Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 121 of 216
Found at i:38463990 original size:43 final size:43
Alignment explanation
Indices: 38463943--38464169 Score: 197
Period size: 43 Copynumber: 5.3 Consensus size: 43
38463933 TCTGCCAAAA
* * *
38463943 TTAGTGGCGTTTTTTAAAAAAATGCCGCTAAAGTTCATGGTCT
1 TTAGCGGCGTTTTTTGAAAAAATGCCGCTAAAGATCATGGTCT
** * * * *
38463986 TTAGTAGCGTTTGTGGAAAAAACGCCGCTAATGATCATGGTCT
1 TTAGCGGCGTTTTTTGAAAAAATGCCGCTAAAGATCATGGTCT
* * * *
38464029 TTTGCGGCG-TTTGTGGAAAAATGCCGCTAAAGATCATGGTAT
1 TTAGCGGCGTTTTTTGAAAAAATGCCGCTAAAGATCATGGTCT
* * * * *
38464071 TTAGCGGCGTTTATGGGAAAAATCGCCGCTAAAGGTCATTGTCT
1 TTAGCGGCGTTTTTTGAAAAAAT-GCCGCTAAAGATCATGGTCT
* *** * **
38464115 TTAGCAGCGTTTTTTGGGTAAGTGCCGCTAAAGA-CTATGACCT
1 TTAGCGGCGTTTTTTGAAAAAATGCCGCTAAAGATC-ATGGTCT
38464158 TTAGCGGCGTTT
1 TTAGCGGCGTTT
38464170 ATTTCTAAAA
Statistics
Matches: 146, Mismatches: 35, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
42 35 0.24
43 77 0.53
44 34 0.23
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
TTAGCGGCGTTTTTTGAAAAAATGCCGCTAAAGATCATGGTCT
Found at i:38464039 original size:86 final size:87
Alignment explanation
Indices: 38463943--38464129 Score: 225
Period size: 85 Copynumber: 2.2 Consensus size: 87
38463933 TCTGCCAAAA
* * * * *
38463943 TTAGTGGCGTTTTTTAAAAAAATGCCGCTAAAGTTCATGGTCTTTAGTAGCGTTTGT-GGAAAAA
1 TTAGCGGCGTTTTTTAAAAAAATGCCGCTAAAGATCATGGTATTTAGCAGCGTTTATGGGAAAAA
*
38464007 ACGCCGCTAATGATCATGGTCT
66 ACGCCGCTAAAGATCATGGTCT
* * ** *
38464029 TTTGCGGCG-TTTGTGGAAAAATGCCGCTAAAGATCATGGTATTTAGCGGCGTTTATGGGAAAAA
1 TTAGCGGCGTTTTTTAAAAAAATGCCGCTAAAGATCATGGTATTTAGCAGCGTTTATGGGAAAAA
* * *
38464093 TCGCCGCTAAAGGTCATTGTCT
66 ACGCCGCTAAAGATCATGGTCT
*
38464115 TTAGCAGCGTTTTTT
1 TTAGCGGCGTTTTTT
38464130 GGGTAAGTGC
Statistics
Matches: 82, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
85 39 0.48
86 39 0.48
87 4 0.05
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.34
Consensus pattern (87 bp):
TTAGCGGCGTTTTTTAAAAAAATGCCGCTAAAGATCATGGTATTTAGCAGCGTTTATGGGAAAAA
ACGCCGCTAAAGATCATGGTCT
Found at i:38464060 original size:85 final size:86
Alignment explanation
Indices: 38463960--38464126 Score: 228
Period size: 85 Copynumber: 2.0 Consensus size: 86
38463950 CGTTTTTTAA
* * * * *
38463960 AAAAATGCCGCTAAAGTTCATGGTCTTTAGTAGCGTTTGT-GGAAAAAACGCCGCTAATGATCAT
1 AAAAATGCCGCTAAAGATCATGGTATTTAGCAGCGTTTATGGGAAAAAACGCCGCTAAAGATCAT
* *
38464024 GGTCTTTTGCGGCGTTTGTGG
66 GGTCTTTAGCAGCGTTTGTGG
* * *
38464045 AAAAATGCCGCTAAAGATCATGGTATTTAGCGGCGTTTATGGGAAAAATCGCCGCTAAAGGTCAT
1 AAAAATGCCGCTAAAGATCATGGTATTTAGCAGCGTTTATGGGAAAAAACGCCGCTAAAGATCAT
*
38464110 TGTCTTTAGCAGCGTTT
66 GGTCTTTAGCAGCGTTT
38464127 TTTGGGTAAG
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
85 35 0.50
86 35 0.50
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (86 bp):
AAAAATGCCGCTAAAGATCATGGTATTTAGCAGCGTTTATGGGAAAAAACGCCGCTAAAGATCAT
GGTCTTTAGCAGCGTTTGTGG
Found at i:38464064 original size:42 final size:42
Alignment explanation
Indices: 38463960--38464126 Score: 208
Period size: 43 Copynumber: 3.9 Consensus size: 42
38463950 CGTTTTTTAA
* *
38463960 AAAAATGCCGCTAAAGTTCATGGTCTTTAGTAGCGTTTGTGG
1 AAAAATGCCGCTAAAGATCATGGTCTTTAGCAGCGTTTGTGG
* * * *
38464002 AAAAAACGCCGCTAATGATCATGGTCTTTTGCGGCGTTTGTGG
1 -AAAAATGCCGCTAAAGATCATGGTCTTTAGCAGCGTTTGTGG
* * *
38464045 AAAAATGCCGCTAAAGATCATGGTATTTAGCGGCGTTTATGGG
1 AAAAATGCCGCTAAAGATCATGGTCTTTAGCAGCGTTTGT-GG
* *
38464088 AAAAATCGCCGCTAAAGGTCATTGTCTTTAGCAGCGTTT
1 AAAAAT-GCCGCTAAAGATCATGGTCTTTAGCAGCGTTT
38464127 TTTGGGTAAG
Statistics
Matches: 107, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
42 35 0.33
43 44 0.41
44 28 0.26
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (42 bp):
AAAAATGCCGCTAAAGATCATGGTCTTTAGCAGCGTTTGTGG
Found at i:38472638 original size:16 final size:16
Alignment explanation
Indices: 38472614--38472661 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
38472604 TAACAATTTC
38472614 TATTCAAAATAAGTAT
1 TATTCAAAATAAGTAT
* * *
38472630 TATTTAAAAAAAATAT
1 TATTCAAAATAAGTAT
*
38472646 CATTCAAGAATAAGTA
1 TATTCAA-AATAAGTA
38472662 CCACTTAAAA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
16 18 0.75
17 6 0.25
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.33
Consensus pattern (16 bp):
TATTCAAAATAAGTAT
Found at i:38479725 original size:16 final size:17
Alignment explanation
Indices: 38479698--38479730 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
38479688 GGCACTTTTA
*
38479698 AAAACAATGCAAGTAAC
1 AAAACAATGCAAATAAC
38479715 AAAAC-ATGCAAATAAC
1 AAAACAATGCAAATAAC
38479731 TCTATGATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.61, C:0.18, G:0.09, T:0.12
Consensus pattern (17 bp):
AAAACAATGCAAATAAC
Found at i:38483023 original size:20 final size:19
Alignment explanation
Indices: 38482994--38483033 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
38482984 CGGAAAATAA
38482994 TTTTTAGAAAATGATTTAC
1 TTTTTAGAAAATGATTTAC
38483013 TTTTCTAGAAAATGATTTAC
1 TTTT-TAGAAAATGATTTAC
38483033 T
1 T
38483034 GAAAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.47
Consensus pattern (19 bp):
TTTTTAGAAAATGATTTAC
Found at i:38486087 original size:6 final size:6
Alignment explanation
Indices: 38486076--38486112 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
38486066 TAGCCCAAGA
* *
38486076 GAAAGG GAAAGG GAAAAG GAAGGG GAAAGG GAAAGG G
1 GAAAGG GAAAGG GAAAGG GAAAGG GAAAGG GAAAGG G
38486113 GAAATGATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (6 bp):
GAAAGG
Found at i:38486124 original size:58 final size:59
Alignment explanation
Indices: 38486059--38486174 Score: 189
Period size: 58 Copynumber: 2.0 Consensus size: 59
38486049 TTGACCAAAC
* *
38486059 TGATTTGTAGCCCAAGAGAAAGGGAAAGGGAAAAGGAAGGGGAAA-GGGAAAGGGGAAA
1 TGATTTGTAGCCCAAGAGAAAGGGAAAAGGAAAAGGAAAGGGAAAGGGGAAAGGGGAAA
**
38486117 TGATTTGTAGCCCAAGAGAAAGGGAAAAGGAAGGGGAAAGGGAAAGGGGAAAGGGGAA
1 TGATTTGTAGCCCAAGAGAAAGGGAAAAGGAAAAGGAAAGGGAAAGGGGAAAGGGGAA
38486175 GGGGAAGGGG
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
58 41 0.77
59 12 0.23
ACGTcount: A:0.44, C:0.05, G:0.42, T:0.09
Consensus pattern (59 bp):
TGATTTGTAGCCCAAGAGAAAGGGAAAAGGAAAAGGAAAGGGAAAGGGGAAAGGGGAAA
Found at i:38486157 original size:7 final size:7
Alignment explanation
Indices: 38486147--38486192 Score: 62
Period size: 6 Copynumber: 7.0 Consensus size: 7
38486137 AGGGAAAAGG
38486147 AAGGGGA
1 AAGGGGA
38486154 AA-GGGA
1 AAGGGGA
38486160 AAGGGGA
1 AAGGGGA
38486167 AAGGGG-
1 AAGGGGA
38486173 AAGGGG-
1 AAGGGGA
38486179 AAGGGGA
1 AAGGGGA
*
38486186 GAGGGGA
1 AAGGGGA
38486193 GGAGAAGGCG
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
6 18 0.50
7 18 0.50
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (7 bp):
AAGGGGA
Found at i:38486165 original size:13 final size:13
Alignment explanation
Indices: 38486134--38486192 Score: 68
Period size: 13 Copynumber: 4.7 Consensus size: 13
38486124 TAGCCCAAGA
*
38486134 GAAA-GGGAAAAG
1 GAAAGGGGAAAGG
38486146 G-AAGGGGAAAGG
1 GAAAGGGGAAAGG
38486158 GAAAGGGGAAAGG
1 GAAAGGGGAAAGG
* *
38486171 GGAAGGGGAAGGG
1 GAAAGGGGAAAGG
*
38486184 GAGAGGGGA
1 GAAAGGGGA
38486193 GGAGAAGGCG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
11 2 0.05
12 9 0.22
13 29 0.73
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (13 bp):
GAAAGGGGAAAGG
Found at i:38488929 original size:47 final size:47
Alignment explanation
Indices: 38488875--38488971 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
38488865 TTATGTAAAT
*
38488875 GAACAAATACATAACTAAGAATGATATGATATAGATACAACGACAAA
1 GAACAAATAAATAACTAAGAATGATATGATATAGATACAACGACAAA
38488922 GAACAAATAAATAACTAAGAATGATATGATATAGATACAACGACAAA
1 GAACAAATAAATAACTAAGAATGATATGATATAGATACAACGACAAA
38488969 GAA
1 GAA
38488972 TAATGGATAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.57, C:0.11, G:0.13, T:0.19
Consensus pattern (47 bp):
GAACAAATAAATAACTAAGAATGATATGATATAGATACAACGACAAA
Found at i:38495171 original size:12 final size:12
Alignment explanation
Indices: 38495154--38495183 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
38495144 CCTCACACGC
38495154 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
38495166 CCGTGTGCTAGG
1 CCGTGTGCCAGG
38495178 CCGTGT
1 CCGTGT
38495184 AAAACCTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:38501968 original size:43 final size:45
Alignment explanation
Indices: 38501920--38502004 Score: 129
Period size: 43 Copynumber: 1.9 Consensus size: 45
38501910 TAAATCCAAT
* *
38501920 AACCCATGTTTATCTTCTCCTCTTTTT-AAATTCTTT-TTTCAAC
1 AACCCAAGATTATCTTCTCCTCTTTTTAAAATTCTTTCTTTCAAC
*
38501963 AACCCAAGATTATCTTCTCCTTTTTTTAAAATTCTTTCTTTC
1 AACCCAAGATTATCTTCTCCTCTTTTTAAAATTCTTTCTTTC
38502005 TAGGATAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 24 0.65
44 9 0.24
45 4 0.11
ACGTcount: A:0.22, C:0.25, G:0.02, T:0.51
Consensus pattern (45 bp):
AACCCAAGATTATCTTCTCCTCTTTTTAAAATTCTTTCTTTCAAC
Found at i:38503210 original size:100 final size:100
Alignment explanation
Indices: 38503036--38503240 Score: 284
Period size: 100 Copynumber: 2.0 Consensus size: 100
38503026 TGGTACCTAT
* * *
38503036 TTCAATGCTTCCGAACCAACTTGTAACATATTCACCTAATGTCAAACTCATCTAATCCAAAACAT
1 TTCAATGCTTCCAAACCAAATTGTAACATAGTCACCTAATGTCAAACTCATCTAATCCAAAACAT
* * * * *
38503101 GCATTAAACCATGCCAATCAAGTTTATGCACTCAA
66 GCATAAAACCATACCAATCAAATTTACGCACCCAA
* * * * * *
38503136 TTCAATGTTTCCAAACCAAATTGTGACATAGTCACCTAATGTCAAACTCATCTGATTCAAATCCT
1 TTCAATGCTTCCAAACCAAATTGTAACATAGTCACCTAATGTCAAACTCATCTAATCCAAAACAT
38503201 GCATAAAACCATACCAATCAAATTTACGCACCCAA
66 GCATAAAACCATACCAATCAAATTTACGCACCCAA
38503236 TTCAA
1 TTCAA
38503241 CTTCTTAACA
Statistics
Matches: 91, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
100 91 1.00
ACGTcount: A:0.38, C:0.27, G:0.08, T:0.28
Consensus pattern (100 bp):
TTCAATGCTTCCAAACCAAATTGTAACATAGTCACCTAATGTCAAACTCATCTAATCCAAAACAT
GCATAAAACCATACCAATCAAATTTACGCACCCAA
Found at i:38506365 original size:50 final size:49
Alignment explanation
Indices: 38506190--38506365 Score: 176
Period size: 50 Copynumber: 3.5 Consensus size: 49
38506180 TTAAGATAAT
* * *
38506190 GAGTTAC-TAATGGATGAC-TTCATTTAAAGATGCAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGACATT-ATTT-ATGATGC-AAC-TTAACTAACATGA
* * * *
38506241 GAGTTACATAATACATAACATAATTTATGATGCAATCTTCACTAACATGA
1 GAGTTACATAATGCATGACATTATTTATGATGCAA-CTTAACTAACATGA
** *
38506291 GAGTTACATAATGCATTTCATTATTTATGATGCATACGTAACTAACATGA
1 GAGTTACATAATGCATGACATTATTTATGATGCA-ACTTAACTAACATGA
* *
38506341 AAGTTACATAATGCATGACTTTATT
1 GAGTTACATAATGCATGACATTATT
38506366 AAATGCAAAA
Statistics
Matches: 104, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
50 76 0.73
51 15 0.14
52 12 0.12
53 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (49 bp):
GAGTTACATAATGCATGACATTATTTATGATGCAACTTAACTAACATGA
Found at i:38507095 original size:14 final size:14
Alignment explanation
Indices: 38507076--38507102 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
38507066 ACATAGATCA
38507076 ATTCATATCATATT
1 ATTCATATCATATT
38507090 ATTCATATCATAT
1 ATTCATATCATAT
38507103 GCACGAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTCATATCATATT
Found at i:38515343 original size:20 final size:20
Alignment explanation
Indices: 38515318--38515355 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
38515308 GTCACTAAAT
38515318 AACAATCAGATACTAAGAAC
1 AACAATCAGATACTAAGAAC
38515338 AACAATCAGATACTAAGA
1 AACAATCAGATACTAAGA
38515356 CTTCACTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.18, G:0.11, T:0.16
Consensus pattern (20 bp):
AACAATCAGATACTAAGAAC
Found at i:38519555 original size:18 final size:18
Alignment explanation
Indices: 38519518--38519555 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
38519508 CAGTGCGGGG
*
38519518 TCATCATCTTCTATCTCT
1 TCATCATCCTCTATCTCT
38519536 TCATCATCCTC-ATCTGCT
1 TCATCATCCTCTATCT-CT
38519554 TC
1 TC
38519556 CTCTTCCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.16, C:0.37, G:0.03, T:0.45
Consensus pattern (18 bp):
TCATCATCCTCTATCTCT
Found at i:38524981 original size:21 final size:22
Alignment explanation
Indices: 38524957--38525003 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
38524947 TGTTTAGAAC
*
38524957 AATAATA-TGTTAT-AATATTAA
1 AATAATATTGTAATAAAT-TTAA
38524978 AATAATATTGTAATAAATTTAA
1 AATAATATTGTAATAAATTTAA
38525000 AATA
1 AATA
38525004 TACTAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 13 0.57
23 3 0.13
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (22 bp):
AATAATATTGTAATAAATTTAA
Found at i:38529816 original size:22 final size:24
Alignment explanation
Indices: 38529766--38529817 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 24
38529756 TTGCAATGCT
38529766 TTTATATTTTAATAATTGAGTATTA
1 TTTATATTTTAAT-ATTGAGTATTA
38529791 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATAT-TTTAATATTGAGTATTA
38529812 TTTATA
1 TTTATA
38529818 AATAAATCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
21 3 0.12
22 6 0.24
23 4 0.16
24 6 0.24
25 6 0.24
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.60
Consensus pattern (24 bp):
TTTATATTTTAATATTGAGTATTA
Found at i:38530008 original size:20 final size:20
Alignment explanation
Indices: 38529983--38530022 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
38529973 AATATTTTCC
*
38529983 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
38530003 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
38530023 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:38530028 original size:34 final size:35
Alignment explanation
Indices: 38529971--38530037 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
38529961 CAAACACTAG
*
38529971 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
38530006 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
38530038 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:38530029 original size:14 final size:14
Alignment explanation
Indices: 38530006--38530045 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
38529996 ACAGAAAAGT
*
38530006 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
38530020 AAATCATTTTACGG
1 AAAACATTTTACAG
38530034 AAAACATTTTAC
1 AAAACATTTTAC
38530046 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:38535756 original size:19 final size:19
Alignment explanation
Indices: 38535732--38535823 Score: 148
Period size: 19 Copynumber: 4.8 Consensus size: 19
38535722 AATCATATCT
38535732 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
38535751 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
38535770 TCTAAGATTGCATATGATA
1 TCTAAGATTGCATATCATA
38535789 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
38535808 ACGAAGATTGCATATC
1 TCTAAGATTGCATATC
38535824 CTTGAAGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:38535781 original size:38 final size:38
Alignment explanation
Indices: 38535709--38535823 Score: 149
Period size: 38 Copynumber: 2.9 Consensus size: 38
38535699 AAATTAAATC
*
38535709 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATCATA---TCTAAGATTGCATATCATA
*
38535751 TCTAAGATTACATATCATATCTAAGATTGCATATGATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
* * *
38535789 TCTAAGATTGCATATCATAACGAAGATTGCATATC
1 TCTAAGATTACATATCATATCTAAGATTGCATATC
38535824 CTTGAAGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
38 49 0.73
41 7 0.10
42 11 0.16
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:38536440 original size:45 final size:45
Alignment explanation
Indices: 38536382--38536501 Score: 161
Period size: 45 Copynumber: 2.7 Consensus size: 45
38536372 TAGTCTACCT
* *
38536382 CACTGCAATTTCAGGG-GCATAAGACTTGATTTCTTGAGTCTGCTC
1 CACTGCAACTTCAGGGAG-ATAAGACTCGATTTCTTGAGTCTGCTC
* * *
38536427 CACTACAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTCTGCTC
1 CACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTCTGCTC
* *
38536472 CATTGCAACTTCAGGGAGATAAGACCCGAT
1 CACTGCAACTTCAGGGAGATAAGACTCGAT
38536502 GCGATTTGCT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
45 64 0.98
46 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (45 bp):
CACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTCTGCTC
Found at i:38536574 original size:44 final size:44
Alignment explanation
Indices: 38536517--38536625 Score: 114
Period size: 44 Copynumber: 2.5 Consensus size: 44
38536507 TTGCTCTCTA
* * *
38536517 CAACATCAGAGAGATAAGATCTGTT-ATTTTAATCCGCTCCACTG
1 CAACTTCAGAGAGATAAGAT-TATTGACTTTAATCCGCTCCACTG
** * * *
38536561 TGACTTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTG
1 CAACTTCAGAGAGATAAGATTATTGACTTTAATCCGCTCCACTG
38536605 CAACTTCATG-GAGATAAGATT
1 CAACTTCA-GAGAGATAAGATT
38536626 CGCCATCTTC
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
43 3 0.06
44 48 0.92
45 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.31
Consensus pattern (44 bp):
CAACTTCAGAGAGATAAGATTATTGACTTTAATCCGCTCCACTG
Found at i:38537061 original size:44 final size:43
Alignment explanation
Indices: 38536985--38537109 Score: 155
Period size: 44 Copynumber: 2.8 Consensus size: 43
38536975 AAGATCTGCT
* * *
38536985 ATTTTCATCCTACTCCACTGTTGCTCAGGGAGATAGGA-TTCACA
1 ATTTTCAACCTATTCCACTGCTGC-CAGGGAGATAGGACTT-ACA
38537029 ATCTTT-AACCTATTCCACTGCTGACCAGGGAGATAGGACTTACA
1 AT-TTTCAACCTATTCCACTGCTG-CCAGGGAGATAGGACTTACA
*
38537073 ATTTTCAACCTATTCCACTGCTGTCCCGGGAGATAGG
1 ATTTTCAACCTATTCCACTGCTG-CCAGGGAGATAGG
38537110 GCTAGGGTCA
Statistics
Matches: 72, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
43 3 0.04
44 63 0.88
45 6 0.08
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (43 bp):
ATTTTCAACCTATTCCACTGCTGCCAGGGAGATAGGACTTACA
Found at i:38537232 original size:88 final size:87
Alignment explanation
Indices: 38537122--38537510 Score: 580
Period size: 88 Copynumber: 4.4 Consensus size: 87
38537112 TAGGGTCATT
* *
38537122 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAACC
1 GATCTGCTTCGCTGTC-GTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCC
38537187 AGGGAGGCAAGGCTGGTGTCTTC
65 AGGGAGGCAAGGCTGGTGTCTTC
* * *
38537210 GATTTGCTTCGCTGTCTGTGCAGGAAGGAAACATCTGCTATTTTTAACCTGCTCCGCTACAACCC
1 GATCTGCTTCGCTGTC-GTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCC
*
38537275 AGGGAGGCGAGGCTGGTGTCTTC
65 AGGGAGGCAAGGCTGGTGTCTTC
* * *
38537298 GATCTGCTTCGCTGTCCGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTGCAACCC
1 GATCTGCTTCGCTGT-CGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCC
* *
38537363 AGGAAGGCAAGGCTGGTGTTTTC
65 AGGGAGGCAAGGCTGGTGTCTTC
*
38537386 GATCTGCTTCGCTATCGATGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCC
1 GATCTGCTTCGCTGTCG-TGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCC
*
38537451 AGGGAGGCAAGGTTGGTGTCTTC
65 AGGGAGGCAAGGCTGGTGTCTTC
* * * *
38537474 AATCTGCTTCGTTTTCAGTGTAGGAAGGCAAGATCTG
1 GATCTGCTTCGCTGTC-GTGCAGGAAGGCAAGATCTG
38537511 TTATCTTCAC
Statistics
Matches: 271, Mismatches: 27, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
87 2 0.01
88 267 0.99
89 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (87 bp):
GATCTGCTTCGCTGTCGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCA
GGGAGGCAAGGCTGGTGTCTTC
Found at i:38537372 original size:44 final size:44
Alignment explanation
Indices: 38537142--38537461 Score: 187
Period size: 44 Copynumber: 7.3 Consensus size: 44
38537132 GCTGTCGGTG
* *
38537142 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAAC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTGCAACC
* * * * * ** ** ****
38537186 CAGGGAGGCAAG-GCTGGTGTCTTCGATTTGCTTCGCTGTCTGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTG-CAACC
* * * *
38537230 CAGGAAGGAAACATCTGCTATTTTTAACCTGCTCCGCTACAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTGCAACC
* * * * * * ** * ****
38537274 CAGGGAGGCGAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCCGTA
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTG-CAACC
38537318 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTGCAACC
* * * ** * * * **
38537362 CAGGAAGGCAAG-GCTGGTGTTTTCGATCTGCTTCGCTATCGATG
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCT-GCAACC
* *
38537406 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTGCAACC
*
38537450 CAGGGAGGCAAG
1 CAGGAAGGCAAG
38537462 GTTGGTGTCT
Statistics
Matches: 187, Mismatches: 83, Indels: 12
0.66 0.29 0.04
Matches are distributed among these distances:
43 53 0.28
44 81 0.43
45 53 0.28
ACGTcount: A:0.22, C:0.25, G:0.27, T:0.26
Consensus pattern (44 bp):
CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTGCAACC
Found at i:38538858 original size:14 final size:15
Alignment explanation
Indices: 38538835--38538867 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
38538825 ATTGACGCTT
38538835 TTCCAAATAAGG-CC
1 TTCCAAATAAGGTCC
*
38538849 TTCCACATAAGGTCC
1 TTCCAAATAAGGTCC
38538864 TTCC
1 TTCC
38538868 CAGCTTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.27
Consensus pattern (15 bp):
TTCCAAATAAGGTCC
Found at i:38547628 original size:30 final size:30
Alignment explanation
Indices: 38547571--38547629 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
38547561 GCCTTTTGAA
* * *
38547571 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATACTTACAAAAAGAGACACCAAATTTTT
38547601 AATACTTACAAAAAGAG-CAACCAAATTTT
1 AATACTTACAAAAAGAGAC-ACCAAATTTT
38547630 GAAAATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.49, C:0.14, G:0.07, T:0.31
Consensus pattern (30 bp):
AATACTTACAAAAAGAGACACCAAATTTTT
Found at i:38565203 original size:25 final size:25
Alignment explanation
Indices: 38565153--38565211 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
38565143 TTGATCGGCC
*
38565153 AACCCAGTTTGCACCTTGACTAGCG
1 AACCCAGTTTGCAACTTGACTAGCG
* *
38565178 AACCCTGTTTGCAACTT-ACCTGGCG
1 AACCCAGTTTGCAACTTGA-CTAGCG
*
38565203 AACACAGTT
1 AACCCAGTT
38565212 CTTCACACAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (25 bp):
AACCCAGTTTGCAACTTGACTAGCG
Found at i:38567614 original size:34 final size:34
Alignment explanation
Indices: 38567567--38567635 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
38567557 TAACAAGAGA
*
38567567 TAGAAAATAATATTTTATCACTTTTATAGATGAC
1 TAGAAAATAATATTTTATCACTTTTATAAATGAC
*
38567601 TAGAAAATGATATTTTATCACTTTTATAAATGAC
1 TAGAAAATAATATTTTATCACTTTTATAAATGAC
38567635 T
1 T
38567636 TCTCTATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.42
Consensus pattern (34 bp):
TAGAAAATAATATTTTATCACTTTTATAAATGAC
Found at i:38571184 original size:25 final size:21
Alignment explanation
Indices: 38571135--38571175 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
38571125 ATGTAGTGAT
38571135 GTTAGTTATTAAATATAGTTG
1 GTTAGTTATTAAATATAGTTG
*
38571156 GTTAGTTGTTAAATATAGTT
1 GTTAGTTATTAAATATAGTT
38571176 AGGAGGTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.49
Consensus pattern (21 bp):
GTTAGTTATTAAATATAGTTG
Found at i:38581682 original size:29 final size:31
Alignment explanation
Indices: 38581644--38581704 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 31
38581634 TTGATAATTA
*
38581644 ATGTACCACATTAGACATCTT-C-AAAGTAC
1 ATGTAACACATTAGACATCTTACGAAAGTAC
* *
38581673 ATGTAACACATTGGACATTTTACGAAAGTAC
1 ATGTAACACATTAGACATCTTACGAAAGTAC
38581704 A
1 A
38581705 AATACTATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 18 0.67
30 1 0.04
31 8 0.30
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (31 bp):
ATGTAACACATTAGACATCTTACGAAAGTAC
Found at i:38581785 original size:92 final size:92
Alignment explanation
Indices: 38581619--38581797 Score: 218
Period size: 92 Copynumber: 1.9 Consensus size: 92
38581609 AATAAGTACC
* * **
38581619 ATAATGAAACATATATTGATAATTAATGTACCACATTAGACATCTTCAAAGTACATGTAACACAT
1 ATAATAAAACATATATTGATAATTAATGTACCACATTAGACATCTTAAAAGTACAAATAACACAT
**
38581684 TGGACATTTTACGAAAGTACAAATACT
66 TAAACATTTTACGAAAGTACAAATACT
* * *
38581711 ATAATAAAACATATATTGATAGTTTAA-GTACCACA-TATACATCTTTAAAAGTACAAATATCAC
1 ATAATAAAACATATATTGATA-ATTAATGTACCACATTAGACATC-TTAAAAGTACAAATAACAC
* **
38581774 ATTAAATATTTTGTGAAAGTACAA
64 ATTAAACATTTTACGAAAGTACAA
38581798 GTATCAAAAG
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
91 7 0.10
92 62 0.85
93 4 0.05
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.32
Consensus pattern (92 bp):
ATAATAAAACATATATTGATAATTAATGTACCACATTAGACATCTTAAAAGTACAAATAACACAT
TAAACATTTTACGAAAGTACAAATACT
Found at i:38583629 original size:28 final size:28
Alignment explanation
Indices: 38583595--38583650 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
38583585 CATTTAAGAT
38583595 TAAACTCAGTGAAACAAACCACCAAAAG
1 TAAACTCAGTGAAACAAACCACCAAAAG
38583623 TAAACTCAGTGAAACAAACCACCAAAAG
1 TAAACTCAGTGAAACAAACCACCAAAAG
38583651 AATGAAATGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.54, C:0.25, G:0.11, T:0.11
Consensus pattern (28 bp):
TAAACTCAGTGAAACAAACCACCAAAAG
Found at i:38586873 original size:19 final size:18
Alignment explanation
Indices: 38586850--38586907 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
38586840 AATTCTACCA
38586850 TTTCTTTTCTTTTCTTTT
1 TTTCTTTTCTTTTCTTTT
*
38586868 TGTTCTTTCCTTGTTCTTTAT
1 T-TTCTTTTCTT-TTCTTT-T
*
38586889 TTCCTTTGT-TTTTCTTTT
1 TTTCTTT-TCTTTTCTTTT
38586907 T
1 T
38586908 ATATTTTTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
18 3 0.09
19 15 0.45
20 13 0.39
21 2 0.06
ACGTcount: A:0.02, C:0.17, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTCTTTTCTTTTCTTTT
Found at i:38593423 original size:18 final size:18
Alignment explanation
Indices: 38593400--38593439 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
38593390 TTTTTACGTA
38593400 AATAAAAATGTTACAAAG
1 AATAAAAATGTTACAAAG
* *
38593418 AATAAAGATGTTGCAAAG
1 AATAAAAATGTTACAAAG
38593436 AATA
1 AATA
38593440 CTATACTAGT
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:0.57, C:0.05, G:0.15, T:0.23
Consensus pattern (18 bp):
AATAAAAATGTTACAAAG
Found at i:38603245 original size:6 final size:6
Alignment explanation
Indices: 38603215--38603263 Score: 62
Period size: 6 Copynumber: 7.5 Consensus size: 6
38603205 GTGGTGGACC
38603215 GGAGGT GGAATGGT GGATTGGT GGAGGT GGAGGT GGAGGT GGAGGT GGA
1 GGAGGT GG-A-GGT GGA--GGT GGAGGT GGAGGT GGAGGT GGAGGT GGA
38603264 TTTTCGATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
6 26 0.65
7 2 0.05
8 12 0.30
ACGTcount: A:0.18, C:0.00, G:0.61, T:0.20
Consensus pattern (6 bp):
GGAGGT
Found at i:38608898 original size:29 final size:29
Alignment explanation
Indices: 38608844--38608905 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
38608834 ATAACCCTAT
* *
38608844 GCTCACATGCATTGCTCGTCTACAT-GGA
1 GCTCACATGCATAGCTCGTATACATGGGA
* *
38608872 GCTCACAGTTCATAGCTCGTATGCATGGGA
1 GCTCACA-TGCATAGCTCGTATACATGGGA
38608902 GCTC
1 GCTC
38608906 GCAGAACACA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 7 0.25
29 14 0.50
30 7 0.25
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.27
Consensus pattern (29 bp):
GCTCACATGCATAGCTCGTATACATGGGA
Found at i:38609391 original size:17 final size:16
Alignment explanation
Indices: 38609360--38609393 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
38609350 ATTCAACTGA
38609360 TATCCTTTATTTCTCT
1 TATCCTTTATTTCTCT
*
38609376 TATCCATTTCTTTCTCT
1 TATCC-TTTATTTCTCT
38609393 T
1 T
38609394 TTGTTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.12, C:0.26, G:0.00, T:0.62
Consensus pattern (16 bp):
TATCCTTTATTTCTCT
Found at i:38613182 original size:41 final size:41
Alignment explanation
Indices: 38613120--38613307 Score: 225
Period size: 41 Copynumber: 4.6 Consensus size: 41
38613110 GCTTTCGGTA
* **
38613120 CTTTAGCGGCGTTTTTCAAAAAGCGTCGCTAATGCTTGGGG
1 CTTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTTGGGG
* * * *
38613161 CTTTAGCGGCGGTTTTGAAAAAGCGCTGCTAATGATTGGGG
1 CTTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTTGGGG
* * *
38613202 CTTTAGCGGCGTTTTTGAAAAAACACCACTAATGCTCGGGG
1 CTTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTTGGGG
* * * **
38613243 CTTTAACGGCATTTTTGAAAAAGCACCGCTAATGC-TCGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTTGGGG
*
38613283 CTTTAGCGGCGTTTTTAAAAAAGCA
1 CTTTAGCGGCGTTTTTGAAAAAGCA
38613308 ACGCAAAAAA
Statistics
Matches: 124, Mismatches: 23, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
40 23 0.19
41 101 0.81
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTTGGGG
Found at i:38613753 original size:7 final size:7
Alignment explanation
Indices: 38613616--38613734 Score: 71
Period size: 7 Copynumber: 16.7 Consensus size: 7
38613606 TATCACTATA
*
38613616 GTTTAAG
1 GTTTATG
*
38613623 GTTTTTG
1 GTTTATG
*
38613630 GTTTAGG
1 GTTTATG
*
38613637 GTATATG
1 GTTTATG
**
38613644 GTTTACA
1 GTTTATG
*
38613651 GTTTAAG
1 GTTTATG
*
38613658 GTTTAGG
1 GTTTATG
38613665 AGTTACTAT-
1 -GTT--TATG
*
38613674 -TTTAAG
1 GTTTATG
38613680 GTTTATG
1 GTTTATG
**
38613687 GAATATGG
1 GTTTAT-G
*
38613695 GTTTAGG
1 GTTTATG
*
38613702 GATTATG
1 GTTTATG
38613709 GTTTATG
1 GTTTATG
38613716 GTTTATG
1 GTTTATG
38613723 GTTTATG
1 GTTTATG
38613730 GTTTA
1 GTTTA
38613735 AAGGCTAGGG
Statistics
Matches: 83, Mismatches: 23, Indels: 12
0.70 0.19 0.10
Matches are distributed among these distances:
5 2 0.02
7 72 0.87
8 7 0.08
10 2 0.02
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.48
Consensus pattern (7 bp):
GTTTATG
Found at i:38613790 original size:6 final size:7
Alignment explanation
Indices: 38613693--38613803 Score: 77
Period size: 7 Copynumber: 16.0 Consensus size: 7
38613683 TATGGAATAT
38613693 GGGTTTA
1 GGGTTTA
*
38613700 GGGATTA
1 GGGTTTA
*
38613707 TGGTTTA
1 GGGTTTA
*
38613714 TGGTTTA
1 GGGTTTA
*
38613721 TGGTTTA
1 GGGTTTA
*
38613728 TGGTTTAA
1 GGGTTT-A
* *
38613736 AGG-CTA
1 GGGTTTA
38613742 GGGTTTA
1 GGGTTTA
*
38613749 AGGTTTA
1 GGGTTTA
38613756 GAGGTTGT-
1 G-GGTT-TA
* *
38613764 GTGTTAA
1 GGGTTTA
38613771 GGGTTTA
1 GGGTTTA
38613778 GGG-TTA
1 GGGTTTA
38613784 -GGTTTA
1 GGGTTTA
38613790 GGGTTTA
1 GGGTTTA
38613797 GGGTTTA
1 GGGTTTA
38613804 AATTAACTAG
Statistics
Matches: 84, Mismatches: 13, Indels: 14
0.76 0.12 0.13
Matches are distributed among these distances:
5 2 0.02
6 9 0.11
7 64 0.76
8 8 0.10
9 1 0.01
ACGTcount: A:0.19, C:0.01, G:0.37, T:0.43
Consensus pattern (7 bp):
GGGTTTA
Found at i:38613794 original size:19 final size:18
Alignment explanation
Indices: 38613743--38613801 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 18
38613733 TAAAGGCTAG
*
38613743 GGTTTAAGGTTTAGAGGTT
1 GGTTTAGGGTTTAG-GGTT
38613762 GTGTGTTAAGGGTTTAGGGTT
1 G-GT-TT-AGGGTTTAGGGTT
38613783 AGGTTTAGGGTTTAGGGTT
1 -GGTTTAGGGTTTAGGGTT
38613802 TAAATTAACT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 14 0.40
20 4 0.11
21 8 0.23
22 9 0.26
ACGTcount: A:0.17, C:0.00, G:0.41, T:0.42
Consensus pattern (18 bp):
GGTTTAGGGTTTAGGGTT
Found at i:38622002 original size:22 final size:22
Alignment explanation
Indices: 38621953--38622002 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
38621943 ACTAATGCAG
* * * *
38621953 CTGACTCTGCTAACCAGAGTAG
1 CTGACCCTACTAACCAGAGCAA
*
38621975 CCGACCCTACTAACCAGAGCAA
1 CTGACCCTACTAACCAGAGCAA
38621997 CTGACC
1 CTGACC
38622003 ACTATAAACC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.30, C:0.36, G:0.18, T:0.16
Consensus pattern (22 bp):
CTGACCCTACTAACCAGAGCAA
Found at i:38625003 original size:21 final size:21
Alignment explanation
Indices: 38624977--38625017 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
38624967 AGACGAGCAA
* *
38624977 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
38624998 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
38625018 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:38632268 original size:9 final size:9
Alignment explanation
Indices: 38632192--38632267 Score: 82
Period size: 9 Copynumber: 8.4 Consensus size: 9
38632182 GTAGTGATTC
*
38632192 AATTTGGTT
1 AATTCGGTT
*
38632201 AATTCGGGT
1 AATTCGGTT
38632210 AATTCGGTT
1 AATTCGGTT
**
38632219 AATTCGGAA
1 AATTCGGTT
*
38632228 AATTCTAG-T
1 AATTC-GGTT
38632237 AATTCGGTT
1 AATTCGGTT
38632246 AATTCGGTT
1 AATTCGGTT
*
38632255 AATTTGGTT
1 AATTCGGTT
38632264 AATT
1 AATT
38632268 TTTAACCAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
8 1 0.02
9 54 0.96
10 1 0.02
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:38632697 original size:9 final size:9
Alignment explanation
Indices: 38632685--38632762 Score: 59
Period size: 9 Copynumber: 8.6 Consensus size: 9
38632675 AAAATTAGAA
38632685 AAAAATTAT
1 AAAAATTAT
*
38632694 AAAAATCAT
1 AAAAATTAT
**
38632703 AAAAGAAAAT
1 AAAA-ATTAT
*
38632713 AAAAATTGT
1 AAAAATTAT
*
38632722 AAAATTTTAT
1 AAAA-ATTAT
*
38632732 AAAAATCAT
1 AAAAATTAT
* *
38632741 AAAAAATAC
1 AAAAATTAT
38632750 AAAAA-TAT
1 AAAAATTAT
38632758 AAAAA
1 AAAAA
38632763 AATTTATAAA
Statistics
Matches: 53, Mismatches: 14, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
8 7 0.13
9 32 0.60
10 14 0.26
ACGTcount: A:0.69, C:0.04, G:0.03, T:0.24
Consensus pattern (9 bp):
AAAAATTAT
Found at i:38632706 original size:19 final size:18
Alignment explanation
Indices: 38632684--38632763 Score: 72
Period size: 19 Copynumber: 4.3 Consensus size: 18
38632674 AAAAATTAGA
38632684 AAAAAATTATAAAAATCAT
1 AAAAAA-TATAAAAATCAT
* **
38632703 AAAAGAAAATAAAAATTGT
1 AAAA-AATATAAAAATCAT
**
38632722 AAAATTTTATAAAAATCAT
1 AAAA-AATATAAAAATCAT
*
38632741 AAAAAATACAAAAAT-AT
1 AAAAAATATAAAAATCAT
38632758 AAAAAA
1 AAAAAA
38632764 ATTTATAAAG
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
17 8 0.17
18 8 0.17
19 30 0.62
20 2 0.04
ACGTcount: A:0.70, C:0.04, G:0.03, T:0.24
Consensus pattern (18 bp):
AAAAAATATAAAAATCAT
Found at i:38632769 original size:38 final size:38
Alignment explanation
Indices: 38632674--38632772 Score: 119
Period size: 38 Copynumber: 2.6 Consensus size: 38
38632664 AATTTTTATT
* *
38632674 AAAAATTAGAAAAAAATTATAAAAATCATAAAAGAAAAT
1 AAAAATTA-AAAAAATTTATAAAAATCATAAAAGAAAAC
** * *
38632713 AAAAATTGTAAAATTTTATAAAAATCATAAAA-AATAC
1 AAAAATTAAAAAAATTTATAAAAATCATAAAAGAAAAC
38632750 AAAAATATAAAAAAATTTATAAA
1 AAAAAT-TAAAAAAATTTATAAA
38632773 GTCGAAAGAA
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
37 9 0.18
38 34 0.68
39 7 0.14
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (38 bp):
AAAAATTAAAAAAATTTATAAAAATCATAAAAGAAAAC
Found at i:38632821 original size:30 final size:31
Alignment explanation
Indices: 38632750--38632823 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
38632740 TAAAAAATAC
* *
38632750 AAAAATATAAAAAAATTTATAAAGTCGAAAG
1 AAAATTATAAAAAAATATATAAAGTCGAAAG
* *
38632781 AAAATAATAAAAAAATATA-AAATTCGTAAA-
1 AAAATTATAAAAAAATATATAAAGTCG-AAAG
*
38632811 AGAATTATAAAAA
1 AAAATTATAAAAA
38632824 TTATCATATC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
30 17 0.47
31 19 0.53
ACGTcount: A:0.68, C:0.03, G:0.07, T:0.23
Consensus pattern (31 bp):
AAAATTATAAAAAAATATATAAAGTCGAAAG
Found at i:38634496 original size:37 final size:37
Alignment explanation
Indices: 38634444--38634514 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
38634434 AATGAAATAC
* * * *
38634444 GAATGCTTTATATATTTATAGAACAGATGTCTAATTT
1 GAATGCTTTAAATATTCACAGAAAAGATGTCTAATTT
38634481 GAATGCTTTAAATATTCACAGAAAAGATGTCTAA
1 GAATGCTTTAAATATTCACAGAAAAGATGTCTAA
38634515 GCCGGAAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (37 bp):
GAATGCTTTAAATATTCACAGAAAAGATGTCTAATTT
Found at i:38637307 original size:91 final size:91
Alignment explanation
Indices: 38637187--38637424 Score: 408
Period size: 91 Copynumber: 2.6 Consensus size: 91
38637177 TACGTATGAT
* * *
38637187 CACTTATCAC-TTGTC-CCTGATCAAATAAGTGTAGCTAGGTTACCACTTATCACTTTGTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
38637250 GATCAGATAAGTGTAGCTAAAGCTAC
66 GATCAGATAAGTGTAGCTAAAGCTAC
38637276 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
38637341 GATCAGATAAGTGTAGCTAAAGCTAC
66 GATCAGATAAGTGTAGCTAAAGCTAC
* *
38637367 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTACCACTTATCACTT
38637425 ATCAGAAGTA
Statistics
Matches: 141, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
89 10 0.07
90 5 0.04
91 109 0.77
92 17 0.12
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (91 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
GATCAGATAAGTGTAGCTAAAGCTAC
Found at i:38637428 original size:53 final size:46
Alignment explanation
Indices: 38637187--38637424 Score: 394
Period size: 46 Copynumber: 5.3 Consensus size: 46
38637177 TACGTATGAT
* * * *
38637187 CACTTATCAC-TTGTC-CCTGATCAAATAAGTGTAGCT-AGGTTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
38637230 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
38637276 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
38637321 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
38637367 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
38637413 CACTTATCACTT
1 CACTTATCACTT
38637425 ATCAGAAGTA
Statistics
Matches: 184, Mismatches: 7, Indels: 5
0.94 0.04 0.03
Matches are distributed among these distances:
43 10 0.05
44 5 0.03
45 63 0.34
46 106 0.58
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:38652334 original size:22 final size:23
Alignment explanation
Indices: 38652309--38652361 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 23
38652299 ACTTATTGCC
38652309 ATTGATGT-ATTATGCCAATATA
1 ATTGATGTGATTATGCCAATATA
*
38652331 ATTGAT-TGATTGTGCCAATATA
1 ATTGATGTGATTATGCCAATATA
*
38652353 ATTTATGTG
1 ATTGATGTG
38652362 TTAAAAGATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 1 0.04
22 24 0.89
23 2 0.07
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (23 bp):
ATTGATGTGATTATGCCAATATA
Found at i:38654815 original size:16 final size:17
Alignment explanation
Indices: 38654796--38654831 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
38654786 TTGTTTTATG
*
38654796 TTTCTT-TCTTTTTCTT
1 TTTCTTCTCTTTTACTT
38654812 TTTCTTCTCTTTTACTT
1 TTTCTTCTCTTTTACTT
38654829 TTT
1 TTT
38654832 GCTCTACTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTCTTCTCTTTTACTT
Found at i:38654824 original size:17 final size:16
Alignment explanation
Indices: 38654783--38654831 Score: 55
Period size: 17 Copynumber: 3.1 Consensus size: 16
38654773 TCTTTACTTC
* *
38654783 TCTTTGTTTTA-TGTT
1 TCTTTCTTTTACTTTT
*
38654798 TCTTTCTTTTTCTTTT
1 TCTTTCTTTTACTTTT
38654814 TCTTCTCTTTTACTTTT
1 TCTT-TCTTTTACTTTT
38654831 T
1 T
38654832 GCTCTACTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 9 0.32
16 7 0.25
17 12 0.43
ACGTcount: A:0.04, C:0.16, G:0.04, T:0.76
Consensus pattern (16 bp):
TCTTTCTTTTACTTTT
Found at i:38657290 original size:22 final size:23
Alignment explanation
Indices: 38657260--38657303 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
38657250 CAACCAATTT
38657260 ATTTCAACATATTT-TCAAGATAG
1 ATTTCAACATATTTAT-AAGATAG
38657283 ATTT-AACATATTTATAAGATA
1 ATTTCAACATATTTATAAGATA
38657304 ACCTCATCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (23 bp):
ATTTCAACATATTTATAAGATAG
Found at i:38661562 original size:18 final size:18
Alignment explanation
Indices: 38661517--38661563 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
38661507 GTACATACAT
*
38661517 TTTGTTATCTGTTATTCTA
1 TTTG-TATCTGGTATTCTA
*
38661536 -TTATATCTGGTATTCTA
1 TTTGTATCTGGTATTCTA
38661553 TTTGTATCTGG
1 TTTGTATCTGG
38661564 CTATGGGGCG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.17, C:0.11, G:0.15, T:0.57
Consensus pattern (18 bp):
TTTGTATCTGGTATTCTA
Found at i:38662063 original size:20 final size:20
Alignment explanation
Indices: 38662040--38662077 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
38662030 GACATTTGGG
*
38662040 TTTATTTTTGGATTTGGACT
1 TTTATTTTGGGATTTGGACT
*
38662060 TTTATTTTGGGTTTTGGA
1 TTTATTTTGGGATTTGGA
38662078 ATGACATTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.03, G:0.24, T:0.61
Consensus pattern (20 bp):
TTTATTTTGGGATTTGGACT
Found at i:38665642 original size:29 final size:29
Alignment explanation
Indices: 38665579--38665646 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
38665569 TAATCAACCA
38665579 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
38665608 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
38665637 CGCACACTTA
1 CGCACACTTA
38665647 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:38665765 original size:174 final size:175
Alignment explanation
Indices: 38665467--38665795 Score: 518
Period size: 174 Copynumber: 1.9 Consensus size: 175
38665457 AACTCAAGGT
* *
38665467 ACTTACCTTTTTCCGCTGTCCAAAATTGACTCGGGAAAGTCGCACCCTTCATGTAAATAATTTTA
1 ACTTACCTTTTTCCGCTGTCCAAAATCGACTCGGGAAAGTCGCACCCTTAATGTAAATAATTTTA
* * * *
38665532 TAGAAAATATATATTGGGTTGCACACATAACGTTTAGTAATCAACCACGCACACTTAGTGCCATG
66 TAAAAAATATATATTGGGTTACACACATAACGCTTAATAATCAACCACGCACACTTAGTGCCATG
38665597 CACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 CACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
38665642 ACTTACC-TTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAA-TTTA
1 ACTTACCTTTTTCCGCTGTCCAAAATCGACTCGGGAAAGTCGCACCCTTAATGTAAATAATTTTA
** *
38665705 TAAAAAATATATATTGGGTTCACACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCAT
66 TAAAAAATATATATTGGGTT-ACACACATAACGCTTAATAATCAACCACGCACACTTAGTGCCAT
* **
38665770 GTACTTTAAACTTGCACACTTAGTGC
130 GCACTTTAAACTCACACACTTAGTGC
38665796 TGTACAATTT
Statistics
Matches: 140, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
173 23 0.16
174 110 0.79
175 7 0.05
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (175 bp):
ACTTACCTTTTTCCGCTGTCCAAAATCGACTCGGGAAAGTCGCACCCTTAATGTAAATAATTTTA
TAAAAAATATATATTGGGTTACACACATAACGCTTAATAATCAACCACGCACACTTAGTGCCATG
CACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:38665788 original size:29 final size:30
Alignment explanation
Indices: 38665748--38665826 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
38665738 CTTAATAATC
38665748 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
**
38665778 AACTTGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
38665807 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
38665827 ATCTCATGAC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 31 0.76
30 4 0.10
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:38673803 original size:29 final size:29
Alignment explanation
Indices: 38673740--38673807 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
38673730 TAATCAACCA
38673740 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
38673769 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
38673798 CGCACACTTA
1 CGCACACTTA
38673808 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:38673948 original size:29 final size:30
Alignment explanation
Indices: 38673909--38673987 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
38673899 CTTAATAATC
38673909 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
38673939 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
38673968 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
38673988 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:38673981 original size:174 final size:173
Alignment explanation
Indices: 38673630--38673981 Score: 519
Period size: 173 Copynumber: 2.0 Consensus size: 173
38673620 AACTCAAGGT
* *
38673630 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
38673695 GAAAATATATACTGGGTTGCACACATAACGTTTAGTAATCAACCACGCACACTTAGTGCCATGCA
66 GAAAATATATACTGGGTTGCACACATAACGCTTAATAATCAACCACGCACACTTAGTGCCATGCA
* ***
38673760 CTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 CTTTAAACTCACACACTTAGTGCCATACATTTCAAACCCGCAC
38673803 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* ** *
38673868 GAAAAT-TAATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATG
66 GAAAATAT-ATACTGGGTT-GCACACATAACGCTTAATAATCAACCACGCACACTTAGTGCCATG
* * **
38673932 TACTTTAAACTCGCACACTTAGTGCTGTACAATTT-AAACCCGCAC
129 CACTTTAAACTCACACACTTAGTGCCATAC-ATTTCAAACCCGCAC
38673977 ACTTA
1 ACTTA
38673982 GTGCCAATCT
Statistics
Matches: 160, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
172 1 0.01
173 78 0.49
174 77 0.48
175 4 0.03
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.30
Consensus pattern (173 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATACTGGGTTGCACACATAACGCTTAATAATCAACCACGCACACTTAGTGCCATGCA
CTTTAAACTCACACACTTAGTGCCATACATTTCAAACCCGCAC
Found at i:38688013 original size:54 final size:54
Alignment explanation
Indices: 38687930--38688051 Score: 172
Period size: 54 Copynumber: 2.3 Consensus size: 54
38687920 AAATAGGGGC
* * *
38687930 CACACGACCATGTCCCCTAATCTTATGCGAGAGATAAGCCCGTGTGAGGTGGGT
1 CACACGGCCGTGTCCCCTAATCGTATGCGAGAGATAAGCCCGTGTGAGGTGGGT
* * * * *
38687984 CACACGGTCGTGTCCCCTAATCGTGTGCGAGAGCTAAGCTCGTTTGAGGTGGGT
1 CACACGGCCGTGTCCCCTAATCGTATGCGAGAGATAAGCCCGTGTGAGGTGGGT
38688038 CACACGGCCGTGTC
1 CACACGGCCGTGTC
38688052 ACTGGGTCAT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.20, C:0.27, G:0.30, T:0.23
Consensus pattern (54 bp):
CACACGGCCGTGTCCCCTAATCGTATGCGAGAGATAAGCCCGTGTGAGGTGGGT
Found at i:38690462 original size:18 final size:18
Alignment explanation
Indices: 38690439--38690478 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
38690429 CTTCCAGGTC
38690439 GTTACAATAACTAACTTG
1 GTTACAATAACTAACTTG
*
38690457 GTTACAATAGCTAACTTG
1 GTTACAATAACTAACTTG
38690475 GTTA
1 GTTA
38690479 GTATATTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (18 bp):
GTTACAATAACTAACTTG
Found at i:38690991 original size:24 final size:24
Alignment explanation
Indices: 38690959--38691007 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
38690949 AAATAAATTA
38690959 TGATACGACCATTCTGAAGACAAG
1 TGATACGACCATTCTGAAGACAAG
38690983 TGATACGACCATTCTGAAGACAAG
1 TGATACGACCATTCTGAAGACAAG
38691007 T
1 T
38691008 CCATGGCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.22
Consensus pattern (24 bp):
TGATACGACCATTCTGAAGACAAG
Found at i:38692015 original size:31 final size:31
Alignment explanation
Indices: 38691929--38692026 Score: 115
Period size: 31 Copynumber: 3.2 Consensus size: 31
38691919 ACACCGGTAA
* * *
38691929 ATAGTACCTAATAAAATATAAACACCAACAC
1 ATAGTACCTGATAAAATATAAACATCAGCAC
* * * * *
38691960 ATTGTGCCTGATACAATAAAAACATCAGTAC
1 ATAGTACCTGATAAAATATAAACATCAGCAC
*
38691991 ATAGTACCTGCTAAAATATAAACATCAGCAC
1 ATAGTACCTGATAAAATATAAACATCAGCAC
38692022 ATAGT
1 ATAGT
38692027 GCCTACTATA
Statistics
Matches: 53, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 53 1.00
ACGTcount: A:0.47, C:0.20, G:0.09, T:0.23
Consensus pattern (31 bp):
ATAGTACCTGATAAAATATAAACATCAGCAC
Found at i:38695750 original size:25 final size:26
Alignment explanation
Indices: 38695722--38695773 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
38695712 TAATTATAGA
*
38695722 TATAAATTACCGAATTTGAA-TGTTT
1 TATAAATTACCGAATTCGAATTGTTT
** *
38695747 TATATTTTGCCGAATTCGAATTGTTT
1 TATAAATTACCGAATTCGAATTGTTT
38695773 T
1 T
38695774 TGGTTATACA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.48
Consensus pattern (26 bp):
TATAAATTACCGAATTCGAATTGTTT
Found at i:38695862 original size:31 final size:31
Alignment explanation
Indices: 38695827--38695972 Score: 115
Period size: 31 Copynumber: 4.7 Consensus size: 31
38695817 AAATGATTCA
38695827 TATATGGCTGA-ACATTGCTGAAAATAATTTT
1 TATATGG-TGATACATTGCTGAAAATAATTTT
* * * *
38695858 TATATGGTTATTCATTGCTGAAATTGAA-TTA
1 TATATGGTGATACATTGCTGAAAAT-AATTTT
* * **
38695889 TATA-GGT-ATATAAGTTGCTG-AAATGATTCG
1 TATATGGTGATA-CA-TTGCTGAAAATAATTTT
38695919 TATATGGTTGA-ACATTGCTGAAAATAATTTT
1 TATATGG-TGATACATTGCTGAAAATAATTTT
* *
38695950 TATATGGTTATACATTGTTGAAA
1 TATATGGTGATACATTGCTGAAA
38695973 TTAAATTGTT
Statistics
Matches: 89, Mismatches: 16, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
29 3 0.03
30 22 0.25
31 59 0.66
32 4 0.04
33 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.18, T:0.41
Consensus pattern (31 bp):
TATATGGTGATACATTGCTGAAAATAATTTT
Found at i:38695992 original size:92 final size:92
Alignment explanation
Indices: 38695774--38696002 Score: 304
Period size: 92 Copynumber: 2.5 Consensus size: 92
38695764 GAATTGTTTT
* *
38695774 TGGTTATACATTGCTG--A-TATATTGTATAT-AACATAAGTTGCCGAAATGATTCATATATGGC
1 TGGTTATACATTGCTGAAATTAAATTGTATATGAATATAAGTTGCCGAAATGATTCATATATGGC
38695835 TGAACATTGCTGAAAATAATTTTTATA
66 TGAACATTGCTGAAAATAATTTTTATA
* * * * * * * *
38695862 TGGTTATTCATTGCTGAAATTGAATTATATAGGTATATAAGTTGCTGAAATGATTCGTATATGGT
1 TGGTTATACATTGCTGAAATTAAATTGTATATGAATATAAGTTGCCGAAATGATTCATATATGGC
38695927 TGAACATTGCTGAAAATAATTTTTATA
66 TGAACATTGCTGAAAATAATTTTTATA
* * * *
38695954 TGGTTATACATTGTTGAAATTAAATTGTTTATGAATATAGGATGCCGAA
1 TGGTTATACATTGCTGAAATTAAATTGTATATGAATATAAGTTGCCGAA
38696003 TTTGATTTGT
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
88 15 0.13
90 1 0.01
91 8 0.07
92 93 0.79
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.40
Consensus pattern (92 bp):
TGGTTATACATTGCTGAAATTAAATTGTATATGAATATAAGTTGCCGAAATGATTCATATATGGC
TGAACATTGCTGAAAATAATTTTTATA
Found at i:38696036 original size:31 final size:31
Alignment explanation
Indices: 38695978--38696131 Score: 111
Period size: 31 Copynumber: 5.0 Consensus size: 31
38695968 TGAAATTAAA
* *
38695978 TTGTTTATGAATATAGGA-TGCCGAATTTGAT
1 TTGTATATGAATATA-CATTGCCGAATTTGAT
* *
38696009 TTGTATATGATTATACATTGCCAAATTTGAT
1 TTGTATATGAATATACATTGCCGAATTTGAT
* * *
38696040 TCT-TATATTG-TTATATATTGCCGAA-TTGCT
1 T-TGTATA-TGAATATACATTGCCGAATTTGAT
* * * **
38696070 TGGTATATCAATATTCATTGTTGAATTTGAT
1 TTGTATATGAATATACATTGCCGAATTTGAT
* * *
38696101 TCGTATATGAATATATATTGCTGAA-TTGAT
1 TTGTATATGAATATACATTGCCGAATTTGAT
38696131 T
1 T
38696132 GGAGCATTAG
Statistics
Matches: 97, Mismatches: 20, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
29 1 0.01
30 26 0.27
31 67 0.69
32 3 0.03
ACGTcount: A:0.29, C:0.08, G:0.16, T:0.46
Consensus pattern (31 bp):
TTGTATATGAATATACATTGCCGAATTTGAT
Found at i:38702577 original size:26 final size:26
Alignment explanation
Indices: 38702541--38702594 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
38702531 TATGTATAAC
38702541 CATGTACTCAATTTGGTCAAAATGAT
1 CATGTACTCAATTTGGTCAAAATGAT
38702567 CATGTACTCAATTTGGTCAAAATGAT
1 CATGTACTCAATTTGGTCAAAATGAT
38702593 CA
1 CA
38702595 ACTAACTTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (26 bp):
CATGTACTCAATTTGGTCAAAATGAT
Found at i:38712762 original size:50 final size:50
Alignment explanation
Indices: 38712638--38712934 Score: 310
Period size: 50 Copynumber: 5.8 Consensus size: 50
38712628 GATAATAACA
* ** * *
38712638 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * **
38712687 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * ** *
38712737 TGCCCATGCCATGTCCCAAACATGGTCTTACAAAGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * *
38712787 TGCCAACGCCGTGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
38712837 TGCCAACGCCATGTCCCAGACATGGTCTTACATAGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC--GG
* * *
38712892 ATGCCAATGCCATATCCCAGACATAGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
38712935 TTACCCAAAT
Statistics
Matches: 208, Mismatches: 32, Indels: 9
0.84 0.13 0.04
Matches are distributed among these distances:
48 1 0.00
49 40 0.19
50 126 0.61
53 2 0.01
55 2 0.01
56 37 0.18
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:38714941 original size:18 final size:18
Alignment explanation
Indices: 38714914--38714948 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38714904 TTTAAATATT
*
38714914 TAAAATTTAAAATTTTAA
1 TAAAAATTAAAATTTTAA
*
38714932 TAAAAATTAATATTTTA
1 TAAAAATTAAAATTTTA
38714949 TTATATTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAAAAATTAAAATTTTAA
Found at i:38715851 original size:44 final size:46
Alignment explanation
Indices: 38715769--38715862 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 46
38715759 AAAAAATTGG
* *
38715769 GTTTGGGGGGAAGTAAAAGTTTTGGAGAGAAAGTAAAAGGAAAAAA
1 GTTTGGGGGAAAGTAAAAGTTTTGGAGAGAAAATAAAAGGAAAAAA
* *
38715815 GTTT-GGGGAAAGTAAAGGTTTT-GAGGGAAAATAAAAGGAAAAAA
1 GTTTGGGGGAAAGTAAAAGTTTTGGAGAGAAAATAAAAGGAAAAAA
38715859 GTTT
1 GTTT
38715863 TGGAGGGTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 24 0.55
45 16 0.36
46 4 0.09
ACGTcount: A:0.45, C:0.00, G:0.33, T:0.22
Consensus pattern (46 bp):
GTTTGGGGGAAAGTAAAAGTTTTGGAGAGAAAATAAAAGGAAAAAA
Found at i:38715865 original size:45 final size:46
Alignment explanation
Indices: 38715769--38715865 Score: 135
Period size: 45 Copynumber: 2.2 Consensus size: 46
38715759 AAAAAATTGG
* * *
38715769 GTTTGGGGGGAAGTAAAAGTTTTGGAGAGAAAGTAAAAGGAAAAAA
1 GTTTTGGGGAAAGTAAAAGTTTTGGAGAGAAAATAAAAGGAAAAAA
* *
38715815 G-TTTGGGGAAAGTAAAGGTTTT-GAGGGAAAATAAAAGGAAAAAA
1 GTTTTGGGGAAAGTAAAAGTTTTGGAGAGAAAATAAAAGGAAAAAA
38715859 GTTTTGG
1 GTTTTGG
38715866 AGGGTTTGGG
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
44 21 0.47
45 23 0.51
46 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.34, T:0.23
Consensus pattern (46 bp):
GTTTTGGGGAAAGTAAAAGTTTTGGAGAGAAAATAAAAGGAAAAAA
Found at i:38724181 original size:14 final size:15
Alignment explanation
Indices: 38724157--38724189 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
38724147 TCCCAAGCTG
38724157 GGAAGGACCTTATGT
1 GGAAGGACCTTATGT
*
38724172 GGAA-GACCTTATTT
1 GGAAGGACCTTATGT
38724186 GGAA
1 GGAA
38724190 AAGCGTCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATGT
Found at i:38724280 original size:5 final size:5
Alignment explanation
Indices: 38724265--38724298 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
38724255 AGAAATATTT
38724265 CAAAA -AAAA CAAAA CAAAA CAAAA CAAAA CAAAA
1 CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA
38724299 AAAGGAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (5 bp):
CAAAA
Found at i:38725709 original size:88 final size:88
Alignment explanation
Indices: 38725552--38725775 Score: 322
Period size: 88 Copynumber: 2.5 Consensus size: 88
38725542 TGAAGAGAGT
* * * *
38725552 AGATCTTGCCTTCCTACACTGATAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTA
1 AGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTTA
*
38725617 CAGCGAAGCAGGTTAAAAATAAC
66 CAGCGAAGCAGGCTAAAAATAAC
* * * * * *
38725640 AGATCTTGCCTTCCTGCACCAACAGCGAAACAAATCGAAGACACCAGCCTTGCCTTCCTAGGTTG
1 AGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTTA
* *
38725705 CAGCGGAGCAGGCTAAAAATAGC
66 CAGCGAAGCAGGCTAAAAATAAC
38725728 AGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACATCCAG
1 AGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACA-CCAG
38725776 TCTTATCTCC
Statistics
Matches: 118, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
88 114 0.97
89 4 0.03
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (88 bp):
AGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTTA
CAGCGAAGCAGGCTAAAAATAAC
Found at i:38726091 original size:173 final size:173
Alignment explanation
Indices: 38725907--38726287 Score: 393
Period size: 173 Copynumber: 2.2 Consensus size: 173
38725897 TTAAGCCTAT
* * * * *
38725907 AATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAATC-ACAGATCTTATCTCTCTAAAGTT
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAACCTACA-ATCCTATCTCCCTAAAGTT
* * * *
38725971 GCA-AAGAGC-AGA-TCACATC-TAG-TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAATA
65 GCAGAAGAGCGA-ATTAAAATCACAGATCTTATCTCCCTAAAGTTGCAG-AGAGCAGA-T-AAT-
*
38726031 AGC-AGGTCTTATCCCCCTAAAGTTGCAGTGGGGCAGACCTAAAATGGCG
125 AGCTA-GTCTTATCCCCCTAAAGTTGCAGTGGGGCAGACCCAAAATGGCG
* * * *
38726080 AATCTTATCTCCCTGGAA-TTGCAGTGGAGCAGATTTAAGCCTATAATCCTATCTCCCTAAAGTT
1 AATCTTATCT-CCTTGAAGTTGCAGTGGAGCAGATTAAAACCTACAATCCTATCTCCCTAAAGTT
** * * * * *
38726144 GCAGTGGAGCGAATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCTGATCATATCTA
65 GCAGAAGAGCGAATTAAAATCACAGATCTTATCTCCCTAAAGTTGCAGAGAGCAGATAATAGCTA
* * *
38726209 GTCTTATCTCCCTGAAGTTGCAGTGGGGCGGACCCAAAATGGCG
130 GTCTTATCCCCCTAAAGTTGCAGTGGGGCAGACCCAAAATGGCG
*
38726253 AAACTTATCT-CTCTGAAGTTGCAGTGGAGCAGATT
1 AATCTTATCTCCT-TGAAGTTGCAGTGGAGCAGATT
38726288 TAAGCTTATA
Statistics
Matches: 172, Mismatches: 26, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
171 2 0.01
172 3 0.02
173 116 0.67
174 16 0.09
175 7 0.04
176 8 0.05
177 20 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (173 bp):
AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAACCTACAATCCTATCTCCCTAAAGTTG
CAGAAGAGCGAATTAAAATCACAGATCTTATCTCCCTAAAGTTGCAGAGAGCAGATAATAGCTAG
TCTTATCCCCCTAAAGTTGCAGTGGGGCAGACCCAAAATGGCG
Found at i:38726104 original size:89 final size:88
Alignment explanation
Indices: 38725993--38726412 Score: 367
Period size: 89 Copynumber: 4.8 Consensus size: 88
38725983 TCACATCTAG
* **
38725993 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAATAAGC-A-GGTCTTATCCCCCTAAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T--ATAAGCTATAATCTTATCCCCCTAAAGTTG
38726056 CAGTGGGGCAGACCTAAAATGGCGAA
63 CAGTGGGGCAGACCTAAAATGGCGAA
* * *
38726082 TCTTATCTCCCTGGAA-TTGCAGTGGAGCAGATTTAAGCCTATAATCCTATCTCCCTAAAGTTGC
1 TCTTATCTCCCT-GAAGTTGCAGTGGAGCAGATATAAG-CTATAATCTTATCCCCCTAAAGTTGC
* ** **
38726146 AGTGGAGC-GAATTAAAATCAC-AGA
64 AGTGGGGCAGACCTAAAATGGCGA-A
* * * * * * *
38726170 TCTTATCTCTCTGAAGTTGCAG-AGAGCTGATCAT-A--TCTAGTCTTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-ATAAGCTATAATCTTATCCCCCTAAAGTTGCA
* *
38726231 GTGGGGCGGACCCAAAATGGCGAA
65 GTGGGGCAGACCTAAAATGGCGAA
* * * * * * *
38726255 ACTTATCTCTCTGAAGTTGCAGTGGAGCAGATTTAAGCTTATAATCTTATCCCCCTGAGGTTTCC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATATAAGC-TATAATCTTATCCCCCTAAAGTTGCA
* *
38726320 GTGGGGCAGA-CTGAAGTGGGCGAA
65 GTGGGGCAGACCTAAAAT-GGCGAA
* * * *
38726344 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAGGTCAATAATCCTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATATAA-G-CTATAATCTTATCCCCCTAAAGTTGC
38726408 AGTGG
64 AGTGG
38726413 AGCGGATTAA
Statistics
Matches: 267, Mismatches: 47, Indels: 34
0.77 0.14 0.10
Matches are distributed among these distances:
84 28 0.10
85 31 0.12
86 13 0.05
87 13 0.05
88 37 0.14
89 142 0.53
90 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (88 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATATAAGCTATAATCTTATCCCCCTAAAGTTGCAG
TGGGGCAGACCTAAAATGGCGAA
Found at i:38726149 original size:217 final size:217
Alignment explanation
Indices: 38725768--38726234 Score: 783
Period size: 217 Copynumber: 2.2 Consensus size: 217
38725758 CAGATCGAAG
* *
38725768 ACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGCAGGTCTTATCCCCCTG
1 ACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGCAGGTCTTATCCCCCTA
*
38725833 AAGTTGCAGTGGGGCAGACCCAAAATGGCGAATCTTATCTCCCAAAAGTTGCAATGGAGCATATT
66 AAGTTGCAGTGGGGCAGACCCAAAATGGCGAATCTTATCTCCCAAAAGTTGCAATGGAGCAGATT
* * *
38725898 TAAGCCTATAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCT
131 TAAGCCTATAATCCTATCTCCCTAAAGTTGCAGTGGAGCGAATTAAAATCACAGATCTTATCTCT
38725963 CTAAAGTTGCAAAGAGCAGATC
196 CTAAAGTTGCAAAGAGCAGATC
*
38725985 ACATCTAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAATAAGCAGGTCTTATCCCCCTA
1 ACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGCAGGTCTTATCCCCCTA
* ** *
38726050 AAGTTGCAGTGGGGCAGACCTAAAATGGCGAATCTTATCTCCCTGGAA-TTGCAGTGGAGCAGAT
66 AAGTTGCAGTGGGGCAGACCCAAAATGGCGAATCTTATCTCCC-AAAAGTTGCAATGGAGCAGAT
38726114 TTAAGCCTATAATCCTATCTCCCTAAAGTTGCAGTGGAGCGAATTAAAATCACAGATCTTATCTC
130 TTAAGCCTATAATCCTATCTCCCTAAAGTTGCAGTGGAGCGAATTAAAATCACAGATCTTATCTC
* * *
38726179 TCTGAAGTTGCAGAGAGCTGATC
195 TCTAAAGTTGCAAAGAGCAGATC
*
38726202 ATATCTAGTCTTATCTCCCTGAAGTTGCAGTGG
1 ACATCTAGTCTTATCTCCCTGAAGTTGCAGTGG
38726235 GGCGGACCCA
Statistics
Matches: 233, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
217 231 0.99
218 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.27
Consensus pattern (217 bp):
ACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGCAGGTCTTATCCCCCTA
AAGTTGCAGTGGGGCAGACCCAAAATGGCGAATCTTATCTCCCAAAAGTTGCAATGGAGCAGATT
TAAGCCTATAATCCTATCTCCCTAAAGTTGCAGTGGAGCGAATTAAAATCACAGATCTTATCTCT
CTAAAGTTGCAAAGAGCAGATC
Found at i:38726421 original size:44 final size:44
Alignment explanation
Indices: 38725776--38726446 Score: 270
Period size: 44 Copynumber: 15.3 Consensus size: 44
38725766 AGACATCCAG
**
38725776 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAA-G-CA-GG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT---TAAGGTCATAA
* * ** *
38725820 TCTTATCCCCCTGAAGTTGCAGTGGGGCAGACCCAAAATGG-C-GAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA--CTTAA-GGTCATAA
** * * * *
38725865 TCTTATCTCCCAAAAGTTGCAATGGAGCATATTTAA-GCCTATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTTAAGGTC-ATAA
* * * ** *
38725909 TCCTATCTCCTTGAAGTTGCAGTGGAGCGGA-TTAAAATCACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTTAAGGTCATA-A
* * ** * *
38725953 TCTTATCTCTCTAAAGTTGCA-AAGAGCAGA-TCACA--TC-TAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTTA-AGGTCATAA
* **
38725993 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAATAA-G-CA-GG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT---TAAGGTCATAA
* * * * *
38726037 TCTTATCCCCCTAAAGTTGCAGTGGGGCAGACCTAAAATGG-C-GAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CT-TAA-GGTCATAA
* *
38726082 TCTTATCTCCCTGGAA-TTGCAGTGGAGCAGATTTAA-GCCTATAA
1 TCTTATCTCCCT-GAAGTTGCAGTGGAGCAGACTTAAGGTC-ATAA
* * * ** *
38726126 TCCTATCTCCCTAAAGTTGCAGTGGAGC-GAATTAAAATCACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTTAAGGTCATA-A
* * * * *
38726170 TCTTATCTCTCTGAAGTTGCAG-AGAGCTGA-TCATA--TC-TAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTTA-AGGTCATAA
* * **
38726210 TCTTATCTCCCTGAAGTTGCAGTGGGGCGGACCCAAAATGG-CGA-AA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA--CTTAA-GGTC-ATAA
* * * *
38726256 -CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTTAAGCTTATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTTAAGGTCATAA
* * * * * * * *
38726299 TCTTATCCCCCTGAGGTTTCCGTGGGGCAGACTGAAGTGGGC-GAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTTAA--GGTCATAA
38726344 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAGGTCAATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTTAAGGTC-ATAA
* * ** *
38726388 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGA-TTAAAATCATGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTTAAGGTCAT-AA
*
38726432 TCTTATCTCGCTGAA
1 TCTTATCTCCCTGAA
38726447 ATCACAGTAG
Statistics
Matches: 472, Mismatches: 107, Indels: 96
0.70 0.16 0.14
Matches are distributed among these distances:
40 41 0.09
41 16 0.03
42 12 0.03
43 46 0.10
44 239 0.51
45 113 0.24
46 5 0.01
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTTAAGGTCATAA
Found at i:38726883 original size:18 final size:18
Alignment explanation
Indices: 38726860--38726894 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38726850 ACAAAACACA
* *
38726860 TGGCCCGATTTCAAACGG
1 TGGCCCAATTACAAACGG
38726878 TGGCCCAATTACAAACG
1 TGGCCCAATTACAAACG
38726895 CGGCCCAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.20
Consensus pattern (18 bp):
TGGCCCAATTACAAACGG
Found at i:38728068 original size:20 final size:21
Alignment explanation
Indices: 38728038--38728080 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
38728028 ATAATGTAAT
* *
38728038 TATTATTTTTATTTTTATATG
1 TATTATTTTTATCTATATATG
38728059 TATT-TTTTTATCTATATATG
1 TATTATTTTTATCTATATATG
38728079 TA
1 TA
38728081 CATTTGTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (21 bp):
TATTATTTTTATCTATATATG
Found at i:38730454 original size:24 final size:23
Alignment explanation
Indices: 38730410--38730454 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
38730400 GTTTTATGGC
*
38730410 TTTTAGGGTTTAGGGTGCAGGCT
1 TTTTAGGGTTTAGGGTCCAGGCT
38730433 TTTTAGGAG-TTAGGGGTCCAGG
1 TTTTAGG-GTTTA-GGGTCCAGG
38730455 AAAATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.16, C:0.09, G:0.40, T:0.36
Consensus pattern (23 bp):
TTTTAGGGTTTAGGGTCCAGGCT
Found at i:38730624 original size:124 final size:124
Alignment explanation
Indices: 38730496--38730750 Score: 361
Period size: 124 Copynumber: 2.1 Consensus size: 124
38730486 AAATAGTGGG
** * * * **
38730496 AAATCGCTTCTACTAGGATGCTATTTAAGAAGAAATTGTGAAATAGTGGTCTCGTGGACGCGATT
1 AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
*
38730561 TCGCTACAG-TGGTCATGT-GAGAAATAATTTTTTTTGACGTTTTCTGAGGAAATAGTATA
66 TCGCTACAGTTGGTCATGTAG-GAAATAATTTTTTTTGACG-TTTCTGAGCAAATAGTATA
* *
38730620 AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
* * *
38730685 TCGCTACAGTTGGTCATGTAGGAAATATTTTTTTTTGACGTTTCTGAGCAAATAGTGTC
66 TCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATA
38730744 AAATCGC
1 AAATCGC
38730751 GCCCTCGTGG
Statistics
Matches: 116, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
124 88 0.76
125 27 0.23
126 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.33
Consensus pattern (124 bp):
AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
TCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATA
Found at i:38730801 original size:84 final size:84
Alignment explanation
Indices: 38730660--38730862 Score: 370
Period size: 84 Copynumber: 2.4 Consensus size: 84
38730650 AGAAATTGTG
*
38730660 AAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATATTTTTTTTTGACG
1 AAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACG
38730725 TTTCTGAGCAAATAGTGTC
66 TTTCTGAGCAAATAGTGTC
*
38730744 AAATCGCGCCCTCGTGGACGCGATTTCACTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACG
1 AAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACG
38730809 TTTCTGAGCAAATAGTGTC
66 TTTCTGAGCAAATAGTGTC
* *
38730828 AAATCGCTCCCTCGTGGATGCGATTTCGCTACAGT
1 AAATCGCGCCCTCGTGGACGCGATTTCGCTACAGT
38730863 AGCAAGTTTG
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 114 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (84 bp):
AAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACG
TTTCTGAGCAAATAGTGTC
Found at i:38734031 original size:23 final size:23
Alignment explanation
Indices: 38734001--38734154 Score: 141
Period size: 23 Copynumber: 6.2 Consensus size: 23
38733991 TACAATTTAA
38734001 TTAGGGTTTTTAATTAAATAGGG
1 TTAGGGTTTTTAATTAAATAGGG
*
38734024 TTAGGGTTTTTAATTTAATTAGGTTAGG
1 TTAGGGTTTTTAA-TTAAATA-G---GG
*
38734052 TTAGGGTTTTTAATTAAATTAGGT
1 TTAGGGTTTTTAATTAAA-TAGGG
*
38734076 TTAGGGTTTTTAATTTAATTAAATAAGG
1 TTAGGG---TT--TTTAATTAAATAGGG
38734104 TTAGGGTTTTTAATTAAATTA-GG
1 TTAGGGTTTTTAATTAAA-TAGGG
*
38734127 TTAGGGTTTTTAATTTAATTA-GG
1 TTAGGGTTTTTAA-TTAAATAGGG
38734150 TTAGG
1 TTAGG
38734155 TTAGGGTTAA
Statistics
Matches: 112, Mismatches: 6, Indels: 26
0.78 0.04 0.18
Matches are distributed among these distances:
23 47 0.42
24 19 0.17
25 3 0.03
27 7 0.06
28 26 0.23
29 10 0.09
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (23 bp):
TTAGGGTTTTTAATTAAATAGGG
Found at i:38734053 original size:28 final size:28
Alignment explanation
Indices: 38734009--38734630 Score: 491
Period size: 28 Copynumber: 22.5 Consensus size: 28
38733999 AATTAGGGTT
*
38734009 TTTAATTAA-ATAGGGTTAGGGTTTTTAA
1 TTTAATTAAGTTA-GGTTAGGGTTTTTAA
*
38734037 TTTAATTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAGTTAGGTTAGGGTTTTTAA
38734065 -TT-A--AA-TTAGGTTTAGGGTTTTTAA
1 TTTAATTAAGTTAGG-TTAGGGTTTTTAA
* *
38734089 TTTAATTAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAGTTAGGTTAGGGTTTTTAA
38734117 -TT-A--AA-TTAGGTTAGGGTTTTTAA
1 TTTAATTAAGTTAGGTTAGGGTTTTTAA
*
38734140 TTTAATTAGGTTAGGTTAGGGTTAAGGTTTTTAA
1 TTTAATTA----A-GTTA-GGTTAGGGTTTTTAA
* *
38734174 TTTAATTAAATAAGGTTAGGG-TTTTAA
1 TTTAATTAAGTTAGGTTAGGGTTTTTAA
38734201 --T--TTAAG-TAGGTTAGGGTTTTTAA
1 TTTAATTAAGTTAGGTTAGGGTTTTTAA
* * *
38734224 TTAAATTAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAGTTAGGTTAGGGTTTTTAA
*
38734252 TTTAAGTAGGTTAGGTTAGGGTTAGGGTTTTTAA
1 TTT-A--A--TTAAGTTA-GGTTAGGGTTTTTAA
*
38734286 TTTAATTAAATTAGGTTAGGGTTTTTAA
1 TTTAATTAAGTTAGGTTAGGGTTTTTAA
38734314 -TT-A--AA-TTAGGTTAGGGTTTTTAA
1 TTTAATTAAGTTAGGTTAGGGTTTTTAA
* *
38734337 TTTAATTAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAGTTAGGTTAGGGTTTTTAA
*
38734365 TTTAATTAAATTAGGTTAGGGTTTTTAA
1 TTTAATTAAGTTAGGTTAGGGTTTTTAA
38734393 --T--TTAAG-TAGGTTAGGGTTTTTAA
1 TTTAATTAAGTTAGGTTAGGGTTTTTAA
38734416 -TT-A--AA-TTAGGTTAGGGTTTTTAA
1 TTTAATTAAGTTAGGTTAGGGTTTTTAA
* *****
38734439 TTTAATTAGGTTAGGTTAGGGTTAGGGT
1 TTTAATTAAGTTAGGTTAGGGTTTTTAA
*
38734467 TTTAAATTAAATTAGGTTAGGGTTTTTAA
1 TTT-AATTAAGTTAGGTTAGGGTTTTTAA
*
38734496 TTTAATTAGGTTAGGGTAGGGTTAGGGTTTTTAA
1 TTTAATTA----A-GTTA-GGTTAGGGTTTTTAA
* * *
38734530 TTTAATTAAATAAGGTTAGGATTTTTAA
1 TTTAATTAAGTTAGGTTAGGGTTTTTAA
* * *****
38734558 TTTAATTAGGTTATGTTAGGGTTAGGGT
1 TTTAATTAAGTTAGGTTAGGGTTTTTAA
38734586 TTCTAATTAAG-TAGGGTTTAGGGTTTTTAA
1 TT-TAATTAAGTTA-GG-TTAGGGTTTTTAA
*
38734616 TTTAATTAAATTAGG
1 TTTAATTAAGTTAGG
38734631 GTTTTTAATT
Statistics
Matches: 480, Mismatches: 60, Indels: 107
0.74 0.09 0.17
Matches are distributed among these distances:
22 9 0.02
23 86 0.18
24 29 0.06
25 6 0.01
26 5 0.01
27 20 0.04
28 179 0.37
29 54 0.11
30 14 0.03
31 3 0.01
32 1 0.00
33 11 0.02
34 63 0.13
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (28 bp):
TTTAATTAAGTTAGGTTAGGGTTTTTAA
Found at i:38734156 original size:51 final size:51
Alignment explanation
Indices: 38734001--38734512 Score: 408
Period size: 51 Copynumber: 9.6 Consensus size: 51
38733991 TACAATTTAA
38734001 TTAGGGTTTTTAATTAAA-TAGGGTTAGGGTTTTTAATTTAATTAGGTTAGG
1 TTAGGGTTTTTAATTAAATTA-GGTTAGGGTTTTTAATTTAATTAGGTTAGG
** *
38734052 TTAGGGTTTTTAATTAAATTAGGTTTAGGGTTTTTAATTTAATTAAATAAGG
1 TTAGGGTTTTTAATTAAATTAGG-TTAGGGTTTTTAATTTAATTAGGTTAGG
38734104 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGG
*
38734155 TTAGGGTTAAGGTTTTTAATTTAATTAAATAAGGTTAGGG-TTTTAATTT-A--A-G-TAGG
1 TTA--G----GG---TT--TTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGG
38734211 TTAGGGTTTTTAATTAAATTAAATAAGGTTAGGGTTTTTAATTTAAGTAGGTTAGGTTAGGG
1 TTAGGGTTTTTAATTAAA-T---T-AGGTTAGGGTTTTTAATTT-A--A--TTAGGTTA-GG
*
38734273 TTAGGGTTTTTAATTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGG---TT--TTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTA-GG
* * **
38734330 TT---TTTAATTTAATTAAATAAGGTTAGGGTTTTTAATTTAATTAAATTAGG
1 TTAGGGTT--TTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGG
* *
38734380 TTAGGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAA-TTAA--A--TTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGG
* * * **
38734426 TTAGGGTTTTTAATTTAATTAGGTTA-GGTTAGGGTTAGGGTTTTAAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTT---TTTA---ATTT-AATTAGGTTAGG
*
38734483 TTAGGGTTTTTAATTTAATTAGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
38734513 AGGGTTAGGG
Statistics
Matches: 389, Mismatches: 21, Indels: 95
0.77 0.04 0.19
Matches are distributed among these distances:
45 14 0.04
46 31 0.08
47 2 0.01
48 4 0.01
50 19 0.05
51 123 0.32
52 52 0.13
53 5 0.01
54 1 0.00
55 2 0.01
56 7 0.02
57 47 0.12
58 4 0.01
59 2 0.01
60 4 0.01
61 12 0.03
62 46 0.12
63 1 0.00
65 2 0.01
66 1 0.00
67 10 0.03
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (51 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGG
Found at i:38734169 original size:34 final size:34
Alignment explanation
Indices: 38734125--38734196 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 34
38734115 AATTAAATTA
* ** *
38734125 GGTTAGGGTTTTTAATTTAATTAGGTTAGGTTAG
1 GGTTAAGGTTTTTAATTTAATTAAATAAGGTTAG
38734159 GGTTAAGGTTTTTAATTTAATTAAATAAGGTTAG
1 GGTTAAGGTTTTTAATTTAATTAAATAAGGTTAG
38734193 GGTT
1 GGTT
38734197 TTAATTTAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (34 bp):
GGTTAAGGTTTTTAATTTAATTAAATAAGGTTAG
Found at i:38734221 original size:23 final size:23
Alignment explanation
Indices: 38734174--38734266 Score: 89
Period size: 22 Copynumber: 3.9 Consensus size: 23
38734164 AGGTTTTTAA
* *
38734174 TTTAATTAAATAAGGTTAGGG-T
1 TTTAATTTAATTAGGTTAGGGTT
*
38734196 TTTAATTTAAGTAGGTTAGGGTT
1 TTTAATTTAATTAGGTTAGGGTT
*
38734219 TTTAATTAAATTAAATAAGGTTAGGGTT
1 TTTAA-T---TT-AATTAGGTTAGGGTT
*
38734247 TTTAATTTAAGTAGGTTAGG
1 TTTAATTTAATTAGGTTAGG
38734267 TTAGGGTTAG
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
22 18 0.31
23 16 0.28
24 3 0.05
27 3 0.05
28 18 0.31
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.44
Consensus pattern (23 bp):
TTTAATTTAATTAGGTTAGGGTT
Found at i:38734275 original size:34 final size:34
Alignment explanation
Indices: 38734237--38734308 Score: 117
Period size: 34 Copynumber: 2.1 Consensus size: 34
38734227 AATTAAATAA
**
38734237 GGTTAGGGTTTTTAATTTAAGTAGGTTAGGTTAG
1 GGTTAGGGTTTTTAATTTAAGTAAATTAGGTTAG
*
38734271 GGTTAGGGTTTTTAATTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTTAAGTAAATTAGGTTAG
38734305 GGTT
1 GGTT
38734309 TTTAATTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.46
Consensus pattern (34 bp):
GGTTAGGGTTTTTAATTTAAGTAAATTAGGTTAG
Found at i:38734312 original size:23 final size:23
Alignment explanation
Indices: 38734286--38734453 Score: 210
Period size: 23 Copynumber: 6.9 Consensus size: 23
38734276 GGGTTTTTAA
38734286 TTTAATTAAATTAGGTTAGGGTT
1 TTTAATTAAATTAGGTTAGGGTT
38734309 TTTAATTAAATTAGGTTAGGGTTTTT
1 TTTAATTAAATTAGGTTAGGG---TT
*
38734335 AATTTAATTAAATAAGGTTAGGGTTTTT
1 --TTTAATTAAATTAGGTTAGGG---TT
38734363 AATTTAATTAAATTAGGTTAGGGTT
1 --TTTAATTAAATTAGGTTAGGGTT
* *
38734388 TTTAATTTAAGTAGGTTAGGGTT
1 TTTAATTAAATTAGGTTAGGGTT
38734411 TTTAATTAAATTAGGTTAGGGTT
1 TTTAATTAAATTAGGTTAGGGTT
*
38734434 TTTAATTTAATTAGGTTAGG
1 TTTAATTAAATTAGGTTAGG
38734454 TTAGGGTTAG
Statistics
Matches: 133, Mismatches: 7, Indels: 10
0.89 0.05 0.07
Matches are distributed among these distances:
23 82 0.62
25 2 0.02
26 2 0.02
28 47 0.35
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (23 bp):
TTTAATTAAATTAGGTTAGGGTT
Found at i:38734463 original size:34 final size:33
Alignment explanation
Indices: 38734424--38734593 Score: 154
Period size: 34 Copynumber: 5.5 Consensus size: 33
38734414 AATTAAATTA
38734424 GGTTAGGGTTTTTAATTTAATTAGGTTAGGTTAG
1 GGTTAGGGTTTTTAATTTAATTAGGTTA-GTTAG
*
38734458 GGTTAGGG-TTTT-A---AATTA----AATTA-
1 GGTTAGGGTTTTTAATTTAATTAGGTTAGTTAG
*
38734481 GGTTAGGGTTTTTAATTTAATTAGGTTAGGGTAG
1 GGTTAGGGTTTTTAATTTAATTAGGTTA-GTTAG
* *
38734515 GGTTAGGGTTTTTAATTTAATTA----A-ATAA
1 GGTTAGGGTTTTTAATTTAATTAGGTTAGTTAG
*
38734543 GGTTAGGATTTTTAATTTAATTAGGTTATGTTAG
1 GGTTAGGGTTTTTAATTTAATTAGGTTA-GTTAG
*
38734577 GGTTAGGGTTTCTAATT
1 GGTTAGGGTTTTTAATT
38734594 AAGTAGGGTT
Statistics
Matches: 109, Mismatches: 10, Indels: 34
0.71 0.07 0.22
Matches are distributed among these distances:
23 8 0.07
24 7 0.06
25 2 0.02
28 29 0.27
29 5 0.05
30 1 0.01
32 3 0.03
33 6 0.06
34 48 0.44
ACGTcount: A:0.27, C:0.01, G:0.26, T:0.46
Consensus pattern (33 bp):
GGTTAGGGTTTTTAATTTAATTAGGTTAGTTAG
Found at i:38734488 original size:23 final size:23
Alignment explanation
Indices: 38734458--38734512 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
38734448 GTTAGGTTAG
38734458 GGTTAGGGTTTTAAATTAAATTA
1 GGTTAGGGTTTTAAATTAAATTA
* *
38734481 GGTTAGGGTTTTTAATTTAATTA
1 GGTTAGGGTTTTAAATTAAATTA
38734504 GGTTAGGGT
1 GGTTAGGGT
38734513 AGGGTTAGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.45
Consensus pattern (23 bp):
GGTTAGGGTTTTAAATTAAATTA
Found at i:38734500 original size:62 final size:57
Alignment explanation
Indices: 38734271--38734623 Score: 370
Period size: 57 Copynumber: 6.4 Consensus size: 57
38734261 GTTAGGTTAG
*
38734271 GGTTAGGGTTTTTAATTTAATTA----A-ATTA-GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTTAATTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAAATTA
** * *
38734322 GGTTAGGGTTTTTAATTTAATTAAATAAGGTTAGGGTT---TTTAATTTAATTAAATTA
1 GGTTAGGGTTTTTAATTTAATTAGGTTAGGTTAGGGTTAGGGTT--TTTAATTAAATTA
38734378 GGTTAGGGTTTTTAA--T--TTA----A-G-TA-GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTTAATTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAAATTA
*
38734424 GGTTAGGGTTTTTAATTTAATTAGGTTAGGTTAGGGTTAGGGTTTTAAATTAAATTA
1 GGTTAGGGTTTTTAATTTAATTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAAATTA
* *
38734481 GGTTAGGGTTTTTAATTTAATTAGGTTAGGGTAGGGTTAGGGTTTTTAATTTAATTAAATAA
1 GGTTAGGGTTTTTAATTTAATTAGGTTAGGTTAGGGTTAGGG---TT--TTTAATTAAATTA
* * * *
38734543 GGTTAGGATTTTTAATTTAATTAGGTTATGTTAGGGTTAGGGTTTCTAATT-AAGTA
1 GGTTAGGGTTTTTAATTTAATTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAAATTA
38734599 GGGTTTAGGGTTTTTAATTTAATTA
1 -GG-TTAGGGTTTTTAATTTAATTA
38734624 AATTAGGGTT
Statistics
Matches: 259, Mismatches: 14, Indels: 51
0.80 0.04 0.16
Matches are distributed among these distances:
45 4 0.02
46 30 0.12
47 1 0.00
48 4 0.02
50 3 0.01
51 23 0.09
52 3 0.01
54 4 0.02
55 2 0.01
56 36 0.14
57 75 0.29
58 20 0.08
59 2 0.01
60 2 0.01
62 50 0.19
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.47
Consensus pattern (57 bp):
GGTTAGGGTTTTTAATTTAATTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAAATTA
Found at i:38734609 original size:24 final size:24
Alignment explanation
Indices: 38734574--38734663 Score: 96
Period size: 24 Copynumber: 3.8 Consensus size: 24
38734564 TAGGTTATGT
*
38734574 TAGGG-TTAGGGTTTCTAATTAAG
1 TAGGGTTTAGGGTTTTTAATTAAG
*
38734597 TAGGGTTTAGGGTTTTTAATTTAAT
1 TAGGGTTTAGGGTTTTTAA-TTAAG
**
38734622 TA--AATTAGGGTTTTTAATTAAG
1 TAGGGTTTAGGGTTTTTAATTAAG
**
38734644 TAGGGTTTAGGAATTTTAAT
1 TAGGGTTTAGGGTTTTTAAT
38734664 CAAATAATGT
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
22 6 0.11
23 18 0.33
24 24 0.44
25 6 0.11
ACGTcount: A:0.29, C:0.01, G:0.24, T:0.46
Consensus pattern (24 bp):
TAGGGTTTAGGGTTTTTAATTAAG
Found at i:38734649 original size:17 final size:18
Alignment explanation
Indices: 38734616--38734651 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
38734606 GGGTTTTTAA
*
38734616 TTTAATTAAATTAGGGTT
1 TTTAATTAAAGTAGGGTT
38734634 TTTAATT-AAGTAGGGTT
1 TTTAATTAAAGTAGGGTT
38734651 T
1 T
38734652 AGGAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (18 bp):
TTTAATTAAAGTAGGGTT
Found at i:38736970 original size:28 final size:28
Alignment explanation
Indices: 38736933--38736988 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
38736923 TTGAAAATAT
38736933 TAAAAATTTTAAAATTAT-TTAAAAAAA
1 TAAAAATTTTAAAATTATCTTAAAAAAA
*
38736960 TAAAACATTTTAAAATTTTCTTAAAAAAA
1 TAAAA-ATTTTAAAATTATCTTAAAAAAA
38736989 ATGAAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 5 0.19
28 12 0.46
29 9 0.35
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.38
Consensus pattern (28 bp):
TAAAAATTTTAAAATTATCTTAAAAAAA
Found at i:38737011 original size:17 final size:18
Alignment explanation
Indices: 38736985--38737018 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
38736975 TTTTCTTAAA
38736985 AAAAATGAAATTTAATAG
1 AAAAATGAAATTTAATAG
38737003 AAAAA-GAAATTTAATA
1 AAAAATGAAATTTAATA
38737019 TGGATTTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (18 bp):
AAAAATGAAATTTAATAG
Found at i:38737062 original size:22 final size:22
Alignment explanation
Indices: 38737032--38737073 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
38737022 ATTTGGAGAT
*
38737032 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
38737054 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
38737074 TTTTAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:38737115 original size:52 final size:52
Alignment explanation
Indices: 38737027--38737125 Score: 123
Period size: 52 Copynumber: 1.9 Consensus size: 52
38737017 TATGGATTTG
* * *
38737027 GAGATTTTTTGAAGGAAATTGAGAGGATTTTGGAA-GGAATTTGAGAGTTTTA
1 GAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGGAA-TTGAGAGTTTTA
38737079 GAGAATTTTGGAAGGAAATTGATG-GAAATTTT-GAAGGGAATTGAGAG
1 GAGAATTTTGGAAGGAAATTGA-GAG-AATTTTGGAAGGGAATTGAGAG
38737126 AAATTTTGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
52 31 0.76
53 10 0.24
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (52 bp):
GAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGGAATTGAGAGTTTTA
Found at i:38737120 original size:22 final size:22
Alignment explanation
Indices: 38737078--38737166 Score: 101
Period size: 22 Copynumber: 4.0 Consensus size: 22
38737068 TGAGAGTTTT
*
38737078 AGAG-AATTTTGGAAGGAAATTG
1 AGAGAAATTTT-GAAAGAAATTG
* *
38737100 ATG-GAAATTTTGAAGGGAATTG
1 A-GAGAAATTTTGAAAGAAATTG
*
38737122 AGAGAAATTTTGAAAGGAATTG
1 AGAGAAATTTTGAAAGAAATTG
*
38737144 AGAGAATTTTTGAAAGAAATTG
1 AGAGAAATTTTGAAAGAAATTG
38737166 A
1 A
38737167 TATTGAATTT
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
21 1 0.02
22 52 0.87
23 7 0.12
ACGTcount: A:0.43, C:0.00, G:0.28, T:0.29
Consensus pattern (22 bp):
AGAGAAATTTTGAAAGAAATTG
Found at i:38737618 original size:17 final size:18
Alignment explanation
Indices: 38737577--38737622 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
38737567 ATACTTTTTT
38737577 TACTTTTGAGTTCAAAAA
1 TACTTTTGAGTTCAAAAA
*
38737595 TACTTTTGAGTTCAAAAG
1 TACTTTTGAGTTCAAAAA
*
38737613 TATTTTTGAG
1 TACTTTTGAG
38737623 AAGGAATGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (18 bp):
TACTTTTGAGTTCAAAAA
Found at i:38741961 original size:13 final size:14
Alignment explanation
Indices: 38741925--38741963 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 14
38741915 CCTTCCCATC
38741925 AGTTTTGGGAATTAT
1 AGTTTTGGG-ATTAT
38741940 AGATTTTGGGATTA-
1 AG-TTTTGGGATTAT
38741954 AGTTTTGGGA
1 AGTTTTGGGA
38741964 GGCTATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 8 0.35
14 2 0.09
15 6 0.26
16 7 0.30
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.44
Consensus pattern (14 bp):
AGTTTTGGGATTAT
Found at i:38752374 original size:57 final size:54
Alignment explanation
Indices: 38752290--38752395 Score: 140
Period size: 57 Copynumber: 1.9 Consensus size: 54
38752280 AGTGATTATC
* * * *
38752290 TTAATATTAAGTTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAATATTATATTAATAAGAT
*
38752347 TTAATGTTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAAT
1 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAAT
38752396 TTAATATTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
54 17 0.39
55 1 0.02
56 1 0.02
57 25 0.57
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.50
Consensus pattern (54 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATAAGAT
Found at i:38759910 original size:21 final size:21
Alignment explanation
Indices: 38759884--38759926 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
38759874 TCTGCAACCA
38759884 CTTAGTTGTATGAACCTTGTT
1 CTTAGTTGTATGAACCTTGTT
38759905 CTTAGTTGTATGAACCTTGTT
1 CTTAGTTGTATGAACCTTGTT
38759926 C
1 C
38759927 CGGATTTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.47
Consensus pattern (21 bp):
CTTAGTTGTATGAACCTTGTT
Found at i:38760444 original size:14 final size:14
Alignment explanation
Indices: 38760425--38760454 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
38760415 TGAAACGAAT
38760425 TCTTTAAGGTATTC
1 TCTTTAAGGTATTC
38760439 TCTTTAAGGTATTC
1 TCTTTAAGGTATTC
38760453 TC
1 TC
38760455 ATGTACCACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (14 bp):
TCTTTAAGGTATTC
Found at i:38766881 original size:51 final size:51
Alignment explanation
Indices: 38766757--38766950 Score: 171
Period size: 51 Copynumber: 3.8 Consensus size: 51
38766747 AAAGTGATTG
* * * * * *
38766757 TCACATGTGTTGTACTATATGCAGTCTACTACGTGTACCGGA--ATAATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATGATAAT-GA
** * *
38766807 TCGTATGTGTAGTACTATATGCAGGCTACTATGTGTACCGAAT-AGT-TTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATGA-TAAT-GA
* * * * *
38766858 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGATAATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATGATAATGA
* * *
38766909 TCACATGAGTAGTACTATGTGCAGACTACTATGTGAACCGAA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAA
38766951 CATCATTGAT
Statistics
Matches: 115, Mismatches: 25, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
50 36 0.31
51 76 0.66
52 3 0.03
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.31
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATGATAATGA
Found at i:38766949 original size:102 final size:101
Alignment explanation
Indices: 38766757--38766950 Score: 264
Period size: 102 Copynumber: 1.9 Consensus size: 101
38766747 AAAGTGATTG
* * ** *
38766757 TCACATGTGTTGTACTATATGCAGTCTACTACGTGTACCGGAATAATAGGTCGTATGTGTAGTAC
1 TCACATGTGTAGTACTATATGCAGGCTACTACGTGTACCGGAATAATAGGTCACATGAGTAGTAC
* *
38766822 TATATGCAGGCTACTATGTGTACCGAATAGTTTCGA
66 TATATGCAGACTACTATGTGAACCGAATAGTTTCGA
* * *
38766858 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGATAAT-GGTCACATGAGTAGT
1 TCACATGTGTAGTACTATATGCAGGCTACTACGTGTACCGGA--ATAATAGGTCACATGAGTAGT
*
38766922 ACTATGTGCAGACTACTATGTGAACCGAA
64 ACTATATGCAGACTACTATGTGAACCGAA
38766951 CATCATTGAT
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
101 37 0.46
102 38 0.47
103 5 0.06
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.31
Consensus pattern (101 bp):
TCACATGTGTAGTACTATATGCAGGCTACTACGTGTACCGGAATAATAGGTCACATGAGTAGTAC
TATATGCAGACTACTATGTGAACCGAATAGTTTCGA
Found at i:38767157 original size:38 final size:37
Alignment explanation
Indices: 38767114--38767186 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 37
38767104 AGGTGTGGAA
38767114 TTGAATTGAATAT-CGACTTAGAAA-TGAAAAAGTGAATT
1 TTGAATTGAAT-TGCGA-TT-GAAAGTGAAAAAGTGAATT
*
38767152 TTGAATTGAATTGTGATTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATTGCGATTGAAAGTGAAAAAGTGAA
38767187 ATTATAAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
36 4 0.12
37 15 0.47
38 13 0.41
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.32
Consensus pattern (37 bp):
TTGAATTGAATTGCGATTGAAAGTGAAAAAGTGAATT
Done.