATAATTCACCACAAAG
Found at i:32697608 original size:35 final size:35
Alignment explanation
Indices: 32697557--32697627 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
32697547 ATCTTGATTA
* *
32697557 AAACCATCTTTTTGAAATCGGGCTTTGAAATTTTT
1 AAACCATCTGTCTGAAATCGGGCTTTGAAATTTTT
* *
32697592 AAACCATCTGTCTGAAATCGTGCTTTGGAATTTTT
1 AAACCATCTGTCTGAAATCGGGCTTTGAAATTTTT
32697627 A
1 A
32697628 CTTTTATTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.41
Consensus pattern (35 bp):
AAACCATCTGTCTGAAATCGGGCTTTGAAATTTTT
Found at i:32705410 original size:137 final size:137
Alignment explanation
Indices: 32705147--32705416 Score: 497
Period size: 137 Copynumber: 2.0 Consensus size: 137
32705137 CATAAATGCC
*
32705147 TATGTTTTAATTCAAGATATATCAATAAATATTATAGACTAATTGGAATTCATTCTAATAATGAT
1 TATGTTTTAATTCAAGATATATCAATAAATATTATAGACTAATTGGAATTCATTCTAACAATGAT
* * *
32705212 ATGATAAGATCGCATGAGAATAAAACAAAATTTAGGGATTTTTTCTGATATAAAAGACCCCCCAC
66 ATGAGAAGATCGCATGAGAACAAAACAAAATTCAGGGATTTTTTCTGATATAAAAGACCCCCCAC
32705277 ACTTGAG
131 ACTTGAG
32705284 TATGTTTTAATTCAAGATATATCAATAAATATTATAGACTAATTGGAATTCATTCTAACAATGAT
1 TATGTTTTAATTCAAGATATATCAATAAATATTATAGACTAATTGGAATTCATTCTAACAATGAT
32705349 ATGAGAAGATCGCATGAGAACAAAACAAAATTCAGGGA-TTTTTCTGATATAAAAGACCCCCCAC
66 ATGAGAAGATCGCATGAGAACAAAACAAAATTCAGGGATTTTTTCTGATATAAAAGACCCCCCAC
32705413 ACTT
131 ACTT
32705417 AAGATGTACA
Statistics
Matches: 129, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 30 0.23
137 99 0.77
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (137 bp):
TATGTTTTAATTCAAGATATATCAATAAATATTATAGACTAATTGGAATTCATTCTAACAATGAT
ATGAGAAGATCGCATGAGAACAAAACAAAATTCAGGGATTTTTTCTGATATAAAAGACCCCCCAC
ACTTGAG
Found at i:32712036 original size:36 final size:36
Alignment explanation
Indices: 32711995--32712067 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
32711985 TGGCACAGTT
* *
32711995 TTGAACATGCCTTTGAGTTTGTCTTGAAATAGTTTC
1 TTGAACATGCCCTTGAGTATGTCTTGAAATAGTTTC
32712031 TTGAACATGCCCTTGAGTATGTCTTGAAATAGTTTC
1 TTGAACATGCCCTTGAGTATGTCTTGAAATAGTTTC
32712067 T
1 T
32712068 AACGTGTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.42
Consensus pattern (36 bp):
TTGAACATGCCCTTGAGTATGTCTTGAAATAGTTTC
Found at i:32714869 original size:19 final size:20
Alignment explanation
Indices: 32714845--32714891 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
32714835 TATTAATTTA
*
32714845 TTTTCCTTTTCCTTTTC-C-T
1 TTTTCCTTTT-ATTTTCTCTT
32714864 TTTTCCTTTTATTTTCTCTT
1 TTTTCCTTTTATTTTCTCTT
32714884 TTTTCCTT
1 TTTTCCTT
32714892 CTTTTTTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 5 0.20
19 11 0.44
20 9 0.36
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTCCTTTTATTTTCTCTT
Found at i:32718357 original size:36 final size:36
Alignment explanation
Indices: 32718310--32718381 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
32718300 AACACATTAG
* *
32718310 AACTATTTCAAGATAGACTCAAAGGCATGTTCAAGA
1 AACTATTTCAAGACAAACTCAAAGGCATGTTCAAGA
32718346 AACTATTTCAAGACAAACTCAAAGGCATGTTCAAGA
1 AACTATTTCAAGACAAACTCAAAGGCATGTTCAAGA
32718382 CTGTGCCACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.24
Consensus pattern (36 bp):
AACTATTTCAAGACAAACTCAAAGGCATGTTCAAGA
Found at i:32723711 original size:46 final size:45
Alignment explanation
Indices: 32723655--32723830 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
32723645 TGGTTGAGCA
* *
32723655 TCCGAACTCGTTGAGTTGAGTCTGAGTTCAGTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
32723701 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
32723748 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
32723794 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
32723831 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.61
47 33 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:32723811 original size:93 final size:93
Alignment explanation
Indices: 32723652--32723822 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
32723642 GGATGGTTGA
* * * *
32723652 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCAGTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
32723717 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
32723745 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
32723810 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
32723823 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:32732736 original size:7 final size:7
Alignment explanation
Indices: 32732720--32732760 Score: 66
Period size: 7 Copynumber: 5.9 Consensus size: 7
32732710 AACCTTAAAA
32732720 TTTTATT
1 TTTTATT
32732727 TTTT-TAT
1 TTTTAT-T
32732734 TTTTATT
1 TTTTATT
32732741 TTTTATT
1 TTTTATT
32732748 TTTTATT
1 TTTTATT
32732755 TTTTAT
1 TTTTAT
32732761 AAATTCAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 1 0.03
7 30 0.94
8 1 0.03
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:32734358 original size:34 final size:34
Alignment explanation
Indices: 32734299--32734522 Score: 149
Period size: 34 Copynumber: 6.7 Consensus size: 34
32734289 AATAGAAATT
32734299 AATACGGTAGCAA-TAACATGCTTATAACGAG-TC
1 AATACGGTAGCAATTAACATGCTTATAA-GAGATC
* * *
32734332 AATTCGGTAGCAATTATCATGCTTATAATAGATC
1 AATACGGTAGCAATTAACATGCTTATAAGAGATC
* * * *
32734366 AATACGGTAGCAA-TAAAATGCTTAAAACAAATC
1 AATACGGTAGCAATTAACATGCTTATAAGAGATC
* * ** * *
32734399 GATA-GAGTAGCATTTGTCATGCTTATAATAGATT
1 AATACG-GTAGCAATTAACATGCTTATAAGAGATC
* *
32734433 AGTACGGT-G-AA-TAACATGCTTATAACA-AGTC
1 AATACGGTAGCAATTAACATGCTTATAAGAGA-TC
* * ** * * *
32734464 GATACAGTAGCGTTTATCATGTTTATAATAGATC
1 AATACGGTAGCAATTAACATGCTTATAAGAGATC
* *
32734498 AATACAGTAGCAATAAACATGCTTA
1 AATACGGTAGCAATTAACATGCTTA
32734523 GCATGTATTT
Statistics
Matches: 142, Mismatches: 39, Indels: 19
0.71 0.19 0.09
Matches are distributed among these distances:
30 1 0.01
31 19 0.13
32 3 0.02
33 39 0.27
34 78 0.55
35 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (34 bp):
AATACGGTAGCAATTAACATGCTTATAAGAGATC
Found at i:32734474 original size:65 final size:67
Alignment explanation
Indices: 32734296--32734522 Score: 287
Period size: 67 Copynumber: 3.4 Consensus size: 67
32734286 CTTAATAGAA
* * * * *
32734296 ATTAATACGGTAGCAATAACATGCTTATAACGAGTCAATTCGGTAGCAATTATCATGCTTATAAT
1 ATTAATACGGTAGCAATAACATGCTTATAACAAGTCGATACAGTAGCATTTATCATGCTTATAAT
32734361 AG
66 AG
* * * * * *
32734363 ATCAATACGGTAGCAATAAAATGCTTAAAACAAATCGATAGAGTAGCATTTGTCATGCTTATAAT
1 ATTAATACGGTAGCAATAACATGCTTATAACAAGTCGATACAGTAGCATTTATCATGCTTATAAT
32734428 AG
66 AG
* * *
32734430 ATTAGTACGGT-G-AATAACATGCTTATAACAAGTCGATACAGTAGCGTTTATCATGTTTATAAT
1 ATTAATACGGTAGCAATAACATGCTTATAACAAGTCGATACAGTAGCATTTATCATGCTTATAAT
32734493 AG
66 AG
* *
32734495 ATCAATACAGTAGCAATAAACATGCTTA
1 ATTAATACGGTAGCAAT-AACATGCTTA
32734523 GCATGTATTT
Statistics
Matches: 134, Mismatches: 23, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
65 54 0.40
66 2 0.01
67 68 0.51
68 10 0.07
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (67 bp):
ATTAATACGGTAGCAATAACATGCTTATAACAAGTCGATACAGTAGCATTTATCATGCTTATAAT
AG
Found at i:32736380 original size:3 final size:3
Alignment explanation
Indices: 32736372--32736403 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
32736362 AGTATTCTCC
32736372 TAT TAT TAT TAT TAT TAT TAT TAT TAAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT T
32736404 TATGTGTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:32740646 original size:21 final size:21
Alignment explanation
Indices: 32740620--32740665 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
32740610 AATTGATAAC
32740620 GCATGTGATTATTTTGTAGAT
1 GCATGTGATTATTTTGTAGAT
32740641 GCATGTGATTATTTTGTAGAT
1 GCATGTGATTATTTTGTAGAT
32740662 GCAT
1 GCAT
32740666 CTACCAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.46
Consensus pattern (21 bp):
GCATGTGATTATTTTGTAGAT
Found at i:32745252 original size:17 final size:17
Alignment explanation
Indices: 32745230--32745266 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
32745220 TATTCAATTC
32745230 AATGATAGTAAATCAAG
1 AATGATAGTAAATCAAG
32745247 AATGATAGTAAATCAAG
1 AATGATAGTAAATCAAG
32745264 AAT
1 AAT
32745267 AAACAACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.54, C:0.05, G:0.16, T:0.24
Consensus pattern (17 bp):
AATGATAGTAAATCAAG
Found at i:32746877 original size:30 final size:30
Alignment explanation
Indices: 32746841--32746903 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
32746831 CATAAAAGTG
32746841 TATAAATGATACTAAACATAACTTATACCT
1 TATAAATGATACTAAACATAACTTATACCT
*
32746871 TATAAATGATACTAAACATAATTTATACCT
1 TATAAATGATACTAAACATAACTTATACCT
32746901 TAT
1 TAT
32746904 GAAAGAGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.46, C:0.14, G:0.03, T:0.37
Consensus pattern (30 bp):
TATAAATGATACTAAACATAACTTATACCT
Found at i:32747568 original size:21 final size:19
Alignment explanation
Indices: 32747535--32747573 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
32747525 TGAAAAATAT
32747535 TAAATATTTTTTAAATAAA
1 TAAATATTTTTTAAATAAA
32747554 TAAATATCATTTTTAAATAA
1 TAAATAT--TTTTTAAATAA
32747574 TATTGTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
21 11 0.61
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
TAAATATTTTTTAAATAAA
Found at i:32755124 original size:50 final size:50
Alignment explanation
Indices: 32755049--32755217 Score: 250
Period size: 50 Copynumber: 3.4 Consensus size: 50
32755039 CCATGGCAAT
*
32755049 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGA
*
32755099 AAGTGATAAGT-AGTAGCTTCAGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGA-TAGCTTCAGCTACACTTATCTGATCAAGGACAAATGA
* * *
32755149 AAGTGATAAGTGATAGCTTCTGCTACACCTATCTGATCAGGGACAAATGA
1 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGA
* *
32755199 CAAGTGAAAAGTGGTAGCT
1 -AAGTGATAAGTGATAGCT
32755218 CCGGCTACCT
Statistics
Matches: 108, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
49 1 0.01
50 90 0.83
51 17 0.16
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGA
Found at i:32755239 original size:31 final size:31
Alignment explanation
Indices: 32755201--32755473 Score: 456
Period size: 31 Copynumber: 8.8 Consensus size: 31
32755191 ACAAATGACA
32755201 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
32755232 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
32755263 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
32755294 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
32755325 AATGAAAATTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
32755356 AGTGAAAAATGGTAGCTCCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
32755387 AGTGAAAATTGGTAGCTCCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
32755418 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
32755449 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTCCGGCTAC
32755474 AAGTGACAAG
Statistics
Matches: 230, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 230 1.00
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:32755561 original size:47 final size:46
Alignment explanation
Indices: 32755491--32755614 Score: 158
Period size: 47 Copynumber: 2.7 Consensus size: 46
32755481 AAGTGATTTC
* * * *
32755491 CGTATAAGACCATATTTGAGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATTTGGGATATGGCATCAGTGAGATATATGATA
*
32755537 CTGTATAAGACCATATTTGGGATATGGCATCAGTGAGATATATGATT
1 C-GTATAAGACCATATTTGGGATATGGCATCAGTGAGATATATGATA
* ** *
32755584 CGTGTAAGACCATAGCTGGGCTATGGCATCA
1 CGTATAAGACCATATTTGGGATATGGCATCA
32755615 ATATATGAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 27 0.40
47 41 0.60
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (46 bp):
CGTATAAGACCATATTTGGGATATGGCATCAGTGAGATATATGATA
Found at i:32755643 original size:42 final size:42
Alignment explanation
Indices: 32755585--32755697 Score: 163
Period size: 42 Copynumber: 2.7 Consensus size: 42
32755575 TATATGATTC
*
32755585 GTGTAAGACCATAGCTGGGCTATGGCATCAATATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCAATATATGAAGAT
* *
32755627 GTGTAAGACCATAGCTGGGCTATGGCATCATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCAATATATGAAGAT
* * **
32755669 GTGTAATACCATAGTTGAACTATGGCATC
1 GTGTAAGACCATAGCTGGGCTATGGCATC
32755698 GAGAAAACAA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCAATATATGAAGAT
Found at i:32757915 original size:47 final size:47
Alignment explanation
Indices: 32757846--32757940 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
32757836 AATGTTAGCA
32757846 TAACTAATAGAATCTGTTAGTAGCTATTCTGTTAATAACAGATTGTC
1 TAACTAATAGAATCTGTTAGTAGCTATTCTGTTAATAACAGATTGTC
*
32757893 TAACTAATAGAATCTGTTAGTAGTTATTCTGTTAATAACAGATTGTC
1 TAACTAATAGAATCTGTTAGTAGCTATTCTGTTAATAACAGATTGTC
32757940 T
1 T
32757941 GTTAGTCGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.40
Consensus pattern (47 bp):
TAACTAATAGAATCTGTTAGTAGCTATTCTGTTAATAACAGATTGTC
Found at i:32763624 original size:28 final size:30
Alignment explanation
Indices: 32763584--32763643 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
32763574 AGCTAAGTAT
* *
32763584 TTATTTATATTAT-AAATTTTAAAAAA-AA
1 TTATGTATATTATAAAATTATAAAAAATAA
*
32763612 TTATGTATTTTATAAAATTATAAAAAATAA
1 TTATGTATATTATAAAATTATAAAAAATAA
32763642 TT
1 TT
32763644 TATATGTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 11 0.41
29 12 0.44
30 4 0.15
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (30 bp):
TTATGTATATTATAAAATTATAAAAAATAA
Done.