Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 43 of 433
Found at i:11546666 original size:46 final size:46
Alignment explanation
Indices: 11546613--11546713 Score: 116
Period size: 46 Copynumber: 2.2 Consensus size: 46
11546603 TGATATACAA
* * *
11546613 TAAGCTCTATT-GAGCTAAAAACGGTAAGCTCTATTGAGCT-GAACAG
1 TAAGCTCT-TTCGAGCT-AAAACGGTAAGCTCCAATGAGCTAAAACAG
* * *
11546659 TAAGCTCTTTCGAGCTGAATCGGTAAGCTCCAATGAGCTAAAATAG
1 TAAGCTCTTTCGAGCTAAAACGGTAAGCTCCAATGAGCTAAAACAG
11546705 TAAGCTCTT
1 TAAGCTCTT
11546714 ACGAATCAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
45 21 0.45
46 26 0.55
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (46 bp):
TAAGCTCTTTCGAGCTAAAACGGTAAGCTCCAATGAGCTAAAACAG
Found at i:11546696 original size:23 final size:22
Alignment explanation
Indices: 11546613--11546697 Score: 73
Period size: 22 Copynumber: 3.7 Consensus size: 22
11546603 TGATATACAA
* *
11546613 TAAGCTCTATTGAGCTAAAAACGG
1 TAAGCTCCATTGAGCT--GAACGG
* *
11546637 TAAGCTCTATTGAGCTGAACAG
1 TAAGCTCCATTGAGCTGAACGG
*
11546659 TAAGCT-CTTTCGAGCTGAATCGG
1 TAAGCTCCATT-GAGCTGAA-CGG
*
11546682 TAAGCTCCAATGAGCT
1 TAAGCTCCATTGAGCT
11546698 AAAATAGTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
21 2 0.04
22 18 0.35
23 13 0.25
24 18 0.35
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (22 bp):
TAAGCTCCATTGAGCTGAACGG
Found at i:11552767 original size:154 final size:153
Alignment explanation
Indices: 11552477--11552769 Score: 430
Period size: 153 Copynumber: 1.9 Consensus size: 153
11552467 ATTGTACAAA
* * * * *
11552477 AAAAGCTTCCAAGTGGACTCTTTTTTTGTATAGTTGATTCTAAAAAAAGAAATTGAGAATATGGT
1 AAAAGCTCCCAACTGGACGCTTTTTTTGTACAGTTGATTCTAAAAAAAGAAATTGAGAAGATGGT
*
11552542 TCTGAAAAAGTATCCCAAATTCTCGAGAAATCTAATAGTTGGGGTTTAAAAACGCTTCAAGCAGG
66 TCTGAAAAAGTATCCCAAATTCTCGAGAAATCTAATAGTTGGGGTTGAAAAACGCTTCAAGCAGG
11552607 ATGCACTATTAAGGAAAGTACTG
131 ATGCACTATTAAGGAAAGTACTG
*
11552630 AAAAGCTCCCAACTGGACGCTTTTTTTGTACAGTTGATTCTGAAAAAAA-AATTTGAGAAGATGG
1 AAAAGCTCCCAACTGGACGCTTTTTTTGTACAGTTGATTCT-AAAAAAAGAAATTGAGAAGATGG
*** *
11552694 TTCTGAAAGAA-TATCACGGGATTCAT-GGGAAATCTAATAGTTGGGGTTGAAAAACGCTTCAAG
65 TTCTGAAA-AAGTATC-CCAAATTC-TCGAGAAATCTAATAGTTGGGGTTGAAAAACGCTTCAAG
11552757 CAGGATGCACTAT
127 CAGGATGCACTAT
11552770 CAGCAAAAGT
Statistics
Matches: 125, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
153 62 0.50
154 62 0.50
155 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (153 bp):
AAAAGCTCCCAACTGGACGCTTTTTTTGTACAGTTGATTCTAAAAAAAGAAATTGAGAAGATGGT
TCTGAAAAAGTATCCCAAATTCTCGAGAAATCTAATAGTTGGGGTTGAAAAACGCTTCAAGCAGG
ATGCACTATTAAGGAAAGTACTG
Found at i:11552779 original size:154 final size:154
Alignment explanation
Indices: 11552470--11552802 Score: 433
Period size: 154 Copynumber: 2.2 Consensus size: 154
11552460 ATCAGTAATT
* * * * *
11552470 GTACAAAAAAAGCTTCCAAGTGGACTCTTTTTTTGTATAGTTGATTCTAAAAAAAGAAATTGAGA
1 GTACTAAAAAAGCTCCCAACTGGACGCTTTTTTTGTACAGTTGATTCTAAAAAAAGAAATTGAGA
* *
11552535 ATATGGTTCTGAAAAAGTATCCCAAATTCTCGAGAAATCTAATAGTTGGGGTTTAAAAACGCTTC
66 AGATGGTTCTGAAAAAGTATCCCAAATTCTCGAGAAATCTAATAGTTGGGGTTGAAAAACGCTTC
*
11552600 AAGCAGGATGCACTATTAAGGAAA
131 AAGCAGGATGCACTATTAAGAAAA
* *
11552624 GTACT-GAAAAGCTCCCAACTGGACGCTTTTTTTGTACAGTTGATTCTGAAAAAAA-AATTTGAG
1 GTACTAAAAAAGCTCCCAACTGGACGCTTTTTTTGTACAGTTGATTCT-AAAAAAAGAAATTGAG
*** *
11552687 AAGATGGTTCTGAAAGAA-TATCACGGGATTCAT-GGGAAATCTAATAGTTGGGGTTGAAAAACG
65 AAGATGGTTCTGAAA-AAGTATC-CCAAATTC-TCGAGAAATCTAATAGTTGGGGTTGAAAAACG
*
11552750 CTTCAAGCAGGATGCACTA-TCAGCAAAA
127 CTTCAAGCAGGATGCACTATTAAG-AAAA
* *
11552778 GTACTAAAAAAGCTCTCAATTGGAC
1 GTACTAAAAAAGCTCCCAACTGGAC
11552803 ATTCCTTTTA
Statistics
Matches: 155, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
153 65 0.42
154 73 0.47
155 17 0.11
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (154 bp):
GTACTAAAAAAGCTCCCAACTGGACGCTTTTTTTGTACAGTTGATTCTAAAAAAAGAAATTGAGA
AGATGGTTCTGAAAAAGTATCCCAAATTCTCGAGAAATCTAATAGTTGGGGTTGAAAAACGCTTC
AAGCAGGATGCACTATTAAGAAAA
Found at i:11554040 original size:16 final size:16
Alignment explanation
Indices: 11554021--11554052 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11554011 GGTGCATTGA
11554021 AGCAATATAGCATCAT
1 AGCAATATAGCATCAT
11554037 AGCAATATAGCATCAT
1 AGCAATATAGCATCAT
11554053 GAATGAGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (16 bp):
AGCAATATAGCATCAT
Found at i:11554485 original size:59 final size:59
Alignment explanation
Indices: 11554413--11554579 Score: 228
Period size: 59 Copynumber: 2.8 Consensus size: 59
11554403 TAGCTTCTAA
** *
11554413 TTTATTAAATGAAACAATGA-AAAAATAATTTGTATGAACATATTCAAAAGAACTTTTAT
1 TTTATTAAATGAAACAAT-ATAAAAATAATTTGTACAAAAATATTCAAAAGAACTTTTAT
* *
11554472 TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTGAAAAGAACTTTTGT
1 TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAAGAACTTTTAT
* * * * *
11554531 TTCACTAAATGAAACAATATAAAAATAGTTTATACAAATATATTCAAAA
1 TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAA
11554580 ATAAATCAAT
Statistics
Matches: 96, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
58 1 0.01
59 95 0.99
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.34
Consensus pattern (59 bp):
TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAAGAACTTTTAT
Found at i:11559431 original size:40 final size:40
Alignment explanation
Indices: 11559383--11559523 Score: 200
Period size: 40 Copynumber: 3.6 Consensus size: 40
11559373 ACGACTAGCT
*
11559383 CAAATGCCTTCGGGAC-AAACCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCCGGTT-TAGTAACTCGCA
* *
11559423 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCCGGTTTAGTAACTCGCA
*
11559463 CAAATGCCTTCGGG-CTTAA-CCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCCGG-TTTAGTAACTCGCA
11559502 CAAATGCCTTCGGG-CTTAACCC
1 CAAATGCCTTCGGGACTTAACCC
11559524 GGATATGGTC
Statistics
Matches: 92, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
38 4 0.04
39 37 0.40
40 42 0.46
41 9 0.10
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCCGGTTTAGTAACTCGCA
Found at i:11559497 original size:39 final size:40
Alignment explanation
Indices: 11559383--11559566 Score: 216
Period size: 39 Copynumber: 4.7 Consensus size: 40
11559373 ACGACTAGCT
*
11559383 CAAATGCCTTCGGGAC-AAACCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAA-CCCGGATT-TAGTAACTCGCA
* *
11559423 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
11559463 CAAATGCCTTCGGG-CTTAACCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * **
11559502 CAAATGCCTTCGGG-CTTAACCCGGATATGGTCACTTAACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
*
11559542 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
11559567 CATCATTCAA
Statistics
Matches: 128, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
39 62 0.48
40 62 0.48
41 4 0.03
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:11559544 original size:79 final size:81
Alignment explanation
Indices: 11559383--11559566 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
11559373 ACGACTAGCT
* *
11559383 CAAATGCCTTCGGGAC-AAACCCCGG-TTATAGTAACTCGCACGAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGGACTTAA-CCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCC
* * **
11559446 GGGTTTAGTAACTCGCA
65 GGATATAGTAACTAACA
*
11559463 CAAATGCCTTCGGG-CTTAACCCGGATT-TATTAACTCGCACAAATGCCTTCGGG-CTTAACCCG
1 CAAATGCCTTCGGGACTTAACCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
11559525 GATATGGTCACTTAACA
66 GATATAGTAAC-TAACA
*
11559542 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
11559567 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
78 25 0.28
79 47 0.52
80 18 0.20
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAACCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GATATAGTAACTAACA
Found at i:11567467 original size:40 final size:40
Alignment explanation
Indices: 11567419--11567550 Score: 189
Period size: 40 Copynumber: 3.3 Consensus size: 40
11567409 ACGACTAGCT
*
11567419 CAAATGCCTTCGGGAC-AAACCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCCGGTT-TAGTAACTCGCA
* *
11567459 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCCGGTTTAGTAACTCGCA
*
11567499 CAAATGCCTTCGGG-CTTAA-CCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCCGG-TTTAGTAACTCGCA
11567538 CAAATGCCTTCGG
1 CAAATGCCTTCGG
11567551 CTTAGTCCGG
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
38 4 0.05
39 31 0.37
40 40 0.48
41 9 0.11
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCCGGTTTAGTAACTCGCA
Found at i:11569416 original size:2 final size:2
Alignment explanation
Indices: 11569409--11569450 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
11569399 ATCATATTTG
11569409 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
11569451 TATATATATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:11570996 original size:42 final size:41
Alignment explanation
Indices: 11570934--11571062 Score: 116
Period size: 42 Copynumber: 3.1 Consensus size: 41
11570924 CCATATGAGT
* * *
11570934 TTCAATTTAATCCTTCTGGGTTTCAGTTCAGCTCTTTTGTGC
1 TTCAGTTTAACCCTTATGGGTTTC-GTTCAGCTCTTTTGTGC
* *
11570976 TTCAGTTTAACCCTTATGGGTTTTCGTTCAACT-TTTATGAGC
1 TTCAGTTTAACCCTTATGGG-TTTCGTTCAGCTCTTT-TGTGC
* * * * * *
11571018 TTCCGTTCAACCCTTACGGGTTTCCGTTTAGCACTTATGTGC
1 TTCAGTTTAACCCTTATGGGTTT-CGTTCAGCTCTTTTGTGC
11571060 TTC
1 TTC
11571063 TGTGCAGCCT
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
41 6 0.09
42 58 0.83
43 6 0.09
ACGTcount: A:0.16, C:0.23, G:0.17, T:0.44
Consensus pattern (41 bp):
TTCAGTTTAACCCTTATGGGTTTCGTTCAGCTCTTTTGTGC
Found at i:11571042 original size:21 final size:21
Alignment explanation
Indices: 11570984--11571045 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
11570974 GCTTCAGTTT
*
11570984 AACCCTTATGGGTTTTCGTTC
1 AACCCTTATGGGTTTCCGTTC
** * *
11571005 AACTTTTATGAGCTTCCGTTC
1 AACCCTTATGGGTTTCCGTTC
*
11571026 AACCCTTACGGGTTTCCGTT
1 AACCCTTATGGGTTTCCGTT
11571046 TAGCACTTAT
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.16, C:0.26, G:0.18, T:0.40
Consensus pattern (21 bp):
AACCCTTATGGGTTTCCGTTC
Found at i:11575114 original size:26 final size:24
Alignment explanation
Indices: 11575074--11575133 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
11575064 TTATTTCATT
* * *
11575074 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
11575098 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
11575124 AAATAAATAT
1 AAATAAATAT
11575134 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:11575145 original size:22 final size:20
Alignment explanation
Indices: 11575104--11575147 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
11575094 ATAATAAATC
* *
11575104 AAATATATTTAAAAACATAA
1 AAATAAATTTAAAAAAATAA
11575124 AAATAAATATTAAAACAAATAA
1 AAATAAAT-TTAAAA-AAATAA
11575146 AA
1 AA
11575148 CTGATACTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 6 0.30
22 7 0.35
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (20 bp):
AAATAAATTTAAAAAAATAA
Found at i:11576753 original size:19 final size:20
Alignment explanation
Indices: 11576729--11576766 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11576719 GATTCAAAAT
11576729 ATTATAAA-AATTATTAAAG
1 ATTATAAATAATTATTAAAG
*
11576748 ATTATAAATACTTATTAAA
1 ATTATAAATAATTATTAAA
11576767 ATTTAGAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (20 bp):
ATTATAAATAATTATTAAAG
Found at i:11583656 original size:22 final size:22
Alignment explanation
Indices: 11583613--11583654 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11583603 TGGCGTACAT
11583613 ATAAAAACATATACGTGATATA
1 ATAAAAACATATACGTGATATA
*
11583635 ATAAAAATATATA-GT-ATATA
1 ATAAAAACATATACGTGATATA
11583655 TATATACATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 2 0.11
22 12 0.63
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.31
Consensus pattern (22 bp):
ATAAAAACATATACGTGATATA
Found at i:11584223 original size:2 final size:2
Alignment explanation
Indices: 11584218--11584247 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
11584208 ATATAAAAGA
*
11584218 AT AT AT AT AT CT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11584248 GGTATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11586049 original size:86 final size:88
Alignment explanation
Indices: 11585930--11586167 Score: 340
Period size: 86 Copynumber: 2.7 Consensus size: 88
11585920 ATCTATTTCC
** * *
11585930 CTACTGCTTAGGG-TTTTAGATCTGTAAAC-TCAACCTGTTACCCTACTGCTTGGGGGTTTAAGG
1 CTACTGCTTAGGGAGATAAGATCTGTAAACTTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGG
*
11585993 TTCTTCGTCTTCGGTCTGCTCCA
66 TTCTTCGTCTTCGATCTGCTCCA
* *
11586016 CTACTGCTTAGGGAGATCAGATCTG-CAA-TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGG
1 CTACTGCTTAGGGAGATAAGATCTGTAAACTTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGG
*
11586079 TTCTTCGTCTTCGATCTGGTCCA
66 TTCTTCGTCTTCGATCTGCTCCA
* * *
11586102 CTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAG
1 CTACTGCTTAGGGAGATAAGATCTGTAAA-CTTCAACCTGTTACCCTACTGCTTAGGGGTTTAAG
11586167 G
65 G
11586168 CTTGTAAATT
Statistics
Matches: 135, Mismatches: 12, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
86 91 0.67
87 10 0.07
89 34 0.25
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (88 bp):
CTACTGCTTAGGGAGATAAGATCTGTAAACTTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGG
TTCTTCGTCTTCGATCTGCTCCA
Found at i:11586121 original size:44 final size:44
Alignment explanation
Indices: 11585972--11586121 Score: 137
Period size: 44 Copynumber: 3.5 Consensus size: 44
11585962 ACCTGTTACC
*
11585972 CTACTGCTT-GGGGGTTTAAGGTTCTTCGTCTTCGGTCTGCTCCA
1 CTACTGCTTAGGGGG-TTAAGGTTCTTCGTCTTCGATCTGCTCCA
* * * * * ** * * *
11586016 CTACTGCTTAGGGAGATCA-GATCTGC-AATTCAACCTGTTACC-
1 CTACTGCTTAGGGGGTTAAGGTTCTTCGTCTTCGATCTGCT-CCA
* *
11586058 CTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGGTCCA
1 CTACTGCTTAGGGGGTTAAGGTTCTTCGTCTTCGATCTGCTCCA
11586102 CTACTGCTTAGGGGGTTAAG
1 CTACTGCTTAGGGGGTTAAG
11586122 ATCTGTAAAT
Statistics
Matches: 78, Mismatches: 23, Indels: 10
0.70 0.21 0.09
Matches are distributed among these distances:
42 22 0.28
43 14 0.18
44 38 0.49
45 4 0.05
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.35
Consensus pattern (44 bp):
CTACTGCTTAGGGGGTTAAGGTTCTTCGTCTTCGATCTGCTCCA
Found at i:11586201 original size:43 final size:45
Alignment explanation
Indices: 11585928--11586208 Score: 173
Period size: 43 Copynumber: 6.5 Consensus size: 45
11585918 TGATCTATTT
* * *
11585928 CCCTACTGCTTA-GGGTTTTAGATCTGTAAA-C-TCAACCTGTTA
1 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTA
* ** * * *
11585970 CCCTACTGCTT-GGGGGTTTAAGGTTCT-T-CGTCTTCGGTCTGCT-
1 CCCTACTGCTTAGGGGG-TTAA-GATCTGTAAATCTTCAGCCTGTTA
* * * * *
11586013 CCACTACTGCTTAGGGAGATCAGATCTG-CAA--TTCAACCTGTTA
1 CC-CTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTA
* * ** * *
11586056 CCCTACTGCTTAGGGGTTTAAGGTTCT-T-CGTCTTC-GATCTGGT-
1 CCCTACTGCTTAGGGGGTTAA-GATCTGTAAATCTTCAG-CCTGTTA
11586099 CCACTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTA
1 CC-CTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTA
* * *
11586145 CCCTACTGCTTAGGGGTTTAAG-GCTTGTAAAT-TT-AGCTTGTTA
1 CCCTACTGCTTAGGGGGTTAAGATC-TGTAAATCTTCAGCCTGTTA
11586188 CCCTACTGCTTAGGGGGTTAA
1 CCCTACTGCTTAGGGGGTTAA
11586209 AGCCCATCAT
Statistics
Matches: 179, Mismatches: 39, Indels: 41
0.69 0.15 0.16
Matches are distributed among these distances:
42 36 0.20
43 51 0.28
44 50 0.28
45 39 0.22
46 3 0.02
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (45 bp):
CCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTA
Found at i:11586227 original size:132 final size:133
Alignment explanation
Indices: 11586051--11586303 Score: 298
Period size: 132 Copynumber: 1.9 Consensus size: 133
11586041 CAATTCAACC
* * ** * *
11586051 TGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTG-GTCCACTACTG-CT-TAG
1 TGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTGTCC-CTACTGACTCTAG
* * * *
11586113 -GGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAAT
65 AGAGG-TAAGATCTGT-AATCTTCAACCTATTACCCTACTGCTTAGGGGGTTAAGGCTTGTAAAT
11586177 TTAGCT
128 TTAGCT
* *
11586183 TGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTTGATCTGTTTCCCTACTGCAACTCTA
1 TGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTGTCCCTACTG--ACTCTA
* * *
11586248 GAGAGGTGAGATCTGTGATTTTCAACCTATTACCCTACTGCTTAGGGGGTTAAGGC
64 GAGAGGTAAGATCTGTAATCTTCAACCTATTACCCTACTGCTTAGGGGGTTAAGGC
11586304 CCATCTTCTT
Statistics
Matches: 100, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
132 45 0.45
133 3 0.03
135 37 0.37
136 12 0.12
137 3 0.03
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (133 bp):
TGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTGTCCCTACTGACTCTAGA
GAGGTAAGATCTGTAATCTTCAACCTATTACCCTACTGCTTAGGGGGTTAAGGCTTGTAAATTTA
GCT
Found at i:11586237 original size:44 final size:44
Alignment explanation
Indices: 11586183--11586338 Score: 118
Period size: 44 Copynumber: 3.5 Consensus size: 44
11586173 AAATTTAGCT
11586183 TGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTTGATC
1 TGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTTGATC
* * * * * ** * * *
11586227 TGTTTCCCTACTGCAACTCTAGAGAGGTGAGA-TCTGTGAT-TTTCAACC
1 TGTTACCCTACTG---CT-TAG-GGGGTTAAAGCCCATCATCTTT-GATC
* * *
11586275 TATTACCCTACTGCTTAGGGGGTTAAGGCCCATCTTCTTTGATC
1 TGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTTGATC
*
11586319 TGTTTCCCTACTGCTTAGGG
1 TGTTACCCTACTGCTTAGGG
11586339 TGATGAGATC
Statistics
Matches: 79, Mismatches: 25, Indels: 16
0.66 0.21 0.13
Matches are distributed among these distances:
43 5 0.06
44 38 0.48
45 5 0.06
47 5 0.06
48 20 0.25
49 6 0.08
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (44 bp):
TGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTTGATC
Found at i:11606468 original size:3 final size:3
Alignment explanation
Indices: 11606460--11606560 Score: 202
Period size: 3 Copynumber: 33.7 Consensus size: 3
11606450 GGTGCGTCCA
11606460 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
11606508 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
11606556 TCT TC
1 TCT TC
11606561 CCCTAACCCA
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 98 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:11607122 original size:26 final size:26
Alignment explanation
Indices: 11607085--11607168 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
11607075 TGATACAAAT
* *
11607085 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
11607111 TGATAATGGGTTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
11607137 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
11607163 TGATAA
1 TGATAA
11607169 GAATATCATG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:11612355 original size:51 final size:51
Alignment explanation
Indices: 11612279--11612381 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
11612269 ATTATATATT
11612279 ATCAATATTAGTACTATGACATATCCACTATCTAAGTAAAAAAATAAAAAA
1 ATCAATATTAGTACTATGACATATCCACTATCTAAGTAAAAAAATAAAAAA
11612330 ATCAATATTAGTACTATGACATATCCACTATCTAAGTAAAAAAATAAAAAA
1 ATCAATATTAGTACTATGACATATCCACTATCTAAGTAAAAAAATAAAAAA
11612381 A
1 A
11612382 ATAACATAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.53, C:0.14, G:0.06, T:0.27
Consensus pattern (51 bp):
ATCAATATTAGTACTATGACATATCCACTATCTAAGTAAAAAAATAAAAAA
Found at i:11616744 original size:2 final size:2
Alignment explanation
Indices: 11616737--11616767 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
11616727 ATATTTATTA
11616737 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11616768 TATGGCAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:11631442 original size:33 final size:33
Alignment explanation
Indices: 11631390--11631462 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
11631380 ATGAAAATGT
*
11631390 TATTTAAATAACTTAATATAATGATACATGAAA
1 TATTTAAATAACTTAATATAATGATACATAAAA
** *
11631423 TATTTAAATGGCTTGATATAATGATACATAAAA
1 TATTTAAATAACTTAATATAATGATACATAAAA
*
11631456 TAATTAA
1 TATTTAA
11631463 TACAAATAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.37
Consensus pattern (33 bp):
TATTTAAATAACTTAATATAATGATACATAAAA
Found at i:11633463 original size:26 final size:26
Alignment explanation
Indices: 11633434--11633489 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
11633424 TGATACAAAT
11633434 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
11633460 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
11633486 TGAT
1 TGAT
11633490 GAGAATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:11635106 original size:27 final size:27
Alignment explanation
Indices: 11635066--11635218 Score: 184
Period size: 27 Copynumber: 5.6 Consensus size: 27
11635056 AGGAAGCGTC
* *
11635066 CTGGTAGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
11635093 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
11635120 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
11635147 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
11635174 CTGGTGGCTCTGCCAAAATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* *
11635202 CTGGTGACTCTGTCACA
1 CTGGTGGCTCTGCCACA
11635219 TTCTGGCAGC
Statistics
Matches: 109, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
26 4 0.04
27 86 0.79
28 19 0.17
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:11635148 original size:54 final size:54
Alignment explanation
Indices: 11635066--11635219 Score: 245
Period size: 54 Copynumber: 2.8 Consensus size: 54
11635056 AGGAAGCGTC
*
11635066 CTGGTAGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
11635120 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * * *
11635174 CTGGTGGCTCTGCCAAAATTATCTGTATCTGGTGACTCTGTCACAT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACAT
11635220 TCTGGCAGCC
Statistics
Matches: 92, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
54 74 0.80
55 18 0.20
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:11636662 original size:202 final size:203
Alignment explanation
Indices: 11636276--11636701 Score: 588
Period size: 202 Copynumber: 2.1 Consensus size: 203
11636266 TGTATGGCAA
* * * * *
11636276 GTTTGGATTTTTCTAAAGTTATAGTCTGCCATGTGTATACAAATAGCCTTAGGTTTAAGGTTAAA
1 GTTTGGATTTTTCTAAAGTTATAGTCTGCCATATGCATACAAATAGCCTTAAG-TAAAGGATAAA
* * * * *
11636341 TCAATTCTTTTTTGACAAATAAGTTTTTATTGAATTATTCAAAACTGTGTATGCCATTGACTTAT
65 TCAATTCCTATTTGACAAATAAGTTTGTATTGAATTATTCAAAACTATGTATGCCATTGAATTAT
* * * *
11636406 TCGAATATAATTCAAAAAAATATTTTAAATGTTGATTCAAATATGATTATTGTTTGTATTAAATT
130 TCAAATATAATTCAAAAAAATATTTTAAATGTTGATTCAAATATGATAATTGTTTGTATCAAACT
11636471 GAATTGCAG
195 GAATTGCAG
* * *
11636480 GTTTGGATTTTTCTAAAGTTATTG-CTTGCCATATGCATACTAATAGCCTTAAG-AAAGAGATAG
1 GTTTGGATTTTTCTAAAGTTATAGTC-TGCCATATGCATACAAATAGCCTTAAGTAAAG-GATAA
* * * *
11636543 ATCAGTTCCTATTTGATAAATTAGTTTGTATTGAATTATTCAAAACTATGTATGTCATTGAATTA
64 ATCAATTCCTATTTGACAAATAAGTTTGTATTGAATTATTCAAAACTATGTATGCCATTGAATTA
* * *
11636608 TTCAAATATGATTC-AAAATATTTTTTAAATGTTGATTCAAATATGATAATTGTTTGTATCAAAC
129 TTCAAATATAATTCAAAAAAATATTTTAAATGTTGATTCAAATATGATAATTGTTTGTATCAAAC
11636672 TGAATTGCAG
194 TGAATTGCAG
11636682 GTTTGGATTTTTCTAAAGTT
1 GTTTGGATTTTTCTAAAGTT
11636702 GGAGTTTATA
Statistics
Matches: 196, Mismatches: 24, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
202 78 0.40
203 72 0.37
204 46 0.23
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (203 bp):
GTTTGGATTTTTCTAAAGTTATAGTCTGCCATATGCATACAAATAGCCTTAAGTAAAGGATAAAT
CAATTCCTATTTGACAAATAAGTTTGTATTGAATTATTCAAAACTATGTATGCCATTGAATTATT
CAAATATAATTCAAAAAAATATTTTAAATGTTGATTCAAATATGATAATTGTTTGTATCAAACTG
AATTGCAG
Found at i:11637454 original size:20 final size:20
Alignment explanation
Indices: 11637429--11637473 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
11637419 GTTGGAGTTT
11637429 GAATCGAGTT-AAACAATAAA
1 GAATCGA-TTCAAACAATAAA
*
11637449 GAATCGATTCAAACAATAAT
1 GAATCGATTCAAACAATAAA
11637469 GAATC
1 GAATC
11637474 AATTAAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.51, C:0.13, G:0.13, T:0.22
Consensus pattern (20 bp):
GAATCGATTCAAACAATAAA
Found at i:11637509 original size:21 final size:22
Alignment explanation
Indices: 11637482--11637545 Score: 78
Period size: 21 Copynumber: 3.0 Consensus size: 22
11637472 TCAATTAAAG
*
11637482 AAGCAAATAATCAATTTAAAAT
1 AAGCAAATAATTAATTTAAAAT
* *
11637504 AA-CAAATAATTGA-TTGAAAT
1 AAGCAAATAATTAATTTAAAAT
11637524 AAGCAAATAATTAATTTTAAAA
1 AAGCAAATAATTAA-TTTAAAA
11637546 AATCGATTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
20 8 0.24
21 19 0.56
22 2 0.06
23 5 0.15
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (22 bp):
AAGCAAATAATTAATTTAAAAT
Found at i:11638184 original size:3 final size:3
Alignment explanation
Indices: 11638176--11638251 Score: 152
Period size: 3 Copynumber: 25.3 Consensus size: 3
11638166 GCATCTCCAT
11638176 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
11638224 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
11638252 CCTATTTTTT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:11638370 original size:21 final size:21
Alignment explanation
Indices: 11638326--11638371 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
11638316 AACTAGTCGA
* * **
11638326 TTAATTACAATAAGGAGTTGG
1 TTAATGACAACAAGGAGTCAG
11638347 TTAATGACAACAAGGAGTCAG
1 TTAATGACAACAAGGAGTCAG
11638368 TTAA
1 TTAA
11638372 ATGCCATGTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (21 bp):
TTAATGACAACAAGGAGTCAG
Found at i:11640648 original size:44 final size:44
Alignment explanation
Indices: 11640582--11640670 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
11640572 CGTTGCTTTC
*
11640582 TATCTATCATGTAATGTTGGTGAGAGAATATCATTTACCTTTTA
1 TATCTATCATGTAATGTCGGTGAGAGAATATCATTTACCTTTTA
11640626 TATCTATCATGTAATGTCGGTGAGAGAATATCATTTACCTTTTA
1 TATCTATCATGTAATGTCGGTGAGAGAATATCATTTACCTTTTA
11640670 T
1 T
11640671 TGGGTTATAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (44 bp):
TATCTATCATGTAATGTCGGTGAGAGAATATCATTTACCTTTTA
Found at i:11652670 original size:31 final size:31
Alignment explanation
Indices: 11652632--11652704 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
11652622 TATTTGGTTT
* *
11652632 AGGTACCAAATTGAATATTGAAACC-AAATTC
1 AGGTACCAAATTGAACATTG-AACCTAAACTC
*
11652663 AGGTACCAATTTGAACATTGAACCTAAACTC
1 AGGTACCAAATTGAACATTGAACCTAAACTC
*
11652694 AAGTACCAAAT
1 AGGTACCAAAT
11652705 AGTATATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 4 0.11
31 32 0.89
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (31 bp):
AGGTACCAAATTGAACATTGAACCTAAACTC
Found at i:11657551 original size:46 final size:44
Alignment explanation
Indices: 11657447--11657554 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
11657437 TGTCTTTGAC
** * * *
11657447 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
11657491 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
11657537 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
11657555 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:11663690 original size:46 final size:44
Alignment explanation
Indices: 11663586--11663693 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
11663576 TGTCTTTGAC
** * * *
11663586 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
11663630 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
11663676 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
11663694 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:11666435 original size:21 final size:22
Alignment explanation
Indices: 11666409--11666467 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
11666399 GTTTTAAGAA
*
11666409 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
11666430 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
11666452 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
11666468 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:11666482 original size:26 final size:24
Alignment explanation
Indices: 11666438--11666486 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
11666428 ATTTGTTTTA
*
11666438 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
11666462 ATATTTGATTTATTATATTTTTAAA
1 ATATTTG-TTT-TTATATTTTTAAA
11666487 CTTTTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:11666985 original size:16 final size:17
Alignment explanation
Indices: 11666947--11666986 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
11666937 ATGAAATTTC
11666947 AATTAAAATAAAGATAA
1 AATTAAAATAAAGATAA
11666964 AA-TAAAAT-AA-ATAA
1 AATTAAAATAAAGATAA
11666978 AACTTAAAA
1 AA-TTAAAA
11666987 CATAAAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 2 0.10
16 11 0.52
17 2 0.10
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (17 bp):
AATTAAAATAAAGATAA
Found at i:11670826 original size:18 final size:17
Alignment explanation
Indices: 11670803--11670836 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11670793 GAAATTATTA
11670803 ATTATATAAAAAAATAAG
1 ATTATA-AAAAAAATAAG
*
11670821 ATTATAAATAAAATAA
1 ATTATAAAAAAAATAA
11670837 AATAAAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (17 bp):
ATTATAAAAAAAATAAG
Found at i:11671969 original size:24 final size:24
Alignment explanation
Indices: 11671889--11671985 Score: 65
Period size: 24 Copynumber: 3.9 Consensus size: 24
11671879 ATGATCAATT
11671889 AAAATATTATTAAATATTTAATCC
1 AAAATATTATTAAATATTTAATCC
* * **
11671913 AAAGAT-TCATTACTAATGAATTTTATTGT
1 AAA-ATATTATTA--AAT--A-TTTAATCC
11671942 AAAATATTATTAAATATTTAATCC
1 AAAATATTATTAAATATTTAATCC
*
11671966 AAAA-ATTCATTACAT-TTTAA
1 AAAATATT-ATTAAATATTTAA
11671986 GAAAAGTATT
Statistics
Matches: 56, Mismatches: 9, Indels: 17
0.68 0.11 0.21
Matches are distributed among these distances:
23 8 0.14
24 23 0.41
25 3 0.05
26 3 0.05
27 3 0.05
28 3 0.05
29 13 0.23
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.42
Consensus pattern (24 bp):
AAAATATTATTAAATATTTAATCC
Found at i:11676811 original size:2 final size:2
Alignment explanation
Indices: 11676804--11676835 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
11676794 TTAAGCTTAC
11676804 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11676836 TATTTTAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11681048 original size:5 final size:5
Alignment explanation
Indices: 11681040--11681070 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
11681030 CTGGCCTGGC
*
11681040 CTGCT CTGCT CTGCT CTGCT CTGCC CTGCT C
1 CTGCT CTGCT CTGCT CTGCT CTGCT CTGCT C
11681071 GACTCTGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.45, G:0.19, T:0.35
Consensus pattern (5 bp):
CTGCT
Found at i:11681832 original size:5 final size:5
Alignment explanation
Indices: 11681824--11681848 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11681814 GCCCTTATTA
11681824 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
11681849 TTCAGACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:11684229 original size:24 final size:24
Alignment explanation
Indices: 11684186--11684232 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
11684176 TAACCACATC
*
11684186 TTTAATTCTTTACATCAAATTTAG
1 TTTAATTCTTTAAATCAAATTTAG
11684210 TTTAATTCATTTAAAT-AAATTTA
1 TTTAATTC-TTTAAATCAAATTTA
11684233 TCAGTTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (24 bp):
TTTAATTCTTTAAATCAAATTTAG
Found at i:11684522 original size:21 final size:22
Alignment explanation
Indices: 11684498--11684541 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
11684488 TGATTAATTT
11684498 TTTTAAAATA-ATAAAAT-TATA
1 TTTTAAAATACA-AAAATATATA
*
11684519 TTTTAATATACAAAAATATATA
1 TTTTAAAATACAAAAATATATA
11684541 T
1 T
11684542 ATATTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTTAAAATACAAAAATATATA
Found at i:11685917 original size:5 final size:5
Alignment explanation
Indices: 11685903--11685932 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
11685893 GTTCTTTATT
11685903 TTTTA TTTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA -TTTTA TTTTA TTTTA TTTTA TTTT
11685933 CACAAATTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:11690013 original size:29 final size:29
Alignment explanation
Indices: 11689971--11690027 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
11689961 TTATGGAATA
* * *
11689971 GATGGAGAACTTGTTCGTTGAGAGTTCGC
1 GATGAAGAACTTGTTCATTGAGAATTCGC
11690000 GATGAAGAACTTGTTCATTGAGAATTCG
1 GATGAAGAACTTGTTCATTGAGAATTCG
11690028 TGTCAAGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.26, C:0.12, G:0.30, T:0.32
Consensus pattern (29 bp):
GATGAAGAACTTGTTCATTGAGAATTCGC
Found at i:11691977 original size:15 final size:16
Alignment explanation
Indices: 11691957--11691989 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
11691947 ATATATATTT
11691957 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
11691972 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
11691989 T
1 T
11691990 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:11692074 original size:22 final size:22
Alignment explanation
Indices: 11692035--11692093 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
11692025 GTTTTAAGAA
*
11692035 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
11692056 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
11692078 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
11692094 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:11692110 original size:26 final size:24
Alignment explanation
Indices: 11692064--11692123 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
11692054 ATTTGTTTTA
*
11692064 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
11692088 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
11692114 TTTTTTATTT
1 ATATTTATTT
11692124 AATGAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:11693447 original size:21 final size:21
Alignment explanation
Indices: 11693422--11693465 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
11693412 ATTTTTTTAG
11693422 ATAAAATCTTAATAATAATGT
1 ATAAAATCTTAATAATAATGT
11693443 ATAAAATCTTAATAATAATGT
1 ATAAAATCTTAATAATAATGT
11693464 AT
1 AT
11693466 TTATCATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.39
Consensus pattern (21 bp):
ATAAAATCTTAATAATAATGT
Found at i:11694671 original size:15 final size:17
Alignment explanation
Indices: 11694632--11694671 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
11694622 AAACAAATAG
11694632 TATAAAGTTAGTATTAAT
1 TATAAA-TTAGTATTAAT
11694650 TAT-AATT-GTATT-AT
1 TATAAATTAGTATTAAT
11694664 TATAAATT
1 TATAAATT
11694672 TAATAAAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.24
15 9 0.43
16 2 0.10
17 2 0.10
18 3 0.14
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (17 bp):
TATAAATTAGTATTAAT
Found at i:11697047 original size:42 final size:42
Alignment explanation
Indices: 11696988--11697077 Score: 128
Period size: 42 Copynumber: 2.1 Consensus size: 42
11696978 ACGATCTAAC
***
11696988 ACACGGCTTGGCACACGGACATGT-AGGGTGACTCAGAGAGTT
1 ACACGGCTTGGCACACGGACATGTGAACCT-ACTCAGAGAGTT
*
11697030 ACACGGCTTGGCACACGGGCATGTGAACCTACTCAGAGAGTT
1 ACACGGCTTGGCACACGGACATGTGAACCTACTCAGAGAGTT
11697072 ACACGG
1 ACACGG
11697078 ATGAGGACAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 41 0.95
43 2 0.05
ACGTcount: A:0.27, C:0.24, G:0.31, T:0.18
Consensus pattern (42 bp):
ACACGGCTTGGCACACGGACATGTGAACCTACTCAGAGAGTT
Found at i:11699646 original size:29 final size:29
Alignment explanation
Indices: 11699604--11699666 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
11699594 AGTGAGGGGT
* *
11699604 CGTGTGGTCCACACGCCCTTGTGAAAGAC
1 CGTGTGGTCCACACACCCGTGTGAAAGAC
** **
11699633 CGTGTGGTTTACACACCCGTGTGGGAGAC
1 CGTGTGGTCCACACACCCGTGTGAAAGAC
11699662 CGTGT
1 CGTGT
11699667 TGCCCTATTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.17, C:0.27, G:0.32, T:0.24
Consensus pattern (29 bp):
CGTGTGGTCCACACACCCGTGTGAAAGAC
Found at i:11700209 original size:21 final size:20
Alignment explanation
Indices: 11700171--11700218 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
11700161 GTTTTAAGAA
*
11700171 TTGTTTTAGTATCATTTTTAT
1 TTGTTTTAATATCATTTTT-T
*
11700192 TTGTTTTAATAT-TTTTTTT
1 TTGTTTTAATATCATTTTTT
11700211 TATGTTTT
1 T-TGTTTT
11700219 TAAATATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 11 0.46
21 11 0.46
ACGTcount: A:0.17, C:0.02, G:0.08, T:0.73
Consensus pattern (20 bp):
TTGTTTTAATATCATTTTTT
Found at i:11701472 original size:41 final size:40
Alignment explanation
Indices: 11701395--11701481 Score: 93
Period size: 41 Copynumber: 2.1 Consensus size: 40
11701385 TCAAATACAT
*
11701395 TTAAAACAAATATTAAAATAAGAAACAAATAAAAAATTATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAA-TATA
* * * * **
11701436 TTAAAACAATTCTTAAAACAATACACAAATTGAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
*
11701476 ATAAAA
1 TTAAAA
11701482 AGTGATTATA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
40 9 0.24
41 29 0.76
ACGTcount: A:0.64, C:0.08, G:0.02, T:0.25
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
Found at i:11705968 original size:23 final size:23
Alignment explanation
Indices: 11705942--11705986 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
11705932 TTATGCTTTC
11705942 ATTTAAAATAAAATAAAATTTAT
1 ATTTAAAATAAAATAAAATTTAT
*
11705965 ATTTAAAATAAAATCAAATTTA
1 ATTTAAAATAAAATAAAATTTA
11705987 ACATTCATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
ATTTAAAATAAAATAAAATTTAT
Found at i:11719562 original size:93 final size:93
Alignment explanation
Indices: 11719447--11719637 Score: 337
Period size: 93 Copynumber: 2.1 Consensus size: 93
11719437 TAAAACAAAA
* *
11719447 TATTTTTTAATTGCGGTGAGTATTTATACTATTTCATCCAAGAAAGCAAGGAATAAAGGTACTCC
1 TATTTTTTAATTGCGGTAAGTATTTATACTATTTCATCCAAGAAAGCAAGGAAAAAAGGTACTCC
* *
11719512 TATAGTTCATCATTGAAATATAGGAATG
66 TATAGTTCATAATTGAAATATAAGAATG
*
11719540 TATTTTTTAATTGCGGTAAGTATTTATACTATTTCGTCCAAGAAAGCAAGGAAAAAAGGTACTCC
1 TATTTTTTAATTGCGGTAAGTATTTATACTATTTCATCCAAGAAAGCAAGGAAAAAAGGTACTCC
11719605 TATAGTTCATAATTGAAATATAAGAATG
66 TATAGTTCATAATTGAAATATAAGAATG
11719633 TATTT
1 TATTT
11719638 ATATATAAAA
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (93 bp):
TATTTTTTAATTGCGGTAAGTATTTATACTATTTCATCCAAGAAAGCAAGGAAAAAAGGTACTCC
TATAGTTCATAATTGAAATATAAGAATG
Found at i:11722136 original size:13 final size:13
Alignment explanation
Indices: 11722118--11722151 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
11722108 GATAAAATAA
11722118 TAAAATATCTTAT
1 TAAAATATCTTAT
11722131 TAAAATATCTTAT
1 TAAAATATCTTAT
11722144 TAAAATAT
1 TAAAATAT
11722152 TAATAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (13 bp):
TAAAATATCTTAT
Found at i:11724459 original size:26 final size:24
Alignment explanation
Indices: 11724404--11724459 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 24
11724394 TAACTTCTTT
* *
11724404 TCAAATTTATAAATAAAATTTGTC
1 TCAAATTTATAAATAAAATTCGAC
*
11724428 TCCAAATTTTTAAAATAAATATTCGAC
1 T-CAAATTTAT-AAATAAA-ATTCGAC
11724455 TCAAA
1 TCAAA
11724460 ATTTGTGTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 1 0.04
25 8 0.31
26 11 0.42
27 6 0.23
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (24 bp):
TCAAATTTATAAATAAAATTCGAC
Found at i:11724461 original size:27 final size:27
Alignment explanation
Indices: 11724409--11724463 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
11724399 TCTTTTCAAA
* * *
11724409 TTTATAAATAAAATTTGTCTCCAAATT
1 TTTATAAATAAAATTCGACTCAAAATT
11724436 TTTA-AAATAAATATTCGACTCAAAATT
1 TTTATAAATAAA-ATTCGACTCAAAATT
11724463 T
1 T
11724464 GTGTGTACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.42
Consensus pattern (27 bp):
TTTATAAATAAAATTCGACTCAAAATT
Found at i:11726366 original size:35 final size:35
Alignment explanation
Indices: 11726299--11726377 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 35
11726289 CAAGGTATCG
* * ** *
11726299 CCCCAAATGACCTATATATTGTTTGCACGGTGTCA
1 CCCCAAAGGACCCATATACCGTTTACACGGTGTCA
* *
11726334 CCCCAAAGGACCCATATACCGTTTACATGGTGTCG
1 CCCCAAAGGACCCATATACCGTTTACACGGTGTCA
11726369 CCCCGAAAG
1 CCCC-AAAG
11726378 ACTAGTCAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
35 32 0.89
36 4 0.11
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (35 bp):
CCCCAAAGGACCCATATACCGTTTACACGGTGTCA
Found at i:11730789 original size:24 final size:24
Alignment explanation
Indices: 11730762--11730811 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
11730752 CAAATAAGAG
11730762 TCCTGAACTAGAGGAATAGATTGA
1 TCCTGAACTAGAGGAATAGATTGA
* *
11730786 TCCTGAACTGGAGGAATGGATTGA
1 TCCTGAACTAGAGGAATAGATTGA
11730810 TC
1 TC
11730812 AGAAGAAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.26
Consensus pattern (24 bp):
TCCTGAACTAGAGGAATAGATTGA
Found at i:11747272 original size:22 final size:22
Alignment explanation
Indices: 11747241--11747303 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
11747231 TTACTGCCCT
*
11747241 TAGTATTGACATTCTCTATCCC
1 TAGTACTGACATTCTCTATCCC
***
11747263 T-GTTACTGACATTCTCTATTTT
1 TAG-TACTGACATTCTCTATCCC
11747285 TAGTACTGACATTCTCTAT
1 TAGTACTGACATTCTCTAT
11747304 AAACTTCAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.22, G:0.10, T:0.46
Consensus pattern (22 bp):
TAGTACTGACATTCTCTATCCC
Found at i:11750616 original size:58 final size:57
Alignment explanation
Indices: 11750519--11750718 Score: 258
Period size: 58 Copynumber: 3.4 Consensus size: 57
11750509 CCGCGAATAG
* * *
11750519 TTTTATACTTGTGAAAAATTTGAAAGATAATCAATTGGGGATGTGAATCTACAAGCTA
1 TTTTATACTTGTG-AAAATTTGAAAGATAATCAAATGGGGATGTGAATCCACGAGCTA
* * * *
11750577 TTTTATACTTGTGAAAATTCTAAAAGATAATTAAATGGGGATGCGAATCCATGAGCTGA
1 TTTTATACTTGTGAAAATT-TGAAAGATAATCAAATGGGGATGTGAATCCACGAGCT-A
* * *
11750636 -TTTATACTTGTGAAAATTTTGAAAGATAACCAACTGGGGATGTGAATCCCCGAGCTA
1 TTTTATACTTGTGAAAA-TTTGAAAGATAATCAAATGGGGATGTGAATCCACGAGCTA
11750693 TTTTATACTTGTGAAAATTTTGAAAG
1 TTTTATACTTGTGAAAA-TTTGAAAG
11750719 GTAACATAAT
Statistics
Matches: 124, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
57 7 0.06
58 114 0.92
59 3 0.02
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (57 bp):
TTTTATACTTGTGAAAATTTGAAAGATAATCAAATGGGGATGTGAATCCACGAGCTA
Found at i:11750911 original size:69 final size:69
Alignment explanation
Indices: 11750838--11751069 Score: 173
Period size: 69 Copynumber: 3.4 Consensus size: 69
11750828 AAACAACGGT
* * *
11750838 TCTTCGTCTGTGAGCTTTAGTATGACAGGTGGGAGCTTTGCTTTCGCTAACTGTGTTGGAGGCTG
1 TCTTCGTCTGTGAGCCTTAATATGACAGGTGAGAGCTTTGCTTTCGCTAACTGTGTTGGAGGCTG
11750903 TGGC
66 TGGC
* * * * ** * * *
11750907 TCTTCAG-CTGTAAACCTTAATATAACAGCTGTTAGCTTTG-TTCTTGCTAACTATGTTGGAGGT
1 TCTTC-GTCTGTGAGCCTTAATATGACAGGTGAGAGCTTTGCTT-TCGCTAACTGTGTTGGAGGC
*
11750970 TATGGC
64 TGTGGC
* ** * * * * * *
11750976 TTTTCACCTATGAGCCTTAATATGACAGGT-AGAGCTTTGCTCTCACAAATTGTGTTGAAGGCTG
1 TCTTCGTCTGTGAGCCTTAATATGACAGGTGAGAGCTTTGCTTTCGCTAACTGTGTTGGAGGCTG
* *
11751040 CGAC
66 TGGC
* ***
11751044 TCTTCGTTTACAAGCCTTAATATGAC
1 TCTTCGTCTGTGAGCCTTAATATGAC
11751070 TCGAATGTCA
Statistics
Matches: 121, Mismatches: 38, Indels: 9
0.72 0.23 0.05
Matches are distributed among these distances:
68 45 0.37
69 75 0.62
70 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (69 bp):
TCTTCGTCTGTGAGCCTTAATATGACAGGTGAGAGCTTTGCTTTCGCTAACTGTGTTGGAGGCTG
TGGC
Found at i:11759293 original size:34 final size:34
Alignment explanation
Indices: 11759250--11759320 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
11759240 GTATTTGAGA
11759250 ATGGTGTTGCAAACTCTACGTAAAAAGCAACTAT
1 ATGGTGTTGCAAACTCTACGTAAAAAGCAACTAT
**
11759284 ATGGTGTTGCAAACTCTGTGTAAAAAGCAACTAT
1 ATGGTGTTGCAAACTCTACGTAAAAAGCAACTAT
11759318 ATG
1 ATG
11759321 CTAAATTCAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (34 bp):
ATGGTGTTGCAAACTCTACGTAAAAAGCAACTAT
Found at i:11760548 original size:17 final size:17
Alignment explanation
Indices: 11760523--11760560 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
11760513 ATTTGCCATC
* *
11760523 TGGCGAACTCTAGGTTT
1 TGGCAAACTCTAGGGTT
11760540 TGGCAAACTCTAGGGTT
1 TGGCAAACTCTAGGGTT
11760557 TGGC
1 TGGC
11760561 TATTAATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (17 bp):
TGGCAAACTCTAGGGTT
Found at i:11762944 original size:5 final size:5
Alignment explanation
Indices: 11762934--11762967 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
11762924 TTATGTTTTA
11762934 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTA
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTA
11762968 AATAAAGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:11763872 original size:21 final size:19
Alignment explanation
Indices: 11763834--11763872 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
11763824 AAAAATGTGA
*
11763834 TTATTGTGAAATTGAATAT
1 TTATTGTGAAAGTGAATAT
11763853 TTATTAGTGAAAAGTGAATA
1 TTATT-GTG-AAAGTGAATA
11763873 GAATTATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 3 0.18
21 9 0.53
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (19 bp):
TTATTGTGAAAGTGAATAT
Found at i:11764330 original size:19 final size:19
Alignment explanation
Indices: 11764306--11764356 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
11764296 AAAGATCGAC
11764306 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAATTTAAT
* * *
11764325 TGTTACTGTAT-ATCTGAT
1 TGTTACTGAATAATTTAAT
11764343 T-TTACTGAATAATT
1 TGTTACTGAATAATT
11764357 GACTGTTACT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 8 0.31
18 8 0.31
19 10 0.38
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.49
Consensus pattern (19 bp):
TGTTACTGAATAATTTAAT
Found at i:11764367 original size:18 final size:18
Alignment explanation
Indices: 11764306--11764452 Score: 93
Period size: 18 Copynumber: 7.7 Consensus size: 18
11764296 AAAGATCGAC
*
11764306 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAA-TTGAT
*
11764325 TGTTACTGTAT-ATCTGAT
1 TGTTACTGAATAAT-TGAT
*
11764343 T-TTACTGAATAATTGAC
1 TGTTACTGAATAATTGAT
11764360 TGTTACTGGATAACCGATCAATTGAT
1 TGTTACT-G---A---AT-AATTGAT
*
11764386 TGATACTGAATAACTT-AT
1 TGTTACTGAATAA-TTGAT
* *
11764404 TATTATTGAATAATTGAT
1 TGTTACTGAATAATTGAT
* * *
11764422 TGTTACCGAATAACTGAC
1 TGTTACTGAATAATTGAT
11764440 TGTTACTGAATAA
1 TGTTACTGAATAA
11764453 ATAATTATTC
Statistics
Matches: 100, Mismatches: 15, Indels: 27
0.70 0.11 0.19
Matches are distributed among these distances:
17 15 0.15
18 53 0.53
19 15 0.15
22 2 0.02
25 3 0.03
26 12 0.12
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (18 bp):
TGTTACTGAATAATTGAT
Found at i:11764512 original size:28 final size:27
Alignment explanation
Indices: 11764458--11764512 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
11764448 AATAAATAAT
* *
11764458 TATTCTGATTGACTGATTGTTAATGAA
1 TATTCTGATTGACTAATTGCTAATGAA
* *
11764485 TATTACTGATTGATTAATTGCTATTGAA
1 TATT-CTGATTGACTAATTGCTAATGAA
11764513 AAATAATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.31, C:0.07, G:0.16, T:0.45
Consensus pattern (27 bp):
TATTCTGATTGACTAATTGCTAATGAA
Found at i:11766935 original size:39 final size:39
Alignment explanation
Indices: 11766883--11767004 Score: 190
Period size: 39 Copynumber: 3.1 Consensus size: 39
11766873 TAATTTATAT
* *
11766883 GATCATGACCTTTGGCTTTTTTACGGTCCGCTGATTTAC
1 GATCATGATCTTTGGCTTTCTTACGGTCCGCTGATTTAC
* **
11766922 GATCATGATCTTTGACTTTCTTACGGTCTACTGATTTAC
1 GATCATGATCTTTGGCTTTCTTACGGTCCGCTGATTTAC
*
11766961 GATCATGATCTTCGGCTTTCTTACGGTCCGCTGATTTAC
1 GATCATGATCTTTGGCTTTCTTACGGTCCGCTGATTTAC
11767000 GATCA
1 GATCA
11767005 CGACCTCTTA
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.18, C:0.23, G:0.19, T:0.40
Consensus pattern (39 bp):
GATCATGATCTTTGGCTTTCTTACGGTCCGCTGATTTAC
Found at i:11767043 original size:78 final size:77
Alignment explanation
Indices: 11766880--11767043 Score: 188
Period size: 78 Copynumber: 2.1 Consensus size: 77
11766870 TACTAATTTA
* * * * *
11766880 TATGATCATGACCTTTGGCTTTTTTACGGTCCGCTGATTTACGATCATGATCTTTGACTTTCTTA
1 TATGATCATGACCTTCGGCTTTCTTACGGTCCGCTGATTTACGATCACGACCTTTGACTTTCTAA
*
11766945 CGGTCTACTGATT
66 CAGTCTA-TGATT
* * *
11766958 TACGATCATGATCTTCGGCTTTCTTACGGTCCGCTGATTTACGATCACGACCTCTT-ATTTTCTA
1 TATGATCATGACCTTCGGCTTTCTTACGGTCCGCTGATTTACGATCACGACCT-TTGACTTTCTA
*
11767022 ACAATTCGT-TGATT
65 AC-AGTC-TATGATT
11767036 TATGATCA
1 TATGATCA
11767044 CGGCTCCAGT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 67 0.93
79 4 0.06
80 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.41
Consensus pattern (77 bp):
TATGATCATGACCTTCGGCTTTCTTACGGTCCGCTGATTTACGATCACGACCTTTGACTTTCTAA
CAGTCTATGATT
Found at i:11767135 original size:35 final size:35
Alignment explanation
Indices: 11767096--11767185 Score: 110
Period size: 36 Copynumber: 2.5 Consensus size: 35
11767086 GAATTCATCA
* *
11767096 ATTTACAATCGCGACTTCA-CTTAAATAGTTCGCTG
1 ATTTACAATCACGACTTCATCTTAAA-AGCTCGCTG
* *
11767131 ATTTACAATCACGACTGTCATTTTTAAAGCTCGCTG
1 ATTTACAATCACGACT-TCATCTTAAAAGCTCGCTG
*
11767167 ATTTACAATCACAACTTCA
1 ATTTACAATCACGACTTCA
11767186 GTTCATTGAT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
35 18 0.38
36 26 0.54
37 4 0.08
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.34
Consensus pattern (35 bp):
ATTTACAATCACGACTTCATCTTAAAAGCTCGCTG
Found at i:11767310 original size:132 final size:133
Alignment explanation
Indices: 11767027--11767371 Score: 446
Period size: 132 Copynumber: 2.6 Consensus size: 133
11767017 TTCTAACAAT
* * * * *
11767027 TCGTTGATTTATGATCACGGCTCCAGTTCATTAATTTATGATCATGAACACTTCTTAAAGAATTC
1 TCGTTGATTTACGATCACGACTTCAGTTCATTGATTTATGATCATGAACACTTCTTAAAGAGTTC
* * * * *
11767092 ATCAATTTACAATCGCGACTTCACTTAAATAGTTCGCTGATTTACAATCACGACTGTCATTTTTA
66 ATCAATTTACAATCACGACTACAATTAAATA-TTCACTGATTTACAATCACGACTGTCATGTTTA
11767157 AAGC
130 AAGC
* * *
11767161 TCGCTGATTTACAATCACAACTTCAGTTCATTGATTTATGATCATGAACACTTCTT-AAGAGTTC
1 TCGTTGATTTACGATCACGACTTCAGTTCATTGATTTATGATCATGAACACTTCTTAAAGAGTTC
* * * ** *
11767225 A-CTGATTTTCAATCATGACTACAATTAACAT-TTCACTGATTTAGGATCACGATTGTCATGTTT
66 ATC-AATTTACAATCACGACTACAATTAA-ATATTCACTGATTTACAATCACGACTGTCATGTTT
11767288 AAAGC
129 AAAGC
*
11767293 -CTGTTGATTTACGATCACGACTTCAGTTCATTGATTTATGATTATGAACACTTCTTAAAGAGTT
1 TC-GTTGATTTACGATCACGACTTCAGTTCATTGATTTATGATCATGAACACTTCTTAAAGAGTT
11767357 CATCAATTTACAATC
65 CATCAATTTACAATC
11767372 GCGATTCCAC
Statistics
Matches: 181, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
131 1 0.01
132 83 0.46
133 45 0.25
134 52 0.29
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (133 bp):
TCGTTGATTTACGATCACGACTTCAGTTCATTGATTTATGATCATGAACACTTCTTAAAGAGTTC
ATCAATTTACAATCACGACTACAATTAAATATTCACTGATTTACAATCACGACTGTCATGTTTAA
AGC
Found at i:11787455 original size:18 final size:18
Alignment explanation
Indices: 11787413--11787455 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
11787403 ATTTGTCCTT
11787413 ATTTTATGAATTTTTTAAA
1 ATTTT-TGAATTTTTTAAA
* * *
11787432 AATTTTGATTTTTTTTAA
1 ATTTTTGAATTTTTTAAA
11787450 ATTTTT
1 ATTTTT
11787456 TTATGATTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (18 bp):
ATTTTTGAATTTTTTAAA
Found at i:11791042 original size:37 final size:38
Alignment explanation
Indices: 11790992--11791066 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 38
11790982 AATAGTTGAC
** *
11790992 ACCCAGTGTCTCATCG-GCCTAGTCT-AAGTAAAATAGT
1 ACCCAGTACCTCATCGAACCTA-TCTGAAGTAAAATAGT
*
11791029 ACCCAGTACCTCATCGAATCTATCTGAAGTAAAATAGT
1 ACCCAGTACCTCATCGAACCTATCTGAAGTAAAATAGT
11791067 GACACCCAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
37 17 0.53
38 15 0.47
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (38 bp):
ACCCAGTACCTCATCGAACCTATCTGAAGTAAAATAGT
Found at i:11791083 original size:41 final size:41
Alignment explanation
Indices: 11790982--11791086 Score: 121
Period size: 41 Copynumber: 2.6 Consensus size: 41
11790972 AGTTCGAAGC
*
11790982 AATAGTTGACACCCAGTGTCTCATCG-GCCTAGTCTAAGTAA
1 AATAG-TGACACCCAGTGTCTCATCGAACCTAGTCTAAGTAA
** *
11791023 AATAGT---ACCCAGTACCTCATCGAATCTA-TCTGAAGTAA
1 AATAGTGACACCCAGTGTCTCATCGAACCTAGTCT-AAGTAA
11791061 AATAGTGACACCCAGTGTCTCATCGA
1 AATAGTGACACCCAGTGTCTCATCGA
11791087 CTCGAGGTCG
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
37 17 0.32
38 15 0.28
40 1 0.02
41 20 0.38
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (41 bp):
AATAGTGACACCCAGTGTCTCATCGAACCTAGTCTAAGTAA
Found at i:11792067 original size:17 final size:17
Alignment explanation
Indices: 11792038--11792071 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
11792028 TTTCTTTTTC
11792038 TTTTATTATTTTATTTA
1 TTTTATTATTTTATTTA
11792055 TTTTACTTA-TTTATTTA
1 TTTTA-TTATTTTATTTA
11792072 ACACATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTATTATTTTATTTA
Found at i:11793735 original size:4 final size:4
Alignment explanation
Indices: 11793726--11793762 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
11793716 AGCAAACGTG
*
11793726 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AAAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
11793763 TAGAAAAGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:11794592 original size:47 final size:47
Alignment explanation
Indices: 11794528--11794638 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
11794518 GACATTGAGT
*
11794528 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * * * *
11794575 CGATGAAGTACTTTGTGTACTATAATGTTATAGTTCTGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
11794622 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
11794639 CTTATCCCGG
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
47 50 0.93
48 4 0.07
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.37
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:11799245 original size:13 final size:13
Alignment explanation
Indices: 11799227--11799251 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11799217 TATATATGTG
11799227 TGAGAAAGGTTCA
1 TGAGAAAGGTTCA
11799240 TGAGAAAGGTTC
1 TGAGAAAGGTTC
11799252 TTCTTTCTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.32, T:0.24
Consensus pattern (13 bp):
TGAGAAAGGTTCA
Found at i:11802824 original size:20 final size:19
Alignment explanation
Indices: 11802788--11802834 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
11802778 ATAATATAAT
*
11802788 AAAAGAAATAATAAAAGAA
1 AAAAGAAATAAAAAAAGAA
*
11802807 TAAAGAAATAAAATAAAGAA
1 AAAAGAAATAAAA-AAAGAA
11802827 AAAAGAAA
1 AAAAGAAA
11802835 GAAAGAAGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (19 bp):
AAAAGAAATAAAAAAAGAA
Found at i:11805271 original size:22 final size:22
Alignment explanation
Indices: 11805236--11805289 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
11805226 GACATCGACA
*
11805236 GTTTAATG-TTGTAATTAGAAT
1 GTTTAAAGTTTGTAATTAGAAT
11805257 GTTTAAAGTTTGTAATTAGAAT
1 GTTTAAAGTTTGTAATTAGAAT
11805279 GTTTAAAGTTT
1 GTTTAAAGTTT
11805290 AAGGACTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 7 0.23
22 24 0.77
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (22 bp):
GTTTAAAGTTTGTAATTAGAAT
Found at i:11807341 original size:3 final size:3
Alignment explanation
Indices: 11807333--11807357 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11807323 AGGTCCATTA
11807333 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
11807358 TTGCAGAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:11807928 original size:7 final size:7
Alignment explanation
Indices: 11807916--11807945 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
11807906 GTCAGTCACC
11807916 TTTTTCT
1 TTTTTCT
11807923 TTTTTCT
1 TTTTTCT
11807930 TTTTTCT
1 TTTTTCT
11807937 TTTTT-T
1 TTTTTCT
11807943 TTT
1 TTT
11807946 AATTTTTAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 19 0.83
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (7 bp):
TTTTTCT
Found at i:11813467 original size:205 final size:206
Alignment explanation
Indices: 11813115--11813533 Score: 759
Period size: 205 Copynumber: 2.0 Consensus size: 206
11813105 TAGTCTCATT
* *
11813115 TGTTTTAAACCCCGAAAAGGTGTTGGATGCATCGATTTCATGGCAGTTGAGGGGTCTGGCATGAA
1 TGTTTTAAACCCCGAAAAGGTGTTGGATGCATCGATTTCATGACAGTTCAGGGGTCTGGCATGAA
*
11813180 AGTATTCAATAAATTTGTGGTGGGGAAGAACTTGCTGCTGCCTTCTAGTTTTTTGGTATGGTATT
66 AGTATTCAATAAATTTGTGGTGGGGAAGAACTTGCTGCTGCCTTCTAGTTTCTTGGTATGGTATT
11813245 GATGAGAAGTGTATATGATGTCCAATACCGCTGTTG-TATCAAATGTGGTGCTATTTCCTAGTCA
131 GATGAGAAGTGTATATGATGTCCAATACCGCTGTTGTTATCAAATGTGGTGCTATTTCCTAGTCA
*
11813309 ATGAATGTCCC
196 ATGAATATCCC
11813320 TGTTTTAAACCCCGAAAAGGTGTTGGATGCATCGATTTCATGACAGTTCAGGGGTCTGGCATGAA
1 TGTTTTAAACCCCGAAAAGGTGTTGGATGCATCGATTTCATGACAGTTCAGGGGTCTGGCATGAA
* *
11813385 AGTATTTAATAAATTTTTGGTGGGGAAGAACTTGCTGCTGCCTTCTAGTTTCTTGGTATGGTATT
66 AGTATTCAATAAATTTGTGGTGGGGAAGAACTTGCTGCTGCCTTCTAGTTTCTTGGTATGGTATT
11813450 GATGAGAAGTGTATATGATGTCCAATACCGCTGTTGTTTTATCAAATGTGGTGCTATTTCCTAGT
131 GATGAGAAGTGTATATGATGTCCAATACCGCTGTTG--TTATCAAATGTGGTGCTATTTCCTAGT
11813515 CAATGAATATCCC
194 CAATGAATATCCC
11813528 TGTTTT
1 TGTTTT
11813534 TGGTCCAAAA
Statistics
Matches: 205, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
205 161 0.79
208 44 0.21
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (206 bp):
TGTTTTAAACCCCGAAAAGGTGTTGGATGCATCGATTTCATGACAGTTCAGGGGTCTGGCATGAA
AGTATTCAATAAATTTGTGGTGGGGAAGAACTTGCTGCTGCCTTCTAGTTTCTTGGTATGGTATT
GATGAGAAGTGTATATGATGTCCAATACCGCTGTTGTTATCAAATGTGGTGCTATTTCCTAGTCA
ATGAATATCCC
Found at i:11816772 original size:17 final size:18
Alignment explanation
Indices: 11816752--11816791 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
11816742 TTTATAATTA
*
11816752 TTTTATCGT-ATTAATAT
1 TTTTATAGTAATTAATAT
*
11816769 TTTTATATTAATTAATAT
1 TTTTATAGTAATTAATAT
11816787 TTTTA
1 TTTTA
11816792 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTTATAGTAATTAATAT
Found at i:11817836 original size:24 final size:24
Alignment explanation
Indices: 11817786--11817837 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
11817776 TTTCTAGAAA
* * *
11817786 ATTTAGTATCTATTAGTATAATAT
1 ATTTAGCATCTATTAGCAAAATAT
* *
11817810 ATTTAGCATTTATTAGCAAAATTT
1 ATTTAGCATCTATTAGCAAAATAT
11817834 ATTT
1 ATTT
11817838 GACCTACGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATCTATTAGCAAAATAT
Found at i:11818233 original size:41 final size:41
Alignment explanation
Indices: 11818142--11818238 Score: 115
Period size: 41 Copynumber: 2.4 Consensus size: 41
11818132 CGTTTTAGCA
* * * *
11818142 AAAACGCCGCTAAAAATAGAGTAATAGCAGCATTTTTTGAT
1 AAAACGCCGCTAAAAACAGAGCAATAGCAGCAGTTTATGAT
* *
11818183 AAAACGCCGCTAAAAACAGAGCAATAGCGGC-GTTTATGGT
1 AAAACGCCGCTAAAAACAGAGCAATAGCAGCAGTTTATGAT
*
11818223 CAAAATGCCGCTAAAA
1 -AAAACGCCGCTAAAA
11818239 GTCATATAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 6 0.12
41 42 0.88
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.21
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACAGAGCAATAGCAGCAGTTTATGAT
Found at i:11819433 original size:3 final size:3
Alignment explanation
Indices: 11819425--11819450 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
11819415 CATTTTAGTA
11819425 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
11819451 AAGAGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:11821876 original size:23 final size:25
Alignment explanation
Indices: 11821850--11821896 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
11821840 TATCATTCAT
*
11821850 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
11821873 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
11821897 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:11822217 original size:46 final size:46
Alignment explanation
Indices: 11822157--11822514 Score: 527
Period size: 46 Copynumber: 8.0 Consensus size: 46
11822147 TTTGACGTGA
* * * * * *
11822157 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
11822203 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
11822249 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
11822295 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
11822341 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
11822387 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
11822433 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--AT-AGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
11822471 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
11822515 AGAGCGCACT
Statistics
Matches: 288, Mismatches: 15, Indels: 18
0.90 0.05 0.06
Matches are distributed among these distances:
38 32 0.11
39 2 0.01
40 3 0.01
41 1 0.00
43 1 0.00
44 3 0.01
45 6 0.02
46 240 0.83
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:11822480 original size:38 final size:38
Alignment explanation
Indices: 11822429--11822504 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
11822419 ATTTCATATC
11822429 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
11822467 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
11822505 TTCATATCAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (38 bp):
AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
Found at i:11827130 original size:31 final size:30
Alignment explanation
Indices: 11827076--11827138 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 30
11827066 TGATAATGAA
** *
11827076 TTTTAATTTTTTTTATATTTTTCATGATCT
1 TTTTAATTTTTTTTATAAATTTCATGACCT
*
11827106 TTTTAATATTTTTTTTTAAATTTCATGACCT
1 TTTTAAT-TTTTTTTATAAATTTCATGACCT
11827137 TT
1 TT
11827139 AGCGGCGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 7 0.25
31 21 0.75
ACGTcount: A:0.22, C:0.08, G:0.03, T:0.67
Consensus pattern (30 bp):
TTTTAATTTTTTTTATAAATTTCATGACCT
Found at i:11827235 original size:15 final size:15
Alignment explanation
Indices: 11827215--11827251 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
11827205 CCGCAAAATT
11827215 TAGCGGCGCCATCTA
1 TAGCGGCGCCATCTA
11827230 TAGCGGCGCCATCTA
1 TAGCGGCGCCATCTA
11827245 TAGCGGC
1 TAGCGGC
11827252 ATTTTTTGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.19, C:0.32, G:0.30, T:0.19
Consensus pattern (15 bp):
TAGCGGCGCCATCTA
Found at i:11837044 original size:43 final size:43
Alignment explanation
Indices: 11836993--11837143 Score: 162
Period size: 43 Copynumber: 3.5 Consensus size: 43
11836983 TATCCTAGAT
* * *
11836993 ATGGTCTTACATGTTATCACATATCGGTGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC
* * *
11837036 ATAGTCTTACACGAAATCATATAAT-GATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACAT-ATCGATGCCAATGTCCCAGAC
* * ***
11837079 ATGGTCTTAGACGTAATCACA-ATACAATTTTAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACATAT-CGATGCCAATGTCCCAGAC
*
11837122 ATGGTCTTACATGTAATCACAT
1 ATGGTCTTACACGTAATCACAT
11837144 CTCGGTAATC
Statistics
Matches: 88, Mismatches: 16, Indels: 7
0.79 0.14 0.06
Matches are distributed among these distances:
41 2 0.02
43 84 0.95
44 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC
Found at i:11844409 original size:30 final size:30
Alignment explanation
Indices: 11844355--11844411 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11844345 TTTACGAGCA
*
11844355 TTGGGGCAAAAGTGTAAATATGTAAAAGTT
1 TTGGGGCAAAAGTGAAAATATGTAAAAGTT
*
11844385 TTGGGGTCAAAA-TGAAAATTTGTAAAA
1 TTGGGG-CAAAAGTGAAAATATGTAAAA
11844412 ATATGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.42, C:0.04, G:0.25, T:0.30
Consensus pattern (30 bp):
TTGGGGCAAAAGTGAAAATATGTAAAAGTT
Found at i:11856792 original size:33 final size:33
Alignment explanation
Indices: 11856731--11856812 Score: 85
Period size: 33 Copynumber: 2.5 Consensus size: 33
11856721 AAAAAAAAAT
* * * *
11856731 TATTTTTTTATTATTTTCTCTTTTTTTTTTTAC
1 TATTTTGTTATCATTTTCTCTTTGTTTTTTCAC
*
11856764 TGTTTTGTTATCATTTTCT-TATTGTTTTTTCAC
1 TATTTTGTTATCATTTTCTCT-TTGTTTTTTCAC
* *
11856797 TATTTTGCTACCATTT
1 TATTTTGTTATCATTT
11856813 CATTATTATG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
32 1 0.03
33 39 0.98
ACGTcount: A:0.13, C:0.12, G:0.05, T:0.70
Consensus pattern (33 bp):
TATTTTGTTATCATTTTCTCTTTGTTTTTTCAC
Found at i:11857527 original size:30 final size:31
Alignment explanation
Indices: 11857491--11857559 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
11857481 GGTTTCATTT
* *
11857491 CAGTCACTCAAC-TTTTGAAAAA-TAACAAAA
1 CAGTCACT-AACGTTATAAAAAAGTAACAAAA
*
11857521 CAGTCACTAACGTTATAAAAAAGTGACAAAA
1 CAGTCACTAACGTTATAAAAAAGTAACAAAA
11857552 CAGTCACT
1 CAGTCACT
11857560 GATTAATAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 3 0.09
30 16 0.47
31 15 0.44
ACGTcount: A:0.48, C:0.20, G:0.10, T:0.22
Consensus pattern (31 bp):
CAGTCACTAACGTTATAAAAAAGTAACAAAA
Found at i:11857618 original size:21 final size:20
Alignment explanation
Indices: 11857590--11857634 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
11857580 GCTTTAACAG
11857590 AACTGCTGATGTGGCAAGTT
1 AACTGCTGATGTGGCAAGTT
*
11857610 AACTAGCTGATGTGGCCAGTT
1 AACT-GCTGATGTGGCAAGTT
11857631 AACT
1 AACT
11857635 TGCCACATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (20 bp):
AACTGCTGATGTGGCAAGTT
Found at i:11862151 original size:22 final size:22
Alignment explanation
Indices: 11862124--11862166 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11862114 AGGTTTACTT
* *
11862124 GATTTATGGTTAGGTTTTTTAG
1 GATTTAAGGTTAGGGTTTTTAG
11862146 GATTTAAGGTTAGGGTTTTTA
1 GATTTAAGGTTAGGGTTTTTA
11862167 AGGGTCAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (22 bp):
GATTTAAGGTTAGGGTTTTTAG
Found at i:11862310 original size:20 final size:18
Alignment explanation
Indices: 11862286--11862335 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 18
11862276 AGGGTGTTAG
11862286 GGTTAATTGATTAAATTTA
1 GGTTAATTGATT-AATTTA
*
11862305 GAGTTAATTAATTAATTTA
1 G-GTTAATTGATTAATTTA
11862324 GGTTTAATTGAT
1 GG-TTAATTGAT
11862336 ACATAATTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 1 0.04
19 16 0.59
20 10 0.37
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (18 bp):
GGTTAATTGATTAATTTA
Found at i:11862722 original size:8 final size:7
Alignment explanation
Indices: 11862672--11862738 Score: 80
Period size: 7 Copynumber: 9.1 Consensus size: 7
11862662 ATTAATTGAA
11862672 TTAGGGT
1 TTAGGGT
*
11862679 TTAAGGT
1 TTAGGGT
*
11862686 TTAAGGT
1 TTAGGGT
11862693 TTAGGGT
1 TTAGGGT
11862700 TTAGGGT
1 TTAGGGT
*
11862707 TTACGGTT
1 TTA-GGGT
11862715 TTAGGGTT
1 TTAGGG-T
11862723 TTAGGGTT
1 TTAGGG-T
11862731 TTAGGGT
1 TTAGGGT
11862738 T
1 T
11862739 AATTCATTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
7 33 0.61
8 21 0.39
ACGTcount: A:0.16, C:0.01, G:0.36, T:0.46
Consensus pattern (7 bp):
TTAGGGT
Found at i:11863281 original size:127 final size:126
Alignment explanation
Indices: 11862942--11863385 Score: 676
Period size: 126 Copynumber: 3.5 Consensus size: 126
11862932 CGTTTCTGAA
* * * * * *
11862942 GTCAGCAAAATTTCTGAAAAAAGCTCTCACGTAGACGTTTTTTTGCTACAGTAGTTTGCAGAAAA
1 GTCAGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAAA
* *
11863007 ATAATTCTGAGTAGACGTTTCTAAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACT
66 ATAATTCTAAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACT
* * * *
11863068 TTCAGCAAAATTTCTGAAAAAAGCTTCCACGTGGTCGCTCTTTTGCTACAGTAGTTCATAGAAAA
1 GTCAGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAAA
* * *
11863133 ATAATTCTAAGTAGACGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGCAGGATACACT
66 ATAATTCTAAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACT
*
11863194 GTCAGCAAAATTTCTGAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTGTAGAAA
1 GTCAGCAAAATTTCTG-AAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * *
11863259 AATAATTCTAAATAGACTTTTCTGAACAAATAGTGTCGAAAATGCTTCAAGCAGGATGCACT
65 AATAATTCTAAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACT
* *
11863321 ATCAGCAAAATTTCT-AAAAAAG-TCCCACGTGGAAGCTCTTTTGCTACAGTAGTTCGTAGAAAA
1 GTCAGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAAA
11863384 AT
66 AT
11863386 GAGGCTATAA
Statistics
Matches: 288, Mismatches: 29, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
124 41 0.14
125 7 0.02
126 126 0.44
127 114 0.40
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (126 bp):
GTCAGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAAA
ATAATTCTAAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACT
Found at i:11869381 original size:18 final size:18
Alignment explanation
Indices: 11869355--11869396 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
11869345 GACTAGGAAA
* *
11869355 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
11869373 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
11869391 AGGATA
1 AGGATA
11869397 AGCACCTAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.43, C:0.07, G:0.29, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:11871120 original size:47 final size:48
Alignment explanation
Indices: 11870987--11871120 Score: 159
Period size: 48 Copynumber: 2.8 Consensus size: 48
11870977 ATGCAAACAT
* ** *
11870987 CATAAATGAA-AAACAAATCAAGCAGTATTGAAATTTTAATTATAATTG
1 CATAAATGAATAAA-ATATCAAATAGTATTGAAATTTTAATTATAATTA
11871035 CATAAATGAATAAAATATCAAATAGTATTGCAAA-TTTAATTA-AATTTA
1 CATAAATGAATAAAATATCAAATAGTATTG-AAATTTTAATTATAA-TTA
* *
11871083 CATAAATTAA-AAAATATCGAATAGTATTGAAATTTTAA
1 CATAAATGAATAAAATATCAAATAGTATTGAAATTTTAA
11871121 AATTATCACT
Statistics
Matches: 76, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
46 3 0.04
47 25 0.33
48 42 0.55
49 6 0.08
ACGTcount: A:0.51, C:0.07, G:0.08, T:0.34
Consensus pattern (48 bp):
CATAAATGAATAAAATATCAAATAGTATTGAAATTTTAATTATAATTA
Found at i:11874083 original size:116 final size:116
Alignment explanation
Indices: 11873880--11874231 Score: 616
Period size: 116 Copynumber: 3.0 Consensus size: 116
11873870 TACTATCGGG
*
11873880 ATCACGGGTTCGGGTATGTACGTCAACCCTGCCCTC-TTTTTTTTTAACACCATGAATCGGATAA
1 ATCACGGGTTCGGGTATGTACGTCAACCCTGTCCTCGTTTTTTTTTAACACCATGAATCGGATAA
11873944 GATTCGAATGAATGCGCTTTCTTTGCTTTTGGTAGGATTAATGGTATAGAA
66 GATTCGAATGAATGCGCTTTCTTTGCTTTTGGTAGGATTAATGGTATAGAA
*
11873995 ATCACGGGTTCGGGTATGTACGTCAACCCTGTCCTCGTTTTTTTTGAACACCATGAATCGGATAA
1 ATCACGGGTTCGGGTATGTACGTCAACCCTGTCCTCGTTTTTTTTTAACACCATGAATCGGATAA
*
11874060 GATTTGAATGAATGCGCTTTCTTTGCTTTTGGTAGGATTAATGGTATAGAA
66 GATTCGAATGAATGCGCTTTCTTTGCTTTTGGTAGGATTAATGGTATAGAA
11874111 ATCACGGGTTCGGGTATGTACGTCAACCCTGTCCTCGTTTTTTTTTTTTTAACACCATGAATCGG
1 ATCACGGGTTCGGGTATGTACGTCAACCCTGTCCTCG----TTTTTTTTTAACACCATGAATCGG
* *
11874176 ATAAGATTCGAATGAATGCGTTTTCTTTGCTTTTGGTAGGATTTATGGTATAGAA
62 ATAAGATTCGAATGAATGCGCTTTCTTTGCTTTTGGTAGGATTAATGGTATAGAA
11874231 A
1 A
11874232 AAAAACACAC
Statistics
Matches: 225, Mismatches: 7, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
115 35 0.16
116 114 0.51
120 76 0.34
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (116 bp):
ATCACGGGTTCGGGTATGTACGTCAACCCTGTCCTCGTTTTTTTTTAACACCATGAATCGGATAA
GATTCGAATGAATGCGCTTTCTTTGCTTTTGGTAGGATTAATGGTATAGAA
Found at i:11879083 original size:38 final size:37
Alignment explanation
Indices: 11879041--11879132 Score: 96
Period size: 38 Copynumber: 2.4 Consensus size: 37
11879031 AACTCTTTTG
11879041 TTTATATAAATAAA-ATAATAAATATGTAATTATATATT
1 TTTATAT-AATAAATATAATAAATATGTAATTA-ATATT
* * ** * *
11879079 TTTATATTTATAAATATATTTTATTTTTAATTAATATT
1 TTTATA-TAATAAATATAATAAATATGTAATTAATATT
11879117 TTTATATAATAAATAT
1 TTTATATAATAAATAT
11879133 TTATTGGTGA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
37 9 0.20
38 22 0.49
39 14 0.31
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (37 bp):
TTTATATAATAAATATAATAAATATGTAATTAATATT
Found at i:11879095 original size:20 final size:20
Alignment explanation
Indices: 11879072--11879132 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 20
11879062 ATATGTAATT
11879072 ATATATTTTTATATTTATAA
1 ATATATTTTTATATTTATAA
11879092 ATATA-TTTTAT-TTT-TAA
1 ATATATTTTTATATTTATAA
* *
11879109 TTAATATTTTTATA-TAATAA
1 AT-ATATTTTTATATTTATAA
11879129 ATAT
1 ATAT
11879133 TTATTGGTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
17 4 0.12
18 6 0.18
19 15 0.44
20 9 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
ATATATTTTTATATTTATAA
Found at i:11879117 original size:18 final size:20
Alignment explanation
Indices: 11879067--11879134 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 20
11879057 AATAAATATG
11879067 TAATTATATATTTTTATATTTA
1 TAATTA-ATA-TTTTATATTTA
*
11879089 TAAAT-ATATTTTAT-TTT-
1 TAATTAATATTTTATATTTA
11879106 TAATTAATATTTT-TA--TA
1 TAATTAATATTTTATATTTA
*
11879123 TAATAAATATTT
1 TAATTAATATTT
11879135 ATTGGTGATT
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
16 1 0.03
17 16 0.40
18 10 0.25
19 6 0.15
20 3 0.08
22 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TAATTAATATTTTATATTTA
Found at i:11879131 original size:17 final size:17
Alignment explanation
Indices: 11879074--11879134 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
11879064 ATGTAATTAT
*
11879074 ATATTTTTATATTTATAA
1 ATATTTTTATA-TAATAA
* *
11879092 ATATATTTTATTTTTAATTA
1 ATAT-TTTTA--TATAATAA
11879112 ATATTTTTATATAATAA
1 ATATTTTTATATAATAA
11879129 ATATTT
1 ATATTT
11879135 ATTGGTGATT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
17 12 0.34
18 4 0.11
19 10 0.29
20 8 0.23
21 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATATTTTTATATAATAA
Found at i:11888085 original size:13 final size:12
Alignment explanation
Indices: 11888067--11888137 Score: 56
Period size: 13 Copynumber: 5.6 Consensus size: 12
11888057 GAGACCAGCC
11888067 TTTTTTCTTGCTT
1 TTTTTTCTT-CTT
11888080 TTTTTTCTTCTT
1 TTTTTTCTTCTT
11888092 TTCTTTTCTTTACTT
1 TT-TTTTC-TT-CTT
**
11888107 TACTTTCTTCTT
1 TTTTTTCTTCTT
11888119 CTTCTTTT-TT-TT
1 -TT-TTTTCTTCTT
11888131 TTTTTTC
1 TTTTTTC
11888138 CCTTTTGTTC
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
10 4 0.08
11 2 0.04
12 10 0.21
13 19 0.40
14 9 0.19
15 4 0.08
ACGTcount: A:0.03, C:0.18, G:0.01, T:0.77
Consensus pattern (12 bp):
TTTTTTCTTCTT
Done.