Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 131 of 328
Found at i:37965498 original size:25 final size:25
Alignment explanation
Indices: 37965469--37965544 Score: 125
Period size: 25 Copynumber: 3.0 Consensus size: 25
37965459 CCCTTATAAT
37965469 GTGAAAATGACCATTTTGCCCCTAG
1 GTGAAAATGACCATTTTGCCCCTAG
37965494 GTGAAAATGACCATTTTGCCCCTAG
1 GTGAAAATGACCATTTTGCCCCTAG
* * *
37965519 GTGCAAATGACCATTATACCCCTAG
1 GTGAAAATGACCATTTTGCCCCTAG
37965544 G
1 G
37965545 GATATATTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (25 bp):
GTGAAAATGACCATTTTGCCCCTAG
Found at i:37965597 original size:10 final size:10
Alignment explanation
Indices: 37965584--37965622 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
37965574 CTGTTTTATA
37965584 CATGATATGC
1 CATGATATGC
37965594 CATGATATGC
1 CATGATATGC
37965604 ACATGATATGC
1 -CATGATATGC
37965615 CATGATAT
1 CATGATAT
37965623 ATTCATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:37965609 original size:21 final size:21
Alignment explanation
Indices: 37965583--37965622 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
37965573 ACTGTTTTAT
37965583 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
37965604 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
37965623 ATTCATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:37965702 original size:25 final size:24
Alignment explanation
Indices: 37965667--37965736 Score: 122
Period size: 25 Copynumber: 2.9 Consensus size: 24
37965657 GGAGGAAGTG
37965667 CAAAAGGGCTTTGCCCCAGTTTAC
1 CAAAAGGGCTTTGCCCCAGTTTAC
*
37965691 CGAAAAGGGCTTTGCCCCAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAC
37965716 CAAAAGGGCTTTGCCCCAGTT
1 CAAAAGGGCTTTGCCCCAGTT
37965737 ATTAAAAGAG
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
24 21 0.48
25 23 0.52
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAC
Found at i:37965725 original size:24 final size:24
Alignment explanation
Indices: 37965667--37965749 Score: 123
Period size: 24 Copynumber: 3.4 Consensus size: 24
37965657 GGAGGAAGTG
*
37965667 CAAAAGGGCTTTGCCCCAGTTTAC
1 CAAAAGGGCTTTGCCCCAGTTTAT
37965691 CGAAAAGGGCTTTGCCCCAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
37965716 CAAAAGGGCTTTGCCCCAG-TTAT
1 CAAAAGGGCTTTGCCCCAGTTTAT
*
37965739 TAAAAGAGGCT
1 CAAAAG-GGCT
37965750 AGGCCTCCAG
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
23 9 0.16
24 23 0.42
25 23 0.42
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAT
Found at i:37965760 original size:49 final size:49
Alignment explanation
Indices: 37965667--37965761 Score: 122
Period size: 49 Copynumber: 1.9 Consensus size: 49
37965657 GGAGGAAGTG
**
37965667 CAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTAT
**
37965716 CAAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 CAAAAGGGCTTTGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
37965762 ATATGATAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
47 5 0.12
48 10 0.25
49 25 0.62
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.25
Consensus pattern (49 bp):
CAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTAT
Found at i:37969723 original size:80 final size:80
Alignment explanation
Indices: 37969639--37969787 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
37969629 TATGGTAACC
* * * *
37969639 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
37969703 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
37969719 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
37969784 CCGG
66 CCGG
37969788 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:37969729 original size:40 final size:38
Alignment explanation
Indices: 37969680--37969787 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
37969670 ATCACGATTT
*
37969680 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
37969720 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
37969760 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
37969788 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:37977824 original size:80 final size:80
Alignment explanation
Indices: 37977740--37977888 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
37977730 TATGGTAACC
* * * *
37977740 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
37977804 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
37977820 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
37977885 CCGG
66 CCGG
37977889 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:37977830 original size:40 final size:38
Alignment explanation
Indices: 37977781--37977888 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
37977771 ATCACGATTT
*
37977781 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
37977821 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
37977861 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
37977889 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:37984860 original size:25 final size:25
Alignment explanation
Indices: 37984832--37984882 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
37984822 CCCTTATAAT
* *
37984832 GTGAAAATGACCATTTTGCCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
37984857 GTGAAAATGACCATTATACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
37984882 G
1 G
37984883 GATATGTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:37984935 original size:10 final size:10
Alignment explanation
Indices: 37984922--37984960 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
37984912 CTGTTTTATA
37984922 CATGATATGC
1 CATGATATGC
37984932 CATGATATGC
1 CATGATATGC
37984942 ACATGATATGC
1 -CATGATATGC
*
37984953 CATTATAT
1 CATGATAT
37984961 ATTCATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 17 0.63
11 10 0.37
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (10 bp):
CATGATATGC
Found at i:37984947 original size:21 final size:21
Alignment explanation
Indices: 37984921--37984960 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
37984911 ACTGTTTTAT
37984921 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
*
37984942 ACATGATATGCCATTATAT
1 ACATGATATGCCATGATAT
37984961 ATTCATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:37985063 original size:24 final size:24
Alignment explanation
Indices: 37985005--37985111 Score: 146
Period size: 24 Copynumber: 4.4 Consensus size: 24
37984995 GGAGGAAGTG
*
37985005 CAAAAGGGCTTTGCCCCAGTTTAC
1 CAAAAGGGCTTTGCCCCAGTTTAT
*
37985029 CGAAAAGGGCTTTGCCCTAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
37985054 CAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAGGGCTTTGCCCCAGTTTAT
37985078 CAAAAGGGCTTT-CCCTCAG-TTAT
1 CAAAAGGGCTTTGCCC-CAGTTTAT
*
37985101 TAAAAGAGGCT
1 CAAAAG-GGCT
37985112 AGGCCTCCAG
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
23 12 0.16
24 42 0.55
25 22 0.29
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAT
Found at i:37988513 original size:71 final size:71
Alignment explanation
Indices: 37988429--37988592 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
37988419 CGATTTGTCT
37988429 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
37988494 CTTTCA
66 CTTTCA
37988500 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
37988565 CTTTCA
66 CTTTCA
37988571 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
37988593 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:37988630 original size:71 final size:70
Alignment explanation
Indices: 37988429--37988626 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
37988419 CGATTTGTCT
* * * *
37988429 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
37988494 CTTTCA
65 CTTTCA
* * * *
37988500 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
37988565 CTTTCA
65 CTTTCA
* *
37988571 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
37988627 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:37991374 original size:40 final size:40
Alignment explanation
Indices: 37991329--37991495 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
37991319 CGGAATATAA
37991329 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
37991369 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
37991409 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
37991449 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
37991488 CCGGATAT
1 CCGGATAT
37991496 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:37999377 original size:40 final size:40
Alignment explanation
Indices: 37999332--37999498 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
37999322 CGGAATATAA
37999332 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
37999372 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
37999412 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
37999452 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
37999491 CCGGATAT
1 CCGGATAT
37999499 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:38007334 original size:71 final size:71
Alignment explanation
Indices: 38007218--38007381 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
38007208 CGATTTGTCT
38007218 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38007283 CTTTCA
66 CTTTCA
38007289 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38007354 CTTTCA
66 CTTTCA
38007360 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
38007382 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:38007419 original size:71 final size:70
Alignment explanation
Indices: 38007218--38007415 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
38007208 CGATTTGTCT
* * * *
38007218 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
38007283 CTTTCA
65 CTTTCA
* * * *
38007289 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
38007354 CTTTCA
65 CTTTCA
* *
38007360 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
38007416 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:38012035 original size:26 final size:26
Alignment explanation
Indices: 38012006--38012060 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
38011996 TCGGGTACAG
38012006 CATCACAACTGAATCAGATTTTCAAA
1 CATCACAACTGAATCAGATTTTCAAA
*
38012032 CATCACAACTGAATCGGATTTTCAAA
1 CATCACAACTGAATCAGATTTTCAAA
38012058 CAT
1 CAT
38012061 ATATAAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.40, C:0.24, G:0.09, T:0.27
Consensus pattern (26 bp):
CATCACAACTGAATCAGATTTTCAAA
Found at i:38015090 original size:27 final size:28
Alignment explanation
Indices: 38015033--38015102 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
38015023 AAATTTGTAC
**
38015033 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
38015061 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
38015088 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
38015103 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:38015111 original size:27 final size:27
Alignment explanation
Indices: 38015033--38015114 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
38015023 AAATTTGTAC
* *
38015033 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
38015061 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
38015088 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
38015115 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:38022998 original size:27 final size:28
Alignment explanation
Indices: 38022941--38023010 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
38022931 AAATTTGTAC
**
38022941 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
38022969 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
38022996 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
38023011 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:38023019 original size:27 final size:27
Alignment explanation
Indices: 38022941--38023022 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
38022931 AAATTTGTAC
* *
38022941 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
38022969 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
38022996 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
38023023 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:38028018 original size:25 final size:25
Alignment explanation
Indices: 38027979--38028048 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
38027969 CAGACCAATT
*
38027979 TTCACAGCTCATGTGAGCATACTTA
1 TTCACAGCTCGTGTGAGCATACTTA
*
38028004 TTCACAGTTCGTGTGAGCATACTTA
1 TTCACAGCTCGTGTGAGCATACTTA
*
38028029 TTCACAACTCGTGTGAGCAT
1 TTCACAGCTCGTGTGAGCAT
38028049 CTATGTAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.33
Consensus pattern (25 bp):
TTCACAGCTCGTGTGAGCATACTTA
Found at i:38030208 original size:42 final size:42
Alignment explanation
Indices: 38030148--38030247 Score: 139
Period size: 42 Copynumber: 2.4 Consensus size: 42
38030138 CCCACGAGCA
* * * *
38030148 TGTGCCAGGCCGTTTACCCTTCAAAGTAACCTCACACGTCCG
1 TGTGCCAAGCTGTGTACCCTTCAAAGTAACCTCACACGCCCG
*
38030190 TGTGCCAAGCTGTGTACCCTTCAAAGTAACCTTACACGCCCG
1 TGTGCCAAGCTGTGTACCCTTCAAAGTAACCTCACACGCCCG
38030232 TGTG-CAAGGCTGTGTA
1 TGTGCCAA-GCTGTGTA
38030248 ACAGCCTGAC
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
41 3 0.06
42 49 0.94
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (42 bp):
TGTGCCAAGCTGTGTACCCTTCAAAGTAACCTCACACGCCCG
Found at i:38031875 original size:42 final size:43
Alignment explanation
Indices: 38031784--38031888 Score: 117
Period size: 43 Copynumber: 2.5 Consensus size: 43
38031774 AATGCCAACG
* * *
38031784 TCCCAGAC-GTGGTCTTACATGTAATCGAATATCGATGCCACTA
1 TCCCAGACAG-GGTCTTACACGAAATCAAATATCGATGCCACTA
*
38031827 TCCCAGACAGGGTCTTACACGAAATCAAATA-CGATGCCGA-TG
1 TCCCAGACAGGGTCTTACACGAAATCAAATATCGATGCC-ACTA
* *
38031869 TGCCAGACATGGTCTTACAC
1 TCCCAGACAGGGTCTTACAC
38031889 ATAAATCATA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
42 26 0.48
43 27 0.50
44 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.24
Consensus pattern (43 bp):
TCCCAGACAGGGTCTTACACGAAATCAAATATCGATGCCACTA
Found at i:38032319 original size:8 final size:8
Alignment explanation
Indices: 38032306--38032330 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
38032296 AAATTAGCCC
38032306 TCACATTT
1 TCACATTT
38032314 TCACATTT
1 TCACATTT
38032322 TCACATTT
1 TCACATTT
38032330 T
1 T
38032331 AGTCCTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (8 bp):
TCACATTT
Found at i:38033740 original size:20 final size:20
Alignment explanation
Indices: 38033712--38033750 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
38033702 AACATTCAAA
*
38033712 ATACTATAATCACAA-CCAAG
1 ATACCATAAT-ACAAGCCAAG
38033732 ATACCATAATACAAGCCAA
1 ATACCATAATACAAGCCAA
38033751 ACTATATGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.51, C:0.26, G:0.05, T:0.18
Consensus pattern (20 bp):
ATACCATAATACAAGCCAAG
Found at i:38035652 original size:28 final size:28
Alignment explanation
Indices: 38035608--38035663 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
38035598 AAAAATCACT
*
38035608 TAACAAAATTCTTTCACATAACAACTAA
1 TAACAAAATTCTATCACATAACAACTAA
* *
38035636 TAACACAAATTC-ATCACTTAACATCTAA
1 TAACA-AAATTCTATCACATAACAACTAA
38035664 AATGACAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 18 0.75
29 6 0.25
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (28 bp):
TAACAAAATTCTATCACATAACAACTAA
Found at i:38042862 original size:47 final size:47
Alignment explanation
Indices: 38042809--38043197 Score: 598
Period size: 47 Copynumber: 8.3 Consensus size: 47
38042799 ACAAGATATG
38042809 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
38042856 TATATGTGATAAGGCCGAATGGCCAATGAGATGAATGTGAAAGTATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
38042903 TATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGAAAGTATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
38042950 TATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * * *
38042997 TATATGTGATAGGGTCGAGTGACCAACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
38043044 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * *
38043091 CATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
38043138 TATATGTGATAAGGTCGAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
38043185 TAAATGTGATAAG
1 TATATGTGATAAG
38043198 TCCCGAAGGG
Statistics
Matches: 317, Mismatches: 25, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 317 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.27
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:38043144 original size:25 final size:24
Alignment explanation
Indices: 38043115--38043194 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 24
38043105 CCTAATGGCC
38043115 AATGTGATGAATGTGAAAGTGTAT
1 AATGTGATGAATGTGAAAGTGTAT
* ***
38043139 ATATGTGAT-AAGGTCG-AA-TGGCC
1 A-ATGTGATGAATGT-GAAAGTGTAT
*
38043162 AATGTGATGGATGTGAAAGTGTAT
1 AATGTGATGAATGTGAAAGTGTAT
38043186 AAATGTGAT
1 -AATGTGAT
38043195 AAGTCCCGAA
Statistics
Matches: 41, Mismatches: 9, Indels: 11
0.67 0.15 0.18
Matches are distributed among these distances:
22 8 0.20
23 8 0.20
24 9 0.22
25 16 0.39
ACGTcount: A:0.35, C:0.04, G:0.30, T:0.31
Consensus pattern (24 bp):
AATGTGATGAATGTGAAAGTGTAT
Found at i:38045223 original size:38 final size:38
Alignment explanation
Indices: 38045176--38045323 Score: 149
Period size: 40 Copynumber: 3.8 Consensus size: 38
38045166 TATAACACGT
*
38045176 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATCTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATCTC
* *
38045214 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCA-CTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGA--TAG-AATCTC
* * *
38045254 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATCT-C
* *
38045293 AGCATAATTGTCTTCGGG-CTTAGCCCGGATA
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATA
38045324 TCATTCAATT
Statistics
Matches: 92, Mismatches: 10, Indels: 15
0.79 0.09 0.13
Matches are distributed among these distances:
37 1 0.01
38 29 0.32
39 16 0.17
40 45 0.49
41 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (38 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATCTC
Found at i:38053203 original size:40 final size:39
Alignment explanation
Indices: 38053158--38053322 Score: 174
Period size: 40 Copynumber: 4.2 Consensus size: 39
38053148 CGGAATATAA
38053158 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
38053198 CCGGATAGAATCTC-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTGCACAAATGCCTTCGGGTCTTAGC
** * *
38053236 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * *
38053276 CCGGATATAATTTC-CAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAA--TCACTGCACAAATGCCTTCGGGTCTTAGC
38053315 CCGGATAT
1 CCGGATAT
38053323 CATTCAATTT
Statistics
Matches: 105, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
38 33 0.31
39 13 0.12
40 57 0.54
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAATCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:38059192 original size:40 final size:40
Alignment explanation
Indices: 38059141--38059290 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
38059131 TATAACACGT
*
38059141 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
* * *
38059181 GCACGAA-TGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATAGAATG--TCTC
* * *
38059221 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-C
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
* *
38059260 AGCATAATTGTCTTCGGG-CTTAGCCCGGATA
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATA
38059291 TCATTCAATT
Statistics
Matches: 91, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
38 1 0.01
39 16 0.18
40 71 0.78
41 3 0.03
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
Found at i:38059275 original size:80 final size:79
Alignment explanation
Indices: 38059141--38059289 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
38059131 TATAACACGT
*
38059141 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-CTTAGCC
38059206 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
38059221 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGCTTAGC
38059284 CCGGAT
64 CCGGAT
38059290 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 15 0.25
80 46 0.75
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGCTTAGCCC
GGATGTAGCCACTA
Found at i:38062890 original size:13 final size:13
Alignment explanation
Indices: 38062872--38062899 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
38062862 ATGTGTGTTC
38062872 TAGTTCACAAAGG
1 TAGTTCACAAAGG
38062885 TAGTTCACAAAGG
1 TAGTTCACAAAGG
38062898 TA
1 TA
38062900 CTAAGTACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.25
Consensus pattern (13 bp):
TAGTTCACAAAGG
Found at i:38063300 original size:48 final size:48
Alignment explanation
Indices: 38063239--38063363 Score: 153
Period size: 48 Copynumber: 2.6 Consensus size: 48
38063229 TACCATGGTT
* * **
38063239 ATACGTGTAACGTGGTGCTAAGTGGATATAACACGATTATACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATAACACGATTACACATATCA
* ** * *
38063287 ATACATGTAACGTGGTTCTAAGTGGATATGCCACGGTTACATATATCA
1 ATACATGTAACGTGGTGCTAAGTGGATATAACACGATTACACATATCA
*
38063335 ATTCAT-TAACGTGGTGCTAAGTGGATATA
1 ATACATGTAACGTGGTGCTAAGTGGATATA
38063364 CCACAGTTAA
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
47 21 0.32
48 44 0.68
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATAACACGATTACACATATCA
Found at i:38063392 original size:38 final size:38
Alignment explanation
Indices: 38063341--38063415 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
38063331 ATCAATTCAT
38063341 TAACGTGGTGCTAAGTGGATATACCACAGTTAAACATA
1 TAACGTGGTGCTAAGTGGATATACCACAGTTAAACATA
* * *
38063379 TAACGTGGTGCTAAGTGGATATGCCACGGTTATACAT
1 TAACGTGGTGCTAAGTGGATATACCACAGTTAAACAT
38063416 GTTAATTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACAGTTAAACATA
Found at i:38066313 original size:26 final size:26
Alignment explanation
Indices: 38066283--38066336 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
38066273 GTATTTTCCT
38066283 ATGAGTTTGGT-TTTCGATCTTCCGAC
1 ATGAGTTTGGTATTT-GATCTTCCGAC
38066309 ATGAGTTTGGTATTTGATCTTCCGAC
1 ATGAGTTTGGTATTTGATCTTCCGAC
38066335 AT
1 AT
38066337 AGTATTGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 24 0.89
27 3 0.11
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.43
Consensus pattern (26 bp):
ATGAGTTTGGTATTTGATCTTCCGAC
Found at i:38066373 original size:15 final size:15
Alignment explanation
Indices: 38066353--38066405 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
38066343 GTATCTTGGG
38066353 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
38066368 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
* *
38066383 TTTCTCTA-TCTTGAA
1 TTTCTTTATTC-TGGA
38066398 TTTCTTTA
1 TTTCTTTA
38066406 CTCAGTTTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 2 0.06
15 30 0.94
ACGTcount: A:0.13, C:0.15, G:0.11, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:38066383 original size:30 final size:30
Alignment explanation
Indices: 38066349--38066405 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
38066339 TATTGTATCT
* *
38066349 TGGGTTTCTTTAT-TCTGGATTTCTTTATTC
1 TGGGTTTCTCTATCT-TGAATTTCTTTATTC
38066379 TGGGTTTCTCTATCTTGAATTTCTTTA
1 TGGGTTTCTCTATCTTGAATTTCTTTA
38066406 CTCAGTTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.12, C:0.14, G:0.16, T:0.58
Consensus pattern (30 bp):
TGGGTTTCTCTATCTTGAATTTCTTTATTC
Found at i:38068360 original size:48 final size:48
Alignment explanation
Indices: 38068284--38068424 Score: 167
Period size: 48 Copynumber: 3.0 Consensus size: 48
38068274 TACCATGGTT
* * * **
38068284 ATACGTGTAACGTGGTGCTAAGTGGATATACCACTATTACCCATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATCA
** * *
38068332 ATACATGTAACGTGGTGCTAAGTGGATATGTCACGGTTACATATATCA
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATCA
* * *
38068380 ATTCAT-TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATAT
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATAT
38068425 AACGTGGTGC
Statistics
Matches: 79, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
47 35 0.44
48 44 0.56
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATCA
Found at i:38070053 original size:25 final size:25
Alignment explanation
Indices: 38070025--38070083 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
38070015 CTGCTCACTC
38070025 GAGCTGTAGATCAGTATGCTCCCAA
1 GAGCTGTAGATCAGTATGCTCCCAA
* * * * *
38070050 GAGCTATAAATCGGTATGCTCTCAT
1 GAGCTGTAGATCAGTATGCTCCCAA
38070075 GAGCTGTAG
1 GAGCTGTAG
38070084 GTTGCAACGT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (25 bp):
GAGCTGTAGATCAGTATGCTCCCAA
Found at i:38076055 original size:24 final size:24
Alignment explanation
Indices: 38076023--38076069 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
38076013 AAGTCAAGCA
*
38076023 TTTTGCAATGGACTTGACTATCTG
1 TTTTGCAATGAACTTGACTATCTG
38076047 TTTTGCAATGAACTTGACTATCT
1 TTTTGCAATGAACTTGACTATCT
38076070 CTCTTTTCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (24 bp):
TTTTGCAATGAACTTGACTATCTG
Found at i:38085471 original size:22 final size:22
Alignment explanation
Indices: 38085423--38085524 Score: 109
Period size: 22 Copynumber: 4.5 Consensus size: 22
38085413 CAACTCATTG
* *
38085423 GAGCTTACCGTTTCAGCTC-GTA
1 GAGCTTACTGTTT-AGCTCAATA
38085445 TGAGCTTACTGTTTAGCTCAATA
1 -GAGCTTACTGTTTAGCTCAATA
* *
38085468 GAGCTTACTGTTCAGCTCGATA
1 GAGCTTACTGTTTAGCTCAATA
*
38085490 GAGCTTACCAT-TTTAGCTCATTA
1 GAGCTTA-C-TGTTTAGCTCAATA
38085513 GAGCTTACTGTT
1 GAGCTTACTGTT
38085525 CATCAGCTCA
Statistics
Matches: 68, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
21 1 0.01
22 35 0.51
23 31 0.46
24 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.36
Consensus pattern (22 bp):
GAGCTTACTGTTTAGCTCAATA
Found at i:38085505 original size:45 final size:45
Alignment explanation
Indices: 38085388--38085526 Score: 151
Period size: 45 Copynumber: 3.1 Consensus size: 45
38085378 TACCGATATA
* * * * *
38085388 TCAGCTC-ATAAGATCTTACTATTTTCAACTCATTGGAGCTTACCGTT
1 TCAGCTCGAT-AGAGCTTACCATTTT-AGCTCATTAGAGCTTACTG-T
*
38085435 TCAGCTCG-TATGAGCTTA-C-TGTTTAGCTCAATAGAGCTTACTGT
1 TCAGCTCGATA-GAGCTTACCAT-TTTAGCTCATTAGAGCTTACTGT
38085479 TCAGCTCGATAGAGCTTACCATTTTAGCTCATTAGAGCTTACTGT
1 TCAGCTCGATAGAGCTTACCATTTTAGCTCATTAGAGCTTACTGT
38085524 TCA
1 TCA
38085527 TCAGCTCAAG
Statistics
Matches: 79, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
44 16 0.20
45 44 0.56
46 5 0.06
47 14 0.18
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (45 bp):
TCAGCTCGATAGAGCTTACCATTTTAGCTCATTAGAGCTTACTGT
Found at i:38085514 original size:23 final size:24
Alignment explanation
Indices: 38085363--38085520 Score: 98
Period size: 22 Copynumber: 6.8 Consensus size: 24
38085353 GGACTCACCA
* * *
38085363 CAGCTCGTAAGAGCTTACCGATATAT
1 CAGCTCATTAGAGCTTACC-ATGT-T
* * * *
38085389 CAGCTCATAAGATCTTACTATTTT
1 CAGCTCATTAGAGCTTACCATGTT
* * *
38085413 CAACTCATTGGAGCTTACCGT-TT
1 CAGCTCATTAGAGCTTACCATGTT
*
38085436 CAGCTC-GTATGAGCTTA-C-TGTT
1 CAGCTCATTA-GAGCTTACCATGTT
* *
38085458 TAGCTCAATAGAGCTTA-C-TGTT
1 CAGCTCATTAGAGCTTACCATGTT
38085480 CAGCTCGA-TAGAGCTTACCAT-TT
1 CAGCTC-ATTAGAGCTTACCATGTT
*
38085503 TAGCTCATTAGAGCTTAC
1 CAGCTCATTAGAGCTTAC
38085521 TGTTCATCAG
Statistics
Matches: 108, Mismatches: 17, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
21 1 0.01
22 36 0.33
23 35 0.32
24 17 0.16
25 3 0.03
26 16 0.15
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (24 bp):
CAGCTCATTAGAGCTTACCATGTT
Found at i:38093087 original size:26 final size:25
Alignment explanation
Indices: 38093057--38093133 Score: 79
Period size: 24 Copynumber: 3.2 Consensus size: 25
38093047 AACTCGCCAT
38093057 AGCTCATAAGAGCTTACCGATATATC
1 AGCTCATAAGAGCTTACCGAT-TATC
* * *
38093083 AGCTCGTAAGAGCTTA-CTATTTTC
1 AGCTCATAAGAGCTTACCGATTATC
**
38093107 AGCTCATTGGAGCTTACCG-TT-TC
1 AGCTCATAAGAGCTTACCGATTATC
38093130 AGCT
1 AGCT
38093134 TGTACGAGCT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
23 6 0.14
24 18 0.42
25 4 0.09
26 15 0.35
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.32
Consensus pattern (25 bp):
AGCTCATAAGAGCTTACCGATTATC
Found at i:38093149 original size:47 final size:50
Alignment explanation
Indices: 38093057--38093167 Score: 135
Period size: 47 Copynumber: 2.3 Consensus size: 50
38093047 AACTCGCCAT
38093057 AGCTCATAAGAGCTTACCGATATATCAGCTCGTAAGAGCTTACTATTTTC
1 AGCTCATAAGAGCTTACCGATATATCAGCTCGTAAGAGCTTACTATTTTC
** * *
38093107 AGCTCATTGGAGCTTACCG-T-T-TCAGCTTGTACGAGCTTACTA--TTC
1 AGCTCATAAGAGCTTACCGATATATCAGCTCGTAAGAGCTTACTATTTTC
38093152 AGCTCGATAA-AGCTTA
1 AGCTC-ATAAGAGCTTA
38093168 TCATTTTAAC
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
45 14 0.26
46 2 0.04
47 19 0.35
48 1 0.02
49 1 0.02
50 17 0.31
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (50 bp):
AGCTCATAAGAGCTTACCGATATATCAGCTCGTAAGAGCTTACTATTTTC
Found at i:38094921 original size:45 final size:46
Alignment explanation
Indices: 38094806--38094928 Score: 133
Period size: 45 Copynumber: 2.7 Consensus size: 46
38094796 AAAGGATGTG
* * * *
38094806 ATAGCATCTTTTAGCTATGATCTTACTCAT-TTCTATCATGATGTT
1 ATAGCATCTTTTAGCTATGGTCTTACTCATCTTCTACCATGATATC
* * * * * * *
38094851 ATAGTATCTTTCAGTTTTGGCCTTACTTATCTT-TCCCATGATATC
1 ATAGCATCTTTTAGCTATGGTCTTACTCATCTTCTACCATGATATC
38094896 ATAGCATCTTTTAGCTATGGTCTTACTCATCTT
1 ATAGCATCTTTTAGCTATGGTCTTACTCATCTT
38094929 GGCATATAGC
Statistics
Matches: 60, Mismatches: 17, Indels: 2
0.76 0.22 0.03
Matches are distributed among these distances:
45 58 0.97
46 2 0.03
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.46
Consensus pattern (46 bp):
ATAGCATCTTTTAGCTATGGTCTTACTCATCTTCTACCATGATATC
Found at i:38097672 original size:24 final size:24
Alignment explanation
Indices: 38097381--38097664 Score: 507
Period size: 24 Copynumber: 11.9 Consensus size: 24
38097371 GCAAAGACCA
38097381 TATGGCACTATGTGTGCGATT-AC
1 TATGGCACTATGTGTGCGATTCAC
*
38097404 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
38097428 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
38097452 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
38097476 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
38097500 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
38097524 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
38097548 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
*
38097572 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
*
38097596 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
**
38097620 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTCAC
*
38097644 TATAGCACTATGTGTGCGATT
1 TATGGCACTATGTGTGCGATT
38097665 TGCTATAGTC
Statistics
Matches: 256, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
23 21 0.08
24 235 0.92
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTCAC
Found at i:38105648 original size:121 final size:120
Alignment explanation
Indices: 38105436--38105726 Score: 521
Period size: 121 Copynumber: 2.4 Consensus size: 120
38105426 GCAAAGACCA
38105436 TATGGCACTATGTGTGCGA-TTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGC
1 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGC
38105500 GATTCACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCAC
66 GATTCACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCAC
38105555 TATGGCACTATGTGTGCGATTTCACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTG
1 TATGGCACTATGTGTGCGATTT-ACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTG
* *
38105620 CGATTCACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTAC
65 CGATTCACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCAC
* * *
38105676 TATGGCACTATGTGTGCGATTTGCTATAGCACTATGTGTGCGATTTGCTAT
1 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTAT
38105727 AGTCACATTC
Statistics
Matches: 165, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
119 19 0.12
120 28 0.17
121 118 0.72
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (120 bp):
TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGC
GATTCACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCAC
Found at i:38105728 original size:24 final size:24
Alignment explanation
Indices: 38105436--38105726 Score: 503
Period size: 24 Copynumber: 12.1 Consensus size: 24
38105426 GCAAAGACCA
38105436 TATGGCACTATGTGTGCGA-TTAC
1 TATGGCACTATGTGTGCGATTTAC
38105459 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
38105483 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
38105507 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
38105531 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
38105555 TATGGCACTATGTGTGCGATTTCAC
1 TATGGCACTATGTGTGCGATTT-AC
38105580 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
38105604 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
38105628 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
38105652 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
38105676 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
38105700 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
38105724 TAT
1 TAT
38105727 AGTCACATTC
Statistics
Matches: 260, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
23 19 0.07
24 217 0.83
25 24 0.09
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:38107329 original size:40 final size:39
Alignment explanation
Indices: 38107272--38107456 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 39
38107262 ATTAAATGAT
* * *
38107272 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
38107312 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
**
38107352 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
38107392 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
38107432 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
38107457 CGTGCATGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 122 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:38107408 original size:80 final size:80
Alignment explanation
Indices: 38107271--38107477 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
38107261 AATTAAATGA
* * ** * *
38107271 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
38107336 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
38107349 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
38107414 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
38107431 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
38107478 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
80 106 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:38107462 original size:40 final size:39
Alignment explanation
Indices: 38107270--38107477 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
38107260 CAATTAAATG
* * ** *
38107270 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * * *
38107310 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
*
38107350 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
38107390 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
38107430 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
38107470 ATATCCGG
1 ATATCCGG
38107478 TTGTATTCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.03
40 135 0.93
41 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:38115363 original size:40 final size:39
Alignment explanation
Indices: 38115306--38115490 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 39
38115296 ATTAAATGAT
* * *
38115306 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
38115346 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
**
38115386 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
38115426 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
38115466 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
38115491 CGTGCATGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 122 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:38115442 original size:80 final size:80
Alignment explanation
Indices: 38115305--38115511 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
38115295 AATTAAATGA
* * ** * *
38115305 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
38115370 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
38115383 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
38115448 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
38115465 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
38115512 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
80 106 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:38115496 original size:40 final size:39
Alignment explanation
Indices: 38115304--38115511 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
38115294 CAATTAAATG
* * ** *
38115304 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * * *
38115344 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
*
38115384 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
38115424 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
38115464 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
38115504 ATATCCGG
1 ATATCCGG
38115512 TTGTATTCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.03
40 135 0.93
41 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:38118278 original size:2 final size:2
Alignment explanation
Indices: 38118271--38118304 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
38118261 AACAATTCGG
38118271 AT 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 AT
38118305 GGCACTTAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38124611 original size:21 final size:20
Alignment explanation
Indices: 38124579--38124627 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
38124569 TTTTTCGAAT
* * *
38124579 TTGTTTACCTATTGTTATTA
1 TTGTTTATCTATTATTACTA
38124599 TTCGTTTATCTATTATTACTA
1 TT-GTTTATCTATTATTACTA
38124620 TTGTTTAT
1 TTGTTTAT
38124628 ATTACAGGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.20, C:0.10, G:0.08, T:0.61
Consensus pattern (20 bp):
TTGTTTATCTATTATTACTA
Found at i:38130079 original size:116 final size:116
Alignment explanation
Indices: 38129875--38130109 Score: 443
Period size: 116 Copynumber: 2.0 Consensus size: 116
38129865 GAATTGATCG
*
38129875 TGAAGGCATATAAGAATTACTTAGGCTAGTCCCTTGAATTACCGTGGGAGAAACTGAGTTGATTT
1 TGAAGGCATATAAGAATTACTTAGGCCAGTCCCTTGAATTACCGTGGGAGAAACTGAGTTGATTT
*
38129940 TTCTATGAAGGGTTGTGATGATTCAATTGTGGACCTAGACTATTCCTATTT
66 TTCTATGAAGGGTTGTGATGATTCAATTGTGGACCTAGACTACTCCTATTT
*
38129991 TGAAGGCATATAAGAATTACTTAGGCCAGTCCCTTGAATTACCGTGGGAGAAATTGAGTTGATTT
1 TGAAGGCATATAAGAATTACTTAGGCCAGTCCCTTGAATTACCGTGGGAGAAACTGAGTTGATTT
38130056 TTCTATGAAGGGTTGTGATGATTCAATTGTGGACCTAGACTACTCCTATTT
66 TTCTATGAAGGGTTGTGATGATTCAATTGTGGACCTAGACTACTCCTATTT
38130107 TGA
1 TGA
38130110 TGTTGGTTTC
Statistics
Matches: 116, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 116 1.00
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (116 bp):
TGAAGGCATATAAGAATTACTTAGGCCAGTCCCTTGAATTACCGTGGGAGAAACTGAGTTGATTT
TTCTATGAAGGGTTGTGATGATTCAATTGTGGACCTAGACTACTCCTATTT
Found at i:38137919 original size:13 final size:13
Alignment explanation
Indices: 38137898--38137936 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
38137888 AAGCCACTTT
*
38137898 ACACAGGCGTGTC
1 ACACGGGCGTGTC
38137911 ACACGGGCGTGTC
1 ACACGGGCGTGTC
*
38137924 ACACGGGTGTGTC
1 ACACGGGCGTGTC
38137937 CTTGTCGAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.18, C:0.28, G:0.36, T:0.18
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:38140643 original size:41 final size:42
Alignment explanation
Indices: 38140584--38140691 Score: 112
Period size: 41 Copynumber: 2.6 Consensus size: 42
38140574 AATATCAACA
* * *
38140584 GTATATGGCACTTGGTGTGCGAGATCACGATAGCTTCGACTAT
1 GTATA-GGCACTTAGTGTGCGAGATCAAGATAACTTCGACTAT
* * * *
38140627 GTA-AGGCACTTAGTGTGCGAAATTAATATAACTTCGGCTAT
1 GTATAGGCACTTAGTGTGCGAGATCAAGATAACTTCGACTAT
*
38140668 GTATTA-GTACTTAGTGTGCGAGAT
1 GTA-TAGGCACTTAGTGTGCGAGAT
38140692 ATCAAGTATT
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
41 33 0.61
42 17 0.31
43 4 0.07
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (42 bp):
GTATAGGCACTTAGTGTGCGAGATCAAGATAACTTCGACTAT
Found at i:38143064 original size:30 final size:31
Alignment explanation
Indices: 38142991--38143064 Score: 116
Period size: 30 Copynumber: 2.5 Consensus size: 31
38142981 GCATAGGGGT
* *
38142991 AAAATGGTCA-TTTCGCCAAAGTCTAGGGGC
1 AAAATGGTTATTTTCGCCAAAGTCTAGAGGC
38143021 AAAATGGTTATTTTC-CCAAAGTCTAGAGGC
1 AAAATGGTTATTTTCGCCAAAGTCTAGAGGC
38143051 AAAATGGTTATTTT
1 AAAATGGTTATTTT
38143065 ACTGAAGATA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
30 37 0.90
31 4 0.10
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (31 bp):
AAAATGGTTATTTTCGCCAAAGTCTAGAGGC
Found at i:38143529 original size:46 final size:47
Alignment explanation
Indices: 38143396--38143613 Score: 160
Period size: 46 Copynumber: 4.7 Consensus size: 47
38143386 TGCGTGAGCT
* * ** *
38143396 AGTGTAAGATATGTCTGGGACAT-CCATCGGCCAT-ATTA-TTATAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGG-CATCAAGACGTA-AGCC
* * * *
38143442 AGTGTAAGACCATGTCCGGGACATGGCATCGGCATTAAGACG-AGTGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCATCAAGACGTA-AGCC
* * *
38143490 AGTGTAAGACATGTTTGGGACAT-GCATCGGCCTCGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCATCAAGACGTAAGCC
* * * *** * *
38143536 AGTGTAAGACATGTCTGGGATATGGTATCGAC-TTGGGATGTGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCATCAAGACGTAAGCC
*
38143582 AGTGTAAGATCGTGTCTGGGACATGGCATCGG
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGG
38143614 TACCTTACCC
Statistics
Matches: 137, Mismatches: 28, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
46 65 0.47
47 52 0.38
48 20 0.15
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCATCAAGACGTAAGCC
Found at i:38147852 original size:182 final size:183
Alignment explanation
Indices: 38147488--38147856 Score: 623
Period size: 182 Copynumber: 2.0 Consensus size: 183
38147478 GTGAGCAAGG
* *
38147488 AGAACATCTGAGAGTTGTGTTGCAAAACTTGAGAAATAAGAAATTATACACTAAGTTCAGTAAAA
1 AGAACATCTGAGAGTTGTGTTGCAAAACTTGAGAAACAAGAAATTATACACCAAGTTCAGTAAAA
*
38147553 GTGAATTTTGGCTTAAGGAGGTAGGATTCCTAGGACACATTGTGTCAGGAGACGGGATCCGAGTT
66 GTGAATTTTGGCTTAAAGAGGTAGGATTCCTAGGACACATTGTGTCAGGAGACGGGATCCGAGTT
* *
38147618 GATCCAAGCAAGATCTCAGCTATTGTGGAGTGGAAACTGTCGAAGAACGTGAC
131 GATCCAAGCAAGATCTCAGCTATTATGGAGTGGAAACCGTCGAAGAACGTGAC
* * * *
38147671 AGAACATTTGAGAGTTGTGTTGCAAAACTTGAGAAACAAGCAATTATACGCCAAGTTCAGTAAGA
1 AGAACATCTGAGAGTTGTGTTGCAAAACTTGAGAAACAAGAAATTATACACCAAGTTCAGTAAAA
* *
38147736 GTGAATTTTGGCTTAAAGAGGTAGGA-TCCTAGGACACATTGTGTCGGGAGACGGGATCTGAGTT
66 GTGAATTTTGGCTTAAAGAGGTAGGATTCCTAGGACACATTGTGTCAGGAGACGGGATCCGAGTT
*
38147800 GATCCAAGCAAGATCTCAGCTATTATGGAGTGGAAACCGTCGAGGAACGTGAC
131 GATCCAAGCAAGATCTCAGCTATTATGGAGTGGAAACCGTCGAAGAACGTGAC
38147853 AGAA
1 AGAA
38147857 GTCTGAAGCT
Statistics
Matches: 174, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
182 90 0.52
183 84 0.48
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (183 bp):
AGAACATCTGAGAGTTGTGTTGCAAAACTTGAGAAACAAGAAATTATACACCAAGTTCAGTAAAA
GTGAATTTTGGCTTAAAGAGGTAGGATTCCTAGGACACATTGTGTCAGGAGACGGGATCCGAGTT
GATCCAAGCAAGATCTCAGCTATTATGGAGTGGAAACCGTCGAAGAACGTGAC
Found at i:38151304 original size:46 final size:46
Alignment explanation
Indices: 38151254--38151417 Score: 181
Period size: 46 Copynumber: 3.5 Consensus size: 46
38151244 GACGAGTGCT
* *
38151254 AGTGTAAGA-CATGTTTGGGACATGCATCGGCCTCGAGACGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGG-CTCGAGATGTAAGCC
*
38151300 AGTGTAAGA-CATGTCTGGGACATGCATCGGCTACGAGATG-ATAGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCT-CGAGATGTA-AGCC
* * * * *
38151346 AGTGTAAGACCATGTCTGGGATATGGCATCGACTTGAGATGTGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCTCGAGATGTAAGCC
* *
38151393 AGTGTAAGACCATGTTTGAGACATG
1 AGTGTAAGACCATGTCTGGGACATG
38151418 GCCTCAGCAC
Statistics
Matches: 101, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
45 3 0.03
46 48 0.48
47 42 0.42
48 8 0.08
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCTCGAGATGTAAGCC
Found at i:38157810 original size:39 final size:39
Alignment explanation
Indices: 38157756--38157899 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
38157746 GAATGTTCGA
38157756 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * *
38157795 GTGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
38157834 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
38157873 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
38157900 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 86 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:38157846 original size:78 final size:79
Alignment explanation
Indices: 38157757--38157939 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
38157747 AATGTTCGAG
38157757 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
38157821 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
* *
38157835 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
** *
38157900 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
38157914 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
38157940 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 53 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:38164821 original size:38 final size:39
Alignment explanation
Indices: 38164769--38164911 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
38164759 GAATGTTCGA
38164769 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
38164808 GTGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
38164846 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
38164885 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
38164912 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 35 0.37
39 51 0.54
40 9 0.09
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:38164857 original size:77 final size:79
Alignment explanation
Indices: 38164770--38164951 Score: 269
Period size: 77 Copynumber: 2.3 Consensus size: 79
38164760 AATGTTCGAG
38164770 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATA-CCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
38164833 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
38164847 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
38164912 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
38164926 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
38164952 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
77 44 0.47
78 9 0.10
79 32 0.34
80 9 0.10
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:38169063 original size:40 final size:39
Alignment explanation
Indices: 38169008--38169149 Score: 140
Period size: 40 Copynumber: 3.5 Consensus size: 39
38168998 AATATATATA
*
38169008 TATATATGACACTTAGTGTGCGATTCAAGAAAGCTTCGGC
1 TATATATGACACTTAGTGTGCGATTC-AGAAAGCTTTGGC
* * * *
38169048 TATATATGGCACTTAGTGTGCAATTCGGAACAACTTTGGC
1 TATATATGACACTTAGTGTGCGATTCAGAA-AGCTTTGGC
* ** *
38169088 TATATATGACACTTGGTGTGCGAGAACGAGATAGCTTTGGC
1 TATATATGACACTTAGTGTGCGA-TTC-AGAAAGCTTTGGC
* * *
38169129 TATGTAAGGCACTTAGTGTGC
1 TATATATGACACTTAGTGTGC
38169150 AAAATTATAA
Statistics
Matches: 82, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.04
40 51 0.62
41 26 0.32
42 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (39 bp):
TATATATGACACTTAGTGTGCGATTCAGAAAGCTTTGGC
Found at i:38171206 original size:348 final size:348
Alignment explanation
Indices: 38170325--38171356 Score: 2048
Period size: 348 Copynumber: 3.0 Consensus size: 348
38170315 CCCAAGTCAG
38170325 TATGTACCCCCTGTTTTCACACGGCTTGTGACACGGGCGTGTCTGGTGGTCATGTGAGACACACA
1 TATGTACCCCCTGTTTTCACACGGCTTGTGACACGGGCGTGTCTGGTGGTCATGTGAGACACACA
38170390 GCCTGCTCACATAGGTGTGTGTCCTCTATCTTGAGTAAAATTTTCAAAGTTTTATGAAAGCTTTA
66 GCCTGCTCACATAGGTGTGTGTCCTCTATCTTGAGTAAAATTTTCAAAGTTTTATGAAAGCTTTA
38170455 TAAGTTATCGGTTTAGTCCCGAACCGCTCCTAAAGCATGTTTTAGGCCTCGTAGGCTATTATAAG
131 TAAGTTATCGGTTTAGTCCCGAACCGCTCCTAAAGCATGTTTTAGGCCTCGTAGGCTATTATAAG
38170520 GGACAAATTGATTGAGATTGAATGAGAATTGTATGAATTGATCAAATGTATGAGAAAAGTAGGGT
196 GGACAAATTGATTGAGATTGAATGAGAATTGTATGAATTGATCAAATGTATGAGAAAAGTAGGGT
38170585 TATATGTGTTATAAGTCTGGTAATGCTCAGTAACCCTATTCCAGCGTTGGATACGGGTGAGGAGT
261 TATATGTGTTATAAGTCTGGTAATGCTCAGTAACCCTATTCCAGCGTTGGATACGGGTGAGGAGT
38170650 GTTACATA-AGCCAAACATGCTA
326 GTTACATATAGCCAAACATGCTA
38170672 TATGTACCCCCTGTTTTCACACGGCTTGTGACACGGGCGTGTCTGGTGGTCATGTGAGACACACA
1 TATGTACCCCCTGTTTTCACACGGCTTGTGACACGGGCGTGTCTGGTGGTCATGTGAGACACACA
38170737 GCCTGCTCACATAGGTGTGTGTCCTCTATCTTGAGTAAAATTTTCAAAGTTTTATGAAAGCTTTA
66 GCCTGCTCACATAGGTGTGTGTCCTCTATCTTGAGTAAAATTTTCAAAGTTTTATGAAAGCTTTA
*
38170802 TAAGTTATCGGTTTAGTCCCGAACCGCTCCTAAAGCATGTTTTAGGCCTCGTAGGCTAGTATAAG
131 TAAGTTATCGGTTTAGTCCCGAACCGCTCCTAAAGCATGTTTTAGGCCTCGTAGGCTATTATAAG
38170867 GGACAAATTGATTGAGATTGAATGAGAATTGTATGAATTGATCAAATGTATGAGAAAAGTAGGGT
196 GGACAAATTGATTGAGATTGAATGAGAATTGTATGAATTGATCAAATGTATGAGAAAAGTAGGGT
38170932 TATATGTGTTATAAGTCTGGTAATGCTCAGTAACCCTATTCCAGCGTTGGATACGGGTGAGGAGT
261 TATATGTGTTATAAGTCTGGTAATGCTCAGTAACCCTATTCCAGCGTTGGATACGGGTGAGGAGT
38170997 GTTACATATAGCCAAACATGCTA
326 GTTACATATAGCCAAACATGCTA
38171020 TATGTACCCCCTGTTTTCACACGGCTTGTGACACGGGCGTGTCTGGTGGTCATGTGAGACACACA
1 TATGTACCCCCTGTTTTCACACGGCTTGTGACACGGGCGTGTCTGGTGGTCATGTGAGACACACA
38171085 GCCTGCTCACATAGGTGTGTGTCCTCTATCTTGAGTAAAATTTTCAAAGTTTTATGAAAGCTTTA
66 GCCTGCTCACATAGGTGTGTGTCCTCTATCTTGAGTAAAATTTTCAAAGTTTTATGAAAGCTTTA
38171150 TAAGTTATCGGTTTAGTCCCGAACCGCTCCTAAAGCATGTTTTAGGCCTCGTAGGCTATTATAAG
131 TAAGTTATCGGTTTAGTCCCGAACCGCTCCTAAAGCATGTTTTAGGCCTCGTAGGCTATTATAAG
38171215 GGACAAATTGATTGAGATTGAATGAGAATTGTATGAATTGATCAAATGTATGAGAAAAGTAGGGT
196 GGACAAATTGATTGAGATTGAATGAGAATTGTATGAATTGATCAAATGTATGAGAAAAGTAGGGT
38171280 TATATGTGTTATAAGTCTGGTAATGCTCAGTAACCCTATTCCAGCGTTGGATACGGGTGAGGAGT
261 TATATGTGTTATAAGTCTGGTAATGCTCAGTAACCCTATTCCAGCGTTGGATACGGGTGAGGAGT
38171345 GTTACATATAGC
326 GTTACATATAGC
38171357 ATGTTTGGCT
Statistics
Matches: 682, Mismatches: 2, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
347 332 0.49
348 350 0.51
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (348 bp):
TATGTACCCCCTGTTTTCACACGGCTTGTGACACGGGCGTGTCTGGTGGTCATGTGAGACACACA
GCCTGCTCACATAGGTGTGTGTCCTCTATCTTGAGTAAAATTTTCAAAGTTTTATGAAAGCTTTA
TAAGTTATCGGTTTAGTCCCGAACCGCTCCTAAAGCATGTTTTAGGCCTCGTAGGCTATTATAAG
GGACAAATTGATTGAGATTGAATGAGAATTGTATGAATTGATCAAATGTATGAGAAAAGTAGGGT
TATATGTGTTATAAGTCTGGTAATGCTCAGTAACCCTATTCCAGCGTTGGATACGGGTGAGGAGT
GTTACATATAGCCAAACATGCTA
Found at i:38172202 original size:38 final size:38
Alignment explanation
Indices: 38172157--38172230 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
38172147 TTAAAATTGT
*
38172157 GAAAATCACTTGAAGTAATTAAAACCTTATCTTTAAAG
1 GAAAATCACTTGAAGTAACTAAAACCTTATCTTTAAAG
* * *
38172195 GAAAATCACTTGAAGTGACTAGAGCCTTATCTTTAA
1 GAAAATCACTTGAAGTAACTAAAACCTTATCTTTAA
38172231 GCCTTATCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.31
Consensus pattern (38 bp):
GAAAATCACTTGAAGTAACTAAAACCTTATCTTTAAAG
Found at i:38180902 original size:39 final size:39
Alignment explanation
Indices: 38180859--38180935 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
38180849 CTTCTCAATT
*
38180859 TATAATCCCTATAAATAATATCTAAAAATAATCCATAAA
1 TATAATCCCTATAAATAATATCTAAAAACAATCCATAAA
* *
38180898 TATAATCCCTATCAATAATATCTCAAAACAATCCATAA
1 TATAATCCCTATAAATAATATCTAAAAACAATCCATAA
38180936 GTAATCATCC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (39 bp):
TATAATCCCTATAAATAATATCTAAAAACAATCCATAAA
Found at i:38188073 original size:40 final size:40
Alignment explanation
Indices: 38188018--38188225 Score: 269
Period size: 40 Copynumber: 5.2 Consensus size: 40
38188008 TGAATGATAC
* *
38188018 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATAT
* *
38188058 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
*
38188098 CCGGGTTAAGACCCGAAGGCATTTGTG-TGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCT-AGTTGTTATAT
* * *
38188138 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
* * * *
38188178 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
38188218 CC-GGCTAA
1 CCGGGCTAA
38188226 ATTCCGAAGA
Statistics
Matches: 146, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 5 0.03
40 139 0.95
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
Found at i:38188151 original size:80 final size:80
Alignment explanation
Indices: 38188014--38188225 Score: 322
Period size: 80 Copynumber: 2.7 Consensus size: 80
38188004 CATTTGAATG
* * *
38188014 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGACCCGAAGGC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
38188078 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTTGCT
*
38188094 ATATCCGGGTTAAGACCCGAAGGCATTTGTG-TGAGTTGTTATATCCGGGCTAAGACCCGAAGGC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCT-AGTTGTTATATCCGGGCTAAGACCCGAAGGC
38188158 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTTGCT
* * *
38188174 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
38188226 ATTCCGAAGA
Statistics
Matches: 121, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
79 7 0.06
80 111 0.92
81 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:38196230 original size:40 final size:40
Alignment explanation
Indices: 38196171--38196377 Score: 285
Period size: 40 Copynumber: 5.2 Consensus size: 40
38196161 TGAATGATAC
* *
38196171 CCGGGCTAAG-CCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
38196210 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
38196250 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
38196290 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
38196330 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
38196370 CC-GGCTAA
1 CCGGGCTAA
38196378 ATTCCGAAGA
Statistics
Matches: 150, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
39 15 0.10
40 133 0.89
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:38196314 original size:80 final size:80
Alignment explanation
Indices: 38196167--38196377 Score: 329
Period size: 80 Copynumber: 2.7 Consensus size: 80
38196157 CATTTGAATG
* *
38196167 ATACCCGGGCTAAG-CCCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGACCCGAAGGC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
38196230 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTTGCT
* *
38196246 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
38196311 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * *
38196326 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
38196378 ATTCCGAAGA
Statistics
Matches: 121, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
79 18 0.15
80 101 0.83
81 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:38203119 original size:40 final size:40
Alignment explanation
Indices: 38203059--38203262 Score: 243
Period size: 40 Copynumber: 5.1 Consensus size: 40
38203049 CGGGATTTAA
* ** *
38203059 CCGGATATAACCACAAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
* *** *
38203099 CCGGATTTGGTAACTTGCAC-AATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
38203139 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
38203179 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
* ** *
38203219 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCACGAATGCCTTCGGGTCTTAGC
38203259 CCGG
1 CCGG
38203263 GTATCATTCA
Statistics
Matches: 145, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
40 142 0.98
41 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:38204671 original size:2 final size:2
Alignment explanation
Indices: 38204664--38204688 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
38204654 TAAAGGTCGT
38204664 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
38204689 GATCTCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:38206891 original size:29 final size:29
Alignment explanation
Indices: 38206858--38206931 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
38206848 GTGACGAGAT
38206858 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
38206887 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
38206916 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38206932 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:38206947 original size:29 final size:29
Alignment explanation
Indices: 38206915--38206990 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
38206905 CTGGAAATAT
* *
38206915 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
38206944 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
38206973 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
38206991 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:38206958 original size:58 final size:58
Alignment explanation
Indices: 38206858--38206990 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
38206848 GTGACGAGAT
* * * * * *
38206858 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
38206916 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
38206974 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
38206991 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:38214473 original size:29 final size:29
Alignment explanation
Indices: 38214440--38214513 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
38214430 GTGACGAGAT
38214440 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
38214469 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
38214498 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38214514 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:38214529 original size:29 final size:29
Alignment explanation
Indices: 38214497--38214572 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
38214487 CTGGAAATAT
* *
38214497 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
38214526 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
38214555 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
38214573 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:38214540 original size:58 final size:58
Alignment explanation
Indices: 38214440--38214572 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
38214430 GTGACGAGAT
* * * * * *
38214440 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
38214498 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
38214556 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
38214573 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:38222335 original size:29 final size:29
Alignment explanation
Indices: 38222302--38222375 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
38222292 GTGACGAGAT
38222302 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
38222331 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
38222360 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38222376 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:38222391 original size:29 final size:29
Alignment explanation
Indices: 38222359--38222432 Score: 89
Period size: 27 Copynumber: 2.6 Consensus size: 29
38222349 CTGGAAATAT
* *
38222359 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
* * *
38222388 ATGGCACT--GTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
38222415 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
38222433 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
27 22 0.59
29 15 0.41
ACGTcount: A:0.23, C:0.20, G:0.35, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:38227441 original size:49 final size:49
Alignment explanation
Indices: 38227267--38227460 Score: 185
Period size: 50 Copynumber: 3.9 Consensus size: 49
38227257 TCTATTGTGA
* * *
38227267 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACT-AT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CC--AGACTGTT
* * * * * ** *
38227318 GATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATTAGA-TGGTGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACT-GT-T
* * *
38227368 GGTCACGTGTGTAGTACTAAGTGCAGGCTATTATGTGTACCAGACTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTGTT
* *
38227417 GGTCACATGTGTAGTACTACGTGCAGGCTACTGTGCGTACCAGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
38227461 TAGCTTTGGC
Statistics
Matches: 116, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
47 1 0.01
48 2 0.02
49 39 0.34
50 40 0.34
51 34 0.29
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTGTT
Found at i:38229899 original size:31 final size:31
Alignment explanation
Indices: 38229861--38229970 Score: 193
Period size: 31 Copynumber: 3.5 Consensus size: 31
38229851 TTTAACGGTT
38229861 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
38229892 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
38229923 ACTAGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
38229954 ATTGGGCCTAAGCCTTT
1 ACTGGGCCGAAGCCTTT
38229971 ACTGTAAATA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 75 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:38230041 original size:42 final size:42
Alignment explanation
Indices: 38229994--38230085 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
38229984 TGGCCCTTAG
* * ** *
38229994 GCCCATTTCAATCTCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
38230036 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
38230078 GCCCATTT
1 GCCCATTT
38230086 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:38230352 original size:148 final size:148
Alignment explanation
Indices: 38230084--38230385 Score: 586
Period size: 148 Copynumber: 2.0 Consensus size: 148
38230074 GCAAGCCCAT
38230084 TTGGGGAGACTACTCAACCCACCATCCGCTACTCTCCACCCGTACCAACCAACATACCATGTGGG
1 TTGGGGAGACTACTCAACCCACCATCCGCTACTCTCCACCCGTACCAACCAACATACCATGTGGG
*
38230149 GAATAACTCAACCCACCCAACCAACACACCACTGGTAGCATAGCTGCTTTATCATATATCTGGAG
66 GAATAACTCAACCCACCCAACCAACACACCACTGGCAGCATAGCTGCTTTATCATATATCTGGAG
38230214 GCCTAGCCTCTTTAATAA
131 GCCTAGCCTCTTTAATAA
38230232 TTGGGGAGACTACTCAACCCACCATCCGCTACTCTCCACCCGTACCAACCAACATACCATGTGGG
1 TTGGGGAGACTACTCAACCCACCATCCGCTACTCTCCACCCGTACCAACCAACATACCATGTGGG
38230297 GAATAACTCAACCCACCCAACCAACACACCACTGGCAGCATAGCTGCTTTATCATATATCTGGAG
66 GAATAACTCAACCCACCCAACCAACACACCACTGGCAGCATAGCTGCTTTATCATATATCTGGAG
38230362 GCCTAGCCTCTTTAATAA
131 GCCTAGCCTCTTTAATAA
*
38230380 CTGGGG
1 TTGGGG
38230386 CAAAGCCCTT
Statistics
Matches: 152, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
148 152 1.00
ACGTcount: A:0.29, C:0.34, G:0.16, T:0.21
Consensus pattern (148 bp):
TTGGGGAGACTACTCAACCCACCATCCGCTACTCTCCACCCGTACCAACCAACATACCATGTGGG
GAATAACTCAACCCACCCAACCAACACACCACTGGCAGCATAGCTGCTTTATCATATATCTGGAG
GCCTAGCCTCTTTAATAA
Found at i:38230506 original size:26 final size:26
Alignment explanation
Indices: 38230378--38230577 Score: 273
Period size: 26 Copynumber: 7.8 Consensus size: 26
38230368 CCTCTTTAAT
*
38230378 AACTGGGGCA-AAGCCCTTTTTGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* * **
38230403 AACTGAGGCA-AAGCTCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
38230428 AACT-GGGCATAAGCCC-TTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
38230452 AACTGGGGCATAAGCCCTTTTTCCATA
1 AACTGGGGCATAAGCCC-TTTTCGGTA
*
38230479 AACTGGGGCATAAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
38230505 AACTGGGGTATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
38230531 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
38230557 AACTGGGGCATAAGCCATTTT
1 AACTGGGGCATAAGCCCTTTT
38230578 GCACTTCCTC
Statistics
Matches: 155, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.09
25 41 0.26
26 77 0.50
27 23 0.15
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:38231392 original size:27 final size:26
Alignment explanation
Indices: 38231362--38231445 Score: 105
Period size: 27 Copynumber: 3.1 Consensus size: 26
38231352 GGGCATATTC
* *
38231362 GTCATTTTACCATACAAGGGTATTACG
1 GTCACTTTACCCTACAAGGGT-TTACG
* *
38231389 GTCACTTTACCCTACAGAGGCTTTACA
1 GTCACTTTACCCTACA-AGGGTTTACG
38231416 GTCACTTTACCCTACAAGGGCTTTACG
1 GTCACTTTACCCTACAAGGG-TTTACG
38231443 GTC
1 GTC
38231446 TTTTCACCTA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.06
27 42 0.86
28 4 0.08
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (26 bp):
GTCACTTTACCCTACAAGGGTTTACG
Found at i:38231620 original size:27 final size:27
Alignment explanation
Indices: 38231484--38231747 Score: 102
Period size: 27 Copynumber: 9.7 Consensus size: 27
38231474 TTTCATCCTA
* * * * *
38231484 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAT
* ** *
38231511 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAT
** * *
38231538 CATTGGTATTTCCA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTACAAA-T
* **
38231567 CAAGGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAT
*
38231594 CAGGGGTATTTTAGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAT
** ** *
38231621 TGAGGGTATTTCGGTAATTTCAC-AAT
1 CAAGGGTATTTTAGTAATTTTACAAAT
* **** * **
38231647 CGAGGGTAAAACAGTAATTCTGTAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAT
**** *
38231674 CAAGGGTAAAACAGTAATTTTATAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAT
* * * *
38231701 CGAGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTAGTAATTTTACAAAT
* *
38231728 CGAGGGCATTTCT-GTAATTT
1 CAAGGGTATTT-TAGTAATTT
38231748 GGTAAACTAA
Statistics
Matches: 181, Mismatches: 50, Indels: 12
0.74 0.21 0.05
Matches are distributed among these distances:
26 17 0.09
27 135 0.75
28 17 0.09
29 12 0.07
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTACAAAT
Found at i:38232894 original size:46 final size:46
Alignment explanation
Indices: 38232797--38232907 Score: 132
Period size: 46 Copynumber: 2.4 Consensus size: 46
38232787 CCAGGGCTTA
* *
38232797 TATTCTCGAGTATGCAACATATGCAGGAGCTTGGAACCTAAACATG
1 TATTCTCGAGTATGCAACACATGCAGGAGCTTAGAACCTAAACATG
* * * * ** *
38232843 GATTCTCAAGTTTGCAACACATGTAGGAGCTTAGAACCTATTCCTG
1 TATTCTCGAGTATGCAACACATGCAGGAGCTTAGAACCTAAACATG
*
38232889 TATTCTCGAGTCTGCAACA
1 TATTCTCGAGTATGCAACA
38232908 TATACAAGAC
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 53 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (46 bp):
TATTCTCGAGTATGCAACACATGCAGGAGCTTAGAACCTAAACATG
Found at i:38240004 original size:17 final size:17
Alignment explanation
Indices: 38239954--38239994 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
38239944 TGAGTTCTAG
38239954 TAGCTATAAGTATCAAA
1 TAGCTATAAGTATCAAA
38239971 TAGCTATAAGTATCAAA
1 TAGCTATAAGTATCAAA
38239988 TAGCTAT
1 TAGCTAT
38239995 GGAATTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (17 bp):
TAGCTATAAGTATCAAA
Found at i:38241196 original size:24 final size:24
Alignment explanation
Indices: 38241163--38241212 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
38241153 CAAACGTAGC
*
38241163 TCTTCATGAGCGTCCTGATATAGGA
1 TCTTCATGAGCGTCCTGACAT-GGA
*
38241188 TCTT-ATGAGCTTCCTGACATGGA
1 TCTTCATGAGCGTCCTGACATGGA
38241211 TC
1 TC
38241213 GCTTGAACTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 5 0.22
24 14 0.61
25 4 0.17
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (24 bp):
TCTTCATGAGCGTCCTGACATGGA
Found at i:38244592 original size:3 final size:3
Alignment explanation
Indices: 38244584--38244627 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
38244574 GTATTTGTTT
*
38244584 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTT TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
38244628 TTTGACCTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:38246908 original size:28 final size:29
Alignment explanation
Indices: 38246868--38246937 Score: 108
Period size: 29 Copynumber: 2.4 Consensus size: 29
38246858 AATTGTACAA
*
38246868 CACTAAGTGTGCGAGTTTG-AT-TATATAG
1 CACTAAGTGTGCGAG-CTGAATGTATATAG
38246896 CACTAAGTGTGCGAGCTGAATGTATATAG
1 CACTAAGTGTGCGAGCTGAATGTATATAG
38246925 CACTAAGTGTGCG
1 CACTAAGTGTGCG
38246938 GATTCACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 17 0.44
29 20 0.51
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (29 bp):
CACTAAGTGTGCGAGCTGAATGTATATAG
Found at i:38251807 original size:40 final size:40
Alignment explanation
Indices: 38251752--38251969 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
38251742 CGGATGATAA
* * *
38251752 CCGGGCTAATTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
38251792 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
**
38251832 CCGGGCTAAGTCCCGAAGGCATTTGTATGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
38251872 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
38251912 CCGGGCTAAGTCTCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
38251952 CC-AGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
38251970 TACTTGGTTT
Statistics
Matches: 160, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 15 0.09
40 144 0.90
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:38259973 original size:40 final size:40
Alignment explanation
Indices: 38259918--38260135 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
38259908 CGGATGATAA
* *
38259918 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
38259958 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
38259998 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
38260038 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
38260078 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
38260118 CC-GGATAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
38260136 TACTTGGTTT
Statistics
Matches: 167, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 16 0.10
40 150 0.90
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:38268939 original size:18 final size:18
Alignment explanation
Indices: 38268916--38268953 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
38268906 CTGGTTTATC
*
38268916 TACATACATACATTTGCA
1 TACATACATACATATGCA
38268934 TACATACATACATATGCA
1 TACATACATACATATGCA
38268952 TA
1 TA
38268954 AACTATTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.32
Consensus pattern (18 bp):
TACATACATACATATGCA
Found at i:38269277 original size:91 final size:92
Alignment explanation
Indices: 38269136--38269330 Score: 277
Period size: 91 Copynumber: 2.1 Consensus size: 92
38269126 TGTACGTTAG
*** * * *
38269136 CGCTACGTACCATTGACTGAATTGGCAGTTTTACTGCAACATATTGGTATAGTGGACTACTGCAT
1 CGCTACGTACCATTGACTGAATCAACAGTTTTACTACAACATATTGGTATAGCGGACTACAGCAT
*
38269201 TGCACTGTACCATATA-TACATTAGCTA
66 TGCACTGTACCACA-AGTACATTAGCTA
*
38269228 CGCTATGTACCATTGACTGAA-CAACAGTTTTACTACAACATATTGGTATAGCGGACTACAGCAT
1 CGCTACGTACCATTGACTGAATCAACAGTTTTACTACAACATATTGGTATAGCGGACTACAGCAT
* *
38269292 TGCAGTGTACCACAAGTACGTTAGCTA
66 TGCACTGTACCACAAGTACATTAGCTA
38269319 CGCTACGTACCA
1 CGCTACGTACCA
38269331 CCATTTGATC
Statistics
Matches: 91, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
90 1 0.01
91 70 0.77
92 20 0.22
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (92 bp):
CGCTACGTACCATTGACTGAATCAACAGTTTTACTACAACATATTGGTATAGCGGACTACAGCAT
TGCACTGTACCACAAGTACATTAGCTA
Found at i:38272486 original size:13 final size:13
Alignment explanation
Indices: 38272452--38272477 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38272442 ACAAAATACT
38272452 TATACTTAACTTC
1 TATACTTAACTTC
38272465 TATACTTAACTTC
1 TATACTTAACTTC
38272478 CTACTTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (13 bp):
TATACTTAACTTC
Found at i:38274909 original size:29 final size:29
Alignment explanation
Indices: 38274819--38274978 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
38274809 ACTCGATTTC
* * **
38274819 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
38274848 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
38274876 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
38274906 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
38274935 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
38274964 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
38274979 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:38282995 original size:29 final size:29
Alignment explanation
Indices: 38282905--38283064 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
38282895 ACTCGATTTC
* * **
38282905 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
38282934 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
38282962 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
38282992 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
38283021 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
38283050 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
38283065 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:38291091 original size:29 final size:29
Alignment explanation
Indices: 38290992--38291150 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
38290982 ACTCGATTTC
* * **
38290992 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
38291021 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
* *
38291049 CGCACAC-CAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
38291078 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
38291107 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
38291136 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
38291151 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
28 22 0.20
29 89 0.80
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:38300105 original size:33 final size:33
Alignment explanation
Indices: 38300065--38300127 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
38300055 CACTTAGTCT
*
38300065 TTTTTCTTTTTAAAGAAGCATTTATTCATGGTC
1 TTTTTCTTTTTAAACAAGCATTTATTCATGGTC
38300098 TTTTTCTTTTTAAACAAGCATTTATTCATG
1 TTTTTCTTTTTAAACAAGCATTTATTCATG
38300128 CTTACTATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.25, C:0.13, G:0.10, T:0.52
Consensus pattern (33 bp):
TTTTTCTTTTTAAACAAGCATTTATTCATGGTC
Found at i:38302114 original size:19 final size:17
Alignment explanation
Indices: 38302071--38302118 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
38302061 CCCCCTTTAT
*
38302071 AAACATTTTAAATTAAA
1 AAACATTTTAAACTAAA
*
38302088 AAAAATTTTAAACTAGAA
1 AAACATTTTAAACTA-AA
38302106 AAAGCATTTTAAA
1 AAA-CATTTTAAA
38302119 TCTTAATTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 13 0.50
18 5 0.19
19 8 0.31
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.31
Consensus pattern (17 bp):
AAACATTTTAAACTAAA
Found at i:38305000 original size:31 final size:31
Alignment explanation
Indices: 38304965--38305026 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
38304955 GTAAACATAT
38304965 TTCAAATGGAAAAGAAGTACCTTTAGTTCAA
1 TTCAAATGGAAAAGAAGTACCTTTAGTTCAA
38304996 TTCAAATGGAAAAGAAGTACCTTTAGTTCAA
1 TTCAAATGGAAAAGAAGTACCTTTAGTTCAA
38305027 GTGTAGGTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (31 bp):
TTCAAATGGAAAAGAAGTACCTTTAGTTCAA
Found at i:38310495 original size:31 final size:31
Alignment explanation
Indices: 38310457--38310517 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
38310447 AGTTTCATCT
38310457 ATTCAATACCTATAC-AGTTCTTGTACATACG
1 ATTCAATACCTATACGA-TTCTTGTACATACG
38310488 ATTCAATACCTATACGATTCTTGTACATAC
1 ATTCAATACCTATACGATTCTTGTACATAC
38310518 CTGTACTGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 28 0.97
32 1 0.03
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.36
Consensus pattern (31 bp):
ATTCAATACCTATACGATTCTTGTACATACG
Found at i:38323922 original size:30 final size:29
Alignment explanation
Indices: 38323828--38323929 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
38323818 TATAGTGAAT
* * *
38323828 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
38323857 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
38323885 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
38323915 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
38323930 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:38331723 original size:29 final size:29
Alignment explanation
Indices: 38331691--38331791 Score: 116
Period size: 29 Copynumber: 3.5 Consensus size: 29
38331681 ATAGTGAATC
*
38331691 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAACT
*
38331720 CGCACACTTAGTGCTATATA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AACT
* * * *
38331748 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTTCAACT
38331778 CGCACACTTAGTGC
1 CGCACACTTAGTGC
38331792 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 20 0.33
29 21 0.34
30 17 0.28
31 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAACT
Found at i:38331784 original size:30 final size:29
Alignment explanation
Indices: 38331690--38331791 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
38331680 TATAGTGAAT
* * *
38331690 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
38331719 TCGCACACTTAGTGCTATATAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
38331747 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
38331777 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
38331792 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.30
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:38333241 original size:40 final size:40
Alignment explanation
Indices: 38333196--38333362 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
38333186 CGGAATATAA
38333196 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
38333236 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
38333276 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
38333316 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
38333355 CCGGATAT
1 CCGGATAT
38333363 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Done.