Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 243 of 290
Found at i:78892571 original size:15 final size:15
Alignment explanation
Indices: 78892553--78892582 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
78892543 AAATTTTAAT
*
78892553 TTTTTATAGTTTATA
1 TTTTTATAATTTATA
78892568 TTTTTATAATTTATA
1 TTTTTATAATTTATA
78892583 AAGGATTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
TTTTTATAATTTATA
Found at i:78893556 original size:22 final size:22
Alignment explanation
Indices: 78893531--78893583 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
78893521 AACAACTATA
* **
78893531 TTATTTTTTATATCTCTCTTTT
1 TTATTTTTTATATCTATAATTT
* * *
78893553 TTATATTTAATTTCTATAATTT
1 TTATTTTTTATATCTATAATTT
78893575 TTATTTTTT
1 TTATTTTTT
78893584 TTAAAGATAA
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (22 bp):
TTATTTTTTATATCTATAATTT
Found at i:78895465 original size:35 final size:35
Alignment explanation
Indices: 78895410--78895486 Score: 95
Period size: 35 Copynumber: 2.2 Consensus size: 35
78895400 ATCAGTCAGT
* *
78895410 TACAGATTTGGGCTTAAGCCCAT-TATGGATACAGA
1 TACAGATTCGGGCTTAAGCCCATCT-TAGATACAGA
*
78895445 TATAGATTCGGGCCTT-AGCCCATCTTAGATACAGA
1 TACAGATTCGGG-CTTAAGCCCATCTTAGATACAGA
78895480 TACAGAT
1 TACAGAT
78895487 GTGCAAATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
35 32 0.89
36 4 0.11
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (35 bp):
TACAGATTCGGGCTTAAGCCCATCTTAGATACAGA
Found at i:78902704 original size:6 final size:6
Alignment explanation
Indices: 78902693--78902720 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
78902683 AACCCATATT
78902693 AGATAC AGATAC AGATAC AGATAC AGAT
1 AGATAC AGATAC AGATAC AGATAC AGAT
78902721 TGCAAATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.18
Consensus pattern (6 bp):
AGATAC
Found at i:78907736 original size:9 final size:9
Alignment explanation
Indices: 78907722--78907754 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
78907712 ATCTATATAC
78907722 AAGCATTTT
1 AAGCATTTT
78907731 AAGCATTTT
1 AAGCATTTT
78907740 AAGCATTTT
1 AAGCATTTT
78907749 AAGCAT
1 AAGCAT
78907755 GTTATCTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (9 bp):
AAGCATTTT
Found at i:78925079 original size:22 final size:22
Alignment explanation
Indices: 78925054--78925103 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
78925044 AAATTTTGAA
78925054 TTTTTACAATGAATTACCTA-GG
1 TTTTTACAAT-AATTACCTAGGG
* *
78925076 TTTTTCCTATAATTACCTAGGG
1 TTTTTACAATAATTACCTAGGG
78925098 TTTTTA
1 TTTTTA
78925104 TAGGGAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 9 0.38
22 15 0.62
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.48
Consensus pattern (22 bp):
TTTTTACAATAATTACCTAGGG
Found at i:78925112 original size:23 final size:22
Alignment explanation
Indices: 78925086--78925134 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
78925076 TTTTTCCTAT
*
78925086 AATTACCTAGGGTTTTTATAGGG
1 AATTA-CTAGAGTTTTTATAGGG
*
78925109 AATTACTTGAGTTTTTATAGGG
1 AATTACTAGAGTTTTTATAGGG
78925131 AATT
1 AATT
78925135 GAGTTACTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.43
Consensus pattern (22 bp):
AATTACTAGAGTTTTTATAGGG
Found at i:78925911 original size:34 final size:32
Alignment explanation
Indices: 78925862--78925957 Score: 93
Period size: 37 Copynumber: 2.8 Consensus size: 32
78925852 GTTTTATTAA
* *
78925862 GAATAATTTTCGGAAAATATTTTTTAAAAATT
1 GAATGATTTTGGGAAAATATTTTTTAAAAATT
* * *
78925894 GAATTGATTTTATGGAAAATTGATTTTTTTAATATTT
1 GAA-TGATTTT-GGGAAAA-T-A-TTTTTTAAAAATT
78925931 GAATGATTTTGGGTAAAATATTTTTTA
1 GAATGATTTTGGG-AAAATATTTTTTA
78925958 TTGTTTGACA
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
32 3 0.06
33 13 0.25
34 7 0.13
35 4 0.08
36 12 0.23
37 14 0.26
ACGTcount: A:0.36, C:0.01, G:0.14, T:0.49
Consensus pattern (32 bp):
GAATGATTTTGGGAAAATATTTTTTAAAAATT
Found at i:78926226 original size:23 final size:23
Alignment explanation
Indices: 78926200--78926250 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
78926190 CAAGATAAAC
*
78926200 AAATACTAATA-TTTATATTATTA
1 AAATACTAATATTTTATACTA-TA
* *
78926223 AAATATTCATATTTTATACTATA
1 AAATACTAATATTTTATACTATA
78926246 AAATA
1 AAATA
78926251 TTTCTAACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (23 bp):
AAATACTAATATTTTATACTATA
Found at i:78926497 original size:14 final size:14
Alignment explanation
Indices: 78926480--78926536 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 14
78926470 TATCAATATT
78926480 TTAATATTTAAAAA
1 TTAATATTTAAAAA
*
78926494 TTAAAATTTAAAAA
1 TTAATATTTAAAAA
* * *
78926508 ATATTA-TTAATATA
1 TTAATATTTAA-AAA
*
78926522 TTAATATTGAAAAA
1 TTAATATTTAAAAA
78926536 T
1 T
78926537 ACCTTGCGTT
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
13 4 0.12
14 25 0.78
15 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (14 bp):
TTAATATTTAAAAA
Found at i:78934388 original size:17 final size:15
Alignment explanation
Indices: 78934366--78934399 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 15
78934356 ATTCCATTGC
78934366 TTCTTCTTCCGTTTTCT
1 TTCTTCTT-C-TTTTCT
78934383 TTCTTCTTCTTTTCT
1 TTCTTCTTCTTTTCT
78934398 TT
1 TT
78934400 TCGCTCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 1 0.06
17 8 0.47
ACGTcount: A:0.00, C:0.26, G:0.03, T:0.71
Consensus pattern (15 bp):
TTCTTCTTCTTTTCT
Found at i:78949694 original size:42 final size:40
Alignment explanation
Indices: 78949648--78949729 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 40
78949638 CTTGTTCACC
*
78949648 ATAAATGA-ACTTAACAATCTTTATTCATGTTCAGTTTGTTTA
1 ATAAATGAGACTTAA-AATC-TTATTCATGTTCA-TTTATTTA
*
78949690 ATAAATGAGCCTTAAAATCTTATTCATGTTCATTTATTTA
1 ATAAATGAGACTTAAAATCTTATTCATGTTCATTTATTTA
78949730 GCTTGATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
40 7 0.19
41 13 0.35
42 12 0.32
43 5 0.14
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.45
Consensus pattern (40 bp):
ATAAATGAGACTTAAAATCTTATTCATGTTCATTTATTTA
Found at i:78951135 original size:147 final size:147
Alignment explanation
Indices: 78950868--78951162 Score: 536
Period size: 147 Copynumber: 2.0 Consensus size: 147
78950858 TAAGATCTGC
*
78950868 TAATTTTCCCTGAAACTATACTCATATATCTTCTTACCATAAAATTTTCAGAATTTTTGGTTTAG
1 TAATTTTCCCTAAAACTATACTCATATATCTTCTTACCATAAAATTTTCAGAATTTTTGGTTTAG
* *
78950933 GCAATAAATATAGTTTATTCTTTAAAGTTACCCCTATTCTGCGGTCTGACAGTTTCGACCCTTCT
66 CCAATAAATATAGTTTATTCTTTAAAGTTACCCCTATTCTGCGATCTGACAGTTTCGACCCTTCT
78950998 TCACTAAGAATTAATTA
131 TCACTAAGAATTAATTA
78951015 TAATTTTCCCTAAAACTATACTCATATATCTTCTTACCATAAAATTTTCAGAATTTTTGGTTTAG
1 TAATTTTCCCTAAAACTATACTCATATATCTTCTTACCATAAAATTTTCAGAATTTTTGGTTTAG
* * *
78951080 CCAATAAGTATAGTTTATTCTTTAAATTTACCCCTATTCTGCTATCTGACAGTTTCGACCCTTCT
66 CCAATAAATATAGTTTATTCTTTAAAGTTACCCCTATTCTGCGATCTGACAGTTTCGACCCTTCT
78951145 TCACTAAGAATTAATTA
131 TCACTAAGAATTAATTA
78951162 T
1 T
78951163 CTCATAGTAC
Statistics
Matches: 142, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
147 142 1.00
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.42
Consensus pattern (147 bp):
TAATTTTCCCTAAAACTATACTCATATATCTTCTTACCATAAAATTTTCAGAATTTTTGGTTTAG
CCAATAAATATAGTTTATTCTTTAAAGTTACCCCTATTCTGCGATCTGACAGTTTCGACCCTTCT
TCACTAAGAATTAATTA
Found at i:78956118 original size:48 final size:49
Alignment explanation
Indices: 78956051--78956195 Score: 172
Period size: 48 Copynumber: 3.0 Consensus size: 49
78956041 TGGATACTCA
* * *
78956051 GAAGTCTCGCACACTAAGTGCCAATATCATGGCCCTAAGCCAACTCAAT
1 GAAGTCTCGCACCCAAAGTGCCAATATCATGGCCCTAAGCCAAATCAAT
* * * *
78956100 -ATGTCTCGCACCCGAAGTGCTAATATCATGG-CCTAAATCCAAATCAAT
1 GAAGTCTCGCACCCAAAGTGCCAATATCATGGCCCT-AAGCCAAATCAAT
* *
78956148 GAAG-CTCGCA-CTAAAGTGCCAATATCATGGCCCGAAGCCAAATCAAT
1 GAAGTCTCGCACCCAAAGTGCCAATATCATGGCCCTAAGCCAAATCAAT
78956195 G
1 G
78956196 TATTCCCTAA
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
47 33 0.41
48 46 0.57
49 2 0.02
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (49 bp):
GAAGTCTCGCACCCAAAGTGCCAATATCATGGCCCTAAGCCAAATCAAT
Found at i:78958621 original size:5 final size:5
Alignment explanation
Indices: 78958611--78958665 Score: 67
Period size: 5 Copynumber: 10.6 Consensus size: 5
78958601 TGAAAATAAT
*
78958611 AAATA AAATA ATAATA AGATA AAAT- AAATAA AAATAA AAATA AAATA
1 AAATA AAATA A-AATA AAATA AAATA AAAT-A AAAT-A AAATA AAATA
78958658 AAATA AAA
1 AAATA AAA
78958666 ATTGGGTTGC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
4 4 0.09
5 26 0.58
6 15 0.33
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:78958634 original size:16 final size:15
Alignment explanation
Indices: 78958605--78958665 Score: 72
Period size: 16 Copynumber: 3.9 Consensus size: 15
78958595 AATATCTGAA
78958605 AATAATAAATAAAAT
1 AATAATAAATAAAAT
78958620 AATAATAAGATAAAAT
1 AATAATAA-ATAAAAT
78958636 AAATAA-AAATAAAAAT
1 -AATAATAAAT-AAAAT
78958652 AA-AATAAAATAAAA
1 AATAAT-AAATAAAA
78958666 ATTGGGTTGC
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
14 2 0.05
15 16 0.39
16 18 0.44
17 5 0.12
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (15 bp):
AATAATAAATAAAAT
Found at i:78958652 original size:26 final size:25
Alignment explanation
Indices: 78958608--78958664 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 25
78958598 ATCTGAAAAT
* *
78958608 AATAAATAAAATAATAATAAGATAA
1 AATAAATAAAATAAAAATAAAATAA
78958633 AATAAATAAAAATAAAAATAAAATAA
1 AATAAAT-AAAATAAAAATAAAATAA
78958659 AATAAA
1 AATAAA
78958665 AATTGGGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 7 0.24
26 22 0.76
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (25 bp):
AATAAATAAAATAAAAATAAAATAA
Found at i:78961548 original size:40 final size:40
Alignment explanation
Indices: 78961491--78961703 Score: 263
Period size: 40 Copynumber: 5.3 Consensus size: 40
78961481 CTAACGGGGT
* * * *
78961491 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTCTGGGC
1 TAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCCGGGC
*
78961531 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCCGGGC
* *
78961571 TAAGTCTCGAAGGCATTTGTG-TGAGTTACTAA-TCTGGGC
1 TAAGTCCCGAAGGCATTTGTGCT-AGTTACTAATTCCGGGC
*
78961610 TAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCTAGTTACTAAT-TCCGGGC
* * *
78961650 TAAGTCCCGAAGGCATTTGTGCTAGTGAC-CATATCCGGAC
1 TAAGTCCCGAAGGCATTTGTGCTAGTTACTAAT-TCCGGGC
*
78961690 TAAGACCCGAAGGC
1 TAAGTCCCGAAGGC
78961704 CTTGTACGAG
Statistics
Matches: 153, Mismatches: 15, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
38 1 0.01
39 33 0.22
40 119 0.78
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCCGGGC
Found at i:78961722 original size:79 final size:79
Alignment explanation
Indices: 78961491--78961738 Score: 297
Period size: 79 Copynumber: 3.1 Consensus size: 79
78961481 CTAACGGGGT
* *
78961491 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTCTGGGCTAAGTCCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCATTTGTGCTAGTGACTAA-TCTGGGCTAAGTCCCGAAGGCATTTGTGCGAG
78961556 TTACTA-ATTCCGGGC
65 TTACTATA-TCCGGGC
* * *
78961571 TAAGTCTCGAAGGCATTTGTG-TGAGTTACTAATCTGGGCTAAGTCCCGAAGGCATTTGTGCAAG
1 TAAGTCCCGAAGGCATTTGTGCT-AGTGACTAATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAG
78961635 TTACTATATCCGGGC
65 TTACTATATCCGGGC
* * * * * *
78961650 TAAGTCCCGAAGGCATTTGTGCTAGTGACCATATCCGGACTAAGACCCGAAGGC-CTTGTACGAG
1 TAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAG
***
78961714 TGGTTATATCC-GGC
65 TTACTATATCCGGGC
*
78961728 TAAATCCCGAA
1 TAAGTCCCGAA
78961739 TATAATTGGG
Statistics
Matches: 146, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
78 13 0.09
79 86 0.59
80 47 0.32
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTTGTGCTAGTGACTAATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
TACTATATCCGGGC
Found at i:78969800 original size:40 final size:40
Alignment explanation
Indices: 78969670--78969892 Score: 285
Period size: 40 Copynumber: 5.7 Consensus size: 40
78969660 CTAACGGGGT
* * * *
78969670 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
78969710 TAAGT-CCGAAGGCATTTGTGCGAGTTACTAATTCC-GGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
78969748 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
* *
78969788 TAAGTCCCGAAGGCGTTTGTGCGAGTTCCT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
* * * *
78969828 TAAGTCCCGAAGGCATTTGTGCTAGTGAC-CATATCCGGAC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
* *
78969868 TAAGACCCGAAGGC-CTTGTGCGAGT
1 TAAGTCCCGAAGGCATTTGTGCGAGT
78969893 GGTTATATCC
Statistics
Matches: 165, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
38 8 0.05
39 67 0.41
40 90 0.55
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
Found at i:78973993 original size:15 final size:15
Alignment explanation
Indices: 78973973--78974002 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
78973963 ATAATCCTAA
*
78973973 TAATTATCTTAATAT
1 TAATTATCCTAATAT
78973988 TAATTATCCTAATAT
1 TAATTATCCTAATAT
78974003 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:78974875 original size:5 final size:5
Alignment explanation
Indices: 78974865--78974903 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
78974855 ATAGAAGATA
* *
78974865 TTATT TTATT TTGTT TTATT AT-TT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT
78974904 ATTTTAGGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
4 3 0.10
5 26 0.90
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:78974892 original size:19 final size:19
Alignment explanation
Indices: 78974863--78974908 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
78974853 AAATAGAAGA
*
78974863 TATTA-TTTTATTTTGTTT
1 TATTATTTTTATTTTATTT
78974881 TATTATTTTTATTTTATTT
1 TATTATTTTTATTTTATTT
78974900 TATTATTTT
1 TATTATTTT
78974909 AGGATTAAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 5 0.19
19 21 0.81
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (19 bp):
TATTATTTTTATTTTATTT
Found at i:78979341 original size:19 final size:20
Alignment explanation
Indices: 78979317--78979384 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 20
78979307 TCACATTAAG
78979317 AAAATAAAAAATATATA-AA
1 AAAATAAAAAATATATAGAA
* *
78979336 AAAATAAAAAA-AAAGAGAA
1 AAAATAAAAAATATATAGAA
* *
78979355 AAAATATAATAATATATATAA
1 AAAATA-AAAAATATATAGAA
*
78979376 TAAATAAAA
1 AAAATAAAA
78979385 TTTAAGACTG
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
18 3 0.08
19 19 0.50
20 6 0.16
21 10 0.26
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (20 bp):
AAAATAAAAAATATATAGAA
Found at i:78979990 original size:5 final size:5
Alignment explanation
Indices: 78979980--78980018 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
78979970 ATAGAAGATA
* *
78979980 TTATT TTATT TTGTT TTATT AT-TT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT
78980019 ATTTTAGGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
4 3 0.10
5 26 0.90
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:78980007 original size:19 final size:19
Alignment explanation
Indices: 78979978--78980023 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
78979968 AAATAGAAGA
*
78979978 TATTA-TTTTATTTTGTTT
1 TATTATTTTTATTTTATTT
78979996 TATTATTTTTATTTTATTT
1 TATTATTTTTATTTTATTT
78980015 TATTATTTT
1 TATTATTTT
78980024 AGGATTAACC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 5 0.19
19 21 0.81
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (19 bp):
TATTATTTTTATTTTATTT
Found at i:78981738 original size:18 final size:17
Alignment explanation
Indices: 78981705--78981743 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
78981695 TTGTATAAAT
78981705 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
78981723 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
78981740 TGTG
1 TGTG
78981744 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:78982004 original size:23 final size:23
Alignment explanation
Indices: 78981977--78982049 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
78981967 AGTGTTATTG
78981977 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
78982000 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
78982023 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
78982046 ATCA
1 ATCA
78982050 ATGTGGCACT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:78988227 original size:17 final size:17
Alignment explanation
Indices: 78988195--78988229 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
78988185 ATTAAAAATT
*
78988195 AAAAATTGTTAATTACA
1 AAAAATTGTGAATTACA
*
78988212 AAAAATTGTGATTTACA
1 AAAAATTGTGAATTACA
78988229 A
1 A
78988230 GCCTAATAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (17 bp):
AAAAATTGTGAATTACA
Found at i:78997857 original size:24 final size:26
Alignment explanation
Indices: 78997807--78997858 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
78997797 ATAGTTATAA
* * *
78997807 TAAAAAAATTATAATAATTAATGTTT
1 TAAAAAAATTATAAAAACTAATATTT
78997833 TAAAAAAATTA-AAAAACT-ATATTT
1 TAAAAAAATTATAAAAACTAATATTT
78997857 TA
1 TA
78997859 GATTATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 7 0.30
25 5 0.22
26 11 0.48
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (26 bp):
TAAAAAAATTATAAAAACTAATATTT
Found at i:79000582 original size:92 final size:92
Alignment explanation
Indices: 79000441--79000625 Score: 361
Period size: 92 Copynumber: 2.0 Consensus size: 92
79000431 TTGGTCACGG
79000441 TCTCTTCAGCAATATCTTTTTATATATTTTTTTAATTTTTATTTTCAATGCACTATATTTTCTTT
1 TCTCTTCAGCAATATCTTTTTATATATTTTTTTAATTTTTATTTTCAATGCACTATATTTTCTTT
*
79000506 GAAGACTGTAATGGTTCTTGTTTTAGT
66 GAAGACTGTAATGGTTCTTATTTTAGT
79000533 TCTCTTCAGCAATATCTTTTTATATATTTTTTTAATTTTTATTTTCAATGCACTATATTTTCTTT
1 TCTCTTCAGCAATATCTTTTTATATATTTTTTTAATTTTTATTTTCAATGCACTATATTTTCTTT
79000598 GAAGACTGTAATGGTTCTTATTTTAGT
66 GAAGACTGTAATGGTTCTTATTTTAGT
79000625 T
1 T
79000626 TAGTTTGTTT
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 92 1.00
ACGTcount: A:0.23, C:0.12, G:0.09, T:0.56
Consensus pattern (92 bp):
TCTCTTCAGCAATATCTTTTTATATATTTTTTTAATTTTTATTTTCAATGCACTATATTTTCTTT
GAAGACTGTAATGGTTCTTATTTTAGT
Found at i:79014491 original size:40 final size:40
Alignment explanation
Indices: 79014346--79014531 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
79014336 GCTACTCGTT
* * *
79014346 CAAATGCCTTCGGGACATAGCCCCG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
79014386 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
79014426 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
79014466 CCAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
79014507 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
79014532 CATCATTCAA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 115 0.88
41 12 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:79027125 original size:3 final size:3
Alignment explanation
Indices: 79027119--79027227 Score: 66
Period size: 3 Copynumber: 36.3 Consensus size: 3
79027109 TGTTTTTTTA
* *
79027119 TAT TAT TAC TAT TAT TAT TA- TACT TAT ATAT ATATT TAT T-T TAT T-C
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT -TAT -TA-T TAT TAT TAT TAT
* * * *
79027165 TAT TAT CAT TAC TAT TAC TACT T-C TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
* *
79027210 T-T TGT TAC TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
79027228 TTTCATACAC
Statistics
Matches: 82, Mismatches: 15, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
2 8 0.10
3 62 0.76
4 11 0.13
5 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.01, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:79027136 original size:12 final size:12
Alignment explanation
Indices: 79027119--79027366 Score: 97
Period size: 12 Copynumber: 20.7 Consensus size: 12
79027109 TGTTTTTTTA
79027119 TATTATTACTAT
1 TATTATTACTAT
79027131 TATTATTA-TACT
1 TATTATTACTA-T
*
79027143 TATATATATATTTAT
1 TAT-TAT-TA-CTAT
79027158 T-TTATT-CTAT
1 TATTATTACTAT
*
79027168 TATCATTACTAT
1 TATTATTACTAT
*
79027180 TACTACTT-CTAT
1 TATTA-TTACTAT
*
79027192 TATTATTATTAT
1 TATTATTACTAT
* *
79027204 TATTATT-TTGT
1 TATTATTACTAT
* *
79027215 TACTATTATTAT
1 TATTATTACTAT
* *
79027227 TTTTCA-TACACAT
1 TATT-ATTAC-TAT
*
79027240 ATATTATTA-TTT
1 -TATTATTACTAT
79027252 ATATTATTACTAT
1 -TATTATTACTAT
* *** **
79027265 TACTAACGCCCT
1 TATTATTACTAT
79027277 TATTA-TAGCTAT
1 TATTATTA-CTAT
* * *
79027289 CATTATTCCTTT
1 TATTATTACTAT
*
79027301 TACTATTACTAT
1 TATTATTACTAT
79027313 TATTATTACTAT
1 TATTATTACTAT
*
79027325 TATTACTATCT-T
1 TATTATTA-CTAT
79027337 T-TTATT-CTTAT
1 TATTATTAC-TAT
*
79027348 T-TTATTAATAT
1 TATTATTACTAT
79027359 TATTATTA
1 TATTATTA
79027367 TAATCTTACT
Statistics
Matches: 175, Mismatches: 39, Indels: 44
0.68 0.15 0.17
Matches are distributed among these distances:
9 1 0.01
10 5 0.03
11 32 0.18
12 108 0.62
13 17 0.10
14 8 0.05
15 2 0.01
16 2 0.01
ACGTcount: A:0.30, C:0.11, G:0.01, T:0.57
Consensus pattern (12 bp):
TATTATTACTAT
Found at i:79027318 original size:3 final size:3
Alignment explanation
Indices: 79027304--79027367 Score: 53
Period size: 3 Copynumber: 22.0 Consensus size: 3
79027294 TTCCTTTTAC
* * * *
79027304 TAT TAC TAT TAT TAT TAC TAT TAT TAC TAT CT-T T-T TAT TCT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
*
79027348 T-T TAT TAA TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT
79027368 AATCTTACTT
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
2 5 0.10
3 42 0.88
4 1 0.02
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:79027325 original size:9 final size:9
Alignment explanation
Indices: 79027300--79027333 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
79027290 ATTATTCCTT
79027300 TTACTATTA
1 TTACTATTA
* *
79027309 CTATTATTA
1 TTACTATTA
79027318 TTACTATTA
1 TTACTATTA
79027327 TTACTAT
1 TTACTAT
79027334 CTTTTTATTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (9 bp):
TTACTATTA
Found at i:79027461 original size:3 final size:3
Alignment explanation
Indices: 79027455--79027496 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
79027445 AATATTTTCG
* * *
79027455 TTA TTA TTA TTA TCA CTA TT- GTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
79027497 ATTTTCTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
2 1 0.03
3 31 0.97
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:79027494 original size:20 final size:20
Alignment explanation
Indices: 79027456--79027499 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
79027446 ATATTTTCGT
*
79027456 TATTATTATTATCACTATTG
1 TATTATTATTATCACTATTA
* *
79027476 TATTATTATTATTATTATTA
1 TATTATTATTATCACTATTA
79027496 TATT
1 TATT
79027500 TTCTTTTCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (20 bp):
TATTATTATTATCACTATTA
Found at i:79027684 original size:3 final size:3
Alignment explanation
Indices: 79027663--79027892 Score: 96
Period size: 3 Copynumber: 76.0 Consensus size: 3
79027653 TAAAATTTAG
* * **
79027663 ATT ATTT ATT ATT -TGT ATT ATT GTT ATT ACT ATT -TGT ATTT ACC ATT
1 ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT AT-T A-TT ATT ATT
* * * *
79027710 ATT ATT ACT ATT ATT -TT CACTT -TT ATT ACT ATT ACT ATT ATC ATT
1 ATT ATT ATT ATT ATT ATT -A-TT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
79027755 -TT TTT ATT TTCT ATT ACT ATT ATC ATT ATT ATT GA-T ACT AAT ATT
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT
* * * *
79027800 AAT ATT CTT ATT ATT ACTT -TT ATT ATT ATC ATT AGT ATT ATT ATT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * ** * * **
79027845 TTT ACT ACC ACT ATT ATT ATT ATC AAC ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
79027893 TTCATCATTA
Statistics
Matches: 168, Mismatches: 43, Indels: 32
0.69 0.18 0.13
Matches are distributed among these distances:
2 11 0.07
3 143 0.85
4 11 0.07
5 3 0.02
ACGTcount: A:0.30, C:0.10, G:0.02, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:79038082 original size:13 final size:13
Alignment explanation
Indices: 79038066--79038115 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
79038056 AGAAATTAAT
79038066 TTAGTTAATTTGA
1 TTAGTTAATTTGA
* *
79038079 TTAGTTAAATTAA
1 TTAGTTAATTTGA
79038092 TTTAGTTAATTTGA
1 -TTAGTTAATTTGA
*
79038106 TTAATTAATT
1 TTAGTTAATT
79038116 AAATTAATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
13 20 0.65
14 11 0.35
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (13 bp):
TTAGTTAATTTGA
Found at i:79038096 original size:14 final size:14
Alignment explanation
Indices: 79038058--79038100 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
79038048 TTTAATTGAG
79038058 AAATTAATTTAGTT
1 AAATTAATTTAGTT
* *
79038072 AATTTGA-TTAGTT
1 AAATTAATTTAGTT
79038085 AAATTAATTTAGTT
1 AAATTAATTTAGTT
79038099 AA
1 AA
79038101 TTTGATTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (14 bp):
AAATTAATTTAGTT
Found at i:79038120 original size:27 final size:27
Alignment explanation
Indices: 79038058--79038117 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
79038048 TTTAATTGAG
*
79038058 AAATTAATTTAGTTAATTTGATTAGTT
1 AAATTAATTTAGTTAATTTGATTAATT
79038085 AAATTAATTTAGTTAATTTGATTAATT
1 AAATTAATTTAGTTAATTTGATTAATT
79038112 -AATTAA
1 AAATTAA
79038118 ATTAATTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 6 0.19
27 26 0.81
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (27 bp):
AAATTAATTTAGTTAATTTGATTAATT
Found at i:79040212 original size:19 final size:19
Alignment explanation
Indices: 79040188--79040231 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
79040178 AATAAATATA
79040188 TTTTTTCGATTTTCTT-CTT
1 TTTTTTCGATTTT-TTGCTT
* *
79040207 TTTTTTTGGTTTTTTGCTT
1 TTTTTTCGATTTTTTGCTT
79040226 TTTTTT
1 TTTTTT
79040232 ATCACAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.02, C:0.09, G:0.09, T:0.80
Consensus pattern (19 bp):
TTTTTTCGATTTTTTGCTT
Found at i:79041238 original size:18 final size:19
Alignment explanation
Indices: 79041212--79041252 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
79041202 ATAAATAAAC
*
79041212 TAAACCAAAATAA-AATAA
1 TAAAACAAAATAATAATAA
79041230 TAAAACAAAATAATAATAA
1 TAAAACAAAATAATAATAA
79041249 TAAA
1 TAAA
79041253 CTCAATGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (19 bp):
TAAAACAAAATAATAATAA
Found at i:79041400 original size:10 final size:10
Alignment explanation
Indices: 79041387--79041440 Score: 58
Period size: 10 Copynumber: 5.3 Consensus size: 10
79041377 AAAATTAGTA
79041387 AAATAATAAT
1 AAATAATAAT
79041397 AAATAATATAAT
1 AAAT-A-ATAAT
79041409 AAATAATAAT
1 AAATAATAAT
*
79041419 AAAT-AGAAT
1 AAATAATAAT
79041428 AAAATAA-AAT
1 -AAATAATAAT
79041438 AAA
1 AAA
79041441 AATGGGGTGG
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
9 7 0.18
10 20 0.51
11 3 0.08
12 9 0.23
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (10 bp):
AAATAATAAT
Found at i:79041413 original size:19 final size:19
Alignment explanation
Indices: 79041391--79041440 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
79041381 TTAGTAAAAT
*
79041391 AATAATAA-ATAATATAATA
1 AATAATAATA-AATAGAATA
79041410 AATAATAATAAATAGAATAA
1 AATAATAATAAATAGAAT-A
79041430 AATAA-AATAAA
1 AATAATAATAAA
79041441 AATGGGGTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (19 bp):
AATAATAATAAATAGAATA
Found at i:79041428 original size:12 final size:11
Alignment explanation
Indices: 79041387--79041429 Score: 54
Period size: 12 Copynumber: 3.9 Consensus size: 11
79041377 AAAATTAGTA
79041387 AAAT-AATAAT
1 AAATAAATAAT
79041397 AAATAATATAAT
1 AAATAA-ATAAT
79041409 AAAT-AATAAT
1 AAATAAATAAT
79041419 AAATAGAATAA
1 AAATA-AATAA
79041430 AATAAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 13 0.45
11 2 0.07
12 14 0.48
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (11 bp):
AAATAAATAAT
Found at i:79041429 original size:22 final size:20
Alignment explanation
Indices: 79041352--79041440 Score: 73
Period size: 22 Copynumber: 4.5 Consensus size: 20
79041342 TAAGTATAGG
79041352 AATAATAAAT--TA-AAAAT
1 AATAATAAATAATATAAAAT
*
79041369 AA-AATAAAAAAATTAGTAAAAT
1 AATAAT-AAATAA-TA-TAAAAT
79041391 AATAATAAATAATATAATAAAT
1 AATAATAAATAATAT-A-AAAT
79041413 AATAATAAATAGA-ATAAAAT
1 AATAATAAATA-ATATAAAAT
79041433 AA-AATAAA
1 AATAATAAA
79041441 AATGGGGTGG
Statistics
Matches: 60, Mismatches: 2, Indels: 18
0.75 0.03 0.22
Matches are distributed among these distances:
16 3 0.05
17 5 0.08
19 6 0.10
20 9 0.15
21 4 0.07
22 29 0.48
23 4 0.07
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (20 bp):
AATAATAAATAATATAAAAT
Found at i:79041437 original size:15 final size:14
Alignment explanation
Indices: 79041365--79041440 Score: 59
Period size: 15 Copynumber: 5.2 Consensus size: 14
79041355 AATAAATTAA
*
79041365 AAATAAAATAAAAA
1 AAATAAAATAAAAT
79041379 AATTAGTAAAATAATAAT
1 AA--A-TAAAATAA-AAT
*
79041397 AAAT--AATATAAT
1 AAATAAAATAAAAT
79041409 AAATAATAAT-AAAT
1 AAATAA-AATAAAAT
79041423 AGAATAAAATAAAAT
1 A-AATAAAATAAAAT
79041438 AAA
1 AAA
79041441 AATGGGGTGG
Statistics
Matches: 50, Mismatches: 3, Indels: 18
0.70 0.04 0.25
Matches are distributed among these distances:
12 7 0.14
13 4 0.08
14 11 0.22
15 14 0.28
16 2 0.04
17 8 0.16
18 4 0.08
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:79041441 original size:10 final size:10
Alignment explanation
Indices: 79041364--79041441 Score: 54
Period size: 10 Copynumber: 7.4 Consensus size: 10
79041354 TAATAAATTA
79041364 AAAATAAAAT
1 AAAATAAAAT
79041374 AAAA-AAATTAGT
1 AAAATAAA--A-T
79041386 AAAATAATAAT
1 AAAATAA-AAT
*
79041397 -AAATAATAT
1 AAAATAAAAT
79041406 AATAAATAATAAT
1 -A-AAATAA-AAT
*
79041419 -AAATAGAAT
1 AAAATAAAAT
79041428 AAAATAAAAT
1 AAAATAAAAT
79041438 AAAA
1 AAAA
79041442 ATGGGGTGGC
Statistics
Matches: 54, Mismatches: 4, Indels: 20
0.69 0.05 0.26
Matches are distributed among these distances:
9 8 0.15
10 27 0.50
11 2 0.04
12 12 0.22
13 4 0.07
14 1 0.02
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:79042003 original size:13 final size:13
Alignment explanation
Indices: 79041987--79042012 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
79041977 TTTCTTCTTC
79041987 TTTTTTATTTTTA
1 TTTTTTATTTTTA
79042000 TTTTTTATTTTTA
1 TTTTTTATTTTTA
79042013 AGATTTTAAA
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:79043239 original size:55 final size:55
Alignment explanation
Indices: 79043178--79043288 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
79043168 AATAAATTAA
*
79043178 TATGCAATTTTTTTAAAGGTTTAAGAAATTTACCAAATTGTTTGTTAGTGTGGTC
1 TATGCAATTTTTTTAAAGGTTTAAGAAATTTACCAAATTGTTCGTTAGTGTGGTC
79043233 TATGCAATTTTTTTAAAGGTTTAAGAAATTTACCAAATTGTTCGTTAGTGTGGTC
1 TATGCAATTTTTTTAAAGGTTTAAGAAATTTACCAAATTGTTCGTTAGTGTGGTC
79043288 T
1 T
79043289 TTCTCCGTTG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (55 bp):
TATGCAATTTTTTTAAAGGTTTAAGAAATTTACCAAATTGTTCGTTAGTGTGGTC
Found at i:79047806 original size:5 final size:6
Alignment explanation
Indices: 79047767--79047805 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
79047757 AAAAAAGTAG
* * *
79047767 AAAATA AGAATT AAACTA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
79047806 TGCAATAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:79050728 original size:18 final size:18
Alignment explanation
Indices: 79050705--79050739 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
79050695 AGAAATAGTT
*
79050705 GCAAAATAATACATAAAA
1 GCAAAACAATACATAAAA
79050723 GCAAAACAATACATAAA
1 GCAAAACAATACATAAA
79050740 TGCTCAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.14, G:0.06, T:0.14
Consensus pattern (18 bp):
GCAAAACAATACATAAAA
Found at i:79057098 original size:20 final size:21
Alignment explanation
Indices: 79057073--79057114 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
79057063 TGGACAAATA
*
79057073 ATTAAAATTT-TTAAAATATT
1 ATTAAAATTTATAAAAATATT
79057093 ATTAAAATTTATAAAAATATT
1 ATTAAAATTTATAAAAATATT
79057114 A
1 A
79057115 CAATTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTAAAATTTATAAAAATATT
Found at i:79057109 original size:10 final size:10
Alignment explanation
Indices: 79057073--79057110 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
79057063 TGGACAAATA
79057073 ATTAAAATTT
1 ATTAAAATTT
79057083 -TTAAAATATT
1 ATTAAAAT-TT
79057093 ATTAAAATTT
1 ATTAAAATTT
*
79057103 ATAAAAAT
1 ATTAAAAT
79057111 ATTACAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 7 0.28
10 11 0.44
11 7 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
ATTAAAATTT
Found at i:79057113 original size:18 final size:18
Alignment explanation
Indices: 79057068--79057119 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
79057058 AAATTTGGAC
*
79057068 AAATAATTAAAATTTTTAA
1 AAAT-ATTAAAATTTATAA
79057087 AATATTATTAAAATTTATAA
1 AA-A-TATTAAAATTTATAA
*
79057107 AAATATTACAATT
1 AAATATTAAAATT
79057120 AATTTTCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 9 0.31
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATATTAAAATTTATAA
Found at i:79057827 original size:24 final size:23
Alignment explanation
Indices: 79057795--79057839 Score: 81
Period size: 24 Copynumber: 1.9 Consensus size: 23
79057785 ATTGAAAAAT
79057795 AAAAACAATATTTTTATTTTTAA
1 AAAAACAATATTTTTATTTTTAA
79057818 AAAAATCAATATTTTTATTTTT
1 AAAAA-CAATATTTTTATTTTT
79057840 CATTTTCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (23 bp):
AAAAACAATATTTTTATTTTTAA
Found at i:79061560 original size:48 final size:48
Alignment explanation
Indices: 79061392--79061567 Score: 221
Period size: 48 Copynumber: 3.7 Consensus size: 48
79061382 AATGTTTGAA
* * * * * *
79061392 ACAAGTTCATGCAAATATGCGTGCCTATCAAGTTCATTCAAA-ATTTT
1 ACAAGTTCATGCAAATATACATGACAATCAAGTTCGTTTAAATATTTT
* *
79061439 ACAAGTTCATGCAAATATACATGCCCAA-CAAGTTTGTTTAAATATTTT
1 ACAAGTTCATGCAAATATACATG-ACAATCAAGTTCGTTTAAATATTTT
*
79061487 ACAAGTTCATACAAATATACATGACAATCAAGTTCGTTTAAATATTTT
1 ACAAGTTCATGCAAATATACATGACAATCAAGTTCGTTTAAATATTTT
* **
79061535 ACAAGTTTATGCAAATATATGTGACAATCAAGT
1 ACAAGTTCATGCAAATATACATGACAATCAAGT
79061568 GTATGCAAAT
Statistics
Matches: 113, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
47 35 0.31
48 78 0.69
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (48 bp):
ACAAGTTCATGCAAATATACATGACAATCAAGTTCGTTTAAATATTTT
Found at i:79062095 original size:25 final size:25
Alignment explanation
Indices: 79062058--79062109 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
79062048 CTAGGCAGGA
*
79062058 TACCCAATGGACAACCGACAGTCTC
1 TACCCAATCGACAACCGACAGTCTC
* * *
79062083 TACCCAGTCGACAACTGACAGTTTC
1 TACCCAATCGACAACCGACAGTCTC
79062108 TA
1 TA
79062110 TCACCCGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (25 bp):
TACCCAATCGACAACCGACAGTCTC
Found at i:79064312 original size:30 final size:30
Alignment explanation
Indices: 79064278--79064340 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
79064268 ACTTATTTTA
79064278 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
79064308 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
79064338 TTG
1 TTG
79064341 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:79064947 original size:27 final size:27
Alignment explanation
Indices: 79064909--79064965 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
79064899 TCAATCAACA
79064909 AATTAGAGTGAATCAAAGGTAATATTC
1 AATTAGAGTGAATCAAAGGTAATATTC
79064936 AATTAGAGTGAATCAAAGGTAATATTC
1 AATTAGAGTGAATCAAAGGTAATATTC
79064963 AAT
1 AAT
79064966 CCTAAACCTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.46, C:0.07, G:0.18, T:0.30
Consensus pattern (27 bp):
AATTAGAGTGAATCAAAGGTAATATTC
Found at i:79075832 original size:59 final size:60
Alignment explanation
Indices: 79075761--79075877 Score: 146
Period size: 62 Copynumber: 1.9 Consensus size: 60
79075751 ATCACTTTAA
* * * * *
79075761 TATTAAATTAATATAATATTTATC-AAGATAAATATTAGATTATATTTAATATTAAATGT
1 TATTAAAATAATAGAATATTTATCTAAGATAAACATTAAATTAAATTTAATATTAAATGT
* *
79075820 TATTAAAATAATAGAATGTTTATCTTGTAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAAATAATAGAATATTTATC-T-AAGATAAACATTAAATTAAATTTAATATTAA
79075878 GATAATTACT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 21 0.44
62 27 0.56
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.44
Consensus pattern (60 bp):
TATTAAAATAATAGAATATTTATCTAAGATAAACATTAAATTAAATTTAATATTAAATGT
Found at i:79080487 original size:28 final size:28
Alignment explanation
Indices: 79080424--79080487 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 28
79080414 AATATCTTAA
* *
79080424 TTCTCTTTTACTTTTTTTTTTTTGAGAT
1 TTCTCTCTTAATTTTTTTTTTTTGAGAT
*
79080452 TTCT-TCTTAATTTTTTTTTTTTGTA-TT
1 TTCTCTCTTAATTTTTTTTTTTTG-AGAT
79080479 TTCTCTCTT
1 TTCTCTCTT
79080488 TCTTTATAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 22 0.71
28 9 0.29
ACGTcount: A:0.09, C:0.12, G:0.05, T:0.73
Consensus pattern (28 bp):
TTCTCTCTTAATTTTTTTTTTTTGAGAT
Found at i:79081938 original size:20 final size:21
Alignment explanation
Indices: 79081891--79081938 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
79081881 GAGCAATTTA
* *
79081891 ATTTTTTCTTTTATGTTTTTT
1 ATTTTTCCTTTTATGTTCTTT
**
79081912 AACTTTCCTTTTAT-TTCTTT
1 ATTTTTCCTTTTATGTTCTTT
79081932 ATTTTTC
1 ATTTTTC
79081939 ATTCTCTTCT
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.73
Consensus pattern (21 bp):
ATTTTTCCTTTTATGTTCTTT
Found at i:79082221 original size:26 final size:24
Alignment explanation
Indices: 79082187--79082236 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
79082177 ATAAGAGAAT
*
79082187 AGAAAATAAAGGGAAAAAAAGTTAAA
1 AGAAAATAAA-AGAAAAAAA-TTAAA
*
79082213 AGAACATAAAAGAAAAAAATTAAA
1 AGAAAATAAAAGAAAAAAATTAAA
79082237 TTGCTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.23
25 8 0.36
26 9 0.41
ACGTcount: A:0.72, C:0.02, G:0.14, T:0.12
Consensus pattern (24 bp):
AGAAAATAAAAGAAAAAAATTAAA
Found at i:79083280 original size:5 final size:5
Alignment explanation
Indices: 79083265--79083322 Score: 70
Period size: 5 Copynumber: 12.2 Consensus size: 5
79083255 TGCTAAAATA
*
79083265 TGAATT TGAAT TGAAT TGAAT TGAAT TGAAT TGAA- T-AAT T--AT TGATT
1 TGAA-T TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT
79083312 TGAAT TGAAT T
1 TGAAT TGAAT T
79083323 TATTCATTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
3 5 0.11
4 2 0.04
5 36 0.77
6 4 0.09
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (5 bp):
TGAAT
Found at i:79083294 original size:26 final size:26
Alignment explanation
Indices: 79083265--79083323 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
79083255 TGCTAAAATA
79083265 TGAATTTGAAT-TGAATTGAATTGAAT
1 TGAATTTGAATAT-AATTGAATTGAAT
* *
79083291 TGAA-TTGAATAATTATTGATTTGAAT
1 TGAATTTGAAT-ATAATTGAATTGAAT
79083317 TGAATTT
1 TGAATTT
79083324 ATTCATTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
25 6 0.21
26 19 0.68
27 3 0.11
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (26 bp):
TGAATTTGAATATAATTGAATTGAAT
Found at i:79087908 original size:29 final size:30
Alignment explanation
Indices: 79087869--79087938 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 30
79087859 TAGATACACA
*
79087869 AACCTTATATGTGCGAACCC-GTAGATGCG
1 AACCCTATATGTGCGAACCCTGTAGATGCG
* * * *
79087898 AACCCTGTATGTGTGAACCCTTTATATGCG
1 AACCCTATATGTGCGAACCCTGTAGATGCG
79087928 AACCCTATATG
1 AACCCTATATG
79087939 CGTGAGCAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 17 0.50
30 17 0.50
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (30 bp):
AACCCTATATGTGCGAACCCTGTAGATGCG
Found at i:79087917 original size:15 final size:15
Alignment explanation
Indices: 79087876--79087938 Score: 67
Period size: 15 Copynumber: 4.3 Consensus size: 15
79087866 ACAAACCTTA
79087876 TATGTGCGAACCC-G
1 TATGTGCGAACCCTG
79087890 TA-GATGCGAACCCTG
1 TATG-TGCGAACCCTG
* *
79087905 TATGTGTGAACCCTT
1 TATGTGCGAACCCTG
* *
79087920 TATATGCGAACCCTA
1 TATGTGCGAACCCTG
79087935 TATG
1 TATG
79087939 CGTGAGCAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
13 1 0.03
14 11 0.28
15 27 0.68
16 1 0.03
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (15 bp):
TATGTGCGAACCCTG
Found at i:79087929 original size:30 final size:29
Alignment explanation
Indices: 79087869--79087943 Score: 87
Period size: 30 Copynumber: 2.6 Consensus size: 29
79087859 TAGATACACA
* *
79087869 AACCTTATATGTGCGAACCCGTAGATGCG
1 AACCCTATATGTGTGAACCCGTAGATGCG
* * *
79087898 AACCCTGTATGTGTGAACCCTTTATATGCG
1 AACCCTATATGTGTGAACCC-GTAGATGCG
*
79087928 AACCCTATATGCGTGA
1 AACCCTATATGTGTGA
79087944 GCAGATCCTA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 17 0.45
30 21 0.55
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (29 bp):
AACCCTATATGTGTGAACCCGTAGATGCG
Found at i:79105537 original size:36 final size:37
Alignment explanation
Indices: 79105484--79105554 Score: 108
Period size: 36 Copynumber: 1.9 Consensus size: 37
79105474 TGCTCTACAT
*
79105484 AAAACTATGATCATATATTTTGTTCTCTGAAAGAATTC
1 AAAACTAT-ATCATATATTTTGTTCTATGAAAGAATTC
*
79105522 AAAACTAT-TCATATATTTTGTTCTATGTAAGAA
1 AAAACTATATCATATATTTTGTTCTATGAAAGAA
79105555 GGCAATCAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 23 0.74
38 8 0.26
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (37 bp):
AAAACTATATCATATATTTTGTTCTATGAAAGAATTC
Found at i:79107750 original size:16 final size:16
Alignment explanation
Indices: 79107715--79107769 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
79107705 GTTTGGTTCA
* **
79107715 CTGTAATGGGATAAGG
1 CTGTAATGGAATAAAT
*
79107731 CTGTAATTGAATAGAA-
1 CTGTAATGGAATA-AAT
79107747 CTGTAATGGAATAAAT
1 CTGTAATGGAATAAAT
79107763 CTGTAAT
1 CTGTAAT
79107770 CAGTAATTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 2 0.06
16 30 0.91
17 1 0.03
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (16 bp):
CTGTAATGGAATAAAT
Found at i:79107952 original size:25 final size:26
Alignment explanation
Indices: 79107924--79107974 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
79107914 ATAATTATTG
*
79107924 TTATTGTT-ATTAAATTTTAATAAAA
1 TTATTGTTAAATAAATTTTAATAAAA
*
79107949 TTATTGTTAAATATATTTTAATAAAA
1 TTATTGTTAAATAAATTTTAATAAAA
79107975 ATAAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (26 bp):
TTATTGTTAAATAAATTTTAATAAAA
Found at i:79108101 original size:58 final size:58
Alignment explanation
Indices: 79107935--79108113 Score: 152
Period size: 58 Copynumber: 3.1 Consensus size: 58
79107925 TATTGTTATT
* * * * * * * *
79107935 AAATTTTAATAAAATTATTGTTAAATATATTTTAATAAAAATAAAAATAAATAATTTAATC
1 AAATTTTAATATAATCATTATTAAATACAATTT-A-AAAAAT-ATAATATATAATTTAATA
* *
79107996 ATATTTTAATATAATTATTATTAAATACAATTTAATAAAATAT--TATATAATTTAATA
1 AAATTTTAATATAATCATTATTAAATACAATTTAA-AAAATATAATATATAATTTAATA
* *
79108053 AAATTCTTAATATAATCATTATTATAT-GAA-TTAAAAAATCATAATATATAATATT-ATA
1 AAATT-TTAATATAATCATTATTAAATACAATTTAAAAAAT-ATAATATATAAT-TTAATA
79108111 AAA
1 AAA
79108114 ATAATATATA
Statistics
Matches: 100, Mismatches: 12, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
55 5 0.05
56 6 0.06
57 18 0.18
58 33 0.33
59 4 0.04
60 6 0.06
61 28 0.28
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (58 bp):
AAATTTTAATATAATCATTATTAAATACAATTTAAAAAATATAATATATAATTTAATA
Found at i:79108108 original size:23 final size:21
Alignment explanation
Indices: 79108082--79108125 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
79108072 TATTATATGA
79108082 ATTAAAAAATCATAATATATAAT
1 ATTAAAAAA--ATAATATATAAT
*
79108105 ATTATAAAAATAATATATAAT
1 ATTAAAAAAATAATATATAAT
79108126 CTACTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 12 0.60
23 8 0.40
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
ATTAAAAAAATAATATATAAT
Found at i:79110530 original size:22 final size:23
Alignment explanation
Indices: 79110503--79110545 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
79110493 AGCTGGTCAT
79110503 AAAACAA-CCAAAACCCAAATAA
1 AAAACAATCCAAAACCCAAATAA
* *
79110525 AAAACAATCCGAACCCCAAAT
1 AAAACAATCCAAAACCCAAAT
79110546 TGGCAAAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.60, C:0.30, G:0.02, T:0.07
Consensus pattern (23 bp):
AAAACAATCCAAAACCCAAATAA
Found at i:79118125 original size:16 final size:17
Alignment explanation
Indices: 79118091--79118130 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
79118081 ACTTAGCATG
*
79118091 TCTAATAACCATTATAA
1 TCTAATAACCATTACAA
79118108 TCTAATAA-CATTACAA
1 TCTAATAACCATTACAA
*
79118124 TCCAATA
1 TCTAATA
79118131 CAACTAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (17 bp):
TCTAATAACCATTACAA
Found at i:79118706 original size:22 final size:22
Alignment explanation
Indices: 79118657--79118720 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 22
79118647 AAAAGTCAAA
**
79118657 TTACAGGGAGAAGAAAATTTGAC
1 TTACAGGGAGAA-AAAATTAAAC
79118680 TTACAGGGAGGAAAAAATTAAAC
1 TTACAGGGA-GAAAAAATTAAAC
* *
79118703 -TACATGGACAAAAAATTA
1 TTACAGGGAGAAAAAATTA
79118721 GAATTATAGG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.25
22 7 0.19
23 17 0.47
24 3 0.08
ACGTcount: A:0.50, C:0.09, G:0.20, T:0.20
Consensus pattern (22 bp):
TTACAGGGAGAAAAAATTAAAC
Found at i:79118717 original size:21 final size:21
Alignment explanation
Indices: 79118691--79118761 Score: 88
Period size: 22 Copynumber: 3.3 Consensus size: 21
79118681 TACAGGGAGG
* *
79118691 AAAAAATTAAACTACATGGAC
1 AAAAAATTAAATTATATGGAC
*
79118712 AAAAAATTAGAATTATAGGGACC
1 AAAAAATTA-AATTATATGGA-C
*
79118735 AAAAATTTAAATTATATGGAC
1 AAAAAATTAAATTATATGGAC
79118756 AAAAAA
1 AAAAAA
79118762 AAGACGAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
21 15 0.36
22 18 0.43
23 9 0.21
ACGTcount: A:0.58, C:0.08, G:0.11, T:0.23
Consensus pattern (21 bp):
AAAAAATTAAATTATATGGAC
Found at i:79118719 original size:44 final size:44
Alignment explanation
Indices: 79118670--79118761 Score: 112
Period size: 44 Copynumber: 2.1 Consensus size: 44
79118660 CAGGGAGAAG
* * **
79118670 AAAATTTGACTTACAGGGAGGAAAAAATTAAACTACATGGACAA
1 AAAATTAGAATTACAGGGACCAAAAAATTAAACTACATGGACAA
* * * *
79118714 AAAATTAGAATTATAGGGACCAAAAATTTAAATTATATGGACAA
1 AAAATTAGAATTACAGGGACCAAAAAATTAAACTACATGGACAA
79118758 AAAA
1 AAAA
79118762 AAGACGAAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.53, C:0.09, G:0.15, T:0.23
Consensus pattern (44 bp):
AAAATTAGAATTACAGGGACCAAAAAATTAAACTACATGGACAA
Found at i:79118733 original size:22 final size:22
Alignment explanation
Indices: 79118655--79118761 Score: 83
Period size: 22 Copynumber: 4.8 Consensus size: 22
79118645 AAAAAAGTCA
* *
79118655 AATTACAGGGAGAAGAAAATTTG
1 AATTACAGGGACAA-AAAATTAG
* *
79118678 ACTTACAGGGAGGAAAAAATTA-
1 AATTACAGGGA-CAAAAAATTAG
* *
79118700 AACTACATGGACAAAAAATTAG
1 AATTACAGGGACAAAAAATTAG
* *
79118722 AATTATAGGGACCAAAAATTTA-
1 AATTACAGGGA-CAAAAAATTAG
* *
79118744 AATTATATGGACAAAAAA
1 AATTACAGGGACAAAAAA
79118762 AAGACGAAAT
Statistics
Matches: 69, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
21 15 0.22
22 26 0.38
23 25 0.36
24 3 0.04
ACGTcount: A:0.52, C:0.08, G:0.18, T:0.21
Consensus pattern (22 bp):
AATTACAGGGACAAAAAATTAG
Found at i:79134036 original size:24 final size:25
Alignment explanation
Indices: 79133980--79134038 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
79133970 AACTCTTTTC
*
79133980 ATTTATTTTAAATTATTCTACTATT
1 ATTTATTTTAAATTATTCTACTAAT
*
79134005 ATTTATTTTAATATTCTT-TA-TAAT
1 ATTTATTTTAA-ATTATTCTACTAAT
79134029 ATTTATTTTA
1 ATTTATTTTA
79134039 CACTTTTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 13 0.42
25 13 0.42
26 5 0.16
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (25 bp):
ATTTATTTTAAATTATTCTACTAAT
Found at i:79141500 original size:17 final size:17
Alignment explanation
Indices: 79141478--79141510 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
79141468 GGTGATCTCT
79141478 TAGTCTTAATAAGCTCG
1 TAGTCTTAATAAGCTCG
79141495 TAGTCTTAATAAGCTC
1 TAGTCTTAATAAGCTC
79141511 ACAATTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.36
Consensus pattern (17 bp):
TAGTCTTAATAAGCTCG
Found at i:79144196 original size:17 final size:18
Alignment explanation
Indices: 79144165--79144207 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
79144155 AAAAAATATG
79144165 ATAATTATAAATTTAACA
1 ATAATTATAAATTTAACA
*
79144183 ATAATTAT-AATTTAATA
1 ATAATTATAAATTTAACA
*
79144200 AAAATTAT
1 ATAATTAT
79144208 GATAATTGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAATTATAAATTTAACA
Found at i:79144209 original size:44 final size:44
Alignment explanation
Indices: 79144155--79144238 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 44
79144145 ATTATACATA
* * *
79144155 AAAAAATATGATAATTATAAATTTAACAATAATTATAATTTAAT
1 AAAAAATATGATAATTACAAATTTAAAAATAATTAAAATTTAAT
* * *
79144199 AAAAATTATGATAATTGCACATTTAAAAATAATTAAAATT
1 AAAAAATATGATAATTACAAATTTAAAAATAATTAAAATT
79144239 AAAATTACTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (44 bp):
AAAAAATATGATAATTACAAATTTAAAAATAATTAAAATTTAAT
Found at i:79148737 original size:6 final size:6
Alignment explanation
Indices: 79148717--79148748 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
79148707 TTAAAAATTG
79148717 ATTTTA ATATTTA ATTTTA ATTTTA ATTTTA A
1 ATTTTA AT-TTTA ATTTTA ATTTTA ATTTTA A
79148749 ATAACTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
ATTTTA
Found at i:79154390 original size:18 final size:18
Alignment explanation
Indices: 79154349--79154391 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
79154339 TATAATTGAT
***
79154349 GTGGAGGATATATTTGAG
1 GTGGAGGATATATGAAAG
*
79154367 GAGGAGGATATATGAAAG
1 GTGGAGGATATATGAAAG
79154385 GTGGAGG
1 GTGGAGG
79154392 TGGGTGATAC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.44, T:0.23
Consensus pattern (18 bp):
GTGGAGGATATATGAAAG
Found at i:79158405 original size:21 final size:21
Alignment explanation
Indices: 79158380--79158462 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
79158370 TGATCAGTAT
*
79158380 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * *
79158401 ACGACACACGAGGTGCCTGAT
1 ACGACACACAAAGTGCCTAAA
* * *
79158422 ATGACACACGAGGTGCCTGAAA
1 ACGACACACAAAGTGCCT-AAA
*
79158444 TACGACACATAAAGTGCCT
1 -ACGACACACAAAGTGCCT
79158463 GATCAGTAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
21 33 0.69
22 1 0.02
23 14 0.29
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:79159985 original size:22 final size:23
Alignment explanation
Indices: 79159947--79159993 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
79159937 TGCTCGAATG
79159947 CTTTCTGTTCTCTTTTCTCTATT
1 CTTTCTGTTCTCTTTTCTCTATT
* *
79159970 CTTTTTGTT-TCTTTTCTTTATT
1 CTTTCTGTTCTCTTTTCTCTATT
79159992 CT
1 CT
79159994 GTTTCTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.04, C:0.21, G:0.04, T:0.70
Consensus pattern (23 bp):
CTTTCTGTTCTCTTTTCTCTATT
Found at i:79159993 original size:29 final size:28
Alignment explanation
Indices: 79159948--79160002 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
79159938 GCTCGAATGC
79159948 TTTCTGTTCTCTTTTCTCTATTCTTTTTG
1 TTTCTGTTCTCTTTTCTCT-TTCTTTTTG
* *
79159977 TTTCTTTTCT-TTATTCTGTTTCTTTT
1 TTTCTGTTCTCTT-TTCTCTTTCTTTT
79160003 ATTCACTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 9 0.39
29 14 0.61
ACGTcount: A:0.04, C:0.18, G:0.05, T:0.73
Consensus pattern (28 bp):
TTTCTGTTCTCTTTTCTCTTTCTTTTTG
Found at i:79160005 original size:14 final size:12
Alignment explanation
Indices: 79159957--79160006 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
79159947 CTTTCTGTTC
*
79159957 TCTTTTCTCTAT
1 TCTTTTCTTTAT
*
79159969 TCTTTT-TGT-T
1 TCTTTTCTTTAT
79159979 TCTTTTCTTTAT
1 TCTTTTCTTTAT
79159991 TCTGTTTCTTTTAT
1 TCT-TTTC-TTTAT
79160005 TC
1 TC
79160007 ACTTTAGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 7 0.22
11 4 0.12
12 10 0.31
13 4 0.12
14 7 0.22
ACGTcount: A:0.06, C:0.18, G:0.04, T:0.72
Consensus pattern (12 bp):
TCTTTTCTTTAT
Found at i:79166316 original size:23 final size:23
Alignment explanation
Indices: 79166234--79166320 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
79166224 CCTGATTAGT
*
79166234 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
79166256 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
79166276 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
79166299 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
79166321 TCAGTAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:79167802 original size:22 final size:23
Alignment explanation
Indices: 79167769--79167813 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
79167759 GCTCGAATAC
79167769 TTTTGTTCTCTTTTCTCTATTCT
1 TTTTGTTCTCTTTTCTCTATTCT
*
79167792 TTTTGTT-TCTTTTCTTTATTCT
1 TTTTGTTCTCTTTTCTCTATTCT
79167814 GTTTCTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.04, C:0.18, G:0.04, T:0.73
Consensus pattern (23 bp):
TTTTGTTCTCTTTTCTCTATTCT
Found at i:79167825 original size:14 final size:12
Alignment explanation
Indices: 79167777--79167826 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
79167767 ACTTTTGTTC
*
79167777 TCTTTTCTCTAT
1 TCTTTTCTTTAT
*
79167789 TCTTTT-TGT-T
1 TCTTTTCTTTAT
79167799 TCTTTTCTTTAT
1 TCTTTTCTTTAT
79167811 TCTGTTTCTTTTAT
1 TCT-TTTC-TTTAT
79167825 TC
1 TC
79167827 ACTTTAGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 7 0.22
11 4 0.12
12 10 0.31
13 4 0.12
14 7 0.22
ACGTcount: A:0.06, C:0.18, G:0.04, T:0.72
Consensus pattern (12 bp):
TCTTTTCTTTAT
Found at i:79177261 original size:18 final size:18
Alignment explanation
Indices: 79177240--79177284 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
79177230 ACTCCTCTTA
79177240 AGCCTGAGCATCCTCAGC
1 AGCCTGAGCATCCTCAGC
79177258 AGCCTGAGCATCCTCAGC
1 AGCCTGAGCATCCTCAGC
79177276 AGCCTGAGC
1 AGCCTGAGC
79177285 TTGATTTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.22, C:0.38, G:0.24, T:0.16
Consensus pattern (18 bp):
AGCCTGAGCATCCTCAGC
Found at i:79177267 original size:9 final size:9
Alignment explanation
Indices: 79177240--79177284 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
79177230 ACTCCTCTTA
79177240 AGCCTGAGC
1 AGCCTGAGC
* *
79177249 ATCCTCAGC
1 AGCCTGAGC
79177258 AGCCTGAGC
1 AGCCTGAGC
* *
79177267 ATCCTCAGC
1 AGCCTGAGC
79177276 AGCCTGAGC
1 AGCCTGAGC
79177285 TTGATTTTGT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.22, C:0.38, G:0.24, T:0.16
Consensus pattern (9 bp):
AGCCTGAGC
Found at i:79186378 original size:50 final size:50
Alignment explanation
Indices: 79186324--79186418 Score: 145
Period size: 50 Copynumber: 1.9 Consensus size: 50
79186314 TCTTAAATAT
*
79186324 AAAGTTAGTGAATTACACAGCCTAGACACATGCCCGTGTGACTCAATTCC
1 AAAGTCAGTGAATTACACAGCCTAGACACATGCCCGTGTGACTCAATTCC
* * * *
79186374 AAAGTCAGTGAGTTACACAGCCTGGACACATGCCTGTGTGTCTCA
1 AAAGTCAGTGAATTACACAGCCTAGACACATGCCCGTGTGACTCA
79186419 CTCGTGTGAC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (50 bp):
AAAGTCAGTGAATTACACAGCCTAGACACATGCCCGTGTGACTCAATTCC
Found at i:79186744 original size:30 final size:30
Alignment explanation
Indices: 79186709--79186766 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
79186699 AAGACAGATT
* *
79186709 CCACACGGG-TGGAGCACACGCCCGTGTGAG
1 CCACACGGGCTGG-CCACACGCCCATGTGAG
79186739 CCACACGGGCTGGCCACACGCCCATGTG
1 CCACACGGGCTGGCCACACGCCCATGTG
79186767 GCAGCCCGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.19, C:0.38, G:0.33, T:0.10
Consensus pattern (30 bp):
CCACACGGGCTGGCCACACGCCCATGTGAG
Found at i:79191600 original size:6 final size:6
Alignment explanation
Indices: 79191586--79191649 Score: 94
Period size: 6 Copynumber: 10.7 Consensus size: 6
79191576 TTGAGGCAAG
*
79191586 TTATTT TTATGT TTATTT TTATTT TTATTT TTATATT TTA-TT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTAT-TT TTATTT TTATTT
*
79191634 TTATTT TTCTTT TTAT
1 TTATTT TTATTT TTAT
79191650 ATCATTTTGT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
5 5 0.10
6 42 0.81
7 5 0.10
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:79191618 original size:24 final size:24
Alignment explanation
Indices: 79191586--79191671 Score: 88
Period size: 24 Copynumber: 3.7 Consensus size: 24
79191576 TTGAGGCAAG
*
79191586 TTATTTTTAT-GTTTATTTTTATTT
1 TTATTTTTATATTTTA-TTTTATTT
79191610 TTATTTTTATATTTTATTTTATTT
1 TTATTTTTATATTTTATTTTATTT
* * *
79191634 TTATTTTTCT-TTTTATATCA-TT
1 TTATTTTTATATTTTATTTTATTT
* *
79191656 TTGTCTTTATATTTTA
1 TTATTTTTATATTTTA
79191672 AACTTTATTT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
22 9 0.17
23 13 0.25
24 27 0.51
25 4 0.08
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.76
Consensus pattern (24 bp):
TTATTTTTATATTTTATTTTATTT
Found at i:79191669 original size:30 final size:29
Alignment explanation
Indices: 79191597--79191671 Score: 89
Period size: 30 Copynumber: 2.6 Consensus size: 29
79191587 TATTTTTATG
*
79191597 TTTATTTTTATTTTTATTTTTATATTTTAT
1 TTTATTTTTATTTTTATTTTTATA-TTCAT
*
79191627 TTTATTTTTATTTTTCTTTTTATA-TCAT
1 TTTATTTTTATTTTTATTTTTATATTCAT
* *
79191655 TTTGTCTTTATATTTTA
1 TTTATTTTTAT-TTTTA
79191672 AACTTTATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
28 12 0.31
29 4 0.10
30 23 0.59
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (29 bp):
TTTATTTTTATTTTTATTTTTATATTCAT
Found at i:79196739 original size:20 final size:20
Alignment explanation
Indices: 79196714--79196784 Score: 133
Period size: 20 Copynumber: 3.5 Consensus size: 20
79196704 GTATGTGTCT
79196714 CCTCCACACGGGCGTGTAGG
1 CCTCCACACGGGCGTGTAGG
79196734 CCTCCACACGGGCGTGTAGG
1 CCTCCACACGGGCGTGTAGG
*
79196754 CCTCCACACGGGCGTGTAGA
1 CCTCCACACGGGCGTGTAGG
79196774 CCTCCACACGG
1 CCTCCACACGG
79196785 CCTAGACCTT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.17, C:0.38, G:0.31, T:0.14
Consensus pattern (20 bp):
CCTCCACACGGGCGTGTAGG
Found at i:79198782 original size:60 final size:60
Alignment explanation
Indices: 79198705--79198869 Score: 154
Period size: 60 Copynumber: 2.7 Consensus size: 60
79198695 ATATTTTTAA
* * * **
79198705 TTTTAGAGTTAGGACTAAATTGATAGATTTTATAAATATTGATG-CCCAATTTATTGATTT
1 TTTTAGAATTAGAACTAAATTGATAGATTTTATAAATATTGAGGACAAAATTTATTG-TTT
* * * * *
79198765 TTTTAGAATTAGAACTAAAATGACAAATTTTACAAATATTGAGGACAAAATTTGTTGTTT
1 TTTTAGAATTAGAACTAAATTGATAGATTTTATAAATATTGAGGACAAAATTTATTGTTT
* * * * *
79198825 TTTTATATTTAAGATC-AAATTGATAGAATTTATAAACATTAGAGG
1 TTTTAGAATT-AGAACTAAATTGATAGATTTTATAAATATT-GAGG
79198870 GCTAATTTTT
Statistics
Matches: 83, Mismatches: 19, Indels: 5
0.78 0.18 0.05
Matches are distributed among these distances:
60 66 0.80
61 17 0.20
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.41
Consensus pattern (60 bp):
TTTTAGAATTAGAACTAAATTGATAGATTTTATAAATATTGAGGACAAAATTTATTGTTT
Found at i:79202582 original size:30 final size:30
Alignment explanation
Indices: 79202547--79202604 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
79202537 TAGGCACTTC
* *
79202547 CACACGGGT-GATCCACACGCCTGTGTGTGA
1 CACACGGGTAGA-CCACACACCCGTGTGTGA
79202577 CACACGGGTAGACCACACACCCGTGTGT
1 CACACGGGTAGACCACACACCCGTGTGT
79202605 CATGGCTGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.22, C:0.33, G:0.28, T:0.17
Consensus pattern (30 bp):
CACACGGGTAGACCACACACCCGTGTGTGA
Found at i:79209166 original size:3 final size:3
Alignment explanation
Indices: 79209160--79209197 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
79209150 ATAATAATAA
79209160 TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
79209198 AAGATAGATA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:79211511 original size:28 final size:28
Alignment explanation
Indices: 79211468--79211521 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
79211458 GAATAAGTTT
*
79211468 ACTTGTTTAGTAGTAAGGCTTTAGCTAA
1 ACTTGCTTAGTAGTAAGGCTTTAGCTAA
*
79211496 ACTTGCTTAGTTGTAAGGCTTTAGCT
1 ACTTGCTTAGTAGTAAGGCTTTAGCT
79211522 TACCCTTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.24, C:0.13, G:0.22, T:0.41
Consensus pattern (28 bp):
ACTTGCTTAGTAGTAAGGCTTTAGCTAA
Found at i:79211730 original size:2 final size:2
Alignment explanation
Indices: 79211725--79211756 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
79211715 CTCCACCCCC
79211725 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
79211757 TTCTTTTCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:79214713 original size:11 final size:11
Alignment explanation
Indices: 79214697--79214724 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
79214687 CTGTAAATAT
79214697 TATTTATAGAA
1 TATTTATAGAA
79214708 TATTTATAGAA
1 TATTTATAGAA
79214719 TATTTA
1 TATTTA
79214725 CAGAGTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (11 bp):
TATTTATAGAA
Found at i:79227640 original size:17 final size:17
Alignment explanation
Indices: 79227610--79227644 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
79227600 GTATGTGATA
* *
79227610 AATTTTATTGTAAATGT
1 AATTTCATTATAAATGT
79227627 AATTTCATTATAAATGT
1 AATTTCATTATAAATGT
79227644 A
1 A
79227645 CTTTAGATGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.49
Consensus pattern (17 bp):
AATTTCATTATAAATGT
Found at i:79229572 original size:37 final size:37
Alignment explanation
Indices: 79229522--79229600 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
79229512 TTATTACGAA
* * *
79229522 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
79229559 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
79229596 GTCTT
1 GTCTT
79229601 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:79229797 original size:47 final size:47
Alignment explanation
Indices: 79229719--79230208 Score: 764
Period size: 47 Copynumber: 10.3 Consensus size: 47
79229709 CCCTTCGGGA
* * * * * *
79229719 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
79229766 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
79229813 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
79229860 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGC-------CATTAGGC
*
79229914 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
79229961 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
79230008 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATCAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
79230055 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATCAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
79230102 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATCAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
79230149 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATCAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
79230196 CTTATCTCATATA
1 CTTATCACATATA
79230209 GAATCCTAAA
Statistics
Matches: 420, Mismatches: 16, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
47 373 0.89
54 47 0.11
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:79233635 original size:214 final size:214
Alignment explanation
Indices: 79233260--79233682 Score: 679
Period size: 214 Copynumber: 2.0 Consensus size: 214
79233250 GACATATTGT
79233260 GGTATTTATATGTTGTATTGATTGATGTTGGAAATGGTAAGAAATATGCTTGAGTGAAGTTGTTT
1 GGTATTTATATGTTGTATTGATTGATGTTGGAAATGGTAAGAAATATGCTTGAGTGAAGTTGTTT
* * *
79233325 AAAGGCCTATGATATGCTATGTTTGGTTCCAATTGGTTTGATGTAGGTGTGCACAAGATTGGGTG
66 AAAGGCCTATGATATGCTACGTTTGGTGCCAATTGGTTTGATGTAGGTGTGCAAAAGATTGGGTG
* * *
79233390 GAAGATAGCTTGGTAAATAGCCTATTTTTGTCCACATAGGCATAGACACGGGTC-TGTGTCTCAG
131 CAAGATAGCTTGGTAAATAGCCTATTTTTGTCCACACAGGCAGAGACACGGG-CATGTGTCTCAG
*
79233454 CCGTGTGCGACACACAGCCA
195 CCGTGTGCAACACACAGCCA
* * * *
79233474 GGTATTTATGTGTTGTATTGGTTGATGTTGGAAATGGTATGAAATATGCTTGAGTGGAGTTGTTT
1 GGTATTTATATGTTGTATTGATTGATGTTGGAAATGGTAAGAAATATGCTTGAGTGAAGTTGTTT
* *
79233539 GAAGGCCTATGATATGCTACGTTTGGTGCCAATTGGTTTGATGTAGGTTTGCAAAAGATTGGGTC
66 AAAGGCCTATGATATGCTACGTTTGGTGCCAATTGGTTTGATGTAGGTGTGCAAAAGATTGGGT-
*
79233604 GCAAGATGGCTTGGTAAATAGCCTA-TTTTGTCCACACAGGCAGAGACACGGGCATGTGTCTCAG
130 GCAAGATAGCTTGGTAAATAGCCTATTTTTGTCCACACAGGCAGAGACACGGGCATGTGTCTCAG
*
79233668 TCGTGTGCAACACAC
195 CCGTGTGCAACACAC
79233683 GGTCAGGGTA
Statistics
Matches: 192, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
213 1 0.01
214 168 0.88
215 23 0.12
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.33
Consensus pattern (214 bp):
GGTATTTATATGTTGTATTGATTGATGTTGGAAATGGTAAGAAATATGCTTGAGTGAAGTTGTTT
AAAGGCCTATGATATGCTACGTTTGGTGCCAATTGGTTTGATGTAGGTGTGCAAAAGATTGGGTG
CAAGATAGCTTGGTAAATAGCCTATTTTTGTCCACACAGGCAGAGACACGGGCATGTGTCTCAGC
CGTGTGCAACACACAGCCA
Found at i:79238732 original size:37 final size:37
Alignment explanation
Indices: 79238678--79238765 Score: 133
Period size: 37 Copynumber: 2.4 Consensus size: 37
79238668 TTAGTGCCGA
*
79238678 GGCATGTTATCGATTGGATTAGCTCTCATGAGCATTT
1 GGCATGTTATCGATTGGATTAGCTCTAATGAGCATTT
* *
79238715 GGCATGTTATTGGTTGGATTAGCTCTAATGAGCATTT
1 GGCATGTTATCGATTGGATTAGCTCTAATGAGCATTT
*
79238752 GGCGTGTT-TCGATT
1 GGCATGTTATCGATT
79238766 AGACTACTTG
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
36 4 0.09
37 41 0.91
ACGTcount: A:0.19, C:0.14, G:0.27, T:0.40
Consensus pattern (37 bp):
GGCATGTTATCGATTGGATTAGCTCTAATGAGCATTT
Found at i:79241532 original size:11 final size:10
Alignment explanation
Indices: 79241500--79241549 Score: 64
Period size: 10 Copynumber: 4.8 Consensus size: 10
79241490 TAACATGTTG
79241500 AATTTTAATT
1 AATTTTAATT
79241510 AATTTTATATT
1 AATTTTA-ATT
79241521 AAATTTTAATT
1 -AATTTTAATT
*
79241532 AATTTTGATT
1 AATTTTAATT
*
79241542 ATTTTTAA
1 AATTTTAA
79241550 CAGATTTGCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 22 0.63
11 6 0.17
12 7 0.20
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (10 bp):
AATTTTAATT
Found at i:79243327 original size:58 final size:58
Alignment explanation
Indices: 79243243--79243360 Score: 200
Period size: 58 Copynumber: 2.0 Consensus size: 58
79243233 AATAGGGTTA
* * *
79243243 CTAGGTTTTATCAGATTAGGATGAAACCTAATATGGGAGTCAATAGAGTGATTTACTG
1 CTAGATTTTACCAAATTAGGATGAAACCTAATATGGGAGTCAATAGAGTGATTTACTG
*
79243301 CTAGATTTTACCAAATTAGGGTGAAACCTAATATGGGAGTCAATAGAGTGATTTACTG
1 CTAGATTTTACCAAATTAGGATGAAACCTAATATGGGAGTCAATAGAGTGATTTACTG
79243359 CT
1 CT
79243361 TCCCTAGGGG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (58 bp):
CTAGATTTTACCAAATTAGGATGAAACCTAATATGGGAGTCAATAGAGTGATTTACTG
Found at i:79243618 original size:13 final size:13
Alignment explanation
Indices: 79243602--79243634 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
79243592 TTTAATTAAA
*
79243602 TTAGCTAATTAGT
1 TTAGATAATTAGT
79243615 TTAGATAATTAGT
1 TTAGATAATTAGT
79243628 TTA-ATAA
1 TTAGATAA
79243635 ACAATCCCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.03, G:0.12, T:0.45
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:79249398 original size:6 final size:6
Alignment explanation
Indices: 79249387--79249459 Score: 82
Period size: 6 Copynumber: 12.3 Consensus size: 6
79249377 CAACCCAATC
*
79249387 TTTATT TTTATT TTTATT TTTATT TTT-TT TTT-CT TTTATT ATTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT -TTTATT
79249434 ATTT-TCT TTTATT TTTA-T TTTATT TT
1 -TTTAT-T TTTATT TTTATT TTTATT TT
79249460 AGTTAAATAT
Statistics
Matches: 60, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
5 14 0.23
6 34 0.57
7 12 0.20
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTATT
Found at i:79249443 original size:26 final size:25
Alignment explanation
Indices: 79249400--79249452 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
79249390 ATTTTTATTT
*
79249400 TTATTTTTATTTT-TTTTTTCTTTTA
1 TTATTTTTATTTTCTTTTAT-TTTTA
79249425 TTATTTATTATTTTCTTTTATTTTTA
1 TTATTT-TTATTTTCTTTTATTTTTA
79249451 TT
1 TT
79249453 TTATTTTAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 6 0.24
26 14 0.56
27 5 0.20
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (25 bp):
TTATTTTTATTTTCTTTTATTTTTA
Found at i:79261738 original size:23 final size:22
Alignment explanation
Indices: 79261676--79261740 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 22
79261666 TAATAGCAGC
*
79261676 AGAACAAAACAAAAAGAAAGAAA
1 AGAAAAAAAC-AAAAGAAAGAAA
**
79261699 A-AAGAAATTCAAGAAGAAAGGAAA
1 AGAA-AAAAACAA-AAGAAA-GAAA
79261723 AGAAAAAAACAAAAGAAA
1 AGAAAAAAACAAAAGAAA
79261741 CGTGAAATAG
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
22 4 0.12
23 16 0.48
24 11 0.33
25 2 0.06
ACGTcount: A:0.75, C:0.06, G:0.15, T:0.03
Consensus pattern (22 bp):
AGAAAAAAACAAAAGAAAGAAA
Done.