Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold43
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: 2559314
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 13088 characters in sequence are not A, C, G, or T
File 6 of 19
Found at i:735466 original size:25 final size:27
Alignment explanation
Indices: 735406--735470 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
735396 ACTTGACAAT
*
735406 AATAAATATAATTATATAATATGATATA
1 AATAAA-ATAATTATATAATATGATAGA
735434 AATAAAATAATTA-A-AATATGATACGA
1 AATAAAATAATTATATAATATGATA-GA
735460 AATAAATATAA
1 AATAAA-ATAA
735471 ATATTAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
25 9 0.26
26 8 0.24
27 11 0.32
28 6 0.18
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (27 bp):
AATAAAATAATTATATAATATGATAGA
Found at i:735485 original size:18 final size:18
Alignment explanation
Indices: 735459--735524 Score: 57
Period size: 18 Copynumber: 3.6 Consensus size: 18
735449 ATATGATACG
*
735459 AAATAAATATAAATATTA
1 AAATTAATATAAATATTA
735477 AAATTAATAT-AATA-TA
1 AAATTAATATAAATATTA
735493 AATTATTAA-ATAAATATTTTA
1 AA--ATTAATATAAATA--TTA
*
735514 AAATTTATATA
1 AAATTAATATA
735525 TAGATTATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
16 4 0.10
17 6 0.15
18 18 0.46
19 4 0.10
20 3 0.08
21 4 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAATTAATATAAATATTA
Found at i:735503 original size:23 final size:23
Alignment explanation
Indices: 735459--735613 Score: 75
Period size: 22 Copynumber: 7.1 Consensus size: 23
735449 ATATGATACG
735459 AAATA-AATATAAATATTAAAAT
1 AAATATAATATAAATATTAAAAT
*
735481 TAATATAATATAAATTATT-AAAT
1 AAATATAATATAAA-TATTAAAAT
** *
735504 AAATATTTTA-AAAT-TTATATAT
1 AAATATAATATAAATATTA-AAAT
*
735526 AGAT-T-AT-TAATATATTAAAAT
1 AAATATAATATAA-ATATTAAAAT
** * ***
735547 TTATATAA-ATAAATAATATTTT
1 AAATATAATATAAATATTAAAAT
735569 AAATATAATA-AAATA-T---AT
1 AAATATAATATAAATATTAAAAT
*
735587 AAATATAATATAAATATATAAATT
1 AAATATAATATAAATAT-TAAAAT
735611 AAA
1 AAA
735614 GAATAAAACA
Statistics
Matches: 98, Mismatches: 18, Indels: 32
0.66 0.12 0.22
Matches are distributed among these distances:
18 11 0.11
19 5 0.05
20 5 0.05
21 11 0.11
22 34 0.35
23 24 0.24
24 8 0.08
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.41
Consensus pattern (23 bp):
AAATATAATATAAATATTAAAAT
Found at i:735515 original size:37 final size:32
Alignment explanation
Indices: 735467--735553 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 32
735457 CGAAATAAAT
735467 ATAAATATTAAAATTAATATAATATAAATTATTAA
1 ATAAATATTAAAATT--TAT-ATATAAATTATTAA
*
735502 ATAAATATTTTAAAATTTATATATAGATTATT-A
1 ATAAATA--TTAAAATTTATATATAAATTATTAA
735535 AT--ATATTAAAATTTATATA
1 ATAAATATTAAAATTTATATA
735554 AATAAATAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 10
0.82 0.02 0.17
Matches are distributed among these distances:
29 14 0.29
31 3 0.06
33 3 0.06
34 11 0.22
35 10 0.20
37 8 0.16
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (32 bp):
ATAAATATTAAAATTTATATATAAATTATTAA
Found at i:735538 original size:29 final size:27
Alignment explanation
Indices: 735499--735571 Score: 92
Period size: 29 Copynumber: 2.6 Consensus size: 27
735489 TATAAATTAT
735499 TAAATAAATATTTTAAAATTTATATATAGA
1 TAAAT-AATATTTTAAAATTTATATA-A-A
* * *
735529 TTATTAATATATTAAAATTTATATAAA
1 TAAATAATATTTTAAAATTTATATAAA
735556 TAAATAATATTTTAAA
1 TAAATAATATTTTAAA
735572 TATAATAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
27 14 0.38
28 1 0.03
29 19 0.51
30 3 0.08
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (27 bp):
TAAATAATATTTTAAAATTTATATAAA
Found at i:735581 original size:65 final size:65
Alignment explanation
Indices: 735459--735612 Score: 151
Period size: 65 Copynumber: 2.4 Consensus size: 65
735449 ATATGATACG
** *
735459 AAATA-AATAT-AA-ATATTAAAATTAATATAATATAAATTATTAAATAAATATTTTAAAATTTA
1 AAATAGAATATAAATATATTAAAATTAATATAATATAAATTATT-AATAAATATAATAAAATATA
735521 T
65 T
* * * * *
735522 ATATAGATTATTAATATATTAAAATTTATATAA-ATAAATAATATT-TTAAATATAATAAAATAT
1 AAATAGAATATAAATATATTAAAATTAATATAATATAAAT--TATTAATAAATATAATAAAATAT
735585 AT
64 AT
*
735587 AAATATAATATAAATATA-T-AAATTAA
1 AAATAGAATATAAATATATTAAAATTAA
735613 AGAATAAAAC
Statistics
Matches: 74, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
63 10 0.14
64 5 0.07
65 38 0.51
66 17 0.23
67 4 0.05
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (65 bp):
AAATAGAATATAAATATATTAAAATTAATATAATATAAATTATTAATAAATATAATAAAATATAT
Found at i:735605 original size:21 final size:20
Alignment explanation
Indices: 735549--735606 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
735539 ATTAAAATTT
*
735549 ATATAAATAAATAATATTTTAA
1 ATATAAATAAAT-ATA-TATAA
735571 ATAT-AATAAA-ATATATAA
1 ATATAAATAAATATATATAA
735589 ATATAATATAAATATATA
1 ATATAA-ATAAATATATA
735607 AATTAAAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
18 8 0.25
19 4 0.12
20 5 0.16
21 11 0.34
22 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATATAAATAAATATATATAA
Found at i:736981 original size:29 final size:28
Alignment explanation
Indices: 736935--736989 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
736925 TTGGTAGAGC
* * *
736935 GGAAAGAAAATTGGAAAGATGGAAAATG
1 GGAAAGAAAAGTGAAAAGATAGAAAATG
736963 GGAAGAGAAAAGTGAAAAGATAGAAAA
1 GGAA-AGAAAAGTGAAAAGATAGAAAA
736990 CTTTTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.58, C:0.00, G:0.31, T:0.11
Consensus pattern (28 bp):
GGAAAGAAAAGTGAAAAGATAGAAAATG
Found at i:746064 original size:38 final size:35
Alignment explanation
Indices: 746010--746082 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 35
746000 TCAGATAATT
746010 TTTTTAATAATAAAATTAT-TATTTATATATATTTAA
1 TTTTTAATAATAAAATTATATA-TTATATAT-TTTAA
*
746046 TTTTTATATGATATAAATTATATATTATATATTTTAA
1 TTTTTA-ATAATA-AAATTATATATTATATATTTTAA
746083 AAAATAAGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
36 6 0.18
37 10 0.30
38 15 0.45
39 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (35 bp):
TTTTTAATAATAAAATTATATATTATATATTTTAA
Found at i:746350 original size:137 final size:136
Alignment explanation
Indices: 746136--746521 Score: 551
Period size: 137 Copynumber: 2.8 Consensus size: 136
746126 GTTTTTTTTT
* ** * * * * * *
746136 AATTTATTTTTTAAAT-ATAATATTTTTAACCAAGTCTTTTCAAATATCAAACAAAATTTTAAGC
1 AATTTATTTTTT-GATCATAATATTTTTAATTAAATTTTTTTAAATATCAAACAAGATTTCAAAC
* ** *
746200 TTCAATGTATAATTTGACCTTTAAACAAGCTTATAAAAGTACTTTGCCTTTGAGTTTTATTTTTA
65 TTCAATATATAATTTGACCTTTAAACAAGCTTACGAAAGTACTCTGCCTTTGAGTTTTATTTTTA
746265 ATATTTA
130 ATATTTA
746272 AATTTATTTTTTGATCATAATATTTTTAATTAAATTTTTTTTAAATATCAAACAAGATTTCAAAC
1 AATTTATTTTTTGATCATAATATTTTTAATTAAA-TTTTTTTAAATATCAAACAAGATTTCAAAC
* * *
746337 TTAAATATATAATTTGA-CTTATAAACAAACTTACGAAAGTACTCTACCTTTGAGTTTTATTTTT
65 TTCAATATATAATTTGACCTT-TAAACAAGCTTACGAAAGTACTCTGCCTTTGAGTTTTATTTTT
* *
746401 TATGTTTA
129 AATATTTA
* *
746409 AATTTATTTTTTGAACATAATATTTTTAATTAAACTTTTTTAAATATCAAACAAGATTTCAAACT
1 AATTTATTTTTTGATCATAATATTTTTAATTAAATTTTTTTAAATATCAAACAAGATTTCAAACT
746474 TCAATATATAATTTGACCTTTAAACAAGCTTACGAAAGTACTCTGCCT
66 TCAATATATAATTTGACCTTTAAACAAGCTTACGAAAGTACTCTGCCT
746522 CTTCAATTAC
Statistics
Matches: 223, Mismatches: 23, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
135 2 0.01
136 101 0.45
137 120 0.54
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (136 bp):
AATTTATTTTTTGATCATAATATTTTTAATTAAATTTTTTTAAATATCAAACAAGATTTCAAACT
TCAATATATAATTTGACCTTTAAACAAGCTTACGAAAGTACTCTGCCTTTGAGTTTTATTTTTAA
TATTTA
Found at i:751819 original size:2 final size:2
Alignment explanation
Indices: 751814--751844 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
751804 TGTGTGCTCA
751814 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
751845 ATATATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:751849 original size:2 final size:2
Alignment explanation
Indices: 751844--751880 Score: 56
Period size: 2 Copynumber: 18.0 Consensus size: 2
751834 TCTCTCTCTC
*
751844 TA TA TA TA TA TA TA TA TA TA TA TA TT TA CTA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
751881 AATAATGCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:753054 original size:2 final size:2
Alignment explanation
Indices: 753047--753087 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
753037 TGCAAACAGC
753047 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
753088 GTTTAAGGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:763848 original size:22 final size:22
Alignment explanation
Indices: 763820--763869 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
763810 GTACATAAAT
* *
763820 ATATAAAATTTTAATATATCAA
1 ATATAAAATTTTAAAAAATCAA
* *
763842 ATATAAATTTTTAAAAAATTAA
1 ATATAAAATTTTAAAAAATCAA
763864 ATATAA
1 ATATAA
763870 CACTCTTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
ATATAAAATTTTAAAAAATCAA
Found at i:765791 original size:11 final size:11
Alignment explanation
Indices: 765772--765825 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
765762 AAATTCGATT
*
765772 ATATTAATATA
1 ATATAAATATA
765783 ATATAAATA-A
1 ATATAAATATA
* *
765793 A-ATAATTAAA
1 ATATAAATATA
*
765803 ATAT-AATTTA
1 ATATAAATATA
765813 ATATAAATATA
1 ATATAAATATA
765824 AT
1 AT
765826 TTTTTTAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
9 6 0.18
10 11 0.32
11 17 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
ATATAAATATA
Found at i:765814 original size:16 final size:16
Alignment explanation
Indices: 765776--765827 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
765766 TCGATTATAT
*
765776 TAATATAATATAAATA
1 TAATTTAATATAAATA
*
765792 -AA-ATAAT-TAAAATA
1 TAATTTAATAT-AAATA
765806 TAATTTAATATAAATA
1 TAATTTAATATAAATA
765822 TAATTT
1 TAATTT
765828 TTTTAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
13 1 0.03
14 10 0.32
15 4 0.13
16 15 0.48
17 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TAATTTAATATAAATA
Found at i:765930 original size:21 final size:19
Alignment explanation
Indices: 765903--765943 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
765893 AATATAATTT
765903 TAAA-ATAAT-AAAATATA
1 TAAATATAATAAAAATATA
765920 TAAATATAATAAAAATATA
1 TAAATATAATAAAAATATA
765939 TAAAT
1 TAAAT
765944 TATTAAACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 4 0.18
18 5 0.23
19 13 0.59
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAATATAATAAAAATATA
Found at i:766160 original size:27 final size:27
Alignment explanation
Indices: 766121--766184 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
766111 AGAATATAAA
766121 ATAAA-TATAAATATA-TAAAATTTATT
1 ATAAATTATAAATATATTAAAATTTA-T
* *
766147 ATAAATTATTAATATATTAATATTTAT
1 ATAAATTATAAATATATTAAAATTTAT
766174 ATAAA-TATAAA
1 ATAAATTATAAA
766185 ATTTTCTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 10 0.30
27 15 0.45
28 8 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
ATAAATTATAAATATATTAAAATTTAT
Found at i:766592 original size:24 final size:24
Alignment explanation
Indices: 766544--766594 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
766534 GATGAATTAT
*
766544 TAAAATTATTAAATTATATAACAA
1 TAAAATTATTAAATAATATAACAA
*
766568 TAAAATTATGTAAATAAT-TATCAA
1 TAAAATTAT-TAAATAATATAACAA
766592 TAA
1 TAA
766595 TACTTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (24 bp):
TAAAATTATTAAATAATATAACAA
Found at i:766663 original size:28 final size:26
Alignment explanation
Indices: 766631--766694 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 26
766621 AAATTTGAGC
* *
766631 TTTTAAAAAAAAGTGAATTTTAAAATAT
1 TTTTAAAAAAAA-TGAAATATAAAAT-T
* *
766659 TTTTAATATAAAATGAAATATATAATT
1 TTTTAA-AAAAAATGAAATATAAAATT
766686 TTTTAAAAA
1 TTTTAAAAA
766695 TTAAAAATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
26 2 0.07
27 7 0.23
28 16 0.53
29 5 0.17
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (26 bp):
TTTTAAAAAAAATGAAATATAAAATT
Found at i:774127 original size:3 final size:3
Alignment explanation
Indices: 774119--774147 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
774109 TATTTACTTC
774119 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
774148 TTGGTAAGTT
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:775959 original size:15 final size:15
Alignment explanation
Indices: 775939--775967 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
775929 TTCAGGGTCT
775939 AAAAGTGTAGAATCA
1 AAAAGTGTAGAATCA
775954 AAAAGTGTAGAATC
1 AAAAGTGTAGAATC
775968 CGGAAATTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.07, G:0.21, T:0.21
Consensus pattern (15 bp):
AAAAGTGTAGAATCA
Found at i:780427 original size:2 final size:2
Alignment explanation
Indices: 780420--780454 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
780410 TTTCAGAACA
780420 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 A
780455 AACGAAAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:783394 original size:11 final size:11
Alignment explanation
Indices: 783380--783497 Score: 66
Period size: 11 Copynumber: 10.6 Consensus size: 11
783370 AAAATTATTA
783380 AAATATAATAT
1 AAATATAATAT
783391 AAATAT-ATCAT
1 AAATATAAT-AT
*
783402 AAA-ATTATAT
1 AAATATAATAT
783412 -AATATAATATT
1 AAATATAATA-T
*
783423 ATTAATATATTA-
1 A--AATATAATAT
* *
783435 AAATTTTATAT
1 AAATATAATAT
* *
783446 AAATTTAAAAT
1 AAATATAATAT
*
783457 ATAAT-TAAAATT
1 A-AATATAATA-T
* *
783469 AAATAAAAAAT
1 AAATATAATAT
783480 AAATATAATAT
1 AAATATAATAT
783491 AAATATA
1 AAATATA
783498 TAAATTATCG
Statistics
Matches: 86, Mismatches: 10, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
9 2 0.02
10 17 0.20
11 49 0.57
12 10 0.12
14 8 0.09
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (11 bp):
AAATATAATAT
Found at i:783430 original size:34 final size:29
Alignment explanation
Indices: 783370--783500 Score: 94
Period size: 32 Copynumber: 4.4 Consensus size: 29
783360 TGATACCTAA
*
783370 AAAATTATTAAAATATAATATAAATATATCAT
1 AAAATTA-TATAATATAATATAAATATAT--T
783402 AAAATTATATAATATAATATTATTAATATATT
1 AAAATTATATAATATAATA-TA--AATATATT
* *
783434 AAAATTTTAT-ATA-AATTTAAAATATAATT
1 AAAATTATATAATATAATAT-AAATAT-ATT
* *
783463 AAAATTAAATAA-A-AA-ATAAATATAAT
1 AAAATTATATAATATAATATAAATATATT
783489 ATAAA-TATATAA
1 A-AAATTATATAA
783501 ATTATCGAGT
Statistics
Matches: 84, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
26 9 0.11
27 9 0.11
28 6 0.07
29 15 0.18
30 5 0.06
31 14 0.17
32 19 0.23
34 7 0.08
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (29 bp):
AAAATTATATAATATAATATAAATATATT
Found at i:783470 original size:17 final size:17
Alignment explanation
Indices: 783417--783471 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
783407 TATATAATAT
783417 AATATTATTAATATATTAA
1 AATATTATTAA-A-ATTAA
* *
783436 AATTTTATATAAATTTAA
1 AATATTAT-TAAAATTAA
*
783454 AATATAATTAAAATTAA
1 AATATTATTAAAATTAA
783471 A
1 A
783472 TAAAAAATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
17 9 0.30
18 10 0.33
19 8 0.27
20 3 0.10
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATATTATTAAAATTAA
Found at i:783691 original size:19 final size:20
Alignment explanation
Indices: 783667--783725 Score: 77
Period size: 19 Copynumber: 3.0 Consensus size: 20
783657 TTTTTTATTA
783667 TTTAAATAATA-TTAAATAT
1 TTTAAATAATATTTAAATAT
*
783686 TTTAAATAATATTTATATAT
1 TTTAAATAATATTTAAATAT
783706 TTTATAATTAA-ATTTAAATA
1 TTTA-AA-TAATATTTAAATA
783726 AATTTTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 11 0.31
20 11 0.31
21 10 0.29
22 3 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTAAATAATATTTAAATAT
Found at i:783692 original size:9 final size:10
Alignment explanation
Indices: 783667--783731 Score: 53
Period size: 11 Copynumber: 6.3 Consensus size: 10
783657 TTTTTTATTA
783667 TTTAAATAAT
1 TTTAAATAAT
*
783677 ATTAAAT-AT
1 TTTAAATAAT
783686 TTTAAATAAT
1 TTTAAATAAT
*
783696 ATTTATAT-AT
1 -TTTAAATAAT
*
783706 TTTATAATTAAA
1 TTTA-AA-TAAT
783718 TTTAAATAAAT
1 TTTAAAT-AAT
783729 TTT
1 TTT
783732 TATTATTAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
9 12 0.28
10 12 0.28
11 14 0.33
12 5 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
TTTAAATAAT
Found at i:784476 original size:6 final size:6
Alignment explanation
Indices: 784465--784497 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
784455 TTATTATCAT
784465 AAAATA AAAAT- AAAATA AAAAT- AAAATA AAAAT
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAAT
784498 TAATTTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:784479 original size:11 final size:11
Alignment explanation
Indices: 784463--784497 Score: 70
Period size: 11 Copynumber: 3.2 Consensus size: 11
784453 AATTATTATC
784463 ATAAAATAAAA
1 ATAAAATAAAA
784474 ATAAAATAAAA
1 ATAAAATAAAA
784485 ATAAAATAAAA
1 ATAAAATAAAA
784496 AT
1 AT
784498 TAATTTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (11 bp):
ATAAAATAAAA
Found at i:785204 original size:24 final size:24
Alignment explanation
Indices: 785120--785210 Score: 60
Period size: 24 Copynumber: 3.5 Consensus size: 24
785110 AAATTTAAAG
*
785120 TTAAAATTTAATTATATAAAAAAT-A
1 TTAAAATATAA-TAT-TAAAAAATAA
* *
785145 TATAAAATATAAGATAAATTAAGACATAA
1 T-TAAAATAT-A-AT--ATTAAAAAATAA
785174 -TATAAATATAATATTAAAAAATAA
1 TTA-AAATATAATATTAAAAAATAA
*
785198 TTAAAATGTAATA
1 TTAAAATATAATA
785211 CAACATAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 17
0.69 0.08 0.23
Matches are distributed among these distances:
24 19 0.37
25 3 0.06
26 9 0.17
27 5 0.10
28 13 0.25
29 3 0.06
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (24 bp):
TTAAAATATAATATTAAAAAATAA
Found at i:785594 original size:22 final size:24
Alignment explanation
Indices: 785555--785601 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
785545 ACATGACATG
*
785555 AACACGATATAAAAAATAAT-TAA
1 AACACGACATAAAAAATAATATAA
785578 AACACGACAT-AAAAATAATATAA
1 AACACGACATAAAAAATAATATAA
785601 A
1 A
785602 TATGATACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.66, C:0.11, G:0.04, T:0.19
Consensus pattern (24 bp):
AACACGACATAAAAAATAATATAA
Found at i:785882 original size:18 final size:16
Alignment explanation
Indices: 785851--785892 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
785841 AAAATATAGC
*
785851 ATAAATTAAGATATAAT
1 ATAAATTAACATAT-AT
785868 ATAAACTTAACATATAT
1 ATAAA-TTAACATATAT
785885 AT-AATTAA
1 ATAAATTAA
785893 AACACAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 4 0.17
16 2 0.09
17 9 0.39
18 8 0.35
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (16 bp):
ATAAATTAACATATAT
Found at i:786197 original size:12 final size:12
Alignment explanation
Indices: 786180--786219 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
786170 TTTGTCTCTC
786180 TTTTTCTTTCTT
1 TTTTTCTTTCTT
786192 TTTTTCTTTCTT
1 TTTTTCTTTCTT
*
786204 TCTTTT-TCTCTT
1 T-TTTTCTTTCTT
786216 TTTT
1 TTTT
786220 CCTTCCTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 3 0.12
12 19 0.73
13 4 0.15
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTCTTTCTT
Found at i:786199 original size:8 final size:8
Alignment explanation
Indices: 786181--786219 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
786171 TTGTCTCTCT
786181 TTTTCTTTC
1 TTTT-TTTC
786190 TTTTTTTC
1 TTTTTTTC
*
786198 TTTCTTTC
1 TTTTTTTC
*
786206 TTTTTCTC
1 TTTTTTTC
786214 TTTTTT
1 TTTTTT
786220 CCTTCCTTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
8 22 0.85
9 4 0.15
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTTTC
Found at i:786201 original size:16 final size:16
Alignment explanation
Indices: 786182--786220 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
786172 TGTCTCTCTT
*
786182 TTTCTTTCTTTTTTTC
1 TTTCTTTCTTTTTCTC
786198 TTTCTTTCTTTTTCTC
1 TTTCTTTCTTTTTCTC
786214 TTT-TTTC
1 TTTCTTTC
786221 CTTCCTTCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTCTTTCTTTTTCTC
Found at i:786783 original size:6 final size:6
Alignment explanation
Indices: 786772--786823 Score: 50
Period size: 6 Copynumber: 7.8 Consensus size: 6
786762 AAAAAATTAT
*
786772 ATATAA ATATAA TATTTTAA ATATAAAA ATATAAA ATATAA ATATAA ATATA
1 ATATAA ATATAA -A-TATAA ATAT--AA ATAT-AA ATATAA ATATAA ATATA
786824 TAAAAAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
6 21 0.52
7 9 0.22
8 10 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
ATATAA
Found at i:786801 original size:8 final size:8
Alignment explanation
Indices: 786790--786829 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
786780 ATAATATTTT
786790 AAATATAA
1 AAATATAA
786798 AAATAT-A
1 AAATATAA
786805 AAATAT--
1 AAATATAA
786811 AAATATAA
1 AAATATAA
*
786819 ATATATAA
1 AAATATAA
786827 AAA
1 AAA
786830 AAATTTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 6 0.21
7 7 0.25
8 15 0.54
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (8 bp):
AAATATAA
Found at i:786806 original size:14 final size:14
Alignment explanation
Indices: 786772--786828 Score: 62
Period size: 14 Copynumber: 4.1 Consensus size: 14
786762 AAAAAATTAT
*
786772 ATATAAATATAATA
1 ATATAAATATAAAA
* *
786786 TTTTAAATATAAAA
1 ATATAAATATAAAA
*
786800 ATATAAA-ATATAA
1 ATATAAATATAAAA
786813 ATATAAATATATAAA
1 ATATAAATATA-AAA
786828 A
1 A
786829 AAAATTTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
13 12 0.35
14 19 0.56
15 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
ATATAAATATAAAA
Found at i:786822 original size:19 final size:19
Alignment explanation
Indices: 786716--786823 Score: 62
Period size: 19 Copynumber: 5.6 Consensus size: 19
786706 ACATGAATAC
* *
786716 ATATATATATAAAACTATAT
1 ATATAAATATAAAA-TATAA
* *
786736 ATAATAAA-ATAAACTATTA
1 AT-ATAAATATAAAATATAA
* *
786755 ATATGTAA-A-AAAAT-TAT
1 ATAT-AAATATAAAATATAA
* *
786772 ATATAAATATAATATTTTAA
1 ATATAAATATAA-AATATAA
786792 ATATAAAAATATAAAATATAA
1 ATAT--AAATATAAAATATAA
786813 ATATAAATATA
1 ATATAAATATA
786824 TAAAAAAAAT
Statistics
Matches: 67, Mismatches: 13, Indels: 17
0.69 0.13 0.18
Matches are distributed among these distances:
16 2 0.03
17 6 0.09
18 8 0.12
19 17 0.25
20 13 0.19
21 13 0.19
22 8 0.12
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.36
Consensus pattern (19 bp):
ATATAAATATAAAATATAA
Found at i:788808 original size:2 final size:2
Alignment explanation
Indices: 788801--788835 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
788791 TAGTCTAACT
788801 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
788836 TTCTACTCCG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:788956 original size:28 final size:28
Alignment explanation
Indices: 788925--788988 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
788915 AATTAAATTA
*
788925 ATTTAAA-TTATTATTTAATAATAAAAAT
1 ATTTAAATTTAAT-TTTAATAATAAAAAT
** *
788953 ATTTTTATTTAATTTTAATTATAAAAAT
1 ATTTAAATTTAATTTTAATAATAAAAAT
*
788981 ATATAAAT
1 ATTTAAAT
788989 ATATAAATGA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
28 24 0.86
29 4 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (28 bp):
ATTTAAATTTAATTTTAATAATAAAAAT
Found at i:789155 original size:21 final size:21
Alignment explanation
Indices: 789131--789176 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
789121 TCTGATTAGT
*
789131 TTAATTTATTTAAATTAAAAA
1 TTAATTTAATTAAATTAAAAA
* *
789152 TTAATTTAATTAAATTTAATA
1 TTAATTTAATTAAATTAAAAA
789173 TTAA
1 TTAA
789177 AATCGATCGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAATTTAATTAAATTAAAAA
Found at i:789159 original size:26 final size:28
Alignment explanation
Indices: 789125--789178 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
789115 AAATAGTCTG
* *
789125 ATTAGTTTAATT-TATTTAA-ATTAAAA
1 ATTAATTTAATTAAATTTAATATTAAAA
789151 ATTAATTTAATTAAATTTAATATTAAAA
1 ATTAATTTAATTAAATTTAATATTAAAA
789179 TCGATCGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 11 0.46
27 6 0.25
28 7 0.29
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (28 bp):
ATTAATTTAATTAAATTTAATATTAAAA
Found at i:789164 original size:16 final size:17
Alignment explanation
Indices: 789133--789165 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
789123 TGATTAGTTT
*
789133 AATTTATTTAAATTAAA
1 AATTAATTTAAATTAAA
789150 AATTAATTT-AATTAAA
1 AATTAATTTAAATTAAA
789166 TTTAATATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTAATTTAAATTAAA
Found at i:789293 original size:5 final size:5
Alignment explanation
Indices: 789283--789315 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
789273 ATTTTAAATA
789283 TTAAT TTAA- TTAAT TTAA- TTAAT TTAAT TTAAT
1 TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT
789316 ATTTTAACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 8 0.31
5 18 0.69
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TTAAT
Found at i:789294 original size:9 final size:9
Alignment explanation
Indices: 789282--789311 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
789272 TATTTTAAAT
789282 ATTAATTTA
1 ATTAATTTA
789291 ATTAATTTA
1 ATTAATTTA
789300 ATTAATTTA
1 ATTAATTTA
789309 ATT
1 ATT
789312 TAATATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
ATTAATTTA
Found at i:789347 original size:30 final size:33
Alignment explanation
Indices: 789299--789379 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 33
789289 TAATTAATTT
*
789299 AATTAATTTAATTTAATATTTT-AA-C-ATCAAA
1 AATTAA-TTAAATTAATATTTTAAATCGATCAAA
789330 AATTAATTAAATTAATATTTTAAATCGATCAAA
1 AATTAATTAAATTAATATTTTAAATCGATCAAA
*
789363 ATTTAAATTAAATTAAT
1 AATT-AATTAAATTAAT
789380 TGAATTAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
30 14 0.32
31 8 0.18
32 1 0.02
33 9 0.20
34 12 0.27
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (33 bp):
AATTAATTAAATTAATATTTTAAATCGATCAAA
Found at i:789385 original size:9 final size:9
Alignment explanation
Indices: 789368--789425 Score: 55
Period size: 9 Copynumber: 6.4 Consensus size: 9
789358 TCAAAATTTA
789368 AATTAAATT
1 AATTAAATT
*
789377 AATTGAATT
1 AATTAAATT
789386 AATTAAATT
1 AATTAAATT
*
789395 AAATTTAATT
1 -AATTAAATT
* **
789405 ACTT-TTTT
1 AATTAAATT
789413 AATTAAATT
1 AATTAAATT
789422 AATT
1 AATT
789426 TTAACTGAGT
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
8 5 0.13
9 25 0.66
10 8 0.21
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (9 bp):
AATTAAATT
Found at i:789423 original size:5 final size:5
Alignment explanation
Indices: 789365--789405 Score: 50
Period size: 5 Copynumber: 8.6 Consensus size: 5
789355 CGATCAAAAT
* *
789365 TTAAA TTAAA TT-AA TTGAA TT-AA TTAAA TTAAA TTTAA TTA
1 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTA
789406 CTTTTTTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 8 0.25
5 24 0.75
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (5 bp):
TTAAA
Found at i:789438 original size:27 final size:27
Alignment explanation
Indices: 789384--789438 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
789374 ATTAATTGAA
* *
789384 TTAATTAAATTAAATTTAATTACTTTT
1 TTAATTAAATTAAATTTAATGACGTTT
*
789411 TTAATTAAATTAATTTTAACTGA-GTTT
1 TTAATTAAATTAAATTTAA-TGACGTTT
789438 T
1 T
789439 ACGTTTTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 22 0.92
28 2 0.08
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (27 bp):
TTAATTAAATTAAATTTAATGACGTTT
Found at i:790234 original size:148 final size:148
Alignment explanation
Indices: 789962--790253 Score: 487
Period size: 148 Copynumber: 2.0 Consensus size: 148
789952 AATTGGCAAT
*
789962 TTTTCACTTAAATTTCAAAATTAATACATTAAAAAAAGCTTTTTACAAAATCTATTTCAAGAAAT
1 TTTTCACTTAAATTTCAAAATTAATACATTAAAAAAAGCTTTTCACAAAATCTATTTCAAGAAAT
* *
790027 AAAAACAAAAATATTAATATTCTAATAATTTTATCCAAAATCTTATTTATTATTACACTTATAAT
66 AAAAACAAAAATATTAATATTCTAATAATTTTACCCAAAATCTTACTTATTATTACACTTATAAT
790092 TATAAAGTGGGTATTAGA
131 TATAAAGTGGGTATTAGA
* *
790110 TTTTCACTTAAATTTCAAAATTAATACATTTAAAAAATGCTTTTCACAAAATCTATTTTAAGAAA
1 TTTTCACTTAAATTTCAAAATTAATACA-TTAAAAAAAGCTTTTCACAAAATCTATTTCAAGAAA
* * * *
790175 TAAAGA-TAAAATATTAATATTCTAATAATTTTGCCCAAAATCTTACTTATTATTTCACTTATAA
65 TAAAAACAAAAATATTAATATTCTAATAATTTTACCCAAAATCTTACTTATTATTACACTTATAA
790239 TTATAAAGTGGGTAT
130 TTATAAAGTGGGTAT
790254 CAAAGAAATT
Statistics
Matches: 134, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
148 96 0.72
149 38 0.28
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.40
Consensus pattern (148 bp):
TTTTCACTTAAATTTCAAAATTAATACATTAAAAAAAGCTTTTCACAAAATCTATTTCAAGAAAT
AAAAACAAAAATATTAATATTCTAATAATTTTACCCAAAATCTTACTTATTATTACACTTATAAT
TATAAAGTGGGTATTAGA
Found at i:793058 original size:2 final size:2
Alignment explanation
Indices: 793051--793080 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
793041 CTGTCTCACA
793051 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
793081 TTCCTTTGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:793540 original size:12 final size:14
Alignment explanation
Indices: 793511--793539 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
793501 TCAAAATGTC
793511 TTTAGTTACATTTT
1 TTTAGTTACATTTT
793525 TTTAGTTA-ATTTT
1 TTTAGTTACATTTT
793538 TT
1 TT
793540 ATTGATGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.21, C:0.03, G:0.07, T:0.69
Consensus pattern (14 bp):
TTTAGTTACATTTT
Found at i:794308 original size:11 final size:12
Alignment explanation
Indices: 794280--794307 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
794270 AATCTAAATT
794280 AAAAAGTAATAA
1 AAAAAGTAATAA
794292 AAAAAGTAATAA
1 AAAAAGTAATAA
794304 AAAA
1 AAAA
794308 GAGCTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (12 bp):
AAAAAGTAATAA
Found at i:794405 original size:15 final size:15
Alignment explanation
Indices: 794375--794405 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
794365 TTTAAATTTT
*
794375 TATTTTTTAAATATA
1 TATTTTTTAAAAATA
794390 TATTTTTTAAAAATA
1 TATTTTTTAAAAATA
794405 T
1 T
794406 TTAGATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTTTTTAAAAATA
Found at i:795020 original size:12 final size:12
Alignment explanation
Indices: 795005--795080 Score: 50
Period size: 12 Copynumber: 6.2 Consensus size: 12
794995 ATATGTATAA
795005 ATATTAAAATAT
1 ATATTAAAATAT
*
795017 ATATTATAATAT
1 ATATTAAAATAT
* *
795029 -TAGTTTATATAT
1 ATA-TTAAAATAT
*
795041 GAT-TTTAAATAAT
1 -ATATTAAAAT-AT
*
795054 ATATAAAATATAT
1 ATATTAAA-ATAT
795067 ATATTAAAA-AT
1 ATATTAAAATAT
795078 ATA
1 ATA
795081 AAAGAGATAA
Statistics
Matches: 50, Mismatches: 8, Indels: 13
0.70 0.11 0.18
Matches are distributed among these distances:
11 7 0.14
12 26 0.52
13 14 0.28
14 3 0.06
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (12 bp):
ATATTAAAATAT
Found at i:798911 original size:14 final size:15
Alignment explanation
Indices: 798892--798922 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
798882 GGTTTGAATA
798892 TTTATT-ATTATTTT
1 TTTATTCATTATTTT
798906 TTTATTCATTATTTT
1 TTTATTCATTATTTT
798921 TT
1 TT
798923 AATACACACG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTATTCATTATTTT
Found at i:799665 original size:8 final size:8
Alignment explanation
Indices: 799648--799689 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
799638 TTTATATAAA
*
799648 ATATAAAT
1 ATATATAT
799656 ATATATAT
1 ATATATAT
799664 ATATATAT
1 ATATATAT
*
799672 GTATATAT
1 ATATATAT
*
799680 ATATGTAT
1 ATATATAT
799688 AT
1 AT
799690 TATTTTGGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (8 bp):
ATATATAT
Found at i:799671 original size:6 final size:6
Alignment explanation
Indices: 799648--799689 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
799638 TTTATATAAA
* * *
799648 ATATAA ATATAT ATATAT ATATAT GTATAT ATATAT GTATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
799690 TATTTTGGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (6 bp):
ATATAT
Found at i:800256 original size:2 final size:2
Alignment explanation
Indices: 800249--800283 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
800239 TATCACATAA
* *
800249 AT AT AT AT AC AT AT AT AT AT AT AT AC AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
800284 ATAAATATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:800543 original size:14 final size:14
Alignment explanation
Indices: 800524--800560 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
800514 AAGATATAAT
*
800524 TTTATTTTTTAAAA
1 TTTATTTTTCAAAA
800538 TTTATTTTTCAAAA
1 TTTATTTTTCAAAA
*
800552 TTAATTTTT
1 TTTATTTTT
800561 ATGAAACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTATTTTTCAAAA
Found at i:801255 original size:206 final size:206
Alignment explanation
Indices: 800887--802347 Score: 1985
Period size: 206 Copynumber: 7.0 Consensus size: 206
800877 CATAGTTAAA
* * * * * *
800887 AATATATCCGAAATAATAATTCAAATCTAAGATTCTTACTTACTACATGAACATATTCTCTTGAC
1 AATATGTCCGAAACAATAATTTAAATCTAAGATTCTTGCTTACTGCATGAACATATTCTTTTGAC
* * * * *
800952 ATTTAAAAAGAGGTTAGGCTTAAAGTAAATCACTCTTTCGTATTGTACGTTGGATTAGGAATCAA
66 GTTTGAAAAGAGGTGAGGCTTAAAGTAAACCACTCTTTCGTATTGTACGTTGGATTGGGAATCAA
** * *
801017 ACATTACTACGACCAATGGTTGCTTCAACCCTTTGTTAAATATTCGTGTTTAATTTTTATGTCTA
131 ACACCACTACGGCCAATGGTCGCTTCAACCCTTTGTTAAATATTCGTGTTTAATTTTTATGTCTA
*
801082 ATATATTTATG
196 ATATATTTTTG
* * * *
801093 AATATGTTCGAAACAATAATTTAAATCTAAGATTCTTGTTTACTGTATGAACATATTCTTTTGGC
1 AATATGTCCGAAACAATAATTTAAATCTAAGATTCTTGCTTACTGCATGAACATATTCTTTTGAC
** * * * *
801158 GTTTGAAAAGAGACGAGGCTTAAAGTAAATCGCTCTTTCGTATTGTCCGTTAGATTGGGAATCAA
66 GTTTGAAAAGAGGTGAGGCTTAAAGTAAACCACTCTTTCGTATTGTACGTTGGATTGGGAATCAA
* * *
801223 ACACCACTACGGCCTATGGTCGCTTCAACCCTTTGTTAAATATTCATGTTTAATTTTTATGTTTA
131 ACACCACTACGGCCAATGGTCGCTTCAACCCTTTGTTAAATATTCGTGTTTAATTTTTATGTCTA
*
801288 ATATCTTTTTG
196 ATATATTTTTG
* *
801299 AATATGTTCGAAACAATAATTTAAATCTAAGATTCTTGCTTACTGCATGAACATATTCTTTTTAC
1 AATATGTCCGAAACAATAATTTAAATCTAAGATTCTTGCTTACTGCATGAACATATTCTTTTGAC
*
801364 GTTTGAAAATAGGTGAGGCTTAAAGTAAACCACTCTTTCGTATTGTACGTTGGATTGGGAATCAA
66 GTTTGAAAAGAGGTGAGGCTTAAAGTAAACCACTCTTTCGTATTGTACGTTGGATTGGGAATCAA
*
801429 ACACCACTACGGCCAATGGTCGCTTCAACCCTTTTTTAAATATTCGTGTTTAATTTTTATGTCTA
131 ACACCACTACGGCCAATGGTCGCTTCAACCCTTTGTTAAATATTCGTGTTTAATTTTTATGTCTA
801494 ATATATTTTTG
196 ATATATTTTTG
* * *
801505 AATATGTCCGAAATAATAATTTAAATCTAAGATTCTTGCTTACTACATGAACATATTCTCTTGAC
1 AATATGTCCGAAACAATAATTTAAATCTAAGATTCTTGCTTACTGCATGAACATATTCTTTTGAC
* * *
801570 GTTTGAAAAGAGGTGAAGCTTAAAGTAAACTATTCTTTCGTATTGTACATTGGATTGGGAATCTT
66 GTTTGAAAAGAGGTGAGGCTTAAAGTAAACCACTCTTTCGTATTGTAC----G-TT-GG-A--TT
*
801635 GGATTACGAATCAAACACCACTACAGCCAATGGTCGCTTCAACCCTTTGTTAAATATTCGTGTTT
122 GG-----GAATCAAACACCACTACGGCCAATGGTCGCTTCAACCCTTTGTTAAATATTCGTGTTT
* *
801700 AATTTTTATGTTTAATATATTTTTA
182 AATTTTTATGTCTAATATATTTTTG
* * * * *
801725 AATATATCCGAAACAATAATTTAAATCTAAGATTCTTGCTTATTGCATAAAAATATT-TTCTTGG
1 AATATGTCCGAAACAATAATTTAAATCTAAGATTCTTGCTTACTGCATGAACATATTCTT-TTGA
801789 CGTTTGAAAA-AGGTGAGGCTTAAAGTAAACCACTCTTTCGTATTGTACGTTGGATTGGGAATCA
65 CGTTTGAAAAGAGGTGAGGCTTAAAGTAAACCACTCTTTCGTATTGTACGTTGGATTGGGAATCA
* * *
801853 AACACCACTACGACCAATGGTTGCTTCAACCCTTTGTTAAATATTCGTATTTAATTTTTATGTCT
130 AACACCACTACGGCCAATGGTCGCTTCAACCCTTTGTTAAATATTCGTGTTTAATTTTTATGTCT
*
801918 AATATATTTTTA
195 AATATATTTTTG
* * * *
801930 AATATGTCCGAAATAATAATTTAAATCTAAGATTCTTACTTACTACTATGAACATATTCTCTTGA
1 AATATGTCCGAAACAATAATTTAAATCTAAGATTCTTGCTTACTGC-ATGAACATATTCTTTTGA
* *
801995 CGTTTGAAAAGAGGTGAGGTTTAAAGTAAATCACTCTTTCGTATTGTACGTTGGATTGGGAATCA
65 CGTTTGAAAAGAGGTGAGGCTTAAAGTAAACCACTCTTTCGTATTGTACGTTGGATTGGGAATCA
* * *
802060 AACACCACTACGGTCAATAGTTGCTTCAACCCTTTGTTAAATATTCGTGTTTAATTTTTATGTCT
130 AACACCACTACGGCCAATGGTCGCTTCAACCCTTTGTTAAATATTCGTGTTTAATTTTTATGTCT
802125 AATATATTTTTG
195 AATATATTTTTG
* * * * *
802137 AATATAT-CTAAATCAATAATTTAAATCTAAGATTCTTGCTTATTGCATAAATATATT-TTCTTG
1 AATATGTCCGAAA-CAATAATTTAAATCTAAGATTCTTGCTTACTGCATGAACATATTCTT-TTG
* * ** * * * * *
802200 AGGTTTGAAAAAAAATGAGACTTAAAGTAAACCACTCTTTTGTATTGTACATTAGATTGAGAATC
64 ACGTTTGAAAAGAGGTGAGGCTTAAAGTAAACCACTCTTTCGTATTGTACGTTGGATTGGGAATC
** * * * *
802265 AAACACCACTACAACCAATGATCGCTTCAATCTTTTGTTAAATATTCGTATTTAATTTTTATGTC
129 AAACACCACTACGGCCAATGGTCGCTTCAACCCTTTGTTAAATATTCGTGTTTAATTTTTATGTC
* *
802330 TAACATATTTTTA
194 TAATATATTTTTG
802343 AATAT
1 AATAT
802348 AAATATAAAA
Statistics
Matches: 1115, Mismatches: 120, Indels: 40
0.87 0.09 0.03
Matches are distributed among these distances:
205 120 0.11
206 636 0.57
207 160 0.14
210 5 0.00
211 2 0.00
212 3 0.00
213 3 0.00
214 2 0.00
215 5 0.00
219 36 0.03
220 143 0.13
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (206 bp):
AATATGTCCGAAACAATAATTTAAATCTAAGATTCTTGCTTACTGCATGAACATATTCTTTTGAC
GTTTGAAAAGAGGTGAGGCTTAAAGTAAACCACTCTTTCGTATTGTACGTTGGATTGGGAATCAA
ACACCACTACGGCCAATGGTCGCTTCAACCCTTTGTTAAATATTCGTGTTTAATTTTTATGTCTA
ATATATTTTTG
Found at i:802088 original size:632 final size:622
Alignment explanation
Indices: 800887--802348 Score: 2072
Period size: 632 Copynumber: 2.3 Consensus size: 622
800877 CATAGTTAAA
* *
800887 AATATATCCGAAATAATAATTCAAATCTAAGATTCTTACTTACTACATGAACATATTCTCTTGAC
1 AATATATCCGAAATAATAATTTAAATCTAAGATTCTTGCTTACTACATGAACATATTCTCTTGAC
* * * *
800952 ATTTAAAAAGAGGTTAGGCTTAAAGTAAA-TCACTCTTTCGTATTGTAC----G-TTGGATTAGG
66 GTTTGAAAAGAGGTGAAGCTTAAAGTAAACT-ACTCTTTCGTATTGTACATTAGATTGGATTA-G
** *
801011 AATCAAACATTACTAC-GACCAATGGTTGCTTCAACCCTTTGTTAAATATTCGTGTTTAATTTTT
129 AATCAAACACCACTACAG-CCAATGGTCGCTTCAACCCTTTGTTAAATATTCGTGTTTAATTTTT
* * * * * *
801075 ATGTCTAATATATTTATGAATATGTTCGAAACAATAATTTAAATCTAAGATTCTTGTTTACTGTA
193 ATGTCTAATATATTTTTAAATATATCCGAAACAATAATTTAAATCTAAGATTCTTGCTTACTGCA
* * * * *
801140 TGAACATATTCTTTTGGCGTTTGAAAAGAGACGAGGCTTAAAGTAAATCGCTCTTTCGTATTGTC
258 TAAAAATATTCTTTTGGCGTTTGAAAAGAGACGAGGCTTAAAGTAAACCACTCTTTCGTATTGTA
* *
801205 CGTTAGATTGGGAATCAAACACCACTACGGCCTATGGTCGCTTCAACCCTTTGTTAAATATTCAT
323 CGTTAGATTGGGAATCAAACACCACTACGACCAATGGTCGCTTCAACCCTTTGTTAAATATTCAT
* * * * *
801270 GTTTAATTTTTATGTTTAATATCTTTTTGAATATGTTCGAAACAATAATTTAAATCTAAGATTCT
388 ATTTAATTTTTATGTCTAATATATTTTTAAATATGTCCGAAACAATAATTTAAATCTAAGATTCT
* * * * *
801335 TGCTTACTGCATGAACATATTCTTTTTACGTTTGAAAATAGGTGAGGCTTAAAGTAAACCACTCT
453 TACTTACTACATGAACATATTCTCTTGACGTTTGAAAAGAGGTGAGGCTTAAAGTAAACCACTCT
* *
801400 TTCGTATTGTACGTTGGATTGGGAATCAAACACCACTACGGCCAATGGTCGCTTCAACCCTTTTT
518 TTCGTATTGTACGTTGGATTGGGAATCAAACACCACTACGGCCAATAGTCGCTTCAACCCTTTGT
801465 TAAATATTCGTGTTTAATTTTTATGTCTAATATATTTTTG
583 TAAATATTCGTGTTTAATTTTTATGTCTAATATATTTTTG
*
801505 AATATGTCCGAAATAATAATTTAAATCTAAGATTCTTGCTTACTACATGAACATATTCTCTTGAC
1 AATATATCCGAAATAATAATTTAAATCTAAGATTCTTGCTTACTACATGAACATATTCTCTTGAC
*
801570 GTTTGAAAAGAGGTGAAGCTTAAAGTAAACTATTCTTTCGTATTGTACATTGGATTGGGAATCTT
66 GTTTGAAAAGAGGTGAAGCTTAAAGTAAACTACTCTTTCGTATTGTACATT--A----G-A--TT
801635 GGATTACGAATCAAACACCACTACAGCCAATGGTCGCTTCAACCCTTTGTTAAATATTCGTGTTT
122 GGATTA-GAATCAAACACCACTACAGCCAATGGTCGCTTCAACCCTTTGTTAAATATTCGTGTTT
*
801700 AATTTTTATGTTTAATATATTTTTAAATATATCCGAAACAATAATTTAAATCTAAGATTCTTGCT
186 AATTTTTATGTCTAATATATTTTTAAATATATCCGAAACAATAATTTAAATCTAAGATTCTTGCT
* **
801765 TATTGCATAAAAATATT-TTCTTGGCGTTTGAAAA-AGGTGAGGCTTAAAGTAAACCACTCTTTC
251 TACTGCATAAAAATATTCTT-TTGGCGTTTGAAAAGAGACGAGGCTTAAAGTAAACCACTCTTTC
* *
801828 GTATTGTACGTTGGATTGGGAATCAAACACCACTACGACCAATGGTTGCTTCAACCCTTTGTTAA
315 GTATTGTACGTTAGATTGGGAATCAAACACCACTACGACCAATGGTCGCTTCAACCCTTTGTTAA
* *
801893 ATATTCGTATTTAATTTTTATGTCTAATATATTTTTAAATATGTCCGAAATAATAATTTAAATCT
380 ATATTCATATTTAATTTTTATGTCTAATATATTTTTAAATATGTCCGAAACAATAATTTAAATCT
*
801958 AAGATTCTTACTTACTACTATGAACATATTCTCTTGACGTTTGAAAAGAGGTGAGGTTTAAAGTA
445 AAGATTCTTACTTACTAC-ATGAACATATTCTCTTGACGTTTGAAAAGAGGTGAGGCTTAAAGTA
* * *
802023 AATCACTCTTTCGTATTGTACGTTGGATTGGGAATCAAACACCACTACGGTCAATAGTTGCTTCA
509 AACCACTCTTTCGTATTGTACGTTGGATTGGGAATCAAACACCACTACGGCCAATAGTCGCTTCA
802088 ACCCTTTGTTAAATATTCGTGTTTAATTTTTATGTCTAATATATTTTTG
574 ACCCTTTGTTAAATATTCGTGTTTAATTTTTATGTCTAATATATTTTTG
* * * * * *
802137 AATATAT-CTAAATCAATAATTTAAATCTAAGATTCTTGCTTATTGCATAAATATATTTTCTTGA
1 AATATATCCGAAAT-AATAATTTAAATCTAAGATTCTTGCTTACTACATGAACATATTCTCTTGA
* * ** * *
802201 GGTTTGAAAAAAAATG-AGACTTAAAGTAAACCACTCTTTTGTATTGTACATTAGATT-G---AG
65 CGTTTGAAAAGAGGTGAAG-CTTAAAGTAAACTACTCTTTCGTATTGTACATTAGATTGGATTAG
* * * * *
802261 AATCAAACACCACTACAACCAATGATCGCTTCAATCTTTTGTTAAATATTCGTATTTAATTTTTA
129 AATCAAACACCACTACAGCCAATGGTCGCTTCAACCCTTTGTTAAATATTCGTGTTTAATTTTTA
*
802326 TGTCTAACATATTTTTAAATATA
194 TGTCTAATATATTTTTAAATATA
802349 AATATAAAAA
Statistics
Matches: 754, Mismatches: 70, Indels: 40
0.87 0.08 0.05
Matches are distributed among these distances:
618 185 0.25
619 2 0.00
622 1 0.00
623 2 0.00
625 1 0.00
626 1 0.00
628 1 0.00
630 1 0.00
631 168 0.22
632 391 0.52
633 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (622 bp):
AATATATCCGAAATAATAATTTAAATCTAAGATTCTTGCTTACTACATGAACATATTCTCTTGAC
GTTTGAAAAGAGGTGAAGCTTAAAGTAAACTACTCTTTCGTATTGTACATTAGATTGGATTAGAA
TCAAACACCACTACAGCCAATGGTCGCTTCAACCCTTTGTTAAATATTCGTGTTTAATTTTTATG
TCTAATATATTTTTAAATATATCCGAAACAATAATTTAAATCTAAGATTCTTGCTTACTGCATAA
AAATATTCTTTTGGCGTTTGAAAAGAGACGAGGCTTAAAGTAAACCACTCTTTCGTATTGTACGT
TAGATTGGGAATCAAACACCACTACGACCAATGGTCGCTTCAACCCTTTGTTAAATATTCATATT
TAATTTTTATGTCTAATATATTTTTAAATATGTCCGAAACAATAATTTAAATCTAAGATTCTTAC
TTACTACATGAACATATTCTCTTGACGTTTGAAAAGAGGTGAGGCTTAAAGTAAACCACTCTTTC
GTATTGTACGTTGGATTGGGAATCAAACACCACTACGGCCAATAGTCGCTTCAACCCTTTGTTAA
ATATTCGTGTTTAATTTTTATGTCTAATATATTTTTG
Found at i:807030 original size:19 final size:20
Alignment explanation
Indices: 807006--807048 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
806996 CAAATTACTT
*
807006 AAAAAT-ATATTTTTCTTAA
1 AAAAATAATATTTTACTTAA
807025 AAAAATAATATTTTACTTAA
1 AAAAATAATATTTTACTTAA
807045 AAAA
1 AAAA
807049 CTATTTACCC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAATAATATTTTACTTAA
Found at i:807054 original size:17 final size:17
Alignment explanation
Indices: 807000--807047 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 17
806990 TTTTAACAAA
807000 TTACTTAAAAATATATT
1 TTACTTAAAAATATATT
*
807017 TTTCTTAAAAAAATAATATT
1 TTACTT--AAAAAT-ATATT
807037 TTACTTAAAAA
1 TTACTTAAAAA
807048 ACTATTTACC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 5 0.19
18 5 0.19
19 6 0.23
20 10 0.38
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (17 bp):
TTACTTAAAAATATATT
Found at i:807569 original size:16 final size:16
Alignment explanation
Indices: 807544--807601 Score: 62
Period size: 16 Copynumber: 3.5 Consensus size: 16
807534 TTTTTAAAAA
*
807544 TTATATTTTATATTTTT
1 TTATA-TTTATATTATT
* *
807561 TTATATTTAAATTAAT
1 TTATATTTATATTATT
*
807577 TTATTTTTATATGTATT
1 TTATATTTATAT-TATT
807594 TTATATTT
1 TTATATTT
807602 CACAAGTTTG
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
16 18 0.55
17 15 0.45
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
TTATATTTATATTATT
Found at i:808086 original size:32 final size:32
Alignment explanation
Indices: 808050--808110 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
808040 CGAAACCTAT
*
808050 AATAACTTAAATATTAAAA-TATTTGAATTCGA
1 AATAACTTAAAT-TTAAAATTATTTAAATTCGA
*
808082 AATAATTTAAATTTAAAATTATTTAAATT
1 AATAACTTAAATTTAAAATTATTTAAATT
808111 TAAAATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 6 0.23
32 20 0.77
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (32 bp):
AATAACTTAAATTTAAAATTATTTAAATTCGA
Found at i:808094 original size:16 final size:15
Alignment explanation
Indices: 808065--808122 Score: 62
Period size: 16 Copynumber: 3.7 Consensus size: 15
808055 CTTAAATATT
*
808065 AAAATATTTGAATTC
1 AAAATATTTAAATTC
* *
808080 GAAATAATTTAAATTT
1 AAAAT-ATTTAAATTC
*
808096 AAAATTATTTAAATTT
1 AAAA-TATTTAAATTC
808112 AAAATATTTAA
1 AAAATATTTAA
808123 GTCTACCCGT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
15 11 0.30
16 25 0.68
17 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (15 bp):
AAAATATTTAAATTC
Found at i:808121 original size:31 final size:32
Alignment explanation
Indices: 808050--808122 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
808040 CGAAACCTAT
* * *
808050 AATAACTTAAATATTAAAATATTTGAATTCGA
1 AATAATTTAAATATTAAAATATTTAAATTCAA
*
808082 AATAATTTAAAT-TTAAAATTATTTAAATTTAA
1 AATAATTTAAATATTAAAA-TATTTAAATTCAA
808114 AAT-ATTTAA
1 AATAATTTAA
808123 GTCTACCCGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 12 0.33
32 24 0.67
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (32 bp):
AATAATTTAAATATTAAAATATTTAAATTCAA
Found at i:814993 original size:10 final size:10
Alignment explanation
Indices: 814966--814996 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
814956 TCAACTTCAA
814966 TATTAATTTT
1 TATTAATTTT
814976 TATCTAATTTT
1 TAT-TAATTTT
814987 TATTAATTTT
1 TATTAATTTT
814997 AAATTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (10 bp):
TATTAATTTT
Found at i:816087 original size:17 final size:18
Alignment explanation
Indices: 816059--816112 Score: 58
Period size: 17 Copynumber: 3.0 Consensus size: 18
816049 ATCTATCTTG
*
816059 TTTATGATTTATATGAT-T
1 TTTATAATTTATAT-ATAT
*
816077 TTTAT-ATTTATGTATAT
1 TTTATAATTTATATATAT
816094 TTTATAATTTATATTATAT
1 TTTATAATTTATA-TATAT
816113 AAAGAATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 2 0.06
17 13 0.42
18 11 0.35
19 5 0.16
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (18 bp):
TTTATAATTTATATATAT
Found at i:816150 original size:22 final size:23
Alignment explanation
Indices: 816102--816150 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
816092 ATTTTATAAT
816102 TTATATTATATAAAGAATAAATA
1 TTATATTATATAAAGAATAAATA
*
816125 -TATATTAT-TATAGTAA-AAATA
1 TTATATTATATAAAG-AATAAATA
816146 TTATA
1 TTATA
816151 AAATATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (23 bp):
TTATATTATATAAAGAATAAATA
Found at i:816228 original size:16 final size:15
Alignment explanation
Indices: 816207--816240 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
816197 TTAAATTATT
816207 AAATATTAATTTAAAA
1 AAATATT-ATTTAAAA
*
816223 AAATATTTTTTAAAA
1 AAATATTATTTAAAA
816238 AAA
1 AAA
816241 AAATGTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATATTATTTAAAA
Found at i:816931 original size:26 final size:25
Alignment explanation
Indices: 816891--816940 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
816881 TTTTTATTAA
** *
816891 TTTTAAATTTTTATAACATATTTTAT
1 TTTTAAATTAATATAA-AAATTTTAT
816917 TTTTAAATTAATATAAAAATTTTA
1 TTTTAAATTAATATAAAAATTTTA
816941 AAAATATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (25 bp):
TTTTAAATTAATATAAAAATTTTAT
Found at i:816939 original size:19 final size:20
Alignment explanation
Indices: 816915--816956 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
816905 AACATATTTT
* *
816915 ATTTTTAAATTAATATAAAA
1 ATTTTAAAAATAATATAAAA
*
816935 ATTTTAAAAATATTATAAAA
1 ATTTTAAAAATAATATAAAA
816955 AT
1 AT
816957 ATTTTTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
ATTTTAAAAATAATATAAAA
Found at i:816955 original size:11 final size:11
Alignment explanation
Indices: 816928--816959 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
816918 TTTAAATTAA
816928 TATAAAAAT-T
1 TATAAAAATAT
816938 T-TAAAAATAT
1 TATAAAAATAT
816948 TATAAAAATAT
1 TATAAAAATAT
816959 T
1 T
816960 TTTTAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 7 0.35
10 3 0.15
11 10 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TATAAAAATAT
Found at i:817461 original size:14 final size:14
Alignment explanation
Indices: 817429--817494 Score: 62
Period size: 14 Copynumber: 4.4 Consensus size: 14
817419 AAAAATAAAA
817429 AATA-ATTAAAATAT
1 AATATATTAAAAT-T
817443 AATATATTAAAATT
1 AATATATTAAAATT
*
817457 TATATAATATAAATTATT
1 AATAT-AT-TAAA--ATT
817475 AATATATTAAAATT
1 AATATATTAAAATT
*
817489 TATATA
1 AATATA
817495 AATATATAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
14 17 0.39
15 10 0.23
16 8 0.18
17 2 0.05
18 7 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AATATATTAAAATT
Found at i:817478 original size:32 final size:31
Alignment explanation
Indices: 817430--817538 Score: 115
Period size: 32 Copynumber: 3.6 Consensus size: 31
817420 AAAATAAAAA
817430 ATAAT-TAAAATATAATATATTAAAATTTAT
1 ATAATATAAAATATAATATATTAAAATTTAT
*
817460 ATAATATAAATTATTAATATATTAAAATTTAT
1 ATAATATAAAATA-TAATATATTAAAATTTAT
* *
817492 ATAA-AT---ATATAATAT-TTTAAATATAATT
1 ATAATATAAAATATAATATATTAAAAT-TTA-T
817520 ATAATATAAAA-ATAATATA
1 ATAATATAAAATATAATATA
817539 AAATATGATA
Statistics
Matches: 66, Mismatches: 4, Indels: 16
0.77 0.05 0.19
Matches are distributed among these distances:
26 6 0.09
27 8 0.12
28 7 0.11
29 2 0.03
30 5 0.08
31 15 0.23
32 23 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (31 bp):
ATAATATAAAATATAATATATTAAAATTTAT
Found at i:817907 original size:39 final size:40
Alignment explanation
Indices: 817863--817995 Score: 103
Period size: 39 Copynumber: 3.6 Consensus size: 40
817853 TGTCATAAAT
** * *
817863 ATGATATGAAC-ATATAAAAT-TTTATTAAATTAAATTATA
1 ATGATAT-AACTATATAAAATATAAAATAAATTAAAATATA
817902 ATGATA-AACTATATAAAATATAAAATAAATTAAAATAT-
1 ATGATATAACTATATAAAATATAAAATAAATTAAAATATA
*
817940 A--ATAT-A-TATATAATATA-AAAAT-AATTAAAATATA
1 ATGATATAACTATATAAAATATAAAATAAATTAAAATATA
*
817974 AT-ATA-AAATA-ATATAAATATAA
1 ATGATATAACTATATA-AAATATAA
817996 TATATACATA
Statistics
Matches: 79, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
33 11 0.14
34 6 0.08
35 17 0.22
36 10 0.13
37 5 0.06
38 10 0.13
39 20 0.25
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (40 bp):
ATGATATAACTATATAAAATATAAAATAAATTAAAATATA
Found at i:817943 original size:5 final size:5
Alignment explanation
Indices: 817935--817999 Score: 67
Period size: 5 Copynumber: 12.2 Consensus size: 5
817925 AATAAATTAA
* * *
817935 AATAT AATAT ATATAT AATAT AAAAAT AATTAA AATAT AATAT AAAAT
1 AATAT AATAT A-ATAT AATAT -AATAT AA-TAT AATAT AATAT AATAT
817983 AATAT AAATAT AATAT A
1 AATAT -AATAT AATAT A
818000 TACATAAACT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
5 33 0.66
6 17 0.34
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (5 bp):
AATAT
Found at i:817943 original size:22 final size:22
Alignment explanation
Indices: 817918--817996 Score: 87
Period size: 21 Copynumber: 3.7 Consensus size: 22
817908 AACTATATAA
817918 AATATAAAATA-AATTAAAATAT
1 AATATAAAATATAATTAAAA-AT
*
817940 AATAT-ATATATAATATAAAAAT
1 AATATAAAATATAAT-TAAAAAT
817962 AAT-TAAAATATAA-TATAAAAT
1 AATATAAAATATAATTA-AAAAT
817983 AATAT-AAATATAAT
1 AATATAAAATATAAT
817997 ATATACATAA
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
20 2 0.04
21 21 0.43
22 21 0.43
23 5 0.10
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
AATATAAAATATAATTAAAAAT
Found at i:817955 original size:33 final size:33
Alignment explanation
Indices: 817888--817995 Score: 123
Period size: 33 Copynumber: 3.2 Consensus size: 33
817878 AAAATTTTAT
* * *
817888 TAAATTAAATTATAATGATAA-ACTATATAAAATA
1 TAAAATAAATTAAAAT-ATAATA-TATATATAATA
817922 TAAAATAAATTAAAATATAATATATATATAATA
1 TAAAATAAATTAAAATATAATATATATATAATA
*
817955 TAAAA-ATAATTAAAATATAATATA-AAATAATA
1 TAAAATA-AATTAAAATATAATATATATATAATA
817987 TAAATATAA
1 TAAA-ATAA
817996 TATATACATA
Statistics
Matches: 66, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
32 12 0.18
33 38 0.58
34 16 0.24
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (33 bp):
TAAAATAAATTAAAATATAATATATATATAATA
Found at i:818006 original size:11 final size:11
Alignment explanation
Indices: 817934--817999 Score: 91
Period size: 11 Copynumber: 6.1 Consensus size: 11
817924 AAATAAATTA
817934 AAATATAATAT
1 AAATATAATAT
*
817945 ATATATAATAT
1 AAATATAATAT
*
817956 AAAAATAAT-T
1 AAATATAATAT
817966 AAAATATAATAT
1 -AAATATAATAT
817978 AAA-ATAATAT
1 AAATATAATAT
817988 AAATATAATAT
1 AAATATAATAT
817999 A
1 A
818000 TACATAAACT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
10 11 0.23
11 36 0.75
12 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AAATATAATAT
Found at i:818013 original size:23 final size:21
Alignment explanation
Indices: 817918--817999 Score: 71
Period size: 22 Copynumber: 3.8 Consensus size: 21
817908 AACTATATAA
817918 AATATAAAATAA-ATTAAAATAT
1 AATATAAAATAATA-T-AAATAT
* *
817940 AATATATATATAATATAAAAAT
1 AATATA-AAATAATATAAATAT
817962 AAT-TAAAATATAATATAAA-AT
1 AATAT-AAA-ATAATATAAATAT
817983 AATATAAATATAATATA
1 AATATAAA-ATAATATA
818000 TACATAAACT
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
21 19 0.37
22 26 0.50
23 6 0.12
24 1 0.02
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
AATATAAAATAATATAAATAT
Found at i:818283 original size:20 final size:20
Alignment explanation
Indices: 818240--818294 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
818230 ATAATAACTC
* * *
818240 ATAAATATGTTAAAATTTTTA
1 ATAAATAT-ATAATATTTTAA
818261 ATAAATATATAATATTTTAA
1 ATAAATATATAATATTTTAA
818281 ATATAAT-TATAATA
1 ATA-AATATATAATA
818295 AAATAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
ATAAATATATAATATTTTAA
Found at i:818292 original size:28 final size:28
Alignment explanation
Indices: 818222--818292 Score: 65
Period size: 28 Copynumber: 2.5 Consensus size: 28
818212 AAAAATAATA
* *
818222 TAAATATAATAATAACTCATAAATATGT
1 TAAATATAATTATAAATCATAAATATGT
** *
818250 TAAA-ATTTTTAATAAAT-ATATAATATTT
1 TAAATATAATT-ATAAATCATA-AATATGT
818278 TAAATATAATTATAA
1 TAAATATAATTATAA
818293 TAAAATAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
27 6 0.18
28 23 0.70
29 4 0.12
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (28 bp):
TAAATATAATTATAAATCATAAATATGT
Found at i:819014 original size:25 final size:24
Alignment explanation
Indices: 818955--819015 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
818945 ATTTTTATAA
* *
818955 TAAATAATTAATTTTTTAAAATAT
1 TAAAAAATTAATTTTTAAAAATAT
*
818979 TAAAAATATTAATTTTTAAAAATTT
1 TAAAAA-ATTAATTTTTAAAAATAT
*
819004 TATATAAATTAA
1 TA-AAAAATTAA
819016 AATTAAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 5 0.16
25 23 0.74
26 3 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TAAAAAATTAATTTTTAAAAATAT
Found at i:819116 original size:24 final size:23
Alignment explanation
Indices: 819080--819124 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
819070 ATATTCAAAT
* *
819080 TATAAAATCATTTGTTTTATATTA
1 TATAAAATAATTT-TTTGATATTA
*
819104 TATAATATAATTTTTTGATAT
1 TATAAAATAATTTTTTGATAT
819125 AAATTTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 7 0.39
24 11 0.61
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (23 bp):
TATAAAATAATTTTTTGATATTA
Found at i:821077 original size:17 final size:17
Alignment explanation
Indices: 821050--821129 Score: 62
Period size: 17 Copynumber: 4.9 Consensus size: 17
821040 GTTTTATTGT
*
821050 TTTATATTTAATAATAA
1 TTTAAATTTAATAATAA
* *
821067 TATAAATTTAATGAT-A
1 TTTAAATTTAATAATAA
*
821083 -TTAATATTT--T-ATTA
1 TTTAA-ATTTAATAATAA
*
821097 TTTATATTTAATAATAA
1 TTTAAATTTAATAATAA
821114 TTTAAATTTAACTAAT
1 TTTAAATTTAA-TAAT
821130 TTAATTATTT
Statistics
Matches: 49, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
13 2 0.04
14 6 0.12
15 6 0.12
16 6 0.12
17 25 0.51
18 4 0.08
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (17 bp):
TTTAAATTTAATAATAA
Found at i:821134 original size:47 final size:46
Alignment explanation
Indices: 821017--821147 Score: 135
Period size: 47 Copynumber: 2.8 Consensus size: 46
821007 GTTTTTATTT
* *
821017 ATAATAT-AA-TTAATAATAGTT-GTGTTTTATTGTTTTATATTTAATA
1 ATAATATAAATTTAATAATA-TTAAT-TTTTATT-ATTTATATTTAATA
*
821063 ATAATATAAATTTAATGATATTAATATTTTATTATTTATATTTAATA
1 ATAATATAAATTTAATAATATTAAT-TTTTATTATTTATATTTAATA
*
821110 ATAATTTAAATTTAACTAAT-TTAATTATTTATTTATTT
1 ATAATATAAATTTAA-TAATATTAATT-TTTA-TTATTT
821148 CGTTATTATT
Statistics
Matches: 73, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
46 8 0.11
47 40 0.55
48 25 0.34
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (46 bp):
ATAATATAAATTTAATAATATTAATTTTTATTATTTATATTTAATA
Found at i:822267 original size:3 final size:3
Alignment explanation
Indices: 822252--822310 Score: 50
Period size: 3 Copynumber: 19.3 Consensus size: 3
822242 TGTAACACGA
* *
822252 TAT TAT AAT TAT TAT T-T TAT AAT T-T TAAT TATT TAT TAT TAT TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TA-T TAT TAT TAT TA-T
*
822298 TAT TAT TAA TAT T
1 TAT TAT TAT TAT T
822311 TTTGATCATT
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
2 4 0.09
3 33 0.73
4 8 0.18
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:822282 original size:20 final size:21
Alignment explanation
Indices: 822254--822312 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
822244 TAACACGATA
822254 TTATAATTATTATTTTATAAT
1 TTATAATTATTATTTTATAAT
*
822275 TT-TAATTATTTATTATTATTAT
1 TTATAATTA-TTATT-TTATAAT
* *
822297 TTATTATTAATATTTT
1 TTATAATTATTATTTT
822313 TGATCATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
20 6 0.19
21 9 0.28
22 12 0.38
23 5 0.16
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TTATAATTATTATTTTATAAT
Found at i:822297 original size:13 final size:13
Alignment explanation
Indices: 822279--822328 Score: 66
Period size: 13 Copynumber: 3.8 Consensus size: 13
822269 TATAATTTTA
822279 ATTATTTATTATT
1 ATTATTTATTATT
822292 ATTATTTATTATT
1 ATTATTTATTATT
* *
822305 AATATTT-TTGATC
1 ATTATTTATT-ATT
822318 ATTATTTATTA
1 ATTATTTATTA
822329 CAATTAATCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 2 0.06
13 28 0.88
14 2 0.06
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (13 bp):
ATTATTTATTATT
Found at i:822334 original size:13 final size:14
Alignment explanation
Indices: 822278--822334 Score: 52
Period size: 13 Copynumber: 4.4 Consensus size: 14
822268 TTATAATTTT
822278 AATTATTTATTAT-
1 AATTATTTATTATC
* *
822291 TATTATTTATTATT
1 AATTATTTATTATC
822305 AA-TATTT-TTGATC
1 AATTATTTATT-ATC
822318 -ATTATTTATTA-C
1 AATTATTTATTATC
822330 AATTA
1 AATTA
822335 ATCACAATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
12 4 0.11
13 29 0.81
14 3 0.08
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (14 bp):
AATTATTTATTATC
Found at i:822558 original size:20 final size:20
Alignment explanation
Indices: 822528--822571 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
822518 TTTCTCTTAT
822528 AATATAATTTTAAAAT-ATA
1 AATATAATTTTAAAATAATA
822547 AATATAAATTTTAAAATAATA
1 AATAT-AATTTTAAAATAATA
822568 AATA
1 AATA
822572 ATACTAACGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 5 0.22
20 11 0.48
21 7 0.30
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AATATAATTTTAAAATAATA
Found at i:822783 original size:26 final size:24
Alignment explanation
Indices: 822754--822802 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
822744 TTTTTAAATT
*
822754 TTATTAATTTTAAATAATAATTTAAG
1 TTATTAA-ATTAAATAA-AATTTAAG
*
822780 TTATTAAATTAAATTAAATTTAA
1 TTATTAAATTAAATAAAATTTAA
822803 ATTTAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 7 0.33
26 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
TTATTAAATTAAATAAAATTTAAG
Found at i:827122 original size:20 final size:22
Alignment explanation
Indices: 827099--827143 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
827089 TATTTGTTAT
*
827099 ATTTAATA-TTTATTTAAA-AA
1 ATTTAAAATTTTATTTAAATAA
827119 ATTTAAAATTTTATTTAAATAA
1 ATTTAAAATTTTATTTAAATAA
827141 ATT
1 ATT
827144 GATTAATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.32
21 10 0.45
22 5 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTTAAAATTTTATTTAAATAA
Found at i:827936 original size:17 final size:17
Alignment explanation
Indices: 827914--827952 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
827904 AATTTAAGAA
827914 TTTTACGTGACAATAAT
1 TTTTACGTGACAATAAT
*
827931 TTTTACGTGATAATAAT
1 TTTTACGTGACAATAAT
827948 TTTTA
1 TTTTA
827953 GACAACCGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (17 bp):
TTTTACGTGACAATAAT
Found at i:828737 original size:23 final size:23
Alignment explanation
Indices: 828711--828755 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
828701 TTGTATAATA
828711 AAAT-TATCAATTATTCTAAAAAG
1 AAATCTATCAATT-TTCTAAAAAG
*
828734 AAATCTATCACTTTTCTAAAAA
1 AAATCTATCAATTTTCTAAAAA
828756 TTACCCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (23 bp):
AAATCTATCAATTTTCTAAAAAG
Found at i:829125 original size:21 final size:20
Alignment explanation
Indices: 829096--829138 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
829086 ACAAATTCAC
829096 TTAAAT-AAATTACATAAAAA
1 TTAAATAAAATTAC-TAAAAA
829116 TTAAATTAAAATTACTAAAAA
1 TTAAA-TAAAATTACTAAAAA
829137 TT
1 TT
829139 TGTGCATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (20 bp):
TTAAATAAAATTACTAAAAA
Found at i:829193 original size:29 final size:30
Alignment explanation
Indices: 829160--829218 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
829150 AATGTGAGAG
829160 AAAGAAAAAAA-TATAAAAAAATATTTTTA
1 AAAGAAAAAAATTATAAAAAAATATTTTTA
829189 AAAGAAAAAAATTATAAAAAAATATTTTTA
1 AAAGAAAAAAATTATAAAAAAATATTTTTA
829219 TTTTTACAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 11 0.38
30 18 0.62
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (30 bp):
AAAGAAAAAAATTATAAAAAAATATTTTTA
Found at i:829748 original size:3 final size:3
Alignment explanation
Indices: 829740--829788 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
829730 TTATATCTTT
829740 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
829788 T
1 T
829789 TTTCTTTTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:834216 original size:22 final size:21
Alignment explanation
Indices: 834170--834218 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
834160 ATTTTATTTT
* *
834170 AATTATTTTTTATATTTAATC
1 AATTATTTTTTAAATTTAATA
834191 AATTATTTTTATGAAATTTAA-A
1 AATTATTTTT-T-AAATTTAATA
834213 AATTAT
1 AATTAT
834219 ATTATAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.42
22 7 0.29
23 7 0.29
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (21 bp):
AATTATTTTTTAAATTTAATA
Found at i:836364 original size:22 final size:23
Alignment explanation
Indices: 836339--836393 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
836329 TTTCAAAATT
836339 TATATTTTACAAT-ATACTTATA
1 TATATTTTACAATAATACTTATA
* *
836361 TATATTTTATAATAATAGTTATA
1 TATATTTTACAATAATACTTATA
*
836384 AATTATTTTA
1 TA-TATTTTA
836394 TTAGTTATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 12 0.43
23 9 0.32
24 7 0.25
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (23 bp):
TATATTTTACAATAATACTTATA
Found at i:838147 original size:2 final size:2
Alignment explanation
Indices: 838140--838168 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
838130 TTTAGGTGTC
838140 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
838169 AAAGAGGTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:838352 original size:8 final size:8
Alignment explanation
Indices: 838334--838369 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
838324 GTATTCATGC
838334 ATATA-AT
1 ATATACAT
838341 ATATACAT
1 ATATACAT
*
838349 ATATATAT
1 ATATACAT
838357 ATATACAT
1 ATATACAT
838365 ATATA
1 ATATA
838370 AAAGCAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 5 0.19
8 21 0.81
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (8 bp):
ATATACAT
Found at i:840447 original size:23 final size:25
Alignment explanation
Indices: 840416--840466 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
840406 ATAAATTTAT
840416 ATTTGATATATTAATAAT-ATATAA
1 ATTTGATATATTAATAATCATATAA
* * *
840440 ATTT-ATATGTTATTAATCATTTAA
1 ATTTGATATATTAATAATCATATAA
840464 ATT
1 ATT
840467 ATCATTTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (25 bp):
ATTTGATATATTAATAATCATATAA
Found at i:841160 original size:3 final size:3
Alignment explanation
Indices: 841152--841191 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
841142 TAGCCATCAT
841152 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
841192 AAGCAATCCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:841516 original size:13 final size:14
Alignment explanation
Indices: 841493--841525 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
841483 TAATATTTTA
841493 TAAAGACATAATT-T
1 TAAA-ACATAATTGT
841507 TAAAACATAATTGT
1 TAAAACATAATTGT
841521 TAAAA
1 TAAAA
841526 TATTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (14 bp):
TAAAACATAATTGT
Found at i:841772 original size:2 final size:2
Alignment explanation
Indices: 841765--841800 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
841755 ATTTATAGTC
841765 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
841801 GTTCTCAAAT
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:842615 original size:20 final size:22
Alignment explanation
Indices: 842583--842631 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
842573 GCTTGCTATC
842583 ATTATTAAATTGAGTTTAT-TT
1 ATTATTAAATTGAGTTTATATT
*
842604 ATTATT-AATTGATTTTATATT
1 ATTATTAAATTGAGTTTATATT
842625 ATATATT
1 AT-TATT
842632 TAATATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 11 0.44
21 10 0.40
22 4 0.16
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (22 bp):
ATTATTAAATTGAGTTTATATT
Found at i:843228 original size:2 final size:2
Alignment explanation
Indices: 843221--843248 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
843211 GGCATAGCTC
843221 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
843249 TAACGGGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:844790 original size:5 final size:5
Alignment explanation
Indices: 844740--844817 Score: 50
Period size: 5 Copynumber: 15.0 Consensus size: 5
844730 GTAAGCCCAC
* * * ** *
844740 ATTTT ATTTC AATTT ATTTT -TCCTT ATTTT GCTTT ATCTT ATTTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT AT-TTT ATTTT ATTTT ATTTT A-TTTT ATTTT
*
844791 ATTTT TTTTT ATTTTT GATTTT ATTTT
1 ATTTT ATTTT A-TTTT -ATTTT ATTTT
844818 TACACTTCCT
Statistics
Matches: 54, Mismatches: 14, Indels: 10
0.69 0.18 0.13
Matches are distributed among these distances:
4 1 0.02
5 39 0.72
6 13 0.24
7 1 0.02
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.74
Consensus pattern (5 bp):
ATTTT
Found at i:844792 original size:11 final size:11
Alignment explanation
Indices: 844772--844819 Score: 71
Period size: 11 Copynumber: 4.4 Consensus size: 11
844762 CTTATTTTGC
*
844772 TTTATCTTATT
1 TTTATTTTATT
844783 TTTATTTTATT
1 TTTATTTTATT
844794 TTT-TTTTATT
1 TTTATTTTATT
844804 TTTGATTTTATT
1 TTT-ATTTTATT
844816 TTTA
1 TTTA
844820 CACTTCCTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
10 10 0.29
11 14 0.41
12 10 0.29
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:846475 original size:34 final size:34
Alignment explanation
Indices: 846437--846539 Score: 104
Period size: 34 Copynumber: 3.0 Consensus size: 34
846427 ATATATATTA
*
846437 AATATCATCATATTTTATATCGATTAAAATTTAT
1 AATATCATCATATTTTATATCAATTAAAATTTAT
* * *
846471 AATATTAT-ATCATTTT-TATTAAATAAATATTT-T
1 AATATCATCAT-ATTTTATATCAATTAAA-ATTTAT
* *
846504 AAATATCATCATATTTTACATCTATTAAAATTTAT
1 -AATATCATCATATTTTATATCAATTAAAATTTAT
846539 A
1 A
846540 GTAGTGTATT
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
33 11 0.20
34 33 0.61
35 10 0.19
ACGTcount: A:0.43, C:0.08, G:0.01, T:0.49
Consensus pattern (34 bp):
AATATCATCATATTTTATATCAATTAAAATTTAT
Found at i:846486 original size:68 final size:68
Alignment explanation
Indices: 846394--846566 Score: 231
Period size: 68 Copynumber: 2.5 Consensus size: 68
846384 AATATTTTAC
* *
846394 AAAA-TTATATATAATATATTATTTTTATTAAATATATATATTAAATATCATCATATTTTATATC
1 AAAATTTATA-ATAATATATTATTTTTATTAAATAAATATATTAAATATCATCATATTTTACATC
846458 GATT
65 GATT
* * * *
846462 AAAATTTATAATATTATATCATTTTTATTAAATAAATATTTTAAATATCATCATATTTTACATCT
1 AAAATTTATAATAATATATTATTTTTATTAAATAAATATATTAAATATCATCATATTTTACATCG
846527 ATT
66 ATT
* * * *
846530 AAAATTTATAGTAGTGTATTATTTTTATAAAGATAAA
1 AAAATTTATAATAATATATTATTTTTATTAA-ATAAA
846567 AGAAGTTGAA
Statistics
Matches: 92, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
68 82 0.89
69 10 0.11
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.49
Consensus pattern (68 bp):
AAAATTTATAATAATATATTATTTTTATTAAATAAATATATTAAATATCATCATATTTTACATCG
ATT
Found at i:852457 original size:18 final size:18
Alignment explanation
Indices: 852436--852470 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
852426 TTTTTAATCA
*
852436 TTAAAATATTATAAATTG
1 TTAAAAAATTATAAATTG
*
852454 TTAAAAAATTATGAATT
1 TTAAAAAATTATAAATT
852471 TATTAAATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (18 bp):
TTAAAAAATTATAAATTG
Found at i:852476 original size:19 final size:18
Alignment explanation
Indices: 852435--852477 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
852425 ATTTTTAATC
*
852435 ATTAAAATATTATAAATT
1 ATTAAAAAATTATAAATT
* *
852453 GTTAAAAAATTATGAATTT
1 ATTAAAAAATTAT-AAATT
852472 ATTAAA
1 ATTAAA
852478 TATTTTTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
ATTAAAAAATTATAAATT
Found at i:852913 original size:22 final size:23
Alignment explanation
Indices: 852881--852923 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
852871 AAGTTAATTA
852881 TATTATTTATAA-TAATATTTATT
1 TATTATTTATAATTAA-ATTTATT
852904 TATT-TTTATAATTAAATTTA
1 TATTATTTATAATTAAATTTA
852924 AATTAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTATTTATAATTAAATTTATT
Done.