Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 96 of 297
Found at i:34649727 original size:24 final size:23
Alignment explanation
Indices: 34649700--34649744 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
34649690 AAAAGTAATT
* *
34649700 TAAAAAGATAAATAAATATAAAAG
1 TAAAAAAATAAA-AAAAATAAAAG
34649724 TAAAAAAATAAAAAAAATAAA
1 TAAAAAAATAAAAAAAATAAA
34649745 TAAAAGTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (23 bp):
TAAAAAAATAAAAAAAATAAAAG
Found at i:34649738 original size:16 final size:17
Alignment explanation
Indices: 34649701--34649749 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
34649691 AAAGTAATTT
*
34649701 AAAAAGATAAATAAATA
1 AAAAAGATAAAAAAATA
*
34649718 TAAAAG-TAAAAAAATA
1 AAAAAGATAAAAAAATA
*
34649734 AAAAAAATAAATAAAA
1 AAAAAGATAAA-AAAA
34649750 GTCTTCAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 13 0.50
17 9 0.35
18 4 0.15
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (17 bp):
AAAAAGATAAAAAAATA
Found at i:34651966 original size:55 final size:54
Alignment explanation
Indices: 34651882--34651986 Score: 165
Period size: 55 Copynumber: 1.9 Consensus size: 54
34651872 GTGCACGCCT
* *
34651882 GTGTTATTTTGACAGTTTTGACCACGGGTGGTGGGCATGGGTGTGTCGCACACCC
1 GTGTTATTTTGACAGTTTCGACCACGGGTGGTGGGCA-CGGTGTGTCGCACACCC
* *
34651937 GTGTTATTTTTACAGTTTCGACCATGGGTGGTGGGCACGGTGTGTCGCAC
1 GTGTTATTTTGACAGTTTCGACCACGGGTGGTGGGCACGGTGTGTCGCAC
34651987 GCTCATATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
54 12 0.26
55 34 0.74
ACGTcount: A:0.14, C:0.19, G:0.34, T:0.32
Consensus pattern (54 bp):
GTGTTATTTTGACAGTTTCGACCACGGGTGGTGGGCACGGTGTGTCGCACACCC
Found at i:34658704 original size:11 final size:11
Alignment explanation
Indices: 34658688--34658715 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
34658678 TGAAAATGCT
34658688 TGTCTCTTCGC
1 TGTCTCTTCGC
34658699 TGTCTCTTCGC
1 TGTCTCTTCGC
34658710 TGTCTC
1 TGTCTC
34658716 AATACTGCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.36, G:0.18, T:0.46
Consensus pattern (11 bp):
TGTCTCTTCGC
Found at i:34667793 original size:14 final size:13
Alignment explanation
Indices: 34667774--34667815 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
34667764 TTCACAATGA
34667774 TCAATTAATTTAAT
1 TCAATT-ATTTAAT
34667788 TCAATT-TTTGAACT
1 TCAATTATTT-AA-T
34667802 TCAATTATTTAAT
1 TCAATTATTTAAT
34667815 T
1 T
34667816 AAATAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
12 3 0.12
13 4 0.16
14 15 0.60
15 3 0.12
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (13 bp):
TCAATTATTTAAT
Found at i:34668954 original size:28 final size:28
Alignment explanation
Indices: 34668914--34668974 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
34668904 ATTGATGTAA
* *
34668914 TTAATGGATTTTTATTGAACCAATTTGT
1 TTAATGGATTTTTATTAAAACAATTTGT
34668942 TTAATGGATTTTTATTAAAACAATTTGT
1 TTAATGGATTTTTATTAAAACAATTTGT
34668970 TTAAT
1 TTAAT
34668975 ATTACACTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.05, G:0.11, T:0.51
Consensus pattern (28 bp):
TTAATGGATTTTTATTAAAACAATTTGT
Found at i:34672646 original size:24 final size:21
Alignment explanation
Indices: 34672604--34672646 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
34672594 AACATAGTCT
34672604 TCCAGAACTTCCTTCTCATCA
1 TCCAGAACTTCCTTCTCATCA
* *
34672625 TCCAGAAGTTCCTCCTCATCA
1 TCCAGAACTTCCTTCTCATCA
34672646 T
1 T
34672647 AAACGTAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.37, G:0.07, T:0.33
Consensus pattern (21 bp):
TCCAGAACTTCCTTCTCATCA
Found at i:34673769 original size:16 final size:16
Alignment explanation
Indices: 34673745--34673779 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
34673735 TACAAAAACA
* *
34673745 AAAGTAAAAGAGAAAG
1 AAAGAAAAAGAAAAAG
34673761 AAAGAAAAAGAAAAAG
1 AAAGAAAAAGAAAAAG
34673777 AAA
1 AAA
34673780 AGAACGTGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (16 bp):
AAAGAAAAAGAAAAAG
Found at i:34678317 original size:18 final size:18
Alignment explanation
Indices: 34678290--34678329 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
34678280 GTTTTAGGCA
* *
34678290 AGGCCGTATGGGCCATAC
1 AGGCCATATGGGCCACAC
34678308 AGGCCATATGGGCCACAC
1 AGGCCATATGGGCCACAC
34678326 AGGC
1 AGGC
34678330 AAGGCCAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.25, C:0.30, G:0.33, T:0.12
Consensus pattern (18 bp):
AGGCCATATGGGCCACAC
Found at i:34684298 original size:23 final size:23
Alignment explanation
Indices: 34684269--34684317 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
34684259 ATTAAATCGA
*
34684269 TAAACATGTTTTA-TTAAATTAAT
1 TAAACATG-ATTAGTTAAATTAAT
*
34684292 TAAACATGATTAGTTAATTTAAT
1 TAAACATGATTAGTTAAATTAAT
34684315 TAA
1 TAA
34684318 GCCGTAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 3 0.13
23 20 0.87
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (23 bp):
TAAACATGATTAGTTAAATTAAT
Found at i:34686296 original size:91 final size:88
Alignment explanation
Indices: 34686141--34686403 Score: 276
Period size: 91 Copynumber: 2.9 Consensus size: 88
34686131 AAAGATTCTA
* * * *
34686141 GAGTGTTATCGGTGGGAAAGCTCTTATGAGCAATCTACCATGTTATTGGGGAAGAATATTTAGCC
1 GAGTGATATCGGTGAGAAAGCTCTTATGAGCAATCTAACATGTTATCGGGG-AGAATATTTAGCC
**
34686206 TACGGGTTTTGCGTTATATGCAGTT
65 TACGGGTTTTGCACTATATGC-GTT
*
34686231 GGAGTGATATCGGTGAGAAAGCTTTTATGAGCAATCTAACATGTTATCAGGGGAGAATATTTAGC
1 -GAGTGATATCGGTGAGAAAGCTCTTATGAGCAATCTAACATGTTATC-GGGGAGAATATTTAGC
* * *
34686296 CTACAGGCTTTGCACTATGTGCGTT
64 CTACGGGTTTTGCACTATATGCGTT
* * * * ** * * *
34686321 TAGCATGATATCAGTGTGAAAGCTCTTATGAGCAATATGGCGTGTTATCGAGGAAAAATATTTAG
1 GAG--TGATATCGGTGAGAAAGCTCTTATGAGCAATCTAACATGTTATCG-GGGAGAATATTTAG
*
34686386 CCTATGGG-TTTGCACTAT
63 CCTACGGGTTTTGCACTAT
34686404 GTGCATCTAG
Statistics
Matches: 146, Mismatches: 22, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
89 2 0.01
90 14 0.10
91 126 0.86
92 4 0.03
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (88 bp):
GAGTGATATCGGTGAGAAAGCTCTTATGAGCAATCTAACATGTTATCGGGGAGAATATTTAGCCT
ACGGGTTTTGCACTATATGCGTT
Found at i:34687537 original size:20 final size:18
Alignment explanation
Indices: 34687512--34687548 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 18
34687502 ATGCAAATGC
34687512 AACAATGCACACCAAACACG
1 AACAAT-CACA-CAAACACG
34687532 AACAATCACACAAACAC
1 AACAATCACACAAACAC
34687549 AGAAGGTCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 4 0.24
20 6 0.35
ACGTcount: A:0.54, C:0.35, G:0.05, T:0.05
Consensus pattern (18 bp):
AACAATCACACAAACACG
Found at i:34698228 original size:23 final size:23
Alignment explanation
Indices: 34698202--34698285 Score: 78
Period size: 23 Copynumber: 3.6 Consensus size: 23
34698192 ATGAACAATG
34698202 AGCTCTATTGAGCTAAAACGGTA
1 AGCTCTATTGAGCTAAAACGGTA
* *
34698225 AGCTCTATTGAGCTGAAACGTTA
1 AGCTCTATTGAGCTAAAACGGTA
* * * * **
34698248 AACTCCAATGAGTTGAAAATAGTA
1 AGCTCTATTGAGCT-AAAACGGTA
*
34698272 AGCTCTTTTGAGCT
1 AGCTCTATTGAGCT
34698286 GATATATCGG
Statistics
Matches: 45, Mismatches: 15, Indels: 1
0.74 0.25 0.02
Matches are distributed among these distances:
23 31 0.69
24 14 0.31
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (23 bp):
AGCTCTATTGAGCTAAAACGGTA
Found at i:34706193 original size:46 final size:46
Alignment explanation
Indices: 34706153--34706365 Score: 159
Period size: 46 Copynumber: 4.6 Consensus size: 46
34706143 ACATCTTTTA
* *
34706153 GCCGATGCATGTCCCAGGCATGTCTTACATTGGCTTACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACATTGGCTTACATCTCTAG
* * *
34706199 GCCGATGCATGTCCCAGACATGTCTTACATTAGCTCT-CATCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACATTGGCT-TACATCTCTAG
* * * *
34706245 GCCGATGCCATATCCCAGACATGGTCTTACACTGAC--ACATCT-TATA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACATTGGCTTACATCTCTA-G
* * * * * * * *
34706291 GCTGATGCATGTCCCAAAAATGTCTTATACTGG-TTCTCATAATGT-G
1 GCCGATGCATGTCCCAGACATGTCTTACATTGGCTT-ACAT-CTCTAG
* *
34706337 GTCGATGCATGTCCTAGACATGTCTTACA
1 GCCGATGCATGTCCCAGACATGTCTTACA
34706366 CTAGCACACA
Statistics
Matches: 132, Mismatches: 25, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
44 10 0.08
45 12 0.09
46 84 0.64
47 15 0.11
48 11 0.08
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACATTGGCTTACATCTCTAG
Found at i:34706314 original size:138 final size:139
Alignment explanation
Indices: 34706059--34706370 Score: 353
Period size: 138 Copynumber: 2.2 Consensus size: 139
34706049 TACGTCAAGT
* * * *
34706059 CGATGCCATGTCACAGACATGATCTTACACT-GACTCTCATATACCAGTGCCGATGCCATGTCCT
1 CGATG-CATGTCCCAGACATG-TCTTACACTAG-CTCTCATATA-CAATGCCGATGCCATATCCC
* * * *** *
34706123 AGATATGGTCTCACGCTGACACATCTTTTAGCCGATGCATGTCCCAGGCATGTCTTACATTGGCT
62 AGACATGGTCTCACACTGACACATCTTATAGCCGATGCATGTCCCAAAAATGTCTTACACTGG-T
*
34706188 T-ACAT-CTCGAGGC
126 TCACATAAT-GAGGC
* *
34706201 CGATGCATGTCCCAGACATGTCTTACATTAGCTCTCATCT-CAATGCCGATGCCATATCCCAGAC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATACAATGCCGATGCCATATCCCAGAC
* * * *
34706265 ATGGTCTTACACTGACACATCTTATAGCTGATGCATGTCCCAAAAATGTCTTATACTGGTTCTCA
66 ATGGTCTCACACTGACACATCTTATAGCCGATGCATGTCCCAAAAATGTCTTACACTGGTTCACA
* *
34706330 TAATGTGGT
131 TAATGAGGC
*
34706339 CGATGCATGTCCTAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
34706371 ACACAACTAA
Statistics
Matches: 145, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
137 2 0.01
138 106 0.73
139 1 0.01
140 16 0.11
141 15 0.10
142 5 0.03
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (139 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATACAATGCCGATGCCATATCCCAGAC
ATGGTCTCACACTGACACATCTTATAGCCGATGCATGTCCCAAAAATGTCTTACACTGGTTCACA
TAATGAGGC
Found at i:34716479 original size:111 final size:109
Alignment explanation
Indices: 34716340--34716541 Score: 291
Period size: 111 Copynumber: 1.8 Consensus size: 109
34716330 AACAAAAATG
* *
34716340 AAAAAAATTTGCTTGGGGAAATAGAAAAAGGGGAAGGCAAAAGGAAACAAAAAAGTGAG-AAAAA
1 AAAAAAATTTGCTTGGGGAAATAGAAAAAAGGGAAGACAAAAGGAAACAAAAAAGTGAGAAAAAA
34716404 AGAGAAAGGGAGACAGAGAGAGGGAAACATGAGAGAACGAAATTTA
66 AGAGAAA--GAGACAGAGAGAGGGAAACATGAGAGAACGAAATTTA
* * * *
34716450 AAAAGAAATTTGCTT-GGGAATTAGCAAAAAAGGGATGACAAAAGGAAATAAGAAAGTGAGAAAA
1 AAAA-AAATTTGCTTGGGGAAATAG-AAAAAAGGGAAGACAAAAGGAAACAAAAAAGTGAGAAAA
*
34716514 AAAGAGAAAGAGAGAGAGAGAGGGAAAC
64 AAAGAGAAAGAGACAGAGAGAGGGAAAC
34716542 TTGAAATTAA
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
110 30 0.37
111 40 0.49
112 12 0.15
ACGTcount: A:0.55, C:0.05, G:0.30, T:0.10
Consensus pattern (109 bp):
AAAAAAATTTGCTTGGGGAAATAGAAAAAAGGGAAGACAAAAGGAAACAAAAAAGTGAGAAAAAA
AGAGAAAGAGACAGAGAGAGGGAAACATGAGAGAACGAAATTTA
Found at i:34718321 original size:15 final size:15
Alignment explanation
Indices: 34718301--34718329 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
34718291 AAAATTCAAT
34718301 ACTTAATTTTTTAGG
1 ACTTAATTTTTTAGG
34718316 ACTTAATTTTTTAG
1 ACTTAATTTTTTAG
34718330 TTTATCAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.07, G:0.10, T:0.55
Consensus pattern (15 bp):
ACTTAATTTTTTAGG
Found at i:34727868 original size:16 final size:18
Alignment explanation
Indices: 34727842--34727875 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
34727832 TTAGTTAAAC
34727842 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
34727859 TAAA-TAATTTTCTCAAT
1 TAAATTAATTTTCTCAAT
34727876 CCAATTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:34735893 original size:43 final size:42
Alignment explanation
Indices: 34735844--34736012 Score: 162
Period size: 43 Copynumber: 4.0 Consensus size: 42
34735834 TAGGGTTTCT
* * *
34735844 GATATGTGTTCTCGTGTAAGACCACATCTGGGACATTGGCATC
1 GATATGTGAT-TCATGTAAGACCACGTCTGGGACATTGGCATC
* * * * *
34735887 GATATGTGATTACGTTTAAGACCATGTCTGGGAGATCGGCATC
1 GATATGTGATT-CATGTAAGACCACGTCTGGGACATTGGCATC
* * *
34735930 G-TATTTGATTCATGTAAGACC-CTGTCTAGGACAGTGGCATC
1 GATATGTGATTCATGTAAGACCAC-GTCTGGGACATTGGCATC
* * *
34735971 GATATGAGATAGCATGTAAGACCACGTCTGGGACGTTGGCAT
1 GATATGTGAT-TCATGTAAGACCACGTCTGGGACATTGGCAT
34736013 TGTATGATAT
Statistics
Matches: 101, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
41 24 0.24
42 15 0.15
43 61 0.60
44 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (42 bp):
GATATGTGATTCATGTAAGACCACGTCTGGGACATTGGCATC
Found at i:34743214 original size:42 final size:43
Alignment explanation
Indices: 34743150--34743337 Score: 172
Period size: 42 Copynumber: 4.4 Consensus size: 43
34743140 GCCTGATTGA
34743150 GATTTACGTATAAGACCATGTCTGAGACATCGGCATCGTATCT
1 GATTTACGTATAAGACCATGTCTGAGACATCGGCATCGTATCT
* * * *
34743193 GATTT-CGTGTAAGATCGTGTCTGAGACA-CAGGCCTCG-AT-T
1 GATTTACGTATAAGACCATGTCTGAGACATC-GGCATCGTATCT
* *
34743233 GAGATTTACGTATAAGACCATGTCTGGGACATCGGTATCGTATCT
1 --GATTTACGTATAAGACCATGTCTGAGACATCGGCATCGTATCT
* * * **
34743278 GATTT-CGTGTAAGACCCTGTCTGGGACAGAGGCATCGATAT-T
1 GATTTACGTATAAGACCATGTCTGAGACATCGGCATCG-TATCT
* * *
34743320 GAATTACATGTAAGACCA
1 GATTTACGTATAAGACCA
34743338 CATCTGGGAC
Statistics
Matches: 118, Mismatches: 18, Indels: 18
0.77 0.12 0.12
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 63 0.53
43 47 0.40
44 3 0.03
45 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (43 bp):
GATTTACGTATAAGACCATGTCTGAGACATCGGCATCGTATCT
Found at i:34743248 original size:85 final size:85
Alignment explanation
Indices: 34743117--34743316 Score: 305
Period size: 85 Copynumber: 2.4 Consensus size: 85
34743107 TGAGATATCA
* *
34743117 TGTAAGACCGTGTCT-AGAAATAGGCCT-GATTGAGATTTACGTATAAGACCATGTCTGAGACAT
1 TGTAAGACCGTGTCTGAGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGAGACAT
34743180 CGGCATCGTATCTGATTTCG
66 CGGCATCGTATCTGATTTCG
* *
34743200 TGTAAGATCGTGTCTGAGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGACAT
1 TGTAAGACCGTGTCTGAGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGAGACAT
*
34743265 CGGTATCGTATCTGATTTCG
66 CGGCATCGTATCTGATTTCG
* * * *
34743285 TGTAAGACCCTGTCTGGGACAGAGGCATCGAT
1 TGTAAGACCGTGTCTGAGACACAGGCCTCGAT
34743317 ATTGAATTAC
Statistics
Matches: 105, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
83 14 0.13
84 10 0.10
85 81 0.77
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (85 bp):
TGTAAGACCGTGTCTGAGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGAGACAT
CGGCATCGTATCTGATTTCG
Found at i:34743334 original size:85 final size:85
Alignment explanation
Indices: 34743117--34743347 Score: 272
Period size: 85 Copynumber: 2.7 Consensus size: 85
34743107 TGAGATATCA
* * * * * *
34743117 TGTAAGACCGTGTCT-AGAAATAGGCCT-GATTGAGATTTACGTATAAGACCATGTCTGAGACAT
1 TGTAAGACCCTGTCTGAGACACAGGCATCGATTGAGATTTACATATAAGACCATGTCTGGGACAT
34743180 CGGCATCGTATCTGATTTCG
66 CGGCATCGTATCTGATTTCG
* * * *
34743200 TGTAAGATCGTGTCTGAGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGACAT
1 TGTAAGACCCTGTCTGAGACACAGGCATCGATTGAGATTTACATATAAGACCATGTCTGGGACAT
*
34743265 CGGTATCGTATCTGATTTCG
66 CGGCATCGTATCTGATTTCG
* * * **
34743285 TGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGA-A-TTACATGTAAGACCACATCTGGGAC
1 TGTAAGACCCTGTCTGAGACACAGGCATCG--ATTGAGATTTACATATAAGACCATGTCTGGGAC
34743348 GTCAGCATTG
Statistics
Matches: 130, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
83 14 0.11
84 10 0.08
85 100 0.77
86 1 0.01
87 5 0.04
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (85 bp):
TGTAAGACCCTGTCTGAGACACAGGCATCGATTGAGATTTACATATAAGACCATGTCTGGGACAT
CGGCATCGTATCTGATTTCG
Found at i:34746642 original size:41 final size:43
Alignment explanation
Indices: 34746566--34746662 Score: 128
Period size: 41 Copynumber: 2.3 Consensus size: 43
34746556 TTTCGGACGT
*
34746566 TGGCATCGATATGTGATTATGTGTAAAACCATGTCTGGGACA-
1 TGGCATCGATATGTGATTACGTGTAAAACCATGTCTGGGACAG
* * *
34746608 TCGGCATCG-TATTTGATT-CGTGTAAGACCCTGTCTGGGACAG
1 T-GGCATCGATATGTGATTACGTGTAAAACCATGTCTGGGACAG
34746650 TGGCATCGATATG
1 TGGCATCGATATG
34746663 AGATAGCATG
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
41 27 0.57
42 13 0.28
43 7 0.15
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (43 bp):
TGGCATCGATATGTGATTACGTGTAAAACCATGTCTGGGACAG
Found at i:34750271 original size:37 final size:37
Alignment explanation
Indices: 34750221--34750299 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
34750211 TTATTACGAA
* * *
34750221 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
34750258 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
34750295 GTCTT
1 GTCTT
34750300 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:34750496 original size:47 final size:47
Alignment explanation
Indices: 34750418--34750828 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
34750408 CCCTTCGGGA
* * * * * *
34750418 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34750465 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34750512 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34750559 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34750606 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34750653 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34750700 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34750747 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34750794 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
34750829 AGAATCCTAA
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:34754507 original size:40 final size:40
Alignment explanation
Indices: 34754463--34754641 Score: 277
Period size: 40 Copynumber: 4.5 Consensus size: 40
34754453 TCTTCGAGGT
* * * * *
34754463 TTAGCACGGATATATTACTAGCACGAATGATCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
* *
34754503 TTAGCCCGGATACATCACTAGCACGAATGCTCCTCAGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
*
34754543 TTAGCCCGGATAGATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
*
34754583 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGGC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
34754623 TTAGCCCGGATATATCACT
1 TTAGCCCGGATATATCACT
34754642 CTCAATTCTC
Statistics
Matches: 128, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 128 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
Found at i:34754841 original size:36 final size:36
Alignment explanation
Indices: 34754755--34754826 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
34754745 TTCCATAGCC
34754755 ACATACAAAAATCACATTTATAGTCATAACACTCTT
1 ACATACAAAAATCACATTTATAGTCATAACACTCTT
*
34754791 ACATACAAAAATCACATTTATAGTCATAACGCTCTT
1 ACATACAAAAATCACATTTATAGTCATAACACTCTT
34754827 TCAAAATTGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.43, C:0.22, G:0.04, T:0.31
Consensus pattern (36 bp):
ACATACAAAAATCACATTTATAGTCATAACACTCTT
Found at i:34755846 original size:55 final size:55
Alignment explanation
Indices: 34755762--34755866 Score: 174
Period size: 55 Copynumber: 1.9 Consensus size: 55
34755752 CAAATCTACA
* *
34755762 TCACTGCTGCTGCCAGCATCTGCCTTTAAGGTAGACTTTACCTATTTCATAGTTG
1 TCACTGCTGCTGCCAGCATCTACCTTTAAGATAGACTTTACCTATTTCATAGTTG
* *
34755817 TCACTGCTGCTGTCAGCATCTACCTTTAAGATAGGCTTTACCTATTTCAT
1 TCACTGCTGCTGCCAGCATCTACCTTTAAGATAGACTTTACCTATTTCAT
34755867 GGTTCAACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (55 bp):
TCACTGCTGCTGCCAGCATCTACCTTTAAGATAGACTTTACCTATTTCATAGTTG
Found at i:34756630 original size:43 final size:44
Alignment explanation
Indices: 34756572--34756663 Score: 168
Period size: 43 Copynumber: 2.1 Consensus size: 44
34756562 CATTCATTAC
34756572 CAAATCACGTACCTTCGGGATTTAACCGGATATAGCTCCTCGTT
1 CAAATCACGTACCTTCGGGATTTAACCGGATATAGCTCCTCGTT
*
34756616 CAAA-CACGTGCCTTCGGGATTTAACCGGATATAGCTCCTCGTT
1 CAAATCACGTACCTTCGGGATTTAACCGGATATAGCTCCTCGTT
34756659 CAAAT
1 CAAAT
34756664 GCCTTCGGGA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
43 42 0.91
44 4 0.09
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.28
Consensus pattern (44 bp):
CAAATCACGTACCTTCGGGATTTAACCGGATATAGCTCCTCGTT
Found at i:34756704 original size:39 final size:40
Alignment explanation
Indices: 34756659--34756790 Score: 176
Period size: 40 Copynumber: 3.3 Consensus size: 40
34756649 GCTCCTCGTT
* * *
34756659 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
34756699 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
34756738 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
34756778 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
34756791 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 34 0.43
40 46 0.57
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:34756852 original size:41 final size:41
Alignment explanation
Indices: 34756775--34756852 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
34756765 TTAGTATCTC
* * *
34756775 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGAAACATTCACTTA
34756816 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAACATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGA-AACATTCA
34756853 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 16 0.50
41 16 0.50
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGAAACATTCACTTA
Found at i:34757090 original size:28 final size:28
Alignment explanation
Indices: 34757058--34757116 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
34757048 CCTTTATCGG
34757058 ATTTATTTCCCCTTTGCTCTTGAGCTTA
1 ATTTATTTCCCCTTTGCTCTTGAGCTTA
34757086 ATTTATTTCCCCTTTGCTCTTGAGCTTA
1 ATTTATTTCCCCTTTGCTCTTGAGCTTA
34757114 ATT
1 ATT
34757117 AAACAAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.15, C:0.24, G:0.10, T:0.51
Consensus pattern (28 bp):
ATTTATTTCCCCTTTGCTCTTGAGCTTA
Found at i:34760857 original size:40 final size:40
Alignment explanation
Indices: 34760811--34761007 Score: 200
Period size: 40 Copynumber: 4.9 Consensus size: 40
34760801 CCGAATACAC
* * * *
34760811 ATCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATAT
1 ATCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATAT
* *** *
34760851 AACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATAT
1 ATCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATAT
* * *
34760891 ATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATAC
1 ATCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATAT
* *
34760931 ATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATAT
1 ATCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATAT
* * * *
34760971 GGTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
1 -ATCAC-CAGCACGAATGCTCTTCGGAACTTAGCCCGGA
34761008 CATCATTCAA
Statistics
Matches: 135, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
40 121 0.90
41 8 0.06
42 6 0.04
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
ATCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATAT
Found at i:34760968 original size:80 final size:81
Alignment explanation
Indices: 34760811--34761007 Score: 222
Period size: 80 Copynumber: 2.5 Consensus size: 81
34760801 CCGAATACAC
* * * * * *
34760811 ATCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGA
**
34760876 GTTTAGCACGGATAT-
66 ACTTAGCACGGATATG
* * * *
34760891 ATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGA
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGA
34760956 ACTTAGTC-CGGATATG
66 ACTTAG-CACGGATATG
* *
34760972 GTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
1 ATCAC-TAGCACGAATGCTCTTCGGGACTTAGCCCGGA
34761008 CATCATTCAA
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
80 83 0.85
81 9 0.09
82 6 0.06
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (81 bp):
ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGA
ACTTAGCACGGATATG
Found at i:34761352 original size:29 final size:29
Alignment explanation
Indices: 34761311--34761391 Score: 110
Period size: 29 Copynumber: 2.8 Consensus size: 29
34761301 TGCTTAATAA
* *
34761311 TCAACCTCGCACACTTAGTGCCATGTACTT
1 TCAAACTCGCACACTTAGTGCCATGCA-TT
34761341 T-AAACTCGCACACTTAGTGCCATGCATT
1 TCAAACTCGCACACTTAGTGCCATGCATT
* *
34761369 TCAAGCCCGCACACTTAGTGCCA
1 TCAAACTCGCACACTTAGTGCCA
34761392 ATCTCACAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 42 0.91
30 1 0.02
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.26
Consensus pattern (29 bp):
TCAAACTCGCACACTTAGTGCCATGCATT
Found at i:34771916 original size:49 final size:49
Alignment explanation
Indices: 34771863--34772137 Score: 294
Period size: 49 Copynumber: 5.7 Consensus size: 49
34771853 CTGGTACGCA
* ** *
34771863 TAGTAGCCTGGACTTAGTACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATATGACCAATTATCCAGCACACG
** * ** * *
34771912 TAGTAGCCTATACTTAGTACTACACACATGACCTAACCAT-CTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATATGACC-AATTATCCAG-CACACG
* ** * *
34771962 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTAT-C-G----GG
1 TAGTAGCCTGCACTTAGTACTACACATATGA-CCAA-TTATCCAGCACACG
34772007 TAGTAGCCTGCACTTAGTACTACACATATGACCAATTATCCAGCACACG
1 TAGTAGCCTGCACTTAGTACTACACATATGACCAATTATCCAGCACACG
*
34772056 TAGTAGCCTGCACTTAGTAATACACATATGACCAATTATCCAGCACACG
1 TAGTAGCCTGCACTTAGTACTACACATATGACCAATTATCCAGCACACG
* *
34772105 TAGTAGCCTGCACTTAGTACTACATATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATATGACC
34772138 TCACAATAGA
Statistics
Matches: 193, Mismatches: 23, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
43 4 0.02
44 4 0.02
45 30 0.16
49 109 0.56
50 42 0.22
51 4 0.02
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATATGACCAATTATCCAGCACACG
Found at i:34784764 original size:39 final size:38
Alignment explanation
Indices: 34784721--34784841 Score: 93
Period size: 39 Copynumber: 3.1 Consensus size: 38
34784711 TTAAACACAC
34784721 TTAAAAATATGTATTAAAGATGTCC-GAACTATGACATAA
1 TTAAAAATAT-TATTAAAGATGTCCAG-ACTATGACATAA
* * ** * *
34784760 TTAAAACTCTTATTAGTGATGTTCAGATTATGACATAA
1 TTAAAAATATTATTAAAGATGTCCAGACTATGACATAA
* * * * *
34784798 TTAAAAACTCA-TATTAATGATATTCAAATTATGACATAA
1 TTAAAAA-T-ATTATTAAAGATGTCCAGACTATGACATAA
34784837 TTAAA
1 TTAAA
34784842 GATTCAAACT
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
38 28 0.41
39 40 0.59
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.36
Consensus pattern (38 bp):
TTAAAAATATTATTAAAGATGTCCAGACTATGACATAA
Found at i:34784792 original size:38 final size:38
Alignment explanation
Indices: 34784750--34784841 Score: 139
Period size: 39 Copynumber: 2.4 Consensus size: 38
34784740 ATGTCCGAAC
* * * *
34784750 TATGACATAATTAAAACTCTTATTAGTGATGTTCAGAT
1 TATGACATAATTAAAACTCATATTAATGATATTCAAAT
34784788 TATGACATAATTAAAAACTCATATTAATGATATTCAAAT
1 TATGACATAATT-AAAACTCATATTAATGATATTCAAAT
34784827 TATGACATAATTAAA
1 TATGACATAATTAAA
34784842 GATTCAAACT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 15 0.31
39 34 0.69
ACGTcount: A:0.45, C:0.10, G:0.09, T:0.37
Consensus pattern (38 bp):
TATGACATAATTAAAACTCATATTAATGATATTCAAAT
Found at i:34785785 original size:38 final size:38
Alignment explanation
Indices: 34785732--34785875 Score: 164
Period size: 38 Copynumber: 3.8 Consensus size: 38
34785722 GAGTTATATC
*
34785732 GTTATTCAGGCTTTGTGCCTAGTAGGCTTAGTGCCGGA
1 GTTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCGGA
* * * *
34785770 ATTATTCAGGTTTTGTGCCTAGCAGGCTTAGTGTCGGT
1 GTTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCGGA
* * ** * *
34785808 GTTATTTAGGCTTTGTACCTAGTTGGCTTACTACC-GA
1 GTTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCGGA
*
34785845 TGTTATTCAGGCTTTTTGCCTAGCAGGCTTA
1 -GTTATTCAGGCTTTGTGCCTAGCAGGCTTA
34785876 TTACTGGTGT
Statistics
Matches: 85, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
37 1 0.01
38 84 0.99
ACGTcount: A:0.17, C:0.18, G:0.26, T:0.39
Consensus pattern (38 bp):
GTTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCGGA
Found at i:34785885 original size:76 final size:76
Alignment explanation
Indices: 34785732--34785875 Score: 202
Period size: 76 Copynumber: 1.9 Consensus size: 76
34785722 GAGTTATATC
* * *
34785732 GTTATTCAGGCTTTGTGCCTAGTAGGCTTAGTGCCGGAATTATTCAGGTTTTGTGCCTAGCAGGC
1 GTTATTCAGGCTTTGTACCTAGTAGGCTTACTACCGGAATTATTCAGGTTTTGTGCCTAGCAGGC
34785797 TTAGTGTCGGT
66 TTAGTGTCGGT
* * *
34785808 GTTATTTAGGCTTTGTACCTAGTTGGCTTACTACC-GATGTTATTCAGGCTTTT-TGCCTAGCAG
1 GTTATTCAGGCTTTGTACCTAGTAGGCTTACTACCGGA-ATTATTCAGG-TTTTGTGCCTAGCAG
34785871 GCTTA
64 GCTTA
34785876 TTACTGGTGT
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
75 2 0.03
76 54 0.90
77 4 0.07
ACGTcount: A:0.17, C:0.18, G:0.26, T:0.39
Consensus pattern (76 bp):
GTTATTCAGGCTTTGTACCTAGTAGGCTTACTACCGGAATTATTCAGGTTTTGTGCCTAGCAGGC
TTAGTGTCGGT
Found at i:34787046 original size:238 final size:238
Alignment explanation
Indices: 34786570--34787005 Score: 624
Period size: 238 Copynumber: 1.8 Consensus size: 238
34786560 AGCCTGAGAT
* *
34786570 ACGGGCATGTGTCTCAGCCGTGTGTCATCTGGGAGTTTTCTTATATGCAAGTCAGTGAGTTACAC
1 ACGGGCATGTGTCTCAGCCGTGTGTCATCTGGGAGTTTCCTTATATGCAAGTCAGTAAGTTACAC
* * * * *
34786635 GTCCTAACACATGGCCTGGTATACGGGCGTGTAGGGCTATTTTAAGAGTTACGTGGCCTGATACA
66 GTCCTAACACATGGCCTGGCATACAGGCGTGTAGGGATATTTCAAGAGTTACATGGCCTGATACA
* * * * * * * *
34786700 TAGGCGTGTGACATGGCCATGTGATCCTACTCAGAGAGTTACACAGGTGAGTACACGGGTTGGGA
131 GAGGCATGTGACACGCCCATATGACCCTACTAAGAGAGTTACACAGGTGAGTACACGGGCTGGGA
34786765 CACATCCATGTGTCCCTAAATCAAAGGTTACACAACCTGGGAC
196 CACATCCATGTGTCCCTAAATCAAAGGTTACACAACCTGGGAC
* * *
34786808 ACGGGCATGTGTCTCAGCCGTGTGTCATCTTGGAGTTTCCTTGTATGCAATTCAGTAAGTTACAC
1 ACGGGCATGTGTCTCAGCCGTGTGTCATCTGGGAGTTTCCTTATATGCAAGTCAGTAAGTTACAC
* * * *
34786873 GGT-CTAGCACATGGCCTGGCATACAGGCGTGTGGGGATATTTCGAGAGTTACATGGCTTGATAC
66 -GTCCTAACACATGGCCTGGCATACAGGCGTGTAGGGATATTTCAAGAGTTACATGGCCTGATAC
* *
34786937 ACGA-GCATGTGACACGCCCGTATGACCCTACTAAGAGAGTTACACAGGTGAGTACGCGGGCTGG
130 A-GAGGCATGTGACACGCCCATATGACCCTACTAAGAGAGTTACACAGGTGAGTACACGGGCTGG
34787001 GACAC
194 GACAC
34787006 GGTTGTGTGT
Statistics
Matches: 172, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
238 169 0.98
239 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (238 bp):
ACGGGCATGTGTCTCAGCCGTGTGTCATCTGGGAGTTTCCTTATATGCAAGTCAGTAAGTTACAC
GTCCTAACACATGGCCTGGCATACAGGCGTGTAGGGATATTTCAAGAGTTACATGGCCTGATACA
GAGGCATGTGACACGCCCATATGACCCTACTAAGAGAGTTACACAGGTGAGTACACGGGCTGGGA
CACATCCATGTGTCCCTAAATCAAAGGTTACACAACCTGGGAC
Found at i:34789224 original size:17 final size:18
Alignment explanation
Indices: 34789199--34789244 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 18
34789189 CAATACCAAG
*
34789199 AAAACAAACAAAAG-TAA
1 AAAAAAAACAAAAGTTAA
34789216 AAAAAAAAC--AAGTTAA
1 AAAAAAAACAAAAGTTAA
*
34789232 AAAAACAACAAAA
1 AAAAAAAACAAAA
34789245 CACAAACAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
15 3 0.12
16 11 0.46
17 8 0.33
18 2 0.08
ACGTcount: A:0.78, C:0.11, G:0.04, T:0.07
Consensus pattern (18 bp):
AAAAAAAACAAAAGTTAA
Found at i:34794584 original size:41 final size:41
Alignment explanation
Indices: 34794537--34794626 Score: 135
Period size: 41 Copynumber: 2.2 Consensus size: 41
34794527 AGTGTATATG
* * *
34794537 CAGCTCATCTTCAGCAGAAGTTAGCTCAGAGTACTCTACAC
1 CAGCTCATCTTCAGCACAAGATAGCTCAAAGTACTCTACAC
*
34794578 CAGCTCATCTTCAGCTCAAGATAGCTCAAAGTACTCTACAC
1 CAGCTCATCTTCAGCACAAGATAGCTCAAAGTACTCTACAC
*
34794619 CATCTCAT
1 CAGCTCAT
34794627 GTCAGCTCAC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.30, C:0.31, G:0.13, T:0.26
Consensus pattern (41 bp):
CAGCTCATCTTCAGCACAAGATAGCTCAAAGTACTCTACAC
Found at i:34802340 original size:27 final size:27
Alignment explanation
Indices: 34802291--34802449 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
34802281 ACGAGGCTGC
* *
34802291 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
34802318 CAGATATTGTGGCAGAGCTACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
34802344 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
34802371 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
34802398 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
34802425 CAGATAATTGTGGCATAGGCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
34802450 GACGCTTCCT
Statistics
Matches: 114, Mismatches: 10, Indels: 16
0.81 0.07 0.11
Matches are distributed among these distances:
26 10 0.09
27 99 0.87
28 5 0.04
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:34802450 original size:54 final size:54
Alignment explanation
Indices: 34802309--34802452 Score: 229
Period size: 54 Copynumber: 2.7 Consensus size: 54
34802299 GTGACGAAGT
* *
34802309 CACCAGATACAGAT-ATTGTGGCAGA-GCTACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGGC-ACCAGGACAGATATATGTGGCAGAGC
*
34802363 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGGCACCAGGACAGATATATGTGGCAGAGC
34802417 CACCAGATCAGATAATTGTGGCATAGGCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGGCACCAGGAC
34802453 GCTTCCTCCA
Statistics
Matches: 84, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
53 5 0.06
54 78 0.93
55 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGGCACCAGGACAGATATATGTGGCAGAGC
Found at i:34806460 original size:29 final size:27
Alignment explanation
Indices: 34806442--34806511 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
34806432 ATATTAAGTC
34806442 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
34806469 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
34806497 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
34806512 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:34806505 original size:28 final size:28
Alignment explanation
Indices: 34806442--34806539 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
34806432 ATATTAAGTC
*
34806442 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
34806469 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
34806497 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
34806526 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34806540 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:34812088 original size:28 final size:28
Alignment explanation
Indices: 34812056--34812128 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 28
34812046 CATGGTTCGA
34812056 CCATGACAATGTGCTAAGTGAAATAAGT
1 CCATGACAATGTGCTAAGTGAAATAAGT
*
34812084 CCATGGC-A--T-CTAAGTGAAATAAGT
1 CCATGACAATGTGCTAAGTGAAATAAGT
*
34812108 CCATGGA-ATTGTGCTAAGTGA
1 CCAT-GACAATGTGCTAAGTGA
34812129 GAAATTTCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
24 19 0.51
25 2 0.05
27 2 0.05
28 14 0.38
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (28 bp):
CCATGACAATGTGCTAAGTGAAATAAGT
Found at i:34812207 original size:51 final size:51
Alignment explanation
Indices: 34812152--34812350 Score: 283
Period size: 51 Copynumber: 3.9 Consensus size: 51
34812142 TGAACCTTAG
*
34812152 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATATGAAGGCCACTTTAT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATATGAAGGCCACTTTGT
* * *
34812203 GAATATAATAGCTTTGAACACAAGTGTAGTACTATATGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATATGAAGGCCACTTTGT
* * *
34812254 GAATAAAATAGCTTCGGACACAAGTGAGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATATGAAGGCCACTTTGT
* * * *
34812305 GCATAAAATAGCTTTGG-CTACAAGGGTGGTACTATGTGAAGTCCAC
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATATGAAGGCCAC
34812351 CGTGTATTCG
Statistics
Matches: 132, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
50 1 0.01
51 131 0.99
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATATGAAGGCCACTTTGT
Found at i:34813684 original size:48 final size:48
Alignment explanation
Indices: 34813632--34814007 Score: 276
Period size: 48 Copynumber: 7.9 Consensus size: 48
34813622 GGCCACATTT
*
34813632 TGAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCATTGAAA
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAAA
* * * *
34813680 TGAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-CTCAAGA
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAA-A
* * * *
34813726 TGTA-AGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCCGC-TACGAGA
1 TG-AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGAAA
* * * *
34813772 T--GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CG-TA
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAAA
* * * ** *
34813816 TAGAGGTGTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACAGATATG
1 T-GA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-A-A
* * * * **
34813868 TGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGATT
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAAA
* * ** *
34813916 TCGATAGCCATTGTAAGACCATGTCTAAGACATGGCATCGAC-TTG--A
1 T-GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAAA
* *
34813962 TGAATGAGCCAGTGCAAGACCATGTCTGGGACATGGCATTGGCATT
1 TG-A-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
34814008 ATACACTATG
Statistics
Matches: 262, Mismatches: 47, Indels: 38
0.76 0.14 0.11
Matches are distributed among these distances:
44 13 0.05
45 19 0.07
46 53 0.20
47 47 0.18
48 58 0.22
49 34 0.13
50 35 0.13
51 2 0.01
52 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (48 bp):
TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAAA
Found at i:34813741 original size:46 final size:49
Alignment explanation
Indices: 34813595--34814000 Score: 286
Period size: 46 Copynumber: 8.6 Consensus size: 49
34813585 TTTGTGTGTT
* ***
34813595 AGTGTAAGA-CATGTCTGGGA-AT-GCATCGGCCACATTTTG-AGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAAGATGTAGAGCC
* * * *
34813640 AATGTAAGACCATGTCTGGGACATGGCATCGGCATTGAA-ATG-AGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCAAGATGTAGAGCC
*
34813688 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCAAGATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAAGATGTAGAGCC
* * * *
34813734 AGTGTAAGA-CATGTCTAGGACAT-GCATCCG-CTACGAGATGT---GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CAAGATGTAGAGCC
* *
34813778 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGT-ATAGA-G--GTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-C-TCA-AGATGTAGAGCC
* * * *
34813826 AGTGTAAGACCATGTCTAGGACATGGCATCGG-CACAGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCA-AGATGT-AGAGCC
* * *
34813876 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCTC--GATTTCGATAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAAGATGT--AGAGCC
* ** * * *
34813925 ATTGTAAGACCATGTCTAAGACATGGCATC-GACT--TGATGAATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAAGATGTA-GAGCC
*
34813972 AGTGCAAGACCATGTCTGGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
34814001 TGGCATTATA
Statistics
Matches: 292, Mismatches: 45, Indels: 46
0.76 0.12 0.12
Matches are distributed among these distances:
44 11 0.04
45 26 0.09
46 70 0.24
47 48 0.16
48 70 0.24
49 33 0.11
50 32 0.11
51 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAAGATGTAGAGCC
Found at i:34818777 original size:25 final size:25
Alignment explanation
Indices: 34818699--34818779 Score: 101
Period size: 25 Copynumber: 3.2 Consensus size: 25
34818689 ATGCTTTCAT
*
34818699 GAGCTGCAAATCGGTAAGCTCATAC
1 GAGCTGCAAATCAGTAAGCTCATAC
* *
34818724 AAGCTG-AGAATCAGTAAGCTCTTAC
1 GAGCTGCA-AATCAGTAAGCTCATAC
* *
34818749 GAGCTGCAAATAAGTAAGCTCATAT
1 GAGCTGCAAATCAGTAAGCTCATAC
34818774 GAGCTG
1 GAGCTG
34818780 TGGTGTGTCC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
24 1 0.02
25 45 0.96
26 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (25 bp):
GAGCTGCAAATCAGTAAGCTCATAC
Found at i:34819675 original size:12 final size:13
Alignment explanation
Indices: 34819658--34819689 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
34819648 ATAGCACATT
34819658 TCAAAAC-ATGCA
1 TCAAAACTATGCA
34819670 TCAAAACTATGCA
1 TCAAAACTATGCA
34819683 -CAAAACT
1 TCAAAACT
34819690 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:34825229 original size:100 final size:100
Alignment explanation
Indices: 34825116--34825314 Score: 326
Period size: 100 Copynumber: 2.0 Consensus size: 100
34825106 TTGTTTTGAT
34825116 CATTTTCAATTTTATCGATTATGTTTCAGAAAATGTTTTCCTTTGAAGGGATCCAAGACAATAGG
1 CATTTTCAATTTTATCGATTATGTTTCAGAAAATGTTTTCCTTTGAAGGGATCCAAGACAATAGG
*
34825181 AGAAATGAATTGTTTGTGTGTGGAAACAAAGCTAG
66 AGAAATGAACTGTTTGTGTGTGGAAACAAAGCTAG
* * * * * **
34825216 CATTTTTAATTTTATTGATTATGTTTGAGAAAATGTTTTCCTTTGAAGGGATTCAAGACAGTCTG
1 CATTTTCAATTTTATCGATTATGTTTCAGAAAATGTTTTCCTTTGAAGGGATCCAAGACAATAGG
34825281 AGAAATGAACTGTTTGTGTGTGGAAACAAAGCTA
66 AGAAATGAACTGTTTGTGTGTGGAAACAAAGCTA
34825315 CTTTGATCAA
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 91 1.00
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (100 bp):
CATTTTCAATTTTATCGATTATGTTTCAGAAAATGTTTTCCTTTGAAGGGATCCAAGACAATAGG
AGAAATGAACTGTTTGTGTGTGGAAACAAAGCTAG
Found at i:34850931 original size:31 final size:31
Alignment explanation
Indices: 34850888--34850951 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
34850878 CCTTTTCATA
*
34850888 TTTCATAATTCATAACACTGGGCTGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
34850919 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
34850950 TT
1 TT
34850952 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:34851217 original size:24 final size:24
Alignment explanation
Indices: 34851144--34851979 Score: 1610
Period size: 24 Copynumber: 35.0 Consensus size: 24
34851134 GCTTTATCAT
*
34851144 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
34851169 ATAACTGGGG---AAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851189 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851213 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851237 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851261 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851285 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851309 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851333 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851357 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851381 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851405 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851429 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851453 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851477 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851501 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851525 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851549 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851573 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851597 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851621 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851645 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851669 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851693 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851717 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851741 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851765 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851789 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851813 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851837 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851861 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851885 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851909 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851933 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34851957 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
34851980 GCACTTCCTC
Statistics
Matches: 806, Mismatches: 0, Indels: 11
0.99 0.00 0.01
Matches are distributed among these distances:
20 14 0.02
21 1 0.00
22 4 0.00
23 6 0.01
24 773 0.96
25 8 0.01
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:34852056 original size:20 final size:20
Alignment explanation
Indices: 34852033--34852075 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
34852023 GAACATCTCG
34852033 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
34852053 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
34852073 TGT
1 TGT
34852076 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:34852140 original size:25 final size:25
Alignment explanation
Indices: 34852112--34852159 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34852102 ATATATAAAC
* * *
34852112 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
34852137 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
34852160 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:34859652 original size:31 final size:31
Alignment explanation
Indices: 34859609--34859672 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
34859599 CCTTTTCATA
*
34859609 TTTCATAATTCATAACACTGGGCTGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
34859640 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
34859671 TT
1 TT
34859673 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:34859938 original size:24 final size:24
Alignment explanation
Indices: 34859865--34860700 Score: 1610
Period size: 24 Copynumber: 35.0 Consensus size: 24
34859855 GCTTTATCAT
*
34859865 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
34859890 ATAACTGGGG---AAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34859910 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34859934 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34859958 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34859982 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34860006 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34860030 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34860054 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34860078 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34860102 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34860126 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34860150 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34860174 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34860198 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34860222 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34860246 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34860270 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34860294 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34860318 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34860342 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34860366 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34860390 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34860414 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34860438 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34860462 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34860486 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34860510 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34860534 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34860558 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34860582 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34860606 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34860630 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34860654 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34860678 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
34860701 GCACTTCCTC
Statistics
Matches: 806, Mismatches: 0, Indels: 11
0.99 0.00 0.01
Matches are distributed among these distances:
20 14 0.02
21 1 0.00
22 4 0.00
23 6 0.01
24 773 0.96
25 8 0.01
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:34860777 original size:20 final size:20
Alignment explanation
Indices: 34860754--34860796 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
34860744 GAACATCTCG
34860754 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
34860774 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
34860794 TGT
1 TGT
34860797 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:34860879 original size:25 final size:25
Alignment explanation
Indices: 34860833--34860880 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
34860823 ATATATAAAC
* * * *
34860833 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
34860858 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
34860881 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:34863251 original size:93 final size:93
Alignment explanation
Indices: 34863142--34863313 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
34863132 CGCCCATAAG
* * *
34863142 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTTAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
34863207 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
34863235 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
34863300 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
34863314 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:34863310 original size:46 final size:46
Alignment explanation
Indices: 34863135--34863310 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
34863125 TGTAACCCGC
* *
34863135 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
34863181 CCATAAGTGAACTCGGACTTAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
34863231 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
34863274 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
34863311 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 27 0.25
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:34864484 original size:47 final size:47
Alignment explanation
Indices: 34864415--34864507 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
34864405 CAAGTTTTAT
*
34864415 AACTTATTCGATTTAGTCCCTACTTTCAATTTAAGCACTTTAGGCAC
1 AACTTATTCGATTTAATCCCTACTTTCAATTTAAGCACTTTAGGCAC
34864462 AACTTATTCGATTTAATCCCTACTTTCAATTTAAGCACTTTAGGCA
1 AACTTATTCGATTTAATCCCTACTTTCAATTTAAGCACTTTAGGCA
34864508 TAGAATTTCA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.39
Consensus pattern (47 bp):
AACTTATTCGATTTAATCCCTACTTTCAATTTAAGCACTTTAGGCAC
Found at i:34868404 original size:48 final size:48
Alignment explanation
Indices: 34868326--34868425 Score: 155
Period size: 48 Copynumber: 2.1 Consensus size: 48
34868316 GGCACTCAGG
* *
34868326 TTTAACAAATCTCGAGTTCCCTACATTGGCTGCAGAAGTATTCTGAGA
1 TTTAACAAATCTCGAGTTCCCTACACTGGCTGCAGAAGTAGTCTGAGA
* * *
34868374 TTTAACAAATCTCGAGTTCCCTCCACTGGCTGCCGAAGTAGTCTGGGA
1 TTTAACAAATCTCGAGTTCCCTACACTGGCTGCAGAAGTAGTCTGAGA
34868422 TTTA
1 TTTA
34868426 GGACCCACAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (48 bp):
TTTAACAAATCTCGAGTTCCCTACACTGGCTGCAGAAGTAGTCTGAGA
Found at i:34870927 original size:93 final size:93
Alignment explanation
Indices: 34870814--34870985 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
34870804 CGCCCATAAG
* *
34870814 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTGGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
34870879 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
34870907 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
34870972 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
34870986 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:34870982 original size:46 final size:45
Alignment explanation
Indices: 34870807--34870982 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 45
34870797 TGTAACCCGC
* *
34870807 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTGGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATT-GCAT
* *
34870853 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTGCAT
*
34870903 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATT-GCAT
*
34870946 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
34870983 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTGCAT
Found at i:34871401 original size:54 final size:54
Alignment explanation
Indices: 34871337--34871445 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
34871327 GCAAGTTTTA
34871337 TAACTTATTCGATTTAATCCCTACTTTCAATTTAAGCACTTTAGGCATAGAATT
1 TAACTTATTCGATTTAATCCCTACTTTCAATTTAAGCACTTTAGGCATAGAATT
*
34871391 TAACTTATTCGATTTAGTCCCTACTTTCAATTTAAGCACTTTAGGCATAGAATT
1 TAACTTATTCGATTTAATCCCTACTTTCAATTTAAGCACTTTAGGCATAGAATT
34871445 T
1 T
34871446 CATCACGAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.41
Consensus pattern (54 bp):
TAACTTATTCGATTTAATCCCTACTTTCAATTTAAGCACTTTAGGCATAGAATT
Found at i:34875830 original size:42 final size:43
Alignment explanation
Indices: 34875784--34875885 Score: 118
Period size: 44 Copynumber: 2.4 Consensus size: 43
34875774 CCACTGTCTT
* * *
34875784 AGACAAGGTCTTACAGGAAATCA-AA-TACGATGTCAACGTCCC
1 AGACATGGTCTTACAGGAAATCATAAGT-CGATGCCAACGTCCA
* *
34875826 AGACATGGTCTTACACGTAAATCATAAGTCGATGCCAACTTCCA
1 AGACATGGTCTTACA-GGAAATCATAAGTCGATGCCAACGTCCA
*
34875870 AGACGTGGTCTTACAG
1 AGACATGGTCTTACAG
34875886 AATAACACAG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
42 14 0.27
43 8 0.16
44 28 0.55
45 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.23
Consensus pattern (43 bp):
AGACATGGTCTTACAGGAAATCATAAGTCGATGCCAACGTCCA
Found at i:34875879 original size:44 final size:42
Alignment explanation
Indices: 34875728--34875885 Score: 122
Period size: 43 Copynumber: 3.7 Consensus size: 42
34875718 AGCTCGTACA
* * ** * * *
34875728 ATGCCAACGTTCTAGAGGTGGTCTTACATGTAATCTAATATCG
1 ATGCCAACGTCCAAGACATGGTCTTACAGGAAATCAAATA-CG
** *
34875771 ATGCC-ACTGTCTTAGACAAGGTCTTACAGGAAATCAAATACG
1 ATGCCAAC-GTCCAAGACATGGTCTTACAGGAAATCAAATACG
* * *
34875813 ATGTCAACGTCCCAGACATGGTCTTACACGTAAATCATAAGT-CG
1 ATGCCAACGTCCAAGACATGGTCTTACA-GGAAATCA-AA-TACG
* *
34875857 ATGCCAACTTCCAAGACGTGGTCTTACAG
1 ATGCCAACGTCCAAGACATGGTCTTACAG
34875886 AATAACACAG
Statistics
Matches: 93, Mismatches: 17, Indels: 10
0.77 0.14 0.08
Matches are distributed among these distances:
42 25 0.27
43 39 0.42
44 28 0.30
45 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.27
Consensus pattern (42 bp):
ATGCCAACGTCCAAGACATGGTCTTACAGGAAATCAAATACG
Found at i:34878297 original size:40 final size:40
Alignment explanation
Indices: 34878214--34878476 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
34878204 TTGAATGCTG
* * * * * *
34878214 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
34878254 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
34878294 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
34878334 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
34878374 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
34878414 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
34878453 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
34878477 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:34878496 original size:79 final size:80
Alignment explanation
Indices: 34878253--34878511 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
34878243 AAGTGAATAT
* * * * * *
34878253 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
34878317 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
34878333 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
34878398 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
34878413 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
34878477 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
34878492 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
34878512 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:34886360 original size:39 final size:40
Alignment explanation
Indices: 34886156--34886378 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
34886146 TTGAATGCTG
* * * * * *
34886156 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
34886196 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
**
34886236 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
34886276 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
34886316 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
34886355 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
34886379 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:34886398 original size:79 final size:80
Alignment explanation
Indices: 34886231--34886413 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
34886221 GTGCGAGATA
** * *
34886231 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
34886296 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
34886311 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
34886375 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
34886390 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
34886414 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:34894003 original size:42 final size:43
Alignment explanation
Indices: 34893907--34894065 Score: 157
Period size: 43 Copynumber: 3.7 Consensus size: 43
34893897 GCTCGTACAT
* * * *
34893907 TGCCAACGTCCTAGATATGGTCTTACATGTAATCCA-ATA-TCGA
1 TGCCAACGTCCCAGACATGGTCTTACACGAAAT-CATA-AGTCGA
* *
34893950 TGCC-ACTGTCCCAGACAGGGTTTTACACGAAATCA-AA-TACGA
1 TGCCAAC-GTCCCAGACATGGTCTTACACGAAATCATAAGT-CGA
* *
34893992 TGTCAACGTCCCAGACATGGTCTTACACGTAAATCATAAGTTGA
1 TGCCAACGTCCCAGACATGGTCTTACACG-AAATCATAAGTCGA
*
34894036 TGCCAACATCCCAGACATGGTCTTACACGA
1 TGCCAACGTCCCAGACATGGTCTTACACGA
34894066 TAACACATGT
Statistics
Matches: 98, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
41 2 0.02
42 31 0.32
43 33 0.34
44 31 0.32
45 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
TGCCAACGTCCCAGACATGGTCTTACACGAAATCATAAGTCGA
Found at i:34900437 original size:48 final size:48
Alignment explanation
Indices: 34900372--34900785 Score: 617
Period size: 48 Copynumber: 8.8 Consensus size: 48
34900362 GCTATGGCAT
*
34900372 TGTGATCCCATGAAAGACCATGTCTGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* *
34900420 TGTGATCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* *
34900468 TGTGATCCCATGTAAAACCATGT-T------TGGCATTGGCATCGTTA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
*
34900509 TGTGATCCCATGTAAAACCATGTCTGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * * *
34900557 TATGATGCAATGTAAGACCATGTCTGGGACATAGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
*
34900605 TGTGATCCCATGTAAGAACATGTCTGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
*
34900653 TGTGATCCCATGTAAGAACATGTCTGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * *
34900701 TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTAGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
** *
34900749 TGTGATTTCGTGTAAGACCATGTCTGGGACATGGCAT
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCAT
34900786 CGATATGAGA
Statistics
Matches: 333, Mismatches: 26, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
41 38 0.11
42 1 0.00
47 1 0.00
48 293 0.88
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
Found at i:34900825 original size:42 final size:42
Alignment explanation
Indices: 34900740--34900828 Score: 112
Period size: 42 Copynumber: 2.1 Consensus size: 42
34900730 TATGGCATTA
* *
34900740 GCATCGATATGTGATTTCGTGTAAGACCATGTCTGGGACATG
1 GCATCGATATGAGATTTCGTGTAAGACAATGTCTGGGACATG
34900782 GCATCGATATGAGACTTT-GTGTAAGACAATAGT-T-GGACTATG
1 GCATCGATATGAGA-TTTCGTGTAAGACAAT-GTCTGGGAC-ATG
34900824 GCATC
1 GCATC
34900829 AAGTAAATGA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
41 4 0.10
42 33 0.79
43 5 0.12
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (42 bp):
GCATCGATATGAGATTTCGTGTAAGACAATGTCTGGGACATG
Found at i:34901302 original size:20 final size:20
Alignment explanation
Indices: 34901279--34901336 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
34901269 TAGCTCGTCC
*
34901279 AGCTCACAACCAGCTCAACA
1 AGCTCACATCCAGCTCAACA
**
34901299 AGCTCAGTTCCAGCTCAACA
1 AGCTCACATCCAGCTCAACA
* *
34901319 AGTTAACATCCAGCTCAA
1 AGCTCACATCCAGCTCAA
34901337 TTTTAGCTCA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.36, C:0.34, G:0.12, T:0.17
Consensus pattern (20 bp):
AGCTCACATCCAGCTCAACA
Found at i:34908757 original size:27 final size:27
Alignment explanation
Indices: 34908727--34908904 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
34908717 ATATTGAGTC
* *
34908727 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
34908754 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
34908781 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
34908809 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
34908836 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
34908863 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
34908890 CACACACTTAGTGCT
1 CGCACACTTAGTGCT
34908905 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:34908866 original size:82 final size:81
Alignment explanation
Indices: 34908748--34908903 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
34908738 TGCTATATAA
* * *
34908748 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCACA
34908813 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
34908830 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCACA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCACA
34908894 CACTTAGTGC
65 CACTTAGTGC
34908904 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCACAC
ACTTAGTGCCGCATGG
Found at i:34916448 original size:57 final size:57
Alignment explanation
Indices: 34916360--34916472 Score: 217
Period size: 57 Copynumber: 2.0 Consensus size: 57
34916350 CTAAGCCAAC
34916360 TAAGAAGAAAGTACCAAAACTTGCTATCCGGTGTGATGACTTCAATGACGGCCCGAT
1 TAAGAAGAAAGTACCAAAACTTGCTATCCGGTGTGATGACTTCAATGACGGCCCGAT
*
34916417 TAAGAAGAAAGTACCAAAACTTGCTATCCGGTGTGATGACTTCGATGACGGCCCGA
1 TAAGAAGAAAGTACCAAAACTTGCTATCCGGTGTGATGACTTCAATGACGGCCCGA
34916473 CCACGCAAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (57 bp):
TAAGAAGAAAGTACCAAAACTTGCTATCCGGTGTGATGACTTCAATGACGGCCCGAT
Found at i:34917011 original size:27 final size:27
Alignment explanation
Indices: 34916981--34917130 Score: 140
Period size: 27 Copynumber: 5.5 Consensus size: 27
34916971 TATTGAGTCT
* *
34916981 GCACACTCAGTGCTATATAATCAACTC
1 GCACACTTAGTGCTACATAATCAACTC
* * *
34917008 GCACCCTTAGTGCTACGTAATCAAATC
1 GCACACTTAGTGCTACATAATCAACTC
* *
34917035 GCACACTTAGTGCTACATAGTCAAACGC
1 GCACACTTAGTGCTACATAATC-AACTC
** ** *
34917063 GCACACTTAGTGCCGCATGGTCAATTC
1 GCACACTTAGTGCTACATAATCAACTC
* **
34917090 GCACACTTAGTGC-ATCATATTCATTTC
1 GCACACTTAGTGCTA-CATAATCAACTC
34917117 GCACACTTAGTGCT
1 GCACACTTAGTGCT
34917131 GTACAATTCA
Statistics
Matches: 101, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
27 79 0.78
28 22 0.22
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
GCACACTTAGTGCTACATAATCAACTC
Found at i:34921364 original size:37 final size:37
Alignment explanation
Indices: 34921313--34921392 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 37
34921303 CTCAAGTCAC
*
34921313 ATCA-TAACGAATATAATCCTGAAATGATCTGGGTAG
1 ATCACTAACGAATATAATCCTGAAATGATCTAGGTAG
* *
34921349 ATCACTAATGAATATAATTCTGAAATGATCTAGGTAG
1 ATCACTAACGAATATAATCCTGAAATGATCTAGGTAG
34921386 ATCACTA
1 ATCACTA
34921393 TCTTAATAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
36 4 0.10
37 36 0.90
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (37 bp):
ATCACTAACGAATATAATCCTGAAATGATCTAGGTAG
Found at i:34921818 original size:23 final size:23
Alignment explanation
Indices: 34921791--34921836 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
34921781 ATCTAGGGAG
34921791 GATTGTTACATATTATTCAATCT
1 GATTGTTACATATTATTCAATCT
*
34921814 GATTGTTACGTATTATTCAATCT
1 GATTGTTACATATTATTCAATCT
34921837 AACCCTTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.48
Consensus pattern (23 bp):
GATTGTTACATATTATTCAATCT
Found at i:34938419 original size:31 final size:31
Alignment explanation
Indices: 34938381--34938443 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
34938371 TAAACCGAAA
34938381 TCATTTCTCATGAGTTCGGCATACATACCTG
1 TCATTTCTCATGAGTTCGGCATACATACCTG
*
34938412 TCATTTCTCATGAGTTTGGCATACATACCTG
1 TCATTTCTCATGAGTTCGGCATACATACCTG
34938443 T
1 T
34938444 GTTACTCAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (31 bp):
TCATTTCTCATGAGTTCGGCATACATACCTG
Found at i:34938806 original size:49 final size:48
Alignment explanation
Indices: 34938655--34938831 Score: 180
Period size: 49 Copynumber: 3.6 Consensus size: 48
34938645 GATAAGATGC
* *
34938655 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTATCA-C-ATCAAAGT
1 CGATGCCATGTCCCAGACA-GGTCTTACACTGGCTATCATCTATC-AGGT
* ** * *
34938703 CGATGCCATTTCCCAGACAGGTCTTACACTAACTTTCATATATCGAGG-
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTATCATCTATC-AGGT
* * * *
34938751 CTGATGCCGTGTCCTAGATAGGTCTTACACTGGCTCTCATCTATCAGTGT
1 C-GATGCCATGTCCCAGACAGGTCTTACACTGGCTATCATCTATCAG-GT
*
34938801 CGATGCCATGTCCCAGACAGGTCTTGCACTG
1 CGATGCCATGTCCCAGACAGGTCTTACACTG
34938832 ACACACAACA
Statistics
Matches: 104, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
47 16 0.15
48 20 0.19
49 67 0.64
50 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGGCTATCATCTATCAGGT
Found at i:34938959 original size:46 final size:45
Alignment explanation
Indices: 34938895--34939017 Score: 142
Period size: 46 Copynumber: 2.7 Consensus size: 45
34938885 TCTCGAGGCT
* *
34938895 GATGCATTTCCCAAACATGTCTTACACTAGCTCTCGTCTCAA-T-GCC
1 GATGCATTTCCCAGACATGTCTTACACTAGCTCT--TAT-AAGTAGCC
* * *
34938941 GATGCATGTCCCAGACATGTCTTACACTGGCTCTTATAATGTAGCT
1 GATGCATTTCCCAGACATGTCTTACACTAGCTCTTATAA-GTAGCC
*
34938987 AATGCATTTCCCAGACATGTCTTACACTAGC
1 GATGCATTTCCCAGACATGTCTTACACTAGC
34939018 ACACGTATCA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
43 2 0.03
44 2 0.03
45 1 0.02
46 61 0.92
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.31
Consensus pattern (45 bp):
GATGCATTTCCCAGACATGTCTTACACTAGCTCTTATAAGTAGCC
Found at i:34947831 original size:28 final size:27
Alignment explanation
Indices: 34947768--34947919 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
34947758 ATATTAAGTC
* *
34947768 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
34947795 CGCACACTTAGTGCTACACAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
34947823 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
34947850 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
34947878 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
34947905 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34947920 GCACAATTTA
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 65 0.56
28 52 0.44
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:34947852 original size:55 final size:55
Alignment explanation
Indices: 34947768--34947926 Score: 255
Period size: 55 Copynumber: 2.9 Consensus size: 55
34947758 ATATTAAGTC
* * *
34947768 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACACAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACACAATCAAACT
* *
34947823 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACACAATCAAACT
* *
34947878 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACAAT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACACAAT
34947927 TTAAACCCAC
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 95 1.00
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.25
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACACAATCAAACT
Found at i:34951119 original size:60 final size:60
Alignment explanation
Indices: 34951026--34951145 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
34951016 TTAGGGGGCA
*
34951026 AAAATGTAATTTTTGTATAATGTGATTTTTGGATTAAAATAGATAGTTTGAGTGTTAAAT
1 AAAATGTAATTTTTGTATAATGTGATTTTTGGATTAAAATAAATAGTTTGAGTGTTAAAT
34951086 AAAATGTAATTTTTGTATAATGTGATTTTTGGATTAAAATAAATAGTTTGAGTGTTAAAT
1 AAAATGTAATTTTTGTATAATGTGATTTTTGGATTAAAATAAATAGTTTGAGTGTTAAAT
34951146 GAGCTAAATA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (60 bp):
AAAATGTAATTTTTGTATAATGTGATTTTTGGATTAAAATAAATAGTTTGAGTGTTAAAT
Found at i:34951655 original size:66 final size:68
Alignment explanation
Indices: 34951526--34951655 Score: 174
Period size: 66 Copynumber: 1.9 Consensus size: 68
34951516 GGGATGTATC
* * *
34951526 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTGGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATGCGGCTAGGTCGAATGAGTGATACCAAGTGA
34951591 AGGACA
63 AGGACA
* *
34951597 CCATGTAGACAAGAGAGCTAC-GAGATAAAT-CGGCTAGGTCGAATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGATAAATGCGGCTAGGTCGAATGAGTGATACCAAGTG
34951656 TTCACCATGT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
66 24 0.44
67 9 0.17
71 21 0.39
ACGTcount: A:0.34, C:0.15, G:0.31, T:0.20
Consensus pattern (68 bp):
CCATGTAGACAAGAGAGCTACGGAGATAAATGCGGCTAGGTCGAATGAGTGATACCAAGTGAAGG
ACA
Found at i:34963176 original size:50 final size:48
Alignment explanation
Indices: 34963060--34963183 Score: 149
Period size: 50 Copynumber: 2.5 Consensus size: 48
34963050 CTGGTGTGCA
* ** *
34963060 TAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGC-TGCACTTAGTACTACACACGCGACCAACCATCCGATACACG
* *
34963109 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAG-CTGCACTTAGTACTACACACGCGACC-AACCATCCGATACACG
*
34963159 TAGTAGACTGCATTTAGTACTACAC
1 TAGTAG-CTGCACTTAGTACTACAC
34963184 TAATCCGGTA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
49 29 0.45
50 36 0.55
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (48 bp):
TAGTAGCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACG
Found at i:34966602 original size:48 final size:46
Alignment explanation
Indices: 34966537--34966656 Score: 145
Period size: 46 Copynumber: 2.6 Consensus size: 46
34966527 AAGCTGACAC
* * * *
34966537 CATGTCCCAG-TAGGTCTTACACTAGCT-TGTATATCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-TATA-AT-GAGGCTAATG
* *
34966584 CATGTCCCAGACATGTCTTACACTGGCTCTTATAATGTGGCTAATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTTATAATGAGGCTAATG
34966630 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
34966657 ACACATATCA
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
46 34 0.53
47 11 0.17
48 18 0.28
49 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTTATAATGAGGCTAATG
Found at i:34970477 original size:26 final size:26
Alignment explanation
Indices: 34970423--34970477 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
34970413 AATCTCTCTT
*
34970423 TCACTTTTCATACATATACTATTTCA
1 TCACTTTTCATACACATACTATTTCA
* *
34970449 TCACATTTTCTTACACATTCTATTT-A
1 TCAC-TTTTCATACACATACTATTTCA
34970475 TCA
1 TCA
34970478 ATATGATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 8 0.32
27 17 0.68
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (26 bp):
TCACTTTTCATACACATACTATTTCA
Found at i:34972345 original size:31 final size:31
Alignment explanation
Indices: 34972273--34972345 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
34972263 AATTCGAGTT
* *
34972273 ATTCGATTTTTTGAATAAACTTGAATAAAAA
1 ATTCAATTTTTCGAATAAACTTGAATAAAAA
* **
34972304 ATTTAATTTTTCGAATAAACTTGAATAAGTA
1 ATTCAATTTTTCGAATAAACTTGAATAAAAA
*
34972335 ATTCAGTTTTT
1 ATTCAATTTTT
34972346 TGAGTTTGAG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.44
Consensus pattern (31 bp):
ATTCAATTTTTCGAATAAACTTGAATAAAAA
Found at i:34973114 original size:3 final size:3
Alignment explanation
Indices: 34973106--34973134 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
34973096 AAGAACTTAT
34973106 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
34973135 TAGCTATTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:34975804 original size:19 final size:19
Alignment explanation
Indices: 34975780--34975817 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
34975770 ATTTGTGTTG
34975780 ATGTTACAATGTTGGTCAA
1 ATGTTACAATGTTGGTCAA
34975799 ATGTTACAATGTTGGTCAA
1 ATGTTACAATGTTGGTCAA
34975818 TCTTATAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.37
Consensus pattern (19 bp):
ATGTTACAATGTTGGTCAA
Found at i:34976082 original size:27 final size:29
Alignment explanation
Indices: 34976025--34976085 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 29
34976015 TATGTGACAG
* *
34976025 AATATAATTTCAAGTACTAATTAAATAAA
1 AATATAATTTCAAATACTAACTAAATAAA
* *
34976054 AATA-AATTT-AAATACTAACTAATTGAA
1 AATATAATTTCAAATACTAACTAAATAAA
34976081 AATAT
1 AATAT
34976086 TAGCCTTTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
27 18 0.67
28 5 0.19
29 4 0.15
ACGTcount: A:0.56, C:0.07, G:0.03, T:0.34
Consensus pattern (29 bp):
AATATAATTTCAAATACTAACTAAATAAA
Found at i:34980785 original size:15 final size:15
Alignment explanation
Indices: 34980765--34980799 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
34980755 TTTTGAGTAT
34980765 CTGTTATTATTCCGA
1 CTGTTATTATTCCGA
34980780 CTGTTATTATTCCGA
1 CTGTTATTATTCCGA
*
34980795 GTGTT
1 CTGTT
34980800 CAATGTGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.49
Consensus pattern (15 bp):
CTGTTATTATTCCGA
Found at i:34981721 original size:14 final size:15
Alignment explanation
Indices: 34981702--34981731 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
34981692 TCGACATAAC
34981702 CTTTTATG-ATTAAT
1 CTTTTATGCATTAAT
34981716 CTTTTATGCATTAAT
1 CTTTTATGCATTAAT
34981731 C
1 C
34981732 CTTAAGTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (15 bp):
CTTTTATGCATTAAT
Found at i:34996053 original size:29 final size:28
Alignment explanation
Indices: 34996021--34996077 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
34996011 GCGAGATAAA
* *
34996021 CTGATTTGGCTTCTGGCCATGCATATCAG
1 CTGATGTGGCTTCAGGCCATG-ATATCAG
34996050 CTGATGTGGCTTCAGGCCATGATATCAG
1 CTGATGTGGCTTCAGGCCATGATATCAG
34996078 TATTTCAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.32
Consensus pattern (28 bp):
CTGATGTGGCTTCAGGCCATGATATCAG
Found at i:35008018 original size:63 final size:64
Alignment explanation
Indices: 35007918--35008119 Score: 280
Period size: 63 Copynumber: 3.0 Consensus size: 64
35007908 GACCCCTAAT
35007918 TATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAGCAGGGAATCCAGAAACTGTTCTGGC
1 TATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAGCAGGGAATCCAGAAACTGTTCTGGC
* *
35007982 -ATCTCTGGTTAATTTATAATGAATTTCCAAATTCGGAGCAGGGAATCCAGAAACCGTTCTGGTC
1 TATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAGCAGGGAATCCAGAAACTGTTCT-G--
35008046 GACCCC
63 G----C
35008052 TAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAGCAGGGAATCCAGAAACTGTTCT
1 ----TATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAGCAGGGAATCCAGAAACTGTTCT
35008117 GGC
62 GGC
35008120 CCTGTCCCAC
Statistics
Matches: 122, Mismatches: 4, Indels: 20
0.84 0.03 0.14
Matches are distributed among these distances:
63 58 0.48
64 1 0.01
66 1 0.01
68 1 0.01
70 1 0.01
72 1 0.01
74 1 0.01
75 58 0.48
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.31
Consensus pattern (64 bp):
TATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAGCAGGGAATCCAGAAACTGTTCTGGC
Found at i:35009038 original size:27 final size:27
Alignment explanation
Indices: 35009008--35009186 Score: 191
Period size: 27 Copynumber: 6.6 Consensus size: 27
35008998 ATATTGAGCC
* * * *
35009008 CGCACACTCAGTGCTATATAATCATCT
1 CGCACACTTAGTGCTACATAGTCATAT
* * *
35009035 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCATAT
*
35009062 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCATA-T
** *
35009090 CGCACACTTAGTGCCGCATGGTCA-ATT
1 CGCACACTTAGTGCTACATAGTCATA-T
* *
35009117 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCATAT
*
35009144 CGCACACTTAGTGCAACATAGTCATAT
1 CGCACACTTAGTGCTACATAGTCATAT
35009171 CGCACACTTAGTGCTA
1 CGCACACTTAGTGCTA
35009187 TACAATTTAA
Statistics
Matches: 130, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 107 0.82
28 23 0.18
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCATAT
Found at i:35009147 original size:82 final size:81
Alignment explanation
Indices: 35009034--35009184 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 81
35009024 TATAATCATC
* *
35009034 TCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
35009099 AGTGCCGCATGGTCAAT
65 AGTGCCGCATGGTCAAT
* ** *
35009116 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCATATCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
35009180 AGTGC
65 AGTGC
35009185 TATACAATTT
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 16 0.26
82 46 0.74
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGGTCAAT
Found at i:35009754 original size:13 final size:13
Alignment explanation
Indices: 35009736--35009760 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35009726 TACTAAATTT
35009736 TCATGGATTCAAG
1 TCATGGATTCAAG
35009749 TCATGGATTCAA
1 TCATGGATTCAA
35009761 TATACCATTA
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:35011270 original size:21 final size:21
Alignment explanation
Indices: 35011246--35011305 Score: 111
Period size: 21 Copynumber: 2.9 Consensus size: 21
35011236 TGGAAAATAA
35011246 TTTATGAAAAAATATATTGAT
1 TTTATGAAAAAATATATTGAT
*
35011267 TTTATGAAAAAATATATTGTT
1 TTTATGAAAAAATATATTGAT
35011288 TTTATGAAAAAATATATT
1 TTTATGAAAAAATATATT
35011306 TGACCCTATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (21 bp):
TTTATGAAAAAATATATTGAT
Found at i:35013192 original size:16 final size:16
Alignment explanation
Indices: 35013171--35013203 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
35013161 TTGAGTGCTG
35013171 AGCATTAACAACAGAA
1 AGCATTAACAACAGAA
*
35013187 AGCATTAACAATAGAA
1 AGCATTAACAACAGAA
35013203 A
1 A
35013204 TTTGCATTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (16 bp):
AGCATTAACAACAGAA
Found at i:35013726 original size:84 final size:84
Alignment explanation
Indices: 35013578--35013759 Score: 292
Period size: 84 Copynumber: 2.2 Consensus size: 84
35013568 GTATTTTTAG
* * **
35013578 GATAGCGCCACTAATTCCTAAACCGTGCCACATAAAACGACGTAGTTTTCATTCGGTTTCTCATA
1 GATAGCGCCACTAATTCCTAAACCGCGCCACATAAAACGACATAGTTTTCATTCAATTTCTCATA
*
35013643 TTCTTAGTGGCATTTATAA
66 TTATTAGTGGCATTTATAA
*
35013662 GATAGCGCCACTAATTCCTAAACCGCGCCACATAAAACGACATAGTTTTCATTCAATTTTTCATA
1 GATAGCGCCACTAATTCCTAAACCGCGCCACATAAAACGACATAGTTTTCATTCAATTTCTCATA
*
35013727 TTATTAGTGGCGTTTATAA
66 TTATTAGTGGCATTTATAA
*
35013746 GATAGCACCACTAA
1 GATAGCGCCACTAA
35013760 ATCCACTACC
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
84 90 1.00
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (84 bp):
GATAGCGCCACTAATTCCTAAACCGCGCCACATAAAACGACATAGTTTTCATTCAATTTCTCATA
TTATTAGTGGCATTTATAA
Found at i:35014111 original size:15 final size:15
Alignment explanation
Indices: 35014091--35014121 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
35014081 AATCCCAAAA
35014091 CCAATACACTAAACC
1 CCAATACACTAAACC
*
35014106 CCAATACCCTAAACC
1 CCAATACACTAAACC
35014121 C
1 C
35014122 TGTAGACTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.45, G:0.00, T:0.13
Consensus pattern (15 bp):
CCAATACACTAAACC
Found at i:35014154 original size:42 final size:42
Alignment explanation
Indices: 35014107--35014238 Score: 138
Period size: 49 Copynumber: 3.0 Consensus size: 42
35014097 CACTAAACCC
* *
35014107 CAATACCCTAAACCCTGTAGACTAAACCCTAAACCAAATACA
1 CAATACCCTAAACCCTATAGACTAAACCCTAAACCCAATACA
*
35014149 CAATACCCTAAACCTTAAACACTATAGACTAAACCCTAAACCCAATACC
1 CAATACCCTAAA-C-----C-CTATAGACTAAACCCTAAACCCAATACA
* * **
35014198 CAATACCCTAAACCTTATAAACTAAATTCTAAACCCAATAC
1 CAATACCCTAAACCCTATAGACTAAACCCTAAACCCAATAC
35014239 CTTAAACCTT
Statistics
Matches: 76, Mismatches: 7, Indels: 14
0.78 0.07 0.14
Matches are distributed among these distances:
42 35 0.46
43 2 0.03
48 2 0.03
49 37 0.49
ACGTcount: A:0.45, C:0.33, G:0.02, T:0.20
Consensus pattern (42 bp):
CAATACCCTAAACCCTATAGACTAAACCCTAAACCCAATACA
Found at i:35014168 original size:49 final size:48
Alignment explanation
Indices: 35014088--35014214 Score: 166
Period size: 49 Copynumber: 2.6 Consensus size: 48
35014078 ATTAATCCCA
* * * *
35014088 AAACCAATACACTAA-ACCCCAATACCCTAAACCCTGTAGACTAAACCCT
1 AAACCAATACAC-AATACCCTAA-ACCTTAAACACTATAGACTAAACCCT
35014137 AAACCAAATACACAATACCCTAAACCTTAAACACTATAGACTAAACCCT
1 AAACC-AATACACAATACCCTAAACCTTAAACACTATAGACTAAACCCT
*
35014186 AAACCCAATACCCAATACCCTAAACCTTA
1 AAA-CCAATACACAATACCCTAAACCTTA
35014215 TAAACTAAAT
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
49 55 0.79
50 15 0.21
ACGTcount: A:0.46, C:0.35, G:0.02, T:0.17
Consensus pattern (48 bp):
AAACCAATACACAATACCCTAAACCTTAAACACTATAGACTAAACCCT
Found at i:35014170 original size:21 final size:21
Alignment explanation
Indices: 35014107--35014198 Score: 64
Period size: 21 Copynumber: 4.4 Consensus size: 21
35014097 CACTAAACCC
*
35014107 CAATACCCTAAACCCTGTAGAC-
1 CAATACCCTAAA-CCT-TAAACA
* *
35014129 TAA-ACCCTAAACC-AAATACA
1 CAATACCCTAAACCTTAA-ACA
35014149 CAATACCCTAAACCTTAAACA
1 CAATACCCTAAACCTTAAACA
* ** * *
35014170 CTATAGACTAAACCCTAAACC
1 CAATACCCTAAACCTTAAACA
35014191 CAATACCC
1 CAATACCC
35014199 AATACCCTAA
Statistics
Matches: 53, Mismatches: 13, Indels: 9
0.71 0.17 0.12
Matches are distributed among these distances:
18 1 0.02
19 2 0.04
20 4 0.08
21 42 0.79
22 4 0.08
ACGTcount: A:0.45, C:0.35, G:0.03, T:0.17
Consensus pattern (21 bp):
CAATACCCTAAACCTTAAACA
Found at i:35014230 original size:49 final size:49
Alignment explanation
Indices: 35014125--35014233 Score: 157
Period size: 49 Copynumber: 2.2 Consensus size: 49
35014115 TAAACCCTGT
*
35014125 AGACTAAACCCTAAACCAAATACACAATACCCTAAACCTTAAACACTAT
1 AGACTAAACCCTAAACCAAATACACAATACCCTAAACCTTAAACACTAA
* *
35014174 AGACTAAACCCTAAACCCAATACCCAATACCCTAAACCTTATAA-ACTAA
1 AGACTAAACCCTAAACCAAATACACAATACCCTAAACCTTA-AACACTAA
**
35014223 ATTCTAAACCC
1 AGACTAAACCC
35014234 AATACCTTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
49 52 0.96
50 2 0.04
ACGTcount: A:0.47, C:0.32, G:0.02, T:0.19
Consensus pattern (49 bp):
AGACTAAACCCTAAACCAAATACACAATACCCTAAACCTTAAACACTAA
Found at i:35014239 original size:42 final size:42
Alignment explanation
Indices: 35014099--35014246 Score: 124
Period size: 42 Copynumber: 3.5 Consensus size: 42
35014089 AACCAATACA
** * *
35014099 CTAAACCCCAATACCCTAAACCCTGTAGACTA-AACCCTAAA-C
1 CTAAA-CCCAATACCCTAAACCCTAAACACTATAA-ACTAAACC
* * * *
35014141 CAAATACACAATACCCTAAACCTTAAACACTATAGACTAAACC
1 CTAA-ACCCAATACCCTAAACCCTAAACACTATAAACTAAACC
**
35014184 CTAAACCCAATACCC-AATACCCTAAAC-CTTATAAACTAAATT
1 CTAAACCCAATACCCTAA-ACCCTAAACAC-TATAAACTAAACC
*
35014226 CTAAACCCAATACCTTAAACC
1 CTAAACCCAATACCCTAAACC
35014247 TTGAACTTAA
Statistics
Matches: 85, Mismatches: 15, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
41 3 0.04
42 74 0.87
43 8 0.09
ACGTcount: A:0.45, C:0.34, G:0.02, T:0.20
Consensus pattern (42 bp):
CTAAACCCAATACCCTAAACCCTAAACACTATAAACTAAACC
Found at i:35015335 original size:27 final size:27
Alignment explanation
Indices: 35015283--35015372 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
35015273 GTGACAGAGT
35015283 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
35015312 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
35015339 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
35015367 CACCAG
1 CACCAG
35015373 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:35015525 original size:28 final size:28
Alignment explanation
Indices: 35015478--35015541 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
35015468 AAATTAACCC
*
35015478 TAGGGGTATAGAGGTCATTTTGCATACA
1 TAGGGGTATAGAGGTAATTTTGCATACA
35015506 TAGGGGTATA-ATGGTAATTTTGCATACA
1 TAGGGGTATAGA-GGTAATTTTGCATACA
35015534 TAGGGGTA
1 TAGGGGTA
35015542 CTCTAGTACA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.30, C:0.08, G:0.30, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAGAGGTAATTTTGCATACA
Found at i:35023236 original size:26 final size:27
Alignment explanation
Indices: 35023176--35023254 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 27
35023166 GTGACAGAGT
35023176 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
*
35023205 CACCAGAACAGATATATGTGGCAG-GC
1 CACCAGAACAGATATTTGTGGCAGTGC
*
35023231 CACCAGAATAGATAATTTGTGGCA
1 CACCAGAACAGAT-ATTTGTGGCA
35023255 TAGCCACAGG
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
26 14 0.30
27 18 0.39
28 7 0.15
29 7 0.15
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:35023416 original size:28 final size:28
Alignment explanation
Indices: 35023369--35023460 Score: 150
Period size: 28 Copynumber: 3.3 Consensus size: 28
35023359 AAATTAACCC
*
35023369 TAGGGGTATAGA-GGTCATTTTGCATACA
1 TAGGGGTATA-ATGGTAATTTTGCATACA
35023397 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
*
35023425 TAGGGGTATAATGGTAATTTTGCAAACA
1 TAGGGGTATAATGGTAATTTTGCATACA
35023453 TAGGGGTA
1 TAGGGGTA
35023461 CTCTAGTACA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
27 1 0.02
28 60 0.98
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:35025577 original size:22 final size:21
Alignment explanation
Indices: 35025552--35025605 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
35025542 TTTTTACGAC
*
35025552 TTTAGGGTTTAT-GATTTAAGAG
1 TTTAGGATTTATAG-TTTAAG-G
35025574 TTTAGGATTTATAGTTTAAGG
1 TTTAGGATTTATAGTTTAAGG
35025595 TTT-GAGATTTA
1 TTTAG-GATTTA
35025606 AGGCCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 1 0.03
21 10 0.34
22 17 0.59
23 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (21 bp):
TTTAGGATTTATAGTTTAAGG
Done.