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 6 of 13
Found at i:579443 original size:28 final size:27
Alignment explanation
Indices: 579390--579457 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 27
579380 TTTTTAAAAA
*
579390 TAATATTAAATAAATTTAATTTAATTT
1 TAATATTAAATAAATTTAATTCAATTT
*
579417 TAATATTAAAATAAATTTGATTCAATTT
1 TAATATT-AAATAAATTTAATTCAATTT
579445 TAATATTTAAATA
1 TAATA-TTAAATA
579458 TATATTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 7 0.19
28 28 0.76
29 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (27 bp):
TAATATTAAATAAATTTAATTCAATTT
Found at i:579569 original size:22 final size:24
Alignment explanation
Indices: 579521--579574 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 24
579511 AAAAGTATAG
579521 ATATTTATATATATTTTTTGAAATAA
1 ATATTTATATATATTTTTT--AATAA
* *
579547 ATATTTATATAATTTTTTTTAAAAA
1 ATATTTATAT-ATATTTTTTAATAA
579572 ATA
1 ATA
579575 AATATTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.28
26 10 0.40
27 8 0.32
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
ATATTTATATATATTTTTTAATAA
Found at i:579576 original size:29 final size:27
Alignment explanation
Indices: 579521--579588 Score: 93
Period size: 29 Copynumber: 2.5 Consensus size: 27
579511 AAAAGTATAG
*
579521 ATATTTATAT-ATATTTTTTGAAATAA
1 ATATTTATATAATATTTTTTAAAATAA
*
579547 ATATTTATATAATTTTTTTTAAAAAATAA
1 ATATTTATATAATATTTTTT--AAAATAA
579576 ATATTTATATAAT
1 ATATTTATATAAT
579589 CTCTGAATCC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 10 0.27
27 8 0.22
29 19 0.51
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (27 bp):
ATATTTATATAATATTTTTTAAAATAA
Found at i:582266 original size:15 final size:16
Alignment explanation
Indices: 582246--582280 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
582236 CAAACTGACA
582246 GAAA-GGGTCGGTGTG
1 GAAAGGGGTCGGTGTG
*
582261 GAAAGGGGTCGGTGTT
1 GAAAGGGGTCGGTGTG
582277 GAAA
1 GAAA
582281 TTGGGAGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.26, C:0.06, G:0.49, T:0.20
Consensus pattern (16 bp):
GAAAGGGGTCGGTGTG
Found at i:583862 original size:20 final size:19
Alignment explanation
Indices: 583813--583872 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 19
583803 AGTTTAGCTA
*
583813 TAAATTTTTTAGTTTAA-TT
1 TAAAATTTTTA-TTTAATTT
*
583832 T-AAATTATTATTTAATTAT
1 TAAAATTTTTATTTAATT-T
583851 TAAAATTTTTATTTAATTT
1 TAAAATTTTTATTTAATTT
583870 TAA
1 TAA
583873 TTTTAAAGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
17 5 0.14
18 8 0.23
19 7 0.20
20 15 0.43
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
TAAAATTTTTATTTAATTT
Found at i:584083 original size:24 final size:26
Alignment explanation
Indices: 584015--584084 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 26
584005 TTATAATTTG
*
584015 AAAATTTAAAAAAAAAATTATAAATATA
1 AAAATTT--AAAAATAATTATAAATATA
584043 AAAATTTAAAAAT--TTATAAA-AT-
1 AAAATTTAAAAATAATTATAAATATA
*
584065 AATATTTAAAAATAATTATA
1 AAAATTTAAAAATAATTATA
584085 TGAAATAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
22 12 0.32
23 2 0.05
24 12 0.32
26 5 0.13
28 7 0.18
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (26 bp):
AAAATTTAAAAATAATTATAAATATA
Found at i:584831 original size:29 final size:30
Alignment explanation
Indices: 584781--584837 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
584771 TTACTTGTTA
584781 AAATTTAAAAAGTACAAAAATTAAAATATT
1 AAATTTAAAAAGTACAAAAATTAAAATATT
* * *
584811 AAATTT-AATAGTATAAGAATTAAAATA
1 AAATTTAAAAAGTACAAAAATTAAAATA
584838 CTTCTTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (30 bp):
AAATTTAAAAAGTACAAAAATTAAAATATT
Found at i:585321 original size:17 final size:17
Alignment explanation
Indices: 585299--585331 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
585289 GTAGATTTTT
*
585299 TTTATGATGATGTAATC
1 TTTATGATAATGTAATC
585316 TTTATGATAATGTAAT
1 TTTATGATAATGTAAT
585332 GTTAATGACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.48
Consensus pattern (17 bp):
TTTATGATAATGTAATC
Found at i:587252 original size:22 final size:23
Alignment explanation
Indices: 587197--587253 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
587187 GTAATAAATT
587197 ATTTTTATATTATAATTATATTTA
1 ATTTTTATA-TATAATTATATTTA
** *
587221 AAATAT-TATATAATTATA-TTA
1 ATTTTTATATATAATTATATTTA
587242 ATTTTTATATAT
1 ATTTTTATATAT
587254 TAAAAATTTG
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
21 6 0.23
22 15 0.58
23 2 0.08
24 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
ATTTTTATATATAATTATATTTA
Found at i:591473 original size:19 final size:22
Alignment explanation
Indices: 591445--591487 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 22
591435 CACTTACACA
*
591445 AAAAACTAT-ATTAA-TTTAAT
1 AAAAACTATAATAAATTTTAAT
591465 AAAAA-TATAATAAATTTTAAT
1 AAAAACTATAATAAATTTTAAT
591486 AA
1 AA
591488 TTTTAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 3 0.15
20 9 0.45
21 8 0.40
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
AAAAACTATAATAAATTTTAAT
Found at i:592012 original size:26 final size:27
Alignment explanation
Indices: 591983--592053 Score: 74
Period size: 29 Copynumber: 2.6 Consensus size: 27
591973 TTATGTACTA
591983 TTATAATTATATTTAAAAAAT-ATATT
1 TTATAATTATATTTAAAAAATCATATT
* *
592009 TTATAAAAATTATATATAAATAATCATATT
1 TTAT---AATTATATTTAAAAAATCATATT
*
592039 ATATAA-TATATTTAA
1 TTATAATTATATTTAA
592054 TATATATTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
26 12 0.32
27 2 0.05
29 15 0.41
30 8 0.22
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (27 bp):
TTATAATTATATTTAAAAAATCATATT
Found at i:592022 original size:29 final size:30
Alignment explanation
Indices: 591987--592044 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
591977 GTACTATTAT
* *
591987 AATTATATTTAAAAAAT-ATATTTTATAAA
1 AATTATATATAAAAAATCATATTATATAAA
*
592016 AATTATATATAAATAATCATATTATATAA
1 AATTATATATAAAAAATCATATTATATAA
592045 TATATTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (30 bp):
AATTATATATAAAAAATCATATTATATAAA
Found at i:593090 original size:21 final size:21
Alignment explanation
Indices: 593066--593107 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
593056 AGATAATATA
593066 TAAATTAAT-TAAATTAAGTTT
1 TAAATTAATCT-AATTAAGTTT
*
593087 TAAATTTATCTAATTAAGTTT
1 TAAATTAATCTAATTAAGTTT
593108 ATAATCATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (21 bp):
TAAATTAATCTAATTAAGTTT
Found at i:594624 original size:23 final size:23
Alignment explanation
Indices: 594598--594648 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
594588 AGTTATATGG
*
594598 TGTAACTTACATGAGCCATGTAC
1 TGTAACTTACATGAGCCATATAC
* * *
594621 TGTAAGTTCCTTGAGCCATATAC
1 TGTAACTTACATGAGCCATATAC
594644 TGTAA
1 TGTAA
594649 GTTCCTCGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (23 bp):
TGTAACTTACATGAGCCATATAC
Found at i:594649 original size:23 final size:23
Alignment explanation
Indices: 594609--594654 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
594599 GTAACTTACA
*
594609 TGAGCCATGTACTGTAAGTTCCT
1 TGAGCCATATACTGTAAGTTCCT
594632 TGAGCCATATACTGTAAGTTCCT
1 TGAGCCATATACTGTAAGTTCCT
594655 CGTATAAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (23 bp):
TGAGCCATATACTGTAAGTTCCT
Found at i:597075 original size:22 final size:22
Alignment explanation
Indices: 597047--597109 Score: 83
Period size: 24 Copynumber: 2.8 Consensus size: 22
597037 CGTTTATAAG
597047 TATTTATTAATTAAAAATTATT
1 TATTTATTAATTAAAAATTATT
*
597069 TATTTATTAAATTAAAAAATTTTT
1 TATTTATT-AATT-AAAAATTATT
*
597093 TATAT-TTAATTAAAAAT
1 TATTTATTAATTAAAAAT
597110 GATATATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
21 6 0.16
22 12 0.32
23 6 0.16
24 13 0.35
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TATTTATTAATTAAAAATTATT
Found at i:598983 original size:13 final size:14
Alignment explanation
Indices: 598950--598983 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
598940 TTAAAATTAC
598950 AATTTATTAAATAT
1 AATTTATTAAATAT
*
598964 TATTTATTAAA-AT
1 AATTTATTAAATAT
598977 AATTTAT
1 AATTTAT
598984 AATTATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
AATTTATTAAATAT
Found at i:599277 original size:16 final size:16
Alignment explanation
Indices: 599256--599286 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
599246 ATTTTAGATA
599256 AAATTTTTATAAATTT
1 AAATTTTTATAAATTT
*
599272 AAATTTTTTTAAATT
1 AAATTTTTATAAATT
599287 ATTATTTGTT
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:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AAATTTTTATAAATTT
Found at i:600325 original size:19 final size:19
Alignment explanation
Indices: 600298--600343 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
600288 TTACAAAAAT
*
600298 AATTTTTTGGATAACTCTG
1 AATTCTTTGGATAACTCTG
600317 AATTCTTTGGATAACTCTG
1 AATTCTTTGGATAACTCTG
600336 AATTCTTT
1 AATTCTTT
600344 TTTATTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (19 bp):
AATTCTTTGGATAACTCTG
Found at i:604295 original size:25 final size:23
Alignment explanation
Indices: 604242--604295 Score: 54
Period size: 25 Copynumber: 2.3 Consensus size: 23
604232 AATTTATATG
** *
604242 TGATATATTATAAATTTATAAAT
1 TGATATATTATAAAAATATAAAA
*
604265 TTATATATTGATAAAAATATTAAAA
1 TGATATATT-ATAAAAATA-TAAAA
604290 TGATAT
1 TGATAT
604296 TATATTAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
23 8 0.33
24 7 0.29
25 9 0.38
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (23 bp):
TGATATATTATAAAAATATAAAA
Found at i:604325 original size:18 final size:17
Alignment explanation
Indices: 604304--604357 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
604294 ATTATATTAA
604304 TAAATTAATAAATAATTT
1 TAAATTAATAAA-AATTT
*
604322 TAAA--AATAAAAAATT
1 TAAATTAATAAAAATTT
604337 T-AATATAATTAAAAATTT
1 TAAAT-TAA-TAAAAATTT
604355 TAA
1 TAA
604358 CAAATAGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 2 0.07
15 5 0.17
16 6 0.21
17 2 0.07
18 13 0.45
19 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAATTAATAAAAATTT
Found at i:604331 original size:16 final size:16
Alignment explanation
Indices: 604310--604363 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 16
604300 TTAATAAATT
604310 AATAAATAATTTTAA-A
1 AATAAA-AATTTTAACA
* *
604326 AATAAAAAATTTAATA
1 AATAAAAATTTTAACA
604342 TAATTAAAAATTTTAACA
1 -AA-TAAAAATTTTAACA
604360 AATA
1 AATA
604364 GGTAACATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
15 7 0.22
16 9 0.28
17 4 0.12
18 12 0.38
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
AATAAAAATTTTAACA
Found at i:604977 original size:19 final size:18
Alignment explanation
Indices: 604943--604995 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
604933 TTGTTATATC
*
604943 TTGATAAAATCGATATAA
1 TTGATAAAATCAATATAA
604961 TTGATAAAAGTCAATATACA
1 TTGATAAAA-TCAATATA-A
*
604981 TT-TTAAAAT-AATATA
1 TTGATAAAATCAATATA
604996 TTATTGATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 6 0.19
18 10 0.32
19 12 0.39
20 3 0.10
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.36
Consensus pattern (18 bp):
TTGATAAAATCAATATAA
Found at i:613723 original size:16 final size:17
Alignment explanation
Indices: 613699--613736 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
613689 TTATTTTGTA
613699 TTTAATTTTTA-AAAAT
1 TTTAATTTTTATAAAAT
* *
613715 TTTATTTTTTATTAAAT
1 TTTAATTTTTATAAAAT
613732 TTTAA
1 TTTAA
613737 CATATGAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTAATTTTTATAAAAT
Found at i:617333 original size:20 final size:20
Alignment explanation
Indices: 617308--617429 Score: 109
Period size: 20 Copynumber: 5.5 Consensus size: 20
617298 TTTTAACTAG
617308 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
617328 ATGTATCGATACATCTAGGTAAAAAGACGGA
1 ATGTATCGATACAT-T--G----AA-A---A
617359 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
* * * *
617379 ATATATCGATACATTCATAC
1 ATGTATCGATACATTGAAAA
617399 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
617419 ATGTATCGATA
1 ATGTATCGATA
617430 TATCTGGATA
Statistics
Matches: 83, Mismatches: 8, Indels: 22
0.73 0.07 0.19
Matches are distributed among these distances:
20 58 0.70
21 1 0.01
23 2 0.02
24 2 0.02
27 2 0.02
28 2 0.02
30 1 0.01
31 15 0.18
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:620232 original size:2 final size:2
Alignment explanation
Indices: 620225--620252 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
620215 AAAGTGGAGA
620225 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
620253 TGCGGTTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:621504 original size:2 final size:2
Alignment explanation
Indices: 621497--621531 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
621487 TTCCCTTCAT
621497 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
621532 TGAAATATCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 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):
TA
Found at i:622723 original size:2 final size:2
Alignment explanation
Indices: 622716--622788 Score: 69
Period size: 2 Copynumber: 37.0 Consensus size: 2
622706 GAAGTAAGGG
* * * * *
622716 AT AT AT AT AT AT AT AT AT AT AC AC AC ACT AT AC AT AC AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
*
622758 AT -T AT AT AT AT AT AT AT AT AT AT AT CT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
622789 GATAAATTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
1 2 0.03
2 57 0.95
3 1 0.02
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:624702 original size:21 final size:21
Alignment explanation
Indices: 624678--624744 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
624668 TATTATTATT
624678 TTTAATTTTATTATTTTAATA
1 TTTAATTTTATTATTTTAATA
*
624699 TTTAATTTTATTATTATAATA
1 TTTAATTTTATTATTTTAATA
*
624720 ATTAATTTTATTATTTTTAAT-
1 TTTAATTTTATTA-TTTTAATA
624741 TTTA
1 TTTA
624745 TCATAATAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 35 0.85
22 6 0.15
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTAATTTTATTATTTTAATA
Found at i:624726 original size:42 final size:39
Alignment explanation
Indices: 624664--624744 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 39
624654 TTAAATATAT
*
624664 ATTTTATTATTATTTTTAATTTTATTA-TTTTAATATTTA
1 ATTTTATTATTATTATTAATTTTATTATTTTTAAT-TTTA
624703 ATTTTATTATTATAATAATTAATTTTATTATTTTTAATTTTA
1 ATTTTATTATTAT--T-ATTAATTTTATTATTTTTAATTTTA
624745 TCATAATAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
39 13 0.35
41 1 0.03
42 16 0.43
43 7 0.19
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (39 bp):
ATTTTATTATTATTATTAATTTTATTATTTTTAATTTTA
Found at i:624989 original size:25 final size:25
Alignment explanation
Indices: 624958--625006 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
624948 TTGATTATTC
* *
624958 GATCAAAGTAATATTTTATAAATAA
1 GATCAAAGTAAAATTTTAAAAATAA
*
624983 GATCAAATTAAAATTTTAAAAATA
1 GATCAAAGTAAAATTTTAAAAATA
625007 TCAAAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (25 bp):
GATCAAAGTAAAATTTTAAAAATAA
Found at i:626118 original size:32 final size:32
Alignment explanation
Indices: 626046--626110 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
626036 GTGAAATTAC
* *
626046 TAAATACTTTAATGATTTTTATGTGAATTCAT
1 TAAATGCTTTAATAATTTTTATGTGAATTCAT
626078 TAAATGCTTTAATAATTTTTACT-TGAATTCAT
1 TAAATGCTTTAATAATTTTTA-TGTGAATTCAT
626110 T
1 T
626111 GATTGCTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 29 0.97
33 1 0.03
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.51
Consensus pattern (32 bp):
TAAATGCTTTAATAATTTTTATGTGAATTCAT
Found at i:626196 original size:28 final size:28
Alignment explanation
Indices: 626165--626220 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
626155 TTATTAAGAT
* ** *
626165 TATTATTATGTTTTTATTTTTTTAATTA
1 TATTATTATATTGATATTTTTTAAATTA
626193 TATTATTATATTGATATTTTTTAAATTA
1 TATTATTATATTGATATTTTTTAAATTA
626221 ATAAAAATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (28 bp):
TATTATTATATTGATATTTTTTAAATTA
Found at i:626271 original size:16 final size:18
Alignment explanation
Indices: 626230--626274 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
626220 AATAAAAATT
626230 ATATTATTAATAAATGATA
1 ATATTATT-ATAAATGATA
626249 ATATTATTATAAAT-AT-
1 ATATTATTATAAATGATA
*
626265 ATTTTATTAT
1 ATATTATTAT
626275 TAAAAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 9 0.36
17 2 0.08
18 6 0.24
19 8 0.32
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
ATATTATTATAAATGATA
Found at i:626272 original size:19 final size:19
Alignment explanation
Indices: 626231--626291 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
626221 ATAAAAATTA
* * **
626231 TATTATTAATAAATGATAA
1 TATTATTAAAAAATTATTT
*
626250 TATTATT-ATAAATATATTT
1 TATTATTAAAAAAT-TATTT
626269 TATTATTAAAAAATTATTT
1 TATTATTAAAAAATTATTT
626288 TATT
1 TATT
626292 TACGATTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 6 0.17
19 25 0.69
20 5 0.14
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TATTATTAAAAAATTATTT
Found at i:626553 original size:17 final size:17
Alignment explanation
Indices: 626528--626562 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
626518 TTTTTAAATT
626528 AATTATAATTATTTTAA
1 AATTATAATTATTTTAA
*
626545 AATTTTAATTATTTTAA
1 AATTATAATTATTTTAA
626562 A
1 A
626563 TTGCTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AATTATAATTATTTTAA
Found at i:626698 original size:13 final size:14
Alignment explanation
Indices: 626682--626710 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
626672 TTTTAAAAAG
626682 AAATTAAA-AGTTT
1 AAATTAAATAGTTT
626695 AAATTAAATAGTTT
1 AAATTAAATAGTTT
626709 AA
1 AA
626711 GAATAATTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (14 bp):
AAATTAAATAGTTT
Found at i:626873 original size:15 final size:14
Alignment explanation
Indices: 626848--626886 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 14
626838 TAATAATAAC
626848 TTTAATAATATTATT
1 TTTAATAATATTA-T
626863 TTTAATAATATTAT
1 TTTAATAATATTAT
*
626877 TATAATAATA
1 TTTAATAATA
626887 ACATTACATG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTTAATAATATTAT
Found at i:627081 original size:29 final size:28
Alignment explanation
Indices: 627043--627098 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
627033 CGAACCAAAA
*
627043 TAATAATATTTGAATAATTTATATTAAAT
1 TAATAATATTTAAATAATTTAT-TTAAAT
* *
627072 TAATATTATTTAAATAGTTTATTTAAA
1 TAATAATATTTAAATAATTTATTTAAA
627099 AATTAAAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (28 bp):
TAATAATATTTAAATAATTTATTTAAAT
Found at i:627095 original size:13 final size:13
Alignment explanation
Indices: 627049--627102 Score: 56
Period size: 13 Copynumber: 4.0 Consensus size: 13
627039 AAAATAATAA
*
627049 TATTTGAATAATT
1 TATTTAAATAATT
627062 TATATTAAATTAATAT
1 TAT-TTAAA-TAAT-T
*
627078 TATTTAAATAGTT
1 TATTTAAATAATT
627091 TATTTAAA-AATT
1 TATTTAAATAATT
627103 AAAGATACTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
12 3 0.09
13 12 0.34
14 7 0.20
15 9 0.26
16 4 0.11
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (13 bp):
TATTTAAATAATT
Found at i:628422 original size:42 final size:43
Alignment explanation
Indices: 628376--628461 Score: 138
Period size: 42 Copynumber: 2.0 Consensus size: 43
628366 AAATTAAAAC
628376 TGGAAACCAAGTCTTAGATACCA-TACCAAATAGAATTTGACT
1 TGGAAACCAAGTCTTAGATACCATTACCAAATAGAATTTGACT
* * *
628418 TGGAAACCAAGTCTTAGCTATCATTATCAAATAGAATTTGACT
1 TGGAAACCAAGTCTTAGATACCATTACCAAATAGAATTTGACT
628461 T
1 T
628462 CTCCCATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 21 0.52
43 19 0.47
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.30
Consensus pattern (43 bp):
TGGAAACCAAGTCTTAGATACCATTACCAAATAGAATTTGACT
Found at i:632568 original size:13 final size:14
Alignment explanation
Indices: 632545--632573 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
632535 AAGAATAAAT
632545 TTATAAAAAAACTA
1 TTATAAAAAAACTA
632559 TTAT-AAAAAACTA
1 TTATAAAAAAACTA
632572 TT
1 TT
632574 CTAGAGATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
TTATAAAAAAACTA
Found at i:632973 original size:42 final size:43
Alignment explanation
Indices: 632914--632997 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 43
632904 CAGAATTAAA
632914 CTTGAAAACCAAGTCTTAACTACCA-TACCAAATAAAATTTAC
1 CTTGAAAACCAAGTCTTAACTACCATTACCAAATAAAATTTAC
** * * *
632956 CTTGAAAATTAAGTCTTAGCTGCCATTACCAAATAGAATTTA
1 CTTGAAAACCAAGTCTTAACTACCATTACCAAATAAAATTTA
632998 ACTTCTCCCC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 21 0.58
43 15 0.42
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (43 bp):
CTTGAAAACCAAGTCTTAACTACCATTACCAAATAAAATTTAC
Found at i:635155 original size:15 final size:15
Alignment explanation
Indices: 635132--635169 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
635122 ATCAGAGTTC
635132 ATCCACAAAATAAAA
1 ATCCACAAAATAAAA
* *
635147 ATTCACAAAATAACA
1 ATCCACAAAATAAAA
635162 ATCCACAA
1 ATCCACAA
635170 GGCACCGTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.61, C:0.24, G:0.00, T:0.16
Consensus pattern (15 bp):
ATCCACAAAATAAAA
Found at i:636250 original size:16 final size:16
Alignment explanation
Indices: 636225--636267 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
636215 AAAATTATAT
*
636225 TTTAAATTTAAATTAA
1 TTTAAATTTAAAATAA
*
636241 TTTAATTTTAAAATAA
1 TTTAAATTTAAAATAA
*
636257 TTAAAATTTAA
1 TTTAAATTTAA
636268 TGTGAATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTTAAATTTAAAATAA
Found at i:636851 original size:2 final size:2
Alignment explanation
Indices: 636844--636882 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
636834 AACTATAAGT
636844 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
636883 GACTATAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:637330 original size:22 final size:22
Alignment explanation
Indices: 637273--637330 Score: 52
Period size: 21 Copynumber: 2.7 Consensus size: 22
637263 ACTTATTTTA
637273 TTTTA-AATTAATTTTTAATGT
1 TTTTATAATTAATTTTTAATGT
*
637294 TTTTAT--TTGATATTTTT-ATTT
1 TTTTATAATT-A-ATTTTTAATGT
637315 TTTTATAATTACATTT
1 TTTTATAATTA-ATTT
637331 AAAATAAAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
20 2 0.07
21 15 0.50
22 11 0.37
23 2 0.07
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (22 bp):
TTTTATAATTAATTTTTAATGT
Found at i:638409 original size:29 final size:29
Alignment explanation
Indices: 638377--638443 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
638367 TTCACTAACA
*
638377 TTTTACAAAAATTGTTTATA-T-TTTTTTAT
1 TTTTA-AAAAATT-TTAATATTATTTTTTAT
*
638406 TTTTAAAATATTTTAATATTATTTTTTAT
1 TTTTAAAAAATTTTAATATTATTTTTTAT
*
638435 TTTTTAAAA
1 TTTTAAAAA
638444 TTATTTTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 5 0.16
28 7 0.22
29 20 0.62
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (29 bp):
TTTTAAAAAATTTTAATATTATTTTTTAT
Found at i:638441 original size:20 final size:21
Alignment explanation
Indices: 638402--638467 Score: 71
Period size: 20 Copynumber: 3.1 Consensus size: 21
638392 TTATATTTTT
* *
638402 TTATTTTTAAAATATTTTAATA
1 TTATTTTTGATAT-TTTTAATA
* *
638424 TTATTTTTTAT-TTTTTAAAA
1 TTATTTTTGATATTTTTAATA
*
638444 TTATTTTTGATATTCTTAATA
1 TTATTTTTGATATTTTTAATA
638465 TTA
1 TTA
638468 ATATCAAAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 17 0.46
21 11 0.30
22 9 0.24
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (21 bp):
TTATTTTTGATATTTTTAATA
Found at i:638457 original size:29 final size:28
Alignment explanation
Indices: 638391--638450 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 28
638381 ACAAAAATTG
638391 TTTATA-T-TTTTTTATTTTTAAAATAT
1 TTTATATTATTTTTTATTTTTAAAATAT
638417 TTTAATATTATTTTTTATTTTTTAAAATTAT
1 TTT-ATATTATTTTTTA-TTTTTAAAA-TAT
638448 TTT
1 TTT
638451 TGATATTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
26 3 0.10
27 3 0.10
28 1 0.03
29 7 0.24
30 9 0.31
31 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (28 bp):
TTTATATTATTTTTTATTTTTAAAATAT
Found at i:638462 original size:21 final size:20
Alignment explanation
Indices: 638413--638467 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
638403 TATTTTTAAA
*
638413 ATATTTTAATATTATTTTTT
1 ATATTTTAATATTATTTTTG
* *
638433 ATTTTTTAAAATTATTTTTG
1 ATATTTTAATATTATTTTTG
638453 ATATTCTTAATATTA
1 ATATT-TTAATATTA
638468 ATATCAAAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 21 0.72
21 8 0.28
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
ATATTTTAATATTATTTTTG
Found at i:638718 original size:7 final size:7
Alignment explanation
Indices: 638708--638749 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
638698 TTAAAAATCA
638708 TAAATTT
1 TAAATTT
*
638715 TAAATAT
1 TAAATTT
*
638722 AAAATTT
1 TAAATTT
*
638729 TAAAATT
1 TAAATTT
638736 TAAA-TT
1 TAAATTT
638742 TAAATTT
1 TAAATTT
638749 T
1 T
638750 CGAAAGCAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (7 bp):
TAAATTT
Found at i:639970 original size:27 final size:27
Alignment explanation
Indices: 639919--639970 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
639909 AGGGGTTGAC
* *
639919 TTATTTATTTTTTTTAAATATTTTTAT
1 TTATTTATTTATTTTAAATAATTTTAT
639946 TTATTTA-TTATTTTAAATTAATTTT
1 TTATTTATTTATTTTAAA-TAATTTT
639971 TTAAAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (27 bp):
TTATTTATTTATTTTAAATAATTTTAT
Found at i:640376 original size:26 final size:25
Alignment explanation
Indices: 640346--640404 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
640336 TTGATTTAAA
*
640346 TTATTATTTAATAATAAAATATATTT
1 TTATT-TTTAATAATAAAAAATATTT
* *
640372 TTA-TTTAAATTATAAAAAATATTT
1 TTATTTTTAATAATAAAAAATATTT
640396 TTATTTTTA
1 TTATTTTTA
640405 TTAAATTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 20 0.71
25 5 0.18
26 3 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TTATTTTTAATAATAAAAAATATTT
Found at i:640407 original size:24 final size:24
Alignment explanation
Indices: 640349--640401 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
640339 ATTTAAATTA
* *
640349 TTATTT-AATAATAAAATATATTT
1 TTATTTAAATTATAAAAAATATTT
640372 TTATTTAAATTATAAAAAATATTT
1 TTATTTAAATTATAAAAAATATTT
640396 TTATTT
1 TTATTT
640402 TTATTAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TTATTTAAATTATAAAAAATATTT
Found at i:640411 original size:29 final size:30
Alignment explanation
Indices: 640367--640425 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
640357 TAATAAAATA
640367 TATTTTTATTTAAATTATAAAAAATATTTT
1 TATTTTTATTTAAATTATAAAAAATATTTT
* *
640397 TATTTTTA-TTAAATTATAAATATTATTTT
1 TATTTTTATTTAAATTATAAAAAATATTTT
640426 AAATTTAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (30 bp):
TATTTTTATTTAAATTATAAAAAATATTTT
Found at i:641145 original size:23 final size:24
Alignment explanation
Indices: 641108--641153 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
641098 AAATTCACTG
*
641108 ATAAAACTGAATTAT-TATTAAATA
1 ATAAAAATGAATTATAT-TTAAATA
641132 ATAAAAAT-AATTATATTTAAAT
1 ATAAAAATGAATTATATTTAAAT
641154 TTATTTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (24 bp):
ATAAAAATGAATTATATTTAAATA
Found at i:642198 original size:135 final size:134
Alignment explanation
Indices: 642048--642314 Score: 435
Period size: 135 Copynumber: 2.0 Consensus size: 134
642038 TTATATCATA
* *
642048 TTTATATTATTTTTGAATAATTTATATTTTAAGTTACTTCACTTAGTATTATATTTTATATAAAT
1 TTTATATTATTTTTGAATAATTTATATTTTAAGTTACTTAACTTAGTATTATATCTTATATAAAT
* *
642113 CTTAAACATTTAATTTTATTAAATTATATTACTAAACTTTTATTATTAATAAATTAAGTCACTTA
66 CTTAAACATTTAATTTTATTAAATTATATTACTAAACTTCTATTATTAACAAATTAAGTCACTTA
642178 AATT
131 AATT
* * * * *
642182 TTTATTATTATTTTTGAGTAATTTATATTTTATGTTACTTAATTTAGTATTATCTCTTATATAAG
1 TTTA-TATTATTTTTGAATAATTTATATTTTAAGTTACTTAACTTAGTATTATATCTTATATAAA
*
642247 TTTTAAACATTTAATTTTATTAAATTATATTACTAAACTTCTATTATTAACAAATTAAGTCACTT
65 TCTTAAACATTTAATTTTATTAAATTATATTACTAAACTTCTATTATTAACAAATTAAGTCACTT
642312 AAA
130 AAA
642315 CTAATTATTT
Statistics
Matches: 122, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
134 4 0.03
135 118 0.97
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (134 bp):
TTTATATTATTTTTGAATAATTTATATTTTAAGTTACTTAACTTAGTATTATATCTTATATAAAT
CTTAAACATTTAATTTTATTAAATTATATTACTAAACTTCTATTATTAACAAATTAAGTCACTTA
AATT
Found at i:643465 original size:14 final size:14
Alignment explanation
Indices: 643446--643487 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
643436 TAATTATTAA
*
643446 TTTATTTTTTAATT
1 TTTATTTTTAAATT
*
643460 TTTA-TTATAAATT
1 TTTATTTTTAAATT
643473 TTTATTTTTAAATT
1 TTTATTTTTAAATT
643487 T
1 T
643488 AAATACTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTATTTTTAAATT
Found at i:645087 original size:19 final size:17
Alignment explanation
Indices: 645065--645100 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 17
645055 TTAATTTTAT
645065 TTAAAATAATATTTTTAAA
1 TTAAAAT-AT-TTTTTAAA
645084 TTAAAATATTTTTTAAA
1 TTAAAATATTTTTTAAA
645101 AATTTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 2 0.12
19 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAAATATTTTTTAAA
Found at i:645155 original size:50 final size:50
Alignment explanation
Indices: 645078--645181 Score: 128
Period size: 50 Copynumber: 2.1 Consensus size: 50
645068 AAATAATATT
*
645078 TTTAA-ATTAAAATATTTTTTAAAAATTTTTAATTATAA-A-AAATA-TAAA
1 TTTAATATAAAAATATTTTTTAAAAA-TTTT-ATTATAATATAAATAGTAAA
645126 TATTAATATAAAAATAATTTTTT-AAAATTTTATTATAATATAAATAGTAAA
1 T-TTAATATAAAAAT-ATTTTTTAAAAATTTTATTATAATATAAATAGTAAA
645177 TTTAA
1 TTTAA
645182 GTCGATAGAT
Statistics
Matches: 49, Mismatches: 1, Indels: 10
0.82 0.02 0.17
Matches are distributed among these distances:
48 8 0.16
49 9 0.18
50 20 0.41
51 12 0.24
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (50 bp):
TTTAATATAAAAATATTTTTTAAAAATTTTATTATAATATAAATAGTAAA
Found at i:645479 original size:28 final size:30
Alignment explanation
Indices: 645443--645503 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
645433 TTTAAAAGAT
*
645443 AATTGTT-AAAAATATTTTTTTATTATTAA
1 AATTGTTAAAAAATAATTTTTTATTATTAA
*
645472 AATT-TTAAAAAATAATTTTTTATTTTTAA
1 AATTGTTAAAAAATAATTTTTTATTATTAA
645501 AAT
1 AAT
645504 AATTATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 2 0.07
29 27 0.93
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (30 bp):
AATTGTTAAAAAATAATTTTTTATTATTAA
Found at i:645504 original size:19 final size:21
Alignment explanation
Indices: 645480--645522 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
645470 AAAATTTTAA
645480 AAAATAATT-TT-TTATTTTT
1 AAAATAATTATTATTATTTTT
645499 AAAATAATTATTAATTATTTTT
1 AAAATAATTATT-ATTATTTTT
645521 AA
1 AA
645523 TTTTTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.43
20 2 0.10
22 10 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
AAAATAATTATTATTATTTTT
Found at i:645538 original size:29 final size:28
Alignment explanation
Indices: 645443--645540 Score: 79
Period size: 29 Copynumber: 3.4 Consensus size: 28
645433 TTTAAAAGAT
* * * *
645443 AATTGTTAAAAATATTTTTTTATTATTAA
1 AATT-TTATAAATAATTTTTAATTTTTAA
* *
645472 AATTTTAAAAAATAATTTTTTATTTTTAA
1 AATTTT-ATAAATAATTTTTAATTTTTAA
* * *
645501 AATAATTATTAATTATTTTTAATTTTTTAA
1 AAT-TTTATAAATAATTTTTAA-TTTTTAA
645531 AATTTTATAA
1 AATTTTATAA
645541 TCAAAACTAT
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
28 2 0.04
29 43 0.75
30 12 0.21
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (28 bp):
AATTTTATAAATAATTTTTAATTTTTAA
Found at i:645767 original size:21 final size:21
Alignment explanation
Indices: 645743--645783 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
645733 GTTATTATTT
*
645743 ATTTTTTAAAAAGATTTAAAA
1 ATTTTATAAAAAGATTTAAAA
* *
645764 ATTTTATAATAATATTTAAA
1 ATTTTATAAAAAGATTTAAA
645784 TAAAAATATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
ATTTTATAAAAAGATTTAAAA
Found at i:646144 original size:18 final size:19
Alignment explanation
Indices: 646123--646158 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
646113 TAATTATTTT
646123 TATAA-AATTTAAAAAATA
1 TATAATAATTTAAAAAATA
646141 TATAATAATTTAAAAAAT
1 TATAATAATTTAAAAAAT
646159 TATTTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TATAATAATTTAAAAAATA
Found at i:646168 original size:19 final size:19
Alignment explanation
Indices: 646088--646169 Score: 51
Period size: 19 Copynumber: 4.1 Consensus size: 19
646078 CACTCTTCAT
*
646088 TTTAAGAAATT-TTTTTATA
1 TTTAAAAAATTATTTTTA-A
**
646107 TTTAATTAATTATTTTTATAAAA
1 TTTAAAAAATTA-TTTT-T--AA
**
646130 TTTAAAAAA-TATATAATAA
1 TTTAAAAAATTAT-TTTTAA
646149 TTTAAAAAATTATTTTTAA
1 TTTAAAAAATTATTTTTAA
646168 TT
1 TT
646170 CGTTAACTAT
Statistics
Matches: 48, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
19 26 0.54
20 3 0.06
21 6 0.12
22 4 0.08
23 8 0.17
24 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (19 bp):
TTTAAAAAATTATTTTTAA
Found at i:646737 original size:21 final size:21
Alignment explanation
Indices: 646711--646750 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
646701 TGTTAAATAA
*
646711 TTAATTTATTTAAATAATTTT
1 TTAATTTATTTAAAAAATTTT
*
646732 TTAATTTTTTTAAAAAATT
1 TTAATTTATTTAAAAAATT
646751 AATAGTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTAATTTATTTAAAAAATTTT
Found at i:647397 original size:19 final size:19
Alignment explanation
Indices: 647349--647398 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 19
647339 ATTCAAAAAA
647349 ATATTATTAA-AAA-TTTT
1 ATATTATTAATAAATTTTT
* *
647366 AT-CTAAT-ATAAATTTTT
1 ATATTATTAATAAATTTTT
647383 ATATTATTAATAAATT
1 ATATTATTAATAAATT
647399 ATATAACATC
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
15 1 0.04
16 6 0.24
17 8 0.32
18 3 0.12
19 7 0.28
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
ATATTATTAATAAATTTTT
Found at i:649597 original size:30 final size:30
Alignment explanation
Indices: 649563--649620 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
649553 CTTTTGTTTT
649563 TTTAATATAAAAAAATTA-TAAATATTAAAA
1 TTTAAT-TAAAAAAATTATTAAATATTAAAA
***
649593 TTTAATTTTTAAAATTATTAAATATTAA
1 TTTAATTAAAAAAATTATTAAATATTAA
649621 CTAATTACGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (30 bp):
TTTAATTAAAAAAATTATTAAATATTAAAA
Found at i:651078 original size:2 final size:2
Alignment explanation
Indices: 651071--651101 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
651061 GGGGGTGTAA
651071 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 A
651102 GTGATAATGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:653135 original size:11 final size:11
Alignment explanation
Indices: 653092--653139 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
653082 TATATGATAC
653092 AAAA-AAAT-T
1 AAAATAAATAT
653101 AAAATAAATAT
1 AAAATAAATAT
*
653112 AACATAAAATAT
1 AAAAT-AAATAT
*
653124 AAAATAATTAT
1 AAAATAAATAT
653135 AAAAT
1 AAAAT
653140 TTATATAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 4 0.12
10 4 0.12
11 15 0.45
12 10 0.30
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (11 bp):
AAAATAAATAT
Found at i:653282 original size:2 final size:2
Alignment explanation
Indices: 653275--653315 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
653265 TGTATTCTCT
* * *
653275 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TG TA TA TA AA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
653316 TTGCCTGGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:654628 original size:15 final size:15
Alignment explanation
Indices: 654610--654641 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
654600 ATTTTAAAAA
654610 ATTAAATATATTCAT
1 ATTAAATATATTCAT
*
654625 ATTAAATATATTTAT
1 ATTAAATATATTCAT
654640 AT
1 AT
654642 CGAATATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTAAATATATTCAT
Found at i:658827 original size:2 final size:2
Alignment explanation
Indices: 658820--658856 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
658810 CTAAACCTAC
*
658820 AT AT AT AT AT AT AT AT AT AT AT AC 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
658857 GTTATGGCAG
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:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:660891 original size:30 final size:32
Alignment explanation
Indices: 660857--660931 Score: 79
Period size: 32 Copynumber: 2.4 Consensus size: 32
660847 TGATATAACG
660857 TAATATTAATATAT-ATATA-TATAAATTT-TA
1 TAATATTAATATATAATATATTA-AAATTTATA
*
660887 TAATATGAAT-TAGTAATATATTAAAATTTATA
1 TAATATTAATATA-TAATATATTAAAATTTATA
*
660919 TAATTTTAA-ATAT
1 TAATATTAATATAT
660932 TTTAAATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
29 2 0.05
30 10 0.27
31 12 0.32
32 13 0.35
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (32 bp):
TAATATTAATATATAATATATTAAAATTTATA
Found at i:661530 original size:17 final size:17
Alignment explanation
Indices: 661497--661550 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
661487 GTATATTTAA
* *
661497 ATTATTTTTATATTATT
1 ATTATTTTTAAAATATT
661514 ATTATTTTTAAAATATT
1 ATTATTTTTAAAATATT
*
661531 ATATATTTATATAAATATT
1 AT-TATTTTTA-AAATATT
661550 A
1 A
661551 ATATATTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
17 17 0.53
18 7 0.22
19 8 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTATTTTTAAAATATT
Found at i:661554 original size:20 final size:20
Alignment explanation
Indices: 661506--661562 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
661496 AATTATTTTT
* *
661506 ATATTATTATTATTTTTA-AA
1 ATATTAATA-TATTTATATAA
661526 ATATT-ATATATTTATATAA
1 ATATTAATATATTTATATAA
*
661545 ATATTAATATATTAATAT
1 ATATTAATATATTTATAT
661563 TTTTATATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 7 0.22
19 9 0.28
20 16 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATATTAATATATTTATATAA
Found at i:661567 original size:28 final size:27
Alignment explanation
Indices: 661520--661582 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 27
661510 TATTATTATT
*
661520 TTTAAAATATTATATATTTATATAA-A
1 TTTAATATATTATATATTTATATAAGA
*
661546 TATTAATATATTAATATTTTTATATAAGA
1 T-TTAATATATT-ATATATTTATATAAGA
661575 TTTAATAT
1 TTTAATAT
661583 GAAATTATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 1 0.03
27 9 0.28
28 20 0.62
29 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (27 bp):
TTTAATATATTATATATTTATATAAGA
Found at i:661595 original size:28 final size:27
Alignment explanation
Indices: 661521--661598 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 27
661511 ATTATTATTT
* *
661521 TTAAAATATTATATATTTATATAAATA
1 TTAATATATAATATATTTATATAAATA
*
661548 TTAATATATTAATATTTTTATATAAGAT-
1 TTAATATA-TAATATATTTATATAA-ATA
661576 TTAATATGA-AATTATATTTATAT
1 TTAATAT-ATAA-TATATTTATAT
661599 TATATTATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
27 9 0.21
28 31 0.72
29 3 0.07
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (27 bp):
TTAATATATAATATATTTATATAAATA
Found at i:661602 original size:11 final size:11
Alignment explanation
Indices: 661586--661648 Score: 58
Period size: 11 Copynumber: 5.6 Consensus size: 11
661576 TTAATATGAA
661586 ATTATATTTAT
1 ATTATATTTAT
661597 ATTATA-TTATT
1 ATTATATTTA-T
* *
661608 TTTATTTTTAT
1 ATTATATTTAT
*
661619 ATTATTTTTA-
1 ATTATATTTAT
661629 ATTAATATTTTAT
1 ATT-ATA-TTTAT
661642 ATTATAT
1 ATTATAT
661649 AATTTTATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
10 6 0.14
11 24 0.56
12 10 0.23
13 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
ATTATATTTAT
Found at i:661629 original size:50 final size:44
Alignment explanation
Indices: 661560--661658 Score: 108
Period size: 50 Copynumber: 2.1 Consensus size: 44
661550 AATATATTAA
*
661560 TATTTTTATATAAGATTTAATATGAAATTATATTTATATTATATTATTTT
1 TATTTTTATATAAGATTTAAT-T--AA-TAT-TTTATATTATA-TAATTT
* **
661610 TATTTTTATATTATTTTTAATTAATATTTTATATTATATAATTT
1 TATTTTTATATAAGATTTAATTAATATTTTATATTATATAATTT
661654 TATTT
1 TATTT
661659 AAAATTAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
44 10 0.22
45 11 0.24
46 3 0.07
47 2 0.04
49 1 0.02
50 18 0.40
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (44 bp):
TATTTTTATATAAGATTTAATTAATATTTTATATTATATAATTT
Found at i:662562 original size:18 final size:18
Alignment explanation
Indices: 662523--662567 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
662513 TCATTTTAAT
662523 AATTTAACA-TTAATATAA
1 AATTTAA-ATTTAATATAA
**
662541 AATTTAAATTTAATATTC
1 AATTTAAATTTAATATAA
662559 AATTTAAAT
1 AATTTAAAT
662568 AATTGAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 1 0.04
18 23 0.96
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTTAAATTTAATATAA
Found at i:662835 original size:20 final size:20
Alignment explanation
Indices: 662796--662835 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
662786 TAAATTTAAA
*
662796 TAAAATATATTATTTTAATT
1 TAAAATATATTATTTAAATT
662816 TAAAAT-TATTATTCTAAATT
1 TAAAATATATTATT-TAAATT
662836 AATTCGAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (20 bp):
TAAAATATATTATTTAAATT
Found at i:662837 original size:19 final size:20
Alignment explanation
Indices: 662792--662837 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
662782 ATTTTAAATT
*
662792 TAAA-TAAAATATATTATTT
1 TAAATTAAAATATATTATTC
*
662811 TAATTTAAAAT-TATTATTC
1 TAAATTAAAATATATTATTC
662830 TAAATTAA
1 TAAATTAA
662838 TTCGAAACCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TAAATTAAAATATATTATTC
Found at i:663323 original size:2 final size:2
Alignment explanation
Indices: 663316--663346 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
663306 CTCATATTAA
663316 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 A
663347 AAAGTGCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:663461 original size:20 final size:21
Alignment explanation
Indices: 663426--663465 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
663416 TAATTTTACT
*
663426 TAAATTATTATTTATTAAAAA
1 TAAAATATTATTTATTAAAAA
663447 TAAAATATT-TTTATTAAAA
1 TAAAATATTATTTATTAAAA
663466 TTTAATTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TAAAATATTATTTATTAAAAA
Found at i:664248 original size:18 final size:18
Alignment explanation
Indices: 664225--664286 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
664215 TAATTAATTA
664225 TATTATATTTATATATTT
1 TATTATATTTATATATTT
664243 TATTATA-TTATAATTATTTT
1 TATTATATTTAT-A-TA-TTT
**
664263 TAAAATATTT-TATA-TT
1 TATTATATTTATATATTT
664279 TATTATAT
1 TATTATAT
664287 ATATTAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
16 8 0.22
17 4 0.11
18 10 0.28
19 3 0.08
20 9 0.25
21 2 0.06
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTATATTTATATATTT
Found at i:664263 original size:20 final size:20
Alignment explanation
Indices: 664221--664306 Score: 59
Period size: 20 Copynumber: 4.1 Consensus size: 20
664211 TAATTAATTA
*
664221 ATTATATTATATTTATATATTTT
1 ATTATATTATA-AT-TAT-TTTT
664244 ATTATATTATAATTATTTTT
1 ATTATATTATAATTATTTTT
** *
664264 AAAATATT-TTA-TATTTATT
1 ATTATATTATAATTATTT-TT
*
664283 ATATATATTAATAATTAATTTT
1 AT-TATATT-ATAATTATTTTT
664305 AT
1 AT
664307 ATAATTTTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
18 5 0.10
19 5 0.10
20 15 0.30
21 3 0.06
22 7 0.14
23 15 0.30
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTATATTATAATTATTTTT
Found at i:664307 original size:20 final size:19
Alignment explanation
Indices: 664239--664309 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 19
664229 ATATTTATAT
664239 ATTTTATTATATTATAATTA
1 ATTTTA-TATATTATAATTA
* * * *
664259 TTTTTAAAATATTTTATATTT
1 ATTTT-ATATATTATA-ATTA
*
664280 ATTATATATATTAATAATTA
1 ATTTTATATATT-ATAATTA
664300 ATTTTATATA
1 ATTTTATATA
664310 ATTTTAATGT
Statistics
Matches: 38, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
20 29 0.76
21 9 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTTATATATTATAATTA
Found at i:664314 original size:41 final size:39
Alignment explanation
Indices: 664210--664315 Score: 108
Period size: 41 Copynumber: 2.6 Consensus size: 39
664200 ATTAAACTGG
*
664210 ATAATTAATTAATTATATTATATTTATATATTTTATTATATT
1 ATAATTAATT--TTATATAAT-TTTATATATTTTATTATATT
* *
664252 ATAATTATTTTTA-AAATATTTTATAT-TTATTATATATATT
1 ATAATTAATTTTATATA-ATTTTATATATT-TTAT-TATATT
664292 AATAATTAATTTTATATAATTTTA
1 -ATAATTAATTTTATATAATTTTA
664316 ATGTATACAT
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
38 2 0.04
39 12 0.22
40 11 0.20
41 18 0.33
42 11 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (39 bp):
ATAATTAATTTTATATAATTTTATATATTTTATTATATT
Found at i:665762 original size:2 final size:2
Alignment explanation
Indices: 665755--665783 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
665745 TTATTAGTAG
665755 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 A
665784 GTGTAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:666635 original size:14 final size:14
Alignment explanation
Indices: 666618--666707 Score: 65
Period size: 14 Copynumber: 6.4 Consensus size: 14
666608 TTGGTATAAG
*
666618 TACTTTGACACATA
1 TACTTTGACACAAA
* *
666632 TACTTTTGATAGAAA
1 TAC-TTTGACACAAA
* *
666647 TACTTTGACACGAG
1 TACTTTGACACAAA
* *
666661 TACTTTGATACAAG
1 TACTTTGACACAAA
*
666675 TAC-TTGACACAAG
1 TACTTTGACACAAA
* * *
666688 TATTTTGACATAAG
1 TACTTTGACACAAA
666702 TACTTT
1 TACTTT
666708 AGTACAGGTA
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
13 11 0.18
14 39 0.64
15 11 0.18
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (14 bp):
TACTTTGACACAAA
Found at i:666689 original size:27 final size:28
Alignment explanation
Indices: 666597--666707 Score: 109
Period size: 29 Copynumber: 3.9 Consensus size: 28
666587 GGCACTTTAG
* *
666597 CACAAGTATTTTTGGTATAAGTACTTTGA
1 CACAAGTA-CTTTGATATAAGTACTTTGA
* *
666626 CACATA-TACTTTTGATAGAAATACTTTGA
1 CACA-AGTAC-TTTGATATAAGTACTTTGA
* *
666655 CACGAGTACTTTGATACAAGTAC-TTGA
1 CACAAGTACTTTGATATAAGTACTTTGA
* *
666682 CACAAGTATTTTGACATAAGTACTTT
1 CACAAGTACTTTGATATAAGTACTTT
666708 AGTACAGGTA
Statistics
Matches: 67, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
27 23 0.34
28 15 0.22
29 28 0.42
30 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.37
Consensus pattern (28 bp):
CACAAGTACTTTGATATAAGTACTTTGA
Found at i:672388 original size:6 final size:6
Alignment explanation
Indices: 672377--672411 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
672367 CAGTGTGGGT
* *
672377 GAGAAA GAGAAA GAGAAA GAGAGA GAAAAA GAGAA
1 GAGAAA GAGAAA GAGAAA GAGAAA GAGAAA GAGAA
672412 TCGTCAAGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (6 bp):
GAGAAA
Found at i:672826 original size:25 final size:25
Alignment explanation
Indices: 672772--672828 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
672762 TTTTTTAAAT
672772 TATATATTATATATTATTTTATACA
1 TATATATTATATATTATTTTATACA
* *
672797 AATATTTTA-ATATTATTTTTATTA-A
1 TATATATTATATATTA-TTTTA-TACA
672822 TATATAT
1 TATATAT
672829 ATTGTTATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
24 6 0.23
25 18 0.69
26 2 0.08
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (25 bp):
TATATATTATATATTATTTTATACA
Found at i:672884 original size:17 final size:16
Alignment explanation
Indices: 672836--672886 Score: 54
Period size: 17 Copynumber: 3.3 Consensus size: 16
672826 TATATTGTTA
672836 TAAATA-AATTTAAA-
1 TAAATATAATTTAAAT
* *
672850 -AAATATATTTTTAAT
1 TAAATATAATTTAAAT
672865 TAAATAATAATTTAAAT
1 TAAAT-ATAATTTAAAT
672882 TAAAT
1 TAAAT
672887 TAAGTGTCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
13 5 0.17
14 6 0.21
16 4 0.14
17 14 0.48
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TAAATATAATTTAAAT
Found at i:673691 original size:16 final size:17
Alignment explanation
Indices: 673660--673691 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
673650 TAGATAAAAG
673660 TTAAAAAAATTATAAAT
1 TTAAAAAAATTATAAAT
673677 TTAAAAAAATT-TAAA
1 TTAAAAAAATTATAAA
673692 CGCATAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TTAAAAAAATTATAAAT
Found at i:673760 original size:2 final size:2
Alignment explanation
Indices: 673753--673785 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
673743 AATAGGTTAA
673753 AT 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 A
673786 AAACTCTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:679609 original size:18 final size:17
Alignment explanation
Indices: 679575--679610 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
679565 ATATAAATAG
*
679575 TTAAAATAAAAATTAAT
1 TTAAAATAAAAAATAAT
679592 TTAAAATAAAAAAATAAT
1 TTAAAAT-AAAAAATAAT
679610 T
1 T
679611 ATTTATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TTAAAATAAAAAATAAT
Found at i:680315 original size:2 final size:2
Alignment explanation
Indices: 680308--680343 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
680298 TCTTTGCCAC
680308 AT 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 AT
680344 TGAGAGAGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:685154 original size:15 final size:15
Alignment explanation
Indices: 685134--685177 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
685124 TTATTCAAAA
685134 TTTTTAATTATTTAC
1 TTTTTAATTATTTAC
*
685149 TTTTTAATT-TTTAT
1 TTTTTAATTATTTAC
685163 TTTGTTAATTTATTT
1 TTT-TTAA-TTATTT
685178 TTTAATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 7 0.28
15 13 0.52
16 2 0.08
17 3 0.12
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTTTAATTATTTAC
Found at i:685300 original size:27 final size:28
Alignment explanation
Indices: 685270--685327 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
685260 ATTATAATAT
* * *
685270 ATAATTATTTTATTA-TTATTTATTTAA
1 ATAAATATTTTATTACTAATTTATTAAA
685297 ATAAATATTTTATTACTAATTTATTAAA
1 ATAAATATTTTATTACTAATTTATTAAA
685325 ATA
1 ATA
685328 TTTAATATCC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 14 0.52
28 13 0.48
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (28 bp):
ATAAATATTTTATTACTAATTTATTAAA
Found at i:696658 original size:33 final size:33
Alignment explanation
Indices: 696614--696676 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
696604 CTGTCTTGGT
*
696614 TTTAATTATATTAAAAACAAATATTATTTTTAA
1 TTTAATAATATTAAAAACAAATATTATTTTTAA
* *
696647 TTTAATAATATTAAGAACGAATATTATTTT
1 TTTAATAATATTAAAAACAAATATTATTTT
696677 CAAAATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (33 bp):
TTTAATAATATTAAAAACAAATATTATTTTTAA
Found at i:703836 original size:54 final size:54
Alignment explanation
Indices: 703754--703861 Score: 155
Period size: 54 Copynumber: 2.0 Consensus size: 54
703744 AAAACCTTTC
* * * *
703754 TGTTAAGGTTTTCAGATTCTTTATTCTTAGAGCTTATTTAAACCCCATTTTGAA
1 TGTTAAGATTTTCAGATTCTTGATTCTTAGAGATTAATTAAACCCCATTTTGAA
*
703808 TGTTAAGATTTTCAGATAT-TTGCTTCTTAGAGATTAATTAAACCCCATTTTGAA
1 TGTTAAGATTTTCAGAT-TCTTGATTCTTAGAGATTAATTAAACCCCATTTTGAA
703862 GATCTCATCT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 47 0.98
55 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.44
Consensus pattern (54 bp):
TGTTAAGATTTTCAGATTCTTGATTCTTAGAGATTAATTAAACCCCATTTTGAA
Found at i:704995 original size:2 final size:2
Alignment explanation
Indices: 704988--705030 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
704978 ACCATGCTTT
704988 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
705030 T
1 T
705031 TGAAATCTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:705920 original size:18 final size:18
Alignment explanation
Indices: 705897--705934 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
705887 ATTAATATTG
705897 TAAAAAAATATAAAAT-AA
1 TAAAAAAATA-AAAATCAA
*
705915 TAAAAACATAAAAATCAA
1 TAAAAAAATAAAAATCAA
705933 TA
1 TA
705935 CCAAAGAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (18 bp):
TAAAAAAATAAAAATCAA
Found at i:706011 original size:9 final size:10
Alignment explanation
Indices: 705985--706017 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
705975 AATATTACGT
705985 ATTTAAATAA
1 ATTTAAATAA
705995 ATTTAAATAA
1 ATTTAAATAA
706005 A-TTAAAT-A
1 ATTTAAATAA
706013 ATTTA
1 ATTTA
706018 TATTATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.09
9 9 0.41
10 11 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
ATTTAAATAA
Found at i:706028 original size:33 final size:33
Alignment explanation
Indices: 705991--706053 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
705981 ACGTATTTAA
705991 ATAAA-TTTAAATAAATTAAATAATTTATATTAT
1 ATAAATTTTAAATAAATTAAAT-ATTTATATTAT
* * *
706024 ATAAATTTTAATTTATTTAAATATTTATAT
1 ATAAATTTTAAATAAATTAAATATTTATAT
706054 CATTTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 13 0.50
34 13 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (33 bp):
ATAAATTTTAAATAAATTAAATATTTATATTAT
Found at i:707739 original size:17 final size:17
Alignment explanation
Indices: 707719--707754 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
707709 ATTTATTTTT
*
707719 ATATTTTATTAAAATTA
1 ATATTTAATTAAAATTA
707736 ATATTTAATTAAAATTA
1 ATATTTAATTAAAATTA
707753 AT
1 AT
707755 TAAAAATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATTTAATTAAAATTA
Found at i:707812 original size:30 final size:29
Alignment explanation
Indices: 707778--707837 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
707768 TAAATTAATA
* *
707778 TAAATAATTTAATTTATTTAAAATAAAAAT
1 TAAATAATATAATTTA-ATAAAATAAAAAT
*
707808 TAAATAATATAATTTAATAAAATTAAAAT
1 TAAATAATATAATTTAATAAAATAAAAAT
707837 T
1 T
707838 TTATAACTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (29 bp):
TAAATAATATAATTTAATAAAATAAAAAT
Found at i:707834 original size:35 final size:35
Alignment explanation
Indices: 707769--707836 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
707759 AATACATATT
** *
707769 AAATTAATATAAATAATTTAATTTATTTAAAATAA
1 AAATTAATATAAATAATTTAATAAAATTAAAATAA
707804 AAATTAA-ATAATATAATTTAATAAAATTAAAAT
1 AAATTAATATAA-ATAATTTAATAAAATTAAAAT
707837 TTTATAACTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 4 0.14
35 25 0.86
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (35 bp):
AAATTAATATAAATAATTTAATAAAATTAAAATAA
Found at i:707836 original size:24 final size:25
Alignment explanation
Indices: 707803--707870 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
707793 ATTTAAAATA
707803 AAAATT-AAATAATATAATTTA-AT
1 AAAATTAAAATAATATAATTTATAT
** *
707826 AAAATTAAAATTTTATAACTTATAT
1 AAAATTAAAATAATATAATTTATAT
*
707851 AAAAATAAATATAAT-TAATT
1 AAAATTAAA-ATAATATAATT
707871 CACAAAATAT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
23 6 0.17
24 12 0.34
25 14 0.40
26 3 0.09
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (25 bp):
AAAATTAAAATAATATAATTTATAT
Found at i:708109 original size:2 final size:2
Alignment explanation
Indices: 708102--708149 Score: 80
Period size: 2 Copynumber: 24.0 Consensus size: 2
708092 TAGAGAATGA
708102 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT ACT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
708144 AT AT AT
1 AT AT AT
708150 TAGATATAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 1 0.02
2 41 0.93
3 2 0.05
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:708190 original size:24 final size:24
Alignment explanation
Indices: 708156--708214 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
708146 ATATTAGATA
* * *
708156 TAAAATTTAAATTTTTATATATAT
1 TAAAATATAAATTATTATAAATAT
*
708180 TTAAATATAAATTATTATAAATAT
1 TAAAATATAAATTATTATAAATAT
*
708204 TAAAAAATAAA
1 TAAAATATAAA
708215 AATAAAAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
TAAAATATAAATTATTATAAATAT
Found at i:708799 original size:11 final size:11
Alignment explanation
Indices: 708782--708820 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
708772 TAGATATAAA
708782 AATTTAAAATT
1 AATTTAAAATT
*
708793 TATTT-AAATT
1 AATTTAAAATT
*
708803 AATATAAAATT
1 AATTTAAAATT
708814 AATTTAA
1 AATTTAA
708821 TTTTATATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
AATTTAAAATT
Found at i:708939 original size:26 final size:26
Alignment explanation
Indices: 708910--708985 Score: 64
Period size: 26 Copynumber: 2.9 Consensus size: 26
708900 TTTATGTACA
708910 TTAAATTTTAAATAAATTAAAAATAT
1 TTAAATTTTAAATAAATTAAAAATAT
* * *** *
708936 TTAACTTTT-TATTCGTGTAAAAATTT
1 TTAAATTTTAAATAAAT-TAAAAATAT
*
708962 TTAAATTATTAAATATATTAAAAA
1 TTAAATT-TTAAATAAATTAAAAA
708986 ATATAATATT
Statistics
Matches: 36, Mismatches: 11, Indels: 5
0.69 0.21 0.10
Matches are distributed among these distances:
25 3 0.08
26 22 0.61
27 8 0.22
28 3 0.08
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (26 bp):
TTAAATTTTAAATAAATTAAAAATAT
Found at i:709088 original size:15 final size:16
Alignment explanation
Indices: 709063--709111 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
709053 TTATTATATT
*
709063 ATTAAATTAAAATTTA
1 ATTATATTAAAATTTA
709079 ATT-TATTAAAATATTA
1 ATTATATTAAAAT-TTA
* *
709095 ATTATATAAAAAATTA
1 ATTATATTAAAATTTA
709111 A
1 A
709112 AATAACATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 8 0.29
16 13 0.46
17 7 0.25
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATTATATTAAAATTTA
Found at i:710110 original size:22 final size:24
Alignment explanation
Indices: 710070--710114 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
710060 CATGGCATGA
*
710070 ATTAATTTATTTAATTAAATATTT
1 ATTAATATATTTAATTAAATATTT
710094 ATTAATAT-TTTAA-TAAATATT
1 ATTAATATATTTAATTAAATATT
710115 AATTTTCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 5 0.25
24 7 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
ATTAATATATTTAATTAAATATTT
Found at i:710757 original size:10 final size:10
Alignment explanation
Indices: 710737--710843 Score: 51
Period size: 10 Copynumber: 10.5 Consensus size: 10
710727 CGATGATTAC
710737 TATATTTATAT
1 TATA-TTATAT
710748 TATATTATAT
1 TATATTATAT
710758 TATATT-T-T
1 TATATTATAT
* *
710766 GATATTTTAT
1 TATATTATAT
*
710776 TTTATTATAAT
1 TATATTAT-AT
* * *
710787 TATTTTAAAA
1 TATATTATAT
710797 TAT-TTATAT
1 TATATTATAT
*
710806 T-TATATAAAT
1 TATAT-TATAT
* *
710816 TTTAATATAT
1 TATATTATAT
710826 TAATAATTAATAT
1 T-AT-ATT-ATAT
710839 TATAT
1 TATAT
710844 AAATTTTAAA
Statistics
Matches: 72, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
8 7 0.10
9 8 0.11
10 32 0.44
11 16 0.22
12 4 0.06
13 5 0.07
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (10 bp):
TATATTATAT
Done.