Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, whole genome shotgun sequence
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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 6 of 121
Found at i:618398 original size:23 final size:21
Alignment explanation
Indices: 618352--618398 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
618342 TTTAAGGTTT
618352 TGAA-AAAAAAAAAAAAAGTG
1 TGAAGAAAAAAAAAAAAAGTG
*
618372 -GAAGAAAAAGAAAAATAAGTTG
1 TGAAGAAAAA-AAAAAAAAG-TG
618394 TGAAG
1 TGAAG
618399 TTATAACAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 3 0.14
20 5 0.23
21 8 0.36
22 2 0.09
23 4 0.18
ACGTcount: A:0.66, C:0.00, G:0.21, T:0.13
Consensus pattern (21 bp):
TGAAGAAAAAAAAAAAAAGTG
Found at i:621947 original size:3 final size:3
Alignment explanation
Indices: 621939--621969 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
621929 TTCCAAGCTC
621939 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
621970 ATTCTTAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:622157 original size:17 final size:17
Alignment explanation
Indices: 622112--622158 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
622102 AATATGAATT
*
622112 AATAAATGG-AATATGG
1 AATAAATGGAAATATAG
*
622128 AATAAA-GAAAAATATAG
1 AATAAATG-GAAATATAG
622145 AATAAATGGAAATA
1 AATAAATGGAAATA
622159 AAAGTAATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 1 0.04
16 6 0.24
17 17 0.68
18 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.17, T:0.21
Consensus pattern (17 bp):
AATAAATGGAAATATAG
Found at i:628387 original size:10 final size:9
Alignment explanation
Indices: 628363--628394 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
628353 GAAAGCCTAA
628363 GCAAAAAAT
1 GCAAAAAAT
628372 GCAAAAAAT
1 GCAAAAAAT
628381 GCAAAAAAT
1 GCAAAAAAT
*
628390 ACAAA
1 GCAAA
628395 TCTATAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.69, C:0.12, G:0.09, T:0.09
Consensus pattern (9 bp):
GCAAAAAAT
Found at i:631714 original size:46 final size:47
Alignment explanation
Indices: 631612--631714 Score: 113
Period size: 46 Copynumber: 2.2 Consensus size: 47
631602 CGACTTGATA
* * * * **
631612 TTATATAAAAAATTATTTTTTAATTTTTATTTATATATATTTATATT
1 TTATATAAATAATTATTTTTTAATTTTAAATTAAATATAAATATATT
*
631659 TT-TAAAAATAA-TATTTTATTAATTTTAAATTAAAT-TAAATATATT
1 TTATATAAATAATTATTTT-TTAATTTTAAATTAAATATAAATATATT
631704 TTATATAAATA
1 TTATATAAATA
631715 TCAAATTAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
45 16 0.35
46 28 0.61
47 2 0.04
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (47 bp):
TTATATAAATAATTATTTTTTAATTTTAAATTAAATATAAATATATT
Found at i:631725 original size:32 final size:31
Alignment explanation
Indices: 631664--631734 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 31
631654 ATATTTTTAA
* *
631664 AAATAATATTTTATTAATTTTAAATTAAA-TT
1 AAAT-ATATTTTATTAATATCAAATTAAATTT
631695 AAATATATTTTATATAAATATCAAATTAAATTT
1 AAATATATTTTAT-T-AATATCAAATTAAATTT
631728 AAATATA
1 AAATATA
631735 AAAAACTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 9 0.26
31 5 0.14
32 12 0.34
33 9 0.26
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (31 bp):
AAATATATTTTATTAATATCAAATTAAATTT
Found at i:632091 original size:19 final size:19
Alignment explanation
Indices: 632054--632095 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
632044 TTATTTTCTC
632054 ATTACATTTAAATTCAGTA
1 ATTACATTTAAATTCAGTA
632073 TATTAC-TTTAAGATT-AGTA
1 -ATTACATTTAA-ATTCAGTA
632092 ATTA
1 ATTA
632096 AATATATAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 4 0.19
19 9 0.43
20 8 0.38
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (19 bp):
ATTACATTTAAATTCAGTA
Found at i:635865 original size:15 final size:16
Alignment explanation
Indices: 635845--635879 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
635835 AAACTTATGT
635845 GAAAAGAAAAAAAAG-
1 GAAAAGAAAAAAAAGA
*
635860 GAAAAGAAAAGAAAGA
1 GAAAAGAAAAAAAAGA
635876 GAAA
1 GAAA
635880 TAAAGTTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (16 bp):
GAAAAGAAAAAAAAGA
Found at i:636612 original size:2 final size:2
Alignment explanation
Indices: 636607--636646 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
636597 TGTGTGTGTG
* *
636607 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
636647 CCCTGCTTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:643728 original size:12 final size:12
Alignment explanation
Indices: 643694--643734 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
643684 AGTAAAAGAC
*
643694 ATGTATATATAT
1 ATGTATATATGT
*
643706 ATATATATATGT
1 ATGTATATATGT
*
643718 ATGTATGTATGT
1 ATGTATATATGT
643730 ATGTA
1 ATGTA
643735 CTTTTGAGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.49
Consensus pattern (12 bp):
ATGTATATATGT
Found at i:650511 original size:17 final size:18
Alignment explanation
Indices: 650491--650529 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
650481 TAATATTAGT
*
650491 TAATTAATAATTA-TAAG
1 TAATTAAAAATTAGTAAG
650508 TAA-TAAAAATTAGTAAG
1 TAATTAAAAATTAGTAAG
650525 TAATT
1 TAATT
650530 TACATTTACG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 8 0.42
17 10 0.53
18 1 0.05
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (18 bp):
TAATTAAAAATTAGTAAG
Found at i:651035 original size:3 final size:3
Alignment explanation
Indices: 651027--651065 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
651017 GGCTTTCTTC
* *
651027 ATT ATT ATT ATT ATT ATT AGT ATT AGT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
651066 TATCTTTCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:653421 original size:3 final size:3
Alignment explanation
Indices: 653415--653439 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
653405 TTTTAATATA
653415 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
653440 CTTGGGTTAA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:663396 original size:24 final size:24
Alignment explanation
Indices: 663369--663417 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
663359 ATTTTTAAAT
663369 TATTTATTTAATTTTATATTCATA
1 TATTTATTTAATTTTATATTCATA
*
663393 TATTTATTTAATTTTATATTTATA
1 TATTTATTTAATTTTATATTCATA
663417 T
1 T
663418 TAAAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (24 bp):
TATTTATTTAATTTTATATTCATA
Found at i:663435 original size:23 final size:23
Alignment explanation
Indices: 663401--663444 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
663391 TATATTTATT
*
663401 TAATTTTATATTTATATTAAAAA
1 TAATTTTATATTAATATTAAAAA
*
663424 TAATATTT-TATTAATTTTAAA
1 TAAT-TTTATATTAATATTAAA
663445 TCGAATCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.83
24 3 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TAATTTTATATTAATATTAAAAA
Found at i:664988 original size:6 final size:6
Alignment explanation
Indices: 664977--665001 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
664967 GGAACGGTAT
664977 GGAATG GGAATG GGAATG GGAATG G
1 GGAATG GGAATG GGAATG GGAATG G
665002 AGAAGTGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.52, T:0.16
Consensus pattern (6 bp):
GGAATG
Found at i:666487 original size:22 final size:23
Alignment explanation
Indices: 666462--666504 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
666452 TGAATTAAAA
*
666462 AATTATTATAT-TTTTAAATTAT
1 AATTATTATATATTATAAATTAT
*
666484 AATTATTTTATATTATAAATT
1 AATTATTATATATTATAAATT
666505 TTTATATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
AATTATTATATATTATAAATTAT
Found at i:666520 original size:16 final size:15
Alignment explanation
Indices: 666471--666512 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
666461 AAATTATTAT
*
666471 ATTTTTAAATTATAA
1 ATTTTTATATTATAA
*
666486 TTATTTTATATTATAA
1 AT-TTTTATATTATAA
666502 ATTTTTATATT
1 ATTTTTATATT
666513 TTTAAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTTTTATATTATAA
Found at i:668339 original size:2 final size:2
Alignment explanation
Indices: 668332--668368 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
668322 CTTTTCCTGA
668332 AT AT 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 AT AT A
668369 AAAGAGTTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:670360 original size:6 final size:6
Alignment explanation
Indices: 670349--670402 Score: 81
Period size: 6 Copynumber: 9.0 Consensus size: 6
670339 ACCAACGCCA
* * *
670349 CCACCG CCACCG CCACCG CCAACG CCAACG CCACAG CCACCG CCACCG
1 CCACCG CCACCG CCACCG CCACCG CCACCG CCACCG CCACCG CCACCG
670397 CCACCG
1 CCACCG
670403 TCAACTGAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.22, C:0.61, G:0.17, T:0.00
Consensus pattern (6 bp):
CCACCG
Found at i:674247 original size:3 final size:3
Alignment explanation
Indices: 674239--674269 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
674229 CCCTCTCAAC
674239 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
674270 CATAGCAGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:676026 original size:13 final size:13
Alignment explanation
Indices: 675990--676042 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
675980 ATCAATTTGA
* *
675990 ATTTTATTATTTT
1 ATTTTAATATATT
*
676003 AATTTTTATATATT
1 -ATTTTAATATATT
**
676017 ATTTTAATATAAA
1 ATTTTAATATATT
676030 ATTTTAATATATT
1 ATTTTAATATATT
676043 TAAATAAATT
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
13 21 0.68
14 10 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTTTAATATATT
Found at i:676123 original size:17 final size:17
Alignment explanation
Indices: 676079--676116 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
676069 ATTTTTATTT
* *
676079 TATAAAAATTTAAAATA
1 TATAAAAAATTAAAAAA
676096 TATAAAAAATTAAAAAA
1 TATAAAAAATTAAAAAA
676113 TATA
1 TATA
676117 TATAATTCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TATAAAAAATTAAAAAA
Found at i:679799 original size:2 final size:2
Alignment explanation
Indices: 679794--679836 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
679784 CCTTCGGCCA
679794 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
679836 A
1 A
679837 ATAACACTGC
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:681820 original size:33 final size:32
Alignment explanation
Indices: 681776--681839 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
681766 AACTAAAATT
* *
681776 AAATATAATAATATGTATATTTATATTATATA
1 AAATATAATAATATATATATTTATATCATATA
* *
681808 AAATATCAATAATTTATATGTTTATATCATAT
1 AAATAT-AATAATATATATATTTATATCATAT
681840 TTTATATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 6 0.22
33 21 0.78
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (32 bp):
AAATATAATAATATATATATTTATATCATATA
Found at i:681975 original size:14 final size:15
Alignment explanation
Indices: 681946--681977 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
681936 TTTATGTCGT
681946 ATTATCATATTTTAA
1 ATTATCATATTTTAA
*
681961 ATTATCATATTTAAA
1 ATTATCATATTTTAA
681976 AT
1 AT
681978 AAAAAAAATT
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:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTATCATATTTTAA
Found at i:682236 original size:14 final size:16
Alignment explanation
Indices: 682217--682258 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
682207 ATATTATTTT
682217 TTTAAATATA-AA-TA
1 TTTAAATATATAATTA
682231 TTTAAATATATAATTA
1 TTTAAATATATAATTA
*
682247 TATAAATATATA
1 TTTAAATATATA
682259 TAAATAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 10 0.40
15 2 0.08
16 13 0.52
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTAAATATATAATTA
Found at i:682238 original size:8 final size:8
Alignment explanation
Indices: 682222--682258 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
682212 ATTTTTTTAA
682222 ATATAAAT
1 ATATAAAT
*
682230 ATTTAAAT
1 ATATAAAT
*
682238 ATATAATT
1 ATATAAAT
682246 ATATAAAT
1 ATATAAAT
682254 ATATA
1 ATATA
682259 TAAATAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
ATATAAAT
Found at i:682265 original size:14 final size:14
Alignment explanation
Indices: 682219--682266 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
682209 ATTATTTTTT
* *
682219 TAAATATAAATATT
1 TAAATATATATATA
682233 TAAATATATAATTATA
1 TAAATATAT-A-TATA
*
682249 TAAATATATATAAA
1 TAAATATATATATA
682263 TAAA
1 TAAA
682267 AAATTAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 15 0.52
15 2 0.07
16 12 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TAAATATATATATA
Found at i:682271 original size:26 final size:24
Alignment explanation
Indices: 682222--682286 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 24
682212 ATTTTTTTAA
* *
682222 ATATAAATATTTAAATATATAATT
1 ATATAAATATTTAAATAAAAAATT
682246 ATATAAATATATATAAATAAAAAATT
1 ATATAAATAT-T-TAAATAAAAAATT
* * *
682272 AAATAATTAATTAAA
1 ATATAAATATTTAAA
682287 AATTAATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
24 14 0.41
25 2 0.06
26 18 0.53
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
ATATAAATATTTAAATAAAAAATT
Found at i:682384 original size:19 final size:19
Alignment explanation
Indices: 682357--682394 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
682347 GATCTTATCG
*
682357 AAAACTTAATTTAAAAATA
1 AAAAATTAATTTAAAAATA
*
682376 AAAAATTAATTTTAAAATA
1 AAAAATTAATTTAAAAATA
682395 TCGAATCACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAATTAATTTAAAAATA
Found at i:684388 original size:23 final size:21
Alignment explanation
Indices: 684360--684411 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 21
684350 GGGAAGCTAG
684360 GGTAGAAAGAAAGTAGAATTGTA
1 GGTAGAAAGAAAGT-GAA-TGTA
*
684383 GGTAGAAAGAAAGTTAATGTA
1 GGTAGAAAGAAAGTGAATGTA
684404 GGT-GAAAG
1 GGTAGAAAG
684412 TGCATCAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 2 0.07
23 14 0.50
ACGTcount: A:0.46, C:0.00, G:0.33, T:0.21
Consensus pattern (21 bp):
GGTAGAAAGAAAGTGAATGTA
Found at i:689101 original size:2 final size:2
Alignment explanation
Indices: 689094--689118 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
689084 TAGGTACATT
689094 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
689119 GTTTTTTTTT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:693240 original size:415 final size:415
Alignment explanation
Indices: 692470--693293 Score: 1639
Period size: 415 Copynumber: 2.0 Consensus size: 415
692460 TATTGAAAGC
692470 GGGGGGGGGGGGAAGACATCATGTCTCTAGAACAGAGAATAAATCTTAAGAAATTAAAACATGGA
1 GGGGGGGGGGGGAAGACATCATGTCTCTAGAACAGAGAATAAATCTTAAGAAATTAAAACATGGA
692535 CAAACAATATTAATCTCTTGCAATTTACAATTTGCTGTTCAAATAGAAGTTGTTTTAGCCTTTTA
66 CAAACAATATTAATCTCTTGCAATTTACAATTTGCTGTTCAAATAGAAGTTGTTTTAGCCTTTTA
692600 GGCTGTGCACAAGAGAGAAATTGAAGAAGATAGCAGTAGTAGTTATCCATTACCAAAGCTTGGGA
131 GGCTGTGCACAAGAGAGAAATTGAAGAAGATAGCAGTAGTAGTTATCCATTACCAAAGCTTGGGA
692665 AGTTCTTTATATTATGAAGTAACCTAGATTTGAAAAATTCCAATGAAGGTGGTCTTGATAGGAAC
196 AGTTCTTTATATTATGAAGTAACCTAGATTTGAAAAATTCCAATGAAGGTGGTCTTGATAGGAAC
692730 AAAGCAAAATAGAACAAAAGGTCTTGAATGATTATTGCAGAAGAAAATCCATATTCTTGAAGATT
261 AAAGCAAAATAGAACAAAAGGTCTTGAATGATTATTGCAGAAGAAAATCCATATTCTTGAAGATT
692795 CAAACATGAATTTCAAGTGCAATAAGTCCAGTCACCTTAAATGCATCAGGGAGAACCTCAGCAAC
326 CAAACATGAATTTCAAGTGCAATAAGTCCAGTCACCTTAAATGCATCAGGGAGAACCTCAGCAAC
692860 GACCATCCAGATCATACATGGGGGG
391 GACCATCCAGATCATACATGGGGGG
692885 GGGGGGGGGGGGAAGACATCATGTCTCTAGAACAGAGAATAAATCTTAAGAAATTAAAACATGGA
1 GGGGGGGGGGGGAAGACATCATGTCTCTAGAACAGAGAATAAATCTTAAGAAATTAAAACATGGA
*
692950 CAAACAATATTAATCTCTTGCAATTTACAATTTGCTGTTCAAATAGAAGTTGTTTTATCCTTTTA
66 CAAACAATATTAATCTCTTGCAATTTACAATTTGCTGTTCAAATAGAAGTTGTTTTAGCCTTTTA
693015 GGCTGTGCACAAGAGAGAAATTGAAGAAGATAGCAGTAGTAGTTATCCATTACCAAAGCTTGGGA
131 GGCTGTGCACAAGAGAGAAATTGAAGAAGATAGCAGTAGTAGTTATCCATTACCAAAGCTTGGGA
693080 AGTTCTTTATATTATGAAGTAACCTAGATTTGAAAAATTCCAATGAAGGTGGTCTTGATAGGAAC
196 AGTTCTTTATATTATGAAGTAACCTAGATTTGAAAAATTCCAATGAAGGTGGTCTTGATAGGAAC
693145 AAAGCAAAATAGAACAAAAGGTCTTGAATGATTATTGCAGAAGAAAATCCATATTCTTGAAGATT
261 AAAGCAAAATAGAACAAAAGGTCTTGAATGATTATTGCAGAAGAAAATCCATATTCTTGAAGATT
693210 CAAACATGAATTTCAAGTGCAATAAGTCCAGTCACCTTAAATGCATCAGGGAGAACCTCAGCAAC
326 CAAACATGAATTTCAAGTGCAATAAGTCCAGTCACCTTAAATGCATCAGGGAGAACCTCAGCAAC
693275 GACCATCCAGATCATACAT
391 GACCATCCAGATCATACAT
693294 CCAGCGGCAA
Statistics
Matches: 408, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
415 408 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.27
Consensus pattern (415 bp):
GGGGGGGGGGGGAAGACATCATGTCTCTAGAACAGAGAATAAATCTTAAGAAATTAAAACATGGA
CAAACAATATTAATCTCTTGCAATTTACAATTTGCTGTTCAAATAGAAGTTGTTTTAGCCTTTTA
GGCTGTGCACAAGAGAGAAATTGAAGAAGATAGCAGTAGTAGTTATCCATTACCAAAGCTTGGGA
AGTTCTTTATATTATGAAGTAACCTAGATTTGAAAAATTCCAATGAAGGTGGTCTTGATAGGAAC
AAAGCAAAATAGAACAAAAGGTCTTGAATGATTATTGCAGAAGAAAATCCATATTCTTGAAGATT
CAAACATGAATTTCAAGTGCAATAAGTCCAGTCACCTTAAATGCATCAGGGAGAACCTCAGCAAC
GACCATCCAGATCATACATGGGGGG
Found at i:699322 original size:3 final size:3
Alignment explanation
Indices: 699314--699346 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
699304 AACACATCAT
699314 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
699347 GACAAAACTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:705038 original size:11 final size:11
Alignment explanation
Indices: 705024--705068 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
705014 TATTATTTTT
705024 ATTTTATAAAA
1 ATTTTATAAAA
705035 A-TTTA-AAAA
1 ATTTTATAAAA
*
705044 A-TATATAAAA
1 ATTTTATAAAA
*
705054 ATTTTAAAAAA
1 ATTTTATAAAA
705065 ATTT
1 ATTT
705069 CGGTTTGATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 8 0.28
10 9 0.31
11 12 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
ATTTTATAAAA
Found at i:718063 original size:233 final size:233
Alignment explanation
Indices: 717735--718660 Score: 1150
Period size: 233 Copynumber: 4.0 Consensus size: 233
717725 TAAAGGTATT
* * * * *
717735 TTTTATTATAAAATGCCTTCAATATACCACGACGATAAATGGAAGGCGTTTATTAG-AAATGACG
1 TTTTATTATAAAATACCTTCAATATACCACGATGGT-AATGGAAGGCGTTTATTAGAAAAAG-CA
* * * *
717799 CCTTCAATACACTTTTAAACTTAGTAATCCATTACTGAAGGCGTTTGTTAATAACAGACGCCTTC
64 CCTTCAATATACCTCTAAACATAGTAATCCATTACTGAAGGCGTTTGTTAATAACAGACGCCTTC
* * *
717864 AAAATTTTTTCACCAAATATTTTGAGAATTATTAAAGGCATATTCTATTGTACAATGCCTTCTAT
129 AAAATTTTTTCACCAAATATTTTGAGAATTATTAAAGGTATCTTCTATTGTAAAATGCCTTCTAT
* * * *
717929 ATACTGTCACACAAATTGTGACACTGTTATTGAATGCGTC
194 ATACCGCCACACAAATTATGACACTGTTATTGAAAGCGTC
* * *
717969 TTTTATTATAAAATGCCTTCAATATGCCACGATGGTAATAGAAGGCGTTTATTAGAAAAAGCACC
1 TTTTATTATAAAATACCTTCAATATACCACGATGGTAATGGAAGGCGTTTATTAGAAAAAGCACC
* * *
718034 TTCAATATGCCTCTAAACATAGTAATCCATTATTGAAGGAGTTTGTTAATAACAGACGCCTTCAA
66 TTCAATATACCTCTAAACATAGTAATCCATTACTGAAGGCGTTTGTTAATAACAGACGCCTTCAA
* * * *
718099 AATTTTTTCACCAAATATTTTAAAAATTATTAAAGGTATCTTCTACTGTACAATGCCTTCTATAT
131 AATTTTTTCACCAAATATTTTGAGAATTATTAAAGGTATCTTCTATTGTAAAATGCCTTCTATAT
* *
718164 ACCGTCACATAAATTATGACACTGTTATTGAAAGCGTC
196 ACCGCCACACAAATTATGACACTGTTATTGAAAGCGTC
* * * * * * *
718202 TTTTATTATAAAACACCTTTAATGTACCACGATGGTAATGAAAGGCATTTATTAGAAAAGGCACT
1 TTTTATTATAAAATACCTTCAATATACCACGATGGTAATGGAAGGCGTTTATTAGAAAAAGCACC
* * *
718267 TTCAATATACCTCTAAACATAGTAATCCATTATTGAAGGC-ATTGTTAATAATAGACGCCTTCAA
66 TTCAATATACCTCTAAACATAGTAATCCATTACTGAAGGCGTTTGTTAATAACAGACGCCTTCAA
* * * * * *
718331 AATTTTCTCACTAAATATTTT-AGGAATTAATAAATGTGA-CTTCTACTT-AAAAATGCCTTTTA
131 AATTTTTTCACCAAATATTTTGA-GAATTATTAAAGGT-ATCTTCTA-TTGTAAAATGCCTTCTA
* * * * * * *
718393 TATGCAGCCACCCAAATTGT-ATCA-TAATTATTGAAGGTGTC
193 TATACCGCCACACAAATTATGA-CACT-GTTATTGAAAGCGTC
* *
718434 TTTTATTATAAAATACCTTCAATATACCACGATAGTAATGGAAGGCGTTTATTTGAAAATACGCA
1 TTTTATTATAAAATACCTTCAATATACCACGATGGTAATGGAAGGCGTTTATTAGAAAA-A-GCA
* ** *
718499 --TTCAATATACCTTTAAATTTAGTAATCCATTACTGAAGGCGCTTGTTAATAACAGACGCCTTC
64 CCTTCAATATACCTCTAAACATAGTAATCCATTACTGAAGGCGTTTGTTAATAACAGACGCCTTC
* * * *
718562 AAAATTTTTTCACCAAATATTTTGAGAATTATTAAAGGTGTTTTCTATTGTAAAATACCTTTTAT
129 AAAATTTTTTCACCAAATATTTTGAGAATTATTAAAGGTATCTTCTATTGTAAAATGCCTTCTAT
*
718627 ATACCACCACACAAATTATGACACTGTTATTGAA
194 ATACCGCCACACAAATTATGACACTGTTATTGAA
718661 GGCATATATC
Statistics
Matches: 596, Mismatches: 82, Indels: 29
0.84 0.12 0.04
Matches are distributed among these distances:
231 3 0.01
232 187 0.31
233 363 0.61
234 43 0.07
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.35
Consensus pattern (233 bp):
TTTTATTATAAAATACCTTCAATATACCACGATGGTAATGGAAGGCGTTTATTAGAAAAAGCACC
TTCAATATACCTCTAAACATAGTAATCCATTACTGAAGGCGTTTGTTAATAACAGACGCCTTCAA
AATTTTTTCACCAAATATTTTGAGAATTATTAAAGGTATCTTCTATTGTAAAATGCCTTCTATAT
ACCGCCACACAAATTATGACACTGTTATTGAAAGCGTC
Found at i:718480 original size:465 final size:467
Alignment explanation
Indices: 717735--718660 Score: 1206
Period size: 465 Copynumber: 2.0 Consensus size: 467
717725 TAAAGGTATT
** * * * *
717735 TTTTATTATAAAATGCCTTCAATATACCACGACGATAAATGGAAGGCGTTTATTAGAAATGACGC
1 TTTTATTATAAAACACCTTCAATATACCACGACGATAAATGAAAGGCATTTATTAGAAAAGACAC
* * * *
717800 CTTCAATACACTTTTAAACTTAGTAATCCATTACTGAAGGCGTTTGTTAATAACAGACGCCTTCA
66 CTTCAATACACCTCTAAACATAGTAATCCATTACTGAAGGCGATTGTTAATAACAGACGCCTTCA
* * * *
717865 AAATTTTTTCACCAAATATTTTGAGAATTATTAAAGGCATATTCTATTGTACAATGCCTTCTATA
131 AAATTTTCTCACCAAATATTTTGAGAATTAATAAAGGCATATTCTATTGAAAAATGCCTTCTATA
* * * * * *
717930 TACTGTCACACAAATTGTGACACTGTTATTGAATGCGTCTTTTATTATAAAATGCCTTCAATATG
196 TACAGCCACACAAATTGTGACACTATTATTGAAGGCGTCTTTTATTATAAAATACCTTCAATATA
* *
717995 CCACGATGGTAATAGAAGGCGTTTATTAGAAAA-A-GCACCTTCAATATGCCTCTAAACATAGTA
261 CCACGATAGTAATAGAAGGCGTTTATTAGAAAATACGCA--TTCAATATACCTCTAAACATAGTA
* *
718058 ATCCATTATTGAAGGAGTTTGTTAATAACAGACGCCTTCAAAATTTTTTCACCAAATATTTTAAA
324 ATCCATTACTGAAGGAGCTTGTTAATAACAGACGCCTTCAAAATTTTTTCACCAAATATTTTAAA
* * ** *
718123 AATTATTAAAGGTATCTTCTACTGTACAATGCCTTCTATATACCGTCACATAAATTATGACACTG
389 AATTATTAAAGGTATCTTCTACTGTAAAATACCTTCTATATACCACCACACAAATTATGACACTG
718188 TTATTGAAAGCGTC
454 TTATTGAAAGCGTC
* * * * *
718202 TTTTATTATAAAACACCTTTAATGTACCACGATGGT-AATGAAAGGCATTTATTAGAAAAGGCAC
1 TTTTATTATAAAACACCTTCAATATACCACGACGATAAATGAAAGGCATTTATTAGAAAAGACAC
* * * *
718266 TTTCAATATACCTCTAAACATAGTAATCCATTATTGAAGGC-ATTGTTAATAATAGACGCCTTCA
66 CTTCAATACACCTCTAAACATAGTAATCCATTACTGAAGGCGATTGTTAATAACAGACGCCTTCA
* * *
718330 AAATTTTCTCACTAAATATTTT-AGGAATTAATAAATGTG-A-CTTCTACTT-AAAAATGCCTTT
131 AAATTTTCTCACCAAATATTTTGA-GAATTAATAAA-G-GCATATTCTA-TTGAAAAATGCCTTC
* * *
718391 TATATGCAGCCACCCAAATTGT-ATCA-TAATTATTGAAGGTGTCTTTTATTATAAAATACCTTC
192 TATATACAGCCACACAAATTGTGA-CACT-ATTATTGAAGGCGTCTTTTATTATAAAATACCTTC
* * * **
718454 AATATACCACGATAGTAATGGAAGGCGTTTATTTGAAAATACGCATTCAATATACCTTTAAATTT
255 AATATACCACGATAGTAATAGAAGGCGTTTATTAGAAAATACGCATTCAATATACCTCTAAACAT
*
718519 AGTAATCCATTACTGAAGGCGCTTGTTAATAACAGACGCCTTCAAAATTTTTTCACCAAATATTT
320 AGTAATCCATTACTGAAGGAGCTTGTTAATAACAGACGCCTTCAAAATTTTTTCACCAAATATTT
* * * * * *
718584 TGAGAATTATTAAAGGTGTTTTCTATTGTAAAATACCTTTTATATACCACCACACAAATTATGAC
385 TAAAAATTATTAAAGGTATCTTCTACTGTAAAATACCTTCTATATACCACCACACAAATTATGAC
718649 ACTGTTATTGAA
450 ACTGTTATTGAA
718661 GGCATATATC
Statistics
Matches: 395, Mismatches: 56, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
464 3 0.01
465 295 0.75
466 63 0.16
467 34 0.09
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.35
Consensus pattern (467 bp):
TTTTATTATAAAACACCTTCAATATACCACGACGATAAATGAAAGGCATTTATTAGAAAAGACAC
CTTCAATACACCTCTAAACATAGTAATCCATTACTGAAGGCGATTGTTAATAACAGACGCCTTCA
AAATTTTCTCACCAAATATTTTGAGAATTAATAAAGGCATATTCTATTGAAAAATGCCTTCTATA
TACAGCCACACAAATTGTGACACTATTATTGAAGGCGTCTTTTATTATAAAATACCTTCAATATA
CCACGATAGTAATAGAAGGCGTTTATTAGAAAATACGCATTCAATATACCTCTAAACATAGTAAT
CCATTACTGAAGGAGCTTGTTAATAACAGACGCCTTCAAAATTTTTTCACCAAATATTTTAAAAA
TTATTAAAGGTATCTTCTACTGTAAAATACCTTCTATATACCACCACACAAATTATGACACTGTT
ATTGAAAGCGTC
Found at i:720354 original size:23 final size:23
Alignment explanation
Indices: 720327--720371 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
720317 ATTTAATTTT
720327 TTTTTCATTTTCATT-TTTCTTTAA
1 TTTTTC-TTTTC-TTCTTTCTTTAA
720351 TTTTTCTTTTCTTCTTTCTTT
1 TTTTTCTTTTCTTCTTTCTTT
720372 TTCCTTATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 2 0.10
23 12 0.60
24 6 0.30
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTTCTTTTCTTCTTTCTTTAA
Found at i:721307 original size:18 final size:19
Alignment explanation
Indices: 721280--721329 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
721270 GGTAAAAAAA
*
721280 ATATTTTTTTATTT-TTTT
1 ATATTATTTTATTTATTTT
721298 ATATTATTTT-TGTTATTTT
1 ATATTATTTTAT-TTATTTT
721317 A-ATTATTATTATT
1 ATATTATT-TTATT
721330 GATATTTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
17 1 0.04
18 17 0.63
19 8 0.30
20 1 0.04
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (19 bp):
ATATTATTTTATTTATTTT
Found at i:721323 original size:21 final size:22
Alignment explanation
Indices: 721281--721336 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
721271 GTAAAAAAAA
**
721281 TATTTTT-TTATTTTTTTATAT
1 TATTTTTGTTATTTTAATATAT
721302 TATTTTTGTTATTTTAAT-TAT
1 TATTTTTGTTATTTTAATATAT
* *
721323 TATTATTGATATTT
1 TATTTTTGTTATTT
721337 ATGCATGTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 22 0.73
22 8 0.27
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (22 bp):
TATTTTTGTTATTTTAATATAT
Found at i:721627 original size:18 final size:16
Alignment explanation
Indices: 721581--721630 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 16
721571 TTTTTATTAT
721581 AAAATAATAATAAATA
1 AAAATAATAATAAATA
721597 AAAACTAATTAATAAATTA
1 AAAA-TAA-TAATAAA-TA
*
721616 AGAATAAGTAATAAA
1 AAAATAA-TAATAAA
721631 AAATAAGACA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 4 0.14
17 3 0.10
18 17 0.59
19 5 0.17
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (16 bp):
AAAATAATAATAAATA
Found at i:722282 original size:10 final size:10
Alignment explanation
Indices: 722267--722292 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
722257 AAAATTATCT
722267 TTTTAATAAA
1 TTTTAATAAA
722277 TTTTAATAAA
1 TTTTAATAAA
722287 TTTTAA
1 TTTTAA
722293 AATCTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
TTTTAATAAA
Found at i:725452 original size:12 final size:13
Alignment explanation
Indices: 725427--725451 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
725417 TTGTTTTTAT
725427 TTTCAAAAAAAAA
1 TTTCAAAAAAAAA
725440 TTTCAAAAAAAA
1 TTTCAAAAAAAA
725452 TAAAATTTTT
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:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (13 bp):
TTTCAAAAAAAAA
Found at i:730722 original size:63 final size:63
Alignment explanation
Indices: 730645--730770 Score: 225
Period size: 63 Copynumber: 2.0 Consensus size: 63
730635 AATAGGATGT
*
730645 GTGCTGGGGTAAAGAAATGAAATTGATAAGAAAGAACGAGCAATTTACTACTTGAGTAAGAAA
1 GTGCTGGGGCAAAGAAATGAAATTGATAAGAAAGAACGAGCAATTTACTACTTGAGTAAGAAA
* *
730708 GTGCTGGGGCAAAGAGATGAAATTGATAAGAAAGAACGAGCAATTTACTGCTTGAGTAAGAAA
1 GTGCTGGGGCAAAGAAATGAAATTGATAAGAAAGAACGAGCAATTTACTACTTGAGTAAGAAA
730771 TTCACTAATT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.43, C:0.09, G:0.27, T:0.21
Consensus pattern (63 bp):
GTGCTGGGGCAAAGAAATGAAATTGATAAGAAAGAACGAGCAATTTACTACTTGAGTAAGAAA
Found at i:733808 original size:50 final size:50
Alignment explanation
Indices: 733673--734298 Score: 504
Period size: 50 Copynumber: 13.0 Consensus size: 50
733663 TTTCAAAAAC
* *
733673 AGATGAGAATTTTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGC-TTTTCTA
1 AGATAAGAA-TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC-A
* * * *
733724 ATATGAGATTTTTTTAAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCA
1 AGATAAGA-ATTTTT-AAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * * * *
733776 AGATAAGAATTTTTAAAGTTGTTGAGCTTCTGCTGAGAGAAACATTTCCA
1 AGATAAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* *
733826 AGAT-GGAA-TTTTAAAATTGTTGAGCCTCTGCTGAG-GGAAGCTTTTTCA
1 AGATAAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGG-AGCTTTTTCA
* *
733874 AGATAAGAATTTTTAAAGTTGTTGAGCCTTTGCTGAGATGAGCTTTTTC-
1 AGATAAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * * *
733923 ----AAG-ATTTTTAAAATTGTTAAGCCTCTGCTTAGAGGAGCCTTTTCCA
1 AGATAAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCA
* * * * * * * *
733969 AAATGAGAA-TTTTAAAGTTGTTGAGCATCTACTCAAAAGAGCTTTTCCA
1 AGATAAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * * * *
734018 AAATGAA-AATTTTAAAAGCTGTTAAGCCTCTGCTGAGAAGAGCGTTTTT-A
1 AGAT-AAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTTCA
* * * *
734068 AG---AGAA-TTTTAAATTTGTTGAACTTCTGCTGAGATGAGCTTTTTCA
1 AGATAAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* ** *
734114 AG---AGAATTTTAAAAGTTGTTGAGCCTCTGCTGAGAAAAAC-TTTTCTA
1 AGATAAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC-A
* *
734161 A-A-ATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
1 AGATAAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* *
734209 AG---AGAA-TTTTAAAGTTGTTGAGCCTCTACTGAGAAGAGCTTTTTCA
1 AGATAAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * * * * *
734255 AG---AGAA-TTTTAAAATTATTAAGCCTCTGCTCAGAAGAGCCTTTT
1 AGATAAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTT
734299 AAATTTTCAA
Statistics
Matches: 473, Mismatches: 77, Indels: 55
0.78 0.13 0.09
Matches are distributed among these distances:
44 29 0.06
45 14 0.03
46 115 0.24
47 34 0.07
48 70 0.15
49 25 0.05
50 124 0.26
51 23 0.05
52 34 0.07
53 5 0.01
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (50 bp):
AGATAAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
Found at i:734018 original size:192 final size:192
Alignment explanation
Indices: 733673--734264 Score: 647
Period size: 192 Copynumber: 3.1 Consensus size: 192
733663 TTTCAAAAAC
* *
733673 AGATGAGAATTTTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGCTTTTCTAATATGAGATTTTTT
1 AGAT-AGAA-TTTTTAAAGTTGTTGAGCCTTTGCTGAGATGAGCTTTT-T--CA-GAGA--TTTT
* * *
733738 TAAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATAAGAATTTTTAAAGTTGTTGAGC
58 TAAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTCCAAAATGAGAA-TTTTAAAGTTGTTGAGC
* * *
733803 TTCTGCTGAGAGAA-A-CATTTCCAAGATGGAATTTTAAAATTGTTGAGCCTCTGCTGAG-GGAA
122 ATCTGCTGA-A-AAGAGCTTTTCCAAGATGGAATTTTAAAATTGTTGAGCCTCTGCTGAGAAG-A
733865 GCTTTTTCA
184 GCTTTTTCA
733874 AGATAAGAATTTTTAAAGTTGTTGAGCCTTTGCTGAGATGAGCTTTTTCA-AGATTTTTAAAA-T
1 AGAT-AGAATTTTTAAAGTTGTTGAGCCTTTGCTGAGATGAGCTTTTTCAGAGATTTTTAAAAGT
* *
733937 TGTTAAGCCTCTGCTTAGAGGAGCCTTTTCCAAAATGAGAATTTTAAAGTTGTTGAGCATCTACT
65 TGTTGAGCCTCTGCTTAGAGGAG-CTTTTCCAAAATGAGAATTTTAAAGTTGTTGAGCATCTGCT
* * * * *
734002 CAAAAGAGCTTTTCCAAAATGAAAATTTTAAAAGCTGTTAAGCCTCTGCTGAGAAGAGCGTTTTT
129 GAAAAGAGCTTTTCCAAGATG-GAATTTTAAAA-TTGTTGAGCCTCTGCTGAGAAGAGC-TTTTT
734067 -A
191 CA
* * *
734068 AG--AGAA-TTTTAAATTTGTTGA-ACTTCTGCTGAGATGAGCTTTTTCAAGAGAATTTTAAAAG
1 AGATAGAATTTTTAAAGTTGTTGAGCCTT-TGCTGAGATGAGCTTTTTC-AGAGATTTTTAAAAG
* ** * * *
734129 TTGTTGAGCCTCTGCTGAGAAAAACTTTTCTAAAATGA-AATTTTAAAGTTGTTGAGCCTCTGCT
64 TTGTTGAGCCTCTGCTTAGAGGAGCTTTTCCAAAATGAGAATTTTAAAGTTGTTGAGCATCTGCT
* * * * *
734193 GAGAGGAGCTTTTTCAAGA--GAATTTTAAAGTTGTTGAGCCTCTACTGAGAAGAGCTTTTTCA
129 GAAAAGAGCTTTTCCAAGATGGAATTTTAAAATTGTTGAGCCTCTGCTGAGAAGAGCTTTTTCA
734255 AG--AGAATTTT
1 AGATAGAATTTT
734265 AAAATTATTA
Statistics
Matches: 341, Mismatches: 37, Indels: 39
0.82 0.09 0.09
Matches are distributed among these distances:
186 5 0.01
187 29 0.09
188 12 0.04
189 3 0.01
190 35 0.10
191 45 0.13
192 81 0.24
193 52 0.15
194 23 0.07
195 9 0.03
197 1 0.00
199 1 0.00
200 37 0.11
201 8 0.02
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (192 bp):
AGATAGAATTTTTAAAGTTGTTGAGCCTTTGCTGAGATGAGCTTTTTCAGAGATTTTTAAAAGTT
GTTGAGCCTCTGCTTAGAGGAGCTTTTCCAAAATGAGAATTTTAAAGTTGTTGAGCATCTGCTGA
AAAGAGCTTTTCCAAGATGGAATTTTAAAATTGTTGAGCCTCTGCTGAGAAGAGCTTTTTCA
Found at i:734100 original size:46 final size:46
Alignment explanation
Indices: 733684--734298 Score: 531
Period size: 46 Copynumber: 12.8 Consensus size: 46
733674 GATGAGAATT
* * * *
733684 TTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGCTTTTCTAATATGAGATTT
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTT-TCA-A-GAGA--A
* *
733735 TTTTAAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATAAGAA
1 TTTT-AAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTTCAAG---AGAA
* * * *
733785 TTTTTAAAGTTGTTGAGCTTCTGCTGAG-AGAAACATTTCCAAGATGGAA
1 -TTTTAAAGTTGTTGAGCCTCTGCTGAGAAG-AGCTTTTTCAAGA--GAA
* *
733834 TTTTAAAATTGTTGAGCCTCTGCTGAG-GGAAGCTTTTTCAAGATAAGAA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAAG-AGCTTTTTCAAG---AGAA
* * *
733883 TTTTTAAAGTTGTTGAGCCTTTGCTGAGATGAGCTTTTTC-A-AGAT
1 -TTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTTCAAGAGAA
* * * * *
733928 TTTTAAAATTGTTAAGCCTCTGCTTAGAGGAGCCTTTTCCAAAATGAGAA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAG-CTTTTTC--AA-GAGAA
* * * * * *
733978 TTTTAAAGTTGTTGAGCATCTACTCAAAAGAGCTTTTCCAAAATGAAAA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTTC--AA-GAGAA
* *
734027 TTTTAAAAGCTGTTAAGCCTCTGCTGAGAAGAGCGTTTTT-AAGAGAA
1 TTTT-AAAGTTGTTGAGCCTCTGCTGAGAAGAGC-TTTTTCAAGAGAA
* * * *
734074 TTTTAAATTTGTTGAACTTCTGCTGAGATGAGCTTTTTCAAGAGAA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTTCAAGAGAA
* * *
734120 TTTTAAAAGTTGTTGAGCCTCTGCTGAGAAAAAC-TTTTCTAAAATGAAA
1 TTTT-AAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTTC-AAGA-G-AA
*
734169 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGAGAA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTTCAAGAGAA
*
734215 TTTTAAAGTTGTTGAGCCTCTACTGAGAAGAGCTTTTTCAAGAGAA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTTCAAGAGAA
* * * * *
734261 TTTTAAAATTATTAAGCCTCTGCTCAGAAGAGCCTTTT
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTT
734299 AAATTTTCAA
Statistics
Matches: 469, Mismatches: 68, Indels: 59
0.79 0.11 0.10
Matches are distributed among these distances:
44 27 0.06
45 14 0.03
46 117 0.25
47 36 0.08
48 69 0.15
49 40 0.09
50 116 0.25
51 16 0.03
52 34 0.07
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (46 bp):
TTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTTCAAGAGAA
Found at i:734504 original size:16 final size:16
Alignment explanation
Indices: 734476--734539 Score: 62
Period size: 16 Copynumber: 4.1 Consensus size: 16
734466 ATTATTATTA
* *
734476 TTATATTTTTTTTTCA
1 TTATTTTTTTTTTTCC
734492 TT-TTTTATTTTTTT--
1 TTATTTT-TTTTTTTCC
*
734506 TTATTTTTTTCTTTCC
1 TTATTTTTTTTTTTCC
*
734522 TTCTTTTTTTTTTTCC
1 TTATTTTTTTTTTTCC
734538 TT
1 TT
734540 TTTCTTCTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
14 8 0.20
15 7 0.17
16 25 0.62
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.81
Consensus pattern (16 bp):
TTATTTTTTTTTTTCC
Found at i:734504 original size:17 final size:17
Alignment explanation
Indices: 734482--734514 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
734472 ATTATTATAT
734482 TTTTTTTTCATTTTTTA
1 TTTTTTTTCATTTTTTA
*
734499 TTTTTTTTTATTTTTT
1 TTTTTTTTCATTTTTT
734515 TCTTTCCTTC
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:0.09, C:0.03, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTTTTTCATTTTTTA
Found at i:734512 original size:26 final size:26
Alignment explanation
Indices: 734483--734533 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
734473 TTATTATATT
*
734483 TTTTTTTCATTT-TTTATTTTTTTTTA
1 TTTTTTTC-TTTCCTTATTTTTTTTTA
*
734509 TTTTTTTCTTTCCTTCTTTTTTTTT
1 TTTTTTTCTTTCCTTATTTTTTTTT
734534 TTCCTTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (26 bp):
TTTTTTTCTTTCCTTATTTTTTTTTA
Found at i:734515 original size:18 final size:18
Alignment explanation
Indices: 734479--734514 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
734469 ATTATTATTA
734479 TATTTTTTTTTCATTTTT
1 TATTTTTTTTTCATTTTT
734497 TATTTTTTTTT-ATTTTT
1 TATTTTTTTTTCATTTTT
734514 T
1 T
734515 TCTTTCCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86
Consensus pattern (18 bp):
TATTTTTTTTTCATTTTT
Found at i:734515 original size:30 final size:29
Alignment explanation
Indices: 734476--734535 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
734466 ATTATTATTA
* *
734476 TTATATTTTTTTTTCATTTTTTATTTTTTT
1 TTATATTTTTCTTTCATTCTTT-TTTTTTT
* *
734506 TTATTTTTTTCTTTCCTTCTTTTTTTTTT
1 TTATATTTTTCTTTCATTCTTTTTTTTTT
734535 T
1 T
734536 CCTTTTTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.83
Consensus pattern (29 bp):
TTATATTTTTCTTTCATTCTTTTTTTTTT
Found at i:734531 original size:29 final size:30
Alignment explanation
Indices: 734476--734552 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 30
734466 ATTATTATTA
* *
734476 TTATATTTTTT-TTTCATTTTTTATTTTTTT
1 TTAT-TTTTTTCTTTCCTTCTTTATTTTTTT
734506 TTATTTTTTTCTTTCCTTCTTT-TTTTTTT
1 TTATTTTTTTCTTTCCTTCTTTATTTTTTT
**
734535 TCCTTTTTCTTC-TTCCTT
1 TTATTTTT-TTCTTTCCTT
734553 ATCCGATTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
29 25 0.61
30 16 0.39
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.79
Consensus pattern (30 bp):
TTATTTTTTTCTTTCCTTCTTTATTTTTTT
Found at i:735802 original size:18 final size:16
Alignment explanation
Indices: 735756--735805 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 16
735746 TTTTTATTAT
735756 AAAATAATAATAAATA
1 AAAATAATAATAAATA
735772 AAAACTAATTAATAAATTA
1 AAAA-TAA-TAATAAA-TA
*
735791 AGAATAAGTAATAAA
1 AAAATAA-TAATAAA
735806 AAATGAGACA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 4 0.14
17 3 0.10
18 17 0.59
19 5 0.17
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (16 bp):
AAAATAATAATAAATA
Found at i:737832 original size:16 final size:16
Alignment explanation
Indices: 737811--737862 Score: 86
Period size: 16 Copynumber: 3.1 Consensus size: 16
737801 TGAAAGAATT
737811 TTGTGAAATAAATGAA
1 TTGTGAAATAAATGAA
737827 TTGTGAAATAAATGAA
1 TTGTGAAATAAATGAA
737843 TTTTGTGAAATAAATGAA
1 --TTGTGAAATAAATGAA
737861 TT
1 TT
737863 ATCAGCTGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 18 0.53
18 16 0.47
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.37
Consensus pattern (16 bp):
TTGTGAAATAAATGAA
Found at i:737850 original size:18 final size:18
Alignment explanation
Indices: 737806--737862 Score: 100
Period size: 18 Copynumber: 3.3 Consensus size: 18
737796 TGAGGTGAAA
737806 GAATTTTGTGAAATAAAT
1 GAATTTTGTGAAATAAAT
737824 GAA--TTGTGAAATAAAT
1 GAATTTTGTGAAATAAAT
737840 GAATTTTGTGAAATAAAT
1 GAATTTTGTGAAATAAAT
737858 GAATT
1 GAATT
737863 ATCAGCTGCT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.43
18 21 0.57
ACGTcount: A:0.46, C:0.00, G:0.18, T:0.37
Consensus pattern (18 bp):
GAATTTTGTGAAATAAAT
Found at i:739496 original size:59 final size:59
Alignment explanation
Indices: 739364--739699 Score: 373
Period size: 58 Copynumber: 5.8 Consensus size: 59
739354 TGCTTTTGTA
* * * * *
739364 CAAGAAAAATTAATACTTTCAACTTTT-CTCCAAAATA-TTTTTT-CAAAACTTTAATTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAAC-TTATTTT
* * * * * * *
739421 CGAGAAAAATTGATACTTTTAACTTTCCCTAAAAAAAACCTTTTTTAGAAAA-TTA-TTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTAGAAAACTTATTTT
** * *
739479 CTAAAAAAAATTGATACTTTCAACTTTTCCTCGAAAATATTTTTTTAGAAAACTCATTTT
1 C-AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAACTTATTTT
* * *
739539 CAAGGAAAATTGATACTTTCAATTTTTCCTTAAAAATATTTTTTT-TAAAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAACTTATTTT
* *
739597 CAAGGAAAATTAATACTTTCAACTTTTTCTCAAAAATA-TTTTTTAGAAAACTTATTCTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAACTTATT-TT
* *
739656 -AAGGAAAATTAATACTTTCAACTTTTCCTTAAAAATATTTTTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
739700 TAAATTTTAT
Statistics
Matches: 238, Mismatches: 31, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
57 29 0.12
58 113 0.47
59 82 0.34
60 10 0.04
61 4 0.02
ACGTcount: A:0.39, C:0.13, G:0.05, T:0.43
Consensus pattern (59 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAACTTATTTT
Found at i:739699 original size:116 final size:114
Alignment explanation
Indices: 739364--739719 Score: 419
Period size: 116 Copynumber: 3.1 Consensus size: 114
739354 TGCTTTTGTA
* * ** *
739364 CAAGAAAAATTAATACTTTCAAC-TTTTCTCCAAAATATTTTTT-CAAAACTTTAATTTCGAGAA
1 CAAGAAAAATTAATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAAC-TT-ATTTTAAGGA
* * * * **
739427 AAATTGATACTTTTAACTTTCCCTAAAAAAAACCTTTTTTAGAAAATTATTT
64 AAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTA-AAAATTATTT
* * * * *
739479 CTAAAAAAAATTGATACTTTCAACTTTTCCTCGAAAATATTTTTTTAGAAAACTCATTTTCAAGG
1 C-AAGAAAAATTAATACTTTCAACTTTTTCTCAAAAATA-TTTTTTAGAAAACTTATTTT-AAGG
* *
739544 AAAATTGATACTTTCAATTTTTCCTTAAAAATATTTTTTTTAAAACTTATTTT
63 AAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTAAAAATTA-TTT
*
739597 CAAGGAAAATTAATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTCTTAAGGAA
1 CAAGAAAAATTAATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATT-TTAAGGAA
* **
739662 AATTAATACTTTCAACTTTTCCTTAAAAATATTTTTTTTAAATTTTATTT
65 AATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTAAAAATTATTT
*
739712 AAAGAAAA
1 CAAGAAAA
739720 TAAAATAAAA
Statistics
Matches: 205, Mismatches: 29, Indels: 14
0.83 0.12 0.06
Matches are distributed among these distances:
115 10 0.05
116 86 0.42
117 56 0.27
118 48 0.23
119 5 0.02
ACGTcount: A:0.40, C:0.13, G:0.05, T:0.43
Consensus pattern (114 bp):
CAAGAAAAATTAATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTTAAGGAAA
ATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTAAAAATTATTT
Found at i:740619 original size:16 final size:17
Alignment explanation
Indices: 740594--740662 Score: 63
Period size: 16 Copynumber: 4.2 Consensus size: 17
740584 TAAATATAAT
*
740594 ATATTTATAGATAAA-A
1 ATATTAATAGATAAATA
740610 ATATTAATAGATAAATA
1 ATATTAATAGATAAATA
* *
740627 ATAATAA-AG-TATATA
1 ATATTAATAGATAAATA
* *
740642 TACATTAACAGATAAATA
1 -ATATTAATAGATAAATA
740660 ATA
1 ATA
740663 AAAAAATAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
15 5 0.12
16 21 0.50
17 11 0.26
18 5 0.12
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (17 bp):
ATATTAATAGATAAATA
Found at i:740660 original size:4 final size:4
Alignment explanation
Indices: 740653--740698 Score: 60
Period size: 4 Copynumber: 12.0 Consensus size: 4
740643 ACATTAACAG
* *
740653 ATAA AT-A ATAA AAAA ATAA ACAA ATAA AT-A ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
740699 GGTACAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
3 6 0.17
4 30 0.83
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (4 bp):
ATAA
Found at i:740674 original size:23 final size:23
Alignment explanation
Indices: 740648--740695 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
740638 TATATACATT
*
740648 AACAGATAAATAATAAAAAAATA
1 AACAAATAAATAATAAAAAAATA
*
740671 AACAAATAAATAATAAATAAATA
1 AACAAATAAATAATAAAAAAATA
740694 AA
1 AA
740696 TAAGGTACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (23 bp):
AACAAATAAATAATAAAAAAATA
Found at i:740721 original size:15 final size:14
Alignment explanation
Indices: 740664--740737 Score: 60
Period size: 15 Copynumber: 4.9 Consensus size: 14
740654 TAAATAATAA
*
740664 AAAAATAAACAAAT
1 AAAAATAAAAAAAT
*
740678 AAATAATAAATAAAT
1 AAA-AATAAAAAAAT
740693 AAATAAGGTACAAAAAAT
1 AAA-AA--TA-AAAAAAT
*
740711 AAAAAT-ACAAAAT
1 AAAAATAAAAAAAT
740724 ACAAAATAAAAAAA
1 A-AAAATAAAAAAA
740738 AAATAAAATG
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
13 7 0.14
14 8 0.16
15 22 0.44
17 4 0.08
18 9 0.18
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.16
Consensus pattern (14 bp):
AAAAATAAAAAAAT
Found at i:740722 original size:7 final size:6
Alignment explanation
Indices: 740705--740745 Score: 57
Period size: 6 Copynumber: 6.7 Consensus size: 6
740695 ATAAGGTACA
740705 AAAAAT AAAAAT ACAAAAT ACAAAAT AAAAA- AAAAAT AAAA
1 AAAAAT AAAAAT A-AAAAT A-AAAAT AAAAAT AAAAAT AAAA
740746 TGGGCTAACC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 5 0.15
6 15 0.45
7 13 0.39
ACGTcount: A:0.83, C:0.05, G:0.00, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:740924 original size:14 final size:13
Alignment explanation
Indices: 740888--740923 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
740878 ACTTGGCACA
*
740888 TTTTTTTTTGCTT
1 TTTTTTTTTTCTT
*
740901 CTTTTTTTTTCTT
1 TTTTTTTTTTCTT
740914 TTTTTTTTTT
1 TTTTTTTTTT
740924 TAAATTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (13 bp):
TTTTTTTTTTCTT
Found at i:741198 original size:42 final size:42
Alignment explanation
Indices: 740998--741375 Score: 237
Period size: 44 Copynumber: 8.8 Consensus size: 42
740988 ATAAACGAAG
* * * * *
740998 GCTCCTCTAAGCAGAGGTTCAATGACTTTGGAAAAATAAATTA
1 GCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAAGTAAA-TA
* * * * * * *
741041 -CTCCTCTAAATAAAAGCTCAAC-AATTTCAGAAAAATAAACAAA
1 GCTCCTCTAAACAGAGGCTCAACGACTTT-TGAAAAGT-AA-ATA
*
741084 GCTCCTCTAAACAGAGGCTCAACGAC-TTTGAAAAAATAAATAAA
1 GCTCCTCTAAACAGAGGCTCAACGACTTTTG-AAAAGTAAAT--A
* * * * *
741128 ACTCCTATAAACAGAGGTTTAACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAAGTAAATA
* * * *
741170 GCTCCTCTAAACAAAGTCTCAACAACTTTTGGAAAGTAAATAAA
1 GCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAAGTAAAT--A
* * * ** * * *
741214 ACTCTTCTAAACAGAGGCTTAATTACTTTTAAAAAATAAGA-G
1 GCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAAGTAA-ATA
* * * *
741256 GCTCCTTTAATCAGAGACTCAACGACTTTTGAAAAATAAATAAA
1 GCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAAGTAAAT--A
* * * * * *
741300 GCTCTTTTAAACAGAGGCTTAATGACTTTCGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAAGTAAATA
741342 GCTCCTCTAAACAGAGGCATC-ACGAC-TTTGAAAA
1 GCTCCTCTAAACAGAGGC-TCAACGACTTTTGAAAA
741376 AATAAATAAA
Statistics
Matches: 255, Mismatches: 64, Indels: 34
0.72 0.18 0.10
Matches are distributed among these distances:
41 12 0.05
42 107 0.42
43 7 0.03
44 123 0.48
45 6 0.02
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.26
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAAGTAAATA
Found at i:741232 original size:130 final size:129
Alignment explanation
Indices: 740999--741385 Score: 363
Period size: 130 Copynumber: 3.0 Consensus size: 129
740989 TAAACGAAGG
* * * * * *
740999 CTCCTCTAAGCAGAGGTTCAATGACTTTGGAAAAATAAATTACTCCTCTAAATAAAAGCTCAACA
1 CTCCTATAAACAGAGGTTCAACGACTTTTGAAAAATAAATTGCTCCTCTAAA-CAAAGCTCAACA
* *
741064 A-TTTCAGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAATAAA
65 ACTTT-AGAAAAGTAAATAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAATAAA
741128 A
129 A
* *
741129 CTCCTATAAACAGAGGTTTAACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAAAGTCTCAACA
1 CTCCTATAAACAGAGGTTCAACGACTTTTGAAAAATAAATTGCTCCTCTAAACAAAG-CTCAACA
* * * * * ** * * **
741194 ACTTTTGGAAAGTAAATAAAACTCTTCTAAACAGAGGCTTAATTACTTTTAAAAAAT-AA-GAGG
65 ACTTTAGAAAAGTAAATAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAATAAAA
* * ** * * * * *
741257 CTCCTTTAATCAGAGACTCAACGACTTTTGAAAAATAAATAAAGCTCTTTTAAACAGAGGCTTAA
1 CTCCTATAAACAGAGGTTCAACGACTTTTGAAAAATAAAT--TGCTCCTCTAAACA-AAGCTCAA
** * *
741322 TGACTTTCGAAAAGTAAAT--TGCTCCTCTAAACAGAGGCATC-ACGACTTTGAAAAAATAAATA
63 CAACTTTAGAAAAGTAAATAAAGCTCCTCTAAACAGAGGC-TCAACGACTTTGAAAAAATAAATA
741384 AA
127 AA
741386 GCTCATTGAC
Statistics
Matches: 204, Mismatches: 45, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
128 64 0.31
129 9 0.04
130 126 0.62
131 5 0.02
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.26
Consensus pattern (129 bp):
CTCCTATAAACAGAGGTTCAACGACTTTTGAAAAATAAATTGCTCCTCTAAACAAAGCTCAACAA
CTTTAGAAAAGTAAATAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAATAAAA
Found at i:741389 original size:86 final size:86
Alignment explanation
Indices: 741084--741385 Score: 369
Period size: 86 Copynumber: 3.5 Consensus size: 86
741074 AATAAACAAA
* *
741084 GCTCCTCTAAACAGAGGCTCAACGAC-TTTGAAAAAATAAATAAAACTCCTATAAACAGAGGTTT
1 GCTCCTCTAAACAGAGGCTCAACGACTTTTG-AAAAATAAATAAAACTCTTATAAACAGAGGCTT
*
741148 AACGACTTTTGAAAAGTAAATT
65 AATGACTTTTGAAAAGTAAATT
* * * * * *
741170 GCTCCTCTAAACAAAGTCTCAACAACTTTTGGAAAGTAAATAAAACTCTTCTAAACAGAGGCTTA
1 GCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAAATAAATAAAACTCTTATAAACAGAGGCTTA
* * * *
741235 ATTACTTTTAAAAAATAAGA-G
66 ATGACTTTTGAAAAGTAA-ATT
* * * * *
741256 GCTCCTTTAATCAGAGACTCAACGACTTTTGAAAAATAAATAAAGCTCTTTTAAACAGAGGCTTA
1 GCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAAATAAATAAAACTCTTATAAACAGAGGCTTA
*
741321 ATGACTTTCGAAAAGTAAATT
66 ATGACTTTTGAAAAGTAAATT
741342 GCTCCTCTAAACAGAGGCATC-ACGAC-TTTGAAAAAATAAATAAA
1 GCTCCTCTAAACAGAGGC-TCAACGACTTTTG-AAAAATAAATAAA
741386 GCTCATTGAC
Statistics
Matches: 181, Mismatches: 30, Indels: 10
0.82 0.14 0.05
Matches are distributed among these distances:
85 5 0.03
86 169 0.93
87 7 0.04
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (86 bp):
GCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAAATAAATAAAACTCTTATAAACAGAGGCTTA
ATGACTTTTGAAAAGTAAATT
Found at i:742406 original size:16 final size:17
Alignment explanation
Indices: 742385--742460 Score: 65
Period size: 16 Copynumber: 4.6 Consensus size: 17
742375 TACTTTTTCA
742385 TTTCTTTTTTTC-TTTT
1 TTTCTTTTTTTCATTTT
742401 TTTCTTTTCATTTTCATTTT
1 TTTC-TTT--TTTTCATTTT
*
742421 TTTC-ATTTTTCATTTT
1 TTTCTTTTTTTCATTTT
*
742437 TTTC---ATTTCA-TTT
1 TTTCTTTTTTTCATTTT
742450 TTTCTTTTTTT
1 TTTCTTTTTTT
742461 TTTAAGCATA
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
13 7 0.14
14 5 0.10
16 21 0.42
17 3 0.06
18 1 0.02
19 5 0.10
20 8 0.16
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTCTTTTTTTCATTTT
Found at i:742451 original size:22 final size:21
Alignment explanation
Indices: 742421--742461 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
742411 TTTTCATTTT
742421 TTTCATTTTTCATTTTTTTCA
1 TTTCATTTTTCATTTTTTTCA
*
742442 TTTCATTTTTTCTTTTTTTT
1 TTTCA-TTTTTCATTTTTTT
742462 TTAAGCATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTCATTTTTCATTTTTTTCA
Found at i:745485 original size:28 final size:28
Alignment explanation
Indices: 745443--745525 Score: 139
Period size: 28 Copynumber: 3.0 Consensus size: 28
745433 CACTCTGGAT
745443 ACTTAGCCACTTGTAGAAAACCTGCATC
1 ACTTAGCCACTTGTAGAAAACCTGCATC
* *
745471 ATTTAGCCACTTGTAGAAAATCTGCATC
1 ACTTAGCCACTTGTAGAAAACCTGCATC
*
745499 ACTTAGCCACTTGTAGAAAACTTGCAT
1 ACTTAGCCACTTGTAGAAAACCTGCAT
745526 TAAACTATTT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (28 bp):
ACTTAGCCACTTGTAGAAAACCTGCATC
Found at i:753096 original size:59 final size:58
Alignment explanation
Indices: 752936--753096 Score: 218
Period size: 59 Copynumber: 2.8 Consensus size: 58
752926 TGCTTTTGTA
*
752936 CAAGAAAAATTGATACTTTCAACTTTTCC-CCAAAATATTTTTTTGAAACTTTAATTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTTAATTT
* * * * *
752993 CGAGAAAAATTGATACTTTCAATTTTTTTCTCAAAAATATTTTTTAGAAAAC-TTATTTT
1 CAAGAAAAATTGATACTTTCAA-CTTTTCCTCAAAAATATTTTTTTG-AAACTTTAATTT
* *
753052 CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
753097 TGAATTTTAT
Statistics
Matches: 89, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
57 21 0.24
58 24 0.27
59 40 0.45
60 4 0.04
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (58 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTTAATTT
Found at i:753130 original size:14 final size:14
Alignment explanation
Indices: 753108--753139 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
753098 GAATTTTATT
753108 TAAAGAAAATAAAA
1 TAAAGAAAATAAAA
*
753122 TAAATAAAATAAAA
1 TAAAGAAAATAAAA
753136 TAAA
1 TAAA
753140 AAATACTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (14 bp):
TAAAGAAAATAAAA
Found at i:754051 original size:16 final size:17
Alignment explanation
Indices: 754010--754051 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
754000 AAAAAAACAA
754010 AGATAAT-ATATTAACT
1 AGATAATAATATTAACT
*
754026 -GATAAAAATATTAA-T
1 AGATAATAATATTAACT
754041 AGATAATAATA
1 AGATAATAATA
754052 ATAAAGTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.33
Consensus pattern (17 bp):
AGATAATAATATTAACT
Found at i:754097 original size:32 final size:32
Alignment explanation
Indices: 754035--754120 Score: 84
Period size: 32 Copynumber: 2.7 Consensus size: 32
754025 TGATAAAAAT
* * *
754035 ATTAATAGATAATAATAATAAAGTATATATAC
1 ATTAACAGATAATAATAATAAAGAAAATATAC
*
754067 ATTAACAGATAAATAATAATAAA-AAAATATAT
1 ATTAACAGAT-AATAATAATAAAGAAAATATAC
* * * *
754099 ATGAATAAATAGTAATAATAAA
1 ATTAACAGATAATAATAATAAA
754121 TAAATAAGAT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
31 11 0.24
32 22 0.49
33 12 0.27
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (32 bp):
ATTAACAGATAATAATAATAAAGAAAATATAC
Found at i:754141 original size:22 final size:23
Alignment explanation
Indices: 754112--754169 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
754102 AATAAATAGT
* *
754112 AATAATAAATAAATAAGATACAA
1 AATAATAAATAAACAAAATACAA
754135 AA-AATAAA-AATACAAAATACAA
1 AATAATAAATAA-ACAAAATACAA
*
754157 AATAAAAAATAAA
1 AATAATAAATAAA
754170 ATAAAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 2 0.07
22 17 0.59
23 8 0.28
24 2 0.07
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.17
Consensus pattern (23 bp):
AATAATAAATAAACAAAATACAA
Found at i:754151 original size:7 final size:6
Alignment explanation
Indices: 754134--754197 Score: 64
Period size: 6 Copynumber: 10.7 Consensus size: 6
754124 ATAAGATACA
754134 AAAAAT AAAAAT ACAAAAT ACAAAAT AAAAA- ATAAAAT AAAAA- ATAAAAT
1 AAAAAT AAAAAT A-AAAAT A-AAAAT AAAAAT A-AAAAT AAAAAT A-AAAAT
754184 -AAAAT -AAAAT AAAA
1 AAAAAT AAAAAT AAAA
754198 TGAGCTTACC
Statistics
Matches: 52, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
5 12 0.23
6 26 0.50
7 14 0.27
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:754170 original size:5 final size:5
Alignment explanation
Indices: 754162--754198 Score: 56
Period size: 5 Copynumber: 7.0 Consensus size: 5
754152 TACAAAATAA
754162 AAAAT AAAAT AAAAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT --AAAAT AAAAT AAAAT AAAAT AAAAT
754199 GAGCTTACCC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 25 0.83
7 5 0.17
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:754170 original size:12 final size:12
Alignment explanation
Indices: 754133--754197 Score: 80
Period size: 12 Copynumber: 5.3 Consensus size: 12
754123 AATAAGATAC
754133 AAAAAATAAAAAT
1 AAAAAAT-AAAAT
*
754146 ACAAAATACAAAAT
1 A-AAAA-ATAAAAT
754160 AAAAAATAAAAT
1 AAAAAATAAAAT
754172 AAAAAATAAAAT
1 AAAAAATAAAAT
754184 --AAAATAAAAT
1 AAAAAATAAAAT
754194 AAAA
1 AAAA
754198 TGAGCTTACC
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
10 10 0.22
12 20 0.43
13 5 0.11
14 10 0.22
15 1 0.02
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:759117 original size:16 final size:16
Alignment explanation
Indices: 759092--759127 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
759082 CGATAAATGA
759092 ATGATAATGATAATTT
1 ATGATAATGATAATTT
* *
759108 ATGATGATGATGATTT
1 ATGATAATGATAATTT
759124 ATGA
1 ATGA
759128 AGATTTTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.19, T:0.42
Consensus pattern (16 bp):
ATGATAATGATAATTT
Found at i:762492 original size:143 final size:143
Alignment explanation
Indices: 762234--762520 Score: 538
Period size: 143 Copynumber: 2.0 Consensus size: 143
762224 AATTTTGGTT
*
762234 ATTTGGTGAAATAAGAAGCAATCTGTGGTGGCTAGAAGTAGTGCAGAAGCTGAGTTTAGAGCTAT
1 ATTTGGTGAAATAAAAAGCAATCTGTGGTGGCTAGAAGTAGTGCAGAAGCTGAGTTTAGAGCTAT
*
762299 GTCTCATGTTATATGTGAAGGAATTTGGCTAAAAATATTACTAGGGGAGTTAAAGGTCTTTGTAG
66 GTCTCATGTTATATGTGAAGGAATTTGGCTAAAAATATTACTAGGGGAGTTAAAGGTCTTTGCAG
762364 AAGAATTCATGAA
131 AAGAATTCATGAA
762377 ATTTGGTGAAATAAAAAGCAATCTGTGGTGGCTAGAAGTAGTGCAGAAGCTGAGTTTAGAGCTAT
1 ATTTGGTGAAATAAAAAGCAATCTGTGGTGGCTAGAAGTAGTGCAGAAGCTGAGTTTAGAGCTAT
* *
762442 GTCTCATGTTATATGTGAAGGAATTTGGCTGAAAATATTACTAGGGGAGTTAAAGGTCTTTGCGG
66 GTCTCATGTTATATGTGAAGGAATTTGGCTAAAAATATTACTAGGGGAGTTAAAGGTCTTTGCAG
762507 AAGAATTCATGAA
131 AAGAATTCATGAA
762520 A
1 A
762521 ATATTCTGTA
Statistics
Matches: 140, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
143 140 1.00
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (143 bp):
ATTTGGTGAAATAAAAAGCAATCTGTGGTGGCTAGAAGTAGTGCAGAAGCTGAGTTTAGAGCTAT
GTCTCATGTTATATGTGAAGGAATTTGGCTAAAAATATTACTAGGGGAGTTAAAGGTCTTTGCAG
AAGAATTCATGAA
Found at i:762966 original size:22 final size:23
Alignment explanation
Indices: 762929--762972 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
762919 TGATTAATTG
* *
762929 TTTTAATACATGAAAATCTTCAA
1 TTTTAAAACATGAAAATATTCAA
762952 TTTTAAAAC-TGAAAATATTCA
1 TTTTAAAACATGAAAATATTCA
762973 GCCTTTAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (23 bp):
TTTTAAAACATGAAAATATTCAA
Found at i:773603 original size:3 final size:3
Alignment explanation
Indices: 773595--773623 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
773585 ACAAGCAGGC
773595 CAG CAG CAG CAG CAG CAG CAG CAG CAG CA
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CA
773624 TTCAGCATAG
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:0.34, G:0.31, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:779716 original size:13 final size:12
Alignment explanation
Indices: 779695--779755 Score: 58
Period size: 12 Copynumber: 5.3 Consensus size: 12
779685 TTTTTTATTG
779695 ATATAAATTTTA
1 ATATAAATTTTA
*
779707 ATATATAATTTTT
1 ATATA-AATTTTA
* *
779720 ATATAAAATATA
1 ATATAAATTTTA
779732 ATATAAA---T-
1 ATATAAATTTTA
779740 ATATAAATTTTA
1 ATATAAATTTTA
779752 ATAT
1 ATAT
779756 GATATAAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
8 7 0.17
9 1 0.03
11 1 0.03
12 20 0.50
13 11 0.28
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATATAAATTTTA
Found at i:779753 original size:20 final size:22
Alignment explanation
Indices: 779695--779755 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 22
779685 TTTTTTATTG
779695 ATATAAATTTTAATATATAATTTTT
1 ATATAAATTTTAATATATAA---TT
* *
779720 ATATAAAATATAATATA-AA-T
1 ATATAAATTTTAATATATAATT
779740 ATATAAATTTTAATAT
1 ATATAAATTTTAATAT
779756 GATATAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 15 0.47
24 2 0.06
25 15 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATATAAATTTTAATATATAATT
Found at i:789252 original size:55 final size:55
Alignment explanation
Indices: 789168--789277 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
789158 CGTCAGAGAG
789168 CACAAAAAGGGTTGTGATGATGTGGTCCAGAAGAGGAATGTGCCAGTGAAAATAT
1 CACAAAAAGGGTTGTGATGATGTGGTCCAGAAGAGGAATGTGCCAGTGAAAATAT
789223 CACAAAAAGGGTTGTGATGATGTGGTCCAGAAGAGGAATGTGCCAGTGAAAATAT
1 CACAAAAAGGGTTGTGATGATGTGGTCCAGAAGAGGAATGTGCCAGTGAAAATAT
789278 TGATGATCAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.36, C:0.11, G:0.31, T:0.22
Consensus pattern (55 bp):
CACAAAAAGGGTTGTGATGATGTGGTCCAGAAGAGGAATGTGCCAGTGAAAATAT
Found at i:793007 original size:19 final size:19
Alignment explanation
Indices: 792964--793010 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
792954 AACCAAATCG
*
792964 AATTATATATATTTTTTAA
1 AATTTTATATATTTTTTAA
**
792983 GTTTTTATATATTTTTTAA
1 AATTTTATATATTTTTTAA
793002 AATTTTATA
1 AATTTTATA
793011 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
AATTTTATATATTTTTTAA
Found at i:793298 original size:51 final size:51
Alignment explanation
Indices: 793239--793338 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
793229 AATCCAATCC
* *
793239 GAATCGAACCATTTATCATAACATATAGATCTG-AAAATTTATAAATAGATT
1 GAATCGAACCATTTATCATAACATATAAATC-GAAAAATCTATAAATAGATT
**
793290 GAATCGAACTGTTTATCATAACATATAAATCGAAAAATCTATAAATAGA
1 GAATCGAACCATTTATCATAACATATAAATCGAAAAATCTATAAATAGA
793339 CTTAATAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 1 0.02
51 43 0.98
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (51 bp):
GAATCGAACCATTTATCATAACATATAAATCGAAAAATCTATAAATAGATT
Found at i:794314 original size:25 final size:27
Alignment explanation
Indices: 794285--794345 Score: 76
Period size: 25 Copynumber: 2.3 Consensus size: 27
794275 TCTCACATAG
794285 TAATTTTAT-AAAATTTTA-CTATTTGA
1 TAATTTTATAAAAATTTTATC-ATTTGA
794311 -AATTTT-TAAAAATTTTATCATTTGA
1 TAATTTTATAAAAATTTTATCATTTGA
794336 TAATTATTAT
1 TAATT-TTAT
794346 TTATTCTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
24 1 0.03
25 21 0.70
26 5 0.17
27 2 0.07
28 1 0.03
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.54
Consensus pattern (27 bp):
TAATTTTATAAAAATTTTATCATTTGA
Found at i:794394 original size:17 final size:17
Alignment explanation
Indices: 794362--794396 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
794352 TAAAAAAATT
**
794362 TATTTTTTTATTTTTAA
1 TATTTTTTTAAATTTAA
794379 TATTTTTTTAAATTTAA
1 TATTTTTTTAAATTTAA
794396 T
1 T
794397 TATGCAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTTTTTAAATTTAA
Found at i:796641 original size:2 final size:2
Alignment explanation
Indices: 796634--796673 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
796624 ACCACATCTA
*
796634 AT AT AT AT AT AT AT AT AT AT AT -T AT AT A- AT A- AC 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
796673 A
1 A
796674 AATAAATTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
1 3 0.09
2 31 0.91
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:796751 original size:20 final size:22
Alignment explanation
Indices: 796726--796766 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
796716 AATGACACAT
796726 AAAATAA-AT-TTTTTTTAAAA
1 AAAATAAGATATTTTTTTAAAA
796746 AAAATAAGATAGTTTTTTTAA
1 AAAATAAGATA-TTTTTTTAA
796767 TTACAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
23 9 0.50
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (22 bp):
AAAATAAGATATTTTTTTAAAA
Found at i:803497 original size:23 final size:23
Alignment explanation
Indices: 803437--803511 Score: 59
Period size: 23 Copynumber: 3.3 Consensus size: 23
803427 TCGAAATATT
* * *
803437 TTTTATAAGATAAA-ATTATAAGA
1 TTTTATAAGTTAAATA-CATAATA
* *
803460 TTTT-TAAATTAAAATAGATAATA
1 TTTTATAAGTT-AAATACATAATA
803483 TTTTATAAGTTAAATACA-AAT-
1 TTTTATAAGTTAAATACATAATA
803504 TTTTATAA
1 TTTTATAA
803512 ATGATATCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
21 8 0.19
22 7 0.16
23 22 0.51
24 6 0.14
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.44
Consensus pattern (23 bp):
TTTTATAAGTTAAATACATAATA
Found at i:803914 original size:81 final size:80
Alignment explanation
Indices: 803829--803991 Score: 247
Period size: 81 Copynumber: 2.0 Consensus size: 80
803819 TCTATAAAAG
* * *
803829 ATCAGAAATAAATTAAAAAAAAA-TGATTAACCTAACTTTAAGCAGGTGGGAAGAGAACACCAGG
1 ATCAGAAATAAA-AAAAAAAAAATTGACTAACCTAACTTGAAGCAGGTGGGAAGAGAACACCAGG
* *
803893 CTTTTGATAATGTCAAA
65 C-TTTAAAAATGTCAAA
*
803910 ATCAGAAATAAAAAAAAAAAAATTGACTAACCTAACTTGAAGCAGGTGGGAAGAGAACACGAGGC
1 ATCAGAAATAAAAAAAAAAAAATTGACTAACCTAACTTGAAGCAGGTGGGAAGAGAACACCAGGC
803975 TTTAAAAATGTCAAA
66 TTTAAAAATGTCAAA
803990 AT
1 AT
803992 GGCCTTTGCA
Statistics
Matches: 75, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
80 24 0.32
81 51 0.68
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.21
Consensus pattern (80 bp):
ATCAGAAATAAAAAAAAAAAAATTGACTAACCTAACTTGAAGCAGGTGGGAAGAGAACACCAGGC
TTTAAAAATGTCAAA
Found at i:805584 original size:20 final size:21
Alignment explanation
Indices: 805547--805585 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
805537 ATCATAAAAT
805547 TCAAACTTAAATACCTTAGAA
1 TCAAACTTAAATACCTTAGAA
*
805568 TCAAACTTTAA-ACCTTAG
1 TCAAACTTAAATACCTTAG
805586 CCGTTTCCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.44, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
TCAAACTTAAATACCTTAGAA
Found at i:806541 original size:1 final size:1
Alignment explanation
Indices: 806535--806568 Score: 50
Period size: 1 Copynumber: 34.0 Consensus size: 1
806525 CTTTGGTTTC
**
806535 TTTTTTTTTTTTTTTTTTTTTTTTGCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
806569 AAATGGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.03, G:0.03, T:0.94
Consensus pattern (1 bp):
T
Found at i:819157 original size:2 final size:2
Alignment explanation
Indices: 819150--819174 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
819140 TATTTTGTGC
819150 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 A
819175 ATTGAGACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:824266 original size:22 final size:22
Alignment explanation
Indices: 824226--824267 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
824216 ATTTTAAAAT
* *
824226 TTTAATAAAATTTATAAATAAA
1 TTTAATAAAATTAAAAAATAAA
824248 TTTAATAAAATTAAAAAATA
1 TTTAATAAAATTAAAAAATA
824268 TATATTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TTTAATAAAATTAAAAAATAAA
Found at i:825152 original size:37 final size:40
Alignment explanation
Indices: 825082--825157 Score: 104
Period size: 37 Copynumber: 2.0 Consensus size: 40
825072 CACAAAGGGA
*
825082 TTTTTTAATTTTTATAAAAAAAATTTTTAAAAATGTTATC
1 TTTTTTAATTTTTATAAAAAAAATTTTTAAAAATCTTATC
* *
825122 TTTTTTTATTTTT-T-AAAAAAA-TTTTGAAAATCTTAT
1 TTTTTTAATTTTTATAAAAAAAATTTTTAAAAATCTTAT
825158 ATTTAGAGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
37 13 0.39
38 7 0.21
39 1 0.03
40 12 0.36
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (40 bp):
TTTTTTAATTTTTATAAAAAAAATTTTTAAAAATCTTATC
Found at i:837051 original size:28 final size:29
Alignment explanation
Indices: 837013--837079 Score: 86
Period size: 28 Copynumber: 2.3 Consensus size: 29
837003 ATTTTAAATT
837013 TTGATTTAAATTCAAA-T-AA-AAATTTTA
1 TTGATTTAAATT-AAATTAAATAAATTTTA
837040 TTAGATTTAAATTAAATTAAATTAAATTTTA
1 TT-GATTTAAATTAAATTAAA-TAAATTTTA
837071 TTGATTTAA
1 TTGATTTAA
837080 TTCGATTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
27 5 0.14
28 11 0.31
29 2 0.06
30 7 0.20
31 10 0.29
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.48
Consensus pattern (29 bp):
TTGATTTAAATTAAATTAAATAAATTTTA
Found at i:837079 original size:15 final size:15
Alignment explanation
Indices: 837032--837079 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
837022 ATTCAAATAA
837032 AAATTTTATTAGATTT
1 AAATTTTATT-GATTT
** * *
837048 AAATTAAATTAAATT
1 AAATTTTATTGATTT
837063 AAATTTTATTGATTT
1 AAATTTTATTGATTT
837078 AA
1 AA
837080 TTCGATTTAA
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
15 16 0.67
16 8 0.33
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (15 bp):
AAATTTTATTGATTT
Found at i:837127 original size:13 final size:13
Alignment explanation
Indices: 837094--837143 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
837084 ATTTAATTTA
*
837094 TTAATTTATTAATT
1 TTAATATATT-ATT
*
837108 TTTATATATTATT
1 TTAATATATTATT
**
837121 TTAATATAAAATT
1 TTAATATATTATT
837134 TTAATATATT
1 TTAATATATT
837144 TAAATAAATT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
13 21 0.72
14 8 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTAATATATTATT
Found at i:837166 original size:22 final size:22
Alignment explanation
Indices: 837120--837167 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
837110 TATATATTAT
*
837120 TTTAATATAAAATTTTAATATA
1 TTTAATATAAAATTTTAATAAA
837142 TTTAA-AT-AAATTTTGATATAAA
1 TTTAATATAAAATTTT-A-ATAAA
837164 TTTA
1 TTTA
837168 TTAATTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 7 0.30
21 3 0.13
22 13 0.57
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
TTTAATATAAAATTTTAATAAA
Found at i:837185 original size:34 final size:33
Alignment explanation
Indices: 837096--837199 Score: 86
Period size: 33 Copynumber: 3.1 Consensus size: 33
837086 TTAATTTATT
* *
837096 AATTTATTAATTT-TTATATATTATTTTAATATA
1 AATTTATTAATTTATTTTATA-AATTTTAATATA
* * * *
837129 AAATT-TTAATATATTTAAATAAATTTTGATATA
1 AATTTATTAATTTATTT-TATAAATTTTAATATA
* *
837162 AATTTATTAATTTTATTTTATAAAAGTTTAAAATA
1 AATTTATTAA-TTTATTTTAT-AAATTTTAATATA
837197 AAT
1 AAT
837200 ATAAAAATTT
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
32 6 0.11
33 20 0.37
34 9 0.17
35 19 0.35
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (33 bp):
AATTTATTAATTTATTTTATAAATTTTAATATA
Found at i:837219 original size:18 final size:19
Alignment explanation
Indices: 837180--837221 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
837170 AATTTTATTT
*
837180 TATAAAAGTTTAAAATAAA
1 TATAAAAATTTAAAATAAA
*
837199 TATAAAAATTT-AAATATA
1 TATAAAAATTTAAAATAAA
837217 TATAA
1 TATAA
837222 TTTGATTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
TATAAAAATTTAAAATAAA
Found at i:837684 original size:18 final size:18
Alignment explanation
Indices: 837661--837701 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
837651 AATCTCAAAT
837661 TAATATATATAAATAAAA
1 TAATATATATAAATAAAA
* * *
837679 TAATATTTTTAATTAAAA
1 TAATATATATAAATAAAA
837697 TAATA
1 TAATA
837702 AGATATATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TAATATATATAAATAAAA
Found at i:850316 original size:13 final size:13
Alignment explanation
Indices: 850298--850338 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
850288 TAATTAATTA
850298 ATTATTTTTATAT
1 ATTATTTTTATAT
850311 ATTA-TTTTA-AT
1 ATTATTTTTATAT
*
850322 ATAATTTTTAATAT
1 ATTATTTTT-ATAT
850336 ATT
1 ATT
850339 TAAATAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
11 5 0.22
12 9 0.39
13 5 0.22
14 4 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
ATTATTTTTATAT
Found at i:850354 original size:20 final size:21
Alignment explanation
Indices: 850316--850354 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
850306 TATATATTAT
* *
850316 TTTAATATAATTTTTAATATA
1 TTTAATATAAATTTAAATATA
850337 TTTAA-ATAAATTTAAATA
1 TTTAATATAAATTTAAATA
850355 CAAAATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTAATATAAATTTAAATATA
Found at i:850413 original size:18 final size:18
Alignment explanation
Indices: 850383--850417 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
850373 TTATAAAAAT
850383 TTAAAAAATATATATAAA
1 TTAAAAAATATATATAAA
850401 TTAATAAAA-ATATATAA
1 TTAA-AAAATATATATAA
850418 TTTTATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TTAAAAAATATATATAAA
Found at i:856626 original size:18 final size:18
Alignment explanation
Indices: 856605--856639 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
856595 TGTGAAAGGC
856605 AAAAAAGA-ATAGAAAAAA
1 AAAAAAGAGA-AGAAAAAA
856623 AAAAAAGAGAAGAAAAA
1 AAAAAAGAGAAGAAAAA
856640 GTTGGGTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (18 bp):
AAAAAAGAGAAGAAAAAA
Found at i:865022 original size:16 final size:18
Alignment explanation
Indices: 865001--865037 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
864991 TTATCTTTTT
865001 TTTAAAGT-TT-ATATAA
1 TTTAAAGTATTGATATAA
*
865017 TTTAAATTATTGATATAA
1 TTTAAAGTATTGATATAA
865035 TTT
1 TTT
865038 TTAAAAGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
18 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (18 bp):
TTTAAAGTATTGATATAA
Found at i:866165 original size:29 final size:28
Alignment explanation
Indices: 866114--866171 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
866104 TTTATTTACT
*
866114 TAAATAATTTTTTATAAATATATACTAA
1 TAAATAATTTTTTATAAAAATATACTAA
*
866142 TAAAT-ATTTTTTCAGTAAAAATATATTAA
1 TAAATAATTTTTT-A-TAAAAATATACTAA
866171 T
1 T
866172 TTTAATTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 7 0.27
28 6 0.23
29 13 0.50
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (28 bp):
TAAATAATTTTTTATAAAAATATACTAA
Found at i:868627 original size:20 final size:19
Alignment explanation
Indices: 868576--868630 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
868566 ATTATAACAC
868576 ATAAT-TTTTATATAAAAT
1 ATAATATTTTATATAAAAT
** *
868594 ATAATATAAATATATAAATT
1 ATAATAT-TTTATATAAAAT
868614 ATCAATATTTTATATAA
1 AT-AATATTTTATATAA
868631 CATAAATACA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
18 5 0.17
19 1 0.03
20 18 0.62
21 5 0.17
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
ATAATATTTTATATAAAAT
Found at i:873043 original size:33 final size:32
Alignment explanation
Indices: 873006--873085 Score: 92
Period size: 31 Copynumber: 2.5 Consensus size: 32
872996 TGCATAGTGG
* * * *
873006 GAGCTTTATTTCTCTGGACCTCTTGCATAACGA
1 GAGCTTTATTGCACCGG-CCTCTTCCATAACGA
*
873039 GAGCTTTA-TGCACCGGCCTCTTCCATAATGA
1 GAGCTTTATTGCACCGGCCTCTTCCATAACGA
873070 GAGCTTTA-TGCACCGG
1 GAGCTTTATTGCACCGG
873086 ACTGATTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
31 29 0.69
32 5 0.12
33 8 0.19
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (32 bp):
GAGCTTTATTGCACCGGCCTCTTCCATAACGA
Found at i:873066 original size:31 final size:31
Alignment explanation
Indices: 873024--873085 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
873014 TTTCTCTGGA
*
873024 CCTCTTGCATAACGAGAGCTTTATGCACCGG
1 CCTCTTCCATAACGAGAGCTTTATGCACCGG
*
873055 CCTCTTCCATAATGAGAGCTTTATGCACCGG
1 CCTCTTCCATAACGAGAGCTTTATGCACCGG
873086 ACTGATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (31 bp):
CCTCTTCCATAACGAGAGCTTTATGCACCGG
Found at i:877041 original size:32 final size:33
Alignment explanation
Indices: 876986--877052 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 33
876976 CAGCTACAGG
*
876986 AATTTTTTTGTAGATTAACTATATATTCAATTT
1 AATTTTTTTGTAGATTAAATATATATTCAATTT
877019 AATTTTTTTGTAGA-TAAATATATATTCAATTT
1 AATTTTTTTGTAGATTAAATATATATTCAATTT
877051 AA
1 AA
877053 CCTTTTTGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.58
33 14 0.42
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.52
Consensus pattern (33 bp):
AATTTTTTTGTAGATTAAATATATATTCAATTT
Found at i:877059 original size:33 final size:33
Alignment explanation
Indices: 876989--877060 Score: 110
Period size: 32 Copynumber: 2.2 Consensus size: 33
876979 CTACAGGAAT
* *
876989 TTTTTTGTAGATTAACTATATATTCAATTTAAT
1 TTTTTTGTAGATTAAATATATATTCAATTTAAC
877022 TTTTTTGTAGA-TAAATATATATTCAATTTAAC
1 TTTTTTGTAGATTAAATATATATTCAATTTAAC
*
877054 CTTTTTG
1 TTTTTTG
877061 CTGATGTCCT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
32 25 0.69
33 11 0.31
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.54
Consensus pattern (33 bp):
TTTTTTGTAGATTAAATATATATTCAATTTAAC
Found at i:877456 original size:2 final size:2
Alignment explanation
Indices: 877449--877482 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
877439 TTTTGCTGTT
877449 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
877483 ACATTTTTAT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:880744 original size:1 final size:1
Alignment explanation
Indices: 880740--880766 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
880730 TTTTTTTTTT
880740 GGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGG
880767 AGGAACCAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:883464 original size:2 final size:2
Alignment explanation
Indices: 883457--883486 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
883447 GATCACATTA
*
883457 AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
883487 CTAATGATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Done.