Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 85 of 349
Found at i:25320508 original size:18 final size:17
Alignment explanation
Indices: 25320457--25320504 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
25320447 TTTTTTAAGT
*
25320457 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
* *
25320475 TTTATTTTGCTTATTTAA
1 TTTATATT-ATTATTTAA
25320493 TTTATATTATTA
1 TTTATATTATTA
25320505 ATTTTAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 3 0.12
18 18 0.75
19 3 0.12
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Found at i:25320562 original size:21 final size:22
Alignment explanation
Indices: 25320520--25320579 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
25320510 AAAAAAATTG
* *
25320520 TAATATATATTTAAAATGTTTTA
1 TAATATTTTTTTAAAA-GTTTTA
25320543 TAATATTTTTTTAAAA-TTTTA
1 TAATATTTTTTTAAAAGTTTTA
*
25320564 -ATTATTATTTTTAAAA
1 TAATATT-TTTTTAAAA
25320580 ATATTTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 5 0.15
21 14 0.42
23 14 0.42
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TAATATTTTTTTAAAAGTTTTA
Found at i:25320572 original size:23 final size:23
Alignment explanation
Indices: 25320520--25320579 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
25320510 AAAAAAATTG
* * *
25320520 TAATATATATTTAAAATGTTTTA
1 TAATATTTTTTTAAAATGTTTAA
25320543 TAATATTTTTTTAAAAT-TTTAA
1 TAATATTTTTTTAAAATGTTTAA
25320565 T--TATTATTTTTAAAA
1 TAATATT-TTTTTAAAA
25320580 ATATTTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 4 0.12
21 9 0.27
22 5 0.15
23 15 0.45
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
TAATATTTTTTTAAAATGTTTAA
Found at i:25320912 original size:23 final size:23
Alignment explanation
Indices: 25320845--25320912 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 23
25320835 TTAATAAATT
* *
25320845 TAAATA-TAAATATAAATTTTTAA
1 TAAATATTAAATAT-ATTTTTTTA
* * *
25320868 AAAATATATTAA-ATATTATTTTA
1 TAAATAT-TAAATATATTTTTTTA
25320891 TAAATATTAAATATATTTTTTT
1 TAAATATTAAATATATTTTTTT
25320913 CTTTTTTTGA
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
22 3 0.09
23 26 0.76
24 2 0.06
25 3 0.09
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TAAATATTAAATATATTTTTTTA
Found at i:25321090 original size:27 final size:26
Alignment explanation
Indices: 25321060--25321125 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
25321050 TTTTAAATAC
* *
25321060 AATTTTTAAATACATTTAAAAAATTAT
1 AATTTTTAAATA-ATATAAAAAATCAT
* *
25321087 AATTTTTTAATAATATAAGAAATCAT
1 AATTTTTAAATAATATAAAAAATCAT
25321113 AATATTTTAAATA
1 AAT-TTTTAAATA
25321126 TTTTTTTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 14 0.42
27 19 0.58
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (26 bp):
AATTTTTAAATAATATAAAAAATCAT
Found at i:25321109 original size:26 final size:27
Alignment explanation
Indices: 25321060--25321122 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 27
25321050 TTTTAAATAC
* * *
25321060 AATTTTTAAATACATTTAAAAAATTAT
1 AATTTTTTAATACATATAAAAAATCAT
*
25321087 AATTTTTTAATA-ATATAAGAAATCAT
1 AATTTTTTAATACATATAAAAAATCAT
*
25321113 AATATTTTAA
1 AATTTTTTAA
25321123 ATATTTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (27 bp):
AATTTTTTAATACATATAAAAAATCAT
Found at i:25321253 original size:23 final size:23
Alignment explanation
Indices: 25321219--25321274 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
25321209 TATTATTAAT
* * *
25321219 TTTAAAA-ATTTTGTAATGTATA
1 TTTAAAATTTTTTATAATATATA
*
25321241 TTTAAAATTTTTTATAATATATT
1 TTTAAAATTTTTTATAATATATA
*
25321264 TTTACAATTTT
1 TTTAAAATTTT
25321275 AAATATTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 7 0.25
23 21 0.75
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (23 bp):
TTTAAAATTTTTTATAATATATA
Found at i:25321292 original size:20 final size:21
Alignment explanation
Indices: 25321250--25321292 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
25321240 ATTTAAAATT
25321250 TTTTATAATATATTTTTACAA
1 TTTTATAATATATTTTTACAA
25321271 TTTTA-AATATTATTTTTA-AA
1 TTTTATAATA-TATTTTTACAA
25321291 TT
1 TT
25321293 CTTTTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTATAATATATTTTTACAA
Found at i:25324478 original size:30 final size:30
Alignment explanation
Indices: 25324442--25324517 Score: 125
Period size: 30 Copynumber: 2.5 Consensus size: 30
25324432 GTCCCAGAAC
* *
25324442 AGTTCATATAACCCGGACATGGGTGGTTCG
1 AGTTCATATCACCCGGACATGGGTGGTTCA
*
25324472 AGTTCATATCACCTGGACATGGGTGGTTCA
1 AGTTCATATCACCCGGACATGGGTGGTTCA
25324502 AGTTCATATCACCCGG
1 AGTTCATATCACCCGG
25324518 TATAGGCGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (30 bp):
AGTTCATATCACCCGGACATGGGTGGTTCA
Found at i:25325467 original size:25 final size:25
Alignment explanation
Indices: 25325439--25325513 Score: 150
Period size: 25 Copynumber: 3.0 Consensus size: 25
25325429 AATATAGGTC
25325439 TACATTCATCAACCTAGCCCTTTGA
1 TACATTCATCAACCTAGCCCTTTGA
25325464 TACATTCATCAACCTAGCCCTTTGA
1 TACATTCATCAACCTAGCCCTTTGA
25325489 TACATTCATCAACCTAGCCCTTTGA
1 TACATTCATCAACCTAGCCCTTTGA
25325514 GTGTTATCTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (25 bp):
TACATTCATCAACCTAGCCCTTTGA
Found at i:25331609 original size:14 final size:13
Alignment explanation
Indices: 25331575--25331616 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 13
25331565 ACTTGAAATG
25331575 TATTTTTTA-AAA
1 TATTTTTTATAAA
*
25331587 -ATGTTTTATAATA
1 TATTTTTTATAA-A
25331600 TATTTTTTATAAA
1 TATTTTTTATAAA
25331613 TATT
1 TATT
25331617 AAAAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
11 7 0.28
12 2 0.08
13 6 0.24
14 10 0.40
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (13 bp):
TATTTTTTATAAA
Found at i:25331657 original size:31 final size:34
Alignment explanation
Indices: 25331603--25331669 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 34
25331593 TATAATATAT
25331603 TTTTTATAAATATTAAAAATATATTTTCAA-ATTA
1 TTTTTATAAATATT-AAAATATATTTTCAATATTA
*
25331637 TTTTT-TAAATATT-AAATATATTTTTAATATTA
1 TTTTTATAAATATTAAAATATATTTTCAATATTA
25331669 T
1 T
25331670 AAAACATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 13 0.42
32 5 0.16
33 8 0.26
34 5 0.16
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (34 bp):
TTTTTATAAATATTAAAATATATTTTCAATATTA
Found at i:25331718 original size:9 final size:9
Alignment explanation
Indices: 25331639--25331737 Score: 65
Period size: 10 Copynumber: 10.4 Consensus size: 9
25331629 TCAAATTATT
25331639 TTTTAAATA
1 TTTTAAATA
*
25331648 -TTAAATATA
1 TTTTAA-ATA
*
25331657 TTTTTAATA
1 TTTTAAATA
* *
25331666 TTATAAAACA
1 TT-TTAAATA
*
25331676 TTTAAAATGA
1 TTTTAAAT-A
*
25331686 TTTAAAATGA
1 TTTTAAAT-A
*
25331696 TTTAAAATA
1 TTTTAAATA
*
25331705 TTTTTTAATA
1 -TTTTAAATA
25331715 TTTTAAATGA
1 TTTTAAAT-A
25331725 TTTTAAATA
1 TTTTAAATA
25331734 TTTT
1 TTTT
25331738 TTAAATTTTA
Statistics
Matches: 74, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
8 4 0.05
9 26 0.35
10 44 0.59
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (9 bp):
TTTTAAATA
Found at i:25331765 original size:29 final size:29
Alignment explanation
Indices: 25331685--25331747 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
25331675 ATTTAAAATG
* *
25331685 ATTTAAAATGATTTAAAATATTTTTTAAT
1 ATTTTAAATGATTTTAAATATTTTTTAAT
25331714 ATTTTAAATGATTTTAAATATTTTTTAA-
1 ATTTTAAATGATTTTAAATATTTTTTAAT
25331742 ATTTTA
1 ATTTTA
25331748 CATAGAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 6 0.19
29 26 0.81
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (29 bp):
ATTTTAAATGATTTTAAATATTTTTTAAT
Found at i:25332528 original size:22 final size:24
Alignment explanation
Indices: 25332500--25332586 Score: 71
Period size: 22 Copynumber: 3.9 Consensus size: 24
25332490 TAAAAAATAT
25332500 TTTTAAAAATAATAAT-TAAAA-A
1 TTTTAAAAATAATAATATAAAACA
*
25332522 TTTT-AAAA-AATATTATAAAACA
1 TTTTAAAAATAATAATATAAAACA
* **
25332544 TTTTAAATAT-AT-AT-TACAAATT
1 TTTTAAAAATAATAATATA-AAACA
*
25332566 TTTTAAAATTAATAATATAAA
1 TTTTAAAAATAATAATATAAA
25332587 TTAAATAAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
20 5 0.10
21 11 0.22
22 21 0.42
23 7 0.14
24 4 0.08
25 2 0.04
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
TTTTAAAAATAATAATATAAAACA
Found at i:25332530 original size:23 final size:22
Alignment explanation
Indices: 25332493--25332550 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
25332483 ATAAAGTTAA
* *
25332493 AAAATATTTTTAAAAATAATAATT
1 AAAACATTTTAAAAAAT-ATAA-T
*
25332517 AAAA-ATTTTAAAAAATATTAT
1 AAAACATTTTAAAAAATATAAT
25332538 AAAACATTTTAAA
1 AAAACATTTTAAA
25332551 TATATATTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 5 0.16
22 11 0.35
23 11 0.35
24 4 0.13
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
AAAACATTTTAAAAAATATAAT
Found at i:25332587 original size:23 final size:22
Alignment explanation
Indices: 25332498--25332588 Score: 62
Period size: 23 Copynumber: 4.1 Consensus size: 22
25332488 GTTAAAAAAT
*
25332498 ATTTTTAAAAATAATAAT-TAA
1 ATTTTTTAAAATAATAATATAA
** *
25332519 AAATTTTAAAA-AATATTATAAA
1 ATTTTTTAAAATAATAATAT-AA
** * *
25332541 ACATTTT-AAATATATATTACAA
1 ATTTTTTAAAATA-ATAATATAA
25332563 ATTTTTTAAAATTAATAATATAA
1 ATTTTTTAAAA-TAATAATATAA
25332586 ATT
1 ATT
25332589 AAATAAATAA
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
20 5 0.09
21 12 0.22
22 16 0.30
23 19 0.35
24 2 0.04
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTTTTTAAAATAATAATATAA
Found at i:25332597 original size:18 final size:18
Alignment explanation
Indices: 25332571--25332622 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
25332561 AAATTTTTTA
*
25332571 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
* *
25332589 AAATAAATAAAATAGATT
1 AAATAAATAATATAAATT
25332607 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
25332623 ACTTAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:25332641 original size:18 final size:17
Alignment explanation
Indices: 25332620--25332706 Score: 57
Period size: 18 Copynumber: 4.6 Consensus size: 17
25332610 AAAATAATAT
*
25332620 AAAACTTAAAAAAGAAA
1 AAAAATTAAAAAAGAAA
25332637 AAAAATCTAAGAAAGAGACAA
1 AAAAAT-TAA-AAA-AGA-AA
** *
25332658 AATATAAGAAAAAAATAAA
1 AA-A-AATTAAAAAAGAAA
25332677 AAAAAGTTAAAAAAGTAAA
1 AAAAA-TTAAAAAAG-AAA
*
25332696 AAAAAGTAAAA
1 AAAAATTAAAA
25332707 GAAAAAGAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 15
0.70 0.10 0.19
Matches are distributed among these distances:
17 7 0.13
18 15 0.28
19 15 0.28
20 5 0.09
21 7 0.13
22 3 0.06
23 2 0.04
ACGTcount: A:0.75, C:0.03, G:0.09, T:0.13
Consensus pattern (17 bp):
AAAAATTAAAAAAGAAA
Found at i:25332648 original size:38 final size:36
Alignment explanation
Indices: 25332576--25332650 Score: 89
Period size: 37 Copynumber: 2.0 Consensus size: 36
25332566 TTTTAAAATT
* * *
25332576 AATAATATAAATTAAATAAATAAAATAGATTAAGAA
1 AATAATATAAATTAAATAAAGAAAAAAAATTAAGAA
25332612 AATAATATAAAACTTAAA-AAAGAAAAAAAATCTAAGAA
1 AATAATAT-AAA-TTAAATAAAGAAAAAAAAT-TAAGAA
25332650 A
1 A
25332651 GAGACAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 8 0.24
37 13 0.39
38 12 0.36
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (36 bp):
AATAATATAAATTAAATAAAGAAAAAAAATTAAGAA
Found at i:25332679 original size:10 final size:10
Alignment explanation
Indices: 25332656--25332720 Score: 51
Period size: 10 Copynumber: 6.4 Consensus size: 10
25332646 AGAAAGAGAC
*
25332656 AAAATATAAGA
1 AAAAAATAA-A
25332667 AAAAAATAAA
1 AAAAAATAAA
* *
25332677 AAAAAGT-TA
1 AAAAAATAAA
*
25332686 AAAAAGTAAA
1 AAAAAATAAA
*
25332696 AAAAAGTAAA
1 AAAAAATAAA
*
25332706 AGAAAAAGAAA
1 A-AAAAATAAA
25332717 AAAA
1 AAAA
25332721 GTGGTAGCGC
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
9 8 0.17
10 22 0.48
11 16 0.35
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (10 bp):
AAAAAATAAA
Found at i:25332688 original size:19 final size:19
Alignment explanation
Indices: 25332666--25332722 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
25332656 AAAATATAAG
25332666 AAAAAAATAAAAAAAAGTT
1 AAAAAAATAAAAAAAAGTT
*
25332685 AAAAAAGTAAAAAAAAG-T
1 AAAAAAATAAAAAAAAGTT
*
25332703 AAAAGAAAAAGAAAAAAAGT
1 AAAA-AAATA-AAAAAAAGT
25332723 GGTAGCGCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 5 0.16
19 19 0.59
20 8 0.25
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (19 bp):
AAAAAAATAAAAAAAAGTT
Found at i:25337933 original size:18 final size:18
Alignment explanation
Indices: 25337886--25337935 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
25337876 TGTGACGAGC
*
25337886 ATAAATTAA-AAAAATTT
1 ATAAATTAATAAAAATAT
* *
25337903 AAAAATCT-TTAAAAATAT
1 ATAAAT-TAATAAAAATAT
25337921 ATAAATTAATAAAAA
1 ATAAATTAATAAAAA
25337936 ACAGTAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 5
0.71 0.14 0.14
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAATTAATAAAAATAT
Found at i:25348280 original size:29 final size:29
Alignment explanation
Indices: 25348238--25348294 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
25348228 TTGGCCCATG
25348238 GTTCCACCTATTGAAATAATATGTCAACT
1 GTTCCACCTATTGAAATAATATGTCAACT
*
25348267 GTTCCACCTATTGAACTAATATGTCAAC
1 GTTCCACCTATTGAAATAATATGTCAAC
25348295 ACAATAGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (29 bp):
GTTCCACCTATTGAAATAATATGTCAACT
Found at i:25353473 original size:18 final size:18
Alignment explanation
Indices: 25353452--25353487 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
25353442 CTTCCGCTTT
*
25353452 CGCTTTCGCATCCGCATC
1 CGCTTCCGCATCCGCATC
*
25353470 CGCTTCCGCTTCCGCATC
1 CGCTTCCGCATCCGCATC
25353488 TAGTTTTGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.08, C:0.47, G:0.17, T:0.28
Consensus pattern (18 bp):
CGCTTCCGCATCCGCATC
Found at i:25353483 original size:12 final size:12
Alignment explanation
Indices: 25353440--25353484 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
25353430 GATTCAGGTA
*
25353440 CGCTTCCGCTTT
1 CGCTTCCGCTTC
* *
25353452 CGCTTTCGCATC
1 CGCTTCCGCTTC
*
25353464 CGCATCCGCTTC
1 CGCTTCCGCTTC
25353476 CGCTTCCGC
1 CGCTTCCGC
25353485 ATCTAGTTTT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.04, C:0.47, G:0.18, T:0.31
Consensus pattern (12 bp):
CGCTTCCGCTTC
Found at i:25365066 original size:43 final size:43
Alignment explanation
Indices: 25364940--25365066 Score: 118
Period size: 42 Copynumber: 3.0 Consensus size: 43
25364930 TCTAGGATAC
* * *
25364940 AGGCATCGA-AGTGAAATTTACGTGTAAGACCATGTCTGGGACAT
1 AGGCATCGATACTG-AA-TTACGTGTAAGACCACGTCTGGGACAG
* * *
25364984 TGGCATCG-TATCTG-ATTTCGTATAAGACC-CTGTCTGGGACAG
1 AGGCATCGATA-CTGAATTACGTGTAAGACCAC-GTCTGGGACAG
* *
25365026 AGGCATCGATACTGAATTACATGTAAGACCACGTCCGGGAC
1 AGGCATCGATACTGAATTACGTGTAAGACCACGTCTGGGAC
25365067 GTTGGTATTA
Statistics
Matches: 66, Mismatches: 11, Indels: 13
0.73 0.12 0.14
Matches are distributed among these distances:
42 32 0.48
43 23 0.35
44 9 0.14
45 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (43 bp):
AGGCATCGATACTGAATTACGTGTAAGACCACGTCTGGGACAG
Found at i:25371839 original size:42 final size:42
Alignment explanation
Indices: 25371724--25371882 Score: 126
Period size: 44 Copynumber: 3.7 Consensus size: 42
25371714 GGTATTGACC
* *
25371724 TGAATTATCGTGTAAGACCGTTTCTGGGACACAGGCATCGAAT
1 TGAATT-TCGTGTAAGACCATGTCTGGGACACAGGCATCGAAT
* *
25371767 TGAAATTTACGTGTAAGACCATGTCCGGGACATC-GGCATCGTAT
1 TG-AATTT-CGTGTAAGACCATGTCTGGGACA-CAGGCATCGAAT
* * * *
25371811 CTG-ATTTCGTATAAGACCCTGTCTGGGACAGAGGCA-CCAAT
1 -TGAATTTCGTGTAAGACCATGTCTGGGACACAGGCATCGAAT
* * * *
25371852 ACTGAATTACATGTAAGACCACGTCCGGGAC
1 --TGAATTTCGTGTAAGACCATGTCTGGGAC
25371883 GTTGGCATTA
Statistics
Matches: 93, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
41 3 0.03
42 27 0.29
43 27 0.29
44 33 0.35
45 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (42 bp):
TGAATTTCGTGTAAGACCATGTCTGGGACACAGGCATCGAAT
Found at i:25386572 original size:33 final size:31
Alignment explanation
Indices: 25386535--25386603 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
25386525 CCTGAGGGCC
*
25386535 AACCCATTTTTAAATGGGCCT-TATTTTTTCCCA
1 AACCCATTTTT---TGGGCCTATATTTTTGCCCA
*
25386568 AACCCATTTTTTTGGCCTATATTTTTGCCCA
1 AACCCATTTTTTGGGCCTATATTTTTGCCCA
25386599 AACCC
1 AACCC
25386604 TCACACTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 6 0.18
31 16 0.48
33 11 0.33
ACGTcount: A:0.23, C:0.28, G:0.09, T:0.41
Consensus pattern (31 bp):
AACCCATTTTTTGGGCCTATATTTTTGCCCA
Found at i:25389847 original size:18 final size:17
Alignment explanation
Indices: 25389824--25389870 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
25389814 AGCCCAGAGT
25389824 CCCACACACCCGTGTGGG
1 CCCACACACCCGTGT-GG
*
25389842 CCCACATGA-CCGTGTGG
1 CCCACA-CACCCGTGTGG
25389859 CCCACACGACCC
1 CCCACAC-ACCC
25389871 AAATTGGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
17 9 0.38
18 14 0.58
19 1 0.04
ACGTcount: A:0.19, C:0.47, G:0.23, T:0.11
Consensus pattern (17 bp):
CCCACACACCCGTGTGG
Found at i:25389862 original size:17 final size:18
Alignment explanation
Indices: 25389824--25389869 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
25389814 AGCCCAGAGT
25389824 CCCACAC-ACCCGTGTGGG
1 CCCACACGA-CCGTGTGGG
*
25389842 CCCACATGACCGTGT-GG
1 CCCACACGACCGTGTGGG
25389859 CCCACACGACC
1 CCCACACGACC
25389870 CAAATTGGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 12 0.48
18 12 0.48
19 1 0.04
ACGTcount: A:0.20, C:0.46, G:0.24, T:0.11
Consensus pattern (18 bp):
CCCACACGACCGTGTGGG
Found at i:25392642 original size:23 final size:23
Alignment explanation
Indices: 25392612--25392692 Score: 74
Period size: 24 Copynumber: 3.3 Consensus size: 23
25392602 CTGATAGACA
25392612 GTAAGCTCTATTGAGCTAAAACG
1 GTAAGCTCTATTGAGCTAAAACG
** *
25392635 GTAAGCTCTAACGAGCTGAAAACA
1 GTAAGCTCTATTGAGCT-AAAACG
*
25392659 ATAAGCTCT-TATGAGCTAATATATCG
1 GTAAGCTCTAT-TGAGCTAA-A-A-CG
25392685 GTAAGCTC
1 GTAAGCTC
25392693 ATACGAGCTG
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
23 17 0.38
24 19 0.42
25 1 0.02
26 8 0.18
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (23 bp):
GTAAGCTCTATTGAGCTAAAACG
Found at i:25392663 original size:24 final size:24
Alignment explanation
Indices: 25392599--25392667 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 24
25392589 AGCTCCTCCT
* **
25392599 GAGCTGATAGACAGTAAGCTCTATT
1 GAGCTGA-AAACAGTAAGCTCTAAC
*
25392624 GAGCT-AAAACGGTAAGCTCTAAC
1 GAGCTGAAAACAGTAAGCTCTAAC
*
25392647 GAGCTGAAAACAATAAGCTCT
1 GAGCTGAAAACAGTAAGCTCT
25392668 TATGAGCTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
23 18 0.49
24 14 0.38
25 5 0.14
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.22
Consensus pattern (24 bp):
GAGCTGAAAACAGTAAGCTCTAAC
Found at i:25392674 original size:24 final size:24
Alignment explanation
Indices: 25392584--25392675 Score: 80
Period size: 24 Copynumber: 3.8 Consensus size: 24
25392574 AAGCTATAAT
** *
25392584 CAGTAAGCTCCTCCTGAGCTGATAGA
1 CAGTAAGCT-CTTATGAGCTGA-AAA
25392610 CAGTAAGCTC-TATTGAGCT-AAAA
1 CAGTAAGCTCTTA-TGAGCTGAAAA
* * *
25392633 CGGTAAGCTCTAACGAGCTGAAAA
1 CAGTAAGCTCTTATGAGCTGAAAA
*
25392657 CAATAAGCTCTTATGAGCT
1 CAGTAAGCTCTTATGAGCT
25392676 AATATATCGG
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
23 16 0.30
24 21 0.40
25 7 0.13
26 9 0.17
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.24
Consensus pattern (24 bp):
CAGTAAGCTCTTATGAGCTGAAAA
Found at i:25392674 original size:47 final size:51
Alignment explanation
Indices: 25392599--25392702 Score: 130
Period size: 47 Copynumber: 2.1 Consensus size: 51
25392589 AGCTCCTCCT
* *
25392599 GAGCTGATAGACAGTAAGCTCTATTGAGCTAA-A-A-CGGTAAGCTC-TAAC
1 GAGCTGATAAACAATAAGCTCTATTGAGCTAATATATCGGTAAGCTCAT-AC
25392647 GAGCTGA-AAACAATAAGCTCT-TATGAGCTAATATATCGGTAAGCTCATAC
1 GAGCTGATAAACAATAAGCTCTAT-TGAGCTAATATATCGGTAAGCTCATAC
25392697 GAGCTG
1 GAGCTG
25392703 CGGTGAGTCC
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
46 1 0.02
47 20 0.41
48 8 0.16
49 1 0.02
50 18 0.37
51 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (51 bp):
GAGCTGATAAACAATAAGCTCTATTGAGCTAATATATCGGTAAGCTCATAC
Found at i:25393216 original size:26 final size:26
Alignment explanation
Indices: 25393187--25393240 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
25393177 TGATAAAAAT
25393187 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
25393213 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
25393239 TG
1 TG
25393241 GTGGGCATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.07, G:0.28, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:25398404 original size:18 final size:17
Alignment explanation
Indices: 25398383--25398435 Score: 70
Period size: 18 Copynumber: 3.0 Consensus size: 17
25398373 ACATTTCAAA
25398383 TCACTTTCAATGTCAATT
1 TCACTTTCAAT-TCAATT
*
25398401 TCACTTTCAATTCAAAT
1 TCACTTTCAATTCAATT
*
25398418 TCACAATTCAATTCAATT
1 TCAC-TTTCAATTCAATT
25398436 CAATTCTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
17 9 0.29
18 22 0.71
ACGTcount: A:0.34, C:0.23, G:0.02, T:0.42
Consensus pattern (17 bp):
TCACTTTCAATTCAATT
Found at i:25398457 original size:6 final size:5
Alignment explanation
Indices: 25398406--25398459 Score: 54
Period size: 5 Copynumber: 9.8 Consensus size: 5
25398396 CAATTTCACT
*
25398406 TTCAA TTCAAA TTCACAA TTCAA TTCAA TTCAA TTCTCA TTCAA TTCAAA
1 TTCAA TTC-AA TT--CAA TTCAA TTCAA TTCAA TTC-AA TTCAA TTC-AA
25398456 TTCA
1 TTCA
25398460 CTTTTCCACT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
5 24 0.57
6 13 0.31
7 4 0.10
8 1 0.02
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (5 bp):
TTCAA
Found at i:25400813 original size:13 final size:13
Alignment explanation
Indices: 25400797--25400831 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
25400787 AATAATATTA
*
25400797 ATAATAATACATT
1 ATAATAATACAAT
25400810 ATAATAATACAAT
1 ATAATAATACAAT
25400823 ATAATAATA
1 ATAATAATA
25400832 ATATTTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (13 bp):
ATAATAATACAAT
Found at i:25400816 original size:16 final size:14
Alignment explanation
Indices: 25400793--25400834 Score: 59
Period size: 13 Copynumber: 2.9 Consensus size: 14
25400783 AGTTAATAAT
25400793 ATTAATAATAATAC
1 ATTAATAATAATAC
25400807 ATT-ATAATAATAC
1 ATTAATAATAATAC
25400820 AATATAATAATAATA
1 -AT-TAATAATAATA
25400835 TTTAATTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 10 0.40
14 5 0.20
15 1 0.04
16 9 0.36
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (14 bp):
ATTAATAATAATAC
Found at i:25400840 original size:13 final size:13
Alignment explanation
Indices: 25400786--25400840 Score: 51
Period size: 13 Copynumber: 4.1 Consensus size: 13
25400776 ATATATTAGT
25400786 TAATAATA-TTAA
1 TAATAATATTTAA
25400798 TAATAATACATTATAA
1 TAATAAT--ATT-TAA
*
25400814 TAATACA-ATATAA
1 TAATA-ATATTTAA
25400827 TAATAATATTTAA
1 TAATAATATTTAA
25400840 T
1 T
25400841 TCATAAATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
12 8 0.23
13 14 0.40
14 3 0.09
15 1 0.03
16 8 0.23
17 1 0.03
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
TAATAATATTTAA
Found at i:25400968 original size:3 final size:3
Alignment explanation
Indices: 25400960--25401033 Score: 68
Period size: 3 Copynumber: 26.0 Consensus size: 3
25400950 TAATTTATTT
* * *
25400960 TAA TAA TAA TAA TAA TAA TAA TAA TAA TCA TAA T-T TAA TAA T-T TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
25401006 T-A TAA -AA CT-A TAA TAA TAA TGA TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA
25401034 ATATCTATTT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
2 7 0.12
3 50 0.88
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:25401350 original size:12 final size:12
Alignment explanation
Indices: 25401295--25401356 Score: 58
Period size: 12 Copynumber: 5.3 Consensus size: 12
25401285 ATTTTATTTC
25401295 ATAA-TATAATA
1 ATAATTATAATA
25401306 AT-ATTAATAATA
1 ATAATT-ATAATA
*
25401318 ATATTTA-AATA
1 ATAATTATAATA
* **
25401329 AAAACCATAATA
1 ATAATTATAATA
25401341 ATAATTATAATA
1 ATAATTATAATA
25401353 ATAA
1 ATAA
25401357 ATTGATAACA
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
10 1 0.03
11 10 0.26
12 26 0.67
13 2 0.05
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAATTATAATA
Found at i:25402408 original size:23 final size:22
Alignment explanation
Indices: 25402380--25402438 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
25402370 TAACATACTA
*
25402380 ATAATGCACACAAGTTCCAAAT-
1 ATAATGCACACAAGTGCC-AATG
25402402 ATGAATGTC-CACAAGTGCCAATG
1 AT-AATG-CACACAAGTGCCAATG
*
25402425 ATAATTCACACAAG
1 ATAATGCACACAAG
25402439 CTTTGTTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
21 1 0.03
22 14 0.45
23 15 0.48
24 1 0.03
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (22 bp):
ATAATGCACACAAGTGCCAATG
Found at i:25408218 original size:21 final size:22
Alignment explanation
Indices: 25408192--25408238 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
25408182 CTCTGCTCAA
*
25408192 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
25408213 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
25408235 ACTC
1 ACTC
25408239 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:25414534 original size:27 final size:28
Alignment explanation
Indices: 25414496--25414609 Score: 146
Period size: 27 Copynumber: 4.2 Consensus size: 28
25414486 CAGCATGGCT
* *
25414496 ACCAGA-ACAGATA-TTGTGACAGAGTC
1 ACCAGATACAGATATTTGTGGCAGAGCC
25414522 ACCAGATACAGATA-TTGTGGCAGAGCC
1 ACCAGATACAGATATTTGTGGCAGAGCC
* * *
25414549 ACCAGAAACAGATATTTATGGCAGAACC
1 ACCAGATACAGATATTTGTGGCAGAGCC
*
25414577 ACCAG-TTCAGATATTTGTGGCAGAGCC
1 ACCAGATACAGATATTTGTGGCAGAGCC
25414604 ACCAGA
1 ACCAGA
25414610 ACGCTTCCTC
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
26 6 0.08
27 54 0.71
28 16 0.21
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (28 bp):
ACCAGATACAGATATTTGTGGCAGAGCC
Found at i:25414588 original size:54 final size:55
Alignment explanation
Indices: 25414496--25414610 Score: 155
Period size: 55 Copynumber: 2.1 Consensus size: 55
25414486 CAGCATGGCT
* **
25414496 ACCAG-AACAGATATTGTGACAGAGTCACCAGATACAGATA-TTGTGGCAGAGCC
1 ACCAGAAACAGATATTATGACAGAACCACCAGATACAGATATTTGTGGCAGAGCC
* *
25414549 ACCAGAAACAGATATTTATGGCAGAACCACCAG-TTCAGATATTTGTGGCAGAGCC
1 ACCAGAAACAGATA-TTATGACAGAACCACCAGATACAGATATTTGTGGCAGAGCC
25414604 ACCAGAA
1 ACCAGAA
25414611 CGCTTCCTCT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
53 5 0.09
54 15 0.28
55 34 0.63
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.19
Consensus pattern (55 bp):
ACCAGAAACAGATATTATGACAGAACCACCAGATACAGATATTTGTGGCAGAGCC
Found at i:25415044 original size:16 final size:15
Alignment explanation
Indices: 25415023--25415054 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
25415013 ACATAATGCC
25415023 GGCTTTTCGGCATTTT
1 GGCTTTTCGGC-TTTT
25415039 GGCTTTTCGGCTTTT
1 GGCTTTTCGGCTTTT
25415054 G
1 G
25415055 CCAATCTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.03, C:0.19, G:0.28, T:0.50
Consensus pattern (15 bp):
GGCTTTTCGGCTTTT
Found at i:25416515 original size:3 final size:3
Alignment explanation
Indices: 25416507--25416538 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
25416497 AAATATTCAA
*
25416507 AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
25416539 CATCCAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:25423707 original size:17 final size:17
Alignment explanation
Indices: 25423685--25423718 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
25423675 CTTGTTATGA
25423685 TAGCCAAGCCAAGCTAT
1 TAGCCAAGCCAAGCTAT
25423702 TAGCCAAGCCAAGCTAT
1 TAGCCAAGCCAAGCTAT
25423719 CTCTCCAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.18, T:0.18
Consensus pattern (17 bp):
TAGCCAAGCCAAGCTAT
Found at i:25424237 original size:44 final size:44
Alignment explanation
Indices: 25424159--25424245 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
25424149 TTGTTTTTAG
25424159 TTTCCCACTTAAACTCTGATTAATATAGGCTATTTTAATATTAA
1 TTTCCCACTTAAACTCTGATTAATATAGGCTATTTTAATATTAA
* * * * *
25424203 TTTCTCACTTAAACTCTTATTAGTATATGTTATTTTAATATTA
1 TTTCCCACTTAAACTCTGATTAATATAGGCTATTTTAATATTA
25424246 TTTGACCTAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.32, C:0.14, G:0.06, T:0.48
Consensus pattern (44 bp):
TTTCCCACTTAAACTCTGATTAATATAGGCTATTTTAATATTAA
Found at i:25426341 original size:20 final size:20
Alignment explanation
Indices: 25426318--25426362 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
25426308 AGGGACTAAA
* *
25426318 ATGAAAATTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
25426338 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
25426358 ATGAA
1 ATGAA
25426363 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.38
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:25428254 original size:21 final size:22
Alignment explanation
Indices: 25428230--25428284 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
25428220 ACGGCCTCCA
*
25428230 ACACAGGCGTGTCCC-TGGACC
1 ACACGGGCGTGTCCCTTGGACC
25428251 ACACGGGCGTGTCCCTTGGACC
1 ACACGGGCGTGTCCCTTGGACC
25428273 ACACGGGCGTGT
1 ACACGGGCGTGT
25428285 GAGCCCTGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 14 0.44
22 18 0.56
ACGTcount: A:0.16, C:0.35, G:0.33, T:0.16
Consensus pattern (22 bp):
ACACGGGCGTGTCCCTTGGACC
Found at i:25429084 original size:43 final size:44
Alignment explanation
Indices: 25429032--25429121 Score: 155
Period size: 43 Copynumber: 2.1 Consensus size: 44
25429022 AACTATTTTG
*
25429032 TTAGTTTCCCACTTAAACTTTGATTAGTGTAGGATA-TTTAATA
1 TTAGTTTCCCACTTAAACTCTGATTAGTGTAGGATATTTTAATA
*
25429075 TTAGTTTCCCACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
1 TTAGTTTCCCACTTAAACTCTGATTAGTGTAGGATATTTTAATA
25429119 TTA
1 TTA
25429122 TTTAACTTAC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
43 34 0.77
44 10 0.23
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (44 bp):
TTAGTTTCCCACTTAAACTCTGATTAGTGTAGGATATTTTAATA
Found at i:25430882 original size:40 final size:40
Alignment explanation
Indices: 25430804--25431026 Score: 301
Period size: 40 Copynumber: 5.5 Consensus size: 40
25430794 ACCCAAGTAT
* *
25430804 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
25430843 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
25430883 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
25430923 CTTC-GGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
25430965 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
25431005 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
25431027 CATCCGAATA
Statistics
Matches: 164, Mismatches: 12, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.01
39 33 0.20
40 94 0.57
41 1 0.01
42 14 0.09
43 21 0.13
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:25430985 original size:82 final size:80
Alignment explanation
Indices: 25430804--25431026 Score: 301
Period size: 82 Copynumber: 2.8 Consensus size: 80
25430794 ACCCAAGTAT
* * *
25430804 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
**
25430867 TCACTAGCATGAATGC
65 TCACTAGCACAAATGC
*
25430883 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC-GGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
25430946 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
* *
25430965 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
25431027 CATCCGAATA
Statistics
Matches: 128, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
78 1 0.01
79 33 0.26
80 27 0.21
81 1 0.01
82 50 0.39
83 16 0.12
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:25439111 original size:40 final size:40
Alignment explanation
Indices: 25439033--25439256 Score: 301
Period size: 40 Copynumber: 5.5 Consensus size: 40
25439023 ACCCAAGTAT
* *
25439033 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
25439072 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
25439112 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
25439152 CTTCAGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
25439195 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
25439235 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
25439257 CATCCGAATA
Statistics
Matches: 164, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
39 12 0.07
40 116 0.71
41 1 0.01
43 35 0.21
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:25439218 original size:83 final size:80
Alignment explanation
Indices: 25439033--25439256 Score: 301
Period size: 83 Copynumber: 2.8 Consensus size: 80
25439023 ACCCAAGTAT
* * *
25439033 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
**
25439096 TCACTAGCATGAATGC
65 TCACTAGCACAAATGC
* *
25439112 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCAGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
25439176 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
* *
25439195 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
25439257 CATCCGAATA
Statistics
Matches: 128, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
79 13 0.10
80 48 0.38
81 1 0.01
83 66 0.52
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:25441256 original size:27 final size:27
Alignment explanation
Indices: 25441210--25441262 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
25441200 CTTTTAAATG
*
25441210 ATATTTTAATTAAATAATTATTATTTA
1 ATATTTTAATTAAATAATTAGTATTTA
*
25441237 ATATTTTATTTAAA-ATATTAGTATTT
1 ATATTTTAATTAAATA-ATTAGTATTT
25441263 TATTAAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (27 bp):
ATATTTTAATTAAATAATTAGTATTTA
Found at i:25450900 original size:77 final size:78
Alignment explanation
Indices: 25450764--25451039 Score: 285
Period size: 77 Copynumber: 3.5 Consensus size: 78
25450754 AATTGAATTA
* * * * * * * ** *
25450764 TGTTTCAAATAGAAATTCAATTGAAAAATCCTGTTTCAGGA-TTTATTACTGCCGTTTAACAAGA
1 TGTTTCAAACAAAAAATCAATTGAACAAT-TTGTTTTAGGATTTTATTTCTATCGATTAACAAGA
25450828 TTTGTTTAATTTTT
65 TTTGTTTAATTTTT
*
25450842 TG-TTCAAACAAAAAATCAATT-AAGCAATCTTGTTTTAGGATTTTATTTCTATC-ATTAACATG
1 TGTTTCAAACAAAAAATCAATTGAA-CAAT-TTGTTTTAGGATTTTATTTCTATCGATTAACAAG
*
25450904 ATTTGTTTGA-TTTT
64 ATTTGTTTAATTTTT
* * * *
25450918 TGTTTCAAACAAAAAATCAATTGAACAATTTTGTTTCAGGATTTTATTTCTGTCGTTTAACAGGA
1 TGTTTCAAACAAAAAATCAATTGAACAA-TTTGTTTTAGGATTTTATTTCTATCGATTAACAAGA
*
25450983 TTTGTTTGATTTTTT
65 TTTGTTT-AATTTTT
* *
25450998 TGTTTCAAAC-AGAAATCAATTGAATAATTCTGTTTTAGGATT
1 TGTTTCAAACAAAAAATCAATTGAACAATT-TGTTTTAGGATT
25451040 CTTTTCCTGT
Statistics
Matches: 168, Mismatches: 21, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
76 8 0.05
77 89 0.53
78 31 0.18
79 26 0.15
80 14 0.08
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.45
Consensus pattern (78 bp):
TGTTTCAAACAAAAAATCAATTGAACAATTTGTTTTAGGATTTTATTTCTATCGATTAACAAGAT
TTGTTTAATTTTT
Found at i:25451074 original size:79 final size:80
Alignment explanation
Indices: 25450764--25451074 Score: 232
Period size: 77 Copynumber: 4.0 Consensus size: 80
25450754 AATTGAATTA
* * * * * * * * *
25450764 TGTTTCAAATAGAAATTCAATTGAAAAATCCTGTTTCAGGA-TTTATTACTGCCGTTTAACA-AG
1 TGTTTCAAACAAAAAATCAATTGAACAATTCTGTTTCAGGATTTTATTCCTGTCATTCAACAGA-
* *
25450827 ATTTGTTTAA-TTTTT
65 ATTTATTCAATTTTTT
* * *
25450842 TG-TTCAAACAAAAAATCAATT-AAGCAA-TCTTGTTTTAGGATTTTATTTCTATCATT-AACAT
1 TGTTTCAAACAAAAAATCAATTGAA-CAATTC-TGTTTCAGGATTTTATTCCTGTCATTCAACA-
* **
25450903 G-ATTTGTTTGA--TTTT
63 GAATTTATTCAATTTTTT
* * * * *
25450918 TGTTTCAAACAAAAAATCAATTGAACAATTTTGTTTCAGGATTTTATTTCTGTCGTTTAACAGGA
1 TGTTTCAAACAAAAAATCAATTGAACAATTCTGTTTCAGGATTTTATTCCTGTCATTCAACAGAA
* **
25450983 TTTGTTTGATTTTTT
66 TTTATTCAATTTTTT
* * * *
25450998 TGTTTCAAAC-AGAAATCAATTGAATAATTCTGTTTTAGGATTCTT-TTCCTGTCATTCAATAGA
1 TGTTTCAAACAAAAAATCAATTGAACAATTCTGTTTCAGGATT-TTATTCCTGTCATTCAACAGA
25451061 ATTTATTCAATTTT
65 ATTTATTCAATTTT
25451075 CGTTGTTACC
Statistics
Matches: 193, Mismatches: 27, Indels: 25
0.79 0.11 0.10
Matches are distributed among these distances:
76 9 0.05
77 86 0.45
78 30 0.16
79 52 0.27
80 16 0.08
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.46
Consensus pattern (80 bp):
TGTTTCAAACAAAAAATCAATTGAACAATTCTGTTTCAGGATTTTATTCCTGTCATTCAACAGAA
TTTATTCAATTTTTT
Found at i:25454821 original size:39 final size:39
Alignment explanation
Indices: 25454765--25455021 Score: 291
Period size: 39 Copynumber: 6.6 Consensus size: 39
25454755 TCAATACACC
** * *
25454765 GGCACATAGCCTGAATAATCACCGGCACACAGCTTACTA
1 GGCACATAGCCCAAATAATCACCGGCACACAGCCTGCTA
* * * *
25454804 GGCACAAACCCCAAATAATCACCGACACACAGCCTACTA
1 GGCACATAGCCCAAATAATCACCGGCACACAGCCTGCTA
* ** * *
25454843 GGCACATTGCCTGAATAATCACCAGCACACAGCCTGTTA
1 GGCACATAGCCCAAATAATCACCGGCACACAGCCTGCTA
* *
25454882 GGCACATAG-CCAGAATAATCACTGGCACACAGCTTGCTA
1 GGCACATAGCCCA-AATAATCACCGGCACACAGCCTGCTA
*** * * *
25454921 GGCACATAGCATGAATAATCATCGACACATAGCCTGCTA
1 GGCACATAGCCCAAATAATCACCGGCACACAGCCTGCTA
*
25454960 GGCACATAGCCCAAATAATCACTGGCACACAGCCTGCTA
1 GGCACATAGCCCAAATAATCACCGGCACACAGCCTGCTA
*
25454999 GGCACATAGCCCGAATAATCACC
1 GGCACATAGCCCAAATAATCACC
25455022 AGATTTCTGT
Statistics
Matches: 177, Mismatches: 39, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
38 1 0.01
39 176 0.99
ACGTcount: A:0.35, C:0.32, G:0.17, T:0.17
Consensus pattern (39 bp):
GGCACATAGCCCAAATAATCACCGGCACACAGCCTGCTA
Found at i:25454899 original size:78 final size:77
Alignment explanation
Indices: 25454765--25455023 Score: 340
Period size: 78 Copynumber: 3.3 Consensus size: 77
25454755 TCAATACACC
* * * * * * *
25454765 GGCACATAGCCTGAATAATCACCGGCACACAGCTTACTAGGCACAAACCCCAAATAATCACCGAC
1 GGCACATAGCCTGAATAATCACCAGCACACAGCCTGCTAGGCACATA-GCCAAATAATCACTGGC
*
25454830 ACACAGCCTACTA
65 ACACAGCCTGCTA
* *
25454843 GGCACATTGCCTGAATAATCACCAGCACACAGCCTGTTAGGCACATAGCCAGAATAATCACTGGC
1 GGCACATAGCCTGAATAATCACCAGCACACAGCCTGCTAGGCACATAGCCA-AATAATCACTGGC
*
25454908 ACACAGCTTGCTA
65 ACACAGCCTGCTA
* * *
25454921 GGCACATAGCATGAATAATCATC-GACACATAGCCTGCTAGGCACATAGCCCAAATAATCACTGG
1 GGCACATAGCCTGAATAATCACCAG-CACACAGCCTGCTAGGCACATAG-CCAAATAATCACTGG
25454985 CACACAGCCTGCTA
64 CACACAGCCTGCTA
*
25454999 GGCACATAGCCCGAATAATCACCAG
1 GGCACATAGCCTGAATAATCACCAG
25455024 ATTTCTGTTA
Statistics
Matches: 157, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
77 4 0.03
78 149 0.95
79 4 0.03
ACGTcount: A:0.35, C:0.31, G:0.17, T:0.17
Consensus pattern (77 bp):
GGCACATAGCCTGAATAATCACCAGCACACAGCCTGCTAGGCACATAGCCAAATAATCACTGGCA
CACAGCCTGCTA
Found at i:25454977 original size:117 final size:117
Alignment explanation
Indices: 25454765--25455021 Score: 352
Period size: 117 Copynumber: 2.2 Consensus size: 117
25454755 TCAATACACC
* *
25454765 GGCACATAGCCTGAATAATCACCGGCACACAGCTTACTAGGCACAAACCCCAAATAATCACCGAC
1 GGCACATAGCCAGAATAATCACCGGCACACAGCTTACTAGGCACAAACCACAAATAATCACCGAC
* ** *
25454830 ACACAGCCTACTAGGCACATTGCCTGAATAATCACCAGCACACAGCCTGTTA
66 ACACAGCCTACTAGGCACATAGCCCAAATAATCACCAGCACACAGCCTGCTA
* * * * ** *
25454882 GGCACATAGCCAGAATAATCACTGGCACACAGCTTGCTAGGCACATAGCATGAATAATCATCGAC
1 GGCACATAGCCAGAATAATCACCGGCACACAGCTTACTAGGCACAAACCACAAATAATCACCGAC
* * **
25454947 ACATAGCCTGCTAGGCACATAGCCCAAATAATCACTGGCACACAGCCTGCTA
66 ACACAGCCTACTAGGCACATAGCCCAAATAATCACCAGCACACAGCCTGCTA
*
25454999 GGCACATAGCCCGAATAATCACC
1 GGCACATAGCCAGAATAATCACC
25455022 AGATTTCTGT
Statistics
Matches: 121, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
117 121 1.00
ACGTcount: A:0.35, C:0.32, G:0.17, T:0.17
Consensus pattern (117 bp):
GGCACATAGCCAGAATAATCACCGGCACACAGCTTACTAGGCACAAACCACAAATAATCACCGAC
ACACAGCCTACTAGGCACATAGCCCAAATAATCACCAGCACACAGCCTGCTA
Found at i:25456119 original size:27 final size:27
Alignment explanation
Indices: 25456089--25456270 Score: 204
Period size: 27 Copynumber: 6.7 Consensus size: 27
25456079 TTAGTTTACC
*
25456089 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * * * *
25456116 AAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
25456143 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
25456170 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
25456197 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTA
** **
25456224 AAATTACTGAAATA-CCCTCAACTTGTA
1 AAATTACCAAAATACCCCT-AGTTTGTA
*
25456251 AAATTACCAAAGTACCCCTA
1 AAATTACCAAAATACCCCTA
25456271 ATTTACAGAA
Statistics
Matches: 131, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 4 0.03
27 123 0.94
28 4 0.03
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:25456344 original size:27 final size:27
Alignment explanation
Indices: 25456314--25456528 Score: 277
Period size: 27 Copynumber: 8.0 Consensus size: 27
25456304 AAAATTACTA
* *
25456314 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
25456341 AAATACCCCTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* **
25456368 AAATACCCCTGTAAGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
*
25456395 AAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
25456422 AAATACCCTTGTAGGGTAGAAATATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
25456449 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
25456476 AAATACCCCTGTAGAGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * * *
25456503 AGATACCCTTATGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
25456529 ATTTTGCCCC
Statistics
Matches: 165, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 165 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.24
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:25456520 original size:81 final size:81
Alignment explanation
Indices: 25456306--25456512 Score: 333
Period size: 81 Copynumber: 2.6 Consensus size: 81
25456296 CGATTTACAA
* * *
25456306 AATTACTAAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAAATACCGAAA
1 AATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAA
25456371 TACCCCTGTAAGGTAG
66 TACCCCTGTAAGGTAG
* *
25456387 AATTACTAAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAATATCGAAA
1 AATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAA
*
25456452 TACCCCTGTAGGGTAG
66 TACCCCTGTAAGGTAG
* * *
25456468 AATTACTGAAATACCCCTGTAGAGTAGAATTACCGAGATACCCTT
1 AATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTT
25456513 ATGGGGTAAA
Statistics
Matches: 116, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 116 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (81 bp):
AATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAA
TACCCCTGTAAGGTAG
Found at i:25457142 original size:18 final size:17
Alignment explanation
Indices: 25457121--25457154 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
25457111 CTCATTTTGA
25457121 TTCTAATTCTGATAATGT
1 TTCTAATTCTG-TAATGT
*
25457139 TTCTTATTCTGTAATG
1 TTCTAATTCTGTAATG
25457155 GGCTAAGGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.53
Consensus pattern (17 bp):
TTCTAATTCTGTAATGT
Found at i:25457148 original size:6 final size:6
Alignment explanation
Indices: 25457062--25457133 Score: 117
Period size: 6 Copynumber: 12.0 Consensus size: 6
25457052 GATTATGTCA
25457062 TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT
1 TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT
* * *
25457110 TCTCAT TTTGAT TCTAAT TCTGAT
1 TCTGAT TCTGAT TCTGAT TCTGAT
25457134 AATGTTTCTT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 60 1.00
ACGTcount: A:0.18, C:0.17, G:0.14, T:0.51
Consensus pattern (6 bp):
TCTGAT
Found at i:25463445 original size:14 final size:14
Alignment explanation
Indices: 25463426--25463453 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25463416 TGGAGTCGAG
25463426 CATGAGACATTATT
1 CATGAGACATTATT
25463440 CATGAGACATTATT
1 CATGAGACATTATT
25463454 AAACTTATTT
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:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
CATGAGACATTATT
Found at i:25466704 original size:6 final size:6
Alignment explanation
Indices: 25466695--25466724 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
25466685 TATATTTATA
25466695 TTGTTC TTGTTC TTGTTC TTGTTC TTGTTC
1 TTGTTC TTGTTC TTGTTC TTGTTC TTGTTC
25466725 AATCTTGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.17, T:0.67
Consensus pattern (6 bp):
TTGTTC
Found at i:25467681 original size:42 final size:42
Alignment explanation
Indices: 25467623--25467707 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
25467613 TATTTGGATA
*
25467623 TGGTTGGTCCACTTTTCTTGGATTTAATCTTGAATCATGATT
1 TGGTTGGTCCACTTTTCTTGGATTTAATCTTGAACCATGATT
25467665 TGGTTGGTCCACTTTTCTTGGATTTAATCTTGAACCATGATT
1 TGGTTGGTCCACTTTTCTTGGATTTAATCTTGAACCATGATT
25467707 T
1 T
25467708 CCTTTAATCT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.47
Consensus pattern (42 bp):
TGGTTGGTCCACTTTTCTTGGATTTAATCTTGAACCATGATT
Found at i:25472643 original size:21 final size:21
Alignment explanation
Indices: 25472618--25472658 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
25472608 AGCATTCAAT
*
25472618 ATCATCATTCTCAATTCATAA
1 ATCATCATTCTAAATTCATAA
25472639 ATCATCATTCTAAATTCATA
1 ATCATCATTCTAAATTCATA
25472659 TCTATTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (21 bp):
ATCATCATTCTAAATTCATAA
Found at i:25475261 original size:13 final size:12
Alignment explanation
Indices: 25475245--25475275 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
25475235 AAATCACATG
*
25475245 AAAAAAATGAAA
1 AAAAAAAAGAAA
25475257 AAAAAAAAGAAA
1 AAAAAAAAGAAA
25475269 AAAAAAA
1 AAAAAAA
25475276 GAGCATAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.90, C:0.00, G:0.06, T:0.03
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:25476852 original size:14 final size:14
Alignment explanation
Indices: 25476835--25476861 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25476825 CTACACACAT
25476835 ACATTTGCATACAC
1 ACATTTGCATACAC
25476849 ACATTTGCATACA
1 ACATTTGCATACA
25476862 AATTTTTGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (14 bp):
ACATTTGCATACAC
Found at i:25478453 original size:21 final size:21
Alignment explanation
Indices: 25478438--25478482 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
25478428 AAGAGTTATG
25478438 TTGAGCTAGTGGAGAGACTAA
1 TTGAGCTAGTGGAGAGACTAA
25478459 TTGAGCTAGTGGAGAGACTAA
1 TTGAGCTAGTGGAGAGACTAA
25478480 TTG
1 TTG
25478483 GATATGTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.09, G:0.33, T:0.27
Consensus pattern (21 bp):
TTGAGCTAGTGGAGAGACTAA
Found at i:25481046 original size:32 final size:32
Alignment explanation
Indices: 25480976--25481047 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
25480966 GGAGTGTGGC
* *
25480976 TGTGTGGGCCACATAGGTTAGGCCAAGTTAGG
1 TGTGTGGGCCACACAGGCTAGGCCAAGTTAGG
** *
25481008 CATGTGGGCCACACAGGCTAGGCCAAGTTGGG
1 TGTGTGGGCCACACAGGCTAGGCCAAGTTAGG
25481040 TGTGTGGG
1 TGTGTGGG
25481048 AGCACGTGGG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.19, C:0.18, G:0.40, T:0.22
Consensus pattern (32 bp):
TGTGTGGGCCACACAGGCTAGGCCAAGTTAGG
Found at i:25484792 original size:9 final size:9
Alignment explanation
Indices: 25484778--25484847 Score: 95
Period size: 9 Copynumber: 7.8 Consensus size: 9
25484768 TAAGTATAAA
25484778 AATTAACCG
1 AATTAACCG
25484787 AATTAACCG
1 AATTAACCG
25484796 AATTAACCG
1 AATTAACCG
*
25484805 ATTTAACCG
1 AATTAACCG
* *
25484814 ATTTAAACG
1 AATTAACCG
* *
25484823 ATTTAACTG
1 AATTAACCG
25484832 AATTAACCG
1 AATTAACCG
25484841 AATTAAC
1 AATTAAC
25484848 AAAAAAAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 55 1.00
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:25487577 original size:17 final size:18
Alignment explanation
Indices: 25487555--25487589 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
25487545 TAGAAGTTTG
25487555 TAAATTACAGC-AATAAA
1 TAAATTACAGCAAATAAA
25487572 TAAATTACAGCAAATAAA
1 TAAATTACAGCAAATAAA
25487590 AATATTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.60, C:0.11, G:0.06, T:0.23
Consensus pattern (18 bp):
TAAATTACAGCAAATAAA
Found at i:25503094 original size:21 final size:20
Alignment explanation
Indices: 25503070--25503116 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 20
25503060 CCAGTTATAT
*
25503070 ATTTTA-AGTTTTTTTAGGAGG
1 ATTTTAGAG-TTTATTAGGA-G
25503091 ATTTGTAGAGTTTATTAGGAG
1 ATTT-TAGAGTTTATTAGGAG
25503112 ATTTT
1 ATTTT
25503117 TTGAACTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 9 0.39
22 11 0.48
23 2 0.09
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (20 bp):
ATTTTAGAGTTTATTAGGAG
Found at i:25504154 original size:22 final size:22
Alignment explanation
Indices: 25504114--25504169 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
25504104 AATAAAGTTG
*
25504114 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
25504134 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
25504156 CATTAATAATTTAT
1 AAATAATAAATTAT
25504170 TATAGGATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:25505586 original size:13 final size:14
Alignment explanation
Indices: 25505570--25505603 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
25505560 AATTTATAAA
25505570 TTCTCTTTAAG-TT
1 TTCTCTTTAAGATT
*
25505583 TTCTTTTTAAGATT
1 TTCTCTTTAAGATT
25505597 TTCTCTT
1 TTCTCTT
25505604 GAATTTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.15, C:0.15, G:0.06, T:0.65
Consensus pattern (14 bp):
TTCTCTTTAAGATT
Found at i:25507742 original size:45 final size:45
Alignment explanation
Indices: 25507676--25507772 Score: 131
Period size: 45 Copynumber: 2.2 Consensus size: 45
25507666 ATACACCAAG
** * *
25507676 ATGAGTAAAACCATAGCTGAAAAATGTTATGACATCATGATAAAA
1 ATGAGTAAAACCATAAATGAAAAATGTTATGACATCAAGACAAAA
* * *
25507721 ATGAGTAAAACCCTAAATGAAAGATGTTATGACATCAAGACGAAA
1 ATGAGTAAAACCATAAATGAAAAATGTTATGACATCAAGACAAAA
25507766 ATGAGTA
1 ATGAGTA
25507773 TGACTATGGC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.48, C:0.11, G:0.18, T:0.23
Consensus pattern (45 bp):
ATGAGTAAAACCATAAATGAAAAATGTTATGACATCAAGACAAAA
Found at i:25517423 original size:20 final size:20
Alignment explanation
Indices: 25517379--25517425 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
25517369 ATTTTTCAAT
* *
25517379 AAATTATTTACATTTTTTTA
1 AAATTTTTTACATTTTTATA
* *
25517399 CAATTTTTTATATTTTTATA
1 AAATTTTTTACATTTTTATA
25517419 AAATTTT
1 AAATTTT
25517426 AAATACTTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (20 bp):
AAATTTTTTACATTTTTATA
Found at i:25524242 original size:9 final size:9
Alignment explanation
Indices: 25524228--25524332 Score: 54
Period size: 9 Copynumber: 11.2 Consensus size: 9
25524218 TCATTTCTAT
25524228 TTTTAATAA
1 TTTTAATAA
25524237 TTTTAATAA
1 TTTTAATAA
25524246 CTTTT-ATAA
1 -TTTTAATAA
25524255 TTTTAAAATAA
1 TTTT--AATAA
* *
25524266 TTCTTTTATAT
1 -T-TTTAATAA
*
25524277 TTTTAATAT
1 TTTTAATAA
**
25524286 TTTTTGTAA
1 TTTTAATAA
*
25524295 TATTT--TAG
1 T-TTTAATAA
* *
25524303 TTTTTATCTA
1 TTTTAAT-AA
25524313 TTTTAATAA
1 TTTTAATAA
25524322 TTTTAATAA
1 TTTTAATAA
25524331 TT
1 TT
25524333 ATGTATATTT
Statistics
Matches: 75, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
7 3 0.04
8 7 0.09
9 40 0.53
10 14 0.19
11 7 0.09
12 1 0.01
13 3 0.04
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (9 bp):
TTTTAATAA
Found at i:25524284 original size:20 final size:19
Alignment explanation
Indices: 25524228--25524284 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
25524218 TCATTTCTAT
25524228 TTTTAATAA-TTTTAATAAC
1 TTTT-ATAATTTTTAATAAC
*
25524247 TTTTATAATTTTAAAATAATTC
1 TTTTATAATTTT-TAATAA--C
25524269 TTTTAT-ATTTTTAATA
1 TTTTATAATTTTTAATA
25524285 TTTTTTGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
18 4 0.12
19 7 0.22
20 9 0.28
21 5 0.16
22 7 0.22
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTATAATTTTTAATAAC
Found at i:25524864 original size:19 final size:19
Alignment explanation
Indices: 25524824--25524864 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
25524814 CAACGTGAAC
*
25524824 AAATAATTTAAAAACTATA
1 AAATAATTTAAAAACTAAA
* *
25524843 AAATATTTTAAAAATTAAA
1 AAATAATTTAAAAACTAAA
25524862 AAA
1 AAA
25524865 AAAACATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
AAATAATTTAAAAACTAAA
Found at i:25525154 original size:18 final size:16
Alignment explanation
Indices: 25525123--25525188 Score: 73
Period size: 16 Copynumber: 4.1 Consensus size: 16
25525113 AATTTATTAC
25525123 ATTTTTTAAAATTTTA
1 ATTTTTTAAAATTTTA
25525139 ATTTTTTGAAACATTTTA
1 ATTTTTT-AAA-ATTTTA
*
25525157 GGTTTTTT--AATTTTA
1 -ATTTTTTAAAATTTTA
*
25525172 ATTTTTAAAAATTTTA
1 ATTTTTTAAAATTTTA
25525188 A
1 A
25525189 AATTAAAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
14 5 0.12
15 6 0.14
16 16 0.38
17 3 0.07
18 6 0.14
19 6 0.14
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.59
Consensus pattern (16 bp):
ATTTTTTAAAATTTTA
Found at i:25530157 original size:24 final size:23
Alignment explanation
Indices: 25530128--25530174 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
25530118 AAAGTAAGCC
*
25530128 CATTTTTTGGGTCGAGTTAGGCT
1 CATTTTTTGGGTCGAATTAGGCT
*
25530151 CATTTTTTGGGTGGAATTAGGCT
1 CATTTTTTGGGTCGAATTAGGCT
25530174 C
1 C
25530175 GAGTTCAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.15, C:0.13, G:0.30, T:0.43
Consensus pattern (23 bp):
CATTTTTTGGGTCGAATTAGGCT
Found at i:25531141 original size:13 final size:13
Alignment explanation
Indices: 25531123--25531147 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25531113 CTTAAAAAAA
25531123 TAAAAAATAAATC
1 TAAAAAATAAATC
25531136 TAAAAAATAAAT
1 TAAAAAATAAAT
25531148 ATTTTTATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAAAAATAAATC
Found at i:25531824 original size:42 final size:41
Alignment explanation
Indices: 25531777--25531916 Score: 147
Period size: 42 Copynumber: 3.3 Consensus size: 41
25531767 TGCATCATGT
* * *
25531777 ATCATCAGATAAACTAAAGCAAACATACTGACATGTAGGTGC
1 ATCATCAGATATACTGAAGAAAACATACTGACATGTA-GTGC
* * * *
25531819 ATCATCTGATGTACTGAAGAAAACATATTGGCATGTAAGTGC
1 ATCATCAGATATACTGAAGAAAACATACTGACATGT-AGTGC
*
25531861 ATCATCAGATATACCGAAGAAAACATACTAGCACATG-AGTGC
1 ATCATCAGATATACTGAAGAAAACATACT-G-ACATGTAGTGC
* *
25531903 ATAATCAGACATAC
1 ATCATCAGATATAC
25531917 CAAAACAATA
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
42 75 0.93
43 2 0.02
44 4 0.05
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Consensus pattern (41 bp):
ATCATCAGATATACTGAAGAAAACATACTGACATGTAGTGC
Found at i:25531944 original size:42 final size:42
Alignment explanation
Indices: 25531834--25531946 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 42
25531824 CTGATGTACT
* * * *
25531834 GAAGAAAACATATTGGCATGTAAGTGCATCATCAGATATACC
1 GAAGAAAAAATATTGGCACGTAAGTGCATAATCAGACATACC
* * * * *
25531876 GAAGAAAACATACTAGCACATGAGTGCATAATCAGACATACC
1 GAAGAAAAAATATTGGCACGTAAGTGCATAATCAGACATACC
25531918 -AA-AACAATAATATTGGCACGTAAGTGCAT
1 GAAGAA-AA-AATATTGGCACGTAAGTGCAT
25531947 CACTGGCTAC
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
40 2 0.04
41 4 0.07
42 51 0.89
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.21
Consensus pattern (42 bp):
GAAGAAAAAATATTGGCACGTAAGTGCATAATCAGACATACC
Found at i:25533393 original size:43 final size:44
Alignment explanation
Indices: 25533345--25533448 Score: 115
Period size: 43 Copynumber: 2.4 Consensus size: 44
25533335 ACCGAGATTT
* * * * *
25533345 GATTACATGTAAGACCATGTTTGGGACATTGGCATTG-TGTTTA
1 GATTACATGTAAGACCATGTCTGGGACAGTGGCATCGATATGTA
*
25533388 GATTACGTGTAAGACTC-TGTCTGGGACAGTGGCATCGATATGTA
1 GATTACATGTAAGAC-CATGTCTGGGACAGTGGCATCGATATGTA
*
25533432 -TTTACATGTAAGACCAT
1 GATTACATGTAAGACCAT
25533449 ATCTAGGATA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
42 1 0.02
43 44 0.88
44 5 0.10
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (44 bp):
GATTACATGTAAGACCATGTCTGGGACAGTGGCATCGATATGTA
Found at i:25533804 original size:43 final size:42
Alignment explanation
Indices: 25533719--25533972 Score: 256
Period size: 42 Copynumber: 6.0 Consensus size: 42
25533709 GGCGGTTTTT
* ** * *
25533719 AGAACATGACCTTTAGCGGTGCTTTTCTTAAAAACACTACTAA
1 AGAACATGACCTTTAGCGGCGC-TTTCCCAAAAACGCCACTAA
* ** *
25533762 AGAATATGACCTTTAGTAGCGCTTTCTCCACAAACGCCACTAA
1 AGAACATGACCTTTAGCGGCGCTTTC-CCAAAAACGCCACTAA
* * * * *
25533805 AGAACCTGACTTTTAGCGTCGCTTTCCCAAAAATGCCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTCCCAAAAACGCCACTAA
* *
25533847 AGAACTTGACTTTTAGCGGCGCTTTCCCAAAAACGCCACTAA
1 AGAACATGACCTTTAGCGGCGCTTTCCCAAAAACGCCACTAA
* * * * *
25533889 AGAACATGACCTTTAGCGGCACTCTCTCCACAAATGCCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTC-CCAAAAACGCCACTAA
* * * *
25533932 AGAACTTGACTTTTAGCGACGCTTTCCCAAAAACGGCACTA
1 AGAACATGACCTTTAGCGGCGCTTTCCCAAAAACGCCACTA
25533973 GAATTTATGT
Statistics
Matches: 171, Mismatches: 38, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
42 88 0.51
43 83 0.49
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (42 bp):
AGAACATGACCTTTAGCGGCGCTTTCCCAAAAACGCCACTAA
Found at i:25533869 original size:85 final size:85
Alignment explanation
Indices: 25533758--25533972 Score: 290
Period size: 85 Copynumber: 2.5 Consensus size: 85
25533748 AAAAACACTA
* ** * * *
25533758 CTAAAGAA-TATGACCTTTAGTAGCGCTTTCTCCACAAACGCCACTAAAGAACCTGACTTTTAGC
1 CTAAAGAACT-TGACTTTTAGCGGCGCTTTC-CCAAAAACGCCACTAAAGAACATGACCTTTAGC
* * *
25533822 GTCGCTTTC-CCAAAAATGCCG
64 GGCACTCTCTCCAAAAATGCCG
25533843 CTAAAGAACTTGACTTTTAGCGGCGCTTTCCCAAAAACGCCACTAAAGAACATGACCTTTAGCGG
1 CTAAAGAACTTGACTTTTAGCGGCGCTTTCCCAAAAACGCCACTAAAGAACATGACCTTTAGCGG
*
25533908 CACTCTCTCCACAAATGCCG
66 CACTCTCTCCAAAAATGCCG
* *
25533928 CTAAAGAACTTGACTTTTAGCGACGCTTTCCCAAAAACGGCACTA
1 CTAAAGAACTTGACTTTTAGCGGCGCTTTCCCAAAAACGCCACTA
25533973 GAATTTATGT
Statistics
Matches: 116, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
84 36 0.31
85 79 0.68
86 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (85 bp):
CTAAAGAACTTGACTTTTAGCGGCGCTTTCCCAAAAACGCCACTAAAGAACATGACCTTTAGCGG
CACTCTCTCCAAAAATGCCG
Found at i:25533946 original size:127 final size:128
Alignment explanation
Indices: 25533719--25533964 Score: 341
Period size: 127 Copynumber: 1.9 Consensus size: 128
25533709 GGCGGTTTTT
* ** * * * *
25533719 AGAACATGACCTTTAGCGGTGCTTTTCTTAAAAACACTACTAAAGAATATGACCTTTAGTAGCGC
1 AGAACATGACCTTTAGCGGCGCTTTTCCCAAAAACACCACTAAAGAACATGACCTTTAGCAGCAC
* *
25533784 TTTCTCCACAAACGCCACTAAAGAACCTGACTTTTAGCGTCGCTTTCCCAAAAATGCCGCTAA
66 TCTCTCCACAAACGCCACTAAAGAACCTGACTTTTAGCGACGCTTTCCCAAAAATGCCGCTAA
* * * *
25533847 AGAACTTGACTTTTAGCGGCGC-TTTCCCAAAAACGCCACTAAAGAACATGACCTTTAGCGGCAC
1 AGAACATGACCTTTAGCGGCGCTTTTCCCAAAAACACCACTAAAGAACATGACCTTTAGCAGCAC
* * *
25533911 TCTCTCCACAAATGCCGCTAAAGAACTTGACTTTTAGCGACGCTTTCCCAAAAA
66 TCTCTCCACAAACGCCACTAAAGAACCTGACTTTTAGCGACGCTTTCCCAAAAA
25533965 CGGCACTAGA
Statistics
Matches: 102, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
127 83 0.81
128 19 0.19
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (128 bp):
AGAACATGACCTTTAGCGGCGCTTTTCCCAAAAACACCACTAAAGAACATGACCTTTAGCAGCAC
TCTCTCCACAAACGCCACTAAAGAACCTGACTTTTAGCGACGCTTTCCCAAAAATGCCGCTAA
Found at i:25534009 original size:85 final size:83
Alignment explanation
Indices: 25533781--25534018 Score: 253
Period size: 85 Copynumber: 2.8 Consensus size: 83
25533771 CCTTTAGTAG
* * * * * * *
25533781 CGCTTTCTCCACAAACGCCACTAAAGAACCTGACTTTTAGCGTCGCTTTCCCAAAAATGCCGCTA
1 CGCTTTC-CCAAAAACGCCACT-AAGAACATGACCTTTAACGGCACTTTCTCAAAAATGCCGCTA
*
25533846 AAGAACTTGACTTTTAGCGG
64 AAGAACTTGACTTTTAGCGA
* * *
25533866 CGCTTTCCCAAAAACGCCACTAAAGAACATGACCTTTAGCGGCACTCTCTCCACAAATGCCGCTA
1 CGCTTTCCCAAAAACGCCACT-AAGAACATGACCTTTAACGGCACTTTCT-CAAAAATGCCGCTA
25533931 AAGAACTTGACTTTTAGCGA
64 AAGAACTTGACTTTTAGCGA
* * ** * *
25533951 CGCTTTCCCAAAAACGGCACT-AGAATTTATGTTCTTTAACGGTACTTTTCTCAAAAATGCCACT
1 CGCTTTCCCAAAAACGCCACTAAGAA--CATGACCTTTAACGGCAC-TTTCTCAAAAATGCCGCT
25534015 AAAG
63 AAAG
25534019 GTCATGAAAA
Statistics
Matches: 131, Mismatches: 18, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
83 4 0.03
84 36 0.27
85 87 0.66
86 4 0.03
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (83 bp):
CGCTTTCCCAAAAACGCCACTAAGAACATGACCTTTAACGGCACTTTCTCAAAAATGCCGCTAAA
GAACTTGACTTTTAGCGA
Found at i:25534684 original size:23 final size:23
Alignment explanation
Indices: 25534639--25535381 Score: 518
Period size: 23 Copynumber: 32.6 Consensus size: 23
25534629 ACATAAACTA
*
25534639 AATTT-CAGCAAC-TAAACAATTC
1 AATTTGCAGC-ACTTAAACACTTC
* *
25534661 AATTTGCAGTACTTAAAAACTTC
1 AATTTGCAGCACTTAAACACTTC
* * *
25534684 AATTTACAACATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
*
25534707 AATTTGCAGCACTTTAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* * * *
25534730 AATTTACAACATTTAAACACTTT
1 AATTTGCAGCACTTAAACACTTC
*
25534753 AATTTGCAGCACTTTAACA-TCTC
1 AATTTGCAGCACTTAAACACT-TC
** * * * * *
25534776 AATTAACAACATTTATACTCCTC
1 AATTTGCAGCACTTAAACACTTC
* * *
25534799 AA-TTACAGCGA-TAAAACATTTC
1 AATTTGCAGC-ACTTAAACACTTC
25534821 AATTT-CTAGCAAC-TAAACACTTC
1 AATTTGC-AGC-ACTTAAACACTTC
* * *
25534844 AATTTACAACATTTAAACAC-TC
1 AATTTGCAGCACTTAAACACTTC
* * *
25534866 AATTTACATCA-TTTAACACTTC
1 AATTTGCAGCACTTAAACACTTC
*
25534888 AATTTGCAGCACTTTAACA-TCTC
1 AATTTGCAGCACTTAAACACT-TC
** * * * *
25534911 AATTAACAACATTTATACACCTC
1 AATTTGCAGCACTTAAACACTTC
* *
25534934 AA-TTACAGCGA-TAAAACA-TCTC
1 AATTTGCAGC-ACTTAAACACT-TC
*
25534956 AATTTCCAGCAAC-TAAACACTTC
1 AATTTGCAGC-ACTTAAACACTTC
*
25534979 AATTTGCAGTACTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* * *
25535002 AATTTACAACATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* *
25535025 AATTTACAGCATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
*
25535048 AATTTGCAGCACTTTAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* *
25535071 AATTTACAGCATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* *
25535094 AATTTGCAGCACTTTAACATTTC
1 AATTTGCAGCACTTAAACACTTC
** * * * *
25535117 AATTAACAACAATTATACACCTC
1 AATTTGCAGCACTTAAACACTTC
*
25535140 AA-TTACAG-A-TATAAA-ACATCTC
1 AATTTGCAGCACT-TAAACAC-T-TC
*
25535162 AATTTCCAGCAAC-TAAACACTTC
1 AATTTGCAGC-ACTTAAACACTTC
* *
25535185 AATTTGCAGTACTTAAACAGTTC
1 AATTTGCAGCACTTAAACACTTC
* * * * *
25535208 AATTTACAACATTTAAGCACTTT
1 AATTTGCAGCACTTAAACACTTC
* * *
25535231 AATTTACAACATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
** *
25535254 AATTTATAGCA-TTTAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* *
25535276 AACTTGCAGCACTTTAACACTTC
1 AATTTGCAGCACTTAAACACTTC
** *
25535299 AATTTATAGCATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
*
25535322 AATTTGCAGCACTTTAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* *
25535345 AATTTACAGCATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
*
25535368 AATTTGCTGCACTT
1 AATTTGCAGCACTT
25535382 TCATACCTTC
Statistics
Matches: 567, Mismatches: 124, Indels: 59
0.76 0.17 0.08
Matches are distributed among these distances:
20 3 0.01
21 11 0.02
22 91 0.16
23 452 0.80
24 7 0.01
25 3 0.01
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (23 bp):
AATTTGCAGCACTTAAACACTTC
Found at i:25534917 original size:135 final size:137
Alignment explanation
Indices: 25534697--25535040 Score: 561
Period size: 135 Copynumber: 2.5 Consensus size: 137
25534687 TTACAACATT
*
25534697 TAAACACTTCAATTTGCAGCACTTT-AACACTTCAATTTACAACATTTAAACACTTTAATTTGCA
1 TAAACACTTCAATTTGCAGCA-TTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTGCA
* *
25534761 GCACTTTAACATCTCAATTAACAACATTTATACTCCTCAATTACAGCGATAAAACATTTCAATTT
65 GCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTT
*
25534826 CTAGCAAC
130 CCAGCAAC
* * *
25534834 TAAACACTTCAATTTACAACATTTAAACAC-TCAATTTACATCATTT-AACACTTCAATTTGCAG
1 TAAACACTTCAATTTGCAGCATTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAG
25534897 CACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTC
66 CACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTC
25534962 CAGCAAC
131 CAGCAAC
* * *
25534969 TAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTACAG
1 TAAACACTTCAATTTGCAGCATTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAG
25535034 CA-TTTAA
66 CACTTTAA
25535041 ACACTTCAAT
Statistics
Matches: 191, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
135 111 0.58
136 38 0.20
137 42 0.22
ACGTcount: A:0.39, C:0.24, G:0.04, T:0.33
Consensus pattern (137 bp):
TAAACACTTCAATTTGCAGCATTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAG
CACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTC
CAGCAAC
Found at i:25535157 original size:137 final size:138
Alignment explanation
Indices: 25534653--25535382 Score: 520
Period size: 137 Copynumber: 5.3 Consensus size: 138
25534643 TCAGCAACTA
* * * * * * * ** *
25534653 AACAATTCAATTTGCAGTACTTAAAAACTTCAATTTACAACA-TTTAAACACTTCAATTTGCAGC
1 AACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAAACACTTCAATTAACAAC
* * * * * * *
25534717 ACTTTAACACTTCAATTTACAACATTTAAACACTTTAATTTGCAGCACTTT-AACA-TCTCAATT
66 A-ATTAACACCTCAACTTACAGCACTTAAACACTTCAATTTACAGCA-TTTAAACACT-TCAATT
** *
25534780 AACAACA-TTT
128 TGCAGCACTTT
* * * * *
25534790 ATACTCCTCAA-TTACAGCGA-TAAAACATTTCAATTT-CTAGCAAC--TAAACACTTCAATTTA
1 A-ACACTTCAATTTACAGC-ATTTAAACACTTCAATTTGC-AGC-ACTTTAAACACTTCAATTAA
* * * * *
25534850 CAACATTTAA-ACACTCAATTTACATCA-TTTAACACTTCAATTTGCAGCACTTT-AACA-TCTC
62 CAACAATTAACAC-CTCAACTTACAGCACTTAAACACTTCAATTTACAGCA-TTTAAACACT-TC
** *
25534911 AATTAACAACA-TTT
124 AATTTGCAGCACTTT
* * * **
25534925 ATACACCTCAA-TTACAGCGA-TAAAACA-TCTCAATTTCCAGCAAC--TAAACACTTCAATTTG
1 A-ACACTTCAATTTACAGC-ATTTAAACACT-TCAATTTGCAGC-ACTTTAAACACTTCAATTAA
** * * * * *
25534985 CAGTACTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTACAGCATTTAAACACTTCAA
62 CAACAATT-AACACCTCAACTTACAGCACTTAAACACTTCAATTTACAGCATTTAAACACTTCAA
25535050 TTTGCAGCACTTT
126 TTTGCAGCACTTT
*
25535063 AACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTT-AACATTTCAATTAACAAC
1 AACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAAACACTTCAATTAACAAC
* **
25535127 AATTATACACCTCAA-TTACAG-A-TATAAA-ACATCTCAATTTCCAGCAACTAAACACTTCAAT
66 AATTA-ACACCTCAACTTACAGCACT-TAAACAC-T-TCAATTTACAGCATTTAAACACTTCAAT
* *
25535188 TTGCAGTACTTA
127 TTGCAGCACTTT
* * * * * * * * *
25535200 AACAGTTCAATTTACAACATTTAAGCACTTTAATTTACAACA-TTTAAACACTTCAATTTATAGC
1 AACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAAACACTTCAATTAACAAC
* * * * *
25535264 ATTTAACACTTCAACTTGCAGCACTTTAACACTTCAATTTATAGCATTTAAACACTTCAATTTGC
66 AATTAACACCTCAACTTACAGCACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGC
25535329 AGCACTTT
131 AGCACTTT
*
25535337 AACACTTCAATTTACAGCATTTAAACACTTCAATTTGCTGCACTTT
1 AACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTT
25535383 CATACCTTCA
Statistics
Matches: 494, Mismatches: 70, Indels: 57
0.80 0.11 0.09
Matches are distributed among these distances:
134 1 0.00
135 110 0.22
136 53 0.11
137 256 0.52
138 69 0.14
139 5 0.01
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (138 bp):
AACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAAACACTTCAATTAACAAC
AATTAACACCTCAACTTACAGCACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGC
AGCACTTT
Found at i:25535170 original size:206 final size:204
Alignment explanation
Indices: 25534812--25535325 Score: 773
Period size: 206 Copynumber: 2.5 Consensus size: 204
25534802 TACAGCGATA
* ** * *
25534812 AAACATTTCAATTT-CTAGCAACTAAACACTTCAATTTACAACATTTAAACAC-TCAATTTACAT
1 AAACACTTCAATTTAC-AGCATTTAAACACTTCAATTTACAGCATTT-AACACTTCAATTTACAG
* *
25534875 CATTTAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTAC
64 CATTTAACACTTCAATTTGCAGCACTTTAACATTTCAATTAACAACAATTATACACCTCAATTAC
*
25534940 AGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAAT
129 AGAGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAAT
25535005 TTACAACATTT
194 TTACAACATTT
*
25535016 AAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGC
1 AAACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCA-TTTAACACTTCAATTTACAGC
25535081 ATTTAAACACTTCAATTTGCAGCACTTTAACATTTCAATTAACAACAATTATACACCTCAATTAC
65 ATTT-AACACTTCAATTTGCAGCACTTTAACATTTCAATTAACAACAATTATACACCTCAATTAC
* *
25535146 AGATATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACAGTTCAAT
129 AGAGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAAT
25535211 TTACAACATTT
194 TTACAACATTT
* * * * * *
25535222 AAGCACTTTAATTTACAACATTTAAACACTTCAATTTATAGCATTTAACACTTCAACTTGCAGCA
1 AAACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTTAACACTTCAATTTACAGCA
** *
25535287 CTTTAACACTTCAATTTATAGCA-TTTAAACACTTCAATT
66 -TTTAACACTTCAATTTGCAGCACTTT-AACATTTCAATT
25535326 TGCAGCACTT
Statistics
Matches: 283, Mismatches: 21, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
204 44 0.16
205 67 0.24
206 172 0.61
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.33
Consensus pattern (204 bp):
AAACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTTAACACTTCAATTTACAGCA
TTTAACACTTCAATTTGCAGCACTTTAACATTTCAATTAACAACAATTATACACCTCAATTACAG
AGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTT
ACAACATTT
Found at i:25535190 original size:91 final size:91
Alignment explanation
Indices: 25534679--25535382 Score: 375
Period size: 91 Copynumber: 7.7 Consensus size: 91
25534669 GTACTTAAAA
* * * * * * *
25534679 ACTTCAATTTACA-ACATTTAAACA-CTTCAATTTGCAGCACTTTAACACTTCAATTTACAACA-
1 ACTTCAATTTACAGATA-TAAAACATC-TCAATTTACAGCAATTAAACACTTCAATTTGCAGCAC
* * *
25534741 TTTAAACACTTTAATTTGCAGCACTTTAAC
64 TTT-AACACTTCAATTTACAACA-TTTAAC
* * * * * * *
25534771 A-TCTCAATTAACA-ACATTTATAC-TCCTCAA-TTACAGCGATAAAACATTTCAATTT-CTAGC
1 ACT-TCAATTTACAGATA-TAAAACAT-CTCAATTTACAGCAATTAAACACTTCAATTTGC-AGC
*
25534831 AAC-TAAACACTTCAATTTACAACATTTAAAC
62 -ACTTTAACACTTCAATTTACAACATTT-AAC
* * * * * * ** *
25534862 AC-TCAATTTACATCATTTAACAC-T-TCAATTTGCAGCACTTTAACA-TCTCAATTAACAACA-
1 ACTTCAATTTACA-GATATAAAACATCTCAATTTACAGCAATTAAACACT-TCAATTTGCAGCAC
* * **
25534922 TTTATACACCTCAA-TTACAGCGATAAAAC
64 TTTA-ACACTTCAATTTACAAC-ATTTAAC
* * * * * *
25534951 A-TCTCAATTTCCAGCA-ACT-AAACA-CTTCAATTTGCAGTACTTAAACACTTCAATTTACAAC
1 ACT-TCAATTTACAG-ATA-TAAAACATC-TCAATTTACAGCAATTAAACACTTCAATTTGCAGC
*
25535012 A-TTTAAACACTTCAATTTACAGCATTTAAAC
62 ACTTT-AACACTTCAATTTACAACATTT-AAC
* * * *
25535043 ACTTCAATTTGCAGCACTTTAACAC-T-TCAATTTACAGCATTTAAACACTTCAATTTGCAGCAC
1 ACTTCAATTTACAG-A-TATAAAACATCTCAATTTACAGCAATTAAACACTTCAATTTGCAGCAC
* * *
25535106 TTTAACATTTCAATTAACAACAATTATAC
64 TTTAACACTTCAATTTACAACATTTA-AC
* * * *
25535135 ACCTCAA-TTACAGATATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGCAGTACTT
1 ACTTCAATTTACAGATATAAAACATCTCAATTTACAGCAATTAAACACTTCAATTTGCAGCACTT
* *
25535199 AAACAGTTCAATTTACAACATTTAAGC
66 TAACACTTCAATTTACAACATTTAA-C
* * * * * *
25535226 ACTTTAATTTACA-ACATTTAAACA-CTTCAATTTATAGC-ATTTAACACTTCAACTTGCAGCAC
1 ACTTCAATTTACAGATA-TAAAACATC-TCAATTTACAGCAATTAAACACTTCAATTTGCAGCAC
* *
25535288 TTTAACACTTCAATTTATAGCATTTAAAC
64 TTTAACACTTCAATTTACAACATTT-AAC
* * * * *
25535317 ACTTCAATTTGCAGCACTTTAACAC-T-TCAATTTACAGCATTTAAACACTTCAATTTGCTGCAC
1 ACTTCAATTTACAG-A-TATAAAACATCTCAATTTACAGCAATTAAACACTTCAATTTGCAGCAC
25535380 TTT
64 TTT
25535383 CATACCTTCA
Statistics
Matches: 477, Mismatches: 89, Indels: 92
0.72 0.14 0.14
Matches are distributed among these distances:
89 27 0.06
90 56 0.12
91 226 0.47
92 154 0.32
93 11 0.02
94 3 0.01
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (91 bp):
ACTTCAATTTACAGATATAAAACATCTCAATTTACAGCAATTAAACACTTCAATTTGCAGCACTT
TAACACTTCAATTTACAACATTTAAC
Found at i:25535360 original size:114 final size:115
Alignment explanation
Indices: 25534673--25535372 Score: 725
Period size: 114 Copynumber: 6.1 Consensus size: 115
25534663 TTTGCAGTAC
* * *
25534673 TTAAAAACTTCAATTTACAACATTTAAACACTTCAATTTGCAGC-ACTTTAACACTTCAATTTAC
1 TTAAACACTTCAATTTACAGCATTT-AACACTTCAATTTGCAGCAACTTAAACACTTCAATTTAC
* * *
25534737 AACATTTAAACACTTTAATTTGCAGCACTTTAACA-TCTCAATTAACAACAT
65 AGCATTTAAACACTTCAATTTGCAGCACTTTAACACT-TCAATTTACAACAT
* * * ** *
25534788 TTATACTCCTCAA-TTACAGCGATAAAACATTTCAATTT-CTAGCAAC-TAAACACTTCAATTTA
1 TTAAACACTTCAATTTACAGC-ATTTAACACTTCAATTTGC-AGCAACTTAAACACTTCAATTTA
* * * * *
25534850 CAACATTTAAACAC-TCAATTTACATCA-TTTAACACTTCAATTTGCAGCACT
64 CAGCATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACA-T
* * * * * *
25534901 TT-AACA-TCTCAATTAACAACATTTATACACCTCAA-TTACAGCGA-TAAAACA-TCTCAATTT
1 TTAAACACT-TCAATTTACAGCATTTA-ACACTTCAATTTGCAGCAACTTAAACACT-TCAATTT
* ** * *
25534961 CCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACAT
63 ACAGCATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACAT
*
25535014 TTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGC-ACTTTAACACTTCAATTTAC
1 TTAAACACTTCAATTTACAGCATTT-AACACTTCAATTTGCAGCAACTTAAACACTTCAATTTAC
* * *
25535078 AGCATTTAAACACTTCAATTTGCAGCACTTTAACATTTCAATTAACAACAA
65 AGCATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACAT
* * * * * *
25535129 TTATACACCTCAA-TTACAG-ATATAAAACATCTCAATTTCCAGCAAC-TAAACACTTCAATTTG
1 TTAAACACTTCAATTTACAGCATTTAACAC-T-TCAATTTGCAGCAACTTAAACACTTCAATTTA
* * * * * *
25535191 CAGTACTTAAACAGTTCAATTTACAACA-TTTAAGCACTTTAATTTACAACAT
64 CAGCATTTAAACACTTCAATTTGCAGCACTTTAA-CACTTCAATTTACAACAT
* * * *
25535243 TTAAACACTTCAATTTATAGCATTTAACACTTCAACTTGCAGC-ACTTTAACACTTCAATTTATA
1 TTAAACACTTCAATTTACAGCATTTAACACTTCAATTTGCAGCAACTTAAACACTTCAATTTACA
*
25535307 GCATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCAT
66 GCATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACAT
25535357 TTAAACACTTCAATTT
1 TTAAACACTTCAATTT
25535373 GCTGCACTTT
Statistics
Matches: 475, Mismatches: 83, Indels: 55
0.77 0.14 0.09
Matches are distributed among these distances:
111 1 0.00
112 59 0.12
113 52 0.11
114 253 0.53
115 102 0.21
116 8 0.02
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.34
Consensus pattern (115 bp):
TTAAACACTTCAATTTACAGCATTTAACACTTCAATTTGCAGCAACTTAAACACTTCAATTTACA
GCATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACAT
Found at i:25535382 original size:46 final size:45
Alignment explanation
Indices: 25534653--25535372 Score: 597
Period size: 46 Copynumber: 15.8 Consensus size: 45
25534643 TCAGCAACTA
* * * * * *
25534653 AACAATTCAATTTGCAGTACTTAAAAACTTCAATTTACAACATTT
1 AACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTT
* *
25534698 AAACACTTCAATTTGCAGCACTTT-AACACTTCAATTTACAACATTT
1 -AACACTTCAATTTACAGCA-TTTAAACACTTCAATTTACAGCATTT
* * * *
25534744 AAACACTTTAATTTGCAGCACTTT-AACA-TCTCAATTAACAACATTT
1 -AACACTTCAATTTACAGCA-TTTAAACACT-TCAATTTACAGCATTT
* * * * * *
25534790 ATACTCCTCAA-TTACAGCGA-TAAAACATTTCAATTT-CTAGCAACTA
1 A-ACACTTCAATTTACAGC-ATTTAAACACTTCAATTTAC-AGC-ATTT
* *
25534836 AACACTTCAATTTACAACATTTAAACAC-TCAATTTACATCATTT
1 AACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTT
* * *
25534880 AACACTTCAATTTGCAGCACTTT-AACA-TCTCAATTAACAACATTT
1 AACACTTCAATTTACAGCA-TTTAAACACT-TCAATTTACAGCATTT
* * * * *
25534925 ATACACCTCAA-TTACAGCGA-TAAAACA-TCTCAATTTCCAGCAACTA
1 A-ACACTTCAATTTACAGC-ATTTAAACACT-TCAATTTACAGC-ATTT
* * * *
25534971 AACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATTT
1 AACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTT
*
25535016 AAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTT
1 -AACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCA-TTT
*
25535063 AACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTT
1 AACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCA-TTT
* * * * * * *
25535109 AACATTTCAATTAACAACAATTATACACCTCAA-TTACAG-ATAT
1 AACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTT
* * ** * * *
25535152 AAAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGCAGTACTTA
1 AACAC-T-TCAATTTACAGCATTTAAACACTTCAATTTACAGCA-TTT
* * * * *
25535200 AACAGTTCAATTTACAACATTTAAGCACTTTAATTTACAACATTT
1 AACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTT
* * *
25535245 AAACACTTCAATTTATAGCATTT-AACACTTCAACTTGCAGCACTTT
1 -AACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCA-TTT
* *
25535291 AACACTTCAATTTATAGCATTTAAACACTTCAATTTGCAGCACTTT
1 AACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCA-TTT
25535337 AACACTTCAATTTACAGCATTTAAACACTTCAATTT
1 AACACTTCAATTTACAGCATTTAAACACTTCAATTT
25535373 GCTGCACTTT
Statistics
Matches: 554, Mismatches: 89, Indels: 62
0.79 0.13 0.09
Matches are distributed among these distances:
43 5 0.01
44 28 0.05
45 151 0.27
46 358 0.65
47 8 0.01
48 4 0.01
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.34
Consensus pattern (45 bp):
AACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTT
Found at i:25537060 original size:34 final size:34
Alignment explanation
Indices: 25537015--25537085 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
25537005 GAGCTTGGAG
*
25537015 ACGCTGCTGGAGAGTTTCTTGATTGAAAAGAGCA
1 ACGCTGCTGGAGAATTTCTTGATTGAAAAGAGCA
*
25537049 ACGCTGTTGGAGAATTTCTTGATTGAAAAGAGCA
1 ACGCTGCTGGAGAATTTCTTGATTGAAAAGAGCA
25537083 ACG
1 ACG
25537086 GAGGGGTGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (34 bp):
ACGCTGCTGGAGAATTTCTTGATTGAAAAGAGCA
Found at i:25538118 original size:21 final size:21
Alignment explanation
Indices: 25538096--25538137 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
25538086 AAAATCTAAA
25538096 CCCTAAACCCATAACCCATAAC
1 CCCT-AACCCATAACCCATAAC
* *
25538118 CCCTAACCCTTAACTCATAA
1 CCCTAACCCATAACCCATAA
25538138 ACATTAAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.38, C:0.43, G:0.00, T:0.19
Consensus pattern (21 bp):
CCCTAACCCATAACCCATAAC
Found at i:25538173 original size:28 final size:28
Alignment explanation
Indices: 25538094--25538175 Score: 82
Period size: 28 Copynumber: 2.9 Consensus size: 28
25538084 ATAAAATCTA
25538094 AACCC-TAAACCCATAACCCAT-AACCCCT
1 AACCCTTAAA-CCATAA-CCATAAACCCCT
*
25538122 AACCCTT-AACTCATAAACATTAAACCCC-
1 AACCCTTAAAC-CATAACCA-TAAACCCCT
25538150 AACCCTTAAACCATAATCCATAAACC
1 AACCCTTAAACCATAA-CCATAAACC
25538176 TTAAAATAGT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
27 3 0.07
28 31 0.67
29 12 0.26
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.18
Consensus pattern (28 bp):
AACCCTTAAACCATAACCATAAACCCCT
Found at i:25538720 original size:40 final size:40
Alignment explanation
Indices: 25538633--25538722 Score: 110
Period size: 40 Copynumber: 2.2 Consensus size: 40
25538623 TTTTTTTGCT
* *
25538633 GCGTTTTTCAAAAAGCGCCGCTAATGGTCGACCTATACTG
1 GCGTTTTTTAAAAAGCGCCGCTAATGCTCGACCTATACTG
** * *
25538673 GTATTTTTTAAAAAGCGCTGCTAATGCTCGATCTATAGC-G
1 GCGTTTTTTAAAAAGCGCCGCTAATGCTCGACCTATA-CTG
25538713 GCGTTTTTTA
1 GCGTTTTTTA
25538723 TCCAAACTCC
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
40 40 0.98
41 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.34
Consensus pattern (40 bp):
GCGTTTTTTAAAAAGCGCCGCTAATGCTCGACCTATACTG
Found at i:25540099 original size:8 final size:8
Alignment explanation
Indices: 25540086--25540111 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
25540076 TGGATTTTGA
25540086 GTATAAAT
1 GTATAAAT
25540094 GTATAAAT
1 GTATAAAT
25540102 GTATAAAT
1 GTATAAAT
25540110 GT
1 GT
25540112 GTGTGAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (8 bp):
GTATAAAT
Found at i:25553781 original size:35 final size:35
Alignment explanation
Indices: 25553639--25553769 Score: 138
Period size: 35 Copynumber: 3.6 Consensus size: 35
25553629 CCTCATTGAA
* * * *
25553639 ATACCATACCTAGATTTTACAACTCGGTATAGGA-A
1 ATACCATACCTACATTTCACAACTCAGTAT-GGATG
* **
25553674 ATGCCATACCTACATTTCTTAACTCAGTATGGATTTG
1 ATACCATACCTACATTTCACAACTCAGTATGGA--TG
25553711 ATAATACCATACCTACATTTCACAACTCAGTATGGATG
1 ---ATACCATACCTACATTTCACAACTCAGTATGGATG
25553749 ATACCATACCTACATTTCACA
1 ATACCATACCTACATTTCACA
25553770 CTTTTCCATG
Statistics
Matches: 80, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
34 3 0.04
35 45 0.56
38 2 0.03
40 30 0.38
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
ATACCATACCTACATTTCACAACTCAGTATGGATG
Found at i:25556662 original size:5 final size:6
Alignment explanation
Indices: 25556649--25556701 Score: 79
Period size: 6 Copynumber: 8.5 Consensus size: 6
25556639 ATAATTTAAT
*
25556649 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAATAA
25556699 AAA
1 AAA
25556702 AATATAATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 38 0.88
8 5 0.12
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:25556705 original size:26 final size:25
Alignment explanation
Indices: 25556649--25556701 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 25
25556639 ATAATTTAAT
*
25556649 AAATAAAAATAAAAATCTAAAACTAA
1 AAATAAAAATAAAAA-CTAAAAATAA
25556675 AAATAAAAATAAAAA-TAAAAATAA
1 AAATAAAAATAAAAACTAAAAATAA
25556699 AAA
1 AAA
25556702 AATATAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 11 0.42
26 15 0.58
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (25 bp):
AAATAAAAATAAAAACTAAAAATAA
Found at i:25560022 original size:21 final size:22
Alignment explanation
Indices: 25559995--25560042 Score: 89
Period size: 21 Copynumber: 2.2 Consensus size: 22
25559985 ATATTCATAC
25559995 ATGTGCAAATATCTCATTTATG
1 ATGTGCAAATATCTCATTTATG
25560017 -TGTGCAAATATCTCATTTATG
1 ATGTGCAAATATCTCATTTATG
25560038 ATGTG
1 ATGTG
25560043 GTCTATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (22 bp):
ATGTGCAAATATCTCATTTATG
Found at i:25560077 original size:14 final size:14
Alignment explanation
Indices: 25560058--25560089 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
25560048 TAAATGATTG
*
25560058 GTGAATGGTTGAAT
1 GTGAATAGTTGAAT
25560072 GTGAATAGTTGAAT
1 GTGAATAGTTGAAT
25560086 GTGA
1 GTGA
25560090 CCTAATGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (14 bp):
GTGAATAGTTGAAT
Found at i:25570987 original size:35 final size:35
Alignment explanation
Indices: 25570931--25571029 Score: 128
Period size: 35 Copynumber: 2.8 Consensus size: 35
25570921 TGTATGGCCA
* *
25570931 AATACACAAGGTTCATTATATCATCACATATGG-CTG
1 AATATACAA-GTTCAATATATCATCACATATGGTC-G
*
25570967 AATATACAAGTTCAATATATCATCATATATGGTCG
1 AATATACAAGTTCAATATATCATCACATATGGTCG
* *
25571002 AATATACAAGTTCAATAAAACATCACAT
1 AATATACAAGTTCAATATATCATCACAT
25571030 GTAGCCAAGT
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
35 47 0.84
36 9 0.16
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.30
Consensus pattern (35 bp):
AATATACAAGTTCAATATATCATCACATATGGTCG
Found at i:25571043 original size:35 final size:35
Alignment explanation
Indices: 25570967--25571046 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 35
25570957 CATATGGCTG
* * * * *
25570967 AATATACAAGTTCAATATATCATCATATATGGTCG
1 AATATACAAGTTCAATAAAACATCACATATAGTCC
*
25571002 AATATACAAGTTCAATAAAACATCACATGTAG-CC
1 AATATACAAGTTCAATAAAACATCACATATAGTCC
25571036 AAGTATACAAG
1 AA-TATACAAG
25571047 GTCATTTAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 3 0.08
35 35 0.92
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (35 bp):
AATATACAAGTTCAATAAAACATCACATATAGTCC
Found at i:25572775 original size:12 final size:13
Alignment explanation
Indices: 25572746--25572783 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
25572736 AATATATTGT
*
25572746 TTTTAATTTTTAA
1 TTTTAATTTATAA
25572759 TTTTAATTTAT-A
1 TTTTAATTTATAA
*
25572771 TTTTAATTAATAA
1 TTTTAATTTATAA
25572784 ATATTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTTAATTTATAA
Found at i:25589548 original size:146 final size:147
Alignment explanation
Indices: 25589227--25589575 Score: 402
Period size: 146 Copynumber: 2.4 Consensus size: 147
25589217 ATTGTGGTAC
* * * *
25589227 ACCAAAATTTCTAAGCGCAAATCCTTAGATATTTTGGTATAT-TCTATAATTTCTAAGGGAATAC
1 ACCAAAATTTCTAAGAGCAAATCCTTAGATATTTTGGTATATACCT-CAATTTCTAAAGGAATAC
* * * * **
25589291 TAATATTTTTATAGAATCTCGTAAGAAATTTTGGTATACCAAAATCATGTTGTACAAGCCTATAA
65 TAATATTTCTATAGAACCTCATAAGAAATTTTGATATACCAAAATCAAATTGTACAAGCCTATAA
*
25589356 CAAGATTTCTAATGAAAT
130 CAAGATTTCTAATAAAAT
* *** *
25589374 ACCAAAATTTTTAAGAGGTTATCTTTAGATATTTTGGTATATACCTCAATTTCTAAAGGAATA-T
1 ACCAAAATTTCTAAGAGCAAATCCTTAGATATTTTGGTATATACCTCAATTTCTAAAGGAATACT
* *
25589438 CAATATTTCTATGGAACCTCATTAG-AATTTTGATATACCAAAATCTAAATT-TACAAGCCTATA
66 -AATATTTCTATAGAACCTCATAAGAAATTTTGATATACCAAAATC-AAATTGTACAAGCCTATA
*
25589501 CCAAGATTTCTAATAAAAT
129 ACAAGATTTCTAATAAAAT
* ** * * *
25589520 ATCACTATTTCTAATAGCACATCCTTAGATATTTTAGTATATACC-CAAATTTCTAA
1 ACCAAAATTTCTAAGAGCAAATCCTTAGATATTTTGGTATATACCTC-AATTTCTAA
25589576 CAAGGTGGTA
Statistics
Matches: 169, Mismatches: 29, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
145 1 0.01
146 93 0.55
147 73 0.43
148 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (147 bp):
ACCAAAATTTCTAAGAGCAAATCCTTAGATATTTTGGTATATACCTCAATTTCTAAAGGAATACT
AATATTTCTATAGAACCTCATAAGAAATTTTGATATACCAAAATCAAATTGTACAAGCCTATAAC
AAGATTTCTAATAAAAT
Found at i:25593885 original size:23 final size:23
Alignment explanation
Indices: 25593855--25593901 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
25593845 TACTAAATTC
*
25593855 CCAAATAATGCGTTGAATCATGT
1 CCAAATAATGCATTGAATCATGT
25593878 CCAAATAATGCATTGAATCATGT
1 CCAAATAATGCATTGAATCATGT
25593901 C
1 C
25593902 TACAAGTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (23 bp):
CCAAATAATGCATTGAATCATGT
Found at i:25604057 original size:28 final size:29
Alignment explanation
Indices: 25603992--25604076 Score: 86
Period size: 28 Copynumber: 2.9 Consensus size: 29
25603982 GAAAATAAAC
*
25603992 CTAACTTATTAAAAATTCCTAAATATAAATT
1 CTAACTTATT-AAAA-CCCTAAATATAAATT
*
25604023 -TATCTTATTAAAACCCTAAATAT-AATT
1 CTAACTTATTAAAACCCTAAATATAAATT
* *
25604050 CTAACTTA-TAAGAACCTTAAATCTAAA
1 CTAACTTATTAA-AACCCTAAATATAAA
25604077 AAATAAATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
27 7 0.15
28 25 0.54
29 6 0.13
30 8 0.17
ACGTcount: A:0.47, C:0.15, G:0.01, T:0.36
Consensus pattern (29 bp):
CTAACTTATTAAAACCCTAAATATAAATT
Done.