Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 2 of 85
Found at i:429674 original size:32 final size:32
Alignment explanation
Indices: 429638--429701 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
429628 TTTTTACCTG
429638 AACTTATAGTTCATAGAGGGTCAATATCTTCA
1 AACTTATAGTTCATAGAGGGTCAATATCTTCA
429670 AACTTATAGTTCATAGAGGGTCAATATCTTCA
1 AACTTATAGTTCATAGAGGGTCAATATCTTCA
429702 TAACAATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (32 bp):
AACTTATAGTTCATAGAGGGTCAATATCTTCA
Found at i:431427 original size:17 final size:18
Alignment explanation
Indices: 431393--431427 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
431383 AATTTATTTA
*
431393 ATCAAACTGATCAAATTG
1 ATCAAACTGATAAAATTG
431411 ATCAAACTGA-AAAATTG
1 ATCAAACTGATAAAATTG
431428 TTGGTCTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.26
Consensus pattern (18 bp):
ATCAAACTGATAAAATTG
Found at i:438852 original size:23 final size:21
Alignment explanation
Indices: 438826--438879 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 21
438816 ATTTGGTTGG
* *
438826 ACTTGAATATCATTTATTTAAGA
1 ACTTGAATATAACTTATTT--GA
* *
438849 ACTTAAATCTAACTTATTTGA
1 ACTTGAATATAACTTATTTGA
438870 ACTTGAATAT
1 ACTTGAATAT
438880 GAATATATAC
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 10 0.40
23 15 0.60
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (21 bp):
ACTTGAATATAACTTATTTGA
Found at i:442283 original size:15 final size:16
Alignment explanation
Indices: 442253--442285 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
442243 TTTAATACAC
442253 ATGTCATAATTTTAAT
1 ATGTCATAATTTTAAT
*
442269 ATGTCATTA-TTTAAT
1 ATGTCATAATTTTAAT
442284 AT
1 AT
442286 AATTTAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (16 bp):
ATGTCATAATTTTAAT
Found at i:442306 original size:9 final size:9
Alignment explanation
Indices: 442292--442316 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
442282 ATATAATTTA
442292 ATTTTTAAT
1 ATTTTTAAT
442301 ATTTTTAAT
1 ATTTTTAAT
442310 ATTTTTA
1 ATTTTTA
442317 TTTATAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:444294 original size:20 final size:20
Alignment explanation
Indices: 444269--444326 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
444259 ATCCACATTT
444269 AAAATATTTAATATTTAAAC
1 AAAATATTTAATATTTAAAC
* *
444289 AAAATATTTCA-ATTT-CAC
1 AAAATATTTAATATTTAAAC
444307 AAACAT-TTTAACTATTTAAA
1 AAA-ATATTTAA-TATTTAAA
444327 ATTTAACGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
18 9 0.30
19 6 0.20
20 14 0.47
21 1 0.03
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAATATTTAATATTTAAAC
Found at i:450646 original size:12 final size:12
Alignment explanation
Indices: 450629--450664 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
450619 TTTCAGGCAT
450629 TGGTTCCGGTTC
1 TGGTTCCGGTTC
* *
450641 TGGTTCTGATTC
1 TGGTTCCGGTTC
450653 TGGTTCCGGTTC
1 TGGTTCCGGTTC
450665 CTTCTTAACT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.03, C:0.22, G:0.31, T:0.44
Consensus pattern (12 bp):
TGGTTCCGGTTC
Found at i:452225 original size:16 final size:16
Alignment explanation
Indices: 452189--452235 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
452179 ACCTTATCAA
452189 ATTAAATTTTATTATT
1 ATTAAATTTTATTATT
*
452205 -GTAAATATTTATT-TT
1 ATTAAAT-TTTATTATT
*
452220 ATTAAATTATATTATT
1 ATTAAATTTTATTATT
452236 GCCTTTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
ATTAAATTTTATTATT
Found at i:458125 original size:2 final size:2
Alignment explanation
Indices: 458120--458144 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
458110 GTTTTGGAAT
458120 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
458145 TAGAGTCAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:461007 original size:111 final size:111
Alignment explanation
Indices: 460813--461036 Score: 421
Period size: 111 Copynumber: 2.0 Consensus size: 111
460803 TCACGCGTAC
460813 CTCATACTGATGTACAGGAACCAATTTTTAACAACAGAAATGGATGGAATTTTTAACAGAAAAAC
1 CTCATACTGATGTACAGGAACCAATTTTTAACAACAGAAATGGATGGAATTTTTAACAGAAAAAC
*
460878 TAATTTGTTCTTTGCCTATTTTCTTAGTAGAGGTGCAAAATGTAAT
66 TAATTAGTTCTTTGCCTATTTTCTTAGTAGAGGTGCAAAATGTAAT
*
460924 CTCATACTGATGTACAGGAACCAATTTTTAACAACAGAAATGGATGGAATTTTTAACAGAAAAAT
1 CTCATACTGATGTACAGGAACCAATTTTTAACAACAGAAATGGATGGAATTTTTAACAGAAAAAC
*
460989 TAATTAGTTCTTTGCCTATTTTTTTAGTAGAGGTGCAAAATGTAAT
66 TAATTAGTTCTTTGCCTATTTTCTTAGTAGAGGTGCAAAATGTAAT
461035 CT
1 CT
461037 GACTCCTAAT
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
111 110 1.00
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (111 bp):
CTCATACTGATGTACAGGAACCAATTTTTAACAACAGAAATGGATGGAATTTTTAACAGAAAAAC
TAATTAGTTCTTTGCCTATTTTCTTAGTAGAGGTGCAAAATGTAAT
Found at i:486924 original size:28 final size:28
Alignment explanation
Indices: 486892--486948 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
486882 CATTTCAGCT
*
486892 ATTTTTGAAAGGTTAA-TGTTCAAATTTA
1 ATTTTTGAAAGGTTAAGGGTT-AAATTTA
**
486920 ATTTTTTTAAGGTTAAGGGTTAAATTTA
1 ATTTTTGAAAGGTTAAGGGTTAAATTTA
486948 A
1 A
486949 CTAAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 22 0.88
29 3 0.12
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (28 bp):
ATTTTTGAAAGGTTAAGGGTTAAATTTA
Found at i:488309 original size:31 final size:31
Alignment explanation
Indices: 488252--488310 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
488242 ACAATTTATT
* *
488252 TCTTTTTAGAAGGTTAATAGTCAAATTTGAC
1 TCTTTTTAAAAGGTTAATAGGCAAATTTGAC
*
488283 TCTTTTTAAAAGGTTGA-AGGCTAAATTT
1 TCTTTTTAAAAGGTTAATAGGC-AAATTT
488311 AGCTTAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 3 0.12
31 21 0.88
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.42
Consensus pattern (31 bp):
TCTTTTTAAAAGGTTAATAGGCAAATTTGAC
Found at i:490269 original size:26 final size:27
Alignment explanation
Indices: 490209--490268 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
490199 ATAAAAAATA
*
490209 ACCAAAATATTATAACTTTTTTTATTT
1 ACCAAAACATTATAACTTTTTTTATTT
*
490236 ACCAAAACATTATAATTTTTTTTATTT
1 ACCAAAACATTATAACTTTTTTTATTT
490263 ACCAAA
1 ACCAAA
490269 CTATACAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (27 bp):
ACCAAAACATTATAACTTTTTTTATTT
Found at i:490428 original size:19 final size:19
Alignment explanation
Indices: 490404--490485 Score: 96
Period size: 18 Copynumber: 4.4 Consensus size: 19
490394 CTTAATTTTT
490404 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
* * *
490423 TTAAATGAGAATAG-TTTA
1 TTAAATTAAAATAGAGTTA
490441 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
* * *
490460 TTAAATGAGAATA-ATTTA
1 TTAAATTAAAATAGAGTTA
490478 TTAAATTA
1 TTAAATTA
490486 TTATAAAAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
18 26 0.50
19 26 0.50
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (19 bp):
TTAAATTAAAATAGAGTTA
Found at i:490454 original size:37 final size:37
Alignment explanation
Indices: 490404--490485 Score: 155
Period size: 37 Copynumber: 2.2 Consensus size: 37
490394 CTTAATTTTT
*
490404 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAATTTA
490441 TTAAATTAAAATAGAGTTATTAAATGAGAATAATTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAATTTA
490478 TTAAATTA
1 TTAAATTA
490486 TTATAAAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (37 bp):
TTAAATTAAAATAGAGTTATTAAATGAGAATAATTTA
Found at i:490565 original size:26 final size:27
Alignment explanation
Indices: 490505--490564 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
490495 ATAAAAAATA
*
490505 ACCAAAATATTATAACTTTTTTTATTT
1 ACCAAAACATTATAACTTTTTTTATTT
*
490532 ACCAAAACATTATAATTTTTTTTATTT
1 ACCAAAACATTATAACTTTTTTTATTT
490559 ACCAAA
1 ACCAAA
490565 CTATACAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (27 bp):
ACCAAAACATTATAACTTTTTTTATTT
Found at i:490718 original size:296 final size:297
Alignment explanation
Indices: 490183--490781 Score: 1191
Period size: 296 Copynumber: 2.0 Consensus size: 297
490173 TTTTTTTACA
490183 AAATTATTATAAAAAAATAAAAAATAACCAAAATATTATAACTTTTTTTATTTACCAAAACATTA
1 AAATTATTATAAAAAAATAAAAAATAACCAAAATATTATAACTTTTTTTATTTACCAAAACATTA
490248 TAATTTTTTTTATTTACCAAACTATACAAAAAAAAACAAAAAAAAAACCTGACAACAGCCTGATC
66 TAATTTTTTTTATTTACCAAACTATACAAAAAAAAACAAAAAAAAAACCTGACAACAGCCTGATC
490313 AGGCCAATCACATTGGCGGCACCAATGGTGCCAAAGGACTAAAATGTAACTATCTGCAGTTTCAA
131 AGGCCAATCACATTGGCGGCACCAATGGTGCCAAAGGACTAAAATGTAACTATCTGCAGTTTCAA
490378 GGATTAAAATAGTTTGCTTAATTTTTTTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTATT
196 GGATTAAAATAGTTTGCTTAATTTTTTTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTATT
490443 AAATTAAAATAGAGTTATTAAATGAGAATAATTTATT
261 AAATTAAAATAGAGTTATTAAATGAGAATAATTTATT
490480 AAATTATTAT-AAAAAATAAAAAATAACCAAAATATTATAACTTTTTTTATTTACCAAAACATTA
1 AAATTATTATAAAAAAATAAAAAATAACCAAAATATTATAACTTTTTTTATTTACCAAAACATTA
490544 TAATTTTTTTTATTTACCAAACTATACAAAAAAAAACAAAAAAAAAACCTGACAACAGCCTGATC
66 TAATTTTTTTTATTTACCAAACTATACAAAAAAAAACAAAAAAAAAACCTGACAACAGCCTGATC
490609 AGGCCAATCACATTGGCGGCACCAATGGTGCCAAAGGACTAAAATGTAACTATCTGCAGTTTCAA
131 AGGCCAATCACATTGGCGGCACCAATGGTGCCAAAGGACTAAAATGTAACTATCTGCAGTTTCAA
490674 GGATTAAAATAGTTTGCTTAATTTTTTTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTATT
196 GGATTAAAATAGTTTGCTTAATTTTTTTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTATT
490739 AAATTAAAATAGAGTTATTAAATGAGAATAATTTATT
261 AAATTAAAATAGAGTTATTAAATGAGAATAATTTATT
490776 AAATTA
1 AAATTA
490782 AAATAGAGTT
Statistics
Matches: 302, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
296 292 0.97
297 10 0.03
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (297 bp):
AAATTATTATAAAAAAATAAAAAATAACCAAAATATTATAACTTTTTTTATTTACCAAAACATTA
TAATTTTTTTTATTTACCAAACTATACAAAAAAAAACAAAAAAAAAACCTGACAACAGCCTGATC
AGGCCAATCACATTGGCGGCACCAATGGTGCCAAAGGACTAAAATGTAACTATCTGCAGTTTCAA
GGATTAAAATAGTTTGCTTAATTTTTTTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTATT
AAATTAAAATAGAGTTATTAAATGAGAATAATTTATT
Found at i:490739 original size:18 final size:18
Alignment explanation
Indices: 490716--490779 Score: 83
Period size: 18 Copynumber: 3.5 Consensus size: 18
490706 TAAAATAGAG
490716 TTATTAAATGAGAATAGT
1 TTATTAAATGAGAATAGT
* * *
490734 TTATTAAATTAAAATAGAG
1 TTATTAAATGAGAATAG-T
*
490753 TTATTAAATGAGAATAAT
1 TTATTAAATGAGAATAGT
490771 TTATTAAAT
1 TTATTAAAT
490780 TAAAATAGAG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
18 24 0.63
19 14 0.37
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (18 bp):
TTATTAAATGAGAATAGT
Found at i:490750 original size:37 final size:37
Alignment explanation
Indices: 490700--490795 Score: 183
Period size: 37 Copynumber: 2.6 Consensus size: 37
490690 CTTAATTTTT
*
490700 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAATTTA
490737 TTAAATTAAAATAGAGTTATTAAATGAGAATAATTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAATTTA
490774 TTAAATTAAAATAGAGTTATTA
1 TTAAATTAAAATAGAGTTATTA
490796 CTTAATTAGA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (37 bp):
TTAAATTAAAATAGAGTTATTAAATGAGAATAATTTA
Found at i:490800 original size:18 final size:19
Alignment explanation
Indices: 490700--490795 Score: 124
Period size: 19 Copynumber: 5.2 Consensus size: 19
490690 CTTAATTTTT
490700 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
* * *
490719 TTAAATGAGAATAG-TTTA
1 TTAAATTAAAATAGAGTTA
490737 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
* * *
490756 TTAAATGAGAATA-ATTTA
1 TTAAATTAAAATAGAGTTA
490774 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
490793 TTA
1 TTA
490796 CTTAATTAGA
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
18 30 0.48
19 33 0.52
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (19 bp):
TTAAATTAAAATAGAGTTA
Found at i:491007 original size:26 final size:28
Alignment explanation
Indices: 490971--491034 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 28
490961 GACTCGGCCC
* * *
490971 ATTTTTAAAAT-AAACATTAAAAAAA-T
1 ATTTTAAAAATAAAAAAATAAAAAAATT
490997 ATTTTAAAAATAAAAAAATAAAAAAATTT
1 ATTTTAAAAATAAAAAAATAAAAAAA-TT
491026 ATTTTAAAA
1 ATTTTAAAA
491035 GTATCTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 10 0.31
27 12 0.38
29 10 0.31
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (28 bp):
ATTTTAAAAATAAAAAAATAAAAAAATT
Found at i:491926 original size:27 final size:27
Alignment explanation
Indices: 491839--491917 Score: 131
Period size: 27 Copynumber: 2.9 Consensus size: 27
491829 TATTTTAGTC
*
491839 CTTTGGCATCATTGGTGCCGCCAATCT
1 CTTTGGCACCATTGGTGCCGCCAATCT
491866 CTTTGGCACCATTGGTGCCGCCAATCT
1 CTTTGGCACCATTGGTGCCGCCAATCT
* *
491893 CTTTGGCACCTTTGGTGCCTCCAAT
1 CTTTGGCACCATTGGTGCCGCCAAT
491918 GTGATTGGCC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.14, C:0.32, G:0.22, T:0.33
Consensus pattern (27 bp):
CTTTGGCACCATTGGTGCCGCCAATCT
Found at i:496266 original size:25 final size:27
Alignment explanation
Indices: 496232--496289 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 27
496222 TCAGTACTTT
496232 TTAACTCTAAGC-T-ATACTTGCTAAA
1 TTAACTCTAAGCATAATACTTGCTAAA
496257 TTAACTCTAAGCAAGTAATACTTGCTAAA
1 TTAACTCTAAGC-A-TAATACTTGCTAAA
496286 TTAA
1 TTAA
496290 TGTCCATCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 12 0.41
28 1 0.03
29 16 0.55
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (27 bp):
TTAACTCTAAGCATAATACTTGCTAAA
Found at i:510785 original size:31 final size:31
Alignment explanation
Indices: 510700--510787 Score: 97
Period size: 31 Copynumber: 2.8 Consensus size: 31
510690 ATGTCCCACT
* *
510700 ATTAACTTAATTTAATTACATTATATAACTA
1 ATTAATTTAATTTAATCACATTATATAACTA
* *
510731 TTTAGTTTAATTTAATCACATTATATAA-TA
1 ATTAATTTAATTTAATCACATTATATAACTA
* * *
510761 ATTAATTTAGTTTTTATCATATTATAT
1 ATTAATTTA-ATTTAATCACATTATAT
510788 TACTCACATC
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
30 9 0.19
31 38 0.81
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (31 bp):
ATTAATTTAATTTAATCACATTATATAACTA
Found at i:510922 original size:1 final size:1
Alignment explanation
Indices: 510879--510915 Score: 74
Period size: 1 Copynumber: 37.0 Consensus size: 1
510869 ATCTCTAAGG
510879 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
510916 GCTTTTTCGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:520289 original size:25 final size:20
Alignment explanation
Indices: 520243--520282 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
520233 AGAGTGTCAT
520243 GTCATTATACTTTAACGGAA
1 GTCATTATACTTTAACGGAA
520263 GTCATTATACTTTAACGGAA
1 GTCATTATACTTTAACGGAA
520283 TTCAAGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (20 bp):
GTCATTATACTTTAACGGAA
Found at i:520472 original size:18 final size:18
Alignment explanation
Indices: 520449--520489 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
520439 TCCCGGGCCG
520449 GGCCTGGGCAAAATTTCA
1 GGCCTGGGCAAAATTTCA
520467 GGCCTGGGCAAAATTTCA
1 GGCCTGGGCAAAATTTCA
*
520485 TGCCT
1 GGCCT
520490 ATATTTCGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (18 bp):
GGCCTGGGCAAAATTTCA
Found at i:523850 original size:15 final size:15
Alignment explanation
Indices: 523805--523905 Score: 80
Period size: 15 Copynumber: 6.7 Consensus size: 15
523795 CCATGTAAAA
*
523805 CCACCAGTTACAGTC
1 CCACCAGTGACAGTC
* * * *
523820 CCTCCGGTCACTGTC
1 CCACCAGTGACAGTC
523835 CCACCAGTGACAGTC
1 CCACCAGTGACAGTC
523850 CCACCAGTGACAGTC
1 CCACCAGTGACAGTC
* * **
523865 CCTCCAATAGTA-A-AA
1 CCACCAGT-G-ACAGTC
*
523880 CCACCAGTTACAGTC
1 CCACCAGTGACAGTC
523895 CCACCAGTGAC
1 CCACCAGTGAC
523906 TGTTCCTCCT
Statistics
Matches: 64, Mismatches: 18, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
13 1 0.02
14 1 0.02
15 59 0.92
16 2 0.03
17 1 0.02
ACGTcount: A:0.27, C:0.40, G:0.16, T:0.18
Consensus pattern (15 bp):
CCACCAGTGACAGTC
Found at i:523963 original size:72 final size:72
Alignment explanation
Indices: 523801--524063 Score: 271
Period size: 72 Copynumber: 3.6 Consensus size: 72
523791 CAATCCATGT
* * * * *
523801 AAAACCACCAGTTACAGTCCCTCCGGTCACTGTCCCACCAGTGACAGTCCCACCAG-TGACAGTC
1 AAAACCACCAGTTACAGTCCCACCAGTGACTGTCCCTCCAGTGA-AG--CCACCAGTTGA-ACTC
* *
523865 CCTCCAATAGT
62 CCTCCAATTGC
* *
523876 AAAACCACCAGTTACAGTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGAACTCCCTC
1 AAAACCACCAGTTACAGTCCCACCAGTGACTGTCCCTCCAGTGAAGCCACCAGTTGAACTCCCTC
*
523941 CGATTGC
66 CAATTGC
* * * * *
523948 AAAACCACCCA-TTACAGTCCCACCAGTGACTGTTCCTCCTGTAAAGCCACCTGTTGATCTCCCT
1 AAAACCA-CCAGTTACAGTCCCACCAGTGACTGTCCCTCCAGTGAAGCCACCAGTTGAACTCCCT
524012 CCAATTGC
65 CCAATTGC
* * * * *
524020 TAAGCCACCCA-TTACGGTTCCACCAGTGACAGTCCCTCCAGTGA
1 AAAACCA-CCAGTTACAGTCCCACCAGTGACTGTCCCTCCAGTGA
524064 CTGTTCCTCC
Statistics
Matches: 164, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
72 118 0.72
73 6 0.04
74 2 0.01
75 38 0.23
ACGTcount: A:0.25, C:0.37, G:0.16, T:0.22
Consensus pattern (72 bp):
AAAACCACCAGTTACAGTCCCACCAGTGACTGTCCCTCCAGTGAAGCCACCAGTTGAACTCCCTC
CAATTGC
Found at i:523972 original size:87 final size:85
Alignment explanation
Indices: 523880--524150 Score: 253
Period size: 87 Copynumber: 3.3 Consensus size: 85
523870 AATAGTAAAA
* * *
523880 CCACCAGTTACAGTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGAACTCCCTCCGAT
1 CCACCAGTGACAGTCCCTCCAGTGACTGTTCCTCCTGT-AAGCCACCAGTTG-ACTCCCTCCAAT
* *
523945 TGCAAAACCACCCATTACAGTC
64 TGCAAAGCCACCCATTACAGTT
* * * ** * *
523967 CCACCAGTGACTGTTCCTCCTGT-AAAG--CCACCTGT-TG-----A--T--CTCCCTCCAATTG
1 CCACCAGTGACAGTCCCTCCAGTGACTGTTCCTCCTGTAAGCCACCAGTTGACTCCCTCCAATTG
* *
524019 CTAAGCCACCCATTACGGTT
66 CAAAGCCACCCATTACAGTT
*
524039 CCACCAGTGACAGTCCCTCCAGTGACTGTTCCTCCTGTAAAGCCACCTGTTGATCTCCCTCCAAT
1 CCACCAGTGACAGTCCCTCCAGTGACTGTTCCTCCTGT-AAGCCACCAGTTGA-CTCCCTCCAAT
524104 TGCAAAGCCACCCATTACAGTT
64 TGCAAAGCCACCCATTACAGTT
* * *
524126 CCACCAGTGACTGTTCCTCCTGTGA
1 CCACCAGTGACAGTCCCTCCAGTGA
524151 AGCCACCAGT
Statistics
Matches: 142, Mismatches: 27, Indels: 30
0.71 0.14 0.15
Matches are distributed among these distances:
72 48 0.34
73 2 0.01
75 8 0.06
77 2 0.01
82 1 0.01
84 8 0.06
86 2 0.01
87 71 0.50
ACGTcount: A:0.23, C:0.37, G:0.15, T:0.25
Consensus pattern (85 bp):
CCACCAGTGACAGTCCCTCCAGTGACTGTTCCTCCTGTAAGCCACCAGTTGACTCCCTCCAATTG
CAAAGCCACCCATTACAGTT
Found at i:524178 original size:42 final size:42
Alignment explanation
Indices: 524132--524256 Score: 241
Period size: 42 Copynumber: 3.0 Consensus size: 42
524122 AGTTCCACCA
524132 GTGACTGTTCCTCCTGTGAAGCCACCAGTTGATCTCCCTCCG
1 GTGACTGTTCCTCCTGTGAAGCCACCAGTTGATCTCCCTCCG
524174 GTGACTGTTCCTCCTGTGAAGCCACCAGTTGATCTCCCTCCG
1 GTGACTGTTCCTCCTGTGAAGCCACCAGTTGATCTCCCTCCG
*
524216 GTGACTGTTCCTCCTGTGAAGCCACCAGTTGAGCTCCCTCC
1 GTGACTGTTCCTCCTGTGAAGCCACCAGTTGATCTCCCTCC
524257 AATTGCAAAG
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 82 1.00
ACGTcount: A:0.14, C:0.36, G:0.22, T:0.28
Consensus pattern (42 bp):
GTGACTGTTCCTCCTGTGAAGCCACCAGTTGATCTCCCTCCG
Found at i:524309 original size:72 final size:72
Alignment explanation
Indices: 524216--524364 Score: 244
Period size: 72 Copynumber: 2.1 Consensus size: 72
524206 TCTCCCTCCG
* * * *
524216 GTGACTGTTCCTCCTGTGAAGCCACCAGTTGAGCTCCCTCCAATTGCAAAGCCACCCATTACAGT
1 GTGACTGTTCCTCCTGTGAAGCCACCAGTTGACCTCCCCCCAATTGCAAAACCACCCATCACAGT
524281 CCCACCA
66 CCCACCA
*
524288 GTGACTGTTCCTCCTGTGAAGCCACCAGTTGACCTCCCCCCAATTGCAAAACCGCCCATCACAGT
1 GTGACTGTTCCTCCTGTGAAGCCACCAGTTGACCTCCCCCCAATTGCAAAACCACCCATCACAGT
*
524353 CCCTCCA
66 CCCACCA
524360 GTGAC
1 GTGAC
524365 CCTCCCAGTC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.23, C:0.39, G:0.17, T:0.21
Consensus pattern (72 bp):
GTGACTGTTCCTCCTGTGAAGCCACCAGTTGACCTCCCCCCAATTGCAAAACCACCCATCACAGT
CCCACCA
Found at i:524392 original size:15 final size:15
Alignment explanation
Indices: 524372--524409 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
524362 GACCCTCCCA
*
524372 GTCCCTCCAGTTACT
1 GTCCCTCCAGTGACT
524387 GTCCCTCCAGTGACT
1 GTCCCTCCAGTGACT
*
524402 GTTCCTCC
1 GTCCCTCC
524410 TGTAAAGCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.11, C:0.42, G:0.16, T:0.32
Consensus pattern (15 bp):
GTCCCTCCAGTGACT
Found at i:524420 original size:180 final size:180
Alignment explanation
Indices: 524208--524652 Score: 782
Period size: 180 Copynumber: 2.5 Consensus size: 180
524198 CCAGTTGATC
* * * *
524208 TCCCTCCGGTGACTGTTCCTCCTGTGAAGCCACCAGTTGAGCTCCCTCCAATTGCAAAGCCACCC
1 TCCCTCCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCACCC
*
524273 ATTACAGTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGACCTCCCCCCAATTGCAAA
66 ATCACAGTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGACCTCCCCCCAATTGCAAA
* *
524338 ACCGCCCATCACAGTCCCTCCAGTGACCCTCCCAGTCCCTCCAGTTACTG
131 ACCACCCATCACAGTCCCTCCAGTGACACTCCCAGTCCCTCCAGTTACTG
524388 TCCCTCCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCACCC
1 TCCCTCCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCACCC
* *
524453 ATCACAGTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGACCTCCCTCCAATTGCGAA
66 ATCACAGTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGACCTCCCCCCAATTGCAAA
* *
524518 ACCACCCATCACAGTCCCTCCGGTGACAGTCCCAGTCCCTCCAGTTACTG
131 ACCACCCATCACAGTCCCTCCAGTGACACTCCCAGTCCCTCCAGTTACTG
*
524568 TCCCTCCAGTGACTGTTCCTCCCGTAAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCACCC
1 TCCCTCCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCACCC
524633 ATCACAGTCCCACCAGTGAC
66 ATCACAGTCCCACCAGTGAC
524653 CGTCCCAGTC
Statistics
Matches: 253, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
180 253 1.00
ACGTcount: A:0.22, C:0.41, G:0.15, T:0.22
Consensus pattern (180 bp):
TCCCTCCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCACCC
ATCACAGTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGACCTCCCCCCAATTGCAAA
ACCACCCATCACAGTCCCTCCAGTGACACTCCCAGTCCCTCCAGTTACTG
Found at i:524425 original size:108 final size:108
Alignment explanation
Indices: 524274--524472 Score: 344
Period size: 108 Copynumber: 1.8 Consensus size: 108
524264 AAGCCACCCA
*
524274 TTACAGTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGACCTCCCCCCAATTGCAAAA
1 TTACAGTCCCACCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGACCTCCCCCCAATTGCAAAA
* *
524339 CCGCCCATCACAGTCCCTCCAGTGACCCTCCCAGTCCCTCCAG
66 CCACCCATCACAGTCCCACCAGTGACCCTCCCAGTCCCTCCAG
* * *
524382 TTACTGTCCCTCCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGACCTCCCTCCAATTGCAAAA
1 TTACAGTCCCACCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGACCTCCCCCCAATTGCAAAA
524447 CCACCCATCACAGTCCCACCAGTGAC
66 CCACCCATCACAGTCCCACCAGTGAC
524473 TGTTCCTCCT
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
108 85 1.00
ACGTcount: A:0.23, C:0.42, G:0.14, T:0.22
Consensus pattern (108 bp):
TTACAGTCCCACCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGACCTCCCCCCAATTGCAAAA
CCACCCATCACAGTCCCACCAGTGACCCTCCCAGTCCCTCCAG
Found at i:524473 original size:72 final size:72
Alignment explanation
Indices: 524387--524544 Score: 280
Period size: 72 Copynumber: 2.2 Consensus size: 72
524377 TCCAGTTACT
524387 GTCCCTCCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCACC
1 GTCCCTCCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCACC
524452 CATCACA
66 CATCACA
* * *
524459 GTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGACCTCCCTCCAATTGCGAAACCACC
1 GTCCCTCCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCACC
524524 CATCACA
66 CATCACA
*
524531 GTCCCTCCGGTGAC
1 GTCCCTCCAGTGAC
524545 AGTCCCAGTC
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 81 1.00
ACGTcount: A:0.23, C:0.41, G:0.15, T:0.22
Consensus pattern (72 bp):
GTCCCTCCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCACC
CATCACA
Found at i:524570 original size:21 final size:21
Alignment explanation
Indices: 524529--524571 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
524519 CCACCCATCA
*
524529 CAGTCCCTCCGGTGACAGTCC
1 CAGTCCCTCCAGTGACAGTCC
* *
524550 CAGTCCCTCCAGTTACTGTCC
1 CAGTCCCTCCAGTGACAGTCC
524571 C
1 C
524572 TCCAGTGACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.14, C:0.44, G:0.19, T:0.23
Consensus pattern (21 bp):
CAGTCCCTCCAGTGACAGTCC
Found at i:524578 original size:108 final size:108
Alignment explanation
Indices: 524459--524687 Score: 359
Period size: 108 Copynumber: 2.1 Consensus size: 108
524449 ACCCATCACA
* * * *
524459 GTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGACCTCCCTCCAATTGCGAAACCACC
1 GTCCCTCCAGTGACTGTTCCTCCCGTAAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCACC
* * * *
524524 CATCACAGTCCCTCCGGTGACAGTCCCAGTCCCTCCAGTTACT
66 CATCACAGTCCCACCAGTGACAGTCCCAGTCCCACCAGTGACT
524567 GTCCCTCCAGTGACTGTTCCTCCCGTAAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCACC
1 GTCCCTCCAGTGACTGTTCCTCCCGTAAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCACC
*
524632 CATCACAGTCCCACCAGTGACCGTCCCAGTCCCACCAGTGACT
66 CATCACAGTCCCACCAGTGACAGTCCCAGTCCCACCAGTGACT
* *
524675 GTTCCTCCTGTGA
1 GTCCCTCCAGTGA
524688 AACCACCTAT
Statistics
Matches: 110, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 110 1.00
ACGTcount: A:0.21, C:0.41, G:0.16, T:0.22
Consensus pattern (108 bp):
GTCCCTCCAGTGACTGTTCCTCCCGTAAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCACC
CATCACAGTCCCACCAGTGACAGTCCCAGTCCCACCAGTGACT
Found at i:524582 original size:15 final size:15
Alignment explanation
Indices: 524552--524589 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
524542 GACAGTCCCA
*
524552 GTCCCTCCAGTTACT
1 GTCCCTCCAGTGACT
524567 GTCCCTCCAGTGACT
1 GTCCCTCCAGTGACT
*
524582 GTTCCTCC
1 GTCCCTCC
524590 CGTAAAGCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.11, C:0.42, G:0.16, T:0.32
Consensus pattern (15 bp):
GTCCCTCCAGTGACT
Found at i:530759 original size:18 final size:18
Alignment explanation
Indices: 530725--530763 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
530715 CCATGTGAAC
*
530725 ATTATTATTATTTGTTTA
1 ATTATTATTATTGGTTTA
530743 ATTATTATT-TTGGGTTTA
1 ATTATTATTATT-GGTTTA
530761 ATT
1 ATT
530764 TTTTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (18 bp):
ATTATTATTATTGGTTTA
Found at i:545756 original size:5 final size:5
Alignment explanation
Indices: 545746--545775 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
545736 CAATGATTAT
545746 CTCTC CTCTC CTCTC CTCTC CTCTC CTCTC
1 CTCTC CTCTC CTCTC CTCTC CTCTC CTCTC
545776 AGGAAAGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (5 bp):
CTCTC
Found at i:548170 original size:91 final size:92
Alignment explanation
Indices: 548027--548209 Score: 359
Period size: 91 Copynumber: 2.0 Consensus size: 92
548017 GATTCAACTT
548027 GTTTTAACTATATATATATATATATATATATCAGAAACCAAACCACCCCACTGCACATGTCTGGG
1 GTTTTAACTATATATATATATATATATATATCAGAAACCAAACCACCCCACTGCACATGTCTGGG
548092 ATCCAACACAAAAAACCAGACATTTTA
66 ATCCAACACAAAAAACCAGACATTTTA
548119 GTTTTAACTA-ATATATATATATATATATATCAGAAACCAAACCACCCCACTGCACATGTCTGGG
1 GTTTTAACTATATATATATATATATATATATCAGAAACCAAACCACCCCACTGCACATGTCTGGG
548183 ATCCAACACAAAAAACCAGACATTTTA
66 ATCCAACACAAAAAACCAGACATTTTA
548210 TTGATAGGAT
Statistics
Matches: 91, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
91 81 0.89
92 10 0.11
ACGTcount: A:0.42, C:0.23, G:0.09, T:0.27
Consensus pattern (92 bp):
GTTTTAACTATATATATATATATATATATATCAGAAACCAAACCACCCCACTGCACATGTCTGGG
ATCCAACACAAAAAACCAGACATTTTA
Found at i:549445 original size:20 final size:20
Alignment explanation
Indices: 549422--549468 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
549412 CCATTTTTAA
* **
549422 TAAATATTAAAAATTTATTT
1 TAAAAATTAAAAAAATATTT
549442 TAAAAATTAAAAAAATATTT
1 TAAAAATTAAAAAAATATTT
549462 TAAAAAT
1 TAAAAAT
549469 ATTTTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TAAAAATTAAAAAAATATTT
Found at i:549499 original size:38 final size:38
Alignment explanation
Indices: 549443--549544 Score: 150
Period size: 38 Copynumber: 2.6 Consensus size: 38
549433 AATTTATTTT
* *
549443 AAAAATTAAAAAAATATTTTAAAAATATTTTAAAATTAA
1 AAAAATT-TAAAAGTATTTTAAAAATATTTTAAAATTAA
549482 AAAAATTTAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAATTTAAAAGTATTTTAAAAATATTTTAAAATTAA
*
549520 AAAATTTTAAAAAAGTATTTTAAAA
1 AAAAATTT--AAAAGTATTTTAAAA
549545 TTAAAAAAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
38 36 0.62
39 7 0.12
40 15 0.26
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (38 bp):
AAAAATTTAAAAGTATTTTAAAAATATTTTAAAATTAA
Found at i:549544 original size:12 final size:11
Alignment explanation
Indices: 549452--549515 Score: 68
Period size: 11 Copynumber: 6.4 Consensus size: 11
549442 TAAAAATTAA
549452 AAAAATATTTT
1 AAAAATATTTT
549463 AAAAATATTTT
1 AAAAATATTTT
549474 --AAA-A--TT
1 AAAAATATTTT
*
549480 AAAAA-AATTT
1 AAAAATATTTT
*
549490 AAAAGTATTTT
1 AAAAATATTTT
549501 AAAAATATTTT
1 AAAAATATTTT
549512 AAAA
1 AAAA
549516 TTAAAAAATT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
6 2 0.04
8 5 0.11
9 3 0.07
10 6 0.13
11 29 0.64
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:549551 original size:28 final size:27
Alignment explanation
Indices: 549496--549552 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 27
549486 ATTTAAAAGT
549496 ATTTTAAAAATATTTTAAAATTAAAAA
1 ATTTTAAAAATATTTTAAAATTAAAAA
549523 ATTTTAAAAAAGTATTTTAAAATTAAAAA
1 ATTTT-AAAAA-TATTTTAAAATTAAAAA
549552 A
1 A
549553 ATAGAAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 5 0.18
28 5 0.18
29 18 0.64
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (27 bp):
ATTTTAAAAATATTTTAAAATTAAAAA
Found at i:549554 original size:38 final size:38
Alignment explanation
Indices: 549443--549564 Score: 106
Period size: 38 Copynumber: 3.2 Consensus size: 38
549433 AATTTATTTT
** * ***
549443 AAAAATTAAAAAAATATTTTAAAAATATTTTAAAATTA
1 AAAAATTTTAAAAGTATTTTAAAAATATAAAAAAATTA
* ***
549481 AAAAAATTTAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAATTTTAAAAGTATTTTAAAAATATAAAAAAATTA
549519 AAAAATTTTAAAAAAGTATTTT-AAAAT-TAAAAAAA-TA
1 AAAAATTTT--AAAAGTATTTTAAAAATATAAAAAAATTA
549556 GAAAAATTT
1 -AAAAATTT
549565 ATTGTATTCG
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
37 2 0.03
38 55 0.75
39 5 0.07
40 11 0.15
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (38 bp):
AAAAATTTTAAAAGTATTTTAAAAATATAAAAAAATTA
Found at i:549567 original size:29 final size:29
Alignment explanation
Indices: 549501--549561 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
549491 AAAGTATTTT
* **
549501 AAAAA-TATTTTAAAATTAAAAAATTTTA
1 AAAAAGTATTTTAAAATTAAAAAAATAGA
549529 AAAAAGTATTTTAAAATTAAAAAAATAGA
1 AAAAAGTATTTTAAAATTAAAAAAATAGA
549558 AAAA
1 AAAA
549562 TTTATTGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 5 0.17
29 24 0.83
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (29 bp):
AAAAAGTATTTTAAAATTAAAAAAATAGA
Found at i:550263 original size:20 final size:19
Alignment explanation
Indices: 550240--550284 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
550230 AATAAATACC
*
550240 AAAAATTTATTTTAAAAATT
1 AAAAATGTATTTT-AAAATT
* *
550260 AAAAAAGTGTTTTAAAATT
1 AAAAATGTATTTTAAAATT
550279 AAAAAT
1 AAAAAT
550285 AATAAAAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (19 bp):
AAAAATGTATTTTAAAATT
Found at i:550302 original size:29 final size:26
Alignment explanation
Indices: 550251--550305 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 26
550241 AAAATTTATT
550251 TTAAAAATTAAAAAAGTGTTTTAAAA
1 TTAAAAATTAAAAAAGTGTTTTAAAA
*
550277 TTAAAAATAATAAAAAATGTATTTTAAAA
1 TTAAAAAT--TAAAAAA-GTGTTTTAAAA
550306 ATATTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 8 0.32
28 7 0.28
29 10 0.40
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (26 bp):
TTAAAAATTAAAAAAGTGTTTTAAAA
Found at i:550322 original size:17 final size:17
Alignment explanation
Indices: 550300--550346 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
550290 AAAATGTATT
*
550300 TTAAAAATATTTTAAAA
1 TTAAAAATATTTAAAAA
*
550317 TTAAAAAAATTTAAAAA
1 TTAAAAATATTTAAAAA
* *
550334 ATAAATATATTTA
1 TTAAAAATATTTA
550347 TTATATCGGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAAATATTTAAAAA
Found at i:551193 original size:15 final size:15
Alignment explanation
Indices: 551173--551203 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
551163 AAAATAAAAA
*
551173 ATATATTTGTTATAT
1 ATATATTTATTATAT
551188 ATATATTTATTATAT
1 ATATATTTATTATAT
551203 A
1 A
551204 AATACTAAAT
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:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (15 bp):
ATATATTTATTATAT
Found at i:553467 original size:80 final size:81
Alignment explanation
Indices: 553363--553524 Score: 317
Period size: 80 Copynumber: 2.0 Consensus size: 81
553353 ATAAAATATT
553363 ATAAATATAATTTTTATAATTAAATTGTAATTTAAAAATATCTTTTATTCTTTAAAACCCGAACG
1 ATAAATATAATTTTTATAATTAAATTGTAATTTAAAAATATCTTTTATTCTTTAAAACCCGAACG
553428 TTGTACAGACCTACCG
66 TTGTACAGACCTACCG
553444 ATAAATATAA-TTTTATAATTAAATTGTAATTTAAAAATATCTTTTATTCTTTAAAACCCGAACG
1 ATAAATATAATTTTTATAATTAAATTGTAATTTAAAAATATCTTTTATTCTTTAAAACCCGAACG
553508 TTGTACAGACCTACCG
66 TTGTACAGACCTACCG
553524 A
1 A
553525 GAACATATCC
Statistics
Matches: 81, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
80 71 0.88
81 10 0.12
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (81 bp):
ATAAATATAATTTTTATAATTAAATTGTAATTTAAAAATATCTTTTATTCTTTAAAACCCGAACG
TTGTACAGACCTACCG
Found at i:555097 original size:3 final size:3
Alignment explanation
Indices: 555083--555123 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
555073 GGATGATAAA
*
555083 ATG ATT ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
555124 AAAAGCTTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (3 bp):
ATG
Found at i:556693 original size:6 final size:6
Alignment explanation
Indices: 556659--556690 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
556649 TAACCCTTGC
556659 TTTCTT TTTCTT TTTCTT TTTCTT TTT-TT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
556691 TTTGAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTCTT
Found at i:557388 original size:80 final size:81
Alignment explanation
Indices: 557290--557452 Score: 319
Period size: 80 Copynumber: 2.0 Consensus size: 81
557280 TATTAAGGAT
557290 AAATATTAAAATTATACATTAATTTTGATACAATTTATAATGTTATACATTAACTTTAATTTGAT
1 AAATATTAAAATTATACATTAATTTTGATACAATTTATAATGTTATACATTAACTTTAATTTGAT
557355 TCATTTATATACATAA
66 TCATTTATATACATAA
557371 AAATATT-AAATTATACATTAATTTTGATACAATTTATAATGTTATACATTAACTTTAATTTGAT
1 AAATATTAAAATTATACATTAATTTTGATACAATTTATAATGTTATACATTAACTTTAATTTGAT
557435 TCATTTATATACATAA
66 TCATTTATATACATAA
557451 AA
1 AA
557453 TTTTAATTAT
Statistics
Matches: 82, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
80 75 0.91
81 7 0.09
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (81 bp):
AAATATTAAAATTATACATTAATTTTGATACAATTTATAATGTTATACATTAACTTTAATTTGAT
TCATTTATATACATAA
Found at i:558387 original size:13 final size:13
Alignment explanation
Indices: 558345--558387 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
558335 TATACGACTC
*
558345 AAAAGAAATTACT
1 AAAATAAATTACT
558358 AAAATAACA-TA-T
1 AAAATAA-ATTACT
558370 AAAATAAATTACT
1 AAAATAAATTACT
558383 AAAAT
1 AAAAT
558388 TTGATTTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
11 1 0.04
12 10 0.38
13 14 0.54
14 1 0.04
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.26
Consensus pattern (13 bp):
AAAATAAATTACT
Found at i:559778 original size:31 final size:32
Alignment explanation
Indices: 559723--559784 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 32
559713 GGATTTTATA
559723 TTTGGTTTAAATGTTTCAATTTGGTACTTGAG
1 TTTGGTTTAAATGTTTCAATTTGGTACTTGAG
**
559755 TTTGGTTTTGATGTTT-AATTTGGTACTTGA
1 TTTGGTTTAAATGTTTCAATTTGGTACTTGA
559785 TTGTTCTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 14 0.50
32 14 0.50
ACGTcount: A:0.19, C:0.05, G:0.23, T:0.53
Consensus pattern (32 bp):
TTTGGTTTAAATGTTTCAATTTGGTACTTGAG
Found at i:571074 original size:12 final size:12
Alignment explanation
Indices: 571057--571082 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
571047 TACATATATG
571057 TACACACATACA
1 TACACACATACA
571069 TACACACATACA
1 TACACACATACA
571081 TA
1 TA
571083 TAGCTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (12 bp):
TACACACATACA
Found at i:581433 original size:21 final size:21
Alignment explanation
Indices: 581408--581449 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
581398 CGATATTATC
*
581408 TATTTGTATCGTTTTATATTT
1 TATTTGTATCGTATTATATTT
* *
581429 TATTTTTTTCGTATTATATTT
1 TATTTGTATCGTATTATATTT
581450 ATATATATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.19, C:0.05, G:0.07, T:0.69
Consensus pattern (21 bp):
TATTTGTATCGTATTATATTT
Found at i:593840 original size:31 final size:31
Alignment explanation
Indices: 593778--593840 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
593768 TACTCAAATT
* * **
593778 TAAAAAAAAATTAATGATATAATGATTTAAA
1 TAAAAAAAAATTAATAATATAAGGACGTAAA
* *
593809 TAAAAAAAATTTAATAATTTAAGGACGTAAA
1 TAAAAAAAAATTAATAATATAAGGACGTAAA
593840 T
1 T
593841 CAATACTTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.32
Consensus pattern (31 bp):
TAAAAAAAAATTAATAATATAAGGACGTAAA
Found at i:596876 original size:22 final size:24
Alignment explanation
Indices: 596851--596895 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
596841 TATTCAAAGC
596851 TAACCC-TAAGCT-AAAA-CAAAAA
1 TAACCCGT-AGCTCAAAATCAAAAA
596873 TAACCCGTAGCTCAAAATCAAAA
1 TAACCCGTAGCTCAAAATCAAAA
596896 CCATGTCTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 10 0.50
23 5 0.25
24 5 0.25
ACGTcount: A:0.53, C:0.24, G:0.07, T:0.16
Consensus pattern (24 bp):
TAACCCGTAGCTCAAAATCAAAAA
Found at i:601640 original size:17 final size:17
Alignment explanation
Indices: 601618--601651 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
601608 ATAGACTCGC
*
601618 TTAGATATACTTAGTAT
1 TTAGATATAATTAGTAT
601635 TTAGATATAATTAGTAT
1 TTAGATATAATTAGTAT
601652 AATATACCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (17 bp):
TTAGATATAATTAGTAT
Found at i:606309 original size:190 final size:190
Alignment explanation
Indices: 605986--606366 Score: 649
Period size: 190 Copynumber: 2.0 Consensus size: 190
605976 TACAGAATCG
*
605986 TTTTGTTTTCTAAATTCAATTTGAGTAGATACTAAACATAAGATAAGTAAGTGGAGAATAGAAAG
1 TTTTGTTTTCTAAATTCAATTTGAGTAGATACAAAACATAAGATAAGTAAGTGGAGAATAGAAAG
606051 GAAGGATAAATGAGGGGAACAAATAATTACAGGGAGTATTCTTCGTCTTTCTAGCCTTCGACACA
66 GAAGGATAAATGAGGGGAACAAATAATTACAGGGAGTATTCTTCGTCTTTCTAGCCTTCGACACA
* * *
606116 AGAAAAGG-GTGTGTA-AAATTCCTTTTCTTGTGTCGAAATAATAACAATTACGGGACCCGT
131 AGAAAAGGAAT-TGTATAAA-CCCTTTTCTTGTGTCGAAATAATAACAATTACGCGACCCGT
*
606176 TTTTGTTTTCTAAATTTAATTTGAGTAGATACAAAACATAAGATAAGTAAGTGGAGAATAGAAAG
1 TTTTGTTTTCTAAATTCAATTTGAGTAGATACAAAACATAAGATAAGTAAGTGGAGAATAGAAAG
606241 GAAGGATAAATGAGGGGAACAAATAATTACAGGGAGTATTCTTCGTCTTTCTAGCCTTCGACACA
66 GAAGGATAAATGAGGGGAACAAATAATTACAGGGAGTATTCTTCGTCTTTCTAGCCTTCGACACA
* * * *
606306 AGAAAAGGAATTTTATACACCCTTTTCTTGTGTCGAAATAATACCAATTCCGCGACCCGT
131 AGAAAAGGAATTGTATAAACCCTTTTCTTGTGTCGAAATAATAACAATTACGCGACCCGT
606366 T
1 T
606367 AGTCAAAGAT
Statistics
Matches: 180, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
190 177 0.98
191 3 0.02
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (190 bp):
TTTTGTTTTCTAAATTCAATTTGAGTAGATACAAAACATAAGATAAGTAAGTGGAGAATAGAAAG
GAAGGATAAATGAGGGGAACAAATAATTACAGGGAGTATTCTTCGTCTTTCTAGCCTTCGACACA
AGAAAAGGAATTGTATAAACCCTTTTCTTGTGTCGAAATAATAACAATTACGCGACCCGT
Found at i:614504 original size:2 final size:2
Alignment explanation
Indices: 614497--614521 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
614487 GATTTTTCTT
614497 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
614522 CCTATGGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:630055 original size:13 final size:13
Alignment explanation
Indices: 630037--630077 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
630027 CTTCTACTTT
630037 AATTTTTTTATAA
1 AATTTTTTTATAA
* *
630050 AATTTTATTATAC
1 AATTTTTTTATAA
630063 AATTTTTTT-TAA
1 AATTTTTTTATAA
630075 AAT
1 AAT
630078 ATTTAAATTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
12 5 0.21
13 19 0.79
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (13 bp):
AATTTTTTTATAA
Found at i:639437 original size:98 final size:97
Alignment explanation
Indices: 639255--639438 Score: 253
Period size: 98 Copynumber: 1.9 Consensus size: 97
639245 GGTATTGTTG
** * *
639255 ATTTTTGTTCATTTCATTTAAAAGGTATAATTTTAATTTTGGTCCCTATGCTATGCAGTTATTTG
1 ATTTTTGTTCATTTCATTTAAAAAATATAATTTTAATTTTGATCCCTATGCTAGGCAGTTATTTG
*
639320 CATTTCGAGATCTCGTTGGTTGTTAATTGCCA
66 CATTTCGAGATCTCATTGGTTGTTAATTGCCA
* * * **
639352 ATTTTTGTTCTTTTCATTTAAGAAAATATAATTTTTATTTTGATCCCTCTTTTAGGCAGTTATTT
1 ATTTTTGTTCATTTCATTTAA-AAAATATAATTTTAATTTTGATCCCTATGCTAGGCAGTTATTT
639417 GCATTTCGAGATCGT-ATTGGTT
65 GCATTTCGAGATC-TCATTGGTT
639439 AATAAATGAT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
97 20 0.27
98 54 0.72
99 1 0.01
ACGTcount: A:0.23, C:0.12, G:0.15, T:0.49
Consensus pattern (97 bp):
ATTTTTGTTCATTTCATTTAAAAAATATAATTTTAATTTTGATCCCTATGCTAGGCAGTTATTTG
CATTTCGAGATCTCATTGGTTGTTAATTGCCA
Found at i:639577 original size:28 final size:29
Alignment explanation
Indices: 639545--639602 Score: 100
Period size: 28 Copynumber: 2.0 Consensus size: 29
639535 TCATATTGGT
639545 TGATAATTGCCTGA-CTTTTTTTTTTAGG
1 TGATAATTGCCTGATCTTTTTTTTTTAGG
*
639573 TGATAATTGCCTGATTTTTTTTTTTTAGG
1 TGATAATTGCCTGATCTTTTTTTTTTAGG
639602 T
1 T
639603 TTAAGGGTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 14 0.50
29 14 0.50
ACGTcount: A:0.17, C:0.09, G:0.17, T:0.57
Consensus pattern (29 bp):
TGATAATTGCCTGATCTTTTTTTTTTAGG
Found at i:639940 original size:8 final size:8
Alignment explanation
Indices: 639924--639965 Score: 57
Period size: 8 Copynumber: 5.1 Consensus size: 8
639914 TTATATTTTA
639924 ATAAAAAT
1 ATAAAAAT
*
639932 ATTAAAAT
1 ATAAAAAT
*
639940 ATTAAAATT
1 A-TAAAAAT
639949 ATAAAAAT
1 ATAAAAAT
639957 ATAAAAAT
1 ATAAAAAT
639965 A
1 A
639966 GCAAAAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
8 23 0.79
9 6 0.21
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (8 bp):
ATAAAAAT
Found at i:639955 original size:17 final size:17
Alignment explanation
Indices: 639925--639964 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
639915 TATATTTTAA
* *
639925 TAAAAATATTAAAATAT
1 TAAAATTATAAAAATAT
639942 TAAAATTATAAAAATAT
1 TAAAATTATAAAAATAT
*
639959 AAAAAT
1 TAAAAT
639965 AGCAAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAAATTATAAAAATAT
Found at i:639971 original size:25 final size:25
Alignment explanation
Indices: 639924--639971 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
639914 TTATATTTTA
* **
639924 ATAAAAATATTAAAATATTAAAATT
1 ATAAAAATATAAAAATAGCAAAATT
639949 ATAAAAATATAAAAATAGCAAAA
1 ATAAAAATATAAAAATAGCAAAA
639972 AATTTATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (25 bp):
ATAAAAATATAAAAATAGCAAAATT
Found at i:640250 original size:13 final size:14
Alignment explanation
Indices: 640232--640264 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
640222 AATTAAAGAC
640232 GGTTAACT-TTAAA
1 GGTTAACTATTAAA
640245 GGTTAACTATTAAA
1 GGTTAACTATTAAA
640259 -GTTAAC
1 GGTTAAC
640265 GGTCAAAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.36
Consensus pattern (14 bp):
GGTTAACTATTAAA
Found at i:640524 original size:88 final size:88
Alignment explanation
Indices: 640271--640534 Score: 241
Period size: 88 Copynumber: 2.9 Consensus size: 88
640261 TAACGGTCAA
* * ** * *
640271 AGAGTTTTTTTGATGTATTTTGGCAA-TTTAAGTACTCAATCGAGTGCAAAGAAAACAAAGGCTT
1 AGAGCTTTTTTGATGCATTTT-AAAAGTTTAAGTACCCAATTGAGTG-AAA-AAAA-AAAGGCTT
* *
640335 AATTGTTTTTATTTTTATTTTTTATGTTTG
62 AA-T-TTTTT-TTTATATTTTTTAAGTTTG
* * *
640365 AGAGCTTTTTTGATGCATTTTGAAAGTTCAAGTACCTAATTGAGTGGAAAAAAAACAAGGGCTTA
1 AGAGCTTTTTTGATGCATTTTAAAAGTTTAAGTACCCAATTGAGT-GAAAAAAAA-AA-GGCTTA
640430 A--TTTTTTTAT-TTTTTTAAGTTTG
63 ATTTTTTTTTATATTTTTTAAGTTTG
* * *
640453 AGGGTCTTTTTT-ATGTATTTTAAAAGTTTAAGTACCCAATTGAGTGAAAAAAATAAAGACTTAA
1 AGAG-CTTTTTTGATGCATTTTAAAAGTTTAAGTACCCAATTGAGTGAAAAAAA-AAAGGCTTAA
* *
640517 TTTTTTTTGAAATTTTTT
64 TTTTTTTTTATATTTTTT
640535 TAGAATTTTT
Statistics
Matches: 144, Mismatches: 17, Indels: 23
0.78 0.09 0.12
Matches are distributed among these distances:
86 6 0.04
87 10 0.07
88 52 0.36
89 17 0.12
90 4 0.03
92 1 0.01
93 9 0.06
94 44 0.31
95 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.16, T:0.45
Consensus pattern (88 bp):
AGAGCTTTTTTGATGCATTTTAAAAGTTTAAGTACCCAATTGAGTGAAAAAAAAAAGGCTTAATT
TTTTTTTATATTTTTTAAGTTTG
Found at i:643682 original size:9 final size:9
Alignment explanation
Indices: 643668--643692 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
643658 TTCATTACGC
643668 TTTTAAAAA
1 TTTTAAAAA
643677 TTTTAAAAA
1 TTTTAAAAA
643686 TTTTAAA
1 TTTTAAA
643693 TTAATAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:644563 original size:83 final size:81
Alignment explanation
Indices: 644430--644581 Score: 216
Period size: 83 Copynumber: 1.9 Consensus size: 81
644420 ATTTCGAGAT
* * * * *
644430 CTTAGTTAGGCTTATCGTAGGATTTGATTTTCATTTCTTTATAGGCCGGATCTTCAATTATTTAT
1 CTTAGTTAAGCTTATCGTAGCATTTGACTTTCATTTCCTTACAGGCCGGATCTTCAA--ATTTAT
644495 TTATTTTTGAAATTTTCA
64 TTATTTTTGAAATTTTCA
*
644513 CTTAGTTAAGCTTATCGTAGCATTTGACTTTCATTTCCTTACATGG-CGGATCTTCAAATTTTTT
1 CTTAGTTAAGCTTATCGTAGCATTTGACTTTCATTTCCTTACA-GGCCGGATCTTCAAATTTATT
644577 TATTT
65 TATTT
644582 CTTTGCTTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
81 11 0.18
83 49 0.79
84 2 0.03
ACGTcount: A:0.22, C:0.14, G:0.14, T:0.49
Consensus pattern (81 bp):
CTTAGTTAAGCTTATCGTAGCATTTGACTTTCATTTCCTTACAGGCCGGATCTTCAAATTTATTT
ATTTTTGAAATTTTCA
Found at i:644722 original size:82 final size:82
Alignment explanation
Indices: 644588--644847 Score: 434
Period size: 82 Copynumber: 3.1 Consensus size: 82
644578 ATTTCTTTGC
644588 TTTTT-TTT-TAATTTTCATTTCGAACTCTTAGTTAAGCTTATCGTAGCATTTTATTTTCATTTA
1 TTTTTATTTCTAATTTTCATTTCGAACTCTTAGTTAAGCTTATCGTAGCATTTTATTTTCATTTA
644651 TATGGCGGATCATCAAT
66 TATGGCGGATCATCAAT
644668 TTTTTATTTCTAATTTTCATTTCGAACTCTTAGTTAAGCTTATCGTAGCATTTTATTTTCATTTA
1 TTTTTATTTCTAATTTTCATTTCGAACTCTTAGTTAAGCTTATCGTAGCATTTTATTTTCATTTA
644733 TATGGCGGATCATCAAT
66 TATGGCGGATCATCAAT
*
644750 TTTTTATTTCTAATTTTCATTTCGAACTCTTAGTTAAGCTTATCGTAGCATTTGATTTTCATTTC
1 TTTTTATTTCTAATTTTCATTTCGAACTCTTAGTTAAGCTTATCGTAGCATTTTATTTTCA--T-
* *
644815 TTAATATGTCGGATCTTCAATT
63 TT-ATATGGCGGATCATCAA-T
644837 TTTTTATTTCT
1 TTTTTATTTCT
644848 CTCTCTCTCT
Statistics
Matches: 170, Mismatches: 3, Indels: 7
0.94 0.02 0.04
Matches are distributed among these distances:
80 5 0.03
81 3 0.02
82 132 0.78
84 1 0.01
85 2 0.01
86 15 0.09
87 12 0.07
ACGTcount: A:0.23, C:0.14, G:0.10, T:0.52
Consensus pattern (82 bp):
TTTTTATTTCTAATTTTCATTTCGAACTCTTAGTTAAGCTTATCGTAGCATTTTATTTTCATTTA
TATGGCGGATCATCAAT
Found at i:650514 original size:513 final size:513
Alignment explanation
Indices: 649547--650572 Score: 2052
Period size: 513 Copynumber: 2.0 Consensus size: 513
649537 ATCCATTCGG
649547 TTTTGAAATAGTCAAATGAGGTAGGTTTATCGATTTTTATCTCAATTTAATTGGTTATTAGTTTT
1 TTTTGAAATAGTCAAATGAGGTAGGTTTATCGATTTTTATCTCAATTTAATTGGTTATTAGTTTT
649612 TGAATCTTCAAATCAAACTAATCCAAAGGGTAGACTTATTTTATATTATTTTAAAATCATTTAAA
66 TGAATCTTCAAATCAAACTAATCCAAAGGGTAGACTTATTTTATATTATTTTAAAATCATTTAAA
649677 ATATATTTATATTTTATATTATATAATACATATATAACCATGTAAAATTAACCCAATAATCCTAA
131 ATATATTTATATTTTATATTATATAATACATATATAACCATGTAAAATTAACCCAATAATCCTAA
649742 ATCCAACTCAACAGCTCAAAGTTGATTAATCGAAAAAACCGACCAAAACAAAATTGATTTGGTTT
196 ATCCAACTCAACAGCTCAAAGTTGATTAATCGAAAAAACCGACCAAAACAAAATTGATTTGGTTT
649807 GGACAATTTTTTCGACTGAAGTTATTGGATTGATTTTGCTCTCCCCTAATTAGCAATATATACAT
261 GGACAATTTTTTCGACTGAAGTTATTGGATTGATTTTGCTCTCCCCTAATTAGCAATATATACAT
649872 ATATACATACATGTATCATTGGATGCGAGATGAACACCATTACTTAATCATTTTCAATCTGTTTG
326 ATATACATACATGTATCATTGGATGCGAGATGAACACCATTACTTAATCATTTTCAATCTGTTTG
649937 ATAATTTATGTTACCCGAACTCGGGGCAAGTGTTAGATACAGATATGTCGGTATTTCCGGGGTGT
391 ATAATTTATGTTACCCGAACTCGGGGCAAGTGTTAGATACAGATATGTCGGTATTTCCGGGGTGT
650002 CAGATATGTATGGATACATAACGAAAAATCTGAATAATATAGCATGTTGCAACTAAAC
456 CAGATATGTATGGATACATAACGAAAAATCTGAATAATATAGCATGTTGCAACTAAAC
650060 TTTTGAAATAGTCAAATGAGGTAGGTTTATCGATTTTTATCTCAATTTAATTGGTTATTAGTTTT
1 TTTTGAAATAGTCAAATGAGGTAGGTTTATCGATTTTTATCTCAATTTAATTGGTTATTAGTTTT
650125 TGAATCTTCAAATCAAACTAATCCAAAGGGTAGACTTATTTTATATTATTTTAAAATCATTTAAA
66 TGAATCTTCAAATCAAACTAATCCAAAGGGTAGACTTATTTTATATTATTTTAAAATCATTTAAA
650190 ATATATTTATATTTTATATTATATAATACATATATAACCATGTAAAATTAACCCAATAATCCTAA
131 ATATATTTATATTTTATATTATATAATACATATATAACCATGTAAAATTAACCCAATAATCCTAA
650255 ATCCAACTCAACAGCTCAAAGTTGATTAATCGAAAAAACCGACCAAAACAAAATTGATTTGGTTT
196 ATCCAACTCAACAGCTCAAAGTTGATTAATCGAAAAAACCGACCAAAACAAAATTGATTTGGTTT
650320 GGACAATTTTTTCGACTGAAGTTATTGGATTGATTTTGCTCTCCCCTAATTAGCAATATATACAT
261 GGACAATTTTTTCGACTGAAGTTATTGGATTGATTTTGCTCTCCCCTAATTAGCAATATATACAT
650385 ATATACATACATGTATCATTGGATGCGAGATGAACACCATTACTTAATCATTTTCAATCTGTTTG
326 ATATACATACATGTATCATTGGATGCGAGATGAACACCATTACTTAATCATTTTCAATCTGTTTG
650450 ATAATTTATGTTACCCGAACTCGGGGCAAGTGTTAGATACAGATATGTCGGTATTTCCGGGGTGT
391 ATAATTTATGTTACCCGAACTCGGGGCAAGTGTTAGATACAGATATGTCGGTATTTCCGGGGTGT
650515 CAGATATGTATGGATACATAACGAAAAATCTGAATAATATAGCATGTTGCAACTAAAC
456 CAGATATGTATGGATACATAACGAAAAATCTGAATAATATAGCATGTTGCAACTAAAC
650573 AACAAAGGGA
Statistics
Matches: 513, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
513 513 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (513 bp):
TTTTGAAATAGTCAAATGAGGTAGGTTTATCGATTTTTATCTCAATTTAATTGGTTATTAGTTTT
TGAATCTTCAAATCAAACTAATCCAAAGGGTAGACTTATTTTATATTATTTTAAAATCATTTAAA
ATATATTTATATTTTATATTATATAATACATATATAACCATGTAAAATTAACCCAATAATCCTAA
ATCCAACTCAACAGCTCAAAGTTGATTAATCGAAAAAACCGACCAAAACAAAATTGATTTGGTTT
GGACAATTTTTTCGACTGAAGTTATTGGATTGATTTTGCTCTCCCCTAATTAGCAATATATACAT
ATATACATACATGTATCATTGGATGCGAGATGAACACCATTACTTAATCATTTTCAATCTGTTTG
ATAATTTATGTTACCCGAACTCGGGGCAAGTGTTAGATACAGATATGTCGGTATTTCCGGGGTGT
CAGATATGTATGGATACATAACGAAAAATCTGAATAATATAGCATGTTGCAACTAAAC
Found at i:654165 original size:22 final size:23
Alignment explanation
Indices: 654122--654165 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
654112 TAGTAAAATT
654122 TTTAAAATCATTAATTATAAAAA
1 TTTAAAATCATTAATTATAAAAA
654145 TTTAACAAT-ATTAA-TATAAAA
1 TTTAA-AATCATTAATTATAAAA
654166 TATATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
23 10 0.50
24 3 0.15
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (23 bp):
TTTAAAATCATTAATTATAAAAA
Found at i:655279 original size:136 final size:137
Alignment explanation
Indices: 655124--655399 Score: 529
Period size: 136 Copynumber: 2.0 Consensus size: 137
655114 CAAAATAATT
655124 TTAGAAAGTATTACAAAAATTGGTGTAGTAATAATGTGGTCTTGAAACTTTATTAAAATATATCG
1 TTAGAAAGTATTACAAAAATTGGTGTAGTAATAATGTGGTCTTGAAACTTTATTAAAATATATCG
655189 TTTAATTATTTTAAAATAATTTTAT-ATTAACATTAATATATTATTATAATTAAATTTAAATTTA
66 TTTAATTATTTTAAAATAATTTTATAATT-ACATTAATATATTATTATAATTAAATTTAAATTTA
655253 AATAAAAA
130 AATAAAAA
655261 TTAGAAAGTA-TACAAAAATTGGTGTAGTAATAATGTGGTCTTGAAACTTTATTAAAATATATCG
1 TTAGAAAGTATTACAAAAATTGGTGTAGTAATAATGTGGTCTTGAAACTTTATTAAAATATATCG
655325 TTTAATTATTTTAAAATAATTTTATAATTACATTAATATATTATTATAATTAAATTTAAATTTAA
66 TTTAATTATTTTAAAATAATTTTATAATTACATTAATATATTATTATAATTAAATTTAAATTTAA
655390 ATAAAAA
131 ATAAAAA
655397 TTA
1 TTA
655400 TTATTATTAT
Statistics
Matches: 138, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
136 125 0.91
137 13 0.09
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (137 bp):
TTAGAAAGTATTACAAAAATTGGTGTAGTAATAATGTGGTCTTGAAACTTTATTAAAATATATCG
TTTAATTATTTTAAAATAATTTTATAATTACATTAATATATTATTATAATTAAATTTAAATTTAA
ATAAAAA
Found at i:655360 original size:22 final size:22
Alignment explanation
Indices: 655335--655385 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
655325 TTTAATTATT
*
655335 TTAAAATAATT-TTATAATTACA
1 TTAAAAT-ATTATTATAATTAAA
*
655357 TTAATATATTATTATAATTAAA
1 TTAAAATATTATTATAATTAAA
*
655379 TTTAAAT
1 TTAAAAT
655386 TTAAATAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 3 0.12
22 21 0.88
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TTAAAATATTATTATAATTAAA
Found at i:667334 original size:44 final size:44
Alignment explanation
Indices: 667284--667415 Score: 201
Period size: 44 Copynumber: 3.0 Consensus size: 44
667274 TACAAAAAAC
*
667284 TAAATCCACAAGGATTAATAGCAGAATTTGACTATTTTTAGCAT
1 TAAATCCACAAGGATTAATAGCAGAATTTGACCATTTTTAGCAT
*
667328 TAAATCCACAAGGATTAGTAGCAGAATTTGACCATTTTTAGCAT
1 TAAATCCACAAGGATTAATAGCAGAATTTGACCATTTTTAGCAT
* * * * *
667372 TAAATTCACAAGGACTAATATCAGAACTTGACCATTTTAAGCAT
1 TAAATCCACAAGGATTAATAGCAGAATTTGACCATTTTTAGCAT
667416 AGAAAGAGGA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 80 1.00
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.32
Consensus pattern (44 bp):
TAAATCCACAAGGATTAATAGCAGAATTTGACCATTTTTAGCAT
Found at i:667578 original size:247 final size:248
Alignment explanation
Indices: 667124--667617 Score: 780
Period size: 247 Copynumber: 2.0 Consensus size: 248
667114 AATAAAAAAC
* * * *
667124 TAAATCCACAAGGACTAATAGCAAAATTTGACCATTTTTAGCATATAATCAGGATTTGCCTTACT
1 TAAATCCACAAGGACTAATAGCAAAACTTGACCATTTTAAGCATAGAAACAGGATTTGCCTTACT
* *
667189 GGATCAAGACGAAGGTAAACAATCCTTTTGCATGGTTCATTGAAGCTTCAAAAACTATAAGAACT
66 GGATCAAGACGAAGGTAAACAATCCTCTTGCATGGTTCATTGAAGCTTCAAAAACAATAAGAACT
*
667254 AAAACTGACCAAATTTAGAGTACAAAAAACTAAATCCACAAGGATTAATAGCAGAATTTGACTAT
131 AAAACTGACCAAATTTAGAATACAAAAAACTAAATCCACAAGGATTAATAGCAGAATTTGACTAT
* *
667319 TTTTAGCATTAAATCCACAAGGATTAGTAGCAGAATTTGACCATTTTTAGCAT
196 TTTTAGCATTAAATCCACAAGGATTAATAACAGAATTTGACCATTTTTAGCAT
* * * *
667372 TAAATTCACAAGGACTAATATCAGAACTTGACCATTTTAAGCATAGAAAGAGGATTTGCCTTACT
1 TAAATCCACAAGGACTAATAGCAAAACTTGACCATTTTAAGCATAGAAACAGGATTTGCCTTACT
* *
667437 GGATCAAGAC-AAGGGT-AACAATCCTCTTGCATGGTTCATTGGAGCTTTCAAAAAGAATAAGAA
66 GGATCAAGACGAA-GGTAAACAATCCTCTTGCATGGTTCATTGAAGC-TTCAAAAACAATAAGAA
* *
667500 CTAAAACTGAGCAAA-TTAGAATACAGAAAACTAAATCCACAAGGATTAATAGCAGAATTTGAGC
129 CTAAAACTGACCAAATTTAGAATACAAAAAACTAAATCCACAAGGATTAATAGCAGAATTTGA-C
667564 -ATTTTTAGCATTAAATCCACAAGGATTAATAACAGAATTTGACCATTTTTAGCA
193 TATTTTTAGCATTAAATCCACAAGGATTAATAACAGAATTTGACCATTTTTAGCA
667618 ATATAAGAGG
Statistics
Matches: 226, Mismatches: 17, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
247 126 0.56
248 100 0.44
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.28
Consensus pattern (248 bp):
TAAATCCACAAGGACTAATAGCAAAACTTGACCATTTTAAGCATAGAAACAGGATTTGCCTTACT
GGATCAAGACGAAGGTAAACAATCCTCTTGCATGGTTCATTGAAGCTTCAAAAACAATAAGAACT
AAAACTGACCAAATTTAGAATACAAAAAACTAAATCCACAAGGATTAATAGCAGAATTTGACTAT
TTTTAGCATTAAATCCACAAGGATTAATAACAGAATTTGACCATTTTTAGCAT
Found at i:667594 original size:44 final size:44
Alignment explanation
Indices: 667531--667617 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 44
667521 TACAGAAAAC
* *
667531 TAAATCCACAAGGATTAATAGCAGAATTTGAGCATTTTTAGCAT
1 TAAATCCACAAGGATTAATAACAGAATTTGACCATTTTTAGCAT
667575 TAAATCCACAAGGATTAATAACAGAATTTGACCATTTTTAGCA
1 TAAATCCACAAGGATTAATAACAGAATTTGACCATTTTTAGCA
667618 ATATAAGAGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (44 bp):
TAAATCCACAAGGATTAATAACAGAATTTGACCATTTTTAGCAT
Found at i:668627 original size:20 final size:21
Alignment explanation
Indices: 668592--668633 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
668582 TTAAAAAATT
668592 AAATTTAAATGAAAATT-TTG
1 AAATTTAAATGAAAATTGTTG
668612 AAATTTAGAATG-AAATTGTTG
1 AAATTTA-AATGAAAATTGTTG
668633 A
1 A
668634 TGTCATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.48, C:0.00, G:0.14, T:0.38
Consensus pattern (21 bp):
AAATTTAAATGAAAATTGTTG
Found at i:668731 original size:31 final size:32
Alignment explanation
Indices: 668696--668767 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
668686 CTTCTGATCG
* * *
668696 ATTTTAGTCTTTGTATTTTTTG-AATTGATTA
1 ATTTTAATCTTTGTACTTTTCGAAATTGATTA
668727 ATTTTAATCTTTGTACTTTTCGAAATTGA--A
1 ATTTTAATCTTTGTACTTTTCGAAATTGATTA
*
668757 AGTTTAATCTT
1 ATTTTAATCTT
668768 GACCCAAAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 11 0.31
31 19 0.53
32 6 0.17
ACGTcount: A:0.26, C:0.07, G:0.11, T:0.56
Consensus pattern (32 bp):
ATTTTAATCTTTGTACTTTTCGAAATTGATTA
Found at i:669080 original size:8 final size:8
Alignment explanation
Indices: 669051--669079 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
669041 TTAACGAGGA
669051 TTAAAATT
1 TTAAAATT
669059 TTAAAATT
1 TTAAAATT
669067 TTAAAA-T
1 TTAAAATT
669074 TTAAAA
1 TTAAAA
669080 AATATAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
TTAAAATT
Found at i:669103 original size:14 final size:15
Alignment explanation
Indices: 669077--669107 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
669067 TTAAAATTTA
669077 AAAAATATAGAAATT
1 AAAAATATAGAAATT
669092 AAAAATAT-GAAATT
1 AAAAATATAGAAATT
669106 AA
1 AA
669108 TTTAGACTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (15 bp):
AAAAATATAGAAATT
Found at i:672802 original size:17 final size:17
Alignment explanation
Indices: 672782--672818 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
672772 CTTGAAGGTC
672782 ATTGTATTAAATGTCAG
1 ATTGTATTAAATGTCAG
*
672799 ATTGTATTAAATGTTAG
1 ATTGTATTAAATGTCAG
672816 ATT
1 ATT
672819 TATGTATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.35, C:0.03, G:0.16, T:0.46
Consensus pattern (17 bp):
ATTGTATTAAATGTCAG
Found at i:672967 original size:24 final size:23
Alignment explanation
Indices: 672940--672984 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
672930 ATATATATTA
672940 TTTTTAATTTAACATTTTAAATAG
1 TTTTTAATTTAA-ATTTTAAATAG
*
672964 TTTTTTATTTAAATTTTAAAT
1 TTTTTAATTTAAATTTTAAAT
672985 TTAGACAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTTTAATTTAAATTTTAAATAG
Found at i:673204 original size:2 final size:2
Alignment explanation
Indices: 673199--673227 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
673189 AAAAAAAAAA
673199 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
673228 AATTTACGCT
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:679755 original size:2 final size:2
Alignment explanation
Indices: 679750--679778 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
679740 AAAAAAAAAA
679750 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
679779 AATTTACGCT
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:688469 original size:16 final size:18
Alignment explanation
Indices: 688437--688470 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
688427 AATTCTTTGA
688437 AAGTAATTTATTATCAAT
1 AAGTAATTTATTATCAAT
688455 AAGTAA-TTA-TATCAAT
1 AAGTAATTTATTATCAAT
688471 TGTAATAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 3 0.19
18 6 0.38
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (18 bp):
AAGTAATTTATTATCAAT
Found at i:697401 original size:7 final size:7
Alignment explanation
Indices: 697389--697413 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
697379 TCCAATAAAA
697389 ACATGAC
1 ACATGAC
697396 ACATGAC
1 ACATGAC
697403 ACATGAC
1 ACATGAC
697410 ACAT
1 ACAT
697414 TCTTATTAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.28, G:0.12, T:0.16
Consensus pattern (7 bp):
ACATGAC
Found at i:700678 original size:21 final size:21
Alignment explanation
Indices: 700654--700693 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
700644 TATTTCTTGC
**
700654 TATTTTCTTTTTATTTTTTAT
1 TATTTTCTTACTATTTTTTAT
700675 TATTTTCTTACTATTTTTT
1 TATTTTCTTACTATTTTTT
700694 TGTTGTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (21 bp):
TATTTTCTTACTATTTTTTAT
Found at i:700703 original size:32 final size:32
Alignment explanation
Indices: 700646--700712 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
700636 GCCTCAGATA
* * *
700646 TTTCTTGCTATTTTCTTTTTATTTTTTATTAT
1 TTTCTTACTATTTTCTTTTTATTTTTCACTAT
*
700678 TTTCTTACTATTTT-TTTGTTGTTTTTCACTAT
1 TTTCTTACTATTTTCTTT-TTATTTTTCACTAT
700710 TTT
1 TTT
700713 GCTACCATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 3 0.10
32 27 0.90
ACGTcount: A:0.12, C:0.10, G:0.04, T:0.73
Consensus pattern (32 bp):
TTTCTTACTATTTTCTTTTTATTTTTCACTAT
Found at i:705491 original size:7 final size:7
Alignment explanation
Indices: 705479--705508 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
705469 CCAGACTCAG
705479 CCTGCAC
1 CCTGCAC
705486 CCTGCAC
1 CCTGCAC
705493 CCTGCAC
1 CCTGCAC
705500 CCTGCAC
1 CCTGCAC
705507 CC
1 CC
705509 ATATGATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.13, C:0.60, G:0.13, T:0.13
Consensus pattern (7 bp):
CCTGCAC
Found at i:712748 original size:20 final size:19
Alignment explanation
Indices: 712707--712748 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
712697 TTATTTAAAT
*
712707 AAATTATTAAAAATACATA
1 AAATTATTAAAAATACAAA
*
712726 AAATTATTTAAAAATAGAAA
1 AAATTA-TTAAAAATACAAA
712746 AAA
1 AAA
712749 AACCAATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
AAATTATTAAAAATACAAA
Found at i:714078 original size:15 final size:15
Alignment explanation
Indices: 714023--714079 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
714013 TTTATACTAC
714023 AAAATATTTATTATT
1 AAAATATTTATTATT
** *
714038 ACTATATTTATAACTGT
1 AAAATATTTATTA-T-T
714055 AATAAATATTTATTATT
1 -A-AAATATTTATTATT
714072 AAAATATT
1 AAAATATT
714080 AATATTGATA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
15 17 0.53
16 2 0.06
17 2 0.06
18 2 0.06
19 9 0.28
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.49
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:720121 original size:71 final size:71
Alignment explanation
Indices: 719989--720121 Score: 169
Period size: 71 Copynumber: 1.9 Consensus size: 71
719979 ACTAACATGT
** *
719989 ATGTTAAGGCTTGAACTCAAGGCCTCTAGTACATAAAAGATCTCGAGTGTACTATGGTACTACTT
1 ATGTTAAGGCTTGAACTCAAAACCTCTAG-ACATAAAAGATCTCGAGTGAACTATGGTACTACTT
720054 GACCTAG
65 GACCTAG
* * * * *
720061 ATGTTAAGGTTTGAACTCAAAACCTTTAG-CATTAAAGGTTCTCGAGTGAATTATGGTACTA
1 ATGTTAAGGCTTGAACTCAAAACCTCTAGACA-TAAAAGATCTCGAGTGAACTATGGTACTA
720122 TTTAAGCTAG
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
70 2 0.04
71 25 0.48
72 25 0.48
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (71 bp):
ATGTTAAGGCTTGAACTCAAAACCTCTAGACATAAAAGATCTCGAGTGAACTATGGTACTACTTG
ACCTAG
Found at i:723236 original size:179 final size:177
Alignment explanation
Indices: 722891--723266 Score: 551
Period size: 179 Copynumber: 2.1 Consensus size: 177
722881 AGGATATGAT
722891 CCTCCAAGA-GCATGCATGTATATATGTGTTTATGTATGCCATTTGGATTTTGTATGATTCCCTT
1 CCTCCAA-ATGCATGCATGTATATATGTGTTTATGTATGCCATTTGGATTTTGTATGATTCCCTT
* * *
722955 GTTAATGTCATTCCCTTGTGTTAATGTGTTTATCTTTTGTCAATGCATGCATGCCTGCATGTCAT
65 GTTAATGTCATTACCTTGTGTTAATGTGTTCATCTTTTGTCAATGCATGCATGCATGCATGTCAT
* *
723020 TTGGTTTTTATGGATTTTCTATGGTTCCCGGGATATGATTCTCCAAGAAC
130 TTGGTTTTTATGGACTTTCTATGGTT-CC-GGATATGATCCTCCAAGAAC
* *
723070 CCTCCAAATGCATGCATGTATATATGTGTTTATGTATGTCATTTGGATTTTGTATGGTTCCCTTG
1 CCTCCAAATGCATGCATGTATATATGTGTTTATGTATGCCATTTGGATTTTGTATGATTCCCTTG
* * * *
723135 TTAATGTTATTACCTTGTGTTATTGTGTTCATCTTTTGTCAATGTATGTATGTATGCATGCATGT
66 TTAATGTCATTACCTTGTGTTAATGTGTTCATCTTTTGTC-A---ATGCATGCATGCATGCATGT
* *
723200 CATTTGTTTTTTATGGACTTTGTATGGTT-C-GATATGATCCTCCAAGAAC
127 CATTTGGTTTTTATGGACTTTCTATGGTTCCGGATATGATCCTCCAAGAAC
723249 CCTCCAAATGCATGCATG
1 CCTCCAAATGCATGCATG
723267 CATGCATGTA
Statistics
Matches: 179, Mismatches: 13, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
178 1 0.01
179 133 0.74
180 1 0.01
181 1 0.01
183 43 0.24
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.44
Consensus pattern (177 bp):
CCTCCAAATGCATGCATGTATATATGTGTTTATGTATGCCATTTGGATTTTGTATGATTCCCTTG
TTAATGTCATTACCTTGTGTTAATGTGTTCATCTTTTGTCAATGCATGCATGCATGCATGTCATT
TGGTTTTTATGGACTTTCTATGGTTCCGGATATGATCCTCCAAGAAC
Found at i:735002 original size:19 final size:20
Alignment explanation
Indices: 734980--735022 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
734970 AATTATTTTC
734980 ATTATTTTA-AATATAAAAA
1 ATTATTTTATAATATAAAAA
* *
734999 ATTATTTTATATTATAATAA
1 ATTATTTTATAATATAAAAA
735019 ATTA
1 ATTA
735023 AAATTAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTATTTTATAATATAAAAA
Found at i:735024 original size:28 final size:28
Alignment explanation
Indices: 734970--735025 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
734960 ATCAATTTTG
**
734970 AATTATTTTCATTATTTTAAATATAAAA
1 AATTATTTTCATTATAATAAATATAAAA
*
734998 AATTATTTTATATTATAATAAAT-TAAAA
1 AATTATTTT-CATTATAATAAATATAAAA
735026 TTAATTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 14 0.58
29 10 0.42
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (28 bp):
AATTATTTTCATTATAATAAATATAAAA
Found at i:735436 original size:29 final size:30
Alignment explanation
Indices: 735380--735471 Score: 89
Period size: 29 Copynumber: 3.1 Consensus size: 30
735370 ATATATTTTA
* *
735380 AGTCTTTATACTTTTTGTAAATTT-AAAATTT
1 AGTCATTATAC-TTTT-TACATTTAAAAATTT
*
735411 AGTCATTATA-TTTTTACTTTTAAAAATTT
1 AGTCATTATACTTTTTACATTTAAAAATTT
* * * *
735440 AGTCCTTTTACTTTTTAGATTTCAAAATTT
1 AGTCATTATACTTTTTACATTTAAAAATTT
735470 AG
1 AG
735472 GTTCAATTGT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
28 5 0.10
29 19 0.37
30 18 0.35
31 9 0.18
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.53
Consensus pattern (30 bp):
AGTCATTATACTTTTTACATTTAAAAATTT
Found at i:735467 original size:30 final size:28
Alignment explanation
Indices: 735400--735471 Score: 81
Period size: 30 Copynumber: 2.5 Consensus size: 28
735390 CTTTTTGTAA
735400 ATTTAAAATTTAGTCATTATATTTTTAC
1 ATTTAAAATTTAGTCATTATATTTTTAC
* * * *
735428 TTTTAAAAATTTAGTCCTTTTACTTTTTAG
1 ATTT-AAAATTTAGTCATTATA-TTTTTAC
735458 ATTTCAAAATTTAG
1 ATTT-AAAATTTAG
735472 GTTCAATTGT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
28 3 0.08
29 15 0.42
30 18 0.50
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.53
Consensus pattern (28 bp):
ATTTAAAATTTAGTCATTATATTTTTAC
Found at i:737450 original size:27 final size:28
Alignment explanation
Indices: 737413--737474 Score: 92
Period size: 27 Copynumber: 2.2 Consensus size: 28
737403 AATAAACACC
737413 AAAAATTTATTTTAGAAA-T-AAAAAATA
1 AAAAATTTATTTTA-AAATTAAAAAAATA
737440 AAAAATTTATTTTAAAATTTAAAAAAATA
1 AAAAATTTATTTTAAAA-TTAAAAAAATA
737469 AAAAAT
1 AAAAAT
737475 ATATATATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
26 3 0.09
27 14 0.44
28 1 0.03
29 14 0.44
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (28 bp):
AAAAATTTATTTTAAAATTAAAAAAATA
Found at i:745068 original size:6 final size:6
Alignment explanation
Indices: 745057--745092 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
745047 GCGGGTTTCT
745057 TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC
1 TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC
745093 ATGCTCTGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.17, G:0.17, T:0.67
Consensus pattern (6 bp):
TTTTGC
Found at i:750754 original size:58 final size:58
Alignment explanation
Indices: 750689--750805 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
750679 AAAGAAAAAC
750689 GACTGTGAAAAATAAAGGTTTATATACAAAATTGGCCCCCGTAGTATATATATTTCAT
1 GACTGTGAAAAATAAAGGTTTATATACAAAATTGGCCCCCGTAGTATATATATTTCAT
750747 GACTGTGAAAAATAAAGGTTTATATACAAAATTGGCCCCCGTAGTATATATATTTCAT
1 GACTGTGAAAAATAAAGGTTTATATACAAAATTGGCCCCCGTAGTATATATATTTCAT
750805 G
1 G
750806 TTTAGTTATT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (58 bp):
GACTGTGAAAAATAAAGGTTTATATACAAAATTGGCCCCCGTAGTATATATATTTCAT
Found at i:758552 original size:32 final size:33
Alignment explanation
Indices: 758491--758575 Score: 97
Period size: 32 Copynumber: 2.7 Consensus size: 33
758481 TTTGTGTGGT
* *
758491 TAATTAGAATTTTC-AAAAATTTGAGAGAGACC
1 TAATTAAAATTTTCTAAAAATTTCAGAGAGACC
* *
758523 TAATTAAAATTTTCTAAAAGTTTCA-AGAGAGC
1 TAATTAAAATTTTCTAAAAATTTCAGAGAGACC
*
758555 -AA-TAAAATTATCTAAAAATTT
1 TAATTAAAATTTTCTAAAAATTT
758576 TAGGGGGCCA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
30 17 0.37
31 2 0.04
32 19 0.41
33 8 0.17
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (33 bp):
TAATTAAAATTTTCTAAAAATTTCAGAGAGACC
Found at i:760298 original size:306 final size:306
Alignment explanation
Indices: 759745--760356 Score: 1197
Period size: 306 Copynumber: 2.0 Consensus size: 306
759735 AAAAAAATTA
* * *
759745 TATAATTTTTTAAAAAATACTTTAAGTGATGGCATGGCACAATTTCAGAGTGTCACATCGCTATA
1 TATAATTTTTTAAAAAAAAATTCAAGTGATGGCATGGCACAATTTCAGAGTGTCACATCGCTATA
759810 TCTTACTCGATCCAAGTTTAAGGACCAAGCTGGAAATGTTATCAAATTTAGTGACTAAATAAGCT
66 TCTTACTCGATCCAAGTTTAAGGACCAAGCTGGAAATGTTATCAAATTTAGTGACTAAATAAGCT
759875 TTATCTCGTAAATGAAGGGGTAAGAAGGTCAAACAAAAGAACACGTGGGACCTAAATGTACAAGT
131 TTATCTCGTAAATGAAGGGGTAAGAAGGTCAAACAAAAGAACACGTGGGACCTAAATGTACAAGT
759940 CATTATTAAGTCAACACAAGAAACAAAAAATTAAATCTCCGACAAGCACGTGCTATATGTTGGAA
196 CATTATTAAGTCAACACAAGAAACAAAAAATTAAATCTCCGACAAGCACGTGCTATATGTTGGAA
760005 TGTCTGGCACGTGTCGATTGACTGTTCGTTTGGTTCTTTTTCCTCT
261 TGTCTGGCACGTGTCGATTGACTGTTCGTTTGGTTCTTTTTCCTCT
760051 TATAATTTTTTAAAAAAAAATTCAAGTGATGGCATGGCACAATTTCAGAGTGTCACATCGCTATA
1 TATAATTTTTTAAAAAAAAATTCAAGTGATGGCATGGCACAATTTCAGAGTGTCACATCGCTATA
760116 TCTTACTCGATCCAAGTTTAAGGACCAAGCTGGAAATGTTATCAAATTTAGTGACTAAATAAGCT
66 TCTTACTCGATCCAAGTTTAAGGACCAAGCTGGAAATGTTATCAAATTTAGTGACTAAATAAGCT
760181 TTATCTCGTAAATGAAGGGGTAAGAAGGTCAAACAAAAGAACACGTGGGACCTAAATGTACAAGT
131 TTATCTCGTAAATGAAGGGGTAAGAAGGTCAAACAAAAGAACACGTGGGACCTAAATGTACAAGT
760246 CATTATTAAGTCAACACAAGAAACAAAAAATTAAATCTCCGACAAGCACGTGCTATATGTTGGAA
196 CATTATTAAGTCAACACAAGAAACAAAAAATTAAATCTCCGACAAGCACGTGCTATATGTTGGAA
760311 TGTCTGGCACGTGTCGATTGACTGTTCGTTTGGTTCTTTTTCCTCT
261 TGTCTGGCACGTGTCGATTGACTGTTCGTTTGGTTCTTTTTCCTCT
760357 CTTTTTTACT
Statistics
Matches: 303, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
306 303 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (306 bp):
TATAATTTTTTAAAAAAAAATTCAAGTGATGGCATGGCACAATTTCAGAGTGTCACATCGCTATA
TCTTACTCGATCCAAGTTTAAGGACCAAGCTGGAAATGTTATCAAATTTAGTGACTAAATAAGCT
TTATCTCGTAAATGAAGGGGTAAGAAGGTCAAACAAAAGAACACGTGGGACCTAAATGTACAAGT
CATTATTAAGTCAACACAAGAAACAAAAAATTAAATCTCCGACAAGCACGTGCTATATGTTGGAA
TGTCTGGCACGTGTCGATTGACTGTTCGTTTGGTTCTTTTTCCTCT
Found at i:762126 original size:2 final size:2
Alignment explanation
Indices: 762119--762143 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
762109 ATTAATTTCA
762119 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
762144 ACTCGTTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:763772 original size:30 final size:30
Alignment explanation
Indices: 763737--763799 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
763727 ATAAAACTTA
* *
763737 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTCTGTTATTACTTTAAAGACAT
* *
763767 TTGTTAATTCTGTTATTACTTTAGAGGCAT
1 TTGTTAATTCTGTTATTACTTTAAAGACAT
763797 TTG
1 TTG
763800 CTTGTTAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.06, G:0.14, T:0.54
Consensus pattern (30 bp):
TTGTTAATTCTGTTATTACTTTAAAGACAT
Found at i:763914 original size:63 final size:63
Alignment explanation
Indices: 763845--768759 Score: 9812
Period size: 63 Copynumber: 78.0 Consensus size: 63
763835 TATGCATATT
*
763845 TTTTAAAGCTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
763908 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
763971 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
764034 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
764097 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
764160 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
764223 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
764286 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
764349 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
764412 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
764475 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
764538 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
764601 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
764664 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
764727 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
764790 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
764853 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
764916 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
764979 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
765042 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
765105 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
765168 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
765231 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
765294 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
765357 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
765420 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
765483 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
765546 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
765609 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
765672 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
765735 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
765798 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
765861 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
765924 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
765987 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
766050 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
766113 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
766176 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
766239 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
766302 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
766365 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
766428 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
766491 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
766554 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
766617 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
766680 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
766743 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
766806 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
766869 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
766932 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
766995 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
767058 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
767121 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
767184 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
767247 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
767310 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
767373 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
767436 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
767499 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
767562 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
767625 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
767688 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
767751 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
767814 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
767877 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
767940 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
768003 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
768066 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
768129 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
768192 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
768255 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
768318 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
768381 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
768444 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
768507 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
768570 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
768633 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
*
768696 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAATATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
768759 T
1 T
768760 ATTATATATA
Statistics
Matches: 4850, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 4850 1.00
ACGTcount: A:0.27, C:0.03, G:0.14, T:0.56
Consensus pattern (63 bp):
TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
Found at i:768804 original size:12 final size:12
Alignment explanation
Indices: 768774--768806 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
768764 TATATATTTT
768774 AAAATT-ATATA
1 AAAATTAATATA
768785 AAAA-TAATATA
1 AAAATTAATATA
768796 AAAATTAATAT
1 AAAATTAATAT
768807 GGTAGGACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:783074 original size:2 final size:2
Alignment explanation
Indices: 783067--783103 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
783057 TCTACAAATT
783067 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 T
783104 CNNNNNNNNN
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:796486 original size:3 final size:3
Alignment explanation
Indices: 796478--796503 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
796468 ATATGCCCAT
796478 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
796504 CAAAATTACA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:797598 original size:118 final size:121
Alignment explanation
Indices: 797319--797643 Score: 385
Period size: 118 Copynumber: 2.7 Consensus size: 121
797309 TCTAGTTAAT
* * * *
797319 ATTGGATTCTCGGGTTCGGGTCAGTTTGGTCAATCCAAGTTCGAATCATTTCTGATTTGGATCAT
1 ATTGGATTCTTGGGTTCAGGTCAGTTTGGTCAATCCAAGTTCAAATCATTTCTGGTTTGGATCAT
* * * *
797384 TTTCGGGTTCGGGTTATTGGCTTTTTATCTTCAATCAGGTTTGAGTTCGGGTTAATCGG
66 TTTCAGGTTCGGGTTATTGAC--TTTATCTT-AATCAGGATTGAGTTCAGGTTAATCGG
* *
797443 ATTGGATCCTTGAGTTCAGGTCAGTTTGGTCAATCCAAGTTCAAATCATTTCTGGTTTGGATCAC
1 ATTGGATTCTTGGGTTCAGGTCAGTTTGGTCAATCCAAGTTCAAATCATTTCTGGTTTGGATCA-
*
797508 TTTTCAGGTTGGGGTTATTGAC-TT-TC-T-ATC-GAGATTGAGTTCAGGTTAATTC-G
65 TTTTCAGGTTCGGGTTATTGACTTTATCTTAATCAG-GATTGAGTTCAGGTTAA-TCGG
* * * *
797561 ATTGGATTCTTGGGTTCAGGTCA-TTTCGGTCAATCCAATTTCAAATCATTTTTAGTTTGGATTA
1 ATTGGATTCTTGGGTTCAGGTCAGTTT-GGTCAATCCAAGTTCAAATCATTTCTGGTTTGGATCA
* *
797625 TTTTCAAGTTCGGGCTATT
65 TTTTCAGGTTCGGGTTATT
797644 AATTTTTTAT
Statistics
Matches: 177, Mismatches: 20, Indels: 15
0.83 0.09 0.07
Matches are distributed among these distances:
117 20 0.11
118 73 0.41
119 2 0.01
120 1 0.01
121 2 0.01
122 2 0.01
124 58 0.33
125 19 0.11
ACGTcount: A:0.20, C:0.15, G:0.24, T:0.42
Consensus pattern (121 bp):
ATTGGATTCTTGGGTTCAGGTCAGTTTGGTCAATCCAAGTTCAAATCATTTCTGGTTTGGATCAT
TTTCAGGTTCGGGTTATTGACTTTATCTTAATCAGGATTGAGTTCAGGTTAATCGG
Found at i:802314 original size:6 final size:6
Alignment explanation
Indices: 802293--802328 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
802283 TCCTCCGCGC
* *
802293 CCTCTA CCCCTA CCTCTC CCTCTA CCTCTA CCTCTA
1 CCTCTA CCTCTA CCTCTA CCTCTA CCTCTA CCTCTA
802329 TTAGCTGATC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.14, C:0.56, G:0.00, T:0.31
Consensus pattern (6 bp):
CCTCTA
Found at i:802315 original size:18 final size:18
Alignment explanation
Indices: 802292--802327 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
802282 TTCCTCCGCG
802292 CCCTCTACCCCTACCTCT
1 CCCTCTACCCCTACCTCT
*
802310 CCCTCTACCTCTACCTCT
1 CCCTCTACCCCTACCTCT
802328 ATTAGCTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.58, G:0.00, T:0.31
Consensus pattern (18 bp):
CCCTCTACCCCTACCTCT
Found at i:804509 original size:32 final size:32
Alignment explanation
Indices: 804473--804536 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
804463 ATTACATGAT
804473 AAGTATAAATATATGCCCG-ATCAAGGTAAAGG
1 AAGTATAAATATATGCCCGAAT-AAGGTAAAGG
**
804505 AAGTATAAATATATGTTCGAATAAGGTAAAGG
1 AAGTATAAATATATGCCCGAATAAGGTAAAGG
804537 TTTTGTACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 27 0.93
33 2 0.07
ACGTcount: A:0.45, C:0.08, G:0.22, T:0.25
Consensus pattern (32 bp):
AAGTATAAATATATGCCCGAATAAGGTAAAGG
Found at i:808757 original size:31 final size:29
Alignment explanation
Indices: 808692--808754 Score: 74
Period size: 32 Copynumber: 2.1 Consensus size: 29
808682 GATTAATGAG
*
808692 AATTTTCAAAAATTTGAGGGAGCCTAATTAA
1 AATTTTCAAAAATTTCAGGGAG-C-AATTAA
808723 AATTTTCTAAAAATTTCAGGGAG-AATTCAA
1 AATTTTC-AAAAATTTCAGGGAGCAATT-AA
808753 AA
1 AA
808755 ATTCTAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 4 0.14
30 4 0.14
31 7 0.24
32 14 0.48
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (29 bp):
AATTTTCAAAAATTTCAGGGAGCAATTAA
Done.