Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold163
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: 1788591
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.32
Warning! 179834 characters in sequence are not A, C, G, or T
File 7 of 13
Found at i:710776 original size:23 final size:21
Alignment explanation
Indices: 710737--710843 Score: 74
Period size: 23 Copynumber: 5.0 Consensus size: 21
710727 CGATGATTAC
710737 TATATTTATATTATATTATAT
1 TATATTTATATTATATTATAT
* *
710758 TATATTTTGATATTTTATTTTAT
1 TATA-TTT-ATATTATATTATAT
* * * *
710781 TATAATTATTTTAAAATAT-T
1 TATATTTATATTATATTATAT
* * *
710801 TATATTTATA-TAAATTTTAA
1 TATATTTATATTATATTATAT
*
710821 TATATTAATAATTAATATTATAT
1 TATATTTAT-ATT-ATATTATAT
710844 AAATTTTAAA
Statistics
Matches: 63, Mismatches: 17, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
19 6 0.10
20 17 0.27
21 12 0.19
22 6 0.10
23 22 0.35
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (21 bp):
TATATTTATATTATATTATAT
Found at i:710817 original size:26 final size:27
Alignment explanation
Indices: 710788--710869 Score: 94
Period size: 32 Copynumber: 2.9 Consensus size: 27
710778 TATTATAATT
710788 ATTTTAAAATATT-TATATTTATATAA
1 ATTTTAAAATATTATATATTTATATAA
*
710814 ATTTTAATATATTAATAATTAATATTATATAA
1 ATTTTAAAATATT-AT-A-T-AT-TTATATAA
710846 ATTTTAAAATAATTATATATTTAT
1 ATTTTAAAAT-ATTATATATTTAT
710870 TTTATTTTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
26 12 0.26
28 5 0.11
29 3 0.06
30 2 0.04
31 3 0.06
32 19 0.40
33 3 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
ATTTTAAAATATTATATATTTATATAA
Found at i:710823 original size:18 final size:18
Alignment explanation
Indices: 710802--710852 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 18
710792 TAAAATATTT
710802 ATATTTATATAAATTTTA
1 ATATTTATATAAATTTTA
710820 ATATATTA-AT-AA--TTA
1 ATAT-TTATATAAATTTTA
710835 ATA-TTATATAAATTTTA
1 ATATTTATATAAATTTTA
710852 A
1 A
710853 AATAATTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 11
0.72 0.00 0.28
Matches are distributed among these distances:
13 3 0.11
14 2 0.07
15 8 0.29
17 6 0.21
18 6 0.21
19 3 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATTTATATAAATTTTA
Found at i:711239 original size:19 final size:21
Alignment explanation
Indices: 711197--711244 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
711187 TTTTTTTATT
711197 TAAATTTAATAATAAAATATA
1 TAAATTTAATAATAAAATATA
711218 TAAATATTAAT-A-AAAATA-A
1 TAAAT-TTAATAATAAAATATA
711237 T-AATTTAA
1 TAAATTTAA
711245 ACTTAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.15
18 3 0.12
19 2 0.08
20 6 0.23
21 6 0.23
22 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAATTTAATAATAAAATATA
Found at i:711414 original size:3 final size:3
Alignment explanation
Indices: 711406--711434 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
711396 TGGTTAAAAT
711406 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
711435 TGTACTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:711415 original size:33 final size:36
Alignment explanation
Indices: 711344--711418 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
711334 ATGTCGTAAT
711344 TAAGATTTATCTTTTTTGGTTAAAATATAATAATAA
1 TAAGATTTATCTTTTTTGGTTAAAATATAATAATAA
711380 TAAGATTTATCTTTTTTGGTTAAAATATAATAATAA
1 TAAGATTTATCTTTTTTGGTTAAAATATAATAATAA
711416 TAA
1 TAA
711419 TAATAATAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.47
Consensus pattern (36 bp):
TAAGATTTATCTTTTTTGGTTAAAATATAATAATAA
Found at i:711982 original size:20 final size:19
Alignment explanation
Indices: 711957--712012 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 19
711947 GTCAAATTTT
711957 TTTGTTTGAAAAAATATTCA
1 TTTGTTTGAAAAAATATT-A
711977 TTTGTTTGAATAAAAT-TTA
1 TTTGTTTGAA-AAAATATTA
711996 TTT-TTATGAGAAAAATA
1 TTTGTT-TGA-AAAAATA
712013 ATATGAAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
18 2 0.06
19 12 0.38
20 13 0.41
21 5 0.16
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.46
Consensus pattern (19 bp):
TTTGTTTGAAAAAATATTA
Found at i:713535 original size:32 final size:32
Alignment explanation
Indices: 713492--713585 Score: 125
Period size: 32 Copynumber: 2.9 Consensus size: 32
713482 CGAACTGATC
* *
713492 CAAACTCGAAATGACCCAAATCCAAAATGACT
1 CAAACTTGAAATGACCCGAATCCAAAATGACT
* * *
713524 CGAACTTGAAATGACCCGAATCCGAAATAACT
1 CAAACTTGAAATGACCCGAATCCAAAATGACT
* *
713556 CAAACCTGAAATGACCCGAATTCAAAATGA
1 CAAACTTGAAATGACCCGAATCCAAAATGA
713586 TCCGAACCCG
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 52 1.00
ACGTcount: A:0.45, C:0.26, G:0.13, T:0.17
Consensus pattern (32 bp):
CAAACTTGAAATGACCCGAATCCAAAATGACT
Found at i:713599 original size:16 final size:16
Alignment explanation
Indices: 713498--713599 Score: 69
Period size: 16 Copynumber: 6.4 Consensus size: 16
713488 GATCCAAACT
* *
713498 CGAAATGACCCAAATC
1 CGAAATGACCCGAACC
* * *
713514 CAAAATGACTCGAACT
1 CGAAATGACCCGAACC
* *
713530 TGAAATGACCCGAATC
1 CGAAATGACCCGAACC
* * *
713546 CGAAATAACTCAAACC
1 CGAAATGACCCGAACC
* **
713562 TGAAATGACCCGAATT
1 CGAAATGACCCGAACC
* *
713578 CAAAATGATCCGAACC
1 CGAAATGACCCGAACC
713594 CGAAAT
1 CGAAAT
713600 AACTTAAATA
Statistics
Matches: 59, Mismatches: 27, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
16 59 1.00
ACGTcount: A:0.43, C:0.26, G:0.14, T:0.17
Consensus pattern (16 bp):
CGAAATGACCCGAACC
Found at i:713599 original size:32 final size:33
Alignment explanation
Indices: 713477--713599 Score: 110
Period size: 32 Copynumber: 3.8 Consensus size: 33
713467 TCAACAACTT
* * *
713477 GAATCCGAACTGATC-CAAACTCGAAATGACCC
1 GAATCCAAAATGATCTCAAACCCGAAATGACCC
* * **
713509 AAATCCAAAATGA-CTCGAACTTGAAATGACCC
1 GAATCCAAAATGATCTCAAACCCGAAATGACCC
* * *
713541 GAATCCGAAAT-AACTCAAACCTGAAATGACCC
1 GAATCCAAAATGATCTCAAACCCGAAATGACCC
* *
713573 GAATTCAAAATGATC-CGAACCCGAAAT
1 GAATCCAAAATGATCTCAAACCCGAAAT
713600 AACTTAAATA
Statistics
Matches: 74, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
31 2 0.03
32 70 0.95
33 2 0.03
ACGTcount: A:0.42, C:0.27, G:0.14, T:0.17
Consensus pattern (33 bp):
GAATCCAAAATGATCTCAAACCCGAAATGACCC
Found at i:714684 original size:16 final size:16
Alignment explanation
Indices: 714683--714732 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
714673 AATGACCCGA
714683 ACCCGAACCTGAAATG
1 ACCCGAACCTGAAATG
714699 ACCCGAATCC--AAAGTG
1 ACCCGAA-CCTGAAA-TG
714715 ACCCGAA-CTCGAAATG
1 ACCCGAACCT-GAAATG
714731 AC
1 AC
714733 TTGAACCCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
14 1 0.03
15 3 0.10
16 20 0.69
17 5 0.17
ACGTcount: A:0.38, C:0.32, G:0.18, T:0.12
Consensus pattern (16 bp):
ACCCGAACCTGAAATG
Found at i:714690 original size:22 final size:22
Alignment explanation
Indices: 714663--714705 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
714653 CCCGATTGAT
714663 CCGAACCTGAAATGACCCGAAC
1 CCGAACCTGAAATGACCCGAAC
714685 CCGAACCTGAAATGACCCGAA
1 CCGAACCTGAAATGACCCGAA
714706 TCCAAAGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.35, G:0.19, T:0.09
Consensus pattern (22 bp):
CCGAACCTGAAATGACCCGAAC
Found at i:716048 original size:23 final size:23
Alignment explanation
Indices: 716020--716067 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
716010 TTAAATATAA
* *
716020 AATTTTATTAAATATTTTTATTT
1 AATTTTATTAAATACTGTTATTT
*
716043 AATTTTATTAATTACTGTTATTT
1 AATTTTATTAAATACTGTTATTT
716066 AA
1 AA
716068 AAATTTAGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
AATTTTATTAAATACTGTTATTT
Found at i:716583 original size:19 final size:20
Alignment explanation
Indices: 716549--716586 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
716539 TAAATTATTA
716549 TTTATTAATAAAAATAATAT
1 TTTATTAATAAAAATAATAT
*
716569 TTTATTAA-AATAATAATA
1 TTTATTAATAAAAATAATA
716587 ATAAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTATTAATAAAAATAATAT
Found at i:721112 original size:126 final size:126
Alignment explanation
Indices: 720887--721144 Score: 516
Period size: 126 Copynumber: 2.0 Consensus size: 126
720877 TATCTTTGTC
720887 AGCCCTAGTTTTGCCTCTTGTGGATTGGACTGCAGCATCGCTGCCAATATGACCAGTACTGTCTT
1 AGCCCTAGTTTTGCCTCTTGTGGATTGGACTGCAGCATCGCTGCCAATATGACCAGTACTGTCTT
720952 GGTGGTCAATTCTTGAAGAAGAGCCAGACGCATCAGACCCACCTTGATATTGAATCCTCCA
66 GGTGGTCAATTCTTGAAGAAGAGCCAGACGCATCAGACCCACCTTGATATTGAATCCTCCA
721013 AGCCCTAGTTTTGCCTCTTGTGGATTGGACTGCAGCATCGCTGCCAATATGACCAGTACTGTCTT
1 AGCCCTAGTTTTGCCTCTTGTGGATTGGACTGCAGCATCGCTGCCAATATGACCAGTACTGTCTT
721078 GGTGGTCAATTCTTGAAGAAGAGCCAGACGCATCAGACCCACCTTGATATTGAATCCTCCA
66 GGTGGTCAATTCTTGAAGAAGAGCCAGACGCATCAGACCCACCTTGATATTGAATCCTCCA
721139 AGCCCT
1 AGCCCT
721145 TGCTAACCAC
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
126 132 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.28
Consensus pattern (126 bp):
AGCCCTAGTTTTGCCTCTTGTGGATTGGACTGCAGCATCGCTGCCAATATGACCAGTACTGTCTT
GGTGGTCAATTCTTGAAGAAGAGCCAGACGCATCAGACCCACCTTGATATTGAATCCTCCA
Found at i:722327 original size:17 final size:18
Alignment explanation
Indices: 722283--722329 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
722273 TTTTTAAATT
*
722283 TTTTTTATATT-TAATAA
1 TTTTTTAAATTATAATAA
*
722300 TTATATTAAATTATAA-AA
1 TT-TTTTAAATTATAATAA
722318 TTTTTTAAATTA
1 TTTTTTAAATTA
722330 AATTTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 11 0.44
18 11 0.44
19 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTTTAAATTATAATAA
Found at i:722391 original size:5 final size:5
Alignment explanation
Indices: 722372--722451 Score: 72
Period size: 5 Copynumber: 15.2 Consensus size: 5
722362 TTTAAATTAA
* * *
722372 AATAT TATAT AAATAT AATAT AA-AT AAAAT AATTAA AATAT AATAT AATAT
1 AATAT AATAT -AATAT AATAT AATAT AATAT AA-TAT AATAT AATAT AATAT
*
722423 AATAT AATATT AACAT ATATAT ATATAT A
1 AATAT AATA-T AATAT A-ATAT A-ATAT A
722452 TGTATCTCAA
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
4 4 0.06
5 38 0.60
6 21 0.33
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (5 bp):
AATAT
Found at i:722423 original size:10 final size:10
Alignment explanation
Indices: 722372--722451 Score: 72
Period size: 11 Copynumber: 7.6 Consensus size: 10
722362 TTTAAATTAA
*
722372 AATATTATAT
1 AATATAATAT
722382 AAATATAATAT
1 -AATATAATAT
*
722393 AA-ATAAAAT
1 AATATAATAT
*
722402 AATTAAAATAT
1 AA-TATAATAT
722413 AATATAATAT
1 AATATAATAT
722423 AATATAATATT
1 AATATAATA-T
*
722434 AACATATATAT
1 AATATA-ATAT
722445 ATATATA
1 A-ATATA
722452 TGTATCTCAA
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
9 8 0.14
10 18 0.32
11 24 0.42
12 7 0.12
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (10 bp):
AATATAATAT
Found at i:722658 original size:2 final size:2
Alignment explanation
Indices: 722651--722677 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
722641 AGTACTCCAA
722651 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
722678 TTCTTTCTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:722887 original size:29 final size:28
Alignment explanation
Indices: 722825--722891 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 28
722815 AAGCATTACA
* **
722825 TTTATTAT-ATTATTTTTAAATTTAATT
1 TTTAATATAATTATTTTTAAAAATAATT
722852 TAATTAATATAATTATTTTTAAAAAATAATT
1 T--TTAATATAATTATTTTT-AAAAATAATT
722883 TTTAATATA
1 TTTAATATA
722892 TTTAAATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 1 0.03
29 14 0.42
30 9 0.27
31 9 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
TTTAATATAATTATTTTTAAAAATAATT
Found at i:723007 original size:4 final size:5
Alignment explanation
Indices: 722989--723046 Score: 52
Period size: 5 Copynumber: 12.2 Consensus size: 5
722979 AATATTTTTT
**
722989 ATTT- ATTTA ATTTA A-TTA ATTTA ATTTTA ATTTA A-TCG ATTTA A-TTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA A-TTTA ATTTA ATTTA ATTTA ATTTA
*
723036 AATTA ATTTA A
1 ATTTA ATTTA A
723047 ATATATTTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
4 14 0.32
5 25 0.57
6 5 0.11
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (5 bp):
ATTTA
Found at i:723007 original size:9 final size:9
Alignment explanation
Indices: 722989--723043 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
722979 AATATTTTTT
*
722989 ATTTATTTA
1 ATTTAATTA
722998 ATTTAATTA
1 ATTTAATTA
723007 ATTTAATTTTA
1 ATTTAA--TTA
**
723018 ATTTAATCG
1 ATTTAATTA
723027 ATTTAATTA
1 ATTTAATTA
*
723036 AATTAATT
1 ATTTAATT
723044 TAAATATATT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
9 29 0.76
11 9 0.24
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (9 bp):
ATTTAATTA
Found at i:723012 original size:14 final size:14
Alignment explanation
Indices: 722993--723057 Score: 60
Period size: 14 Copynumber: 4.5 Consensus size: 14
722983 TTTTTTATTT
722993 ATTTAATTTAATTA
1 ATTTAATTTAATTA
723007 ATTTAATTTTAATTTA
1 ATTTAA-TTTAA-TTA
**
723023 A-TCGATTTAATTA
1 ATTTAATTTAATTA
* *
723036 AATTAATTTAAATA
1 ATTTAATTTAATTA
723050 TATTTAAT
1 -ATTTAAT
723058 CATTTAATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
13 4 0.10
14 20 0.49
15 13 0.32
16 4 0.10
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (14 bp):
ATTTAATTTAATTA
Found at i:723030 original size:29 final size:30
Alignment explanation
Indices: 722998--723066 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 30
722988 TATTTATTTA
*
722998 ATTTAATTAATTTAATTT-TA-ATTTAATC
1 ATTTAATTAAATTAATTTATATATTTAATC
723026 GATTTAATTAAATTAATTTAAATATATTTAATC
1 -ATTTAATTAAATTAATTT--ATATATTTAATC
723059 ATTTAATT
1 ATTTAATT
723067 TATAATTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
29 17 0.49
32 10 0.29
33 8 0.23
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (30 bp):
ATTTAATTAAATTAATTTATATATTTAATC
Found at i:723074 original size:20 final size:19
Alignment explanation
Indices: 722996--723074 Score: 62
Period size: 20 Copynumber: 4.3 Consensus size: 19
722986 TTTATTTATT
* *
722996 TAATTTAATTAATTTAATTT
1 TAATTTAA-TCATTTAATTA
723016 TAATTTAATCGATTTAATTA
1 TAATTTAATC-ATTTAATTA
*
723036 -AA-TT-A--ATTTAAATA
1 TAATTTAATCATTTAATTA
723050 T-ATTTAATCATTTAATTTA
1 TAATTTAATCATTTAA-TTA
723069 TAATTT
1 TAATTT
723075 TAAAATTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 16
0.70 0.06 0.24
Matches are distributed among these distances:
14 9 0.19
15 2 0.04
16 1 0.02
17 1 0.02
18 8 0.17
19 6 0.13
20 20 0.43
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (19 bp):
TAATTTAATCATTTAATTA
Found at i:723284 original size:22 final size:22
Alignment explanation
Indices: 723259--723300 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
723249 TTTTAACTTT
* *
723259 TTTTATCATTTGATTTAATTAA
1 TTTTATAATTTAATTTAATTAA
723281 TTTTATAATTTAATTTAATT
1 TTTTATAATTTAATTTAATT
723301 TATAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTTATAATTTAATTTAATTAA
Found at i:723293 original size:17 final size:17
Alignment explanation
Indices: 723271--723305 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
723261 TTATCATTTG
723271 ATTTAA-TTAATTTTATA
1 ATTTAATTTAA-TTTATA
723288 ATTTAATTTAATTTATA
1 ATTTAATTTAATTTATA
723305 A
1 A
723306 AATTTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTAATTTAATTTATA
Found at i:723566 original size:2 final size:2
Alignment explanation
Indices: 723559--723610 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
723549 TAGTAAAGTG
723559 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
723601 TA TA TA TA TA
1 TA TA TA TA TA
723611 AAGTATTTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:725466 original size:2 final size:2
Alignment explanation
Indices: 725454--725490 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
725444 AAAATAACTC
*
725454 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
725491 ACTTACCTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:725595 original size:16 final size:17
Alignment explanation
Indices: 725576--725652 Score: 65
Period size: 16 Copynumber: 4.8 Consensus size: 17
725566 AATAGTATGT
725576 ATTTTAAAA-AATTTAA
1 ATTTTAAAATAATTTAA
*
725592 A-TTTAAAATGATTTAA
1 ATTTTAAAATAATTTAA
* * *
725608 A-TTCAAAAAAAATTATA
1 ATTTTAAAATAATTTA-A
725625 A-TTTAAAATAATTTAA
1 ATTTTAAAATAATTTAA
*
725641 A-TTCAAAATAAT
1 ATTTTAAAATAAT
725653 CCAATCTAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
15 7 0.14
16 30 0.60
17 13 0.26
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (17 bp):
ATTTTAAAATAATTTAA
Found at i:725628 original size:33 final size:32
Alignment explanation
Indices: 725581--725648 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
725571 TATGTATTTT
* *
725581 AAAAAATTTAAATTTAAAATGATTTAAATTCA
1 AAAAAAATTAAATTTAAAATAATTTAAATTCA
725613 AAAAAAATTATAATTTAAAATAATTTAAATTCA
1 AAAAAAATTA-AATTTAAAATAATTTAAATTCA
725646 AAA
1 AAA
725649 TAATCCAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 9 0.27
33 24 0.73
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.35
Consensus pattern (32 bp):
AAAAAAATTAAATTTAAAATAATTTAAATTCA
Found at i:726977 original size:24 final size:22
Alignment explanation
Indices: 726933--726978 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
726923 AGAGTTAAAA
*
726933 ATTTAATATCTAATTTTTCAAT
1 ATTTAATATCTAATTTATCAAT
*
726955 ATTTAATATATTAAGTTTATCAAT
1 ATTTAATAT-CTAA-TTTATCAAT
726979 TAGCAACTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 9 0.45
23 3 0.15
24 8 0.40
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (22 bp):
ATTTAATATCTAATTTATCAAT
Found at i:727784 original size:16 final size:16
Alignment explanation
Indices: 727763--727822 Score: 75
Period size: 16 Copynumber: 3.7 Consensus size: 16
727753 ATTGAAATAT
*
727763 TTTAAAATTTTAAAAA
1 TTTAAAATTATAAAAA
*
727779 TTTAAAATAATAAAAA
1 TTTAAAATTATAAAAA
*
727795 TTTAAAAATATAAAAA
1 TTTAAAATTATAAAAA
*
727811 TAATAAAATTAT
1 T-TTAAAATTAT
727823 TTAATTCAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
16 29 0.78
17 8 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TTTAAAATTATAAAAA
Found at i:727792 original size:24 final size:25
Alignment explanation
Indices: 727765--727820 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 25
727755 TGAAATATTT
*
727765 TAAAATTTTAAAAAT-TTAAAATAA
1 TAAAATTTTAAAAATATAAAAATAA
*
727789 TAAAAATTTAAAAATATAAAAATAA
1 TAAAATTTTAAAAATATAAAAATAA
727814 TAAAATT
1 TAAAATT
727821 ATTTAATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 14 0.50
25 14 0.50
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (25 bp):
TAAAATTTTAAAAATATAAAAATAA
Found at i:727802 original size:8 final size:8
Alignment explanation
Indices: 727763--727811 Score: 55
Period size: 8 Copynumber: 6.1 Consensus size: 8
727753 ATTGAAATAT
*
727763 TTTAAAAT
1 TTTAAAAA
727771 TTTAAAAA
1 TTTAAAAA
727779 TTT-AAAA
1 TTTAAAAA
*
727786 TAATAAAAA
1 T-TTAAAAA
727795 TTTAAAAA
1 TTTAAAAA
*
727803 TATAAAAA
1 TTTAAAAA
727811 T
1 T
727812 AATAAAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
7 5 0.14
8 25 0.71
9 5 0.14
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
TTTAAAAA
Found at i:729276 original size:12 final size:12
Alignment explanation
Indices: 729254--729304 Score: 57
Period size: 12 Copynumber: 3.9 Consensus size: 12
729244 AACTGTGCCG
729254 TCAATTTTGAAAT
1 TCAA-TTTGAAAT
729267 TCAATTTGAAAT
1 TCAATTTGAAAT
*
729279 AGTAAATGTTGAAAT
1 --TCAAT-TTGAAAT
729294 TCAATTTGAAA
1 TCAATTTGAAA
729305 CAGTGAAGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
12 14 0.42
13 8 0.24
14 4 0.12
15 7 0.21
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (12 bp):
TCAATTTGAAAT
Found at i:729316 original size:27 final size:27
Alignment explanation
Indices: 729260--729316 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
729250 GCCGTCAATT
* *
729260 TTGAAATTCAATTTGAAATAGTAAATG
1 TTGAAATTCAATTTGAAACAGTAAAGG
*
729287 TTGAAATTCAATTTGAAACAGTGAAGG
1 TTGAAATTCAATTTGAAACAGTAAAGG
729314 TTG
1 TTG
729317 CATAGTACCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.35
Consensus pattern (27 bp):
TTGAAATTCAATTTGAAACAGTAAAGG
Found at i:729381 original size:9 final size:9
Alignment explanation
Indices: 729367--729399 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
729357 AGAAGGCTCA
729367 AGCAGAGAC
1 AGCAGAGAC
729376 AGCAGAGAC
1 AGCAGAGAC
*
729385 AGCAGAGAT
1 AGCAGAGAC
729394 AGCAGA
1 AGCAGA
729400 AAGAGAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.45, C:0.18, G:0.33, T:0.03
Consensus pattern (9 bp):
AGCAGAGAC
Found at i:734057 original size:12 final size:12
Alignment explanation
Indices: 734035--734085 Score: 57
Period size: 12 Copynumber: 3.9 Consensus size: 12
734025 AACTGTGCCG
734035 TCAATTTTGAAAT
1 TCAA-TTTGAAAT
734048 TCAATTTGAAAT
1 TCAATTTGAAAT
*
734060 AGTAAATGTTGAAAT
1 --TCAAT-TTGAAAT
734075 TCAATTTGAAA
1 TCAATTTGAAA
734086 CAGTGAAGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
12 14 0.42
13 8 0.24
14 4 0.12
15 7 0.21
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (12 bp):
TCAATTTGAAAT
Found at i:734097 original size:27 final size:27
Alignment explanation
Indices: 734041--734097 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
734031 GCCGTCAATT
* *
734041 TTGAAATTCAATTTGAAATAGTAAATG
1 TTGAAATTCAATTTGAAACAGTAAAGG
*
734068 TTGAAATTCAATTTGAAACAGTGAAGG
1 TTGAAATTCAATTTGAAACAGTAAAGG
734095 TTG
1 TTG
734098 CATAGTACCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.35
Consensus pattern (27 bp):
TTGAAATTCAATTTGAAACAGTAAAGG
Found at i:734162 original size:9 final size:9
Alignment explanation
Indices: 734148--734180 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
734138 AGAAGGCTCA
734148 AGCAGAGAC
1 AGCAGAGAC
734157 AGCAGAGAC
1 AGCAGAGAC
*
734166 AGCAGAGAT
1 AGCAGAGAC
734175 AGCAGA
1 AGCAGA
734181 AAGAGAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.45, C:0.18, G:0.33, T:0.03
Consensus pattern (9 bp):
AGCAGAGAC
Found at i:737125 original size:2 final size:2
Alignment explanation
Indices: 737118--737151 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
737108 CTGCTTTTAA
737118 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
737152 GTTAAAAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:738527 original size:20 final size:20
Alignment explanation
Indices: 738499--738543 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
738489 TGTAATATAC
*
738499 GTATTGATATAAATC-ATATT
1 GTATCGATATAAATCTAT-TT
*
738519 GTATCGATATAATTCTATTT
1 GTATCGATATAAATCTATTT
738539 GTATC
1 GTATC
738544 AACATATTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.33, C:0.09, G:0.11, T:0.47
Consensus pattern (20 bp):
GTATCGATATAAATCTATTT
Found at i:745970 original size:18 final size:18
Alignment explanation
Indices: 745913--745971 Score: 59
Period size: 17 Copynumber: 3.3 Consensus size: 18
745903 TTGTACTCAA
*
745913 ATAAATTTTTATTTCAAAT
1 ATAAATATTTATTT-AAAT
* **
745932 A-AAATATTAATTTTTAT
1 ATAAATATTTATTTAAAT
745949 -TAAATATTTATTTAAAT
1 ATAAATATTTATTTAAAT
745966 ATAAAT
1 ATAAAT
745972 TAAAGGTTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
17 15 0.48
18 15 0.48
19 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
ATAAATATTTATTTAAAT
Found at i:747731 original size:51 final size:51
Alignment explanation
Indices: 747571--747741 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
747561 GAAATAACGA
* * *
747571 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
747623 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
747676 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
747727 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
747742 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:747787 original size:27 final size:28
Alignment explanation
Indices: 747724--747799 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
747714 AAAATAAAGT
*
747724 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
747752 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
747779 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
747800 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:750287 original size:14 final size:14
Alignment explanation
Indices: 750268--750294 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
750258 ACAAAGATCC
750268 ATGTATCGATACAA
1 ATGTATCGATACAA
750282 ATGTATCGATACA
1 ATGTATCGATACA
750295 TTTCCTTGGC
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (14 bp):
ATGTATCGATACAA
Found at i:750338 original size:19 final size:18
Alignment explanation
Indices: 750314--750381 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
750304 CAGTAGCTAA
750314 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
750333 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
750348 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
750365 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
750382 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:750354 original size:13 final size:13
Alignment explanation
Indices: 750336--750360 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
750326 ACAATACTTA
750336 TGTATCGATACAT
1 TGTATCGATACAT
750349 TGTATCGATACA
1 TGTATCGATACA
750361 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:750358 original size:32 final size:32
Alignment explanation
Indices: 750317--750379 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
750307 TAGCTAATTA
*
750317 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
750349 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
750380 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:750461 original size:21 final size:21
Alignment explanation
Indices: 750437--750493 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
750427 CATTTGTAGG
750437 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
750458 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
750479 ATGTATCGATACATT
1 ATGTATCGATACATT
750494 TAAATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:750520 original size:13 final size:13
Alignment explanation
Indices: 750504--750529 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
750494 TAAATTTTTT
750504 TTTTTTTTTTTCA
1 TTTTTTTTTTTCA
750517 TTTTTTTTTTTCA
1 TTTTTTTTTTTCA
750530 AACACTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTTTTTTCA
Found at i:751174 original size:55 final size:55
Alignment explanation
Indices: 751090--752482 Score: 2164
Period size: 55 Copynumber: 25.3 Consensus size: 55
751080 ATAAATTGTA
* * * * * *
751090 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAA-AGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
751145 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCCACTTGTGTGGGCTTTGAA-AAGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
751200 TCCTGCTCTTTGGGGAATGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
751255 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
751310 TCCTGTTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
751365 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
751420 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
751475 TCCTGCTCTTTGAGGACTGGACAA--TGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GA-AAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
751530 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
751585 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
751640 TCCTGCTCGTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* * *
751695 TCCTGCTCTTTGAGGATTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
751750 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
751805 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
751860 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
751915 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
751970 TCCTGCTCTTTGAGGACTGGACAA--TGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GA-AAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
752025 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
752080 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
752135 TCCTGCTCGTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* * *
752190 TCCTGCTCTTTGAGGATTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
752245 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
752300 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
752355 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
752410 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
752465 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
752483 AAAAAGCGGA
Statistics
Matches: 1271, Mismatches: 38, Indels: 58
0.93 0.03 0.04
Matches are distributed among these distances:
53 4 0.00
54 32 0.03
55 1201 0.94
56 30 0.02
57 4 0.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:752320 original size:26 final size:26
Alignment explanation
Indices: 752291--752435 Score: 96
Period size: 26 Copynumber: 5.3 Consensus size: 26
752281 GTGTGGGCTT
752291 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGAGGAC
** * * *
752317 TGAAAGGTG-CCACCAACTTGTGTGGGC
1 TGAAAGGTGTCCTGC-TCTT-TGAGGAC
*
752344 TTTAAGAGGTGTCCTGCTCTTTGAGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGAGGAC
** * * *
752372 TGAAAGGTG-CCACCAACTTGTGTGGGC
1 TGAAAGGTGTCCTGC-TCTT-TGAGGAC
*
752399 TTTAAGAGGTGTCCTGCTCTTTGAGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGAGGAC
752427 TGAAAGGTG
1 TGAAAGGTG
752436 CCACCAACTT
Statistics
Matches: 85, Mismatches: 24, Indels: 20
0.66 0.19 0.16
Matches are distributed among these distances:
25 6 0.07
26 25 0.29
27 16 0.19
28 16 0.19
29 16 0.19
30 6 0.07
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.29
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGAGGAC
Found at i:753488 original size:13 final size:13
Alignment explanation
Indices: 753465--753498 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
753455 TTTTCTCTCT
753465 TTTTCTTTGTTTTG
1 TTTT-TTTGTTTTG
753479 TTTTTTTGTTTTG
1 TTTTTTTGTTTTG
753492 TTTTTTT
1 TTTTTTT
753499 TTCCTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (13 bp):
TTTTTTTGTTTTG
Found at i:917744 original size:24 final size:25
Alignment explanation
Indices: 917717--917778 Score: 58
Period size: 24 Copynumber: 2.6 Consensus size: 25
917707 AATTTAAATT
917717 TTTAAATTA-AAATTAATAAT-TATA
1 TTTAAATTATAAATT-ATAATATATA
*
917741 TTT-ATTTATAAATTATAATATATA
1 TTTAAATTATAAATTATAATATATA
* **
917765 ATTAAGGTATAAAT
1 TTTAAATTATAAAT
917779 AAAAATTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
23 9 0.29
24 14 0.45
25 8 0.26
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (25 bp):
TTTAAATTATAAATTATAATATATA
Found at i:918014 original size:15 final size:17
Alignment explanation
Indices: 917979--918014 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
917969 ATATAATTAT
917979 TAAAAATATTAAAAGTA
1 TAAAAATATTAAAAGTA
917996 TAAAAA-ATTAAAA-TA
1 TAAAAATATTAAAAGTA
918011 TAAA
1 TAAA
918015 TATAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 7 0.37
17 6 0.32
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (17 bp):
TAAAAATATTAAAAGTA
Found at i:918032 original size:11 final size:12
Alignment explanation
Indices: 918018--918059 Score: 52
Period size: 11 Copynumber: 3.6 Consensus size: 12
918008 ATATAAATAT
918018 AATATATA-TTA
1 AATATATATTTA
*
918029 AATATATTATTTT
1 AATATA-TATTTA
918042 AAT-TATATTTA
1 AATATATATTTA
918053 AATATAT
1 AATATAT
918060 TATATTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 14 0.54
12 7 0.27
13 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
AATATATATTTA
Found at i:918044 original size:24 final size:23
Alignment explanation
Indices: 918017--918075 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 23
918007 AATATAAATA
918017 TAATATATATTAAATATATTATTT
1 TAAT-TATATTAAATATATTATTT
918041 TAATTATATTTAAATATATTATATT
1 TAATTATA-TTAAATATATTAT-TT
918066 T-ATTATATTA
1 TAATTATATTA
918076 TTTATTATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.21
24 23 0.70
25 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TAATTATATTAAATATATTATTT
Found at i:918068 original size:21 final size:22
Alignment explanation
Indices: 918020--918089 Score: 74
Period size: 24 Copynumber: 3.1 Consensus size: 22
918010 ATAAATATAA
918020 TATATATTAAATATATTAT-TT
1 TATATATTAAATATATTATATT
918041 TAATTATATTTAAATATATTATATT
1 T-A-TATA-TTAAATATATTATATT
*
918066 TATTATATT--ATTTATTATATT
1 TA-TATATTAAATATATTATATT
918087 TAT
1 TAT
918090 TAATTATATT
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
20 1 0.02
21 14 0.32
22 1 0.02
23 6 0.14
24 19 0.43
25 3 0.07
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TATATATTAAATATATTATATT
Found at i:918071 original size:9 final size:9
Alignment explanation
Indices: 918019--918100 Score: 52
Period size: 9 Copynumber: 9.7 Consensus size: 9
918009 TATAAATATA
*
918019 ATATATATT
1 ATATTTATT
* *
918028 AAATATATT
1 ATATTTATT
918037 AT-TTTAATT
1 ATATTT-ATT
918046 ATATTTA--
1 ATATTTATT
*
918053 A-ATATATT
1 ATATTTATT
918061 ATATTTATT
1 ATATTTATT
918070 ATA-TTATT
1 ATATTTATT
918078 -TATTATATT
1 ATATT-TATT
*
918087 -TATTAATT
1 ATATTTATT
918095 ATATTT
1 ATATTT
918101 TATTCATATC
Statistics
Matches: 58, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
6 4 0.07
7 3 0.05
8 12 0.21
9 36 0.62
10 3 0.05
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
ATATTTATT
Found at i:918073 original size:38 final size:38
Alignment explanation
Indices: 918011--918119 Score: 109
Period size: 38 Copynumber: 2.8 Consensus size: 38
918001 AATTAAAATA
* *
918011 TAAATATAATATATATTAAATATATTATTTTAATTATATT
1 TAAATAT-AT-TATATTTATTATATTATTTTAATTATATT
918051 TAAATATATTATATTTATTATATTA-TTT-ATTATATT
1 TAAATATATTATATTTATTATATTATTTTAATTATATT
* *
918087 T-ATTA-ATTATATTTTATTCATATCATATTTAAT
1 TAAATATATTATA-TTTATT-ATATTAT-TTTAAT
918120 ATTATCAATT
Statistics
Matches: 60, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
34 6 0.10
35 9 0.15
36 14 0.23
37 3 0.05
38 17 0.28
39 4 0.07
40 7 0.12
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (38 bp):
TAAATATATTATATTTATTATATTATTTTAATTATATT
Found at i:918079 original size:12 final size:12
Alignment explanation
Indices: 918062--918099 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
918052 AAATATATTA
918062 TATTTATTATAT
1 TATTTATTATAT
918074 TATTTATTATATT
1 TATTTATTATA-T
*
918087 TATTAATTATAT
1 TATTTATTATAT
918099 T
1 T
918100 TTATTCATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TATTTATTATAT
Found at i:918090 original size:21 final size:20
Alignment explanation
Indices: 918057--918096 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
918047 TATTTAAATA
918057 TATTATATTTATTATATTATT
1 TATTATATTTATTA-ATTATT
918078 TATTATATTTATTAATTAT
1 TATTATATTTATTAATTAT
918097 ATTTTATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TATTATATTTATTAATTATT
Found at i:918304 original size:21 final size:22
Alignment explanation
Indices: 918280--918322 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
918270 GTTTTAAAAG
918280 TAAAA-TTAATTATTATA-ATGA
1 TAAAATTTAA-TATTATAGATGA
918301 TAAAATTTAATATTATAGATGA
1 TAAAATTTAATATTATAGATGA
918323 GATTGATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (22 bp):
TAAAATTTAATATTATAGATGA
Found at i:918533 original size:22 final size:22
Alignment explanation
Indices: 918508--918569 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
918498 TAATATTTAA
918508 ATATTTTATTAATAAAATTATT
1 ATATTTTATTAATAAAATTATT
*
918530 ATATAATTATTAA-AAAATTATT
1 ATAT-TTTATTAATAAAATTATT
* *
918552 -TATTATATAAATATAAAT
1 ATATTTTATTAATA-AAAT
918570 ATAAATTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 5 0.15
21 4 0.12
22 17 0.52
23 7 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATATTTTATTAATAAAATTATT
Found at i:919691 original size:16 final size:16
Alignment explanation
Indices: 919670--919700 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
919660 TAAAAGTATA
*
919670 AAAAAATTAATAAATC
1 AAAAAATTAAAAAATC
919686 AAAAAATTAAAAAAT
1 AAAAAATTAAAAAAT
919701 AAATTAAGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAAAATTAAAAAATC
Found at i:920763 original size:61 final size:59
Alignment explanation
Indices: 920687--920800 Score: 147
Period size: 61 Copynumber: 1.9 Consensus size: 59
920677 AAAGCTTAAA
**
920687 TTTTTTAATAATTATCAAAATTATAAGTAACTATATTTAATATTCATTAAATTTAAGTAAT
1 TTTTTTAATAATTATCAAAATTATAAAAAACTATATTTAAT-TT-ATTAAATTTAAGTAAT
* ** * *
920748 TTTTTTAATATTTATCAATTTTATAAAAAATTATATTTAATTTTTTAAATTTA
1 TTTTTTAATAATTATCAAAATTATAAAAAACTATATTTAATTTATTAAATTTA
920801 TGATAATATC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
59 9 0.20
60 2 0.04
61 35 0.76
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (59 bp):
TTTTTTAATAATTATCAAAATTATAAAAAACTATATTTAATTTATTAAATTTAAGTAAT
Found at i:920770 original size:29 final size:30
Alignment explanation
Indices: 920687--920770 Score: 80
Period size: 29 Copynumber: 2.8 Consensus size: 30
920677 AAAGCTTAAA
* *
920687 TTTTTTAATAATTATCAAAATTATAAGTAACT
1 TTTTTTAATATTTATC--AATTTTAAGTAACT
* * * * *
920719 ATATTTAATATTCATTAAATTTAAGTAA-T
1 TTTTTTAATATTTATCAATTTTAAGTAACT
920748 TTTTTTAATATTTATCAATTTTA
1 TTTTTTAATATTTATCAATTTTA
920771 TAAAAAATTA
Statistics
Matches: 40, Mismatches: 12, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
29 19 0.47
30 10 0.25
32 11 0.28
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.52
Consensus pattern (30 bp):
TTTTTTAATATTTATCAATTTTAAGTAACT
Found at i:921322 original size:28 final size:26
Alignment explanation
Indices: 921291--921342 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
921281 TTATTTGTTC
921291 AAATTTGATTTGATAATTTAAAAATATT
1 AAATTTGATTT-A-AATTTAAAAATATT
* *
921319 AAATTTTATTTAAATTTATAAATA
1 AAATTTGATTTAAATTTAAAAATA
921343 AGTACTTTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 11 0.50
27 1 0.05
28 10 0.45
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (26 bp):
AAATTTGATTTAAATTTAAAAATATT
Found at i:923114 original size:17 final size:16
Alignment explanation
Indices: 923092--923127 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 16
923082 ATAAATAAAA
923092 ATTAAATATATATATAT
1 ATTAAATATATAT-TAT
923109 ATTAAATATATATTAT
1 ATTAAATATATATTAT
923125 ATT
1 ATT
923128 CGATATTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTAAATATATATTAT
Found at i:924355 original size:40 final size:37
Alignment explanation
Indices: 924305--924382 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 37
924295 ATAATGTAAT
924305 AAATAATTAAAA-TATAATATAAATATATTATTAAATAAA
1 AAATAATTAAAATTATAATA-AAATA-ATTATT-AATAAA
924344 AAATATATTAAAATTTATAATAAAATAATTATTAATAAA
1 AAATA-ATTAAAA-TTATAATAAAATAATTATTAATAAA
924383 TTAATTTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
39 11 0.31
40 13 0.36
41 5 0.14
42 7 0.19
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (37 bp):
AAATAATTAAAATTATAATAAAATAATTATTAATAAA
Found at i:924369 original size:29 final size:30
Alignment explanation
Indices: 924313--924371 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
924303 ATAAATAATT
* *
924313 AAAATATAATATAAATATATTATTAAATAA
1 AAAATATAATATAAATATATAATAAAATAA
* *
924343 AAAATATATTA-AAATTTATAATAAAATAA
1 AAAATATAATATAAATATATAATAAAATAA
924372 TTATTAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (30 bp):
AAAATATAATATAAATATATAATAAAATAA
Found at i:924395 original size:14 final size:15
Alignment explanation
Indices: 924319--924397 Score: 55
Period size: 12 Copynumber: 5.5 Consensus size: 15
924309 AATTAAAATA
924319 TAATATAAATATATTAT
1 TAATA-AAATA-ATTAT
924336 TAAATAAAA-AA-TA-
1 T-AATAAAATAATTAT
*
924349 TATTAAAAT--TTA-
1 TAATAAAATAATTAT
924361 TAATAAAATAATTAT
1 TAATAAAATAATTAT
*
924376 TAATAAATTAATT-T
1 TAATAAAATAATTAT
*
924390 TTATAAAA
1 TAATAAAA
924398 ATATATAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
12 16 0.31
13 1 0.02
14 12 0.24
15 13 0.25
16 1 0.02
17 4 0.08
18 4 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAATAAAATAATTAT
Found at i:925357 original size:18 final size:18
Alignment explanation
Indices: 925334--925368 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
925324 ATTGGTTCAG
* *
925334 TCAATTCAATTTATTAAA
1 TCAATTAAATTAATTAAA
925352 TCAATTAAATTAATTAA
1 TCAATTAAATTAATTAA
925369 TTATATAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (18 bp):
TCAATTAAATTAATTAAA
Found at i:925421 original size:16 final size:16
Alignment explanation
Indices: 925379--925422 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
925369 TTATATAAAA
*
925379 AATAAATATTAAATAT
1 AATAAATATTTAATAT
925395 AATAAATATTTAATAT
1 AATAAATATTTAATAT
*
925411 AATATATATTTA
1 AATAAATATTTA
925423 TTTATTGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATAAATATTTAATAT
Found at i:926922 original size:19 final size:20
Alignment explanation
Indices: 926882--926922 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
926872 ATGTAATCAT
*
926882 AATATAAAAATAATATAATA
1 AATATAAAAATAAAATAATA
*
926902 AATAT-AAAATAAAATATTA
1 AATATAAAAATAAAATAATA
926921 AA
1 AA
926923 AGATAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
AATATAAAAATAAAATAATA
Found at i:928652 original size:38 final size:38
Alignment explanation
Indices: 928574--928652 Score: 88
Period size: 38 Copynumber: 2.1 Consensus size: 38
928564 AATCCAAACC
* * **
928574 AATCAAAATCATAAAAATTAATATTTAAATTTTATTTA
1 AATCAAAATCAAAAAAATAAATATTTAAATTTTAAATA
* *
928612 AATC-AAATCAAAAAAATAAACTGTTTAATTTTTAAATA
1 AATCAAAATCAAAAAAATAAA-TATTTAAATTTTAAATA
928650 AAT
1 AAT
928653 TTTCCAAACA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
37 14 0.41
38 20 0.59
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.38
Consensus pattern (38 bp):
AATCAAAATCAAAAAAATAAATATTTAAATTTTAAATA
Found at i:929457 original size:16 final size:16
Alignment explanation
Indices: 929438--929469 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
929428 AATTAGAATA
*
929438 TAATTTAATAATAATT
1 TAATTTAACAATAATT
929454 TAATTTAACAATAATT
1 TAATTTAACAATAATT
929470 AAAGATAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATTTAACAATAATT
Found at i:929687 original size:29 final size:28
Alignment explanation
Indices: 929614--929715 Score: 82
Period size: 29 Copynumber: 3.5 Consensus size: 28
929604 AGTTTAGGGG
*
929614 TAAATATATTTTTGATAAAATATTAAAAAGA
1 TAAATATATTTTT--TTAAATATT-AAAAGA
*** *
929645 TAAATGGGTATTTTTAAATATTAGAAAGA
1 TAAATATATTTTTTTAAATATTA-AAAGA
*
929674 TAAATATATTTTTTATAAAATTTTAAAAGA
1 TAAATATATTTTTT-T-AAATATTAAAAGA
929704 T-AAT-TATTTTTT
1 TAAATATATTTTTT
929716 ATTATTATTA
Statistics
Matches: 58, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
28 9 0.16
29 26 0.45
30 7 0.12
31 16 0.28
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (28 bp):
TAAATATATTTTTTTAAATATTAAAAGA
Found at i:934005 original size:21 final size:21
Alignment explanation
Indices: 933939--934005 Score: 70
Period size: 20 Copynumber: 3.3 Consensus size: 21
933929 AATATAAAAT
*
933939 AATATATATAAATATAATATA
1 AATATATATAAAAATAATATA
*
933960 AA-A-AAATAAAAAT-ATA-A
1 AATATATATAAAAATAATATA
*
933977 TATAATATATAAAAATAATATA
1 AAT-ATATATAAAAATAATATA
933999 AATATAT
1 AATATAT
934006 TAACATTTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
17 2 0.06
18 3 0.08
19 9 0.25
20 10 0.28
21 9 0.25
22 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AATATATATAAAAATAATATA
Found at i:934508 original size:23 final size:23
Alignment explanation
Indices: 934480--934526 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
934470 AATTTATTTT
* * *
934480 ATTTTATATTTATATTTATATAA
1 ATTTTATAATTAAATTTAAATAA
934503 ATTTTATAATTAAATTTAAATAA
1 ATTTTATAATTAAATTTAAATAA
934526 A
1 A
934527 AATATATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTTTATAATTAAATTTAAATAA
Found at i:934538 original size:19 final size:19
Alignment explanation
Indices: 934516--934582 Score: 71
Period size: 21 Copynumber: 3.4 Consensus size: 19
934506 TTATAATTAA
934516 ATTTAAATAAAAATATATT
1 ATTTAAATAAAAATATATT
*
934535 ATTTAAATTAAAAAATATTTT
1 ATTTAAA-T-AAAAATATATT
* * *
934556 ATTTAAATTAAATTAAATT
1 ATTTAAATAAAAATATATT
934575 AATTTAAA
1 -ATTTAAA
934583 ATATAAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
19 14 0.35
20 9 0.22
21 17 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTAAATAAAAATATATT
Found at i:934548 original size:21 final size:21
Alignment explanation
Indices: 934516--934567 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
934506 TTATAATTAA
934516 ATTTAAA-T-AAAAATATATT
1 ATTTAAATTAAAAAATATATT
*
934535 ATTTAAATTAAAAAATATTTT
1 ATTTAAATTAAAAAATATATT
934556 ATTTAAATTAAA
1 ATTTAAATTAAA
934568 TTAAATTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 7 0.23
20 1 0.03
21 22 0.73
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTTAAATTAAAAAATATATT
Found at i:934902 original size:31 final size:31
Alignment explanation
Indices: 934865--934928 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
934855 TTTAAATTTA
934865 AATATTAATATT-AATAAAAATAATA-ATTTTT
1 AATATT-ATATTAAATAAAAA-AATAGATTTTT
* *
934896 AATATTATTTTAAATAATAAAATAGATTTTT
1 AATATTATATTAAATAAAAAAATAGATTTTT
934927 AA
1 AA
934929 GTTAATTCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 8 0.28
31 21 0.72
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (31 bp):
AATATTATATTAAATAAAAAAATAGATTTTT
Found at i:945449 original size:31 final size:31
Alignment explanation
Indices: 945393--945460 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
945383 CTTCCTTCCT
* *
945393 TTGCTGCTACTTCTCTTGCTAATCGTGTTTC
1 TTGCTGCTACTTCTCTTGCTAATCGTATTGC
*
945424 TTGCTGCT-CGTTCCTCTTG-TGATCGTATTGC
1 TTGCTGCTAC-TT-CTCTTGCTAATCGTATTGC
945455 TTGCTG
1 TTGCTG
945461 ATTATCCCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 1 0.03
31 25 0.78
32 6 0.19
ACGTcount: A:0.07, C:0.25, G:0.21, T:0.47
Consensus pattern (31 bp):
TTGCTGCTACTTCTCTTGCTAATCGTATTGC
Found at i:946016 original size:21 final size:24
Alignment explanation
Indices: 945992--946036 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
945982 GTTTTTTTAA
945992 TTTGAATA-TTA-TA-TTTTATTT
1 TTTGAATATTTAGTATTTTTATTT
*
946013 TTTGGATATTTAGTATTTTTATTT
1 TTTGAATATTTAGTATTTTTATTT
946037 GATTTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 7 0.35
22 3 0.15
23 2 0.10
24 8 0.40
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (24 bp):
TTTGAATATTTAGTATTTTTATTT
Found at i:946052 original size:29 final size:29
Alignment explanation
Indices: 945991--946104 Score: 74
Period size: 29 Copynumber: 3.9 Consensus size: 29
945981 CGTTTTTTTA
* * * *
945991 ATTTGAATATTATATTTTATTTTTTGGAT
1 ATTTGAATTTTTTATTTGATTTTTTGAAT
*
946020 ATTT-AGTATTTTTATTTGATTTTTT-AAT
1 ATTTGAAT-TTTTTATTTGATTTTTTGAAT
946048 AATTTGAATTTTTTATTTCTAGATTATTTT-AAT
1 -ATTTGAATTTTTTA-TT-T-GATT-TTTTGAAT
* * *
946081 TTTTTAATTTTTT-TTTTATTTTTT
1 ATTTGAATTTTTTATTTGATTTTTT
946105 CGTTTTATTA
Statistics
Matches: 69, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
27 4 0.06
28 7 0.10
29 29 0.42
30 6 0.09
31 1 0.01
32 15 0.22
33 7 0.10
ACGTcount: A:0.25, C:0.01, G:0.06, T:0.68
Consensus pattern (29 bp):
ATTTGAATTTTTTATTTGATTTTTTGAAT
Found at i:946110 original size:19 final size:19
Alignment explanation
Indices: 946071--946120 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
946061 TATTTCTAGA
*
946071 TTATTTTAATTTTTTAATT
1 TTATTTTTATTTTTTAATT
* **
946090 TTTTTTTTATTTTTTCGTT
1 TTATTTTTATTTTTTAATT
*
946109 TTATTATTATTT
1 TTATTTTTATTT
946121 AAATTTTATA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (19 bp):
TTATTTTTATTTTTTAATT
Found at i:947187 original size:14 final size:14
Alignment explanation
Indices: 947144--947200 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 14
947134 AAATAATAAT
* *
947144 AAAACAAAAAAATTA
1 AAAATAAAAAAA-TC
*
947159 AAAATCAAAATAATC
1 AAAAT-AAAAAAATC
947174 AAAATAAAAAAATC
1 AAAATAAAAAAATC
*
947188 AAATTAATAAAAA
1 AAAATAA-AAAAA
947201 ATCTAATACA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
14 14 0.40
15 15 0.43
16 6 0.17
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (14 bp):
AAAATAAAAAAATC
Found at i:947739 original size:16 final size:16
Alignment explanation
Indices: 947720--947763 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
947710 AGCACGAAAT
*
947720 ACGAGCAACAATGG-GA
1 ACGATCAACAA-GGAGA
*
947736 ACGATCAGCAAGGAGA
1 ACGATCAACAAGGAGA
947752 ACGATCAACAAG
1 ACGATCAACAAG
947764 CAATACGATC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 2 0.08
16 22 0.92
ACGTcount: A:0.45, C:0.20, G:0.27, T:0.07
Consensus pattern (16 bp):
ACGATCAACAAGGAGA
Found at i:947771 original size:16 final size:15
Alignment explanation
Indices: 947736--947828 Score: 60
Period size: 16 Copynumber: 5.9 Consensus size: 15
947726 AACAATGGGA
* *
947736 ACGATCAGCAAGGAG
1 ACGATCAACAAGAAG
*
947751 AACGATCAACAAGCAAT
1 -ACGATCAACAAG-AAG
* *
947768 ACGATCAGCAAGAGGG
1 ACGATCAACAAGA-AG
* * *
947784 ACAATCAGCAAGCAAT
1 ACGATCAACAAG-AAG
*
947800 ACGATCAATAAGAAGG
1 ACGATCAACAAGAA-G
947816 ACGATCAACAAGA
1 ACGATCAACAAGA
947829 GAAACAAGTA
Statistics
Matches: 59, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
15 3 0.05
16 54 0.92
17 2 0.03
ACGTcount: A:0.47, C:0.20, G:0.23, T:0.10
Consensus pattern (15 bp):
ACGATCAACAAGAAG
Found at i:947772 original size:32 final size:32
Alignment explanation
Indices: 947736--947827 Score: 114
Period size: 32 Copynumber: 2.9 Consensus size: 32
947726 AACAATGGGA
*
947736 ACGATCAGCAAGGAGAACGATCAACAAGCAAT
1 ACGATCAGCAAGGAGGACGATCAACAAGCAAT
* *
947768 ACGATCAGCAA-GAGGGACAATCAGCAAGCAAT
1 ACGATCAGCAAGGA-GGACGATCAACAAGCAAT
** *
947800 ACGATCAATAAGAAGGACGATCAACAAG
1 ACGATCAGCAAGGAGGACGATCAACAAG
947828 AGAAACAAGT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
31 2 0.04
32 47 0.94
33 1 0.02
ACGTcount: A:0.47, C:0.21, G:0.23, T:0.10
Consensus pattern (32 bp):
ACGATCAGCAAGGAGGACGATCAACAAGCAAT
Found at i:947791 original size:48 final size:48
Alignment explanation
Indices: 947739--947879 Score: 146
Period size: 48 Copynumber: 2.9 Consensus size: 48
947729 AATGGGAACG
* **
947739 ATCAGCAAGGAGA-ACGATCAACAAGCAATACGATCAGCAAGAGGGACA
1 ATCAGCAAGGAGATACGATCAATAAG-AATACGATCAGCAAGAGAAACA
* * *
947787 ATCAGCAAGCA-ATACGATCAATAAGAAGGACGATCAACAAGAGAAACA
1 ATCAGCAAGGAGATACGATCAATAAGAA-TACGATCAGCAAGAGAAACA
* *
947835 AGT-AGCAA-GAGATACGAGCAGTAAGAAATACGATCAGCAAGAGAA
1 A-TCAGCAAGGAGATACGATCAATAAG-AATACGATCAGCAAGAGAA
947880 GTAGCAGTAA
Statistics
Matches: 77, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
47 4 0.05
48 70 0.91
49 3 0.04
ACGTcount: A:0.49, C:0.18, G:0.23, T:0.10
Consensus pattern (48 bp):
ATCAGCAAGGAGATACGATCAATAAGAATACGATCAGCAAGAGAAACA
Found at i:947860 original size:16 final size:16
Alignment explanation
Indices: 947824--947878 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
947814 GGACGATCAA
* * *
947824 CAAGAGAAACAAGTAG
1 CAAGAGATACGAGCAG
947840 CAAGAGATACGAGCAG
1 CAAGAGATACGAGCAG
* * *
947856 TAAGAAATACGATCAG
1 CAAGAGATACGAGCAG
947872 CAAGAGA
1 CAAGAGA
947879 AGTAGCAGTA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.51, C:0.15, G:0.25, T:0.09
Consensus pattern (16 bp):
CAAGAGATACGAGCAG
Found at i:957120 original size:21 final size:23
Alignment explanation
Indices: 957079--957127 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
957069 TTAAAATTTT
*
957079 TTAAATTATAATTTTGCCTAA-C
1 TTAAATTATAATTTTGACTAAGC
957101 TTAAATT-TAA-TTTGAACTAAGC
1 TTAAATTATAATTTTG-ACTAAGC
957123 TTAAA
1 TTAAA
957128 AAACTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 4 0.17
21 7 0.29
22 13 0.54
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.43
Consensus pattern (23 bp):
TTAAATTATAATTTTGACTAAGC
Found at i:958886 original size:21 final size:22
Alignment explanation
Indices: 958849--958889 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
958839 ATAATAAAAA
958849 TTTAATTAATCTTTAAATTATC
1 TTTAATTAATCTTTAAATTATC
*
958871 TTTAATTACT-TTTAAATTA
1 TTTAATTAATCTTTAAATTA
958890 AATTATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTAATTAATCTTTAAATTATC
Found at i:959698 original size:28 final size:26
Alignment explanation
Indices: 959660--959723 Score: 65
Period size: 29 Copynumber: 2.3 Consensus size: 26
959650 AATTCTTATC
959660 TAAACTTTAAAGATAAGTAAAATTATTTT
1 TAAA-TTTAAAGATAA-TAAAATT-TTTT
* *
959689 TAAATTTAAAAGATCATAATATTTTTT
1 TAAATTT-AAAGATAATAAAATTTTTT
*
959716 TATATTTA
1 TAAATTTA
959724 TATATTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 1 0.03
27 10 0.32
28 9 0.29
29 11 0.35
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (26 bp):
TAAATTTAAAGATAATAAAATTTTTT
Found at i:959700 original size:29 final size:27
Alignment explanation
Indices: 959660--959723 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
959650 AATTCTTATC
959660 TAAACTTT-AAAGATAAGTAAAATTATTTT
1 TAAA-TTTAAAAGATAA-TAAAATT-TTTT
* *
959689 TAAATTTAAAAGATCATAATATTTTTT
1 TAAATTTAAAAGATAATAAAATTTTTT
*
959716 TATATTTA
1 TAAATTTA
959724 TATATTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 11 0.35
28 9 0.29
29 11 0.35
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (27 bp):
TAAATTTAAAAGATAATAAAATTTTTT
Found at i:963133 original size:160 final size:158
Alignment explanation
Indices: 962845--963135 Score: 363
Period size: 159 Copynumber: 1.8 Consensus size: 158
962835 TGACTTTTTG
* * * * * *
962845 CCATGGTTTGAGTCTATGGATGTAGCATCTTGCTAGCTTATGCCATGTTTTAGCGTATGTTCATA
1 CCATGGTTTGAGTCAATGGATGTAGCATCTTGCAAGCTAATGCCATGTTTGAGCGTATGGTAATA
* * *** * * **
962910 TGATACTCATTATAATTATCTTATTTGTCTGATTATCCTCCTTCATTGTGAAGGCGGTTTAGGAA
66 TGACACTCATTATAATTATCTCATCCATCTGATGATCCTACTTCATTGTGAAGGCAATTTAGGAA
962975 GGCACCTTGGTAGTCTGATGGCTGTTTA
131 GGCACCTTGGTAGTCTGATGGCTGTTTA
*
963003 CCATGGTTTGAGTCAATGGATGTAGCAT-TTAGCAAAGCTAATGGCATGTTTGAG-GCTATGGTA
1 CCATGGTTTGAGTCAATGGATGTAGCATCTT-GC-AAGCTAATGCCATGTTTGAGCG-TATGGTA
*
963066 ATATGGCCACTCATTAT-ATTATCTCATCCATCTGATGATTCCTACTTCATTGTGAAGGCAATTT
63 ATAT-GACACTCATTATAATTATCTCATCCATCTGATGA-TCCTACTTCATTGTGAAGGCAATTT
963130 AGGAAG
126 AGGAAG
963136 ACATCTTAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
157 2 0.02
158 30 0.27
159 41 0.37
160 38 0.34
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.37
Consensus pattern (158 bp):
CCATGGTTTGAGTCAATGGATGTAGCATCTTGCAAGCTAATGCCATGTTTGAGCGTATGGTAATA
TGACACTCATTATAATTATCTCATCCATCTGATGATCCTACTTCATTGTGAAGGCAATTTAGGAA
GGCACCTTGGTAGTCTGATGGCTGTTTA
Found at i:965449 original size:32 final size:32
Alignment explanation
Indices: 965404--965534 Score: 192
Period size: 32 Copynumber: 4.1 Consensus size: 32
965394 TTAGATATTG
965404 ATTA-TTTATTATAATTGTAAATATAATAGAC
1 ATTAGTTTATTATAATTGTAAATATAATAGAC
*
965435 ATTAGTTTATTATAATTGTAAATATAATAGAT
1 ATTAGTTTATTATAATTGTAAATATAATAGAC
* * *
965467 ATTAATTTATTATAATTATAAATATAATAGAT
1 ATTAGTTTATTATAATTGTAAATATAATAGAC
* * *
965499 ATTAGTCTATTATAATTGTAGATATAATAAAC
1 ATTAGTTTATTATAATTGTAAATATAATAGAC
965531 ATTA
1 ATTA
965535 TTATTCGAAT
Statistics
Matches: 90, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
31 4 0.04
32 86 0.96
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.45
Consensus pattern (32 bp):
ATTAGTTTATTATAATTGTAAATATAATAGAC
Found at i:971473 original size:2 final size:2
Alignment explanation
Indices: 971466--971496 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
971456 TTCTATCCCA
971466 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
971497 TCAAAGAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:976236 original size:25 final size:25
Alignment explanation
Indices: 976163--976244 Score: 69
Period size: 31 Copynumber: 3.1 Consensus size: 25
976153 TAATATTATA
976163 ATATTTTA-TTTTATTAAATTAAATT
1 ATATTTTATTTTTA-TAAATTAAATT
*
976188 ATCATTATAACTATTTTATTTAAATTAAATT
1 AT-ATT-T---TATTTT-TATAAATTAAATT
*
976219 ATATTTTATTTTTATAAAAT-AATT
1 ATATTTTATTTTTATAAATTAAATT
976243 AT
1 AT
976245 TTTATTATAA
Statistics
Matches: 47, Mismatches: 3, Indels: 15
0.72 0.05 0.23
Matches are distributed among these distances:
24 6 0.13
25 8 0.17
26 9 0.19
27 1 0.02
29 1 0.02
30 5 0.11
31 16 0.34
32 1 0.02
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (25 bp):
ATATTTTATTTTTATAAATTAAATT
Found at i:976238 original size:21 final size:22
Alignment explanation
Indices: 976194--976250 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
976184 AATTATCATT
* *
976194 ATAACTATTTTATTTAAATTAA
1 ATAATTATTTTATTTAAATAAA
* **
976216 ATTA-TATTTTATTTTTATAAA
1 ATAATTATTTTATTTAAATAAA
976237 ATAATTATTTTATT
1 ATAATTATTTTATT
976251 ATAAGTTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
ATAATTATTTTATTTAAATAAA
Found at i:976686 original size:20 final size:20
Alignment explanation
Indices: 976650--976688 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
976640 TATTTGATTT
**
976650 AATAAATTTAATTTAAATTA
1 AATAAATTTAAAATAAATTA
976670 AATAAATTTAAAATAAATT
1 AATAAATTTAAAATAAATT
976689 TTTATAATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AATAAATTTAAAATAAATTA
Found at i:978066 original size:22 final size:22
Alignment explanation
Indices: 978024--978066 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
978014 TTTAACGAAG
*
978024 ATATATTTATTATATTATAATT
1 ATATATTTATTAAATTATAATT
*
978046 ATAT-TTTATATAAATTTTAAT
1 ATATATTTAT-TAAATTATAAT
978067 AAATTAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
ATATATTTATTAAATTATAATT
Found at i:978093 original size:22 final size:22
Alignment explanation
Indices: 978065--978106 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
978055 ATAAATTTTA
*
978065 ATAAA-TTAATAATTTATATTAT
1 ATAAATTTAA-AATATATATTAT
978087 ATAAATTTAAAATATATATT
1 ATAAATTTAAAATATATATT
978107 TATTATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTTAAAATATATATTAT
Found at i:978166 original size:20 final size:20
Alignment explanation
Indices: 978074--978166 Score: 62
Period size: 22 Copynumber: 4.3 Consensus size: 20
978064 AATAAATTAA
*
978074 TAATTT-ATATTATATAAATT
1 TAATTTAATATTAT-TATATT
**
978094 TAAAATATATATTTATTATATT
1 TAATTTA-ATA-TTATTATATT
* *
978116 TAATTTTTATTTTTATTATATAAT
1 TAA--TTTAATATTATTATAT--T
978140 TATATTTAATATTATTATATT
1 TA-ATTTAATATTATTATATT
978161 TAATTT
1 TAATTT
978167 GATACTTTAT
Statistics
Matches: 56, Mismatches: 9, Indels: 16
0.69 0.11 0.20
Matches are distributed among these distances:
20 8 0.14
21 3 0.05
22 20 0.36
23 19 0.34
24 5 0.09
25 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TAATTTAATATTATTATATT
Found at i:978443 original size:20 final size:20
Alignment explanation
Indices: 978332--978459 Score: 68
Period size: 20 Copynumber: 6.2 Consensus size: 20
978322 AAATCATAAT
* *
978332 TTTAAATATA-AATATAATA
1 TTTAAATATATTATATTATA
*
978351 TATTAAAT-TATTATATTAATGTT
1 T-TTAAATATATTATATT-A--TA
* *
978374 TTTAAATATGTCATATTATA
1 TTTAAATATATTATATTATA
*
978394 TTTATTATAATATT-T-TTA-A
1 TTTA-AAT-ATATTATATTATA
978413 TTTTATTAATATATTATATTATA
1 -TTTA--AATATATTATATTATA
*
978436 TTTAAATATTTTATATTTATA
1 TTTAAATATATTATA-TTATA
978457 TTT
1 TTT
978460 TTATTCAAAA
Statistics
Matches: 84, Mismatches: 11, Indels: 26
0.69 0.09 0.21
Matches are distributed among these distances:
19 4 0.05
20 37 0.44
21 16 0.19
22 17 0.20
23 10 0.12
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTAAATATATTATATTATA
Found at i:978448 original size:37 final size:39
Alignment explanation
Indices: 978386--978458 Score: 100
Period size: 37 Copynumber: 1.9 Consensus size: 39
978376 TAAATATGTC
978386 ATATTATATTTATTATAATATTTTTA-ATTT-TATTAAT
1 ATATTATATTTATTATAATATTTTTATATTTATATTAAT
978423 ATATTATATTATATT-TAA-ATATTTTATATTTATATT
1 ATATTATATT-TATTATAATAT-TTTTATATTTATATT
978459 TTTATTCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
36 2 0.06
37 18 0.56
38 8 0.25
39 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (39 bp):
ATATTATATTTATTATAATATTTTTATATTTATATTAAT
Found at i:979200 original size:17 final size:16
Alignment explanation
Indices: 979159--979205 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
979149 ATTGTTTTGA
*
979159 AATTTTATTTAATTTT
1 AATTTTAATTAATTTT
979175 AATTTTAATTAATTTT
1 AATTTTAATTAATTTT
* *
979191 ATTATTTAATAAATT
1 AAT-TTTAATTAATT
979206 AAAATTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 17 0.63
17 10 0.37
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
AATTTTAATTAATTTT
Found at i:979265 original size:16 final size:17
Alignment explanation
Indices: 979241--979291 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 17
979231 ATATATTTTT
979241 ATAATTATATTTAAATAA
1 ATAA-TATATTTAAATAA
979259 A-AATATATTTTATTAATAA
1 ATAATATA-TTTA--AATAA
979278 ATAATA-ATTTAAAT
1 ATAATATATTTAAAT
979292 TAGATCGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
16 7 0.24
17 6 0.21
18 5 0.17
19 7 0.24
20 4 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATAATATATTTAAATAA
Found at i:979352 original size:5 final size:5
Alignment explanation
Indices: 979344--979406 Score: 60
Period size: 5 Copynumber: 12.8 Consensus size: 5
979334 TTTTATTTTA
* *
979344 AATAT AATAT AAATAT AATAT -ATTT AATA- AAAAT AATAT AATA- AATAT
1 AATAT AATAT -AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
*
979392 AAAAAT AATAT AATA
1 -AATAT AATAT AATA
979407 ATATATATTA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
4 10 0.21
5 28 0.60
6 9 0.19
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (5 bp):
AATAT
Found at i:979358 original size:11 final size:11
Alignment explanation
Indices: 979342--979404 Score: 66
Period size: 9 Copynumber: 6.3 Consensus size: 11
979332 AGTTTTATTT
979342 TAAATATAATA
1 TAAATATAATA
979353 TAAATATAATA
1 TAAATATAATA
*
979364 T--ATTTAATA
1 TAAATATAATA
979373 -AAA-ATAATA
1 TAAATATAATA
979382 T-AATA-AATA
1 TAAATATAATA
*
979391 TAAAAATAATA
1 TAAATATAATA
979402 TAA
1 TAA
979405 TAATATATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
9 19 0.44
10 5 0.12
11 19 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TAAATATAATA
Found at i:979381 original size:23 final size:20
Alignment explanation
Indices: 979344--979413 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
979334 TTTTATTTTA
*
979344 AATATAATATAAATATAATAT
1 AATA-AATATAAAAATAATAT
**
979365 -ATTTA-ATAAAAATAATAT
1 AATAAATATAAAAATAATAT
979383 AATAAATATAAAAATAATAT
1 AATAAATATAAAAATAATAT
979403 AATAATATATA
1 AATAA-ATATA
979414 TTATATTTAC
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
18 12 0.29
19 4 0.10
20 20 0.49
21 5 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AATAAATATAAAAATAATAT
Found at i:979409 original size:11 final size:11
Alignment explanation
Indices: 979344--979413 Score: 53
Period size: 11 Copynumber: 6.5 Consensus size: 11
979334 TTTTATTTTA
979344 AATATAAT-AT
1 AATATAATAAT
979354 AAATATAATATATTT
1 -AATATAATA-A--T
979369 AATA-AA-AAT
1 AATATAATAAT
979378 AATATAAT-A-
1 AATATAATAAT
*
979387 AATATAAAAAT
1 AATATAATAAT
979398 AATATAATAAT
1 AATATAATAAT
979409 -ATATA
1 AATATA
979414 TTATATTTAC
Statistics
Matches: 49, Mismatches: 2, Indels: 17
0.72 0.03 0.25
Matches are distributed among these distances:
9 12 0.24
10 9 0.18
11 19 0.39
12 1 0.02
13 3 0.06
14 4 0.08
15 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATATAATAAT
Found at i:979969 original size:3 final size:3
Alignment explanation
Indices: 979961--979993 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
979951 ATTTAATAAA
979961 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
979994 GAAACGCCGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:981137 original size:29 final size:31
Alignment explanation
Indices: 981104--981172 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 31
981094 AAATCGTAAT
981104 TTAAAAATAAAAAATTA-TAAATATTA-AAA
1 TTAAAAATAAAAAATTATTAAATATTATAAA
* * * **
981133 TT-AAATTTAAAATTTATTAAATATTATATT
1 TTAAAAATAAAAAATTATTAAATATTATAAA
981163 TTAAAAATAA
1 TTAAAAATAA
981173 TTATATATAT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
28 11 0.37
29 11 0.37
30 3 0.10
31 5 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (31 bp):
TTAAAAATAAAAAATTATTAAATATTATAAA
Found at i:981183 original size:23 final size:24
Alignment explanation
Indices: 981122--981185 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
981112 AAAAAATTAT
*
981122 AAAT-ATTAAA-ATTA-AATTTAA
1 AAATAATTAAATATTATATTTTAA
* *
981143 AATTTATTAAATATTATATTTTAA
1 AAATAATTAAATATTATATTTTAA
*
981167 AAATAATTATATA-TATATT
1 AAATAATTAAATATTATATT
981186 AATTAAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 3 0.09
22 6 0.17
23 10 0.29
24 16 0.46
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
AAATAATTAAATATTATATTTTAA
Found at i:982027 original size:33 final size:32
Alignment explanation
Indices: 981977--982075 Score: 98
Period size: 33 Copynumber: 3.1 Consensus size: 32
981967 CAAATATATT
*
981977 TTAAACTT-TATAAATATAAAATATTAATTTA
1 TTAAAATTATATAAATATAAAATATTAATTTA
*
982008 TTAAAATTTATATAAATATAAAATATT--TTAA
1 TTAAAA-TTATATAAATATAAAATATTAATTTA
* * *
982039 ATAAAATTATA-ATATATTAAAATATTCAAGTTA
1 TTAAAATTATATAAATA-TAAAATATT-AATTTA
982072 TTAA
1 TTAA
982076 GTATAGTGAA
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
29 4 0.07
30 14 0.25
31 13 0.24
32 2 0.04
33 22 0.40
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (32 bp):
TTAAAATTATATAAATATAAAATATTAATTTA
Done.