Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold231
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: 1009718
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 5 of 7
Found at i:672850 original size:18 final size:18
Alignment explanation
Indices: 672807--672862 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
672797 AAAAAGAAAA
* * *
672807 TCAAAATCAAAATCAAAG
1 TCAAAGTCAAAGTCAGAG
672825 TCAAAGTCAAAGTCAGAG
1 TCAAAGTCAAAGTCAGAG
* *
672843 TCAGAGTCAGAGTCAGAG
1 TCAAAGTCAAAGTCAGAG
672861 TC
1 TC
672863 GTCGAAGTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.18
Consensus pattern (18 bp):
TCAAAGTCAAAGTCAGAG
Found at i:673255 original size:13 final size:13
Alignment explanation
Indices: 673239--673263 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
673229 TTAATATGTG
673239 ATTTTAATTAAAA
1 ATTTTAATTAAAA
673252 ATTTTAATTAAA
1 ATTTTAATTAAA
673264 TCGATTAAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTAATTAAAA
Found at i:673710 original size:14 final size:14
Alignment explanation
Indices: 673677--673723 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
673667 TAATAAGATT
*
673677 TAATCTATAATATATA
1 TAATTTATAAT-T-TA
673693 TAATTTATAATTTA
1 TAATTTATAATTTA
*
673707 TAATTTATAATATA
1 TAATTTATAATTTA
673721 TAA
1 TAA
673724 GTATAAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 18 0.62
15 1 0.03
16 10 0.34
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (14 bp):
TAATTTATAATTTA
Found at i:674009 original size:23 final size:23
Alignment explanation
Indices: 673983--674039 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
673973 TGTGAAACAT
*
673983 ATAAATATATATTTTTAAA-ATTA
1 ATAAATATATATATTTAAATA-TA
* *
674006 ATAAAAATAAATATTTAAATATA
1 ATAAATATATATATTTAAATATA
*
674029 ATATATATATA
1 ATAAATATATA
674040 ACAACGTATA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
ATAAATATATATATTTAAATATA
Found at i:678359 original size:2 final size:2
Alignment explanation
Indices: 678352--678394 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
678342 GCTCCATAAC
678352 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
678394 T
1 T
678395 TCAAACATCC
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:679579 original size:2 final size:2
Alignment explanation
Indices: 679574--679598 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
679564 ATTGTGTGTG
679574 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 T
679599 TGGATAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:682357 original size:2 final size:2
Alignment explanation
Indices: 682350--682386 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
682340 ATACATACAT
*
682350 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC GC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
682387 AATATATATA
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:0.49, G:0.03, T:0.00
Consensus pattern (2 bp):
AC
Found at i:686520 original size:22 final size:22
Alignment explanation
Indices: 686495--686546 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
686485 TTTCTATTTT
*
686495 GTTTAGATTAGCTTTAGTTTAA
1 GTTTAGATGAGCTTTAGTTTAA
*
686517 GTTTAGATGGGCTTTAGTTTAA
1 GTTTAGATGAGCTTTAGTTTAA
686539 GTTTAGAT
1 GTTTAGAT
686547 ATGCTTAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.25, C:0.04, G:0.23, T:0.48
Consensus pattern (22 bp):
GTTTAGATGAGCTTTAGTTTAA
Found at i:686560 original size:22 final size:21
Alignment explanation
Indices: 686495--686552 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 21
686485 TTTCTATTTT
686495 GTTTAGATTAGCTTTAGTTTAA
1 GTTTAGATT-GCTTTAGTTTAA
*
686517 GTTTAGATGGGCTTTAGTTTAA
1 GTTTAGAT-TGCTTTAGTTTAA
686539 GTTTAGATATGCTT
1 GTTTAGAT-TGCTT
686553 AAGATTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.24, C:0.05, G:0.22, T:0.48
Consensus pattern (21 bp):
GTTTAGATTGCTTTAGTTTAA
Found at i:691449 original size:16 final size:17
Alignment explanation
Indices: 691420--691451 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
691410 TTTTGAAGTA
691420 TTTGTAGTTTACATTTG
1 TTTGTAGTTTACATTTG
691437 TTTGTAG-TTACATTT
1 TTTGTAGTTTACATTT
691452 CTATCAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.19, C:0.06, G:0.16, T:0.59
Consensus pattern (17 bp):
TTTGTAGTTTACATTTG
Found at i:692939 original size:3 final size:3
Alignment explanation
Indices: 692931--692955 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
692921 GGGAAAGGTG
692931 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
692956 CAATTGTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:694340 original size:17 final size:17
Alignment explanation
Indices: 694318--694350 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
694308 TCACTCTTTT
694318 TTTTTTTAATTTTTTAC
1 TTTTTTTAATTTTTTAC
*
694335 TTTTTTTATTTTTTTA
1 TTTTTTTAATTTTTTA
694351 TGCCTCACAC
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:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTAATTTTTTAC
Found at i:694349 original size:8 final size:8
Alignment explanation
Indices: 694314--694351 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
694304 AATTTCACTC
694314 TTTT-TTT
1 TTTTATTT
*
694321 TTTTAATT
1 TTTTATTT
694329 TTTTACTTT
1 TTTTA-TTT
694338 TTTTATTT
1 TTTTATTT
694346 TTTTAT
1 TTTTAT
694352 GCCTCACACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
7 4 0.15
8 16 0.59
9 7 0.26
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTATTT
Found at i:697852 original size:20 final size:20
Alignment explanation
Indices: 697813--697852 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
697803 ATTAAACAAA
* * *
697813 TATTTTATATTTTTATAATT
1 TATTTAATATTTATAAAATT
697833 TATTTAATATTTATAAAATT
1 TATTTAATATTTATAAAATT
697853 AATTCATATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTAATATTTATAAAATT
Found at i:698915 original size:8 final size:8
Alignment explanation
Indices: 698902--698928 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
698892 ATTGTAAATA
698902 TATATATT
1 TATATATT
698910 TATATATT
1 TATATATT
698918 TATATATT
1 TATATATT
698926 TAT
1 TAT
698929 GAAATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TATATATT
Found at i:699032 original size:23 final size:23
Alignment explanation
Indices: 698999--699072 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 23
698989 ATTATTATTT
* *
698999 AATATTAA-TA-AAAATTATTTA
1 AATATTAATTATAAAAATATATA
699020 AAT-TTAATTATAAAAATATATA
1 AATATTAATTATAAAAATATATA
*
699042 AATATTAAATTA-AAATAAAATATTA
1 AATATT-AATTATAAA-AATATA-TA
699067 AATATT
1 AATATT
699073 TTAATAATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
20 4 0.09
21 5 0.11
22 12 0.27
23 5 0.11
24 10 0.23
25 8 0.18
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
AATATTAATTATAAAAATATATA
Found at i:699052 original size:24 final size:24
Alignment explanation
Indices: 698997--699072 Score: 68
Period size: 24 Copynumber: 3.1 Consensus size: 24
698987 AAATTATTAT
*
698997 TTAATATTAATAAAAATTATTTAAAT-
1 TTAA-ATT-ATAAAAA-TATATAAATA
699023 TT-AATTATAAAAATATATAAATA
1 TTAAATTATAAAAATATATAAATA
*
699046 TTAAATTA-AAATAAAATATTAAATA
1 TTAAATTATAAA-AATATA-TAAATA
699071 TT
1 TT
699073 TTAATAATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
22 8 0.18
23 12 0.27
24 13 0.30
25 9 0.20
26 2 0.05
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
TTAAATTATAAAAATATATAAATA
Found at i:699453 original size:15 final size:15
Alignment explanation
Indices: 699426--699476 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
699416 ATATTTTATT
699426 ATAATTAATTATAATA
1 ATAATT-ATTATAATA
*
699442 ATATTTATTAT-ATCA
1 ATAATTATTATAAT-A
*
699457 ATAATTATTATAAAA
1 ATAATTATTATAATA
699472 ATAAT
1 ATAAT
699477 ATAATTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 2 0.07
15 22 0.73
16 6 0.20
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTATTATAATA
Found at i:699668 original size:23 final size:24
Alignment explanation
Indices: 699607--699669 Score: 58
Period size: 24 Copynumber: 2.6 Consensus size: 24
699597 AATAAAATTG
* * *
699607 ATGAGATAAATAATATATTTTTTAA
1 ATGA-ATAAATTATATATTTGTAAA
699632 AT-AATAAAATT-TATTATTTGTAAA
1 ATGAAT-AAATTATA-TATTTGTAAA
699656 ATGAATAAATTATA
1 ATGAATAAATTATA
699670 CACTTAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
23 4 0.13
24 20 0.65
25 7 0.23
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (24 bp):
ATGAATAAATTATATATTTGTAAA
Found at i:711862 original size:23 final size:23
Alignment explanation
Indices: 711806--711885 Score: 65
Period size: 23 Copynumber: 3.4 Consensus size: 23
711796 TATTATACTA
*
711806 ATATTAAATATTT-AAAATAACACT
1 ATATT-AATATTTAAAAATAA-ATT
* *
711830 AT-TTATTATTTAAAAATGAATT
1 ATATTAATATTTAAAAATAAATT
* *
711852 ATATTAATATTTAAAATATTATTT
1 ATATTAATATTTAAAA-ATAAATT
*
711876 TTATTAATAT
1 ATATTAATAT
711886 AATTATTATT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
22 10 0.22
23 20 0.43
24 16 0.35
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (23 bp):
ATATTAATATTTAAAAATAAATT
Found at i:711884 original size:15 final size:15
Alignment explanation
Indices: 711866--711917 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
711856 TAATATTTAA
711866 AATATTATTTTTATT
1 AATATTATTTTTATT
* *
711881 AATATAATTATTATT
1 AATATTATTTTTATT
* *
711896 AAAGTAATATTTCTATT
1 -AA-TATTATTTTTATT
711913 AATAT
1 AATAT
711918 AATACTTATG
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
15 15 0.54
16 4 0.14
17 9 0.32
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (15 bp):
AATATTATTTTTATT
Found at i:712496 original size:18 final size:17
Alignment explanation
Indices: 712469--712523 Score: 62
Period size: 18 Copynumber: 3.3 Consensus size: 17
712459 ACATAATGTG
712469 ATATAATATATATCAATT
1 ATATAATATATAT-AATT
*
712487 ATATACTATATATAATT
1 ATATAATATATATAATT
712504 A-A-AATA-ATATAGATT
1 ATATAATATATATA-ATT
712519 ATATA
1 ATATA
712524 TATCATTACT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
14 5 0.16
15 7 0.22
16 2 0.06
17 6 0.19
18 12 0.38
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (17 bp):
ATATAATATATATAATT
Found at i:714953 original size:20 final size:21
Alignment explanation
Indices: 714930--714968 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
714920 TTAATGTTGC
*
714930 ATTTGAAAA-CTTAAATTTAG
1 ATTTCAAAATCTTAAATTTAG
*
714950 ATTTCAAAATTTTAAATTT
1 ATTTCAAAATCTTAAATTT
714969 GAAATTCATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (21 bp):
ATTTCAAAATCTTAAATTTAG
Found at i:718709 original size:13 final size:14
Alignment explanation
Indices: 718677--718704 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
718667 CAAATGATGA
718677 AATAAAAATTCATT
1 AATAAAAATTCATT
718691 AATAAAAATTCATT
1 AATAAAAATTCATT
718705 TTAAATACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (14 bp):
AATAAAAATTCATT
Found at i:719978 original size:28 final size:27
Alignment explanation
Indices: 719924--719994 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
719914 GCCACCCATT
*
719924 TGTTTGTAAAAAATGGTGATTATTTTG
1 TGTTTGTCAAAAATGGTGATTATTTTG
*
719951 TGTTTGTCAAAAATGGTGGTT-TCCTTTG
1 TGTTTGTCAAAAATGGTGATTAT--TTTG
* *
719979 TATTTGTCAAATATGG
1 TGTTTGTCAAAAATGG
719995 AGGCTTGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.03
27 19 0.50
28 18 0.47
ACGTcount: A:0.25, C:0.06, G:0.23, T:0.46
Consensus pattern (27 bp):
TGTTTGTCAAAAATGGTGATTATTTTG
Found at i:720096 original size:20 final size:20
Alignment explanation
Indices: 720071--720116 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
720061 AAATAGAGGC
*
720071 TCCCTCCTCCCTCTCAAGTA
1 TCCCTCATCCCTCTCAAGTA
* **
720091 TCCCTCATCCTTCTCTTGTA
1 TCCCTCATCCCTCTCAAGTA
720111 TCCCTC
1 TCCCTC
720117 TTCAATTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.48, G:0.04, T:0.37
Consensus pattern (20 bp):
TCCCTCATCCCTCTCAAGTA
Found at i:724549 original size:28 final size:27
Alignment explanation
Indices: 724495--724565 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
724485 GCAACCCATT
*
724495 TGTTTGTAAAAAATGGTGGTTATTTTG
1 TGTTTGTCAAAAATGGTGGTTATTTTG
724522 TGTTTGTCAAAAATGGTGGTT-TCCTTTG
1 TGTTTGTCAAAAATGGTGGTTAT--TTTG
* *
724550 TATTTGTCAAATATGG
1 TGTTTGTCAAAAATGG
724566 AGGCTTGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.03
27 20 0.51
28 18 0.46
ACGTcount: A:0.24, C:0.06, G:0.24, T:0.46
Consensus pattern (27 bp):
TGTTTGTCAAAAATGGTGGTTATTTTG
Found at i:724667 original size:20 final size:20
Alignment explanation
Indices: 724642--724686 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
724632 AAATAGAGGC
*
724642 TCCCTCCTCCCTCTCAAGTA
1 TCCCTCATCCCTCTCAAGTA
**
724662 TCCCTCATCCCTCTCTTGTA
1 TCCCTCATCCCTCTCAAGTA
724682 TCCCT
1 TCCCT
724687 TTTCAATTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.49, G:0.04, T:0.36
Consensus pattern (20 bp):
TCCCTCATCCCTCTCAAGTA
Found at i:725488 original size:22 final size:23
Alignment explanation
Indices: 725451--725493 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
725441 ATATGATTGG
*
725451 TAATAATTGATGTATTGAAAAAA
1 TAATAATTAATGTATTGAAAAAA
*
725474 TAATAA-TAATGTATTTAAAA
1 TAATAATTAATGTATTGAAAA
725494 GAAAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.37
Consensus pattern (23 bp):
TAATAATTAATGTATTGAAAAAA
Found at i:726543 original size:28 final size:27
Alignment explanation
Indices: 726489--726559 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
726479 ACCACCCATT
726489 TATTTGTAAAAAATGGTGGTTATTTTG
1 TATTTGTAAAAAATGGTGGTTATTTTG
*
726516 TGTTTGTAAAAAATGGTGGTT-TCCTTTG
1 TATTTGTAAAAAATGGTGGTTAT--TTTG
* *
726544 TATTTGTCAAATATGG
1 TATTTGTAAAAAATGG
726560 AGGCTTGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.03
27 20 0.53
28 17 0.45
ACGTcount: A:0.27, C:0.04, G:0.23, T:0.46
Consensus pattern (27 bp):
TATTTGTAAAAAATGGTGGTTATTTTG
Found at i:731118 original size:28 final size:27
Alignment explanation
Indices: 731063--731144 Score: 103
Period size: 28 Copynumber: 3.0 Consensus size: 27
731053 GCCACCCATT
731063 TGTTTGTCAAAAATGGTGGTTATTTTG
1 TGTTTGTCAAAAATGGTGGTTATTTTG
731090 TGTTTGTCAAAAATGGTGGTT-TCCTTTG
1 TGTTTGTCAAAAATGGTGGTTAT--TTTG
* * *
731118 TATTTGTCAAATATGGAGGCTTATTTT
1 TGTTTGTCAAAAATGGTGG-TTATTTT
731145 TTTGTCAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
26 1 0.02
27 21 0.44
28 23 0.48
29 2 0.04
30 1 0.02
ACGTcount: A:0.22, C:0.07, G:0.23, T:0.48
Consensus pattern (27 bp):
TGTTTGTCAAAAATGGTGGTTATTTTG
Found at i:737207 original size:36 final size:35
Alignment explanation
Indices: 737160--737236 Score: 120
Period size: 36 Copynumber: 2.2 Consensus size: 35
737150 AATTTAATTT
* *
737160 TATAT-TAATATAATTAAATCTTTACTTGTAAATA
1 TATATATAATATAATAAAATCTTTACTCGTAAATA
737194 TATATATATATATAATAAAATCTTTACTCGTAAATA
1 TATATATA-ATATAATAAAATCTTTACTCGTAAATA
737230 TATATAT
1 TATATAT
737237 GCGGAACGTC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
34 5 0.13
35 2 0.05
36 32 0.82
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (35 bp):
TATATATAATATAATAAAATCTTTACTCGTAAATA
Found at i:740102 original size:16 final size:16
Alignment explanation
Indices: 740084--740143 Score: 93
Period size: 16 Copynumber: 3.8 Consensus size: 16
740074 ATTGTCAGGG
*
740084 TCATTTCGGGTTCGGG
1 TCATTTCGGGTTCGGA
* *
740100 TCATTTTGGGTTAGGA
1 TCATTTCGGGTTCGGA
740116 TCATTTCGGGTTCGGA
1 TCATTTCGGGTTCGGA
740132 TCATTTCGGGTT
1 TCATTTCGGGTT
740144 TCGAGTTGGT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.12, C:0.15, G:0.32, T:0.42
Consensus pattern (16 bp):
TCATTTCGGGTTCGGA
Found at i:740425 original size:16 final size:16
Alignment explanation
Indices: 740403--740537 Score: 123
Period size: 16 Copynumber: 8.5 Consensus size: 16
740393 CGGGTTAATT
*
740403 ATTCGGGTCATTTTGG
1 ATTCGGGTCATTTCGG
* *
740419 GTTCGGGTCATTTTGG
1 ATTCGGGTCATTTCGG
740435 ATTCGGGTCATTTCGG
1 ATTCGGGTCATTTCGG
*
740451 GTTC-GGTCATTTCGG
1 ATTCGGGTCATTTCGG
*
740466 ATTCGAGTCA-TTCTGG
1 ATTCGGGTCATTTC-GG
* *
740482 ATTCAGGTCATTTAGG
1 ATTCGGGTCATTTCGG
* * *
740498 GTTTGAGAT-ATTTCGG
1 ATTCG-GGTCATTTCGG
* *
740514 GTTCGGGTCAGTTCGG
1 ATTCGGGTCATTTCGG
740530 ATTCGGGT
1 ATTCGGGT
740538 TGTTGACTTT
Statistics
Matches: 96, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
15 19 0.20
16 73 0.76
17 4 0.04
ACGTcount: A:0.13, C:0.15, G:0.33, T:0.39
Consensus pattern (16 bp):
ATTCGGGTCATTTCGG
Found at i:740441 original size:32 final size:32
Alignment explanation
Indices: 740403--740537 Score: 141
Period size: 32 Copynumber: 4.2 Consensus size: 32
740393 CGGGTTAATT
* *
740403 ATTCGGGTCATTTTGGGTTCGGGTCATTTTGG
1 ATTCGGGTCATTTCGGGTTCGGGTCATTTCGG
740435 ATTCGGGTCATTTCGGGTTC-GGTCATTTCGG
1 ATTCGGGTCATTTCGGGTTCGGGTCATTTCGG
* * * *
740466 ATTCGAGTCA-TTCTGGATTCAGGTCATTTAGG
1 ATTCGGGTCATTTC-GGGTTCGGGTCATTTCGG
* * * *
740498 GTTTGAGAT-ATTTCGGGTTCGGGTCAGTTCGG
1 ATTCG-GGTCATTTCGGGTTCGGGTCATTTCGG
740530 ATTCGGGT
1 ATTCGGGT
740538 TGTTGACTTT
Statistics
Matches: 83, Mismatches: 16, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
30 3 0.04
31 26 0.31
32 50 0.60
33 4 0.05
ACGTcount: A:0.13, C:0.15, G:0.33, T:0.39
Consensus pattern (32 bp):
ATTCGGGTCATTTCGGGTTCGGGTCATTTCGG
Found at i:740461 original size:47 final size:47
Alignment explanation
Indices: 740408--740537 Score: 154
Period size: 47 Copynumber: 2.7 Consensus size: 47
740398 TAATTATTCG
* *
740408 GGTCATTTTGGGTTCGGGTCATTTTGGATTCGGGTCATTTCGGGTTC
1 GGTCATTTCGGGTTCGGGTCATTTTGGATTCGGGTCATTTAGGGTTC
* * * * *
740455 GGTCATTTCGGATTCGAGTCATTCTGGATTCAGGTCATTTAGGGTTT
1 GGTCATTTCGGGTTCGGGTCATTTTGGATTCGGGTCATTTAGGGTTC
* *
740502 GAGAT-ATTTCGGGTTCGGGTCAGTTCGGATTCGGGT
1 G-G-TCATTTCGGGTTCGGGTCATTTTGGATTCGGGT
740538 TGTTGACTTT
Statistics
Matches: 68, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
47 41 0.60
48 26 0.38
49 1 0.01
ACGTcount: A:0.13, C:0.15, G:0.33, T:0.39
Consensus pattern (47 bp):
GGTCATTTCGGGTTCGGGTCATTTTGGATTCGGGTCATTTAGGGTTC
Found at i:741896 original size:17 final size:17
Alignment explanation
Indices: 741874--741907 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
741864 GTACGTAATT
*
741874 TTTATTTTTATTTTTTA
1 TTTATTTTTATCTTTTA
741891 TTTATTTTTATCTTTTA
1 TTTATTTTTATCTTTTA
741908 GCCTGGCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTATTTTTATCTTTTA
Found at i:743973 original size:2 final size:2
Alignment explanation
Indices: 743966--743991 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
743956 AATTTTTCAA
743966 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
743992 TACTTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:745674 original size:2 final size:2
Alignment explanation
Indices: 745667--745693 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
745657 ACCGGGCCTG
745667 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 T
745694 TTTGTTCCTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:745928 original size:2 final size:2
Alignment explanation
Indices: 745923--745955 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
745913 AATGGCAAAA
745923 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
745956 TTAGAATGAG
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:747579 original size:3 final size:3
Alignment explanation
Indices: 747550--747609 Score: 75
Period size: 3 Copynumber: 20.0 Consensus size: 3
747540 GGAAACAACC
* ** * *
747550 ATT ATT ACT ATT ACC ATT ACT ACT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
747598 ATT ATT ATT ATT
1 ATT ATT ATT ATT
747610 GCCAAATGTA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:747913 original size:2 final size:2
Alignment explanation
Indices: 747906--747959 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
747896 AATATTCCTA
747906 AT AT AT 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 AT AT AT
747948 AT AT AT AT AT AT
1 AT AT AT AT AT AT
747960 GCGAGCTAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:749920 original size:18 final size:18
Alignment explanation
Indices: 749893--749944 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
749883 ATTTTGTTTC
* *
749893 AAAATTTATTTTATTATA
1 AAAATATATTATATTATA
*
749911 AAAATATATTGA-AATATA
1 AAAATATATT-ATATTATA
749929 AAAATTATATTATATT
1 AAAA-TATATTATATT
749945 TTCAATAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
18 19 0.70
19 8 0.30
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
AAAATATATTATATTATA
Found at i:750305 original size:3 final size:3
Alignment explanation
Indices: 750297--750328 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
750287 TCTTTTACAC
750297 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
750329 TCGGTTTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:751564 original size:3 final size:3
Alignment explanation
Indices: 751556--751598 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
751546 GTAATTATAT
*
751556 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA TAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
751599 GATTTCTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:754563 original size:34 final size:34
Alignment explanation
Indices: 754516--754582 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
754506 ATTTTTATTT
754516 AATAATATATTA-TTTTAAATATATAATTATTAAA
1 AATAATATATTATTTTTAAA-ATATAATTATTAAA
* *
754550 AATAATTTTTTATTTTTAAAATATAATTATTAA
1 AATAATATATTATTTTTAAAATATAATTATTAA
754583 TTATTTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 23 0.77
35 7 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (34 bp):
AATAATATATTATTTTTAAAATATAATTATTAAA
Found at i:754577 original size:21 final size:22
Alignment explanation
Indices: 754545--754592 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 22
754535 TATATAATTA
754545 TTAAAAATAATT-TT-TTATTT
1 TTAAAAATAATTATTATTATTT
754565 TTAAAATATAATTATTAATTATTT
1 TTAAAA-ATAATTATT-ATTATTT
754589 TTAA
1 TTAA
754593 TTTTTCATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.25
21 6 0.25
22 2 0.08
24 10 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAAAAATAATTATTATTATTT
Found at i:754596 original size:31 final size:33
Alignment explanation
Indices: 754528--754597 Score: 90
Period size: 31 Copynumber: 2.1 Consensus size: 33
754518 TAATATATTA
*
754528 TTTTAAATATATAATTATTAAAAATAATTTTTTAT
1 TTTTAAATATATAATTATT--AAATAATTTTTAAT
*
754563 TTTTAAA-ATATAATTATT-AATTATTTTTAAT
1 TTTTAAATATATAATTATTAAATAATTTTTAAT
754594 TTTT
1 TTTT
754598 CATCATAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 15 0.45
34 11 0.33
35 7 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (33 bp):
TTTTAAATATATAATTATTAAATAATTTTTAAT
Found at i:754629 original size:3 final size:3
Alignment explanation
Indices: 754621--754647 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
754611 AATGAAACTG
754621 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
754648 GAGTTCTACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:755002 original size:2 final size:2
Alignment explanation
Indices: 754990--755020 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
754980 ATCGTAATCT
*
754990 TA TA AA 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 T
755021 TCAAGTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 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):
TA
Found at i:755115 original size:29 final size:29
Alignment explanation
Indices: 755083--755138 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
755073 CAGGTCAAAT
755083 TAATTTAATTTAAATTATAATT-TATTTAA
1 TAATTTAATTTAAATT-TAATTATATTTAA
**
755112 TAATTTTTTTTAAATTTAATTATATTT
1 TAATTTAATTTAAATTTAATTATATTT
755139 TAATTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (29 bp):
TAATTTAATTTAAATTTAATTATATTTAA
Found at i:755147 original size:29 final size:29
Alignment explanation
Indices: 755091--755147 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
755081 ATTAATTTAA
755091 TTTAAATTATAATTTATTTAATAATTTTT
1 TTTAAATTATAATTTATTTAATAATTTTT
755120 TTTAAATT-TAATTATATTT--TAATTTTT
1 TTTAAATTATAATT-TATTTAATAATTTTT
755147 T
1 T
755148 AAATAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 9 0.33
28 5 0.19
29 13 0.48
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (29 bp):
TTTAAATTATAATTTATTTAATAATTTTT
Found at i:756025 original size:2 final size:2
Alignment explanation
Indices: 756018--756055 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
756008 CTGTCACAAG
756018 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
756056 AAGATTTACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:756392 original size:2 final size:2
Alignment explanation
Indices: 756385--756418 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
756375 TTAAATACCA
756385 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
756419 GCATTGCAAG
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:757027 original size:2 final size:2
Alignment explanation
Indices: 757022--757055 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
757012 TGAAAATTTA
*
757022 AT AT AT AT AT AT AT AT AT -T AT AT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
757056 GAAACCCTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:757049 original size:15 final size:15
Alignment explanation
Indices: 757025--757054 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
757015 AAATTTAATA
757025 TATATATATATATAT
1 TATATATATATATAT
*
757040 TATATGTATATATAT
1 TATATATATATATAT
757055 AGAAACCCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
TATATATATATATAT
Found at i:758959 original size:16 final size:16
Alignment explanation
Indices: 758938--758968 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
758928 AATTTTTATT
758938 TTTTTATACATATATA
1 TTTTTATACATATATA
*
758954 TTTTTATTCATATAT
1 TTTTTATACATATAT
758969 TATTATTTTT
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:0.32, C:0.06, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTTATACATATATA
Found at i:758992 original size:20 final size:20
Alignment explanation
Indices: 758942--758996 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 20
758932 TTTATTTTTT
758942 TATACATATATATTTTTATTCA
1 TATA-ATAT-TATTTTTATTCA
*
758964 TATATTATTATTTTTATT-A
1 TATAATATTATTTTTATTCA
*
758983 TTTTAATATTATTT
1 -TATAATATTATTT
758997 AAGCCATGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 1 0.03
20 21 0.72
21 3 0.10
22 4 0.14
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (20 bp):
TATAATATTATTTTTATTCA
Found at i:759284 original size:18 final size:18
Alignment explanation
Indices: 759236--759284 Score: 71
Period size: 19 Copynumber: 2.7 Consensus size: 18
759226 ACTTAATTTG
759236 ATAATTTAAATTTTAAAA
1 ATAATTTAAATTTTAAAA
*
759254 ATAGATTTAAATTTTAAAC
1 ATA-ATTTAAATTTTAAAA
*
759273 ATAATATAAATT
1 ATAATTTAAATT
759285 AAGAATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.39
19 17 0.61
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (18 bp):
ATAATTTAAATTTTAAAA
Found at i:763081 original size:15 final size:15
Alignment explanation
Indices: 763043--763082 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
763033 GATTTAATTC
*
763043 TAAAAGAAAAAAAAT
1 TAAAAGAATAAAAAT
* *
763058 AAAAAGAATAAATAT
1 TAAAAGAATAAAAAT
763073 TAAAAGAATA
1 TAAAAGAATA
763083 GAAAGAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.17
Consensus pattern (15 bp):
TAAAAGAATAAAAAT
Found at i:763082 original size:24 final size:23
Alignment explanation
Indices: 763050--763095 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
763040 TTCTAAAAGA
763050 AAAAAAATAAAAAGAATAAATATT
1 AAAAAAATAAAAAGAA-AAATATT
* *
763074 AAAAGAATAGAAAGAAAAATAT
1 AAAAAAATAAAAAGAAAAATAT
763096 ATTATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (23 bp):
AAAAAAATAAAAAGAAAAATATT
Found at i:768782 original size:5 final size:5
Alignment explanation
Indices: 768774--768849 Score: 54
Period size: 5 Copynumber: 15.8 Consensus size: 5
768764 ATACGATGAT
* * *
768774 TATTA TATT- TATTT TATTA TATTT TA-TA TATT- T-TTA TTTTTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA -TATTA TATTA
* *
768821 TATTTA CATTA -ATTT TATTA TATTA TATT
1 TA-TTA TATTA TATTA TATTA TATTA TATT
768850 TAACATAATA
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
3 2 0.04
4 11 0.19
5 37 0.65
6 7 0.12
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (5 bp):
TATTA
Found at i:768805 original size:23 final size:25
Alignment explanation
Indices: 768777--768848 Score: 85
Period size: 25 Copynumber: 3.0 Consensus size: 25
768767 CGATGATTAT
*
768777 TATATTTATTTTATTATATTTTATA
1 TATATTTATTTTATTATATTATATA
* *
768802 TATTTTTA-TTT-TTATATTATATT
1 TATATTTATTTTATTATATTATATA
* *
768825 TACATTAATTTTATTATATTATAT
1 TATATTTATTTTATTATATTATAT
768849 TTAACATAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
23 15 0.38
24 6 0.15
25 18 0.46
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (25 bp):
TATATTTATTTTATTATATTATATA
Found at i:768851 original size:14 final size:14
Alignment explanation
Indices: 768774--768851 Score: 67
Period size: 14 Copynumber: 5.8 Consensus size: 14
768764 ATACGATGAT
*
768774 TATTATATTTATTT
1 TATTATATTTATTA
768788 TATTATATTT-TATA
1 TATTATATTTAT-TA
*
768802 TATTTTTATTT-TTA
1 TA-TTATATTTATTA
*
768816 TATTATATTTA-CA
1 TATTATATTTATTA
*
768829 T-TAAT-TTTATTA
1 TATTATATTTATTA
768841 TATTATATTTA
1 TATTATATTTA
768852 ACATAATATT
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
11 4 0.08
12 5 0.10
13 13 0.25
14 21 0.41
15 8 0.16
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTATATTTATTA
Found at i:768858 original size:25 final size:24
Alignment explanation
Indices: 768781--768858 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 24
768771 GATTATTATA
* * *
768781 TTTATTTTATTATATTTTATATATT
1 TTTATTATATTATA-TTTACATAAT
768806 TTTATTTTTATATTATATTTACATTAAT
1 TTTA---TTATATTATATTTACA-TAAT
768834 TTTATTATATTATATTTAACATAAT
1 TTTATTATATTATATTT-ACATAAT
768859 ATTTTAATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
25 21 0.47
26 3 0.07
27 5 0.11
28 16 0.36
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (24 bp):
TTTATTATATTATATTTACATAAT
Found at i:768868 original size:25 final size:25
Alignment explanation
Indices: 768808--768869 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
768798 TATATATTTT
768808 TATTTTTATATTATATTTACATTAA
1 TATTTTTATATTATATTTACATTAA
768833 T-TTTATTATATTATATTTAACA-TAA
1 TATTT-TTATATTATATTT-ACATTAA
*
768858 TATTTTAATATT
1 TATTTTTATATT
768870 TTAAATTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
24 3 0.09
25 24 0.73
26 6 0.18
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (25 bp):
TATTTTTATATTATATTTACATTAA
Found at i:769028 original size:2 final size:2
Alignment explanation
Indices: 769021--769049 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
769011 GACATATGTG
769021 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 T
769050 GAACCAGGAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:770375 original size:27 final size:28
Alignment explanation
Indices: 770345--770434 Score: 71
Period size: 27 Copynumber: 3.3 Consensus size: 28
770335 TTACATAAAT
*
770345 AAAATATAAAATTTAATTATTAAA-TA-A
1 AAAATATAAAATTTAATTA-AAAATTATA
*
770372 AAAAT-TATAAATTTTATTAAAAATTATA
1 AAAATATA-AAATTTAATTAAAAATTATA
* * **
770400 AAAATACAAAA-TTAAATAAATTTTATA
1 AAAATATAAAATTTAATTAAAAATTATA
*
770427 ATAATATA
1 AAAATATA
770435 TCTAAAATTT
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
26 5 0.10
27 35 0.70
28 9 0.18
29 1 0.02
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (28 bp):
AAAATATAAAATTTAATTAAAAATTATA
Found at i:770960 original size:17 final size:17
Alignment explanation
Indices: 770908--770961 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
770898 AATAACATTT
770908 ATTTTTAATATTATTAA
1 ATTTTTAATATTATTAA
* * *
770925 ATTATAAATAATATT-A
1 ATTTTTAATATTATTAA
*
770941 ATTTTTAATTTTATTAA
1 ATTTTTAATATTATTAA
770958 ATTT
1 ATTT
770962 AAAATAAATA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
16 12 0.41
17 17 0.59
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTTAATATTATTAA
Found at i:770967 original size:33 final size:32
Alignment explanation
Indices: 770896--770968 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 32
770886 AATAATTTTA
*
770896 AAAATAACATTTATTTTTAATATTATTAAATT
1 AAAATAACATTAATTTTTAATATTATTAAATT
* *
770928 ATAAATAATATTAATTTTTAATTTTATTAAATTT
1 A-AAATAACATTAATTTTTAATATTATTAAA-TT
770962 AAAATAA
1 AAAATAA
770969 ATAAAATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
32 1 0.03
33 32 0.89
34 3 0.08
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (32 bp):
AAAATAACATTAATTTTTAATATTATTAAATT
Found at i:770977 original size:33 final size:33
Alignment explanation
Indices: 770908--770979 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
770898 AATAACATTT
*
770908 ATTTTTAATATTATTAAATTATAAATAATATTA
1 ATTTTTAATATTATTAAATTATAAATAATATAA
*
770941 ATTTTTAATTTTATTAAATT-TAAAATAA-ATAA
1 ATTTTTAATATTATTAAATTAT-AAATAATATAA
*
770973 AATTTTA
1 ATTTTTA
770980 TCATTTTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
32 10 0.29
33 25 0.71
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (33 bp):
ATTTTTAATATTATTAAATTATAAATAATATAA
Found at i:774556 original size:34 final size:34
Alignment explanation
Indices: 774518--774702 Score: 237
Period size: 34 Copynumber: 5.5 Consensus size: 34
774508 TATCTTTTAG
* * *
774518 CCATTTAGTCAACAATGGTAAACCACCTAATCAC
1 CCATTTAATCAACAATGGCAAACCACCAAATCAC
* * *
774552 CCATTTAATTAACAATGGTAAACCATCAAATCAC
1 CCATTTAATCAACAATGGCAAACCACCAAATCAC
*
774586 CCATTTAATCAACAATGGCAAACCACCAAATTAC
1 CCATTTAATCAACAATGGCAAACCACCAAATCAC
* *
774620 TCATTTAATCAACAATGGCAAACTACCAAATCA-
1 CCATTTAATCAACAATGGCAAACCACCAAATCAC
* * *
774653 CCATTTAGTCCACAATGGCAAACCACAAAATCAC
1 CCATTTAATCAACAATGGCAAACCACCAAATCAC
* *
774687 CTATTTAGTCAACAAT
1 CCATTTAATCAACAAT
774703 TCTCCCACTT
Statistics
Matches: 132, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
33 28 0.21
34 104 0.79
ACGTcount: A:0.42, C:0.27, G:0.07, T:0.24
Consensus pattern (34 bp):
CCATTTAATCAACAATGGCAAACCACCAAATCAC
Found at i:778782 original size:19 final size:19
Alignment explanation
Indices: 778760--778796 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
778750 ACAGTAACTG
*
778760 TATATGTGAACAGTGCCTA
1 TATACGTGAACAGTGCCTA
778779 TATACGTGAACAGTGCCT
1 TATACGTGAACAGTGCCT
778797 CTACAACCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (19 bp):
TATACGTGAACAGTGCCTA
Found at i:779196 original size:24 final size:24
Alignment explanation
Indices: 779168--779222 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
779158 TAATTAATAA
779168 TAATAAATCACTAAATTACTCATT
1 TAATAAATCACTAAATTACTCATT
* *
779192 TAATAAATCACTAAATTATTTATT
1 TAATAAATCACTAAATTACTCATT
779216 TAATAAA
1 TAATAAA
779223 AATGACAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (24 bp):
TAATAAATCACTAAATTACTCATT
Found at i:780000 original size:17 final size:17
Alignment explanation
Indices: 779912--780014 Score: 52
Period size: 17 Copynumber: 6.0 Consensus size: 17
779902 TTTCAGCTTT
* **
779912 AATTTTTTTTATTTTTA
1 AATTTTTTTAATTTAAA
*
779929 AATTATTTTAATTT-AA
1 AATTTTTTTAATTTAAA
** * *
779945 TTTTTTTTTAAGTTAAGT
1 AATTTTTTTAATTTAA-A
779963 AATTATTTTTAGAGTTT--A
1 AATT-TTTTTA-A-TTTAAA
779981 AATTTTTTTAATTTAAA
1 AATTTTTTTAATTTAAA
*
779998 AA-TATTTTAGATTTAAA
1 AATTTTTTTA-ATTTAAA
780015 CTCTTTTAAT
Statistics
Matches: 65, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
15 3 0.05
16 18 0.28
17 29 0.45
18 6 0.09
19 6 0.09
20 1 0.02
21 2 0.03
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (17 bp):
AATTTTTTTAATTTAAA
Found at i:780219 original size:30 final size:28
Alignment explanation
Indices: 780185--780249 Score: 67
Period size: 30 Copynumber: 2.2 Consensus size: 28
780175 AAATATTAAA
* *
780185 TTTATATAAATTTTTATACATTAATAATAG
1 TTTATATAAAATTTAATACATTAAT-AT-G
* * *
780215 TTTATGTAAAATTTAATATATTTATATG
1 TTTATATAAAATTTAATACATTAATATG
780243 TTTATAT
1 TTTATAT
780250 TATTTTTTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
28 7 0.24
29 2 0.07
30 20 0.69
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.54
Consensus pattern (28 bp):
TTTATATAAAATTTAATACATTAATATG
Found at i:780276 original size:18 final size:20
Alignment explanation
Indices: 780243--780281 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
780233 TATTTATATG
780243 TTTATATTATTTTTTTATTT
1 TTTATATTATTTTTTTATTT
780263 TTTA-ATTA-TTTTTTATTT
1 TTTATATTATTTTTTTATTT
780281 T
1 T
780282 ATTTTTACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 11 0.58
19 4 0.21
20 4 0.21
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTATATTATTTTTTTATTT
Found at i:780302 original size:25 final size:27
Alignment explanation
Indices: 780274--780323 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 27
780264 TTAATTATTT
780274 TTTATTTTAT-TTTTACAT-ATTTAAA
1 TTTATTTTATATTTTACATGATTTAAA
*
780299 TTTATTTTATATTTTATATGATTTA
1 TTTATTTTATATTTTACATGATTTA
780324 TTTTATTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.45
26 7 0.32
27 5 0.23
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (27 bp):
TTTATTTTATATTTTACATGATTTAAA
Found at i:780328 original size:26 final size:26
Alignment explanation
Indices: 780225--780330 Score: 78
Period size: 26 Copynumber: 4.1 Consensus size: 26
780215 TTTATGTAAA
* *
780225 ATTTAATATATTTATATG-TTTATATT
1 ATTTTATAT-TTTATATGATTTATTTT
* * *
780251 ATTTTTTTATTTT-T-TAATTATTTTTT
1 A-TTTTATATTTTATATGATT-TATTTT
* *
780277 ATTTTAT-TTTTACAT-ATTTAAATTT
1 ATTTTATATTTTATATGATTT-ATTTT
780302 ATTTTATATTTTATATGATTTATTTT
1 ATTTTATATTTTATATGATTTATTTT
780328 ATT
1 ATT
780331 AATTTACTTT
Statistics
Matches: 61, Mismatches: 11, Indels: 16
0.69 0.12 0.18
Matches are distributed among these distances:
24 6 0.10
25 21 0.34
26 24 0.39
27 10 0.16
ACGTcount: A:0.28, C:0.01, G:0.02, T:0.69
Consensus pattern (26 bp):
ATTTTATATTTTATATGATTTATTTT
Found at i:782285 original size:2 final size:2
Alignment explanation
Indices: 782278--782306 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
782268 TTAATAAATT
782278 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 T
782307 TTGGTGCAAG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:789292 original size:30 final size:28
Alignment explanation
Indices: 789258--789316 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 28
789248 CTAAAATAGA
789258 AAATA-TAAAAATTAAAAGAAAAAGTTGAAT
1 AAATAGTAAAAA-TAAAA-AAAAAGTT-AAT
*
789288 AAATAGTAAAAATAAAATAAAAGTTAAT
1 AAATAGTAAAAATAAAAAAAAAGTTAAT
789316 A
1 A
789317 TAGCCAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 4 0.15
29 7 0.26
30 10 0.37
31 6 0.22
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (28 bp):
AAATAGTAAAAATAAAAAAAAAGTTAAT
Found at i:792039 original size:27 final size:27
Alignment explanation
Indices: 791987--792038 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
791977 TTTTAGTATG
**
791987 AAAAAAATTAGAGAAGAAAAGAAAAAC
1 AAAAAAAAAAGAGAAGAAAAGAAAAAC
792014 AAAAAAAAAAGAGAA-AAAAGAAAAA
1 AAAAAAAAAAGAGAAGAAAAGAAAAA
792039 AGATAGTGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.81, C:0.02, G:0.13, T:0.04
Consensus pattern (27 bp):
AAAAAAAAAAGAGAAGAAAAGAAAAAC
Found at i:792121 original size:19 final size:19
Alignment explanation
Indices: 792075--792121 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
792065 GCATTAAGAT
*
792075 TTTTTTTTTCAATTTCTAC
1 TTTTTTTTGCAATTTCTAC
*
792094 TTTTATTTTGCACTTTCT-C
1 TTTT-TTTTGCAATTTCTAC
792113 TTCTTTTTT
1 TT-TTTTTT
792122 ATGAGTACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.11, C:0.17, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTTTTTTGCAATTTCTAC
Found at i:792954 original size:57 final size:58
Alignment explanation
Indices: 792884--793010 Score: 159
Period size: 58 Copynumber: 2.2 Consensus size: 58
792874 TTTTGATGTA
* * *
792884 ATTTAAGTCATTTTTCATAAGT-TAGAGA-TTTTATTCAATTTTATAAATGTTGGGGTC
1 ATTTAGGTCATTTTTCATAA-TCTAGAGATTTTTATACAATTTTATAAATGTTGAGGTC
* * * *
792941 ATTTAGGTTATTTTTTATGATCTAGAGATTTTTATACAATTTTATAAATGTTGAGGTT
1 ATTTAGGTCATTTTTCATAATCTAGAGATTTTTATACAATTTTATAAATGTTGAGGTC
*
792999 ATTTAGATCATT
1 ATTTAGGTCATT
793011 CTCTATGATA
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
56 1 0.02
57 22 0.37
58 36 0.61
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.50
Consensus pattern (58 bp):
ATTTAGGTCATTTTTCATAATCTAGAGATTTTTATACAATTTTATAAATGTTGAGGTC
Found at i:793018 original size:58 final size:58
Alignment explanation
Indices: 792906--793100 Score: 203
Period size: 58 Copynumber: 3.3 Consensus size: 58
792896 TTTCATAAGT
* * * * * *
792906 TAGAGA-TTTTATTCAATTTTATAAATGTTGGGGTCATTTAGGTTATTTTTTATGATC
1 TAGAGATTTTTATGCAATTTTATAAATGTTGAGGTCATTTAGATCATTTTCTATGATA
* * *
792963 TAGAGATTTTTATACAATTTTATAAATGTTGAGGTTATTTAGATCATTCTCTATGATA
1 TAGAGATTTTTATGCAATTTTATAAATGTTGAGGTCATTTAGATCATTTTCTATGATA
* * * ** * * *
793021 TAGAAACTTTTATGTAATTTTATGTATACTTAACGTCATTTAGATCATTTTTCTATGATA
1 TAGAGATTTTTATGCAATTTTATAAAT-GTTGAGGTCATTTAGATCA-TTTTCTATGATA
*
793081 TAGGGATTTTTATGCAATTT
1 TAGAGATTTTTATGCAATTT
793101 CATACATTTT
Statistics
Matches: 112, Mismatches: 23, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
57 6 0.05
58 64 0.57
59 15 0.13
60 27 0.24
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.49
Consensus pattern (58 bp):
TAGAGATTTTTATGCAATTTTATAAATGTTGAGGTCATTTAGATCATTTTCTATGATA
Found at i:794296 original size:14 final size:14
Alignment explanation
Indices: 794277--794321 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
794267 AAAAATAAAT
*
794277 TTATTTTTGAAAAA
1 TTATTTTTAAAAAA
* *
794291 TTATTTTTTAAAAT
1 TTATTTTTAAAAAA
*
794305 TTATTTTAAAAAAA
1 TTATTTTTAAAAAA
794319 TTA
1 TTA
794322 AACGCTCTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (14 bp):
TTATTTTTAAAAAA
Found at i:794316 original size:13 final size:14
Alignment explanation
Indices: 794273--794316 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 14
794263 ATTTAAAAAT
794273 AAATTTATTTTTGAA
1 AAATTTATTTTT-AA
*
794288 AAA-TTATTTTTTA
1 AAATTTATTTTTAA
794301 AAATTTA-TTTTAA
1 AAATTTATTTTTAA
794314 AAA
1 AAA
794317 AATTAAACGC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 12 0.46
14 11 0.42
15 3 0.12
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (14 bp):
AAATTTATTTTTAA
Found at i:797630 original size:16 final size:17
Alignment explanation
Indices: 797609--797652 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
797599 AATTAATTAA
797609 AATAAAATAAATT-TAT
1 AATAAAATAAATTATAT
*
797625 AATAAAAT-AATTATTT
1 AATAAAATAAATTATAT
797641 AATAAGAATAAA
1 AATAA-AATAAA
797653 ATAGGATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 4 0.17
16 15 0.62
17 3 0.12
18 2 0.08
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (17 bp):
AATAAAATAAATTATAT
Found at i:797688 original size:22 final size:23
Alignment explanation
Indices: 797625--797689 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 23
797615 ATAAATTTAT
*
797625 AATAAAATAATTAT-TTAATAAG
1 AATAAAATAATTATAATAATAAG
797647 AATAAAATAGGA-T-TAA-AATAA-
1 AATAAAATA--ATTATAATAATAAG
797668 AATAAAATAATTATAATAATAA
1 AATAAAATAATTATAATAATAA
797690 TTTATTTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
19 1 0.03
20 1 0.03
21 12 0.33
22 20 0.56
23 1 0.03
24 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.31
Consensus pattern (23 bp):
AATAAAATAATTATAATAATAAG
Found at i:797897 original size:21 final size:20
Alignment explanation
Indices: 797856--797902 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
797846 AATTATTTCG
797856 TAAAATAATCATTTAACAAA
1 TAAAATAATCATTTAACAAA
* * *
797876 TTAAATAATTATTTTACGAAA
1 TAAAATAATCATTTAAC-AAA
797897 TAAAAT
1 TAAAAT
797903 TAAAATTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.36
Consensus pattern (20 bp):
TAAAATAATCATTTAACAAA
Found at i:797916 original size:28 final size:26
Alignment explanation
Indices: 797873--797928 Score: 76
Period size: 28 Copynumber: 2.1 Consensus size: 26
797863 ATCATTTAAC
*
797873 AAATTAAATAATTATTTTACGAAATA
1 AAATTAAATAATTATTTTAAGAAATA
*
797899 AAATTAAAATTAATTATTTTAATAAATA
1 AAATT-AAA-TAATTATTTTAAGAAATA
797927 AA
1 AA
797929 TATTCTGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 5 0.19
27 3 0.12
28 18 0.69
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (26 bp):
AAATTAAATAATTATTTTAAGAAATA
Found at i:798374 original size:21 final size:23
Alignment explanation
Indices: 798342--798384 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
798332 TATTTAATTA
798342 ATAAATTATTTATA-AAAAATAT
1 ATAAATTATTTATATAAAAATAT
798364 ATAAA-TATTTATATAAAAATA
1 ATAAATTATTTATATAAAAATA
798385 ACTTTTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
ATAAATTATTTATATAAAAATAT
Found at i:803035 original size:71 final size:71
Alignment explanation
Indices: 802958--803099 Score: 284
Period size: 71 Copynumber: 2.0 Consensus size: 71
802948 TGATTGTCTT
802958 AAAAAAATGCTGAAACATCTCAATGATTAGTGCATAACATTAGAGATCCAACATCAACACACATG
1 AAAAAAATGCTGAAACATCTCAATGATTAGTGCATAACATTAGAGATCCAACATCAACACACATG
803023 ATCTGA
66 ATCTGA
803029 AAAAAAATGCTGAAACATCTCAATGATTAGTGCATAACATTAGAGATCCAACATCAACACACATG
1 AAAAAAATGCTGAAACATCTCAATGATTAGTGCATAACATTAGAGATCCAACATCAACACACATG
803094 ATCTGA
66 ATCTGA
803100 TTTTGGCGAC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.45, C:0.20, G:0.13, T:0.23
Consensus pattern (71 bp):
AAAAAAATGCTGAAACATCTCAATGATTAGTGCATAACATTAGAGATCCAACATCAACACACATG
ATCTGA
Found at i:810282 original size:43 final size:43
Alignment explanation
Indices: 810221--810307 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
810211 TAGAAAACTT
* *
810221 AAAGAAAAAAATGAACATACCTATATTGGACACATACCCAAAC
1 AAAGAAAAAAATGAACATACCCACATTGGACACATACCCAAAC
* *
810264 AAAGAAAAAAATGAACATACCCGCATTGGACACATACTCAAAC
1 AAAGAAAAAAATGAACATACCCACATTGGACACATACCCAAAC
810307 A
1 A
810308 TCCAACATCC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.53, C:0.22, G:0.10, T:0.15
Consensus pattern (43 bp):
AAAGAAAAAAATGAACATACCCACATTGGACACATACCCAAAC
Found at i:810774 original size:18 final size:15
Alignment explanation
Indices: 810763--810791 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
810753 ACAATTAATG
810763 GAGATGGTACAA-AA
1 GAGATGGTACAATAA
810777 GAGATGGTACAATAA
1 GAGATGGTACAATAA
810792 AATAACAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 12 0.86
15 2 0.14
ACGTcount: A:0.48, C:0.07, G:0.28, T:0.17
Consensus pattern (15 bp):
GAGATGGTACAATAA
Found at i:813169 original size:13 final size:13
Alignment explanation
Indices: 813151--813197 Score: 67
Period size: 13 Copynumber: 3.4 Consensus size: 13
813141 CACGTTGACC
813151 AAATAAATTATTA
1 AAATAAATTATTA
813164 AAATAATATTAATTTA
1 AAATAA-ATT-A-TTA
813180 AAATAAATTATTA
1 AAATAAATTATTA
813193 AAATA
1 AAATA
813198 TTAATATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
13 14 0.45
14 4 0.13
15 4 0.13
16 9 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATAAATTATTA
Found at i:813423 original size:2 final size:2
Alignment explanation
Indices: 813416--813451 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
813406 GTGAACAAAA
813416 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
813452 CTTGAACTAC
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:815501 original size:30 final size:29
Alignment explanation
Indices: 815467--815530 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 29
815457 GGTACGTGAT
* *
815467 AAAATAATAATATTTTTGATAATTTATTTA
1 AAAATAATAATATTTTAGAT-ATTAATTTA
** *
815497 AAAATAATGTTATTTTAGATATTAATTTT
1 AAAATAATAATATTTTAGATATTAATTTA
815526 AAAAT
1 AAAAT
815531 TGAGTAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 12 0.41
30 17 0.59
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (29 bp):
AAAATAATAATATTTTAGATATTAATTTA
Found at i:821114 original size:2 final size:2
Alignment explanation
Indices: 821107--821138 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
821097 TCAATTGCAA
*
821107 AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
821139 CTTTCATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:823425 original size:16 final size:16
Alignment explanation
Indices: 823404--823436 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
823394 TTTTATTTAT
823404 TCATAAT-TAATTTAAA
1 TCATAATAT-ATTTAAA
823420 TCATAATATATTTAAA
1 TCATAATATATTTAAA
823436 T
1 T
823437 TTTTATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.94
17 1 0.06
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
TCATAATATATTTAAA
Found at i:823454 original size:41 final size:40
Alignment explanation
Indices: 823369--823449 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 40
823359 TCAATCTAGT
* *
823369 TTAATTTAAATTTAAAATATTTTATTTTTATTTATTCATAA
1 TTAATTTAAATATAAAATATTTAATTTTTATTTATT-ATAA
*
823410 TTAATTTAAATCATAATATATTTAAATTTTTATTTTATTA
1 TTAATTTAAAT-ATAAAATATTT-AATTTTTA-TTTATTA
823450 ATTAAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 11 0.32
42 9 0.26
43 8 0.24
44 6 0.18
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (40 bp):
TTAATTTAAATATAAAATATTTAATTTTTATTTATTATAA
Found at i:823543 original size:19 final size:20
Alignment explanation
Indices: 823509--823549 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
823499 ATATAATGAT
*
823509 TTAAATAAAATATATTAAAA
1 TTAAAAAAAATATATTAAAA
*
823529 TTAAAAAAAAT-TATTTAAA
1 TTAAAAAAAATATATTAAAA
823548 TT
1 TT
823550 TGATTCAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TTAAAAAAAATATATTAAAA
Found at i:828978 original size:2 final size:2
Alignment explanation
Indices: 828973--829005 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
828963 TAAAAAAAAT
*
828973 TA TA TA TA -A TA TT 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
829006 CACAAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
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):
TA
Found at i:829142 original size:16 final size:15
Alignment explanation
Indices: 829098--829158 Score: 61
Period size: 15 Copynumber: 3.9 Consensus size: 15
829088 TAATTGATAA
829098 AAAATTTAAAATTATT
1 AAAATTTAAAA-TATT
*
829114 ATAAATATAAAATATT
1 A-AAATTTAAAATATT
829130 AAAATTTATAAATA-T
1 AAAATTTA-AAATATT
* *
829145 ATAATTTTAAATAT
1 AAAATTTAAAATAT
829159 AATTATGATA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
14 5 0.13
15 13 0.34
16 11 0.29
17 9 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AAAATTTAAAATATT
Found at i:829142 original size:23 final size:24
Alignment explanation
Indices: 829098--829174 Score: 77
Period size: 23 Copynumber: 3.1 Consensus size: 24
829088 TAATTGATAA
829098 AAAATTTAAAATTATTATAAATAT
1 AAAATTTAAAATTATTATAAATAT
829122 AAAATATTAAAA-T-TTATAAATAT
1 AAAAT-TTAAAATTATTATAAATAT
* *
829145 ATAATTTTAAATATAATTATGATAATAT
1 A-AAATTTAAA-ATTATTAT-A-AATAT
829173 AA
1 AA
829175 TATGATAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
23 16 0.36
24 10 0.23
25 6 0.14
26 4 0.09
27 2 0.05
28 6 0.14
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (24 bp):
AAAATTTAAAATTATTATAAATAT
Found at i:830222 original size:2 final size:2
Alignment explanation
Indices: 830217--830249 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
830207 TTAATTCCTT
830217 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 T
830250 TTGAGTGATT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:832074 original size:12 final size:12
Alignment explanation
Indices: 832055--832088 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
832045 CTCTAATATT
832055 AAAAAGAGAAAG
1 AAAAAGAGAAAG
*
832067 AGAAAGAGAAAG
1 AAAAAGAGAAAG
832079 AAAAAG-GAAA
1 AAAAAGAGAAA
832089 AAAGGCCAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AAAAAGAGAAAG
Found at i:834573 original size:24 final size:24
Alignment explanation
Indices: 834528--834582 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
834518 AATAATTAAT
*
834528 TATTTTATTTTTAAATAGTTTTTA
1 TATTTTATTTTTAAATAATTTTTA
*
834552 TATTTTTTTATTTAAA-AATTTTTA
1 TATTTTATT-TTTAAATAATTTTTA
*
834576 TCTTTTA
1 TATTTTA
834583 ATTTATATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 20 0.77
25 6 0.23
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (24 bp):
TATTTTATTTTTAAATAATTTTTA
Found at i:834616 original size:17 final size:17
Alignment explanation
Indices: 834582--834630 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
834572 TTTATCTTTT
*
834582 AATTTATATTTAATTAAA
1 AATTTAT-TTTAAATAAA
**
834600 TTTTTATTTTAAATAAA
1 AATTTATTTTAAATAAA
834617 AATTTA-TTTAAATA
1 AATTTATTTTAAATA
834631 TAATAAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 8 0.31
17 13 0.50
18 5 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATTTATTTTAAATAAA
Found at i:834655 original size:26 final size:26
Alignment explanation
Indices: 834610--834662 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
834600 TTTTTATTTT
*
834610 AAATAAAAATTTATTTAAATATAATA
1 AAATAAAAATTTATTGAAATATAATA
*
834636 AAATATAAAATTTA-TGAAATTTAATA
1 AAATA-AAAATTTATTGAAATATAATA
834662 A
1 A
834663 TTTTAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (26 bp):
AAATAAAAATTTATTGAAATATAATA
Found at i:834931 original size:19 final size:19
Alignment explanation
Indices: 834885--834932 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
834875 AGAAAAAAAT
* *
834885 TAATTTAATTTAATTTTTA
1 TAATTTATTTTAAATTTTA
834904 T-ATTATATTTTAAATTTTA
1 TAATT-TATTTTAAATTTTA
834923 TAATTTATTT
1 TAATTTATTT
834933 AGAATAGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 3 0.12
19 19 0.76
20 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TAATTTATTTTAAATTTTA
Found at i:836363 original size:1 final size:1
Alignment explanation
Indices: 836357--836381 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
836347 GTAAGCTCTG
836357 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
836382 CTAGACAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:837446 original size:27 final size:27
Alignment explanation
Indices: 837416--837468 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
837406 TTGTGTCGCC
* *
837416 AATTTTAAAATTTAATTTGAAACAGTA
1 AATTATAAAATTCAATTTGAAACAGTA
*
837443 AATTATGAAATTCAATTTGAAACAGT
1 AATTATAAAATTCAATTTGAAACAGT
837469 GAAAGTTGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (27 bp):
AATTATAAAATTCAATTTGAAACAGTA
Found at i:842872 original size:10 final size:10
Alignment explanation
Indices: 842857--842885 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
842847 TTTATTTTAT
842857 TATTTAAAAA
1 TATTTAAAAA
842867 TATTTAAAAA
1 TATTTAAAAA
842877 -ATTTAAAAA
1 TATTTAAAAA
842886 ATTATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TATTTAAAAA
Found at i:842880 original size:9 final size:9
Alignment explanation
Indices: 842858--842888 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
842848 TTATTTTATT
842858 ATTTAAAAA
1 ATTTAAAAA
842867 TATTTAAAAA
1 -ATTTAAAAA
842877 ATTTAAAAA
1 ATTTAAAAA
842886 ATT
1 ATT
842889 ATTTTTATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
ATTTAAAAA
Found at i:842957 original size:12 final size:13
Alignment explanation
Indices: 842942--842970 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
842932 ATAATTTAAA
842942 TTAT-TAAAATAT
1 TTATATAAAATAT
842954 TTATATAAAATAT
1 TTATATAAAATAT
842967 TTAT
1 TTAT
842971 GGGAACTGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTATATAAAATAT
Found at i:844825 original size:15 final size:16
Alignment explanation
Indices: 844800--844832 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
844790 TCTCTGAAGC
844800 ATTTCTTCTTCTACTT
1 ATTTCTTCTTCTACTT
*
844816 ATTT-TTCTTCTTCTT
1 ATTTCTTCTTCTACTT
844831 AT
1 AT
844833 CAAATATTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.12, C:0.21, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTCTTCTTCTACTT
Found at i:846640 original size:14 final size:15
Alignment explanation
Indices: 846613--846641 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
846603 GTAAGATAGT
846613 TTTATTTTTCTAAAC
1 TTTATTTTTCTAAAC
846628 TTTATTTTT-TAAAC
1 TTTATTTTTCTAAAC
846642 CAAAATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTATTTTTCTAAAC
Found at i:848229 original size:44 final size:45
Alignment explanation
Indices: 848181--848266 Score: 120
Period size: 44 Copynumber: 1.9 Consensus size: 45
848171 TTCCTCACTG
* *
848181 AAAATCCCCAATTTACTCCTACCTTTATT-TTATTTTTTTTCCTT
1 AAAATACCCAATCTACTCCTACCTTTATTCTTATTTTTTTTCCTT
* * *
848225 AAAATACCCAATCTACTCTTACCTTTTTTCTTTTTTTTTTTC
1 AAAATACCCAATCTACTCCTACCTTTATTCTTATTTTTTTTC
848267 TATTTTTCGA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 25 0.69
45 11 0.31
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.53
Consensus pattern (45 bp):
AAAATACCCAATCTACTCCTACCTTTATTCTTATTTTTTTTCCTT
Found at i:853422 original size:3 final size:3
Alignment explanation
Indices: 853414--853442 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
853404 AGATGTTTTG
853414 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
853443 AAGATCATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Done.