Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, 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: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 7 of 117
Found at i:682412 original size:22 final size:21
Alignment explanation
Indices: 682339--682425 Score: 52
Period size: 22 Copynumber: 4.0 Consensus size: 21
682329 AAATAGAATA
*
682339 ATAAAAGTGAAAATAAATAAAG
1 ATAAAA-TAAAAATAAATAAAG
* *
682361 ATAAAAAAATAAAGAAAAGTAAA-
1 ATAAAATAA-AAA-TAAA-TAAAG
*
682384 ACAAAAATAAAAATAAGATAAAG
1 A-TAAAATAAAAATAA-ATAAAG
* *
682407 ATAAAA-AATATTAAATAAA
1 ATAAAATAAAAATAAATAAA
682426 TCTAATCTAA
Statistics
Matches: 50, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
20 5 0.10
21 7 0.14
22 19 0.38
23 9 0.18
24 10 0.20
ACGTcount: A:0.74, C:0.01, G:0.08, T:0.17
Consensus pattern (21 bp):
ATAAAATAAAAATAAATAAAG
Found at i:682441 original size:4 final size:4
Alignment explanation
Indices: 682434--682463 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
682424 AATCTAATCT
682434 AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
682464 ACAAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:683373 original size:18 final size:19
Alignment explanation
Indices: 683324--683376 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
683314 GAAAAAAATC
683324 AAATGAAAATTAATTAGAT
1 AAATGAAAATTAATTAGAT
683343 AAATCAGATAAATTAA-TAGAT
1 AAAT--GA-AAATTAATTAGAT
*
683364 AAATTAAAATTAA
1 AAATGAAAATTAA
683377 ATAACAGATA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 7 0.23
19 5 0.17
21 11 0.37
22 7 0.23
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (19 bp):
AAATGAAAATTAATTAGAT
Found at i:683467 original size:3 final size:3
Alignment explanation
Indices: 683459--683496 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
683449 TAAATCCCTA
*
683459 AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
683497 AAGAAAAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:683567 original size:25 final size:25
Alignment explanation
Indices: 683537--683610 Score: 80
Period size: 25 Copynumber: 2.9 Consensus size: 25
683527 TAAAGTAATA
683537 ATAAAAATAAAAATAAAATAAAAAT
1 ATAAAAATAAAAATAAAATAAAAAT
* *
683562 GT-AAAATACAAAATAAAAGT-AAATT
1 ATAAAAATA-AAAATAAAA-TAAAAAT
*
683587 AAAAAAATAAAAATAAAAATAAAA
1 ATAAAAATAAAAAT-AAAATAAAA
683611 TGAAGAGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
24 6 0.15
25 20 0.50
26 14 0.35
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.19
Consensus pattern (25 bp):
ATAAAAATAAAAATAAAATAAAAAT
Found at i:683574 original size:7 final size:6
Alignment explanation
Indices: 683536--683610 Score: 82
Period size: 6 Copynumber: 12.2 Consensus size: 6
683526 ATAAAGTAAT
* *
683536 AATAAA AATAAA AAT-AA AATAAA AATGTAA AATACAA AATAAA AGTAAA
1 AATAAA AATAAA AATAAA AATAAA AAT-AAA AATA-AA AATAAA AATAAA
683585 TTAA-AAA AATAAA AATAAA AATAAA A
1 --AATAAA AATAAA AATAAA AATAAA A
683611 TGAAGAGAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
5 7 0.12
6 37 0.63
7 14 0.24
8 1 0.02
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.19
Consensus pattern (6 bp):
AATAAA
Found at i:683577 original size:31 final size:30
Alignment explanation
Indices: 683528--683610 Score: 103
Period size: 31 Copynumber: 2.7 Consensus size: 30
683518 ATACATCTAT
683528 AAAGTAATAATAAAAATAAAAATAAAATAAA
1 AAAGTAA-AATAAAAATAAAAATAAAATAAA
* * *
683559 AATGTAAAATACAAAATAAAAGTAAATTAAA
1 AAAGTAAAATA-AAAATAAAAATAAAATAAA
*
683590 AAAATAAAAATAAAAATAAAA
1 AAAGT-AAAATAAAAATAAAA
683611 TGAAGAGAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
30 4 0.09
31 35 0.78
32 6 0.13
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.19
Consensus pattern (30 bp):
AAAGTAAAATAAAAATAAAAATAAAATAAA
Found at i:683597 original size:13 final size:12
Alignment explanation
Indices: 683536--683610 Score: 82
Period size: 13 Copynumber: 6.1 Consensus size: 12
683526 ATAAAGTAAT
683536 AATAAAAATAAA
1 AATAAAAATAAA
683548 AAT-AAAATAAA
1 AATAAAAATAAA
*
683559 AATGTAAAATACAA
1 AAT-AAAAATA-AA
*
683573 AATAAAAGTAAA
1 AATAAAAATAAA
683585 TTAA-AAAAATAAA
1 --AATAAAAATAAA
683598 AATAAAAATAAA
1 AATAAAAATAAA
683610 A
1 A
683611 TGAAGAGAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
11 13 0.24
12 15 0.28
13 19 0.35
14 7 0.13
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.19
Consensus pattern (12 bp):
AATAAAAATAAA
Found at i:684033 original size:19 final size:19
Alignment explanation
Indices: 684009--684055 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
683999 TAAAAATTTT
684009 AAATTATTTAA-TATTTATA
1 AAATTATTTAATTA-TTATA
* *
684028 AAATTATTAAATTATTATT
1 AAATTATTTAATTATTATA
684047 AAATTATTT
1 AAATTATTT
684056 TATGTCAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 22 0.92
20 2 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AAATTATTTAATTATTATA
Found at i:684044 original size:11 final size:11
Alignment explanation
Indices: 684030--684054 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
684020 TATTTATAAA
684030 ATTATTAAATT
1 ATTATTAAATT
684041 ATTATTAAATT
1 ATTATTAAATT
684052 ATT
1 ATT
684055 TTATGTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTATTAAATT
Found at i:684872 original size:12 final size:12
Alignment explanation
Indices: 684841--684879 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
684831 TTACTAGTTT
*
684841 TAAATTTTTATA
1 TAAATTTTAATA
*
684853 TATTATTTTAATA
1 TA-AATTTTAATA
684866 TAAATTTTAATA
1 TAAATTTTAATA
684878 TA
1 TA
684880 TTTAAGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TAAATTTTAATA
Found at i:684949 original size:18 final size:19
Alignment explanation
Indices: 684918--684958 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
684908 GTTTTTATTT
* *
684918 TATAAAAATTTAAAATATA
1 TATAAAAATCTAAAAAATA
684937 TATAAAAA-CTAAAAAATA
1 TATAAAAATCTAAAAAATA
684955 TATA
1 TATA
684959 TAATTCAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
TATAAAAATCTAAAAAATA
Found at i:687508 original size:22 final size:22
Alignment explanation
Indices: 687437--687507 Score: 92
Period size: 22 Copynumber: 3.2 Consensus size: 22
687427 AATTATGTAA
687437 AATTATTATTTTATTTTTAAAAT
1 AATTATTATTTTATTTTT-AAAT
*
687460 AATTATT-TTTTATTATTTAATT
1 AATTATTATTTTATT-TTTAAAT
687482 AATT-TTATTCTTATTTTTAAAT
1 AATTATTATT-TTATTTTTAAAT
687504 AATT
1 AATT
687508 TGATAAATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
21 2 0.05
22 26 0.60
23 15 0.35
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (22 bp):
AATTATTATTTTATTTTTAAAT
Found at i:687605 original size:19 final size:19
Alignment explanation
Indices: 687583--687619 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
687573 TTTATATATA
*
687583 ATAGTTTAGTATGAAAAAT
1 ATAGTTTAATATGAAAAAT
*
687602 ATAGTTTAATATTAAAAA
1 ATAGTTTAATATGAAAAA
687620 GATTACGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (19 bp):
ATAGTTTAATATGAAAAAT
Found at i:687678 original size:40 final size:38
Alignment explanation
Indices: 687594--687678 Score: 89
Period size: 40 Copynumber: 2.2 Consensus size: 38
687584 TAGTTTAGTA
* * *
687594 TGAAAAATATAGTTTAATATTAAAAAGATTACGATTAT
1 TGAAAAATATAGTCTAATAATAAAAAGACTACGATTAT
** * *
687632 CAAAAAATTATAGTCTAATACATAAAAGGACTACGATTTT
1 TGAAAAA-TATAGTCTAATA-ATAAAAAGACTACGATTAT
687672 TGAAAAA
1 TGAAAAA
687679 ATCATAGTTT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
38 5 0.14
39 11 0.31
40 20 0.56
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.32
Consensus pattern (38 bp):
TGAAAAATATAGTCTAATAATAAAAAGACTACGATTAT
Found at i:692218 original size:15 final size:16
Alignment explanation
Indices: 692200--692233 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
692190 AAAAAACTTC
*
692200 AAGAAAAGAAA-AAAA
1 AAGAAAAAAAATAAAA
692215 AAGAAAAAAAATAAAA
1 AAGAAAAAAAATAAAA
692231 AAG
1 AAG
692234 GAATAATGAT
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:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (16 bp):
AAGAAAAAAAATAAAA
Found at i:692585 original size:73 final size:75
Alignment explanation
Indices: 692405--692627 Score: 242
Period size: 76 Copynumber: 3.0 Consensus size: 75
692395 TTTTTTTCTG
* * * * * *
692405 AAATTTTAATATCAAGGAAAATTGATACTTTTAACTTTTCCTCAAAAATTATTTTTCTTAATGAT
1 AAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCT-TAAAATTATTTTTCTTAATAAT
*
692470 TTTTATTTTAG
65 TTTTATTTTAA
* * *
692481 AAATTTTATTTTTAAGAAAAAATGATACTTTCAACTTTTCCTTAAAA-TACTTTTT-TTGATAAT
1 AAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAATTA-TTTTTCTTAATAAT
692544 TTTTA-TTTAA
65 TTTTATTTTAA
*
692554 AAATTTTATTTTCAAGAAAAATTGA-ATCTTTCAACTTTTCCCTAAAAATATATTTTT-TTAA-A
1 AAATTTTATTTTCAAGAAAAATTGATA-CTTTCAACTTTT-CCTTAAAAT-TATTTTTCTTAATA
*
692616 CCTTTTTATTTT
63 -ATTTTTATTTT
692628 CAAGGGAAAT
Statistics
Matches: 125, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
72 1 0.01
73 39 0.31
74 21 0.17
75 23 0.18
76 41 0.33
ACGTcount: A:0.36, C:0.10, G:0.04, T:0.50
Consensus pattern (75 bp):
AAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAATTATTTTTCTTAATAATT
TTTATTTTAA
Found at i:692699 original size:59 final size:58
Alignment explanation
Indices: 692542--692754 Score: 241
Period size: 59 Copynumber: 3.6 Consensus size: 58
692532 TTTTTTGATA
* *
692542 ATTTTTATTTAAAAATTTTATTTTCAAGAAAAATTGAATCTTTCAACTTTTCCCTAAAAAT
1 ATTTTT-TTT-AAAATTTTATTTTCAAGGAAAATTGAA-CTTTCAACTTTTCCCCAAAAAT
* * * *
692603 ATATTTTTTTAAACCTTTTTATTTTCAAGGGAAATTGACACTTTTAACTTTCCCCCAAAAAT
1 AT-TTTTTTTAAA--ATTTTATTTTCAAGGAAAATTGA-ACTTTCAACTTTTCCCCAAAAAT
*
692665 ATTTTTTTTAAAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAT
1 ATTTTTTTTAAAATTTTATTTTCAAGGAAAATTGA-ACTTTCAACTTTTCCCCAAAAAT
* * *
692724 ATATTTTTTAGGAATTTTGTTTT--AGGAAAAT
1 ATTTTTTTTA-AAATTTTATTTTCAAGGAAAAT
692755 AATTGAAACA
Statistics
Matches: 132, Mismatches: 15, Indels: 13
0.82 0.09 0.08
Matches are distributed among these distances:
58 8 0.06
59 50 0.38
60 13 0.10
61 15 0.11
62 45 0.34
63 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (58 bp):
ATTTTTTTTAAAATTTTATTTTCAAGGAAAATTGAACTTTCAACTTTTCCCCAAAAAT
Found at i:692789 original size:16 final size:15
Alignment explanation
Indices: 692768--692798 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
692758 TGAAACAAAG
692768 AAAAATAAAATAAAAT
1 AAAAATAAAA-AAAAT
692784 AAAAATAAAAAAAAT
1 AAAAATAAAAAAAAT
692799 TAAGGAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (15 bp):
AAAAATAAAAAAAAT
Found at i:692836 original size:3 final size:3
Alignment explanation
Indices: 692828--692853 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
692818 CTAATTTAGA
692828 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
692854 ATAAATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:698002 original size:16 final size:17
Alignment explanation
Indices: 697966--698004 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
697956 TTAGTTAATC
* *
697966 TTTTATATAATATTAAA
1 TTTTATAAAATAATAAA
*
697983 TTTTATAAAATAATAAT
1 TTTTATAAAATAATAAA
698000 TTTTA
1 TTTTA
698005 ATTAAAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTTATAAAATAATAAA
Found at i:700134 original size:2 final size:2
Alignment explanation
Indices: 700127--700155 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
700117 CAAGTGCCAA
700127 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
700156 AAAACAAAGC
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:701850 original size:12 final size:12
Alignment explanation
Indices: 701823--701865 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
701813 GCCTTCACTA
701823 TAAATATATATAT
1 TAAAT-TATATAT
*
701836 TAAATTATATTT
1 TAAATTATATAT
*
701848 TAAATTATTTAT
1 TAAATTATATAT
*
701860 TTAATT
1 TAAATT
701866 TTAGAGTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
12 21 0.81
13 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TAAATTATATAT
Found at i:705607 original size:69 final size:67
Alignment explanation
Indices: 705473--705607 Score: 189
Period size: 69 Copynumber: 2.0 Consensus size: 67
705463 CTCATAAAAA
** *
705473 TAAGTTCATTCCTTCCATCCTCATTGTGTCACTGCTCTCAAAATCACCAATTCAGGTAAAAAGCC
1 TAAGTTCATTCCTTCCATCCTCACAGTCTCACTGCTCTCAAAATCACCAATTCAGGTAAAAAGCC
705538 AG
66 AG
* * * *
705540 TAAGTTCATTCCTTCCTTCCTCACAGTCTCACTTTGCTCTCAAAATCATCGATTTAGGTAAAAAG
1 TAAGTTCATTCCTTCCATCCTCACAGTCTCAC--TGCTCTCAAAATCACCAATTCAGGTAAAAAG
705605 CCA
64 CCA
705608 TTCTTCCTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
67 28 0.47
69 31 0.53
ACGTcount: A:0.29, C:0.28, G:0.11, T:0.32
Consensus pattern (67 bp):
TAAGTTCATTCCTTCCATCCTCACAGTCTCACTGCTCTCAAAATCACCAATTCAGGTAAAAAGCC
AG
Found at i:706678 original size:19 final size:19
Alignment explanation
Indices: 706654--706692 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
706644 AGGGCAGAGT
706654 TAGAACACTGGGGATGTGC
1 TAGAACACTGGGGATGTGC
706673 TAGAACACTGGGGATGTGC
1 TAGAACACTGGGGATGTGC
706692 T
1 T
706693 TTTCACTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.15, G:0.36, T:0.23
Consensus pattern (19 bp):
TAGAACACTGGGGATGTGC
Found at i:712037 original size:144 final size:144
Alignment explanation
Indices: 711763--712228 Score: 720
Period size: 144 Copynumber: 3.2 Consensus size: 144
711753 TTTTAACGCC
* * * * * * * *
711763 ATAAGCTTTGTCATGTTTCCGATTGAAGGAGGGATTGAACCAGAG-AATATATTTTGACTCAAGT
1 ATAAG-TTGGTCAAGTTTCCTATGGAAGTAGGGATTGGACCAGAGAAAT-TATTTTCACTCAAAT
** *
711827 CAAAGGAAGTGAGAAATTTAAGCATCCCTATCTCTTGAGGTATCATCCCAGAAAACATATTTTGA
64 CAAAGTCAGTGAGAGATTTAAGCATCCCTATCTCTTGAGGTATCATCCCAGAAAACATATTTTGA
711892 TAGAGATAAAGAGTGG
129 TAGAGATAAAGAGTGG
*
711908 ATAAGTTGGTCAAGTTTCCTATGGAAGTAGGGATTGGACCAGAGAAATTATTTTCACTCAAAACA
1 ATAAGTTGGTCAAGTTTCCTATGGAAGTAGGGATTGGACCAGAGAAATTATTTTCACTCAAATCA
*
711973 AAGTCAGTGAGAGATTTAAGCATCCCTATCTCTTGAGGTATCATCCCATAAAACATATTTTGATA
66 AAGTCAGTGAGAGATTTAAGCATCCCTATCTCTTGAGGTATCATCCCAGAAAACATATTTTGATA
712038 GAGATAAAGAGTGG
131 GAGATAAAGAGTGG
*
712052 ATAAGTTGGTCAAGTTTCCTATGGAAGTAGGGATTGGACCAGAGAAATTACTTTCACTCAAATCA
1 ATAAGTTGGTCAAGTTTCCTATGGAAGTAGGGATTGGACCAGAGAAATTATTTTCACTCAAATCA
*
712117 AAGTCAGTGAGAGATTTAAGCATCCCTATCTCTTGAGGTAT-AGACCCAGAAAACATATTTTGAT
66 AAGTCAGTGAGAGATTTAAGCATCCCTATCTCTTGAGGTATCA-TCCCAGAAAACATATTTTGAT
* * *
712181 AAAGGTAGAGAGTGG
130 AGAGATAAAGAGTGG
*
712196 ATAAGTTGGTCAAGTTTCCTATGGAAGCAGGGA
1 ATAAGTTGGTCAAGTTTCCTATGGAAGTAGGGA
712229 NNNNNNNNNN
Statistics
Matches: 298, Mismatches: 21, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
143 1 0.00
144 289 0.97
145 8 0.03
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (144 bp):
ATAAGTTGGTCAAGTTTCCTATGGAAGTAGGGATTGGACCAGAGAAATTATTTTCACTCAAATCA
AAGTCAGTGAGAGATTTAAGCATCCCTATCTCTTGAGGTATCATCCCAGAAAACATATTTTGATA
GAGATAAAGAGTGG
Found at i:713712 original size:170 final size:169
Alignment explanation
Indices: 713536--714107 Score: 449
Period size: 170 Copynumber: 3.3 Consensus size: 169
713526 ATTTTCTTGG
* * *
713536 ATTATTAAAGGCATCTTTTATTATAAAACACCTTCAATATACCACGATGGTAATGGAAGGTGTTT
1 ATTATTAAAGGCATCTTTTACTATAAAATACCTTCAATATACCACGATGGTAATGGAAGGCGTTT
*
713601 ATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGGCATTTGTTAAT
66 ATTAGAAAAAGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGGCATTTGTTAAT
713666 AACAAACGCCTTCAAAATTTTTCCACTAAATATTTTAAGA
131 AACAAACGCCTTCAAAA-TTTTCCACTAAATATTTTAAGA
* * * * * **
713706 ATTATTAAAGGCATCTTCTACTGTAAAATACTTTCTATATATCGCCACACAAATTCTAACACTGT
1 ATTATTAAAGGCATCTTTTACTATAAAATACCTTC-A-ATAT--AC-CAC-GATGGT-A-A-TG-
* * * * * ** *
713771 TATTGAAGGCGTATATCCAAGAAAAATG--CCTTTAATAATTCCTATCACAGTTTA-TAAAT-AA
56 ----GAAGGCGTTTAT--TAGAAAAA-GCACCTTCAAT-ATACCT-TTA-AACTTAGT-AATCCA
* ** * * * * * ** *
713832 TTACTAAAGGCGGTTG-CAGAAAAC-AATGCCTTTAATAA-TTTCC-CTAAAAAAATTTTCTCGG
110 TTACTGAAGGCATTTGTTA-ATAACAAACGCCTTCAA-AATTTTCCACT--AAATATTTT-AAGA
** * * * * *
713893 ATTATTAAAGGTGTCTTTTATTATGACATGCCTTCAATATACCACGATGGTAATGGAAGGCATTT
1 ATTATTAAAGGCATCTTTTACTATAAAATACCTTCAATATACCACGATGGTAATGGAAGGCGTTT
713958 ATTAGAAAAAGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGGCATTTGTTAAT
66 ATTAGAAAAAGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGGCATTTGTTAAT
* * *
714023 AACAGACGCTTTCAAAATTTTCTCACTAAATATTTTGAGA
131 AACAAACGCCTTCAAAATTTTC-CACTAAATATTTTAAGA
* * *
714063 ATTATTAAAGGCGTCTTTTACTGTAAAATACCTTCTATATACCAC
1 ATTATTAAAGGCATCTTTTACTATAAAATACCTTCAATATACCAC
714108 CACACAAATT
Statistics
Matches: 295, Mismatches: 72, Indels: 70
0.68 0.16 0.16
Matches are distributed among these distances:
169 7 0.02
170 93 0.32
171 33 0.11
172 12 0.04
173 12 0.04
174 1 0.00
175 3 0.01
176 3 0.01
177 1 0.00
178 3 0.01
179 3 0.01
180 1 0.00
181 3 0.01
182 3 0.01
183 1 0.00
184 12 0.04
185 16 0.05
186 30 0.10
187 51 0.17
188 7 0.02
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (169 bp):
ATTATTAAAGGCATCTTTTACTATAAAATACCTTCAATATACCACGATGGTAATGGAAGGCGTTT
ATTAGAAAAAGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGGCATTTGTTAAT
AACAAACGCCTTCAAAATTTTCCACTAAATATTTTAAGA
Found at i:713884 original size:357 final size:357
Alignment explanation
Indices: 713229--714289 Score: 1579
Period size: 357 Copynumber: 3.0 Consensus size: 357
713219 NNNNNNNNNN
**
713229 TAATGGAAGGCATTTATTAGAAAAGGTGCCTTCAATATACCTTTAAACTTAGTAATCCATTACTG
1 TAATGGAAGGCATTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTG
*
713294 AAGGCATTTGTTAATAACAAACGCCTTCAAAATTTTCTCACTAAATAGTTTGAGAATTATTAAAG
66 AAGGCATTTGTTAATAACAAACGCCTTCAAAATTTTCTCACTAAATATTTTGAGAATTATTAAAG
* * * *
713359 GCATCTTTTATTGTAAAATGCCTTT-TATATATCGCCACACAAATTGTAACACAATTATTGAAGG
131 GCATCTTTTACTGTAAAAT-ACTTTCTATATATCGCCACACAAATTCTAACACTATTATTGAAGG
* * * *
713423 CATATATTTAAGATAGATGCCTTTAACAATTCTTATCACAGTTTCTAAATAATTACTGAAGGCAG
195 CGTATATTTAAGATAGATGCCTTTAATAATTCTTATCACAGTTTATAAATAATTACTGAAGGCGG
** * * * *
713488 TTTTGGAAAATAACACCTTCAATAATTTTTCTAAAAAAATTTTCTTGGATTATTAAAGGCATCTT
260 TTTCAGAAAACAACGCCTTCAATAATTTTCCTAAAAAAATTTTCTTGGATTATTAAAGGCGTCTT
713553 TTATTATAAAACACCTTCAATATACCACGATGG
325 TTATTATAAAACACCTTCAATATACCACGATGG
**
713586 TAATGGAAGGTGTTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTG
1 TAATGGAAGGCATTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTG
*
713651 AAGGCATTTGTTAATAACAAACGCCTTCAAAATTTT-TCCACTAAATATTTTAAGAATTATTAAA
66 AAGGCATTTGTTAATAACAAACGCCTTCAAAATTTTCT-CACTAAATATTTTGAGAATTATTAAA
* *
713715 GGCATCTTCTACTGTAAAATACTTTCTATATATCGCCACACAAATTCTAACACTGTTATTGAAGG
130 GGCATCTTTTACTGTAAAATACTTTCTATATATCGCCACACAAATTCTAACACTATTATTGAAGG
** * * * *
713780 CGTATATCCAAGAAAAATGCCTTTAATAATTCCTATCACAGTTTATAAATAATTACTAAAGGCGG
195 CGTATATTTAAGATAGATGCCTTTAATAATTCTTATCACAGTTTATAAATAATTACTGAAGGCGG
* * * * * *
713845 TTGCAGAAAACAATGCCTTTAATAATTTCCCTAAAAAAATTTTCTCGGATTATTAAAGGTGTCTT
260 TTTCAGAAAACAACGCCTTCAATAATTTTCCTAAAAAAATTTTCTTGGATTATTAAAGGCGTCTT
* * **
713910 TTATTATGACATGCCTTCAATATACCACGATGG
325 TTATTATAAAACACCTTCAATATACCACGATGG
*
713943 TAATGGAAGGCATTTATTAGAAAAAGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTG
1 TAATGGAAGGCATTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTG
* *
714008 AAGGCATTTGTTAATAACAGACGCTTTCAAAATTTTCTCACTAAATATTTTGAGAATTATTAAAG
66 AAGGCATTTGTTAATAACAAACGCCTTCAAAATTTTCTCACTAAATATTTTGAGAATTATTAAAG
* * * * *
714073 GCGTCTTTTACTGTAAAATACCTTCTATATACCACCACACAAATTTTAACACTATTATTGAAGGC
131 GCATCTTTTACTGTAAAATACTTTCTATATATCGCCACACAAATTCTAACACTATTATTGAAGGC
* * * * *
714138 GTATATTTAAGATAGACGCCTTTAATAATTCTTATCATAGTTTGTATATAATTACTGAAGGTGGT
196 GTATATTTAAGATAGATGCCTTTAATAATTCTTATCACAGTTTATAAATAATTACTGAAGGCGGT
* *
714203 TTCA-AATAACAACGCCTTCAATAATTTTCCTAAAAAATTTTTTTTCGGATTATTAAAGGCGTCT
261 TTCAGAA-AACAACGCCTTCAATAATTTTCCTAAAAAAATTTTCTT-GGATTATTAAAGGCGTCT
*
714267 TTTATTATAAACCACCTTCAATA
324 TTTATTATAAAACACCTTCAATA
714290 ATTTGTTATA
Statistics
Matches: 624, Mismatches: 75, Indels: 9
0.88 0.11 0.01
Matches are distributed among these distances:
356 7 0.01
357 581 0.93
358 36 0.06
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (357 bp):
TAATGGAAGGCATTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTG
AAGGCATTTGTTAATAACAAACGCCTTCAAAATTTTCTCACTAAATATTTTGAGAATTATTAAAG
GCATCTTTTACTGTAAAATACTTTCTATATATCGCCACACAAATTCTAACACTATTATTGAAGGC
GTATATTTAAGATAGATGCCTTTAATAATTCTTATCACAGTTTATAAATAATTACTGAAGGCGGT
TTCAGAAAACAACGCCTTCAATAATTTTCCTAAAAAAATTTTCTTGGATTATTAAAGGCGTCTTT
TATTATAAAACACCTTCAATATACCACGATGG
Found at i:714516 original size:9 final size:10
Alignment explanation
Indices: 714504--714557 Score: 53
Period size: 9 Copynumber: 5.5 Consensus size: 10
714494 CTTTTCCTTT
714504 TGTATT-TTA
1 TGTATTATTA
714513 TGTATT-TTA
1 TGTATTATTA
714522 T-TATTTATTA
1 TGTA-TTATTA
714532 T-TATTATTA
1 TGTATTATTA
714541 TGTATTAATATA
1 TGTATT-AT-TA
714553 TGTAT
1 TGTAT
714558 ATCTTTATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
8 2 0.05
9 19 0.47
10 10 0.25
11 2 0.05
12 7 0.17
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (10 bp):
TGTATTATTA
Found at i:714528 original size:16 final size:16
Alignment explanation
Indices: 714509--714641 Score: 58
Period size: 16 Copynumber: 7.6 Consensus size: 16
714499 CCTTTTGTAT
714509 TTTATGTATT-TTATTA
1 TTTAT-TATTATTATTA
714525 TTTATTATTATTATTA
1 TTTATTATTATTATTA
* *
714541 TGTATTAATATATGTATATC
1 TTTATT-AT-TAT-TAT-TA
714561 TTTATTTATTTATTTATTTA
1 TTTA-TTA-TTA-TTA-TTA
*
714581 TTT-TT-TTCTGT-TTA
1 TTTATTATTAT-TATTA
714595 TTTTATTTATATAGTTATATA
1 -TTTA-TTAT-TA-TTAT-TA
*
714616 TTTATTATTATAATTTA
1 TTTATTATTATTA-TTA
714633 TTTATTATT
1 TTTATTATT
714642 GTTTTTTTCT
Statistics
Matches: 91, Mismatches: 7, Indels: 37
0.67 0.05 0.27
Matches are distributed among these distances:
14 3 0.03
15 8 0.09
16 19 0.21
17 17 0.19
18 9 0.10
19 9 0.10
20 19 0.21
21 7 0.08
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (16 bp):
TTTATTATTATTATTA
Found at i:714530 original size:12 final size:12
Alignment explanation
Indices: 714510--714641 Score: 51
Period size: 12 Copynumber: 10.4 Consensus size: 12
714500 CTTTTGTATT
*
714510 TTATGTATTTTA
1 TTATTTATTTTA
714522 TTATTTATTATTA
1 TTATTTATT-TTA
714535 TTA-TTATGTATTAA
1 TTATTTAT-T-TT-A
714549 TATATGTATATCTTTA
1 T-TAT-T-TAT-TTTA
714565 TTTATTTA-TTTA
1 -TTATTTATTTTA
714577 TTTATTT-TTTT-
1 -TTATTTATTTTA
* *
714588 CTGTTTATTTTA
1 TTATTTATTTTA
* *
714600 TT-TATATAGTTA
1 TTATTTAT-TTTA
714612 TATATTTATTATTA
1 T-TATTTATT-TTA
*
714626 TAATTTA-TTTA
1 TTATTTATTTTA
714637 TTATT
1 TTATT
714642 GTTTTTTTCT
Statistics
Matches: 94, Mismatches: 11, Indels: 31
0.69 0.08 0.23
Matches are distributed among these distances:
10 4 0.04
11 15 0.16
12 32 0.34
13 16 0.17
14 12 0.13
15 3 0.03
16 4 0.04
17 4 0.04
18 4 0.04
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (12 bp):
TTATTTATTTTA
Found at i:714570 original size:4 final size:4
Alignment explanation
Indices: 714561--714638 Score: 63
Period size: 4 Copynumber: 19.5 Consensus size: 4
714551 TATGTATATC
* * *
714561 TTTA TTTA TTTA TTTA TTTA TTT- TTT- TCTG TTTA TTTTA TTTA TATA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA
* *
714608 GTTA TATA TTTA -TTA TTATAA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TT-T-A TTTA TTTA TT
714639 ATTGTTTTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
3 8 0.13
4 43 0.72
5 6 0.10
6 3 0.05
ACGTcount: A:0.26, C:0.01, G:0.03, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:714640 original size:14 final size:13
Alignment explanation
Indices: 714561--714638 Score: 52
Period size: 14 Copynumber: 5.8 Consensus size: 13
714551 TATGTATATC
714561 TTTATTTATTT-A
1 TTTATTTATTTAA
**
714573 TTTATTTATTTTT
1 TTTATTTATTTAA
* *
714586 TTCTGTTTATTTTA
1 TT-TATTTATTTAA
*
714600 TTTATATAGTTATATA
1 TTTATTTA-TT-TA-A
714616 TTTA-TTATTATAA
1 TTTATTTATT-TAA
714629 TTTATTTATT
1 TTTATTTATT
714639 ATTGTTTTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
12 11 0.21
13 11 0.21
14 23 0.43
15 3 0.06
16 5 0.09
ACGTcount: A:0.26, C:0.01, G:0.03, T:0.71
Consensus pattern (13 bp):
TTTATTTATTTAA
Found at i:715138 original size:31 final size:32
Alignment explanation
Indices: 715102--715166 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 32
715092 CCGGTGAATT
** * *
715102 TTTCGGCAAAGTTTGAATTTTTCGACGAA-AA
1 TTTCGGCAAACCTTGAAGTTTCCGACGAAGAA
*
715133 TTTCGGCCAACCTTGAAGTTTCCGACGAAGAA
1 TTTCGGCAAACCTTGAAGTTTCCGACGAAGAA
715165 TT
1 TT
715167 CCAGAAACCG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 24 0.86
32 4 0.14
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.32
Consensus pattern (32 bp):
TTTCGGCAAACCTTGAAGTTTCCGACGAAGAA
Found at i:715227 original size:20 final size:20
Alignment explanation
Indices: 715194--715239 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
715184 TCCGACAAAC
*
715194 TTCCGACGAAAAAACCCAGA
1 TTCCGGCGAAAAAACCCAGA
*
715214 TTCCGGCGACAAAACCCAGA
1 TTCCGGCGAAAAAACCCAGA
*
715234 ATCCGG
1 TTCCGG
715240 TGAATCTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.33, G:0.20, T:0.11
Consensus pattern (20 bp):
TTCCGGCGAAAAAACCCAGA
Found at i:715479 original size:5 final size:5
Alignment explanation
Indices: 715469--715493 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
715459 CCAGCCCCCT
715469 CCGAG CCGAG CCGAG CCGAG CCGAG
1 CCGAG CCGAG CCGAG CCGAG CCGAG
715494 TTGAGCTCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.40, G:0.40, T:0.00
Consensus pattern (5 bp):
CCGAG
Found at i:715594 original size:12 final size:12
Alignment explanation
Indices: 715577--715608 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
715567 GCTCCAGGTT
715577 TTTTTTTTTCAA
1 TTTTTTTTTCAA
*
715589 TTTTTTTTTGAA
1 TTTTTTTTTCAA
715601 TTTTTTTT
1 TTTTTTTT
715609 CGTTTATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.81
Consensus pattern (12 bp):
TTTTTTTTTCAA
Found at i:715635 original size:11 final size:11
Alignment explanation
Indices: 715576--715753 Score: 79
Period size: 11 Copynumber: 15.2 Consensus size: 11
715566 CGCTCCAGGT
715576 TTTTTTTTTTCAA
1 TTTTTTTTTT--A
*
715589 TTTTTTTTTGAA
1 TTTTTTTTT-TA
715601 TTTTTTTTCGTTTA
1 -TTTTTTT--TTTA
715615 TTTGTTTTTTTA
1 TTT-TTTTTTTA
715627 TTTTTTTTTTA
1 TTTTTTTTTTA
*
715638 TTTTTTTATTA
1 TTTTTTTTTTA
** ***
715649 GATTAGGTTTA
1 TTTTTTTTTTA
715660 TTTATTTTTTTTA
1 -TT-TTTTTTTTA
** *
715673 CCTTTATTTTA
1 TTTTTTTTTTA
*
715684 TTTTTATTTTTG
1 TTTTT-TTTTTA
** *
715696 TTTTACTTTTC
1 TTTTTTTTTTA
*
715707 TTTATTTTTTA
1 TTTTTTTTTTA
*
715718 -TTTTTATTTA
1 TTTTTTTTTTA
**
715728 TTTTCACTTTTA
1 TTTT-TTTTTTA
715740 TTTTTTTTATTA
1 TTTTTTTT-TTA
715752 TT
1 TT
715754 CTATTTTCTT
Statistics
Matches: 119, Mismatches: 35, Indels: 23
0.67 0.20 0.13
Matches are distributed among these distances:
10 8 0.07
11 50 0.42
12 29 0.24
13 25 0.21
14 5 0.04
15 2 0.02
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.77
Consensus pattern (11 bp):
TTTTTTTTTTA
Found at i:715688 original size:6 final size:6
Alignment explanation
Indices: 715656--715753 Score: 55
Period size: 6 Copynumber: 17.0 Consensus size: 6
715646 TTAGATTAGG
* ** * *
715656 TTTATT TATTTTT TTTACC TTTA-T TTTATT TTTATT TTT-GT TTTACT
1 TTTATT T-TTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* * * *
715703 TTTCTT TAT-TT TTTATT TTTA-- TTTATT TTCACT TTTATT TTT-TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
715747 TATTATT
1 T-TTATT
715754 CTATTTTCTT
Statistics
Matches: 69, Mismatches: 15, Indels: 15
0.70 0.15 0.15
Matches are distributed among these distances:
4 4 0.06
5 15 0.22
6 43 0.62
7 7 0.10
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:715715 original size:28 final size:27
Alignment explanation
Indices: 715660--715744 Score: 79
Period size: 28 Copynumber: 3.1 Consensus size: 27
715650 ATTAGGTTTA
715660 TTTA-TTTTTTTTACCTTTATTTTATT
1 TTTATTTTTTTTTACCTTTATTTTATT
715686 TTTATTTTTGTTTTA-CTTT-TCTTTATTT
1 TTTATTTTT-TTTTACCTTTAT-TTTA-TT
* *
715714 TTTATTTTTATTTA-TTTTCACTTTTATT
1 TTTATTTTTTTTTACCTTT-A-TTTTATT
715742 TTT
1 TTT
715745 TTTATTATTC
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
26 5 0.10
27 19 0.38
28 21 0.42
29 4 0.08
30 1 0.02
ACGTcount: A:0.14, C:0.07, G:0.01, T:0.78
Consensus pattern (27 bp):
TTTATTTTTTTTTACCTTTATTTTATT
Found at i:715721 original size:34 final size:31
Alignment explanation
Indices: 715679--715760 Score: 92
Period size: 34 Copynumber: 2.5 Consensus size: 31
715669 TTTACCTTTA
* *
715679 TTTTATTTTTATTTTTGTTTTACTTTTCTTTATT
1 TTTTATTTTTATTTTT-TTTCACTTTT-ATT-TT
*
715713 TTTTATTTTTATTTATTTTCACTTTTATTTT
1 TTTTATTTTTATTTTTTTTCACTTTTATTTT
715744 TTTTATTATTCTATTTT
1 TTTTATT-TT-TATTTT
715761 CTTTAAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
31 9 0.21
32 4 0.10
33 14 0.33
34 15 0.36
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.78
Consensus pattern (31 bp):
TTTTATTTTTATTTTTTTTCACTTTTATTTT
Found at i:715837 original size:60 final size:60
Alignment explanation
Indices: 715770--716124 Score: 438
Period size: 60 Copynumber: 5.9 Consensus size: 60
715760 TCTTTAAATA
715770 AAAATCAAAATTTCAAAAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAAT-AAAATTTCAAAAAAAATATTTTTAGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* *
715830 AAAATCAAAATTTCCAAAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTA
1 AAAAT-AAAATTTCAAAAAAAATATTTTTAGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
** * *
715890 AAAATAAAATTTCAAAAAAGGGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATAAAATTTCAAAAAA-AATATTTTTAGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* * *
715951 AAAATCAAAGTTTTC--AAAAAATATTTTT-GAGGAAAAGTTGAAAGTATCAATTTTTCTTA
1 AAAAT-AAA-ATTTCAAAAAAAATATTTTTAGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* *
716010 AAAATAAAATTTCAAAAAAAAAAAAGTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATAAAATTTC--AAAAAAAATA-TTTTTAGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* * * *
716073 AAGATAAAGGTTTC--AAAAAATA-TTTTCGGGGAAAAGTTGAAAGTATCAATTT
1 AAAATAAA-ATTTCAAAAAAAATATTTTTAGAGGAAAAGTTGAAAGTATCAATTT
716125 CCCCTGCACA
Statistics
Matches: 261, Mismatches: 23, Indels: 24
0.85 0.07 0.08
Matches are distributed among these distances:
57 4 0.02
58 31 0.12
59 47 0.18
60 83 0.32
61 44 0.17
62 8 0.03
63 40 0.15
64 4 0.02
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (60 bp):
AAAATAAAATTTCAAAAAAAATATTTTTAGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
Found at i:715999 original size:120 final size:119
Alignment explanation
Indices: 715768--716124 Score: 522
Period size: 121 Copynumber: 3.0 Consensus size: 119
715758 TTTCTTTAAA
*
715768 TAAAAATCAAAATTTCAAAAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTGAA
1 TAAAAAT-AAAATTTCAAAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAA
* *
715832 AATCAAAATTTCCAAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCT
65 AATCAAAGTTTTC-AAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCT
** *
715888 TAAAAATAAAATTTCAAAAAAGGGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAA
1 TAAAAATAAAATTTCAAAAAA-AATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAA
*
715953 AATCAAAGTTTTCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCT
65 AATCAAAGTTTTCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
*
716008 TAAAAATAAAATTTCAAAAAAAAAAAAGTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 TAAAAATAAAATTTC--AAAAAAAATA-TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* * * *
716073 AAGAT-AAAGGTTTCAAAAAATATTTTCGGGGAAAAGTTGAAAGTATCAATTT
63 AAAATCAAAGTTTTCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTT
716125 CCCCTGCACA
Statistics
Matches: 216, Mismatches: 15, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
119 14 0.06
120 68 0.31
121 87 0.40
122 47 0.22
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.34
Consensus pattern (119 bp):
TAAAAATAAAATTTCAAAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAA
ATCAAAGTTTTCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
Found at i:720014 original size:34 final size:32
Alignment explanation
Indices: 719988--720066 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 32
719978 TGAAAAATGG
719988 AAAAAAAAAAAAGAAAAAAGATGATGAAAAAA
1 AAAAAAAAAAAAGAAAAAAGATGATGAAAAAA
*
720020 AAAAAAAAAAAAGAAAAAA-A--A-GAAAGAA
1 AAAAAAAAAAAAGAAAAAAGATGATGAAAAAA
* *
720048 AGAAAAAAAAATGAAAAAA
1 AAAAAAAAAAAAGAAAAAA
720067 AAAAGAGATT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 23 0.52
29 1 0.02
31 1 0.02
32 19 0.43
ACGTcount: A:0.85, C:0.00, G:0.11, T:0.04
Consensus pattern (32 bp):
AAAAAAAAAAAAGAAAAAAGATGATGAAAAAA
Found at i:720018 original size:1 final size:1
Alignment explanation
Indices: 720014--720070 Score: 60
Period size: 1 Copynumber: 57.0 Consensus size: 1
720004 AAAGATGATG
* * * * **
720014 AAAAAAAAAAAAAAAAAAGAAAAAAAAGAAAGAAAGAAAAAAAAATGAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
720071 GAGATTCAAA
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.89, C:0.00, G:0.09, T:0.02
Consensus pattern (1 bp):
A
Found at i:720069 original size:32 final size:32
Alignment explanation
Indices: 719988--720074 Score: 97
Period size: 31 Copynumber: 2.7 Consensus size: 32
719978 TGAAAAATGG
* *
719988 AAAAAAAAAAAAGAAAAAAGATGATGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAGA-GAAGAAAAAAA
*
720021 AAAAAAAAAAAGAAAAAAAAGA-AAG-AAAGAA
1 AAAAAAAAAAA-AAAAAAAAGAGAAGAAAAAAA
**
720052 AAAAAAATGAAAAAAAAAAGAGA
1 AAAAAAAAAAAAAAAAAAAGAGA
720075 TTCAAATTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
30 10 0.21
31 15 0.32
32 2 0.04
33 11 0.23
34 9 0.19
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (32 bp):
AAAAAAAAAAAAAAAAAAAGAGAAGAAAAAAA
Found at i:721374 original size:42 final size:40
Alignment explanation
Indices: 721299--721403 Score: 151
Period size: 42 Copynumber: 2.6 Consensus size: 40
721289 ATGATTGTCA
*
721299 AGGAGCAATTTATTTTCCAAAGTTTCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAG-TTCGTTGCCTCTGTTTAG
721340 AGGAGCAATTTACTTTCTCAAAG-TCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTC-CAAAGTTCGT--TGCCTCTGTTTAG
721382 AGGAGCAATTTACTTT-CAAAGT
1 AGGAGCAATTTACTTTCCAAAGT
721404 CAATTTACTT
Statistics
Matches: 59, Mismatches: 1, Indels: 8
0.87 0.01 0.12
Matches are distributed among these distances:
40 9 0.15
41 16 0.27
42 34 0.58
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (40 bp):
AGGAGCAATTTACTTTCCAAAGTTCGTTGCCTCTGTTTAG
Found at i:721409 original size:17 final size:18
Alignment explanation
Indices: 721387--721422 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
721377 TTTAGAGGAG
721387 CAATTTAC-TTTCAAAGT
1 CAATTTACTTTTCAAAGT
721404 CAATTTACTTTTCAAAGT
1 CAATTTACTTTTCAAAGT
721422 C
1 C
721423 CTGGTGCCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.33, C:0.19, G:0.06, T:0.42
Consensus pattern (18 bp):
CAATTTACTTTTCAAAGT
Found at i:721436 original size:58 final size:60
Alignment explanation
Indices: 721345--721463 Score: 215
Period size: 58 Copynumber: 2.0 Consensus size: 60
721335 TTTAGAGGAG
*
721345 CAATTTACTTTCTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCAAAGT
1 CAATTTACTTTCTCAAAGTCCTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT
721404 CAATTTACTTT-TCAAAGTCCTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT
1 CAATTTACTTTCTCAAAGTCCTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT
721463 C
1 C
721464 CCGTTGCCTC
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
58 37 0.64
59 21 0.36
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (60 bp):
CAATTTACTTTCTCAAAGTCCTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT
Found at i:721487 original size:27 final size:27
Alignment explanation
Indices: 721456--721507 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
721446 AATTTACTTT
*
721456 TCAAAGTCCCGTTGCCTCTGTTTAGTC
1 TCAAAGTCCCGGTGCCTCTGTTTAGTC
***
721483 TCAAAGTTGTGGTGCCTCTGTTTAG
1 TCAAAGTCCCGGTGCCTCTGTTTAG
721508 AGGAGCAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (27 bp):
TCAAAGTCCCGGTGCCTCTGTTTAGTC
Found at i:721524 original size:68 final size:69
Alignment explanation
Indices: 721415--721549 Score: 227
Period size: 68 Copynumber: 2.0 Consensus size: 69
721405 AATTTACTTT
*
721415 TCAAAGTCCTGGTGCCTCTGTTTAGAGGAGCAATTTAC-TTTTCAAAGTCCCGTTGCCTCTGTTT
1 TCAAAGTCCTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCCCGTTGCCTCCGTTT
721479 AGTC
66 AGTC
** *
721483 TCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTTAAAGTCCCGTTGCCTCCGTTT
1 TCAAAGTCCTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCCCGTTGCCTCCGTTT
721548 AG
66 AG
721550 AGAAGCAATT
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
68 36 0.58
69 26 0.42
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (69 bp):
TCAAAGTCCTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCCCGTTGCCTCCGTTT
AGTC
Found at i:721589 original size:41 final size:41
Alignment explanation
Indices: 721483--721761 Score: 423
Period size: 41 Copynumber: 6.8 Consensus size: 41
721473 CTGTTTAGTC
*
721483 TCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTT
1 TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC-TTT
* ** * * *
721525 TTAAAGTCCCGTTGCCTCCGTTTAGAGAAGCAATTTACTTT
1 TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
721566 TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
1 TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
** *
721607 TCAAAGTCCCGTTGCCTCTGTTTAGAGGAGCAATTTACTTT
1 TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
721648 CTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
1 -TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
*
721690 TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTT
1 TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
* *
721731 TCAAAGTCGTTGAGCCTCTGTTTAGAGGAGC
1 TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
721762 TTTGGTAAAA
Statistics
Matches: 214, Mismatches: 22, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
41 145 0.68
42 69 0.32
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (41 bp):
TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
Found at i:721644 original size:124 final size:122
Alignment explanation
Indices: 721495--721761 Score: 426
Period size: 124 Copynumber: 2.2 Consensus size: 122
721485 AAAGTTGTGG
* * *
721495 TGCCTCTGTTTAGAGGAGCAATTTACTTTTTTAAAGTCCCGTTGCCTCCGTTTAGAGAAGCAATT
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAGTCCCGGTGCCTCCGTTTAGAGAAGCAATT
721560 TACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCCCGT
66 TACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT--CGT
** * *
721619 TGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATT
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAGTCCCGGTGCCTCCGTTTAGAGAAGCAATT
*
721684 TACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGT
66 TACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT
721741 TGAGCCTCTGTTTAGAGGAGC
1 T--GCCTCTGTTTAGAGGAGC
721762 TTTGGTAAAA
Statistics
Matches: 133, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
122 4 0.03
124 129 0.97
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (122 bp):
TGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAGTCCCGGTGCCTCCGTTTAGAGAAGCAATT
TACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT
Found at i:721653 original size:83 final size:83
Alignment explanation
Indices: 721481--721761 Score: 449
Period size: 83 Copynumber: 3.4 Consensus size: 83
721471 CTCTGTTTAG
* * *
721481 TCTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTTAAAGTCCCGTTGCCTCCGT
1 TCTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC-TTTTCAAAGTCCCGTTGCCTCTGT
*
721546 TTAGAGAAGCAATTTACTT
65 TTAGAGGAGCAATTTACTT
721565 T-TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCCCGTTGCCTCTGTT
1 TCTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCCCGTTGCCTCTGTT
721629 TAGAGGAGCAATTTACTT
66 TAGAGGAGCAATTTACTT
** *
721647 TCTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTT
1 TCTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCCCGTTGCCTCTGTT
721712 TAGAGGAGCAATTTA-TT
66 TAGAGGAGCAATTTACTT
* * *
721729 TTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGC
1 TCTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
721762 TTTGGTAAAA
Statistics
Matches: 186, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
82 73 0.39
83 112 0.60
84 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.37
Consensus pattern (83 bp):
TCTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCCCGTTGCCTCTGTT
TAGAGGAGCAATTTACTT
Found at i:721774 original size:1 final size:1
Alignment explanation
Indices: 721768--721920 Score: 63
Period size: 1 Copynumber: 153.0 Consensus size: 1
721758 GAGCTTTGGT
* ** ** ** ** **
721768 AAAAAAAAAAAAAAAAAAACAAAAAAGCAAAAAAATCAAAAAAATCAAAAAAATCAAAAAATCAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** ** ** ** * * ** *
721833 AAAATCAAAAAATCAAAAAATCAAAAAAAATCAAAAAAACAAAAAACAAAAAATCAAAAAATAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* **
721898 AAACAAAAAAAATCAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAA
721921 TGACAATGCT
Statistics
Matches: 109, Mismatches: 43, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 109 1.00
ACGTcount: A:0.82, C:0.10, G:0.01, T:0.07
Consensus pattern (1 bp):
A
Found at i:721793 original size:16 final size:16
Alignment explanation
Indices: 721768--721920 Score: 152
Period size: 16 Copynumber: 9.4 Consensus size: 16
721758 GAGCTTTGGT
721768 AAAAAAAAAAAA--AA
1 AAAAAAAAAAAATCAA
* *
721782 AAAAACAAAAAAGCAA
1 AAAAAAAAAAAATCAA
721798 AAAAATCAAAAAAATCAA
1 AAAAA--AAAAAAATCAA
*
721816 AAAAATCAAAAAATCAA
1 AAAAA-AAAAAAATCAA
**
721833 AAAATCAAAAAATCAA
1 AAAAAAAAAAAATCAA
721849 AAAATCAAAAAAAATCAA
1 AAAA--AAAAAAAATCAA
*
721867 AAAAACAAAAAA-CAA
1 AAAAAAAAAAAATCAA
**
721882 AAAATCAAAAAAT-AA
1 AAAAAAAAAAAATCAA
721897 AAAACAAAAAAAATCAA
1 AAAA-AAAAAAAATCAA
721914 AAAAAAA
1 AAAAAAA
721921 TGACAATGCT
Statistics
Matches: 118, Mismatches: 12, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
14 11 0.09
15 20 0.17
16 39 0.33
17 20 0.17
18 28 0.24
ACGTcount: A:0.82, C:0.10, G:0.01, T:0.07
Consensus pattern (16 bp):
AAAAAAAAAAAATCAA
Found at i:722120 original size:9 final size:10
Alignment explanation
Indices: 722108--722161 Score: 53
Period size: 9 Copynumber: 5.5 Consensus size: 10
722098 CTTTTTCTTT
722108 TGTATT-TTA
1 TGTATTATTA
722117 TGTATT-TTA
1 TGTATTATTA
722126 T-TATTTATTA
1 TGTA-TTATTA
722136 T-TATTATTA
1 TGTATTATTA
722145 TGTATTAATATA
1 TGTATT-AT-TA
722157 TGTAT
1 TGTAT
722162 ATCTTTATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
8 2 0.05
9 19 0.47
10 10 0.25
11 2 0.05
12 7 0.17
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (10 bp):
TGTATTATTA
Found at i:722132 original size:16 final size:16
Alignment explanation
Indices: 722113--722238 Score: 68
Period size: 16 Copynumber: 7.6 Consensus size: 16
722103 TCTTTTGTAT
722113 TTTATGTATT-TTATTA
1 TTTAT-TATTATTATTA
722129 TTTATTATTATTATTA
1 TTTATTATTATTATTA
* *
722145 TGTATTAATATATGTATATC
1 TTTATT-AT-TAT-TAT-TA
722165 TTTATTTATTTATTTATT-
1 TTTA-TTA-TTA-TTATTA
722183 TTT-TGT-TTATT-TTA
1 TTTAT-TATTATTATTA
722197 TTTA-TA-TAGTTATATA
1 TTTATTATTA-TTAT-TA
*
722213 TTTATTATTATAATTTA
1 TTTATTATTATTA-TTA
722230 TTTATTATT
1 TTTATTATT
722239 GTTTTTTTCT
Statistics
Matches: 88, Mismatches: 4, Indels: 35
0.69 0.03 0.28
Matches are distributed among these distances:
13 5 0.06
14 7 0.08
15 8 0.09
16 23 0.26
17 18 0.20
18 9 0.10
19 4 0.05
20 10 0.11
21 4 0.05
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.67
Consensus pattern (16 bp):
TTTATTATTATTATTA
Found at i:722174 original size:4 final size:4
Alignment explanation
Indices: 722165--722235 Score: 65
Period size: 4 Copynumber: 17.5 Consensus size: 4
722155 TATGTATATC
* * * *
722165 TTTA TTTA TTTA TTTA TTT- TTTG TTTA TTTTA TTTA TATA GTTA TATA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA
722213 TTTA -TTA TTATAA TTTA TTTA TT
1 TTTA TTTA TT-T-A TTTA TTTA TT
722236 ATTGTTTTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
3 6 0.11
4 40 0.73
5 6 0.11
6 3 0.05
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:722237 original size:28 final size:28
Alignment explanation
Indices: 722113--722237 Score: 89
Period size: 28 Copynumber: 4.4 Consensus size: 28
722103 TCTTTTGTAT
*
722113 TTTATGTATTTTATTATTTATTATTATTA
1 TTTATGTATTATATTATTTATTATT-TTA
*
722142 -TTATGTATTA-ATATATGTA-TATCTTTA
1 TTTATGTATTATAT-TATTTATTAT-TTTA
* * *
722169 TTTATTTATT-TATTTTTTGTTTATTTTA
1 TTTATGTATTATATTATTT-ATTATTTTA
* *
722197 TTTATATAGTTATA-TATTTATTATTATAA
1 TTTATGTA-TTATATTATTTATTATT-TTA
*
722226 TTTATTTATTAT
1 TTTATGTATTAT
722238 TGTTTTTTTC
Statistics
Matches: 76, Mismatches: 11, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
27 11 0.14
28 45 0.59
29 18 0.24
30 2 0.03
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.66
Consensus pattern (28 bp):
TTTATGTATTATATTATTTATTATTTTA
Found at i:722863 original size:20 final size:20
Alignment explanation
Indices: 722820--722863 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
722810 CCGACGAACT
*
722820 TCCGACGAAAAAACCTAGAT
1 TCCGACGAAAAAACCTAGAA
*
722840 TCCGACGACAAAATCC-AGAA
1 TCCGACGA-AAAAACCTAGAA
722860 TCCG
1 TCCG
722864 GTGAATCTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.41, C:0.30, G:0.16, T:0.14
Consensus pattern (20 bp):
TCCGACGAAAAAACCTAGAA
Found at i:723227 original size:12 final size:12
Alignment explanation
Indices: 723188--723219 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
723178 CGCTCCAGGT
723188 TTTTTTTTTTCAA
1 TTTTTTTTTTC-A
723201 TTTTTTTTTTCA
1 TTTTTTTTTTCA
723213 TTTTTTT
1 TTTTTTT
723220 GTTTATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTTTTTCA
Found at i:723301 original size:21 final size:20
Alignment explanation
Indices: 723273--723346 Score: 64
Period size: 21 Copynumber: 3.8 Consensus size: 20
723263 TCTTTTTATC
723273 TTTATTTTATTTATTTTTGT
1 TTTATTTTATTTATTTTTGT
*
723293 TTTACTTTTCTTTA-TTTT-T
1 TTTA-TTTTATTTATTTTTGT
* **
723312 TAT-TTTTATTTATTTTCACT
1 TTTATTTTATTTATTTT-TGT
*
723332 TTTATTTTTTTTATT
1 TTTATTTTATTTATT
723347 ATTCTATTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
17 8 0.19
18 3 0.07
19 3 0.07
20 11 0.26
21 18 0.42
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.78
Consensus pattern (20 bp):
TTTATTTTATTTATTTTTGT
Found at i:723318 original size:17 final size:17
Alignment explanation
Indices: 723282--723343 Score: 67
Period size: 17 Copynumber: 3.8 Consensus size: 17
723272 CTTTATTTTA
723282 TTTATTT-TTGTTTTACT
1 TTTATTTATT-TTTTACT
* *
723299 TTTCTTTATTTTTTATT
1 TTTATTTATTTTTTACT
*
723316 TTTATTTA-TTTTCACT
1 TTTATTTATTTTTTACT
723332 TTTATTT-TTTTT
1 TTTATTTATTTTT
723344 ATTATTCTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
16 17 0.45
17 19 0.50
18 2 0.05
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.79
Consensus pattern (17 bp):
TTTATTTATTTTTTACT
Found at i:723429 original size:60 final size:59
Alignment explanation
Indices: 723364--723661 Score: 404
Period size: 61 Copynumber: 4.9 Consensus size: 59
723354 TTTCTTTAAA
723364 TAAAAATCAAAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAAT-AAAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT
* *
723424 TAAAAAT-AAATTTCAAAAAAAGGGTTTTTTTTA-GGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAAATTTCAAAAAAA---ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT
* *
723484 TGAAAATCAAAATTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAAT-AAAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT
** * *
723544 TAAAAATAAAATTTCAAAAAATGGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAAATTTCAAAAAA-AATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCT
*
723605 TAAAAATAAAATTTCAAAAAAAA-AGGTTTTTTGAGGAAAAGTTGAAAGTATCAATTT
1 TAAAAATAAAATTTCAAAAAAAATA--TTTTTAG-GGAAAAGTTGAAAGTATCAATTT
723662 CCCCTGCACA
Statistics
Matches: 213, Mismatches: 15, Indels: 19
0.86 0.06 0.08
Matches are distributed among these distances:
58 14 0.07
59 20 0.09
60 80 0.38
61 86 0.40
62 13 0.06
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (59 bp):
TAAAAATAAAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT
Found at i:723505 original size:120 final size:121
Alignment explanation
Indices: 723364--723661 Score: 487
Period size: 120 Copynumber: 2.5 Consensus size: 121
723354 TTTCTTTAAA
*
723364 TAAAAATCAAAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAA
1 TAAAAATCAAAATTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAA
723429 AT-AAATTTCAAAAAAAGGGTTTTTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCT
66 ATAAAATTTC-AAAAAAGGGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
*
723484 TGAAAATCAAAATTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAA
1 TAAAAATCAAAATTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAA
*
723549 ATAAAATTTCAAAAAATGGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
66 ATAAAATTTCAAAAAAGGGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
* *
723605 TAAAAAT-AAAATTT-CAAAAAAAAAGGTTTTTTGAGGAAAAGTTGAAAGTATCAATTT
1 TAAAAATCAAAATTTCCAAAAAAATA--TTTTTAG-GGAAAAGTTGAAAGTATCAATTT
723662 CCCCTGCACA
Statistics
Matches: 167, Mismatches: 6, Indels: 8
0.92 0.03 0.04
Matches are distributed among these distances:
119 9 0.05
120 88 0.53
121 47 0.28
122 23 0.14
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (121 bp):
TAAAAATCAAAATTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAA
ATAAAATTTCAAAAAAGGGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
Found at i:723676 original size:60 final size:61
Alignment explanation
Indices: 723364--723661 Score: 400
Period size: 60 Copynumber: 4.9 Consensus size: 61
723354 TTTCTTTAAA
*
723364 TAAAAATCAAAATTTCAAAAAAAATA--TTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAAT-AAAATTTCAAAAAAAA-AGGTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
* *
723424 TAAAAAT-AAATTTC-AAAAAAAGGGTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAAATTTCAAAAAAAAAGG-TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
* * *
723484 TGAAAATCAAAATTTCCAAAAAAATA--TTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAAT-AAAATTT-CAAAAAAAAAGGTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
*
723544 TAAAAATAAAATTTC--AAAAAATGGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAAATTTCAAAAAAAAAGG--TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
723605 TAAAAATAAAATTTCAAAAAAAAAGGTTTTTTGAGGAAAAGTTGAAAGTATCAATTT
1 TAAAAATAAAATTTCAAAAAAAAAGGTTTTTTGAGGAAAAGTTGAAAGTATCAATTT
723662 CCCCTGCACA
Statistics
Matches: 210, Mismatches: 13, Indels: 29
0.83 0.05 0.12
Matches are distributed among these distances:
56 5 0.02
57 7 0.03
58 8 0.04
59 12 0.06
60 79 0.38
61 78 0.37
62 6 0.03
63 9 0.04
64 6 0.03
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (61 bp):
TAAAAATAAAATTTCAAAAAAAAAGGTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
Found at i:728091 original size:36 final size:35
Alignment explanation
Indices: 728034--728102 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 35
728024 ATATATAAAC
728034 CAAATGTTTTTTGGGCATAAATATACAACTGACAG
1 CAAATGTTTTTTGGGCATAAATATACAACTGACAG
*
728069 CAAATGTTTTTCTGGGCATAAATCTACAACTGAC
1 CAAATGTTTTT-TGGGCATAAATATACAACTGAC
728103 TTCACATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (35 bp):
CAAATGTTTTTTGGGCATAAATATACAACTGACAG
Found at i:729550 original size:19 final size:20
Alignment explanation
Indices: 729521--729562 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
729511 TTTCTTAATT
729521 TTTATAAAATTAATAAATAA
1 TTTATAAAATTAATAAATAA
* *
729541 TTTA-AAAATTCATAAATTA
1 TTTATAAAATTAATAAATAA
729560 TTT
1 TTT
729563 TATGTCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTATAAAATTAATAAATAA
Found at i:729742 original size:17 final size:17
Alignment explanation
Indices: 729722--729754 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
729712 GTTGTTAATT
*
729722 ATTTATATAATAATAAA
1 ATTTATAAAATAATAAA
729739 ATTTATAAAATAATAA
1 ATTTATAAAATAATAA
729755 TTTTTAATTC
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:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
ATTTATAAAATAATAAA
Found at i:729760 original size:17 final size:17
Alignment explanation
Indices: 729717--729760 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
729707 ATTTAGTTGT
*
729717 TAATTATTTATATAATAA
1 TAATT-TTTATAAAATAA
**
729735 TAAAATTTATAAAATAA
1 TAATTTTTATAAAATAA
729752 TAATTTTTA
1 TAATTTTTA
729761 ATTCATAATA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TAATTTTTATAAAATAA
Found at i:732099 original size:18 final size:18
Alignment explanation
Indices: 732072--732107 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
732062 TATTTTATAA
*
732072 TAATATATTTATAAAAAT
1 TAATAAATTTATAAAAAT
*
732090 TAATAAATTTTTAAAAAT
1 TAATAAATTTATAAAAAT
732108 CTATCCTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TAATAAATTTATAAAAAT
Found at i:733228 original size:13 final size:13
Alignment explanation
Indices: 733195--733244 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
733185 GAAGTTTTTT
733195 ATTGAAAATATTAA
1 ATTGAAAAT-TTAA
*
733209 A-TAAAAATTTAA
1 ATTGAAAATTTAA
*
733221 ATTGAAAATCTAA
1 ATTGAAAATTTAA
733234 ATTGATAAATT
1 ATTGA-AAATT
733245 AAAAAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
12 5 0.17
13 20 0.67
14 5 0.17
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (13 bp):
ATTGAAAATTTAA
Found at i:734916 original size:19 final size:19
Alignment explanation
Indices: 734894--734930 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
734884 TTTATATATA
*
734894 ATAGTTTAGTATGAAAAAT
1 ATAGTTTAATATGAAAAAT
*
734913 ATAGTTTAATATTAAAAA
1 ATAGTTTAATATGAAAAA
734931 GATTACAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (19 bp):
ATAGTTTAATATGAAAAAT
Found at i:736395 original size:30 final size:28
Alignment explanation
Indices: 736353--736410 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 28
736343 TGTTTGGTCA
**
736353 CTTAAAATATTAATTTTTAATAAAAAAT
1 CTTAAAATATTAAGATTTAATAAAAAAT
*
736381 CTTAAAATTAATTAAGATTTACTAAAAAAT
1 CTTAAAA-T-ATTAAGATTTAATAAAAAAT
736411 ATTTTAGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 7 0.28
29 1 0.04
30 17 0.68
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (28 bp):
CTTAAAATATTAAGATTTAATAAAAAAT
Found at i:738494 original size:2 final size:2
Alignment explanation
Indices: 738489--738527 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
738479 TGTGTGTGTC
738489 TA TA 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 TA TA T
738528 TAGAATGCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:744606 original size:3 final size:3
Alignment explanation
Indices: 744598--744623 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
744588 CTAATCAATA
744598 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
744624 ATAAATAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:745025 original size:11 final size:11
Alignment explanation
Indices: 745009--745033 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
744999 TTTCACTGGA
745009 TTCTGGAAATT
1 TTCTGGAAATT
745020 TTCTGGAAATT
1 TTCTGGAAATT
745031 TTC
1 TTC
745034 CAAAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.48
Consensus pattern (11 bp):
TTCTGGAAATT
Found at i:745497 original size:6 final size:6
Alignment explanation
Indices: 745488--745517 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
745478 TTATAAATAG
745488 ATAAAA ATAAAAA ATAAAA ATAAAA ATAAA
1 ATAAAA AT-AAAA ATAAAA ATAAAA ATAAA
745518 TAAATGGACT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
ATAAAA
Found at i:745522 original size:14 final size:14
Alignment explanation
Indices: 745451--745521 Score: 54
Period size: 14 Copynumber: 5.0 Consensus size: 14
745441 AAAAAAGATT
* *
745451 AATAGATAAATAAT
1 AATAAATAAATAAA
* **
745465 AATAAATATATATT
1 AATAAATAAATAAA
* *
745479 TATAAATAGATAAA
1 AATAAATAAATAAA
745493 AATAAA-AAATAAA
1 AATAAATAAATAAA
745506 AATAAAAATAAATAAA
1 AAT--AAATAAATAAA
745522 TGGACTTACC
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
13 9 0.20
14 26 0.58
15 3 0.07
16 7 0.16
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (14 bp):
AATAAATAAATAAA
Found at i:747333 original size:13 final size:12
Alignment explanation
Indices: 747315--747353 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
747305 ATTTTTTTAT
747315 TAAAAATATTAAA
1 TAAAAAT-TTAAA
*
747328 TAAAAATTTATAT
1 TAAAAATTTA-AA
747341 TAAAAATTTAAA
1 TAAAAATTTAAA
747353 T
1 T
747354 TGATGAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 5 0.22
13 18 0.78
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
TAAAAATTTAAA
Found at i:749320 original size:19 final size:19
Alignment explanation
Indices: 749296--749332 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
749286 CCATCCTTGA
*
749296 TTTTTTTTATTTTCTGTTC
1 TTTTTTGTATTTTCTGTTC
*
749315 TTTTTTGTATTTTTTGTT
1 TTTTTTGTATTTTCTGTT
749333 TTATATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.05, C:0.05, G:0.08, T:0.81
Consensus pattern (19 bp):
TTTTTTGTATTTTCTGTTC
Found at i:749355 original size:32 final size:32
Alignment explanation
Indices: 749317--749383 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
749307 TTCTGTTCTT
**
749317 TTTTGTATT-TTTTGTTTTATATTTTTTATGTA
1 TTTTGTATTATTTT-TGGTATATTTTTTATGTA
*
749349 TTTTGTATTATTTTTGGTATATTTTTTGTGTA
1 TTTTGTATTATTTTTGGTATATTTTTTATGTA
749381 TTT
1 TTT
749384 CATATTTTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 27 0.87
33 4 0.13
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.73
Consensus pattern (32 bp):
TTTTGTATTATTTTTGGTATATTTTTTATGTA
Found at i:749375 original size:23 final size:23
Alignment explanation
Indices: 749322--749395 Score: 60
Period size: 23 Copynumber: 3.0 Consensus size: 23
749312 TTCTTTTTTG
* *
749322 TATTTTTTGTTTTATATTTTTTA
1 TATTTTTTGTATTATATTTTGTA
* *
749345 TGTATTTTGTATTAT-TTTTGGTA
1 TATTTTTTGTATTATATTTT-GTA
749368 TATTTTTTGTGTATTTCATATTTTGTA
1 TA-TTTTT-TGTA-TT-ATATTTTGTA
749395 T
1 T
749396 TTAATAATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
22 4 0.10
23 15 0.38
24 4 0.10
25 4 0.10
26 2 0.05
27 6 0.15
28 4 0.10
ACGTcount: A:0.18, C:0.01, G:0.11, T:0.70
Consensus pattern (23 bp):
TATTTTTTGTATTATATTTTGTA
Found at i:749984 original size:5 final size:5
Alignment explanation
Indices: 749974--750035 Score: 56
Period size: 5 Copynumber: 11.8 Consensus size: 5
749964 TGTTTAATAC
749974 TTTTA TTTTA TTTT- TCTTTA TTTTTA TTTTCAA TTTTTA TTTTA TTTT-
1 TTTTA TTTTA TTTTA T-TTTA -TTTTA TTTT--A -TTTTA TTTTA TTTTA
*
750022 TTTAA TTTTA TTTT
1 TTTTA TTTTA TTTT
750036 CTTTAAATTA
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
4 4 0.08
5 33 0.69
6 5 0.10
7 2 0.04
8 4 0.08
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:750013 original size:34 final size:32
Alignment explanation
Indices: 749974--750036 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
749964 TGTTTAATAC
*
749974 TTTTATTTTATTTTTCTTTATTTTTATTTTCAAT
1 TTTTATTTTA-TTTT-TTTAATTTTATTTTCAAT
750008 TTTTATTTTATTTTTTTAATTTTATTTTC
1 TTTTATTTTATTTTTTTAATTTTATTTTC
750037 TTTAAATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 14 0.50
33 4 0.14
34 10 0.36
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (32 bp):
TTTTATTTTATTTTTTTAATTTTATTTTCAAT
Found at i:750014 original size:19 final size:19
Alignment explanation
Indices: 749974--750035 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
749964 TGTTTAATAC
749974 TTTTATTTTAT-TTTTC--
1 TTTTATTTTATATTTTCAA
749990 -TTTATTTT-TATTTTCAA
1 TTTTATTTTATATTTTCAA
* *
750007 TTTTTATTTTATTTTTTTAA
1 -TTTTATTTTATATTTTCAA
750027 TTTTATTTT
1 TTTTATTTT
750036 CTTTAAATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
14 1 0.03
15 13 0.34
19 17 0.45
20 7 0.18
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTATTTTATATTTTCAA
Found at i:750023 original size:13 final size:13
Alignment explanation
Indices: 749994--750040 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
749984 TTTTTCTTTA
*
749994 TTTTTATTTTCA-A
1 TTTTTATTTT-ATT
750007 TTTTTATTTTATT
1 TTTTTATTTTATT
750020 TTTTTAATTTTATT
1 TTTTT-ATTTTATT
750034 TTCTTTA
1 TT-TTTA
750041 AATTAAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 1 0.03
13 15 0.50
14 11 0.37
15 3 0.10
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTATTTTATT
Found at i:750159 original size:60 final size:57
Alignment explanation
Indices: 750059--750329 Score: 386
Period size: 56 Copynumber: 4.7 Consensus size: 57
750049 TAAAAAACAT
* *
750059 ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTTTCAAAAAA
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAG--TTTCAAAAAA
750118 ATATTTTTGAGGAAAAGTTGAAAAGTATCAATTTTCCTTGAAAATAAGTTTTTCAAAAAAA
1 ATATTTTTGAGGAAAAGTTG-AAAGTATCAATTTTCCTTGAAAATAAG--TTTC-AAAAAA
* *
750179 AGTATTTTTGAGG-AAAGTTGAAAGTATCAATTTT-CTTAAAAATAAGTTTCTAAAAA
1 A-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTCAAAAAA
* *
750235 ATATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTAAAAATAAGTTTCAAAAAA
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTCAAAAAA
* *
750292 ATA-TTTTGAGAAAAAGTTGAAAGTATTAATTTTCCTTG
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
750330 TAACAAAAGC
Statistics
Matches: 197, Mismatches: 10, Indels: 13
0.90 0.05 0.06
Matches are distributed among these distances:
55 11 0.06
56 57 0.29
57 28 0.14
59 30 0.15
60 46 0.23
61 14 0.07
62 11 0.06
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.38
Consensus pattern (57 bp):
ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTCAAAAAA
Found at i:756534 original size:17 final size:16
Alignment explanation
Indices: 756492--756537 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
756482 TTTATTTATT
*
756492 TTTTTATTTAATATTA
1 TTTTTATTTAATAATA
*
756508 TTTTAAATTTAATAAATA
1 TTTT-TATTTAAT-AATA
756526 TTTTTATTTAAT
1 TTTTTATTTAAT
756538 TATTTTGTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 4 0.16
17 14 0.56
18 7 0.28
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTTTATTTAATAATA
Found at i:757479 original size:22 final size:22
Alignment explanation
Indices: 757451--757496 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
757441 GGGGTTTTAG
*
757451 TTTTTTTGCCGTTTAGCGGCGT
1 TTTTTTTACCGTTTAGCGGCGT
757473 TTTTTTTACCGTTTAGCGGCGT
1 TTTTTTTACCGTTTAGCGGCGT
757495 TT
1 TT
757497 ATTGATGCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.07, C:0.17, G:0.24, T:0.52
Consensus pattern (22 bp):
TTTTTTTACCGTTTAGCGGCGT
Found at i:765245 original size:357 final size:356
Alignment explanation
Indices: 764445--766053 Score: 2004
Period size: 357 Copynumber: 4.5 Consensus size: 356
764435 TGAAAATATT
* * * * ** * **
764445 GCCACACAAATTCTAACACTATTATTGAAAGCATTTATCCAAGAAAGACACCTTTAATAATTCCT
1 GCCACACAAATTGTAACACTATTATTGAAGGCGTATATTTAAGATAGATGCCTTTAATAATTCCT
* *
764510 ATCACAGTTTGTAGT-TAATTACTGAAGGC-AGTTGCAGAAAACAACACTTTCAATAATTTCTCT
66 ATCACAGTTTGTA-TATAATTACTGAAGGCGA-TTTCAGAAAACAACACTTT-AATAATTTCCCT
* * * *
764573 AAAAAAATTTTCTCGGATTATTAAAGGCATCTTTTATTATGACACACCTTCAATATACCATGATG
128 AAAAAAATTTTTTCGGATTATTAAAGGCATCTTTTATTATAAAACACCTTCAATATACCACGATG
* * ** *
764638 GTAATGAAAGGTGTTTATTAGAAAAGGTGCCTTTAATATACCTTTAAACTTAGTAAT-CATTACT
193 GTAATGGAAGGCGTTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACT
* * *
764702 GAAGGCGTTTGTTAATAATAGACGCCTTTAAAATTTTCCCACTAAATATTTTG-GAAATTATTAA
258 GAAGGCATTTGTTAATAACAGACGCCTTCAAAATTTTCCCACTAAATATTTTGAG-AATTATTAA
* * * *
764766 AAGCAT-TTTTATTGTAAAATACTTTCTATATACC
322 AAGCGTCTTCTACTGTAAAATACCTTCTATATACC
* *
764800 GCTCACACAAATTGTAATACCATTATTGAAGGCGTATATTTAAGATAGATGCCTTTAATAATTCC
1 GC-CACACAAATTGTAACACTATTATTGAAGGCGTATATTTAAGATAGATGCCTTTAATAATTCC
* *
764865 TATCACAGTTTGTATACAATTACTGAAGGCGATTTTAGAAAACAACATCTTTAATAATTTCCCTA
65 TATCACAGTTTGTATATAATTACTGAAGGCGATTTCAGAAAACAACA-CTTTAATAATTTCCCTA
** *** * * ** **
764930 AAAATTTTTTTTTAAATTATTAAAGGCGTTTTTTATTATAAAACGTCTTCAATATACCATAATGG
129 AAAAAATTTTTTCGGATTATTAAAGGCATCTTTTATTATAAAACACCTTCAATATACCACGATGG
**
764995 TAATGGAAGGCGTTTATTAGAAAAGGTGCCTTCAATATACCTTTAAACTTAGTAATCCATTACTG
194 TAATGGAAGGCGTTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTG
* * *
765060 AAGGCATTTGTTAATAACAAACGCCTTCAAAATTTTCTCACTAAATAGTTTGAGAATTATTAAAA
259 AAGGCATTTGTTAATAACAGACGCCTTCAAAATTTTCCCACTAAATATTTTGAGAATTATTAAAA
* * * * * *
765125 GTGTCTTTTATTGTAAAATGCCTTATATATATC
324 GCGTCTTCTACTGTAAAATACCTTCTATATACC
* *
765158 GCCACACAAATTGTAACACTATTATTGAAGGCGTATATTTAAGATAGATGCCTTTAACAATTCTT
1 GCCACACAAATTGTAACACTATTATTGAAGGCGTATATTTAAGATAGATGCCTTTAATAATTCCT
**
765223 ATCACAGTTTGTATATAATTACTGAAGGC-AGTTTTGGAAAACAACACTTTCAATAATTTCCCTA
66 ATCACAGTTTGTATATAATTACTGAAGGCGA-TTTCAGAAAACAACACTTT-AATAATTTCCCTA
** * *
765287 AAAATTTTTTTTTGGATTATTAAAGGCATATTTTATTATAAAACACCTTCAATATACCACGATGG
129 AAAAAATTTTTTCGGATTATTAAAGGCATCTTTTATTATAAAACACCTTCAATATACCACGATGG
765352 TAATGGAAGGCGTTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTG
194 TAATGGAAGGCGTTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTG
* * **
765417 ATGGCATTTGTTAATAATAGACGCCTTCAAAATTTTTTCACTAAATATTTT-AGGAATTATTAAA
259 AAGGCATTTGTTAATAACAGACGCCTTCAAAATTTTCCCACTAAATATTTTGA-GAATTATTAAA
*
765481 GGCGTCTTCTACTGTAAAATACCTTCTATATACC
323 AGCGTCTTCTACTGTAAAATACCTTCTATATACC
* * * * * ** * *
765515 ACCACATAGATTTTAACACTGTTATTGAAGGCGTATATCCAAGAAAGCTGCCTTTAATAATTCCT
1 GCCACACAAATTGTAACACTATTATTGAAGGCGTATATTTAAGATAGATGCCTTTAATAATTCCT
* * * * * *
765580 ATCATAGTTTGTAGT-TAATTACTAAAGGCGGTTGCAGAAAACAATGC-CTTCAATAATTTTCCT
66 ATCACAGTTTGTA-TATAATTACTGAAGGCGATTTCAGAAAACAA--CACTTTAATAATTTCCCT
* * * * ** * * **
765643 ACAAAACTTTTCTCGAATTATTAAAGGTGTCTTTTATTATGATATGCCTTCAATATACCACGATG
128 AAAAAAATTTTTTCGGATTATTAAAGGCATCTTTTATTATAAAACACCTTCAATATACCACGATG
* * *
765708 GTAATGGAAGGCATTTATTAGAAGAA-GCACTTTTAATATACCTTTAAACTTAGTAATCCATTAC
193 GTAATGGAAGGCGTTTATTAGAA-AAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATTAC
* * * *
765772 TGAAAGCATTTGTTAATAACAGATGCCTTCAAAATTTTCCCACTAAATATTTTGGGAATTGTTAA
257 TGAAGGCATTTGTTAATAACAGACGCCTTCAAAATTTTCCCACTAAATATTTTGAGAATTATTAA
* * *
765837 AGGTGTCTTCTACTGTAAAATGCCTTCTATATACC
322 AAGCGTCTTCTACTGTAAAATACCTTCTATATACC
* * *
765872 -AC-CACAAATTGTAACACTATTATTGAAGGCGTATATTTAAGATAGACGCCTTTAATAATTTCT
1 GCCACACAAATTGTAACACTATTATTGAAGGCGTATATTTAAGATAGATGCCTTTAATAATTCCT
* *
765935 ATCATAGTTTGTATATAATTACTGAATGCGATTTCA-AATAACAATGC-CTTTAATAATTTCCCT
66 ATCACAGTTTGTATATAATTACTGAAGGCGATTTCAGAA-AACAA--CACTTTAATAATTTCCCT
*
765998 AAAAAGAATTTTTTCGGATTATTAAAGGCATCTTTTATTATAAACCACCTTCAATA
128 AAAAA-AATTTTTTCGGATTATTAAAGGCATCTTTTATTATAAAACACCTTCAATA
766054 ATTTGTTATA
Statistics
Matches: 1091, Mismatches: 144, Indels: 37
0.86 0.11 0.03
Matches are distributed among these distances:
354 3 0.00
355 110 0.10
356 255 0.23
357 689 0.63
358 33 0.03
359 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (356 bp):
GCCACACAAATTGTAACACTATTATTGAAGGCGTATATTTAAGATAGATGCCTTTAATAATTCCT
ATCACAGTTTGTATATAATTACTGAAGGCGATTTCAGAAAACAACACTTTAATAATTTCCCTAAA
AAAATTTTTTCGGATTATTAAAGGCATCTTTTATTATAAAACACCTTCAATATACCACGATGGTA
ATGGAAGGCGTTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAA
GGCATTTGTTAATAACAGACGCCTTCAAAATTTTCCCACTAAATATTTTGAGAATTATTAAAAGC
GTCTTCTACTGTAAAATACCTTCTATATACC
Found at i:770105 original size:36 final size:35
Alignment explanation
Indices: 770051--770119 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
770041 ATATATAAAC
* * *
770051 CAAATGTTTTTTGGGCATAAATATACAACTGACAG
1 CAAACGTTTTTTAGGCATAAACATACAACTGACAG
*
770086 CAAACGTTTTTCTAGGCATAAACCTACAACTGAC
1 CAAACGTTTTT-TAGGCATAAACATACAACTGAC
770120 TTCACATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 10 0.34
36 19 0.66
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.29
Consensus pattern (35 bp):
CAAACGTTTTTTAGGCATAAACATACAACTGACAG
Found at i:771828 original size:17 final size:17
Alignment explanation
Indices: 771808--771840 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
771798 GTTGTTAATT
*
771808 ATTTATATAATAATAAA
1 ATTTATAAAATAATAAA
771825 ATTTATAAAATAATAA
1 ATTTATAAAATAATAA
771841 TTTTTAATTC
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:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
ATTTATAAAATAATAAA
Found at i:771846 original size:17 final size:17
Alignment explanation
Indices: 771803--771846 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
771793 ATTTAGTTGT
*
771803 TAATTATTTATATAATAA
1 TAATT-TTTATAAAATAA
**
771821 TAAAATTTATAAAATAA
1 TAATTTTTATAAAATAA
771838 TAATTTTTA
1 TAATTTTTA
771847 ATTCATAATA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TAATTTTTATAAAATAA
Found at i:775331 original size:20 final size:22
Alignment explanation
Indices: 775296--775353 Score: 75
Period size: 20 Copynumber: 2.7 Consensus size: 22
775286 TATTAAAAAA
*
775296 ATTTTAATTATTTAAAATTATT
1 ATTTTAATTATTTAAAATAATT
775318 ATTTT-ATT-TTTAAAATAATT
1 ATTTTAATTATTTAAAATAATT
*
775338 ATTTTTTATTATTTAA
1 A-TTTTAATTATTTAA
775354 TTCATTTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
20 12 0.38
21 7 0.22
22 8 0.25
23 5 0.16
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTTTAATTATTTAAAATAATT
Found at i:778396 original size:24 final size:24
Alignment explanation
Indices: 778347--778393 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
778337 ATTTACCCAA
*
778347 ATGAAATTATAAAATATTATTTTT
1 ATGAAATCATAAAATATTATTTTT
778371 ATGAAATCAT-AAATATTATTTTT
1 ATGAAATCATAAAATATTATTTTT
778394 TATTTAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (24 bp):
ATGAAATCATAAAATATTATTTTT
Found at i:778405 original size:22 final size:23
Alignment explanation
Indices: 778347--778396 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
778337 ATTTACCCAA
778347 ATGAAATTATAAAATATTA-TTTTT
1 ATGAAA-TAT-AAATATTATTTTTT
778371 ATGAAATCATAAATATTATTTTTT
1 ATGAAAT-ATAAATATTATTTTTT
778395 AT
1 AT
778397 TTAATTAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (23 bp):
ATGAAATATAAATATTATTTTTT
Found at i:778939 original size:2 final size:2
Alignment explanation
Indices: 778932--778960 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
778922 TGTATGTGTC
778932 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
778961 TAGAATGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:780920 original size:54 final size:55
Alignment explanation
Indices: 780860--780968 Score: 157
Period size: 55 Copynumber: 2.0 Consensus size: 55
780850 AACAACTCAA
* * * *
780860 CTTAAATTTTTATATTTTGTAAT-TGGATATTGATTTAACAAAAATAATTTTTAC
1 CTTAAATTTTTATATTTTGCAATGTGGACATTAATTTAACAAAAATAATTATTAC
* *
780914 CTTAAATTTTTATATTTTGCAATGTGGACATTAATTTAATAAAGATAATTATTAC
1 CTTAAATTTTTATATTTTGCAATGTGGACATTAATTTAACAAAAATAATTATTAC
780969 TATTGATGTG
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
54 22 0.46
55 26 0.54
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (55 bp):
CTTAAATTTTTATATTTTGCAATGTGGACATTAATTTAACAAAAATAATTATTAC
Found at i:785069 original size:3 final size:3
Alignment explanation
Indices: 785061--785086 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
785051 CTAATCAATA
785061 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
785087 ATAAATAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:785876 original size:24 final size:24
Alignment explanation
Indices: 785849--785959 Score: 116
Period size: 24 Copynumber: 4.4 Consensus size: 24
785839 ATATACATTG
785849 ATAATAAAAAATATATATTAATAA
1 ATAATAAAAAATATATATTAATAA
*
785873 ATAATAAAAACATATATATATTAATAG
1 ATAAT-AAAA-A-ATATATATTAATAA
* *
785900 ATAAATAAAAAAGAT-TAATAGATAA
1 AT-AATAAAAAATATATATTA-ATAA
* *
785925 ATAATAATAAATATATATTTATAA
1 ATAATAAAAAATATATATTAATAA
785949 ATAGATAAAAA
1 ATA-ATAAAAA
785960 TAAAAAATAA
Statistics
Matches: 71, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
24 26 0.37
25 21 0.30
26 2 0.03
27 19 0.27
28 3 0.04
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.32
Consensus pattern (24 bp):
ATAATAAAAAATATATATTAATAA
Found at i:785962 original size:6 final size:6
Alignment explanation
Indices: 785953--785982 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
785943 TTATAAATAG
785953 ATAAAA ATAAAAA ATAAAA ATAAAA ATAAA
1 ATAAAA AT-AAAA ATAAAA ATAAAA ATAAA
785983 TAAATGAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
ATAAAA
Found at i:785964 original size:55 final size:52
Alignment explanation
Indices: 785851--785982 Score: 148
Period size: 52 Copynumber: 2.6 Consensus size: 52
785841 ATACATTGAT
* * *
785851 AATAAAAAATATATATTAATAAATAATAAAAACATATATATATTAATAGATA
1 AATAAAAAAGATATAATAATAAATAATAAAAACATATATATATAAATAGATA
* *
785903 AATAAAAAAGAT-TAATAGATAAATAATAATAAATATATATTTATAAATAGATA
1 AATAAAAAAGATATAATA-ATAAATAATAA-AAACATATATATATAAATAGATA
*
785956 AA-AATAAAA-A-ATAAAAATAAA-AATAAA
1 AATAA-AAAAGATATAATAATAAATAATAAA
785983 TAAATGAACT
Statistics
Matches: 70, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
49 1 0.01
50 5 0.07
51 9 0.13
52 29 0.41
53 26 0.37
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (52 bp):
AATAAAAAAGATATAATAATAAATAATAAAAACATATATATATAAATAGATA
Found at i:785980 original size:53 final size:51
Alignment explanation
Indices: 785851--785986 Score: 148
Period size: 53 Copynumber: 2.6 Consensus size: 51
785841 ATACATTGAT
* *
785851 AATAAAAAATATATATTAATAAATAATAAAAACATATATATATTAATAGATA
1 AATAAAAAATA-ATAATAATAAATAATAAAAACATATATATATAAATAGATA
* * * *
785903 AATAAAAAAGATTAATAGATAAATAATAATAAATATATATTTATAAATAGATAAA
1 AATAAAAAATAATAATA-ATAAATAATAA-AAACATATATATATAAATAGAT--A
*
785958 AATAAAAAATAAAAATAA-AAATAAATAAA
1 AATAAAAAATAATAATAATAAAT-AATAAA
785987 TGAACTTACC
Statistics
Matches: 70, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
51 4 0.06
52 21 0.30
53 24 0.34
54 6 0.09
55 15 0.21
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.29
Consensus pattern (51 bp):
AATAAAAAATAATAATAATAAATAATAAAAACATATATATATAAATAGATA
Found at i:785987 original size:14 final size:14
Alignment explanation
Indices: 785916--785986 Score: 54
Period size: 14 Copynumber: 5.0 Consensus size: 14
785906 AAAAAAGATT
* *
785916 AATAGATAAATAAT
1 AATAAATAAATAAA
* **
785930 AATAAATATATATT
1 AATAAATAAATAAA
* *
785944 TATAAATAGATAAA
1 AATAAATAAATAAA
785958 AATAAA-AAATAAA
1 AATAAATAAATAAA
785971 AATAAAAATAAATAAA
1 AAT--AAATAAATAAA
785987 TGAACTTACC
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
13 9 0.20
14 26 0.58
15 3 0.07
16 7 0.16
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (14 bp):
AATAAATAAATAAA
Found at i:787802 original size:13 final size:12
Alignment explanation
Indices: 787784--787822 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
787774 ATTTTTTTAT
787784 TAAAAATATTAAA
1 TAAAAAT-TTAAA
*
787797 TAAAAATTTATAT
1 TAAAAATTTA-AA
787810 TAAAAATTTAAA
1 TAAAAATTTAAA
787822 T
1 T
787823 TGATGAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 5 0.22
13 18 0.78
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
TAAAAATTTAAA
Found at i:789815 original size:32 final size:33
Alignment explanation
Indices: 789777--789844 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
789767 CTGTTCTTTT
*
789777 TTTTGTATT-TTTTGTTTTATA-TTTTTTATGTA
1 TTTTGTATTATTTT-TTGTATATTTTTTTATGTA
*
789809 TTTTGTATTATTTTTTGTATATTTTTTTGTGTA
1 TTTTGTATTATTTTTTGTATATTTTTTTATGTA
789842 TTT
1 TTT
789845 CATATTTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 15 0.47
33 17 0.53
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.75
Consensus pattern (33 bp):
TTTTGTATTATTTTTTGTATATTTTTTTATGTA
Found at i:789835 original size:23 final size:22
Alignment explanation
Indices: 789774--789835 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
789764 TTTCTGTTCT
* *
789774 TTTTTTTGTATTTTTTGTTTTA
1 TTTTTTTATATTTTTTGTATTA
* *
789796 TATTTTTTATGTATTTTGTATTA
1 T-TTTTTTATATTTTTTGTATTA
789819 TTTTTTGTATATTTTTT
1 TTTTTT-TATATTTTTT
789836 TGTGTATTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
22 6 0.19
23 26 0.81
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (22 bp):
TTTTTTTATATTTTTTGTATTA
Found at i:789844 original size:23 final size:22
Alignment explanation
Indices: 789775--789836 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 22
789765 TTCTGTTCTT
789775 TTTTTTGTAT-TTTTTGTT-TTA
1 TTTTTTGTATATTTTT-TTATTA
* *
789796 TATTTTT-TATGTATTTTGTATTA
1 T-TTTTTGTATAT-TTTTTTATTA
789819 TTTTTTGTATATTTTTTT
1 TTTTTTGTATATTTTTTT
789837 GTGTATTTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
21 4 0.12
22 17 0.52
23 12 0.36
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (22 bp):
TTTTTTGTATATTTTTTTATTA
Found at i:790390 original size:7 final size:7
Alignment explanation
Indices: 790380--790431 Score: 54
Period size: 7 Copynumber: 7.3 Consensus size: 7
790370 TTTCATTTTT
790380 TTATTTA
1 TTATTTA
790387 TTATTTA
1 TTATTTA
790394 TTATTTA
1 TTATTTA
790401 TT-TATTA
1 TTAT-TTA
*
790408 TTATTGTTG
1 TTA-T-TTA
790417 TTA-TTA
1 TTATTTA
790423 TTATTTA
1 TTATTTA
790430 TT
1 TT
790432 GATTAGATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
6 6 0.16
7 26 0.68
9 6 0.16
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (7 bp):
TTATTTA
Found at i:790402 original size:18 final size:18
Alignment explanation
Indices: 790379--790431 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
790369 TTTTCATTTT
790379 TTTATTTATTATTTATTA
1 TTTATTTATTATTTATTA
*
790397 TTTATTTATTA-TTATTG
1 TTTATTTATTATTTATTA
790414 TTGT-TATTATTATTTATT
1 TT-TAT-TTATTATTTATT
790432 GATTAGATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
17 8 0.26
18 18 0.58
19 5 0.16
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.72
Consensus pattern (18 bp):
TTTATTTATTATTTATTA
Found at i:790466 original size:5 final size:5
Alignment explanation
Indices: 790456--790517 Score: 56
Period size: 5 Copynumber: 11.8 Consensus size: 5
790446 TGTTTAATAC
790456 TTTTA TTTTA TTTT- TCTTTA TTTTTA TTTTCAA TTTTTA TTTTA TTTT-
1 TTTTA TTTTA TTTTA T-TTTA -TTTTA TTTT--A -TTTTA TTTTA TTTTA
*
790504 TTTAA TTTTA TTTT
1 TTTTA TTTTA TTTT
790518 CTTTAAATTA
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
4 4 0.08
5 33 0.69
6 5 0.10
7 2 0.04
8 4 0.08
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:790495 original size:34 final size:32
Alignment explanation
Indices: 790456--790518 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
790446 TGTTTAATAC
*
790456 TTTTATTTTATTTTTCTTTATTTTTATTTTCAAT
1 TTTTATTTTA-TTTT-TTTAATTTTATTTTCAAT
790490 TTTTATTTTATTTTTTTAATTTTATTTTC
1 TTTTATTTTATTTTTTTAATTTTATTTTC
790519 TTTAAATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 14 0.50
33 4 0.14
34 10 0.36
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (32 bp):
TTTTATTTTATTTTTTTAATTTTATTTTCAAT
Found at i:790496 original size:19 final size:19
Alignment explanation
Indices: 790456--790517 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
790446 TGTTTAATAC
790456 TTTTATTTTAT-TTTTC--
1 TTTTATTTTATATTTTCAA
790472 -TTTATTTT-TATTTTCAA
1 TTTTATTTTATATTTTCAA
* *
790489 TTTTTATTTTATTTTTTTAA
1 -TTTTATTTTATATTTTCAA
790509 TTTTATTTT
1 TTTTATTTT
790518 CTTTAAATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
14 1 0.03
15 13 0.34
19 17 0.45
20 7 0.18
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTATTTTATATTTTCAA
Found at i:790505 original size:13 final size:13
Alignment explanation
Indices: 790476--790522 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
790466 TTTTTCTTTA
*
790476 TTTTTATTTTCA-A
1 TTTTTATTTT-ATT
790489 TTTTTATTTTATT
1 TTTTTATTTTATT
790502 TTTTTAATTTTATT
1 TTTTT-ATTTTATT
790516 TTCTTTA
1 TT-TTTA
790523 AATTAAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 1 0.03
13 15 0.50
14 11 0.37
15 3 0.10
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTATTTTATT
Found at i:790580 original size:30 final size:30
Alignment explanation
Indices: 790546--790649 Score: 74
Period size: 30 Copynumber: 3.5 Consensus size: 30
790536 AACATATATT
790546 TTTGAGAAA-AAGTTGAAAGTATCAATTTTC
1 TTTGA-AAATAAGTTGAAAGTATCAATTTTC
* ** *
790576 TTTGAAAATAAGTTTTTCAAA--AAAAATATT-
1 TTTGAAAATAAG---TTGAAAGTATCAATTTTC
*
790606 TTTGAGGAA-AAGTTGAAAGTATCAATTTTC
1 TTTGA-AAATAAGTTGAAAGTATCAATTTTC
*
790636 CTTGAAAATAAGTT
1 TTTGAAAATAAGTT
790650 TTTCAAAAAA
Statistics
Matches: 54, Mismatches: 11, Indels: 18
0.65 0.13 0.22
Matches are distributed among these distances:
27 5 0.09
29 11 0.20
30 25 0.46
31 8 0.15
33 5 0.09
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.38
Consensus pattern (30 bp):
TTTGAAAATAAGTTGAAAGTATCAATTTTC
Found at i:790746 original size:57 final size:58
Alignment explanation
Indices: 790541--790811 Score: 404
Period size: 60 Copynumber: 4.7 Consensus size: 58
790531 TAAAAAACAT
* * *
790541 ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTTTCAAAAAAA
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAG-TTTTC-AAAAAA
*
790601 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTCAAAAAA
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAG-TTTTCAAAAAA
* *
790660 AGTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAG-TTTCTAAAAA
1 A-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTCAAAAAA
*
790718 ATATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTAAAAATAAG-TTTCAAAAAA
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTCAAAAAA
* *
790775 ATA-TTTTGAGAAAAAGTTGAAAGTATTAATTTTCCTT
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
790812 GTAACAAAAG
Statistics
Matches: 199, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
56 31 0.16
57 56 0.28
58 10 0.05
59 7 0.04
60 95 0.48
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.38
Consensus pattern (58 bp):
ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTCAAAAAA
Found at i:790750 original size:27 final size:27
Alignment explanation
Indices: 790663--790751 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
790653 CAAAAAAAGT
*
790663 ATTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTTGAGGAAAAGTTGAAAATATCA
* ** * *
790690 ATTTTTCTTAAAAATAAGTTTCTAAAAAAT--
1 A-TTTT-TGAGGAA-AAG-TT-GAAAATATCA
790720 ATTTTTGAGGAAAAGTTGAAAATATCA
1 ATTTTTGAGGAAAAGTTGAAAATATCA
790747 ATTTT
1 ATTTT
790752 CCTTAAAAAT
Statistics
Matches: 44, Mismatches: 11, Indels: 14
0.64 0.16 0.20
Matches are distributed among these distances:
25 6 0.14
26 2 0.05
27 9 0.20
28 8 0.18
29 8 0.18
30 4 0.09
31 2 0.05
32 5 0.11
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.39
Consensus pattern (27 bp):
ATTTTTGAGGAAAAGTTGAAAATATCA
Found at i:798286 original size:8 final size:8
Alignment explanation
Indices: 798275--798321 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
798265 AAAAGAGAAA
798275 AAAAAATG
1 AAAAAATG
798283 AAAAAA-G
1 AAAAAATG
**
798290 AAAATGAAAA
1 AAAA--AATG
798300 AAAAAATG
1 AAAAAATG
798308 AAAAAATG
1 AAAAAATG
798316 AAAAAA
1 AAAAAA
798322 AAATGAATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
7 5 0.15
8 22 0.67
9 2 0.06
10 4 0.12
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.09
Consensus pattern (8 bp):
AAAAAATG
Done.