Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 186 of 259
Found at i:59960291 original size:26 final size:26
Alignment explanation
Indices: 59960262--59960369 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
59960252 TGATTCAAAT
*
59960262 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
59960288 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
59960314 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
59960340 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
59960366 TGAT
1 TGAT
59960370 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:59963094 original size:22 final size:22
Alignment explanation
Indices: 59963069--59963110 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
59963059 ATATAAGTAC
*
59963069 AATAACAATAATGGTAATAAAA
1 AATAAAAATAATGGTAATAAAA
*
59963091 AATAAAAATAATTGTAATAA
1 AATAAAAATAATGGTAATAA
59963111 TAATAGGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.26
Consensus pattern (22 bp):
AATAAAAATAATGGTAATAAAA
Found at i:59963756 original size:21 final size:21
Alignment explanation
Indices: 59963730--59963776 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
59963720 AAGATAGATT
*
59963730 AAAAAATAG-AGAA-AAAAGA
1 AAAAAAAAGAAGAAGAAAAGA
59963749 AAAAAAAAGAAGAAGAAAAGA
1 AAAAAAAAGAAGAAGAAAAGA
59963770 AAAAAAA
1 AAAAAAA
59963777 CCTTAGCCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 8 0.32
20 4 0.16
21 13 0.52
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (21 bp):
AAAAAAAAGAAGAAGAAAAGA
Found at i:59964060 original size:38 final size:35
Alignment explanation
Indices: 59964009--59964089 Score: 126
Period size: 38 Copynumber: 2.2 Consensus size: 35
59963999 GCATAGTGGT
59964009 GTAGGTGGCCAAGGTGGGTGGCCAACAAAGATGGTAGA
1 GTAGGTGGCCAAGGTGGGTGGCCAAC-AAG--GGTAGA
*
59964047 GTAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGA
1 GTAGGTGGCCAAGGTGGGTGGCCAACAAGGGTAGA
59964082 GTAGGTGG
1 GTAGGTGG
59964090 GATTAGGGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
35 13 0.31
37 3 0.07
38 26 0.62
ACGTcount: A:0.25, C:0.12, G:0.47, T:0.16
Consensus pattern (35 bp):
GTAGGTGGCCAAGGTGGGTGGCCAACAAGGGTAGA
Found at i:59964142 original size:12 final size:12
Alignment explanation
Indices: 59964125--59964149 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59964115 TTGGGTTAGT
59964125 GTTTTGGGCTAA
1 GTTTTGGGCTAA
59964137 GTTTTGGGCTAA
1 GTTTTGGGCTAA
59964149 G
1 G
59964150 GGTTTTAGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.36, T:0.40
Consensus pattern (12 bp):
GTTTTGGGCTAA
Found at i:59965493 original size:21 final size:20
Alignment explanation
Indices: 59965420--59965491 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
59965410 CTCTAAAAGG
*
59965420 TTTTATGAACTTTTTTTAAAT
1 TTTTATGAA-TTTTTTAAAAT
*
59965441 TTTTTTG-ATTTTTTAAAAAT
1 TTTTATGAATTTTTT-AAAAT
* *
59965461 ATTTAT-TATTATTTTAAAAT
1 TTTTATGAATT-TTTTAAAAT
59965481 TTTTATGAATT
1 TTTTATGAATT
59965492 ATATGTGAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
19 6 0.15
20 22 0.54
21 13 0.32
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.62
Consensus pattern (20 bp):
TTTTATGAATTTTTTAAAAT
Found at i:59966102 original size:15 final size:15
Alignment explanation
Indices: 59966082--59966123 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
59966072 ATGATTCTAA
*
59966082 TGAAATGTGATTTTT
1 TGAAATGTGATTATT
*
59966097 TGAAATGTTATTATT
1 TGAAATGTGATTATT
*
59966112 AGAAATGTGATT
1 TGAAATGTGATT
59966124 GTCGGAAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (15 bp):
TGAAATGTGATTATT
Found at i:59968324 original size:10 final size:9
Alignment explanation
Indices: 59968298--59968328 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
59968288 TAGTGTGTTC
59968298 TTTATTTTA
1 TTTATTTTA
59968307 TTTATTTTA
1 TTTATTTTA
59968316 TTCTATTTTA
1 TT-TATTTTA
59968326 TTT
1 TTT
59968329 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTATTTTA
Found at i:59969060 original size:30 final size:30
Alignment explanation
Indices: 59969024--59969124 Score: 175
Period size: 30 Copynumber: 3.4 Consensus size: 30
59969014 ACTTTTCTCA
59969024 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
59969054 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
59969084 ACTAGCCACACCTTCTCCACCACCAAATCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
59969114 ACTAGCCACAC
1 ACTAGCCACAC
59969125 TTGCTCCATT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 67 1.00
ACGTcount: A:0.28, C:0.50, G:0.04, T:0.19
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:59969132 original size:30 final size:29
Alignment explanation
Indices: 59969024--59969170 Score: 170
Period size: 30 Copynumber: 4.9 Consensus size: 29
59969014 ACTTTTCTCA
*
59969024 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACA-CTTCTCCACCACCAACTCC
* *
59969054 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCAC-ACTTCTCCACCACCAACTCC
*
59969084 ACTAGCCACACCTTCTCCACCACCAAATCC
1 ACTAGCCACA-CTTCTCCACCACCAACTCC
** *
59969114 ACTAGCCACACTTGCTCCATTACCTACTCC
1 ACTAGCCACACTT-CTCCACCACCAACTCC
*
59969144 ACTAACCACACTTGCTCCACCA-CAACT
1 ACTAGCCACACTT-CTCCACCACCAACT
59969171 TGTACCTACA
Statistics
Matches: 102, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
29 7 0.07
30 95 0.93
ACGTcount: A:0.27, C:0.48, G:0.04, T:0.21
Consensus pattern (29 bp):
ACTAGCCACACTTCTCCACCACCAACTCC
Found at i:59969659 original size:23 final size:23
Alignment explanation
Indices: 59969622--59969749 Score: 77
Period size: 23 Copynumber: 5.5 Consensus size: 23
59969612 TCCTTTTTGT
59969622 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
59969645 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
59969667 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* * *
59969690 TATTACATATATATATT-ATAATA
1 TATTATATATAT-TCTTAATATTA
* *
59969713 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
59969738 TATTATTTATAT
1 TATTATATATAT
59969750 ATATATTTCT
Statistics
Matches: 80, Mismatches: 16, Indels: 16
0.71 0.14 0.14
Matches are distributed among these distances:
21 3 0.04
22 15 0.19
23 36 0.45
24 8 0.10
25 18 0.22
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:59969713 original size:21 final size:22
Alignment explanation
Indices: 59969689--59969737 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
59969679 TTTAAATTCT
59969689 ATATTACATATATATAT-TATA
1 ATATTACATATATATATCTATA
** * *
59969710 ATATTTTATGTATATATCTTTA
1 ATATTACATATATATATCTATA
59969732 ATATTA
1 ATATTA
59969738 TATTATTTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (22 bp):
ATATTACATATATATATCTATA
Found at i:59969724 original size:25 final size:26
Alignment explanation
Indices: 59969696--59969756 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
59969686 TCTATATTAC
*
59969696 ATATATATATT-ATAATATTTTATGT
1 ATATATATATTAATAATATATTATGT
* * *
59969721 ATATATCT-TTAATATTATATTATTT
1 ATATATATATTAATAATATATTATGT
59969746 ATATATATATT
1 ATATATATATT
59969757 TCTTTCTACA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 2 0.07
25 25 0.86
26 2 0.07
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (26 bp):
ATATATATATTAATAATATATTATGT
Found at i:59969802 original size:22 final size:24
Alignment explanation
Indices: 59969774--59969832 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
59969764 ACATGTTATC
59969774 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
59969796 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
59969821 TTATGTACATAT
1 TTATGTATATAT
59969833 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:59969822 original size:25 final size:25
Alignment explanation
Indices: 59969790--59969838 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
59969780 ATATATCTTA
**
59969790 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
59969815 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
59969839 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:59969995 original size:16 final size:15
Alignment explanation
Indices: 59969974--59970021 Score: 78
Period size: 16 Copynumber: 3.1 Consensus size: 15
59969964 TAATTATTAT
59969974 TATTTTAATATTTTGA
1 TATTTTAATATTTT-A
59969990 TATTTTAATATTTTA
1 TATTTTAATATTTTA
59970005 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
59970021 T
1 T
59970022 TATTCACATC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.26
16 23 0.74
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:59970009 original size:7 final size:8
Alignment explanation
Indices: 59969974--59970025 Score: 70
Period size: 8 Copynumber: 6.5 Consensus size: 8
59969964 TAATTATTAT
59969974 TATTTTAA
1 TATTTTAA
*
59969982 TATTTTGA
1 TATTTTAA
59969990 TATTTTAA
1 TATTTTAA
59969998 TATTTT-A
1 TATTTTAA
59970005 TATTTTATA
1 TATTTTA-A
*
59970014 TATTTTAT
1 TATTTTAA
59970022 TATT
1 TATT
59970026 CACATCATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.62
9 8 0.21
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (8 bp):
TATTTTAA
Found at i:59970025 original size:24 final size:24
Alignment explanation
Indices: 59969970--59970025 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
59969960 ATATTAATTA
59969970 TTATTATTTTAATATTTTGATATT
1 TTATTATTTTAATATTTTGATATT
* *
59969994 TTAATATTTT-ATATTTTATATATT
1 TTATTATTTTAATATTTT-GATATT
59970018 TTATTATT
1 TTATTATT
59970026 CACATCATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 7 0.25
24 21 0.75
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (24 bp):
TTATTATTTTAATATTTTGATATT
Found at i:59987218 original size:71 final size:70
Alignment explanation
Indices: 59987119--59987367 Score: 340
Period size: 70 Copynumber: 3.5 Consensus size: 70
59987109 CTTTTCAAGG
* * * *
59987119 AAAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTTAAGACACGTTGAGGTACTTTTAATTTT
1 AAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTTAGGACACGCTGAGGTA-TTTCAATTTC
*
59987183 TGTTTTC
64 TGTTGTC
* * *
59987190 AAAATCAACTCATATTGCTAGAAGTGAGTTGAGCCTCAGGACACGCTGAGATATTTCAATTTCTG
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGGACACGCTGAGGTATTTCAATTTCTG
59987255 TTGTC
66 TTGTC
*
59987260 AAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT-AGGACACGCTGAGGT-ATTTCAATTTC
59987324 TGCTTGTC
64 TG-TTGTC
* *
59987332 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
59987368 CGGCTCACAT
Statistics
Matches: 160, Mismatches: 13, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
69 2 0.01
70 59 0.37
71 58 0.36
72 39 0.24
73 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGGACACGCTGAGGTATTTCAATTTCTG
TTGTC
Found at i:59987287 original size:70 final size:70
Alignment explanation
Indices: 59987119--59987399 Score: 368
Period size: 71 Copynumber: 4.0 Consensus size: 70
59987109 CTTTTCAAGG
* * * * * *
59987119 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTAAGACACGTTGAGGTACTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-TTTCAATTTCT
*
59987184 GTTTTC
65 GTTGTC
* * *
59987190 AAAATCAACTCATATTGCTAGAAGTGAGTTGAGCCTCAGGACACGCTGAGATATTTCAATTTCTG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTCAATTTCTG
59987255 TTGTC
66 TTGTC
*
59987260 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTCAATTTCT
59987325 GCTTGTC
65 G-TTGTC
* * *
59987332 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTCTTTCAA-TT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTCAATTT
59987395 CTGTT
63 CTGTT
59987400 CTTCAATTTC
Statistics
Matches: 187, Mismatches: 18, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
70 62 0.33
71 63 0.34
72 45 0.24
73 6 0.03
74 11 0.06
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTCAATTTCTG
TTGTC
Found at i:59987606 original size:73 final size:72
Alignment explanation
Indices: 59987421--59987639 Score: 321
Period size: 73 Copynumber: 3.0 Consensus size: 72
59987411 GTTCGTAAAA
* * *
59987421 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-TTTTCAATTT
59987486 CTGTTTTC
65 CTGTTTTC
*
59987494 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTC
59987559 TGTTTGTC
66 TGTTT-TC
* * * * *
59987567 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTATTTTCAATT
59987632 TCTGTTTT
64 TCTGTTTT
59987640 TCAATTTCTG
Statistics
Matches: 133, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
72 14 0.11
73 92 0.69
74 1 0.01
75 26 0.20
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.33
Consensus pattern (72 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTC
TGTTTTC
Found at i:59987642 original size:14 final size:14
Alignment explanation
Indices: 59987623--59987652 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
59987613 TGCTGAGGTC
59987623 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
59987637 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
59987651 TT
1 TT
59987653 GTAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:59987660 original size:89 final size:89
Alignment explanation
Indices: 59987549--59987736 Score: 238
Period size: 94 Copynumber: 2.1 Consensus size: 89
59987539 GCTGAGGTAA
* * *
59987549 TTTCAATTTCTGTTTGT-CAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTC-GGCTCAC
1 TTTCAATTTCTGTTTGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---AC
* *
59987612 ATGCTGAGGT-CTTTTCAATTTCTGTT
63 ACGCTGAGGTACTTTTAAATTTCTGTT
59987638 TTTCAATTTCTGTTTGTAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
1 TTTCAATTTCTGTTTGT----AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
*
59987703 CACGCTGAGGTATTTTTAAATTTCTGTT
62 CACGCTGAGGTACTTTTAAATTTCTGTT
59987731 TTTCAA
1 TTTCAA
59987737 AATCAACTCA
Statistics
Matches: 86, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
89 17 0.20
92 11 0.13
93 20 0.23
94 36 0.42
95 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.38
Consensus pattern (89 bp):
TTTCAATTTCTGTTTGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTACTTTTAAATTTCTGTT
Found at i:59987696 original size:167 final size:164
Alignment explanation
Indices: 59987494--59987804 Score: 498
Period size: 167 Copynumber: 1.9 Consensus size: 164
59987484 TTCTGTTTTC
* *
59987494 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-ATTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTAAATTT
* * * *
59987558 CTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGTC
66 CTGTTTGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-ACACA--CTGAGGTA
*
59987623 TTTTCAATTTCTGTTTTTCAATTTCTGTTTGTAAAAAA
127 ATTTCAATTTCTGTTTTTCAATTTCTGTTTGTAAAAAA
*
59987661 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTAAATTT
*
59987726 CTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACACTGAGGTAATTT
66 CTGTTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACACTGAGGTAATTT
59987791 CAATTTCTGTTTTT
131 CAATTTCTGTTTTT
59987805 AAAAATTAAC
Statistics
Matches: 134, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
164 24 0.18
166 4 0.03
167 90 0.67
168 16 0.12
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (164 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTAAATTT
CTGTTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACACTGAGGTAATTT
CAATTTCTGTTTTTCAATTTCTGTTTGTAAAAAA
Found at i:59987761 original size:73 final size:71
Alignment explanation
Indices: 59987662--59987881 Score: 314
Period size: 71 Copynumber: 3.0 Consensus size: 71
59987652 TGTAAAAAAA
*
59987662 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTA-TTTTCAATTTC
59987727 TGTTTTTC
64 TGTTTTTC
* *
59987735 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACACTGAGGTAATTTCAATTTCTG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTCAATTTCTG
*
59987800 TTTTTA
66 TTTTTC
* * * *
59987806 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACGCTGAGGTATTTTCAATTT
*
59987871 CTGTTCTTC
63 CTGTTTTTC
59987880 AA
1 AA
59987882 TTTCTGTTCG
Statistics
Matches: 132, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
71 53 0.40
72 14 0.11
73 37 0.28
74 28 0.21
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTCAATTTCTG
TTTTTC
Found at i:59987845 original size:238 final size:238
Alignment explanation
Indices: 59987190--59988127 Score: 1556
Period size: 238 Copynumber: 4.0 Consensus size: 238
59987180 TTTTGTTTTC
* * * *
59987190 AAAATCAACTCATATTGCTAGAAGTGAGTTGAGCCTCAGGACACGCTGA-G-ATATTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
* *
59987253 TGTTGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGGACACGCTGAGGTAATTT
66 TGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
*
59987317 CAATTTCTGCTTGTC-AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCT
131 CAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCT
59987381 GAGGTC-TTTCAA-TTCTGTTCTTCAATTTCTGTTCGTAAAAA
196 GAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAA
*
59987422 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTATTTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
*
59987487 TGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTT
66 TGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
*
59987552 CAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCT
131 CAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCT
* *
59987617 GAGGTCTTTTCAATTTCTGTTTTTCAATTTCTGTTTGTAAAAAAA
196 GAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGT--AAAAA
59987662 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
*
59987727 TGTTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACACTGAGGTAATT
66 TG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
* *
59987790 TCAATTTCTGTTT-TTAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGC
130 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGC
59987854 TGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAA
195 TGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAA
59987898 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-TTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
* **
59987962 TGTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTTGGGACACGCTGAGGTAATT
66 TGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
* *
59988027 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCACGGCTCACGTGC
130 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGC
* *
59988092 TGAGGTCTTTTTAATTTCTACTT-TTCAATTTCTGTT
195 TGAGGTCTTTTCAATTTCT-GTTCTTCAATTTCTGTT
59988128 TTTTCAATTT
Statistics
Matches: 666, Mismatches: 26, Indels: 22
0.93 0.04 0.03
Matches are distributed among these distances:
232 46 0.07
233 1 0.00
234 22 0.03
235 82 0.12
236 147 0.22
237 36 0.05
238 187 0.28
239 32 0.05
240 108 0.16
241 5 0.01
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (238 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
TGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
CAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCT
GAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAA
Found at i:59987882 original size:14 final size:14
Alignment explanation
Indices: 59987863--59987890 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
59987853 CTGAGGTCTT
59987863 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
59987877 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
59987891 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:59987924 original size:163 final size:163
Alignment explanation
Indices: 59987735--59988038 Score: 468
Period size: 163 Copynumber: 1.9 Consensus size: 163
59987725 TCTGTTTTTC
*
59987735 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACACTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTAAATTTCT
* * * * * **
59987799 GTTTT-TAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGTCTT
66 GTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGG--CACACGCTGAGGTAAT
59987863 TTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAA
129 TTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAA
* *
59987898 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTAAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTAAATTTCT
* *
59987963 GTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTTGGGACACGCTGAGGTAATTT
66 GTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGCACACGCTGAGGTAATTT
59988028 CAATTTCTGTT
131 CAATTTCTGTT
59988039 TGTCAAAAAT
Statistics
Matches: 127, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
163 62 0.49
164 29 0.23
165 36 0.28
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (163 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTAAATTTCT
GTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGCACACGCTGAGGTAATTT
CAATTTCTGTTCTTCAATTTCTGTTCGTAAAAA
Found at i:59988002 original size:73 final size:74
Alignment explanation
Indices: 59987896--59988078 Score: 298
Period size: 73 Copynumber: 2.5 Consensus size: 74
59987886 TGTTCGTAAA
*
59987896 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTAAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTAAATTT
59987961 CTGTTT-TC
66 CTGTTTGTC
* ** *
59987969 AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTTGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTAAATTT
59988034 CTGTTTGTC
66 CTGTTTGTC
*
59988043 -AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCC
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
59988079 ACGGCTCACG
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
73 100 0.98
74 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (74 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTAAATTT
CTGTTTGTC
Found at i:59988930 original size:30 final size:30
Alignment explanation
Indices: 59988894--59989008 Score: 126
Period size: 30 Copynumber: 3.8 Consensus size: 30
59988884 ACTTTTCTCA
* * *
59988894 ACTAGCCACTCATTTTCCACCACCAACTCC
1 ACTAGCCACACATTCTCCACCACCAAATCC
59988924 ACTAGCCACACATTCTCCACCACCAAATCC
1 ACTAGCCACACATTCTCCACCACCAAATCC
** * *
59988954 ACTAGCCACAC-TTGCTCCATTACCTACTCC
1 ACTAGCCACACATT-CTCCACCACCAAATCC
*
59988984 ACTAACCACAC-TTGCTCCACCACCA
1 ACTAGCCACACATT-CTCCACCACCA
59989009 CTTGTACCTA
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
29 2 0.03
30 71 0.97
ACGTcount: A:0.29, C:0.46, G:0.04, T:0.21
Consensus pattern (30 bp):
ACTAGCCACACATTCTCCACCACCAAATCC
Found at i:59989592 original size:27 final size:27
Alignment explanation
Indices: 59989562--59989634 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 27
59989552 ATTCTAAATT
59989562 CTATATTACGTATACATATAT-ATT-ATA
1 CTATATTA--TATACATATATCATTAATA
* * *
59989589 CTATTTTATATATATATATCTTTAATA
1 CTATATTATATACATATATCATTAATA
* *
59989616 CTATATTATTTATATATAT
1 CTATATTATATACATATAT
59989635 ATTTTACATG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
25 10 0.26
26 2 0.05
27 27 0.69
ACGTcount: A:0.38, C:0.08, G:0.01, T:0.52
Consensus pattern (27 bp):
CTATATTATATACATATATCATTAATA
Found at i:59989653 original size:25 final size:25
Alignment explanation
Indices: 59989577--59989665 Score: 90
Period size: 25 Copynumber: 3.5 Consensus size: 25
59989567 TTACGTATAC
* * *
59989577 ATATATATTATACTATTTTATATAT
1 ATATATATTTTACTATATTATTTAT
*
59989602 ATATATCTTTAATACTATATTATTTAT
1 ATATATATTT--TACTATATTATTTAT
*
59989629 ATATATATTTTAC-ATGTTATCTTAT
1 ATATATATTTTACTATATTAT-TTAT
*
59989654 GTATATATTTTA
1 ATATATATTTTA
59989666 ATTATGTTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
24 6 0.11
25 26 0.48
27 22 0.41
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (25 bp):
ATATATATTTTACTATATTATTTAT
Found at i:59989653 original size:29 final size:29
Alignment explanation
Indices: 59989562--59989661 Score: 84
Period size: 29 Copynumber: 3.6 Consensus size: 29
59989552 ATTCTAAATT
* * *
59989562 CTATATTACGTATACATATAT-ATT-ATA
1 CTATATTATGTATATATATATCTTTAATA
*
59989589 CTAT-TT-TATATATATATATCTTTAATA
1 CTATATTATGTATATATATATCTTTAATA
* *
59989616 CTATATTATTTATATATATAT-TTTACATG
1 CTATATTATGTATATATATATCTTTA-ATA
* *
59989645 TTATCTTATGTATATAT
1 CTATATTATGTATATAT
59989662 TTTAATTATG
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
25 10 0.17
26 4 0.07
27 11 0.19
28 6 0.10
29 28 0.47
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (29 bp):
CTATATTATGTATATATATATCTTTAATA
Found at i:59989672 original size:27 final size:26
Alignment explanation
Indices: 59989601--59989683 Score: 80
Period size: 25 Copynumber: 3.1 Consensus size: 26
59989591 ATTTTATATA
* *
59989601 TATATATCTTTAATACTATATTATTTATA
1 TATATAT-TTTAAT--TATGTTATTTATG
*
59989630 TATATATTTT-A-CATGTTATCTTATG
1 TATATATTTTAATTATGTTAT-TTATG
*
59989655 TATATATTTTAATTATGTTATGTATG
1 TATATATTTTAATTATGTTATTTATG
59989681 TAT
1 TAT
59989684 TTTTACACTA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
24 6 0.13
25 14 0.30
26 8 0.17
27 8 0.17
28 3 0.07
29 7 0.15
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.57
Consensus pattern (26 bp):
TATATATTTTAATTATGTTATTTATG
Found at i:59989675 original size:22 final size:22
Alignment explanation
Indices: 59989620--59989710 Score: 76
Period size: 24 Copynumber: 3.9 Consensus size: 22
59989610 TTAATACTAT
*
59989620 ATTATTTATATATATATTTTAC
1 ATTATTTATGTATATATTTTAC
59989642 ATGTTATCTTATGTATATATTTTA-
1 A--TTAT-TTATGTATATATTTTAC
*
59989666 ATTATGTTATGTATGTATTTTTAC
1 ATTAT-TTATGTATATA-TTTTAC
* * *
59989690 ACTATATTATATACATATTTT
1 ATTAT-TTATGTATATATTTT
59989711 TAATATTATC
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
22 15 0.27
23 9 0.16
24 17 0.30
25 15 0.27
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.57
Consensus pattern (22 bp):
ATTATTTATGTATATATTTTAC
Found at i:59989879 original size:15 final size:15
Alignment explanation
Indices: 59989861--59989894 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
59989851 TAATTATTAT
59989861 TATTCTAATATTTGA
1 TATTCTAATATTTGA
* *
59989876 TATTTTAATATTTTA
1 TATTCTAATATTTGA
59989891 TATT
1 TATT
59989895 ATTCACATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (15 bp):
TATTCTAATATTTGA
Found at i:59991421 original size:20 final size:18
Alignment explanation
Indices: 59991392--59991443 Score: 54
Period size: 20 Copynumber: 2.9 Consensus size: 18
59991382 TTTTACCAAA
*
59991392 ATTAATTAAATTATATGAT
1 ATTAAATAAATTATAT-AT
59991411 ATTTAAATAAATTA-ATAT
1 A-TTAAATAAATTATATAT
*
59991429 AAT-AATAAATTATAT
1 ATTAAATAAATTATAT
59991444 TTAAATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 9 0.31
17 3 0.10
18 3 0.10
19 3 0.10
20 11 0.38
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
ATTAAATAAATTATATAT
Found at i:59991422 original size:29 final size:31
Alignment explanation
Indices: 59991390--59991469 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 31
59991380 ATTTTTACCA
* *
59991390 AAATTAAT-TAA-ATTATATGATATTTAAAT
1 AAATTAATATAATAATAAATGATATTTAAAT
*
59991419 AAATTAATATAATAATAAATTATATTTAAAT
1 AAATTAATATAATAATAAATGATATTTAAAT
* * * *
59991450 TATTTAATAGAATGATAAAT
1 AAATTAATATAATAATAAAT
59991470 AAAACATAGA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 8 0.19
30 3 0.07
31 31 0.74
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (31 bp):
AAATTAATATAATAATAAATGATATTTAAAT
Found at i:59991444 original size:31 final size:31
Alignment explanation
Indices: 59991409--59991469 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
59991399 AAATTATATG
*
59991409 ATATTTAAATAAATTAATATAATAATAAATT
1 ATATTTAAATAAATTAATAGAATAATAAATT
* * *
59991440 ATATTTAAATTATTTAATAGAATGATAAAT
1 ATATTTAAATAAATTAATAGAATAATAAAT
59991470 AAAACATAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (31 bp):
ATATTTAAATAAATTAATAGAATAATAAATT
Found at i:59993142 original size:24 final size:24
Alignment explanation
Indices: 59993106--59993160 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
59993096 GGCACACCAC
* *
59993106 AGCTCGCAAGAGCGTCCC-ATTATT
1 AGCTCTCAAGAGCATCCCGA-TATT
*
59993130 AGCTCTCACGAGCATCCCGATATT
1 AGCTCTCAAGAGCATCCCGATATT
*
59993154 GGCTCTC
1 AGCTCTC
59993161 TTGAGCTACT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.25
Consensus pattern (24 bp):
AGCTCTCAAGAGCATCCCGATATT
Found at i:59993296 original size:25 final size:24
Alignment explanation
Indices: 59993268--59993379 Score: 111
Period size: 24 Copynumber: 4.6 Consensus size: 24
59993258 TAGCTCCTAT
*
59993268 GAGCGTCCCGATATATGGCTCTCCG
1 GAGCTTCCCGAT-TATGGCTCTCCG
*
59993293 GAGCTTCCTGATTAATGGCTCTCCG
1 GAGCTTCCCGATT-ATGGCTCTCCG
* **
59993318 GAGCTTCCCGA-TAGTGGCTCACAT
1 GAGCTTCCCGATTA-TGGCTCTCCG
***
59993342 GAGCTTCCCGATTATGGCTCTTAT
1 GAGCTTCCCGATTATGGCTCTCCG
59993366 GAGCTTCCCG-TTAT
1 GAGCTTCCCGATTAT
59993380 ACAGCTCATA
Statistics
Matches: 76, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.07
24 38 0.50
25 33 0.43
ACGTcount: A:0.17, C:0.29, G:0.24, T:0.30
Consensus pattern (24 bp):
GAGCTTCCCGATTATGGCTCTCCG
Found at i:59993345 original size:24 final size:24
Alignment explanation
Indices: 59993266--59993457 Score: 120
Period size: 25 Copynumber: 7.8 Consensus size: 24
59993256 TGTAGCTCCT
* *
59993266 ATGAGCGTCCCGATATATGGCTCTC
1 ATGAGCTTCCCGAT-TATGGCTCAC
** * *
59993291 CGGAGCTTCCTGATTAATGGCTCTC
1 ATGAGCTTCCCGATT-ATGGCTCAC
**
59993316 CGGAGCTTCCCGA-TAGTGGCTCAC
1 ATGAGCTTCCCGATTA-TGGCTCAC
**
59993340 ATGAGCTTCCCGATTATGGCTCTT
1 ATGAGCTTCCCGATTATGGCTCAC
* *
59993364 ATGAGCTTCCCG-TTATACAGCTCAT
1 ATGAGCTTCCCGATTAT--GGCTCAC
*
59993389 ATGAGCTTCCCGTTGTATGGCTCGA-
1 ATGAGCTTCCCGAT-TATGGCTC-AC
* * **
59993414 ATGAGCTTCCTGTTTATGTGCTCGT
1 ATGAGCTTCCCGATTATG-GCTCAC
*
59993439 ATGAGCATTCCCGAATATG
1 ATGAGC-TTCCCGATTATG
59993458 AATTGACGGA
Statistics
Matches: 138, Mismatches: 18, Indels: 21
0.78 0.10 0.12
Matches are distributed among these distances:
23 5 0.04
24 42 0.30
25 77 0.56
26 11 0.08
27 3 0.02
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (24 bp):
ATGAGCTTCCCGATTATGGCTCAC
Found at i:59994882 original size:28 final size:28
Alignment explanation
Indices: 59994851--59994986 Score: 125
Period size: 28 Copynumber: 4.9 Consensus size: 28
59994841 TAATTATATG
* *
59994851 TGGCACTTAATGTGCGAAGTATCGGGGA
1 TGGCACTTAGTGTGCGAAGTATCGAGGA
* * *
59994879 TGGCACTTAGTGTGCGATA-CATCCAGAA
1 TGGCACTTAGTGTGCGA-AGTATCGAGGA
59994907 TGGCACTTAGTGTGCGAAGTAAT-GAGGA
1 TGGCACTTAGTGTGCGAAGT-ATCGAGGA
* ** * *
59994935 TGGCACTTAGTGTGTGAAACATCCAGAA
1 TGGCACTTAGTGTGCGAAGTATCGAGGA
*
59994963 CGGCACTTAGTGTGC-AAGGTATCG
1 TGGCACTTAGTGTGCGAA-GTATCG
59994987 GATATGACAT
Statistics
Matches: 85, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
27 5 0.06
28 77 0.91
29 3 0.04
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (28 bp):
TGGCACTTAGTGTGCGAAGTATCGAGGA
Found at i:59994937 original size:56 final size:56
Alignment explanation
Indices: 59994851--59994986 Score: 195
Period size: 56 Copynumber: 2.4 Consensus size: 56
59994841 TAATTATATG
* * *
59994851 TGGCACTTAATGTGCGAAGTATCGGGGATGGCACTTAGTGTGCGATACATCCAGAA
1 TGGCACTTAGTGTGCGAAGTATCGAGGATGGCACTTAGTGTGCGAAACATCCAGAA
*
59994907 TGGCACTTAGTGTGCGAAGTAAT-GAGGATGGCACTTAGTGTGTGAAACATCCAGAA
1 TGGCACTTAGTGTGCGAAGT-ATCGAGGATGGCACTTAGTGTGCGAAACATCCAGAA
*
59994963 CGGCACTTAGTGTGC-AAGGTATCG
1 TGGCACTTAGTGTGCGAA-GTATCG
59994987 GATATGACAT
Statistics
Matches: 72, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
55 4 0.06
56 66 0.92
57 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (56 bp):
TGGCACTTAGTGTGCGAAGTATCGAGGATGGCACTTAGTGTGCGAAACATCCAGAA
Found at i:59995002 original size:56 final size:56
Alignment explanation
Indices: 59994852--59995012 Score: 186
Period size: 56 Copynumber: 2.9 Consensus size: 56
59994842 AATTATATGT
* * * *
59994852 GGCACTTAATGTGCGAAGTATCGGGGATGGCACTTAGTGTGCGATACATCCAGAAT
1 GGCACTTAGTGTGCGAAGTATCGGAGATGGCACTTAGTGTGCGAAACATCCAGAAC
*
59994908 GGCACTTAGTGTGCGAAGTAAT--GAGGATGGCACTTAGTGTGTGAAACATCCAGAAC
1 GGCACTTAGTGTGCGAAGT-ATCGGA-GATGGCACTTAGTGTGCGAAACATCCAGAAC
* * *
59994964 GGCACTTAGTGTGC-AAGGTATCGGATATGACA-TCTAGTGTGCGATACAT
1 GGCACTTAGTGTGCGAA-GTATCGGAGATGGCACT-TAGTGTGCGAAACAT
59995013 TGAGTATTCA
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
55 6 0.07
56 80 0.89
57 4 0.04
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (56 bp):
GGCACTTAGTGTGCGAAGTATCGGAGATGGCACTTAGTGTGCGAAACATCCAGAAC
Found at i:59995091 original size:32 final size:32
Alignment explanation
Indices: 59995055--59995128 Score: 112
Period size: 32 Copynumber: 2.3 Consensus size: 32
59995045 TGAGTATGAG
* *
59995055 ATTGGTACGAGATGATACAGGTATTTACGGAA
1 ATTGGTACAAGATGATACAGGTATGTACGGAA
* *
59995087 ATTGGTACAATATGGTACAGGTATGTACGGAA
1 ATTGGTACAAGATGATACAGGTATGTACGGAA
59995119 ATTGGTACAA
1 ATTGGTACAA
59995129 CATAGTACAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.28
Consensus pattern (32 bp):
ATTGGTACAAGATGATACAGGTATGTACGGAA
Found at i:59995137 original size:32 final size:32
Alignment explanation
Indices: 59995070--59995153 Score: 114
Period size: 32 Copynumber: 2.6 Consensus size: 32
59995060 TACGAGATGA
* * *
59995070 TACAGGTATTTACGGAAATTGGTACAATATGG
1 TACAGGTATGTACGGAAATTGGTACAACATAG
59995102 TACAGGTATGTACGGAAATTGGTACAACATAG
1 TACAGGTATGTACGGAAATTGGTACAACATAG
** *
59995134 TACATATATGTACGAAAATT
1 TACAGGTATGTACGGAAATT
59995154 CAATTGAGTA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (32 bp):
TACAGGTATGTACGGAAATTGGTACAACATAG
Found at i:59998534 original size:23 final size:23
Alignment explanation
Indices: 59998508--59998577 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 23
59998498 CAAACTACTA
* *
59998508 TGCTATAGAAGTAGACATAATCG
1 TGCTATAAAAGTAGACATAACCG
59998531 TGCTATAAAAGTAGACATAACCG
1 TGCTATAAAAGTAGACATAACCG
* * *
59998554 TGCCATAAAAGCAGACAAAACCG
1 TGCTATAAAAGTAGACATAACCG
59998577 T
1 T
59998578 TTTAAGCAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.20
Consensus pattern (23 bp):
TGCTATAAAAGTAGACATAACCG
Found at i:59998779 original size:13 final size:13
Alignment explanation
Indices: 59998761--59998788 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
59998751 GTTAACTCCT
59998761 AACTAGAAGAATA
1 AACTAGAAGAATA
59998774 AACTAGAAGAATA
1 AACTAGAAGAATA
59998787 AA
1 AA
59998789 GATGAATTAA
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:0.64, C:0.07, G:0.14, T:0.14
Consensus pattern (13 bp):
AACTAGAAGAATA
Found at i:60010766 original size:7 final size:7
Alignment explanation
Indices: 60010750--60010782 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
60010740 GACAGAGAGT
60010750 AATC-GC
1 AATCGGC
60010756 AATCGGC
1 AATCGGC
60010763 AATCGGC
1 AATCGGC
60010770 AATCGGC
1 AATCGGC
60010777 AATCGG
1 AATCGG
60010783 TAATTCAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.15
7 22 0.85
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.15
Consensus pattern (7 bp):
AATCGGC
Found at i:60011590 original size:14 final size:14
Alignment explanation
Indices: 60011571--60011622 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
60011561 CATTTAAATG
60011571 ATAATTTTTTTTAC
1 ATAATTTTTTTTAC
* *
60011585 ATAATTTTTTTAAT
1 ATAATTTTTTTTAC
* **
60011599 AAAATTACTTTTAC
1 ATAATTTTTTTTAC
60011613 ATAATTTTTT
1 ATAATTTTTT
60011623 CTCACTTATG
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.60
Consensus pattern (14 bp):
ATAATTTTTTTTAC
Found at i:60012220 original size:12 final size:12
Alignment explanation
Indices: 60012203--60012228 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
60012193 AATTTGTTTG
60012203 TTGTTTTAATAT
1 TTGTTTTAATAT
60012215 TTGTTTTAATAT
1 TTGTTTTAATAT
60012227 TT
1 TT
60012229 AAGTGTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (12 bp):
TTGTTTTAATAT
Found at i:60016851 original size:7 final size:7
Alignment explanation
Indices: 60016810--60016862 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
60016800 AAATCTAGTC
*
60016810 TTTATAT
1 TTTAAAT
*
60016817 TTTTAAT
1 TTTAAAT
*
60016824 TTTAGAAA
1 TTTA-AAT
*
60016832 TTTAATTT
1 TTTAA-AT
60016840 TTTAAAT
1 TTTAAAT
60016847 TTTAAAT
1 TTTAAAT
60016854 TTTAAAT
1 TTTAAAT
60016861 TT
1 TT
60016863 AAGTCTAATT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
7 26 0.70
8 11 0.30
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (7 bp):
TTTAAAT
Found at i:60016857 original size:22 final size:22
Alignment explanation
Indices: 60016816--60016858 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
60016806 AGTCTTTATA
60016816 TTTTTAATTTTAGAAATTTAAT
1 TTTTTAATTTTAGAAATTTAAT
*
60016838 TTTTTAAATTTTA-AATTTTAA
1 TTTTT-AATTTTAGAAATTTAA
60016859 ATTTAAGTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTTTAATTTTAGAAATTTAAT
Found at i:60019820 original size:16 final size:16
Alignment explanation
Indices: 60019799--60019831 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
60019789 ACACCCAATT
60019799 TGGTGGGGCTCATCAA
1 TGGTGGGGCTCATCAA
60019815 TGGTGGGGCTCATCAA
1 TGGTGGGGCTCATCAA
60019831 T
1 T
60019832 TACGATGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.27
Consensus pattern (16 bp):
TGGTGGGGCTCATCAA
Found at i:60021898 original size:23 final size:24
Alignment explanation
Indices: 60021863--60021925 Score: 85
Period size: 23 Copynumber: 2.7 Consensus size: 24
60021853 CACTTAGTGC
60021863 CATTCTGGTGTGTTTGGGA-GGAT
1 CATTCTGGTGTGTTTGGGATGGAT
* * *
60021886 TATTTTGGTGTGTTT-AGATGGAT
1 CATTCTGGTGTGTTTGGGATGGAT
60021909 CATTCTGGTGTGTTTGG
1 CATTCTGGTGTGTTTGG
60021926 TTGGAATCCG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
22 2 0.06
23 30 0.94
ACGTcount: A:0.13, C:0.06, G:0.35, T:0.46
Consensus pattern (24 bp):
CATTCTGGTGTGTTTGGGATGGAT
Found at i:60022537 original size:20 final size:20
Alignment explanation
Indices: 60022512--60022549 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
60022502 TTGTAATTAA
60022512 ATATTATT-TAATTATAATGT
1 ATATTATTAT-ATTATAATGT
60022532 ATATTATTATATTATAAT
1 ATATTATTATATTATAAT
60022550 ATTGTCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
ATATTATTATATTATAATGT
Found at i:60023165 original size:42 final size:42
Alignment explanation
Indices: 60023109--60023196 Score: 158
Period size: 42 Copynumber: 2.1 Consensus size: 42
60023099 GAAATTTTGA
*
60023109 AAGTTAGCAGATTATTAGATGTTGTTCATGTTAAATAAATTG
1 AAGTTAGCAAATTATTAGATGTTGTTCATGTTAAATAAATTG
*
60023151 AAGTTAGCAAATTATTAGATGTTGTTCATGTTGAATAAATTG
1 AAGTTAGCAAATTATTAGATGTTGTTCATGTTAAATAAATTG
60023193 AAGT
1 AAGT
60023197 AGTATTTATC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (42 bp):
AAGTTAGCAAATTATTAGATGTTGTTCATGTTAAATAAATTG
Found at i:60023543 original size:3 final size:3
Alignment explanation
Indices: 60023535--60023576 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
60023525 TCTTTAATTT
60023535 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
60023577 CCAATGTCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:60023788 original size:20 final size:20
Alignment explanation
Indices: 60023765--60023802 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
60023755 AAATGACAAT
60023765 ATTATAA-TATAATAATATAC
1 ATTATAATTA-AATAATATAC
60023785 ATTATAATTAAATAATAT
1 ATTATAATTAAATAATAT
60023803 TTAATTACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTATAATTAAATAATATAC
Found at i:60030443 original size:271 final size:271
Alignment explanation
Indices: 60029960--60030507 Score: 1051
Period size: 271 Copynumber: 2.0 Consensus size: 271
60029950 GTCGATCTAA
60029960 ATATTTTCGACTTTTAATCCAATCCCAGAACTTGCTCTACCATTTTTTCCCGTTCTACAAATTCT
1 ATATTTTCGACTTTTAATCCAATCCCAGAACTTGCTCTACCATTTTTTCCCGTTCTACAAATTCT
60030025 GTAATTCAGTGTGATACCAGTTGTACTCTGATTTCATCTCTTAAACCTTGTAGGAACTGCTTACA
66 GTAATTCAGTGTGATACCAGTTGTACTCTGATTTCATCTCTTAAACCTTGTAGGAACTGCTTACA
* *
60030090 ACTGTCGGGCTCTATCGGTATAAAATTTGAAGCATATCGGCTGAGTCTAGAAAATTCCCTTTCAT
131 ACTGTCGGCCTCTATCGGTATAAAATCTGAAGCATATCGGCTGAGTCTAGAAAATTCCCTTTCAT
60030155 AGTCTACCACTGATAGATCATAATGTTTTAACATCAGAAATTCTTGCTTTTTGTCTTCAATATAT
196 AGTCTACCACTGATAGATCATAATGTTTTAACATCAGAAATTCTTGCTTTTTGTCTTCAATATAT
60030220 AATTACTTGAC
261 AATTACTTGAC
60030231 ATATTTTCGACTTTTAATCCAATCCCAGAACTTGCTCTACCATTTTTTCCCGTTCTACAAATTCT
1 ATATTTTCGACTTTTAATCCAATCCCAGAACTTGCTCTACCATTTTTTCCCGTTCTACAAATTCT
* *
60030296 GTGATTCGGTGTGATACCAGTTGTACTCTGATTTCATCTCTTAAACCTTGTAGGAACTGCTTACA
66 GTAATTCAGTGTGATACCAGTTGTACTCTGATTTCATCTCTTAAACCTTGTAGGAACTGCTTACA
*
60030361 ACTGTCGGCCTCTGTCGGTATAAAATCTGAAGCATATCGGCTGAGTCTAGAAAATTCCCTTTCAT
131 ACTGTCGGCCTCTATCGGTATAAAATCTGAAGCATATCGGCTGAGTCTAGAAAATTCCCTTTCAT
60030426 AGTCTACCACTGATAGATCATAATGTTTTAACATCAGAAATTCTTGCTTTTTGTCTTCAATATAT
196 AGTCTACCACTGATAGATCATAATGTTTTAACATCAGAAATTCTTGCTTTTTGTCTTCAATATAT
60030491 AATTACTTGAC
261 AATTACTTGAC
60030502 ATATTT
1 ATATTT
60030508 CTTCTGAAAT
Statistics
Matches: 272, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
271 272 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (271 bp):
ATATTTTCGACTTTTAATCCAATCCCAGAACTTGCTCTACCATTTTTTCCCGTTCTACAAATTCT
GTAATTCAGTGTGATACCAGTTGTACTCTGATTTCATCTCTTAAACCTTGTAGGAACTGCTTACA
ACTGTCGGCCTCTATCGGTATAAAATCTGAAGCATATCGGCTGAGTCTAGAAAATTCCCTTTCAT
AGTCTACCACTGATAGATCATAATGTTTTAACATCAGAAATTCTTGCTTTTTGTCTTCAATATAT
AATTACTTGAC
Found at i:60032186 original size:20 final size:20
Alignment explanation
Indices: 60032161--60032199 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
60032151 GGCAAACACT
60032161 TATATTATT-TAATTATAATG
1 TATATTATTAT-ATTATAATG
60032181 TATATTATTATATTATAAT
1 TATATTATTATATTATAAT
60032200 ATTGTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (20 bp):
TATATTATTATATTATAATG
Found at i:60032246 original size:20 final size:18
Alignment explanation
Indices: 60032210--60032246 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 18
60032200 ATTGTAATTT
60032210 ATATTAATTATAAATAAG
1 ATATTAATTATAAATAAG
60032228 ATATTATATTATGAAATAA
1 ATATTA-ATTAT-AAATAA
60032247 ATAAATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 5 0.29
20 6 0.35
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (18 bp):
ATATTAATTATAAATAAG
Found at i:60032395 original size:3 final size:3
Alignment explanation
Indices: 60032387--60032415 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
60032377 ATGACATTGA
60032387 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
60032416 AAGAAAGACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:60032815 original size:40 final size:40
Alignment explanation
Indices: 60032758--60032837 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
60032748 ACTTGATTTA
* *
60032758 TGTTGAAATTTTAAAAGTTAACATATTATTAGATGTTGTT
1 TGTTGAAATTTTAAAAGTTAACAGATTATTAGATATTGTT
* **
60032798 TGTTGAAATTTTGAAAGTTAGTAGATTATTAGATATTGTT
1 TGTTGAAATTTTAAAAGTTAACAGATTATTAGATATTGTT
60032838 CATGTTCACA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.47
Consensus pattern (40 bp):
TGTTGAAATTTTAAAAGTTAACAGATTATTAGATATTGTT
Found at i:60034245 original size:17 final size:16
Alignment explanation
Indices: 60034216--60034255 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
60034206 GATAAAAATA
*
60034216 TTTTTAA-ATAAATTAT
1 TTTTTAAGAGAAATT-T
60034232 TTTTTAAGAGAAATTT
1 TTTTTAAGAGAAATTT
60034248 TTTTTAAG
1 TTTTTAAG
60034256 TCAAAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (16 bp):
TTTTTAAGAGAAATTT
Found at i:60051915 original size:46 final size:46
Alignment explanation
Indices: 60051862--60052135 Score: 370
Period size: 46 Copynumber: 6.0 Consensus size: 46
60051852 GCTCTTTGAA
** *
60051862 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
60051908 ATGAAATGTGTAAGACCATGGTTGAAAAATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
60051954 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
60052000 GGGAAATGAATAAGACCATGGTTGAAAGGTACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
60052046 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
60052092 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
60052136 TTAAAGATAA
Statistics
Matches: 203, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.00
46 202 1.00
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:60055995 original size:40 final size:39
Alignment explanation
Indices: 60055951--60056075 Score: 125
Period size: 40 Copynumber: 3.3 Consensus size: 39
60055941 AAGTCGAATT
*
60055951 AACCAATGATATTGAATGTAAGCCCAGCTCTAGTTGGATA
1 AACCAACGATATT-AATGTAAGCCCAGCTCTAGTTGGATA
* * *
60055991 AACCAACGATATT--T-TCA-CCCA-ATGCTAGTTAGATA
1 AACCAACGATATTAATGTAAGCCCAGCT-CTAGTTGGATA
* * *
60056026 TACCAACGATAATAATTGTGAGCCCAGCTCTAGTTGGATA
1 AACCAACGATATTAA-TGTAAGCCCAGCTCTAGTTGGATA
60056066 AACCAACGAT
1 AACCAACGAT
60056076 TTTTGCACCC
Statistics
Matches: 68, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
34 1 0.01
35 25 0.37
36 2 0.03
37 1 0.01
38 1 0.01
39 2 0.03
40 35 0.51
41 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (39 bp):
AACCAACGATATTAATGTAAGCCCAGCTCTAGTTGGATA
Found at i:60056075 original size:75 final size:75
Alignment explanation
Indices: 60055971--60056142 Score: 267
Period size: 75 Copynumber: 2.3 Consensus size: 75
60055961 ATTGAATGTA
60055971 AGCCCAGCTCTAGTTGGATAAACCAACGATATTTT-CACCCAATGCTAGTTAG-ATATACCAACG
1 AGCCCAGCTCTAGTTGGATAAACCAACGAT-TTTTGCACCCAATGCTAG-TAGAATATACCAACG
60056034 ATAATAATTGTG
64 ATAATAATTGTG
* * **
60056046 AGCCCAGCTCTAGTTGGATAAACCAACGATTTTTGCACCCAGTGCTAGTCGAATATACTGACGAT
1 AGCCCAGCTCTAGTTGGATAAACCAACGATTTTTGCACCCAATGCTAGTAGAATATACCAACGAT
60056111 AATAATTGTG
66 AATAATTGTG
*
60056121 AGCCCAGCTCTAGTTTGATAAA
1 AGCCCAGCTCTAGTTGGATAAA
60056143 ATAATTGCGC
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
74 6 0.07
75 84 0.93
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.28
Consensus pattern (75 bp):
AGCCCAGCTCTAGTTGGATAAACCAACGATTTTTGCACCCAATGCTAGTAGAATATACCAACGAT
AATAATTGTG
Found at i:60056094 original size:35 final size:36
Alignment explanation
Indices: 60055980--60056094 Score: 121
Period size: 35 Copynumber: 3.1 Consensus size: 36
60055970 AAGCCCAGCT
*
60055980 CTAGTTGGATAAACCAACGATATTTT-CACCCAATG
1 CTAGTTGGATAAACCAACGATATTTTGCACCCAGTG
* *
60056015 CTAGTTAGATATACCAACGATAATAATTGTG-AGCCCAGCT-
1 CTAGTTGGATAAACCAACGAT-AT--TT-TGCA-CCCAG-TG
60056055 CTAGTTGGATAAACCAACGAT-TTTTGCACCCAGTG
1 CTAGTTGGATAAACCAACGATATTTTGCACCCAGTG
60056090 CTAGT
1 CTAGT
60056095 CGAATATACT
Statistics
Matches: 66, Mismatches: 5, Indels: 18
0.74 0.06 0.20
Matches are distributed among these distances:
34 1 0.02
35 31 0.47
36 5 0.08
38 3 0.05
39 2 0.03
40 23 0.35
41 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (36 bp):
CTAGTTGGATAAACCAACGATATTTTGCACCCAGTG
Found at i:60060353 original size:32 final size:32
Alignment explanation
Indices: 60060259--60060354 Score: 174
Period size: 32 Copynumber: 3.0 Consensus size: 32
60060249 AACCATAAGA
* *
60060259 AAGCAACACACACAATGTGTTTGAGCATATAC
1 AAGCAATACACACAATGTGTTTGAGCATATGC
60060291 AAGCAATACACACAATGTGTTTGAGCATATGC
1 AAGCAATACACACAATGTGTTTGAGCATATGC
60060323 AAGCAATACACACAATGTGTTTGAGCATATGC
1 AAGCAATACACACAATGTGTTTGAGCATATGC
60060355 TCTCAAAAAG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 62 1.00
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.24
Consensus pattern (32 bp):
AAGCAATACACACAATGTGTTTGAGCATATGC
Found at i:60061231 original size:13 final size:14
Alignment explanation
Indices: 60061215--60061256 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
60061205 TTTCAATTTT
60061215 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
60061228 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
60061243 ATTTTAAATAATAT
1 ATTTT-AATAATAT
60061257 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:60061241 original size:16 final size:16
Alignment explanation
Indices: 60061219--60061255 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
60061209 AATTTTATTT
60061219 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
60061236 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
60061251 TAATA
1 TAATA
60061256 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:60061308 original size:15 final size:15
Alignment explanation
Indices: 60061288--60061344 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
60061278 ATTCAATATT
60061288 AATATTTTAATAATA
1 AATATTTTAATAATA
*
60061303 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
60061322 AATATCTTAATAATA
1 AATATTTTAATAATA
*
60061337 AATGTTTT
1 AATATTTT
60061345 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:60063288 original size:38 final size:38
Alignment explanation
Indices: 60063240--60063315 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
60063230 AACTTATAAC
60063240 TATATACATATTCACAAGACATTCAAAATGCCAAATTA
1 TATATACATATTCACAAGACATTCAAAATGCCAAATTA
*
60063278 TATATACATATTCACAAGACATTCAAAATGCCATATTA
1 TATATACATATTCACAAGACATTCAAAATGCCAAATTA
60063316 GTCCAAGACA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.46, C:0.18, G:0.05, T:0.30
Consensus pattern (38 bp):
TATATACATATTCACAAGACATTCAAAATGCCAAATTA
Found at i:60069124 original size:19 final size:20
Alignment explanation
Indices: 60069097--60069134 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
60069087 TTATAAAGGT
*
60069097 TATATTTTA-ATATTTAAAA
1 TATAGTTTATATATTTAAAA
60069116 TATAGTTTATATATTTAAA
1 TATAGTTTATATATTTAAA
60069135 TTAACTCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
TATAGTTTATATATTTAAAA
Found at i:60072604 original size:126 final size:127
Alignment explanation
Indices: 60072379--60072617 Score: 444
Period size: 126 Copynumber: 1.9 Consensus size: 127
60072369 GTTTTAGCCT
60072379 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCAAAACCCAATACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCAAAACCCAATACGTTAGGGCACGATT
60072444 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAA-AATTTTTTAGAGTGAACTGG
66 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAACAATTTTTTAGAGTGAACTGG
* * *
60072505 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCAAAACCCAATACGTTAGGGCACGATT
60072570 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAACAATTTT
66 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAACAATTTT
60072618 GAGAGAAGAT
Statistics
Matches: 109, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
126 103 0.94
127 6 0.06
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (127 bp):
TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCAAAACCCAATACGTTAGGGCACGATT
CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAACAATTTTTTAGAGTGAACTGG
Found at i:60072755 original size:16 final size:13
Alignment explanation
Indices: 60072721--60072772 Score: 61
Period size: 13 Copynumber: 4.0 Consensus size: 13
60072711 CTAACCATAT
*
60072721 ATAAATAATAAAAA
1 ATAATTAAT-AAAA
*
60072735 ATAA-TAATAATA
1 ATAATTAATAAAA
*
60072747 GTAATTAATAAAA
1 ATAATTAATAAAA
60072760 ATAATTAATAAAA
1 ATAATTAATAAAA
60072773 CAACAGTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
12 6 0.18
13 23 0.70
14 4 0.12
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (13 bp):
ATAATTAATAAAA
Found at i:60073150 original size:63 final size:63
Alignment explanation
Indices: 60073087--60073206 Score: 158
Period size: 62 Copynumber: 2.0 Consensus size: 63
60073077 CATAATAAAT
* *
60073087 AATATAATAAT-ATGAAACAT-AA-CTCAAATTAATTAAATTAATAG-AAAATAAAAAAAAACA
1 AATATAAAAATAATGAAA-ATAAAGCTCAAATTAATTAAATTAACAGTAAAATAAAAAAAAACA
* * *
60073147 AATATAAAAATAATGAGAATAAAGCTCAAATTAATTAATTTAACAGTAAAATAACAAAAA
1 AATATAAAAATAATGAAAATAAAGCTCAAATTAATTAAATTAACAGTAAAATAAAAAAAA
60073207 TAAAAAAGGG
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
60 12 0.24
61 7 0.14
62 20 0.39
63 12 0.24
ACGTcount: A:0.63, C:0.07, G:0.05, T:0.25
Consensus pattern (63 bp):
AATATAAAAATAATGAAAATAAAGCTCAAATTAATTAAATTAACAGTAAAATAAAAAAAAACA
Found at i:60073509 original size:18 final size:18
Alignment explanation
Indices: 60073486--60073521 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
60073476 ATAACAAGTA
*
60073486 GGGTGATGGAGTTAGTGG
1 GGGTGATGGAGGTAGTGG
60073504 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
60073522 ATGGTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.58, T:0.25
Consensus pattern (18 bp):
GGGTGATGGAGGTAGTGG
Found at i:60073537 original size:29 final size:29
Alignment explanation
Indices: 60073504--60073566 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
60073494 GAGTTAGTGG
60073504 GGGTGATGGAGGTAGTGGATGGTTTAGTA
1 GGGTGATGGAGGTAGTGGATGGTTTAGTA
* * *
60073533 GGGTGATGGAGTTAGTGGTTGGTTTAGTG
1 GGGTGATGGAGGTAGTGGATGGTTTAGTA
60073562 GGGTG
1 GGGTG
60073567 TTTAATTTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.16, C:0.00, G:0.51, T:0.33
Consensus pattern (29 bp):
GGGTGATGGAGGTAGTGGATGGTTTAGTA
Found at i:60082332 original size:23 final size:23
Alignment explanation
Indices: 60082306--60082351 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
60082296 GGTCACTCCG
60082306 AAAATGATAAAGTTTGATTCAAT
1 AAAATGATAAAGTTTGATTCAAT
60082329 AAAATGATAAAGTTTGATTCAAT
1 AAAATGATAAAGTTTGATTCAAT
60082352 CATTTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.04, G:0.13, T:0.35
Consensus pattern (23 bp):
AAAATGATAAAGTTTGATTCAAT
Found at i:60082770 original size:10 final size:10
Alignment explanation
Indices: 60082755--60082789 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
60082745 AAAGTGATTC
*
60082755 AAAAAAATAA
1 AAAAAAAGAA
60082765 AAAAAAAGAA
1 AAAAAAAGAA
*
60082775 AAGAAAAGAA
1 AAAAAAAGAA
60082785 AAAAA
1 AAAAA
60082790 GAACTTACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.89, C:0.00, G:0.09, T:0.03
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:60091162 original size:23 final size:22
Alignment explanation
Indices: 60091111--60091162 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
60091101 CCTCGTCTTT
*
60091111 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
60091133 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
60091156 TTCTTTT
1 TTCTTTT
60091163 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:60091177 original size:18 final size:18
Alignment explanation
Indices: 60091156--60091194 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
60091146 TTTCTTCAAC
* *
60091156 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
60091174 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
60091192 TTC
1 TTC
60091195 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:60094963 original size:23 final size:22
Alignment explanation
Indices: 60094912--60094963 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
60094902 CCTCGTCTTT
*
60094912 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
60094934 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
60094957 TTCTTTT
1 TTCTTTT
60094964 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:60094978 original size:18 final size:18
Alignment explanation
Indices: 60094957--60094995 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
60094947 TTTCTTCAAC
* *
60094957 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
60094975 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
60094993 TTC
1 TTC
60094996 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:60097348 original size:12 final size:13
Alignment explanation
Indices: 60097331--60097359 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
60097321 TTAAACTAAG
60097331 TAAATAAAT-AAA
1 TAAATAAATAAAA
60097343 TAAATAAATAAAA
1 TAAATAAATAAAA
60097356 TAAA
1 TAAA
60097360 ACTTTACAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAATAAATAAAA
Found at i:60111181 original size:7 final size:8
Alignment explanation
Indices: 60111143--60111185 Score: 52
Period size: 9 Copynumber: 5.2 Consensus size: 8
60111133 TGAAAATATT
60111143 TATTTTAA
1 TATTTTAA
60111151 TATTTTTAA
1 TA-TTTTAA
*
60111160 TATATTATA
1 TATTTTA-A
60111169 TATTTTAA
1 TATTTTAA
60111177 T-TTTTAA
1 TATTTTAA
60111184 TA
1 TA
60111186 CGATCCGGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
7 7 0.23
8 8 0.27
9 15 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TATTTTAA
Found at i:60117023 original size:14 final size:14
Alignment explanation
Indices: 60117004--60117125 Score: 59
Period size: 14 Copynumber: 7.6 Consensus size: 14
60116994 CTCCTCTGGT
60117004 CTTCTGCTTCGCTG
1 CTTCTGCTTCGCTG
* *
60117018 CTTCTGTTGTCTCCATTG
1 CTTCTGCT-TC-GC--TG
60117036 TCTTCTGCTTCGCTG
1 -CTTCTGCTTCGCTG
60117051 CTTCTGCGGTCTC-CATTG
1 CTTCTGC--T-TCGC--TG
60117069 TCTTCTGCTTCGCTG
1 -CTTCTGCTTCGCTG
60117084 CTTCTGCGGTCTC-CATTG
1 CTTCTGC--T-TCGC--TG
60117102 TCTTCTGCTTCGCTG
1 -CTTCTGCTTCGCTG
60117117 CTTCTGCTT
1 CTTCTGCTT
60117126 TCTCCTTCAT
Statistics
Matches: 85, Mismatches: 4, Indels: 38
0.67 0.03 0.30
Matches are distributed among these distances:
14 30 0.35
15 8 0.09
16 9 0.11
17 9 0.11
18 8 0.09
19 21 0.25
ACGTcount: A:0.02, C:0.33, G:0.20, T:0.45
Consensus pattern (14 bp):
CTTCTGCTTCGCTG
Found at i:60117075 original size:19 final size:19
Alignment explanation
Indices: 60117051--60117109 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
60117041 TGCTTCGCTG
60117051 CTTCTGCGGTCTCCATTGT
1 CTTCTGCGGTCTCCATTGT
60117070 CTTCTGC--T-TCGC--TG-
1 CTTCTGCGGTCTC-CATTGT
60117084 CTTCTGCGGTCTCCATTGT
1 CTTCTGCGGTCTCCATTGT
60117103 CTTCTGC
1 CTTCTGC
60117110 TTCGCTGCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 14
0.70 0.00 0.30
Matches are distributed among these distances:
14 7 0.21
15 2 0.06
16 4 0.12
17 4 0.12
18 2 0.06
19 14 0.42
ACGTcount: A:0.03, C:0.34, G:0.20, T:0.42
Consensus pattern (19 bp):
CTTCTGCGGTCTCCATTGT
Found at i:60117130 original size:33 final size:33
Alignment explanation
Indices: 60117002--60117123 Score: 226
Period size: 33 Copynumber: 3.7 Consensus size: 33
60116992 GGCTCCTCTG
**
60117002 GTCTTCTGCTTCGCTGCTTCTGTTGTCTCCATT
1 GTCTTCTGCTTCGCTGCTTCTGCGGTCTCCATT
60117035 GTCTTCTGCTTCGCTGCTTCTGCGGTCTCCATT
1 GTCTTCTGCTTCGCTGCTTCTGCGGTCTCCATT
60117068 GTCTTCTGCTTCGCTGCTTCTGCGGTCTCCATT
1 GTCTTCTGCTTCGCTGCTTCTGCGGTCTCCATT
60117101 GTCTTCTGCTTCGCTGCTTCTGC
1 GTCTTCTGCTTCGCTGCTTCTGC
60117124 TTTCTCCTTC
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 87 1.00
ACGTcount: A:0.02, C:0.33, G:0.20, T:0.44
Consensus pattern (33 bp):
GTCTTCTGCTTCGCTGCTTCTGCGGTCTCCATT
Found at i:60119433 original size:21 final size:21
Alignment explanation
Indices: 60119409--60119452 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
60119399 ATGAGCTTAA
60119409 TGTTCAAATAGCATTCGGCTT
1 TGTTCAAATAGCATTCGGCTT
60119430 TGTTCAAATAGCATTCGGCTT
1 TGTTCAAATAGCATTCGGCTT
60119451 TG
1 TG
60119453 GACTAAGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (21 bp):
TGTTCAAATAGCATTCGGCTT
Found at i:60121419 original size:48 final size:48
Alignment explanation
Indices: 60121355--60121895 Score: 742
Period size: 48 Copynumber: 11.9 Consensus size: 48
60121345 AATATATATG
60121355 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
* **
60121403 TATGTGGTAAAGCCGAATGGCTAATGCGAAATACATATGAGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
*
60121451 TATGTGGTAAAGCCGAATGGCT-A--TG--AGA--TAT--G-TA--TA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
* *
60121487 --TGTGGTAAAGCCGAATGGCTAATATGAAATATGTATAAGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
* **
60121533 TATGTGGTAAAGTCGAATGGCTAATGTGAAATACATATGAGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
*
60121581 TATGTGGTAAAGCCGAATGGCT-A--TG--AGA--TAT--G-TA--TA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
*
60121617 --TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGATATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
*
60121663 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGACATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
60121711 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
** *
60121759 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATTTGAGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
60121807 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
*
60121855 TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
60121896 TAGTAAAGCC
Statistics
Matches: 440, Mismatches: 25, Indels: 56
0.84 0.05 0.11
Matches are distributed among these distances:
34 40 0.09
35 2 0.00
36 4 0.01
37 4 0.01
38 4 0.01
39 6 0.01
41 12 0.03
43 5 0.01
44 4 0.01
45 3 0.01
46 4 0.01
47 2 0.00
48 350 0.80
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.30
Consensus pattern (48 bp):
TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
Found at i:60121481 original size:34 final size:34
Alignment explanation
Indices: 60121438--60121507 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
60121428 GCGAAATACA
60121438 TATGAGATATGTATATGTGGTAAAGCCGAATGGC
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGC
60121472 TATGAGATATGTATATGTGGTAAAGCCGAATGGC
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGC
60121506 TA
1 TA
60121508 ATATGAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (34 bp):
TATGAGATATGTATATGTGGTAAAGCCGAATGGC
Found at i:60121585 original size:130 final size:130
Alignment explanation
Indices: 60121355--60121934 Score: 829
Period size: 130 Copynumber: 4.3 Consensus size: 130
60121345 AATATATATG
60121355 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAA
*
60121420 TGGCTAATGCGAAATACATATGAGATATGTATATGTGGTAAAGCCGAATGGCTATGAGATATGTA
66 TGGCTAATGTGAAATACATATGAGATATGTATATGTGGTAAAGCCGAATGGCTATGAGATATGTA
* * *
60121485 TATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATAAGATATGTATATGTGGTAAAGTCGAA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAA
60121550 TGGCTAATGTGAAATACATATGAGATATGTATATGTGGTAAAGCCGAATGGCTATGAGATATGTA
66 TGGCTAATGTGAAATACATATGAGATATGTATATGTGGTAAAGCCGAATGGCTATGAGATATGTA
*
60121615 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGATATATGTATATGTGGTAAAGCCGAA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAA
** *
60121680 TGGCTAATGTGAAATATGTATGAGACATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
66 TGGCTAATGTGAAATACATATGAGATATGTATATGTGGTAAAGCCGAATGGC-------------
60121745 GTATGAGATATGTA
118 -TATGAGATATGTA
** *
60121759 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATTTGAGATATGTATATGTGGTAAAGCCGAA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAA
** *
60121824 TGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
66 TGGCTAATGTGAAATACATATGAGATATGTATATGTGGTAAAGCCGAATGGCTA---TGAGATAT
60121889 GTA
128 GTA
* * * *
60121892 TGA-GTAGTAAAGCCGAATGGCTAGTGTGAACTATGTAGGAGAT
1 T-ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
60121935 GTGTGTATAT
Statistics
Matches: 408, Mismatches: 24, Indels: 33
0.88 0.05 0.07
Matches are distributed among these distances:
130 238 0.58
133 44 0.11
134 1 0.00
144 125 0.31
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.30
Consensus pattern (130 bp):
TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAA
TGGCTAATGTGAAATACATATGAGATATGTATATGTGGTAAAGCCGAATGGCTATGAGATATGTA
Found at i:60121611 original size:34 final size:34
Alignment explanation
Indices: 60121568--60121637 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
60121558 GTGAAATACA
60121568 TATGAGATATGTATATGTGGTAAAGCCGAATGGC
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGC
60121602 TATGAGATATGTATATGTGGTAAAGCCGAATGGC
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGC
60121636 TA
1 TA
60121638 ATGTGAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (34 bp):
TATGAGATATGTATATGTGGTAAAGCCGAATGGC
Found at i:60121902 original size:37 final size:37
Alignment explanation
Indices: 60121848--60121928 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 37
60121838 TATGTATGAG
*
60121848 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAA
1 ATATGTATATGTAGTAAAGCCGAATGGCTAGTGTGAA
60121885 ATATGTATGA-GTAGTAAAGCCGAATGGCTAGTGTGAA
1 ATATGTAT-ATGTAGTAAAGCCGAATGGCTAGTGTGAA
*
60121922 CTATGTA
1 ATATGTA
60121929 GGAGATGTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
37 40 0.98
38 1 0.02
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (37 bp):
ATATGTATATGTAGTAAAGCCGAATGGCTAGTGTGAA
Found at i:60123611 original size:40 final size:40
Alignment explanation
Indices: 60123414--60123612 Score: 254
Period size: 40 Copynumber: 5.0 Consensus size: 40
60123404 TTGAGAGTTA
* *
60123414 TATAGCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
60123454 TATGTCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * * * * *
60123494 TATGTCCGGGCTAAGTCTCGGAGAGCATTCGTGTTAGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * * *
60123534 TATATCAGGGTTAAGTTCCGAAGAGCATTCGTACTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
60123574 TATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
60123613 ATGTGTATTC
Statistics
Matches: 134, Mismatches: 25, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 134 1.00
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.28
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:60127516 original size:48 final size:48
Alignment explanation
Indices: 60127445--60127816 Score: 574
Period size: 48 Copynumber: 8.0 Consensus size: 48
60127435 AGATAAATAT
60127445 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
**
60127493 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
60127541 ATATGTATATGTGGTAATGCCGAATGGCT-A--TG--AGA--TAT--G
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
60127580 -TA--TA--TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
60127623 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
60127671 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
60127719 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
60127767 ATATGTATGTGTGGTAAAGCCGAATGGCTAATGTGAACTATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
60127815 AT
1 AT
60127817 GTGTGTATAT
Statistics
Matches: 299, Mismatches: 11, Indels: 28
0.88 0.03 0.08
Matches are distributed among these distances:
34 19 0.06
35 1 0.00
36 2 0.01
37 2 0.01
38 2 0.01
39 3 0.01
41 6 0.02
43 3 0.01
44 2 0.01
45 2 0.01
46 2 0.01
47 1 0.00
48 254 0.85
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:60127601 original size:34 final size:34
Alignment explanation
Indices: 60127535--60127604 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
60127525 GTGAAATACA
*
60127535 TATGAGATATGTATATGTGGTAATGCCGAATGGC
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGC
60127569 TATGAGATATGTATATGTGGTAAAGCCGAATGGC
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGC
60127603 TA
1 TA
60127605 ATGTGAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (34 bp):
TATGAGATATGTATATGTGGTAAAGCCGAATGGC
Found at i:60129481 original size:18 final size:20
Alignment explanation
Indices: 60129439--60129475 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
60129429 ATATTTTATG
*
60129439 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
60129458 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
60129476 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:60130061 original size:21 final size:21
Alignment explanation
Indices: 60130023--60130062 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
60130013 GTTTGAAAAA
*
60130023 TAATTAAAAATTATATAAATC
1 TAATTAAAAATGATATAAATC
60130044 TAATTATAAAATGA-ATAAA
1 TAATTA-AAAATGATATAAA
60130063 ATATGAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (21 bp):
TAATTAAAAATGATATAAATC
Found at i:60131689 original size:46 final size:46
Alignment explanation
Indices: 60131637--60131945 Score: 386
Period size: 46 Copynumber: 6.7 Consensus size: 46
60131627 AGTGTGCTCT
*
60131637 CTGATATGAAATGTGTAAGACCATGGTAGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
60131683 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
60131729 CTGATATGAAACGTGTAAGACCATGGCTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
60131775 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *** **
60131821 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
60131867 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
60131913 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAG
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAG
60131946 GCACTATGGC
Statistics
Matches: 235, Mismatches: 27, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.00
46 234 1.00
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:60135897 original size:31 final size:32
Alignment explanation
Indices: 60135841--60135988 Score: 218
Period size: 31 Copynumber: 4.8 Consensus size: 32
60135831 CTTGTCACTT
*
60135841 GTAGCC-GAAGCTACCAC-ATTCACTGATCAG
1 GTAGCCAGAAGCTACCACTTTTCACTGATCAG
*
60135871 GTAGCCAG-AGCTACCATTTTTCACTGATCAG
1 GTAGCCAGAAGCTACCACTTTTCACTGATCAG
* *
60135902 GTAGTC-GGAGCTACCACTTTTCACTGATCAG
1 GTAGCCAGAAGCTACCACTTTTCACTGATCAG
60135933 GTAG-CAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCAGAAGCTACCACTTTTCACTGATCAG
60135964 GTAGCC-GAAGCTACCACTTTTCACT
1 GTAGCCAGAAGCTACCACTTTTCACT
60135989 TGTCATTTGT
Statistics
Matches: 108, Mismatches: 5, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
30 16 0.15
31 91 0.84
32 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (32 bp):
GTAGCCAGAAGCTACCACTTTTCACTGATCAG
Found at i:60136068 original size:50 final size:51
Alignment explanation
Indices: 60135964--60136092 Score: 224
Period size: 50 Copynumber: 2.5 Consensus size: 51
60135954 CACTGATCAG
* * *
60135964 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
60136015 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
60136065 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
60136093 TGCCGTGGTC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
50 49 0.66
51 25 0.34
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
Found at i:60142500 original size:23 final size:23
Alignment explanation
Indices: 60142470--60142519 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
60142460 CTCTTGGGAC
60142470 CTTTTGTATGTCCACTCCCCATT
1 CTTTTGTATGTCCACTCCCCATT
60142493 CTTTTGTATGTCCACTCCCCATT
1 CTTTTGTATGTCCACTCCCCATT
60142516 CTTT
1 CTTT
60142520 CTTACAAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.12, C:0.34, G:0.08, T:0.46
Consensus pattern (23 bp):
CTTTTGTATGTCCACTCCCCATT
Found at i:60143641 original size:11 final size:11
Alignment explanation
Indices: 60143609--60143634 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
60143599 TAAAATTTAC
60143609 AAAAAAAAAAG
1 AAAAAAAAAAG
60143620 AAAAAAAAAAG
1 AAAAAAAAAAG
60143631 AAAA
1 AAAA
60143635 GAGAAAGGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:60149459 original size:20 final size:20
Alignment explanation
Indices: 60149422--60149460 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
60149412 ATTAGTTTTT
*
60149422 TTTATATGATTTGGTTTTAG
1 TTTATATGATTTGATTTTAG
60149442 TTTATATGAATTT-ATTTTA
1 TTTATATG-ATTTGATTTTA
60149461 ATTCCTTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.62
Consensus pattern (20 bp):
TTTATATGATTTGATTTTAG
Found at i:60155371 original size:25 final size:25
Alignment explanation
Indices: 60155343--60155401 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
60155333 TTTGGAGAAT
60155343 TGTTAACATCGTTAAAATACTTCCA
1 TGTTAACATCGTTAAAATACTTCCA
60155368 TGTTAACATCGTTAAAATACTTCCA
1 TGTTAACATCGTTAAAATACTTCCA
*
60155393 TCTTAACAT
1 TGTTAACAT
60155402 TGAACCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.37
Consensus pattern (25 bp):
TGTTAACATCGTTAAAATACTTCCA
Found at i:60158914 original size:16 final size:16
Alignment explanation
Indices: 60158893--60158925 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
60158883 CAAGTAAAGC
60158893 GGGTAATGAATTTAGA
1 GGGTAATGAATTTAGA
60158909 GGGTAATGAATTTAGA
1 GGGTAATGAATTTAGA
60158925 G
1 G
60158926 CCTGTTCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.33, T:0.30
Consensus pattern (16 bp):
GGGTAATGAATTTAGA
Found at i:60181926 original size:21 final size:21
Alignment explanation
Indices: 60181900--60181940 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
60181890 AGATGAGCAA
* *
60181900 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
60181921 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
60181941 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:60190190 original size:2 final size:2
Alignment explanation
Indices: 60190185--60190209 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
60190175 GTGTGTGTAT
60190185 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
60190210 CTTTATTAGT
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:60191028 original size:23 final size:23
Alignment explanation
Indices: 60190976--60191031 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
60190966 CTTTAATGCA
* *
60190976 ATTCATGCTGACACTTCGGTGTG
1 ATTCATTCTGACACTTCGGTGGG
* *
60190999 ATCCATTCTGGCATCTT-GGTGGG
1 ATTCATTCTGACA-CTTCGGTGGG
60191022 ATTCATTCTG
1 ATTCATTCTG
60191032 TGGAGTGTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 24 0.89
24 3 0.11
ACGTcount: A:0.16, C:0.21, G:0.25, T:0.38
Consensus pattern (23 bp):
ATTCATTCTGACACTTCGGTGGG
Found at i:60191762 original size:117 final size:117
Alignment explanation
Indices: 60191556--60191787 Score: 410
Period size: 117 Copynumber: 2.0 Consensus size: 117
60191546 ATGTGCTTAC
* *
60191556 CTTGATAGGTCATATACAACATGTATCTAGGTCATTAAGAAGTATTGTGGAGTTTTAGTGACGTT
1 CTTGATAGGTCATATACAACATGTATCTAGGTCATTAAGAAGTATTGTGGAGTCTTAATGACGTT
*
60191621 TTGAACATGGCTTAGATGTTTTGGATGATTTTAGTATTACATATCGTATGGT
66 TTGAACATGGCTTAGATGTTTTGGATGATTTTAGTAGTACATATCGTATGGT
*
60191673 CTTGATAGGTTATATACAACATGTATCTAGGTCATTAAGAAGTATTGTGGAGTCTTAATGACGTT
1 CTTGATAGGTCATATACAACATGTATCTAGGTCATTAAGAAGTATTGTGGAGTCTTAATGACGTT
* *
60191738 TTGAACATGTCTTAGGTGTTTTGGATGATTTTAGTAGTACATATCGTATG
66 TTGAACATGGCTTAGATGTTTTGGATGATTTTAGTAGTACATATCGTATG
60191788 TTTAATGACT
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
117 109 1.00
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (117 bp):
CTTGATAGGTCATATACAACATGTATCTAGGTCATTAAGAAGTATTGTGGAGTCTTAATGACGTT
TTGAACATGGCTTAGATGTTTTGGATGATTTTAGTAGTACATATCGTATGGT
Found at i:60195496 original size:21 final size:21
Alignment explanation
Indices: 60195457--60195502 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
60195447 GCGGTGGTTG
* * *
60195457 TGAGATTAATTATTATAGCGA
1 TGAGATTAAATACTATAGCAA
*
60195478 TGAGATTAAATACTGTAGCAA
1 TGAGATTAAATACTATAGCAA
60195499 TGAG
1 TGAG
60195503 GTCAAAAACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.33
Consensus pattern (21 bp):
TGAGATTAAATACTATAGCAA
Found at i:60197009 original size:31 final size:31
Alignment explanation
Indices: 60196974--60197036 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
60196964 TGGGTTTAAA
60196974 AAAATATT-AGTACTATAATGAAGGAATTGGG
1 AAAATATTGA-TACTATAATGAAGGAATTGGG
* * *
60197005 AAAATATTGATGCTATAGTGAAGGATTTGGG
1 AAAATATTGATACTATAATGAAGGAATTGGG
60197036 A
1 A
60197037 TTTGAATTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.41, C:0.03, G:0.25, T:0.30
Consensus pattern (31 bp):
AAAATATTGATACTATAATGAAGGAATTGGG
Found at i:60197477 original size:12 final size:12
Alignment explanation
Indices: 60197460--60197485 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
60197450 GAAAAGGAAG
60197460 AAAACAAAAAGA
1 AAAACAAAAAGA
60197472 AAAACAAAAAGA
1 AAAACAAAAAGA
60197484 AA
1 AA
60197486 GATGTATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.85, C:0.08, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAACAAAAAGA
Found at i:60198225 original size:24 final size:24
Alignment explanation
Indices: 60198180--60198226 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
60198170 TAAACTCAAT
* ** *
60198180 TTTTCTGAAAAATTAAATTAAAAG
1 TTTTATGAAAAACAAAAATAAAAG
60198204 TTTTATGAAAAACAAAAATAAAA
1 TTTTATGAAAAACAAAAATAAAA
60198227 TAAAGGATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.32
Consensus pattern (24 bp):
TTTTATGAAAAACAAAAATAAAAG
Found at i:60201467 original size:46 final size:45
Alignment explanation
Indices: 60201397--60201572 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 45
60201387 TGTAACCCGC
* *
60201397 CCATAAGCGAACTTGGACTTAACTCAACGAGCTCAGGAGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GGAGTTCGCAT
* *
60201443 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-TGC-CTAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGAGTTCGC-A--T
* * * *
60201489 ACATCTCA-CGAACTCGGACTCAACTCAACGAGTTTGGACGTTCGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGCTCGGA-GTTCGCAT
* *
60201536 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
60201573 TGCCCAAATA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 5 0.05
46 62 0.58
47 30 0.28
48 2 0.02
49 3 0.03
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGAGTTCGCAT
Done.