Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold34
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: 1758877
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 50 characters in sequence are not A, C, G, or T
File 6 of 12
Found at i:785547 original size:21 final size:20
Alignment explanation
Indices: 785518--785566 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
785508 TCTTATTACA
* *
785518 TAAAAAATTAAAGTTTTTTAT
1 TAAATAATTAAA-TGTTTTAT
*
785539 TAAATAATTTAATGTTTTAT
1 TAAATAATTAAATGTTTTAT
785559 T-AATAATT
1 TAAATAATT
785567 TTGTGCATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 7 0.28
20 8 0.32
21 10 0.40
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (20 bp):
TAAATAATTAAATGTTTTAT
Found at i:788935 original size:23 final size:23
Alignment explanation
Indices: 788906--788949 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
788896 AAATTAATTA
788906 AAAGAAAAAATGAA-AAAAAAAGG
1 AAAGAAAAAA-GAATAAAAAAAGG
*
788929 AAAGAAAGAAGAATAAAAAAA
1 AAAGAAAAAAGAATAAAAAAA
788950 TATAATTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.05
Consensus pattern (23 bp):
AAAGAAAAAAGAATAAAAAAAGG
Found at i:789344 original size:17 final size:16
Alignment explanation
Indices: 789322--789364 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
789312 TTGATAGTAA
789322 TTAAAAATAATTTGTAG
1 TTAAAAATAATTTG-AG
**
789339 TTAAAAATTTTTTGAG
1 TTAAAAATAATTTGAG
*
789355 TAAAAAATAA
1 TTAAAAATAA
789365 AAAAATTAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (16 bp):
TTAAAAATAATTTGAG
Found at i:789560 original size:23 final size:24
Alignment explanation
Indices: 789534--789583 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
789524 AGATAATTAT
*
789534 ATATTTTTTTAATTCAT-TAAATA
1 ATATATTTTTAATTCATGTAAATA
**
789557 ATATATTTTTCTTTCATGTAAATA
1 ATATATTTTTAATTCATGTAAATA
789581 ATA
1 ATA
789584 AATTAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (24 bp):
ATATATTTTTAATTCATGTAAATA
Found at i:789578 original size:24 final size:24
Alignment explanation
Indices: 789532--789583 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
789522 AAAGATAATT
*
789532 ATATATTTTTTTAATTCATTAAATA
1 ATATATTTTTCT-ATTCATTAAATA
789557 ATATATTTTTCT-TTCATGTAAATA
1 ATATATTTTTCTATTCAT-TAAATA
789581 ATA
1 ATA
789584 AATTAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 5 0.20
24 9 0.36
25 11 0.44
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (24 bp):
ATATATTTTTCTATTCATTAAATA
Found at i:792319 original size:20 final size:21
Alignment explanation
Indices: 792269--792319 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
792259 TTCTATAATT
792269 TGTATCGATATAAACAGTAAA
1 TGTATCGATATAAACAGTAAA
* * * *
792290 TGTGTTGATATATA-AGTGAA
1 TGTATCGATATAAACAGTAAA
792310 TGTATCGATA
1 TGTATCGATA
792320 CATGCCGGAA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.35
Consensus pattern (21 bp):
TGTATCGATATAAACAGTAAA
Found at i:799281 original size:82 final size:82
Alignment explanation
Indices: 799143--799293 Score: 221
Period size: 82 Copynumber: 1.8 Consensus size: 82
799133 TTTGGGTAAA
* * * *
799143 ACAACTTATCTTAAAATATGTCTACTTTAAATATTGTTTTATTAAGACAAATTTATCTACATTAT
1 ACAACTTATCTTAAAACATGTCTACTTTAAACATTGTCTTATTAAGACAAACTTATCTACATTAT
799208 TTTACTAAGACATCAAG
66 TTTACTAAGACATCAAG
* * * * *
799225 ACAACTTATCTTAAGACATGTCTACTTTAAACATTGTCTTGTTAAGATAAACTTATCTATATTGT
1 ACAACTTATCTTAAAACATGTCTACTTTAAACATTGTCTTATTAAGACAAACTTATCTACATTAT
799290 TTTA
66 TTTA
799294 AGCCATATCT
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
82 60 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.42
Consensus pattern (82 bp):
ACAACTTATCTTAAAACATGTCTACTTTAAACATTGTCTTATTAAGACAAACTTATCTACATTAT
TTTACTAAGACATCAAG
Found at i:799354 original size:28 final size:28
Alignment explanation
Indices: 799322--799385 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
799312 TATTCTTTTG
** *
799322 TTAAGACAAACTTATCTGTTTTGTCTTA
1 TTAAGACAAACTTATCCATATTGTCTTA
**
799350 TTAAGACAAGTTTATCCATATTGTCTTA
1 TTAAGACAAACTTATCCATATTGTCTTA
799378 TTAAGACA
1 TTAAGACA
799386 TCCTTATTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (28 bp):
TTAAGACAAACTTATCCATATTGTCTTA
Found at i:801893 original size:111 final size:112
Alignment explanation
Indices: 801748--801972 Score: 416
Period size: 111 Copynumber: 2.0 Consensus size: 112
801738 ATTTTCATCC
* *
801748 AATGTAATTATTAGATGGTTATAAATTTGTAATCTATCACTTAGTAATATTACAACATTTTGTAC
1 AATGTAATTATTAGATAGTTATAAATTTATAATCTATCACTTAGTAATATTACAACATTTTGTAC
801813 GTACAACATGAATGTGTGGTGTGATTTCATATCAAA-GAGAAGTTTA
66 GTACAACATGAATGTGTGGTGTGATTTCATATCAAAGGAGAAGTTTA
801859 AATGTAATTATTAGATAGTTATAAATTTATAATCTATCACTTAGTAATATTACAACATTTTGTAC
1 AATGTAATTATTAGATAGTTATAAATTTATAATCTATCACTTAGTAATATTACAACATTTTGTAC
*
801924 GTACAACATGAATGTGTGGTGTGATTTCATATTAAAGGAGAAGTTTA
66 GTACAACATGAATGTGTGGTGTGATTTCATATCAAAGGAGAAGTTTA
801971 AA
1 AA
801973 ATTTGGCCAT
Statistics
Matches: 110, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
111 98 0.89
112 12 0.11
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (112 bp):
AATGTAATTATTAGATAGTTATAAATTTATAATCTATCACTTAGTAATATTACAACATTTTGTAC
GTACAACATGAATGTGTGGTGTGATTTCATATCAAAGGAGAAGTTTA
Found at i:803659 original size:41 final size:41
Alignment explanation
Indices: 803609--803698 Score: 135
Period size: 41 Copynumber: 2.2 Consensus size: 41
803599 AAACAAATTT
* *
803609 AATCAAATCTAATTAATTTTAAATATTTTAATTTTATCTCA
1 AATCAAATCTAATTAAATTTAAATATTTTAATTATATCTCA
* *
803650 AATCAAATCTAATTAAATTTAAGTATTTTTATTATATCTCA
1 AATCAAATCTAATTAAATTTAAATATTTTAATTATATCTCA
*
803691 AATTAAAT
1 AATCAAAT
803699 TTAAATTTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.43, C:0.09, G:0.01, T:0.47
Consensus pattern (41 bp):
AATCAAATCTAATTAAATTTAAATATTTTAATTATATCTCA
Found at i:804489 original size:13 final size:14
Alignment explanation
Indices: 804466--804498 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
804456 TTTAAATTAA
*
804466 AAAAAAGTATGTTT
1 AAAAAAGTATGGTT
804480 AAAAAA-TATGGTT
1 AAAAAAGTATGGTT
804493 AAAAAA
1 AAAAAA
804499 ATTATAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.61, C:0.00, G:0.12, T:0.27
Consensus pattern (14 bp):
AAAAAAGTATGGTT
Found at i:805328 original size:12 final size:11
Alignment explanation
Indices: 805302--805338 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
805292 TTTAAATTAA
805302 AATATAAAAAT
1 AATATAAAAAT
805313 -ATATAAAAATT
1 AATATAAAAA-T
805324 AATAT-AAAAT
1 AATATAAAAAT
805334 AATAT
1 AATAT
805339 TTTAATATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 15 0.62
11 5 0.21
12 4 0.17
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AATATAAAAAT
Found at i:805387 original size:18 final size:18
Alignment explanation
Indices: 805357--805412 Score: 64
Period size: 17 Copynumber: 3.1 Consensus size: 18
805347 GATAATAAGT
805357 AATAAAA-TAAATTTTTA
1 AATAAAATTAAATTTTTA
805374 AATAAAATTAAA-TTTT-
1 AATAAAATTAAATTTTTA
805390 AATAAAAATTTAAAATTTTTA
1 AAT-AAAA-TT-AAATTTTTA
805411 AA
1 AA
805413 CCATAATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
16 3 0.09
17 15 0.45
18 6 0.18
19 3 0.09
20 4 0.12
21 2 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AATAAAATTAAATTTTTA
Found at i:806036 original size:30 final size:30
Alignment explanation
Indices: 805976--806037 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
805966 TGGTGTCACA
* *
805976 TTTGATAATTCTTTTATTTGTGTTTAATTT
1 TTTGATAATTCTTTTATTTATATTTAATTT
806006 TTTGATAATT-TATTTATTTATA-TTATATTT
1 TTTGATAATTCT-TTTATTTATATTTA-ATTT
806036 TT
1 TT
806038 AACTTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 4 0.14
30 24 0.86
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.68
Consensus pattern (30 bp):
TTTGATAATTCTTTTATTTATATTTAATTT
Found at i:806065 original size:27 final size:27
Alignment explanation
Indices: 806014--806084 Score: 72
Period size: 28 Copynumber: 2.6 Consensus size: 27
806004 TTTTTGATAA
806014 TTTATTTATTTATATTATATTTTTAACT
1 TTTATTTATTTATATTATA-TTTTAACT
* *
806042 TTTA-TTATTTTATAATTATATTTAAAAT
1 TTTATTTA-TTTAT-ATTATATTTTAACT
* *
806070 ATTATATATTTATAT
1 TTTATTTATTTATAT
806085 AATTTAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
27 5 0.14
28 23 0.64
29 8 0.22
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (27 bp):
TTTATTTATTTATATTATATTTTAACT
Found at i:806077 original size:16 final size:16
Alignment explanation
Indices: 806058--806112 Score: 69
Period size: 16 Copynumber: 3.4 Consensus size: 16
806048 ATTTTATAAT
806058 TATATTTAA-AATATTA
1 TATATTTAATAAT-TTA
806074 TATATTTATATAATTTA
1 TATATTTA-ATAATTTA
806091 -ATATATTAATAATTTA
1 TATAT-TTAATAATTTA
806107 TATATT
1 TATATT
806113 ATATTTTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
16 21 0.60
17 11 0.31
18 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATATTTAATAATTTA
Found at i:806084 original size:8 final size:8
Alignment explanation
Indices: 806016--806138 Score: 61
Period size: 7 Copynumber: 16.1 Consensus size: 8
806006 TTTGATAATT
*
806016 TATTTATT
1 TATTTATA
806024 TATATTATA
1 TAT-TTATA
*
806033 TTTTTA-A
1 TATTTATA
806040 CT-TTTAT-
1 -TATTTATA
806047 TATTT-TA
1 TATTTATA
*
806054 TAATTATA
1 TATTTATA
* *
806062 T-TTAAAA
1 TATTTATA
806069 TA-TTATA
1 TATTTATA
806076 TATTTATA
1 TATTTATA
806084 TAATTTAATA
1 T-ATTT-ATA
*
806094 TATTAATA
1 TATTTATA
806102 -ATTTATA
1 TATTTATA
806109 TA-TTATA
1 TATTTATA
806116 T-TTTA-A
1 TATTTATA
*
806122 TTATTTTTA
1 -TATTTATA
806131 TA-TTATA
1 TATTTATA
806138 T
1 T
806139 TTATGTCGTG
Statistics
Matches: 88, Mismatches: 12, Indels: 31
0.67 0.09 0.24
Matches are distributed among these distances:
6 3 0.03
7 42 0.48
8 25 0.28
9 14 0.16
10 4 0.05
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (8 bp):
TATTTATA
Found at i:806089 original size:25 final size:25
Alignment explanation
Indices: 806061--806110 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
806051 TTATAATTAT
806061 ATTTAAAATATT-ATATATTTATATA
1 ATTTAAAATATTAATA-ATTTATATA
*
806086 ATTTAATATATTAATAATTTATATA
1 ATTTAAAATATTAATAATTTATATA
806111 TTATATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.87
26 3 0.13
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
ATTTAAAATATTAATAATTTATATA
Found at i:806121 original size:22 final size:22
Alignment explanation
Indices: 806077--806140 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
806067 AATATTATAT
*
806077 ATTTATATAATTTAATATATTAATA
1 ATTTATAT-A-TT-ATATTTTAATA
*
806102 ATTTATATATTATATTTTAATT
1 ATTTATATATTATATTTTAATA
*
806124 ATTTTTATATTATATTT
1 ATTTATATATTATATTT
806141 ATGTCGTGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 25 0.69
23 2 0.06
24 1 0.03
25 8 0.22
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
ATTTATATATTATATTTTAATA
Found at i:806126 original size:29 final size:31
Alignment explanation
Indices: 806059--806140 Score: 73
Period size: 29 Copynumber: 2.7 Consensus size: 31
806049 TTTTATAATT
*
806059 ATAT-TTAAAATATTATATATTTATATAATTTA
1 ATATATTAATATATTATAT-TTTATAT-ATTTA
*
806091 ATATATTAATA-ATTTATATATTATAT-TTTA
1 ATATATTAATATA-TTATATTTTATATATTTA
**
806121 AT-TATTTTTATATTATATTT
1 ATATATTAATATATTATATTT
806141 ATGTCGTGTG
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
29 13 0.31
30 7 0.17
32 11 0.26
33 11 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (31 bp):
ATATATTAATATATTATATTTTATATATTTA
Found at i:806142 original size:17 final size:18
Alignment explanation
Indices: 806013--806142 Score: 71
Period size: 18 Copynumber: 7.3 Consensus size: 18
806003 TTTTTTGATA
*
806013 ATTTATTTATTTATATTAT
1 ATTTATATA-TTATATTAT
* *
806032 ATTTTTA-ACTTTTATTAT
1 ATTTATATA-TTATATTAT
*
806050 -TTTATA-ATTATATTTAAA
1 ATTTATATATTATA-TT-AT
806068 ATATTATATATT-TA-TAT
1 AT-TTATATATTATATTAT
806085 AATTTAATATATTA-A-TA-
1 -ATTT-ATATATTATATTAT
*
806102 ATTTATATATTATATTTT
1 ATTTATATATTATATTAT
* *
806120 AATTAT-TTTTATATTAT
1 ATTTATATATTATATTAT
806137 ATTTAT
1 ATTTAT
806143 GTCGTGTGAT
Statistics
Matches: 87, Mismatches: 13, Indels: 24
0.70 0.10 0.19
Matches are distributed among these distances:
15 8 0.09
16 9 0.10
17 26 0.30
18 28 0.32
19 6 0.07
20 7 0.08
21 3 0.03
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTATATATTATATTAT
Found at i:809971 original size:14 final size:14
Alignment explanation
Indices: 809952--809995 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
809942 TAATATGATA
809952 TTATAATTAATATT
1 TTATAATTAATATT
809966 TTATAATTTTAAT-TT
1 TTATAA--TTAATATT
*
809981 TTATTATTAATATT
1 TTATAATTAATATT
809995 T
1 T
809996 ATTATATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 5 0.19
14 9 0.35
15 7 0.27
16 5 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTATAATTAATATT
Found at i:810043 original size:14 final size:14
Alignment explanation
Indices: 810014--810066 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
810004 TAAAATATGA
* *
810014 ATAATAAGTAATTT
1 ATAATAATTAAATT
810028 ATAATAATTAAATT
1 ATAATAATTAAATT
* * *
810042 ATTATCATGATAATT
1 ATAATAATTA-AATT
810057 ATAATAATTA
1 ATAATAATTA
810067 TAATAATATT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
14 19 0.63
15 11 0.37
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (14 bp):
ATAATAATTAAATT
Found at i:810065 original size:9 final size:9
Alignment explanation
Indices: 810026--810099 Score: 55
Period size: 9 Copynumber: 8.0 Consensus size: 9
810016 AATAAGTAAT
810026 TTATAATAA
1 TTATAATAA
*
810035 TTA-AATTA
1 TTATAATAA
810043 TTATCATGATAA
1 TTAT-A--ATAA
810055 TTATAATAA
1 TTATAATAA
810064 TTATAATAA
1 TTATAATAA
* *
810073 TATTTATTATA
1 T-TATAATA-A
810084 TT-T-ATAA
1 TTATAATAA
810091 TTATAATAA
1 TTATAATAA
810100 ATACGTACGT
Statistics
Matches: 52, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
7 3 0.06
8 10 0.19
9 22 0.42
10 7 0.13
11 3 0.06
12 7 0.13
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (9 bp):
TTATAATAA
Found at i:810079 original size:21 final size:21
Alignment explanation
Indices: 810028--810097 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
810018 TAAGTAATTT
* *
810028 ATAATAATTA-AATTATTATC
1 ATAATAATTATAATAATTATA
*
810048 ATGATAATTATAATAATTATA
1 ATAATAATTATAATAATTATA
* * *
810069 ATAATATTTATTATATTTATA
1 ATAATAATTATAATAATTATA
*
810090 ATTATAAT
1 ATAATAAT
810098 AAATACGTAC
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
20 9 0.22
21 31 0.77
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (21 bp):
ATAATAATTATAATAATTATA
Found at i:811638 original size:29 final size:26
Alignment explanation
Indices: 811554--811631 Score: 79
Period size: 29 Copynumber: 2.9 Consensus size: 26
811544 ATTTATATTA
811554 ATAA-TTTATTTAGATACAAATTAATT
1 ATAAGTTTATTT-GATACAAATTAATT
* *
811580 A-AAGTTTATTTTGATGCAAAATAAAAATT
1 ATAAGTTTA-TTTGATAC-AAAT--TAATT
811609 ATAAGTTTATTTGATACAAATTA
1 ATAAGTTTATTTGATACAAATTA
811632 GGGATTAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
25 2 0.05
26 10 0.24
27 7 0.17
28 4 0.10
29 12 0.29
30 7 0.17
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (26 bp):
ATAAGTTTATTTGATACAAATTAATT
Found at i:811646 original size:29 final size:26
Alignment explanation
Indices: 811550--811647 Score: 63
Period size: 29 Copynumber: 3.5 Consensus size: 26
811540 ATTGATTTAT
*
811550 ATTAATAATTTATTTAGATACAAATTA
1 ATTAAAAATTTATTT-GATACAAATTA
* * *
811577 ATT-AAAGTTTATTTTGATGCAAAATAAAA
1 ATTAAAAATTTA-TTTGATAC-AAAT--TA
* *
811606 ATTATAAGTTTATTTGATACAAATTA
1 ATTAAAAATTTATTTGATACAAATTA
811632 GGGATTAAAAATTTAT
1 ---ATTAAAAATTTAT
811648 GTGGTGCAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
26 11 0.20
27 10 0.19
28 4 0.07
29 22 0.41
30 7 0.13
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.42
Consensus pattern (26 bp):
ATTAAAAATTTATTTGATACAAATTA
Found at i:813420 original size:13 final size:12
Alignment explanation
Indices: 813377--813484 Score: 51
Period size: 13 Copynumber: 8.5 Consensus size: 12
813367 ATGCCTATGC
813377 TATTTTTAAAATAA
1 TATTTTT-AAAT-A
*
813391 TATTTTTATATCA
1 TATTTTTAAAT-A
813404 TATTTTTAAATA
1 TATTTTTAAATA
813416 T-TATTTT-AATAA
1 TAT-TTTTAAAT-A
*
813428 TGAATTTTAAATA
1 T-ATTTTTAAATA
* *
813441 TA-ATTTCAATAA
1 TATTTTTAAAT-A
** *
813453 TAAAATTAAAATA
1 T-ATTTTTAAATA
813466 TTATTTTTAAATA
1 -TATTTTTAAATA
813479 TATTTT
1 TATTTT
813485 ATGATAATAT
Statistics
Matches: 74, Mismatches: 11, Indels: 20
0.70 0.10 0.19
Matches are distributed among these distances:
11 10 0.14
12 17 0.23
13 30 0.41
14 17 0.23
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (12 bp):
TATTTTTAAATA
Found at i:813435 original size:25 final size:25
Alignment explanation
Indices: 813407--813485 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 25
813397 TATATCATAT
*
813407 TTTTAAATATTATTTTAATAATGAA
1 TTTTAAATATTATTTTAATAATAAA
* *
813432 TTTTAAATATAATTTCAATAATAAA
1 TTTTAAATATTATTTTAATAATAAA
* * * *
813457 ATTAAAATATTATTTTTA-AATATA
1 TTTTAAATATTATTTTAATAATAAA
813481 TTTTA
1 TTTTA
813486 TGATAATATT
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
24 8 0.19
25 35 0.81
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (25 bp):
TTTTAAATATTATTTTAATAATAAA
Found at i:814185 original size:18 final size:17
Alignment explanation
Indices: 814163--814210 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
814153 TTAAGGTGCC
814163 AATTAATATTTTATTAA
1 AATTAATATTTTATTAA
*
814180 ATATTAATATTTCA-TAA
1 A-ATTAATATTTTATTAA
814197 AATT--TATTTTATTA
1 AATTAATATTTTATTA
814211 TATAAATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 6 0.22
15 2 0.07
16 3 0.11
17 5 0.19
18 11 0.41
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (17 bp):
AATTAATATTTTATTAA
Found at i:816468 original size:17 final size:17
Alignment explanation
Indices: 816448--816484 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
816438 TTTTATTTAA
816448 TATTTTTCGAT-TTAAAT
1 TATTTTT-GATATTAAAT
816465 TA-TTTTGATATTAAAT
1 TATTTTTGATATTAAAT
816481 TATT
1 TATT
816485 AATATTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 3 0.17
16 12 0.67
17 3 0.17
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (17 bp):
TATTTTTGATATTAAAT
Found at i:818212 original size:14 final size:14
Alignment explanation
Indices: 818187--818234 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
818177 AGTTATAGGT
* *
818187 AAAAAAAAAAGATG
1 AAAAAGAAAAGAAG
*
818201 AAGAAGAAAAGAAG
1 AAAAAGAAAAGAAG
*
818215 AAAAAGAAAAAAAAG
1 AAAAAG-AAAAGAAG
818230 AAAAA
1 AAAAA
818235 AACATATAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (14 bp):
AAAAAGAAAAGAAG
Found at i:818575 original size:2 final size:2
Alignment explanation
Indices: 818564--818604 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
818554 GCTTTTTTTT
*
818564 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
818605 TGAAAATCTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:821305 original size:19 final size:18
Alignment explanation
Indices: 821261--821308 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
821251 ATATCAAAAC
821261 ATAAAAATAAAATATTAA
1 ATAAAAATAAAATATTAA
** *
821279 ATTTAAATAATAATTTTAA
1 ATAAAAATAA-AATATTAA
821298 ATAAAAATAAA
1 ATAAAAATAAA
821309 TTTATTTTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
ATAAAAATAAAATATTAA
Found at i:821342 original size:24 final size:24
Alignment explanation
Indices: 821327--821375 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
821317 TAATTCTATC
821327 ATATA-TATTAAATTTATATTTAT
1 ATATATTATTAAATTTATATTTAT
* *
821350 ATATATTATTTAATTTTTA-TTAT
1 ATATATTATTAAATTTATATTTAT
821373 ATA
1 ATA
821376 AAAAATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
ATATATTATTAAATTTATATTTAT
Found at i:821375 original size:21 final size:20
Alignment explanation
Indices: 821327--821365 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
821317 TAATTCTATC
821327 ATATATATTAAATTTATATTT
1 ATATATATT-AATTTATATTT
821348 ATATATATT-ATTTA-ATTT
1 ATATATATTAATTTATATTT
821366 TTATTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 5 0.28
21 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
ATATATATTAATTTATATTT
Found at i:821448 original size:22 final size:22
Alignment explanation
Indices: 821423--821464 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
821413 ATATTAAATT
*
821423 ATTTATATT-TTAAAATTTAATA
1 ATTTA-ATTATTAAAAATTAATA
821445 ATTTAATTATTAAAAATTAA
1 ATTTAATTATTAAAAATTAA
821465 ATTTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTTAATTATTAAAAATTAATA
Found at i:821457 original size:15 final size:14
Alignment explanation
Indices: 821432--821474 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
821422 TATTTATATT
* *
821432 TTAAAATTTAATAA
1 TTAAATTTTAAAAA
*
821446 TTTAATTATTAAAAA
1 TTAAATT-TTAAAAA
821461 TTAAATTTTAAAAA
1 TTAAATTTTAAAAA
821475 AATATTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTAAATTTTAAAAA
Found at i:822374 original size:16 final size:16
Alignment explanation
Indices: 822337--822370 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
822327 AAACATTTTC
*
822337 ATATATTATTTTATTT
1 ATATATTATTTTATTG
822353 ATATATTA-TTTATTG
1 ATATATTATTTTATTG
822368 ATA
1 ATA
822371 ATATAACACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
ATATATTATTTTATTG
Found at i:823450 original size:28 final size:28
Alignment explanation
Indices: 823418--823476 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
823408 CATTTACTGA
*
823418 TTTAAACATTAGAATGTGTTTAAGAAGC
1 TTTAAACATTAGAATGTGCTTAAGAAGC
* * *
823446 TTTAAACATTGGAGTGTGCTTAGGAAGC
1 TTTAAACATTAGAATGTGCTTAAGAAGC
823474 TTT
1 TTT
823477 CATAAGTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.37
Consensus pattern (28 bp):
TTTAAACATTAGAATGTGCTTAAGAAGC
Found at i:825468 original size:2 final size:2
Alignment explanation
Indices: 825461--825507 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
825451 AATAAGTATC
825461 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
825503 AT AT A
1 AT AT A
825508 GTTAAAAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:829721 original size:26 final size:26
Alignment explanation
Indices: 829692--829741 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
829682 TTAGATAAGA
829692 TATTCAATTTAAATTTTAAAATTAGT
1 TATTCAATTTAAATTTTAAAATTAGT
829718 TATTCAATTTAAATTTTAAAATTA
1 TATTCAATTTAAATTTTAAAATTA
829742 TCATCAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (26 bp):
TATTCAATTTAAATTTTAAAATTAGT
Found at i:829763 original size:27 final size:26
Alignment explanation
Indices: 829693--829764 Score: 94
Period size: 26 Copynumber: 2.7 Consensus size: 26
829683 TAGATAAGAT
*
829693 ATTCAATTTAAATTTTAAAATTAGTT
1 ATTCAATTTAAATTTTAAAATTAGTC
829719 ATTCAATTTAAATTTTAAAATTA-TC
1 ATTCAATTTAAATTTTAAAATTAGTC
829744 A-TCAAAACTTTAAATTTTAAA
1 ATTC--AA-TTTAAATTTTAAA
829765 TTTAAATTCT
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
24 2 0.05
25 2 0.05
26 25 0.60
27 13 0.31
ACGTcount: A:0.46, C:0.07, G:0.01, T:0.46
Consensus pattern (26 bp):
ATTCAATTTAAATTTTAAAATTAGTC
Found at i:831688 original size:20 final size:20
Alignment explanation
Indices: 831648--831689 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
831638 ATTACTTAGT
*
831648 TAAAAAATTTTAATTTAAAA
1 TAAAAAATTTTAATATAAAA
* *
831668 TAAATAATTTTAATATCAAA
1 TAAAAAATTTTAATATAAAA
831688 TA
1 TA
831690 TATATTTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
TAAAAAATTTTAATATAAAA
Found at i:831705 original size:15 final size:15
Alignment explanation
Indices: 831685--831713 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
831675 TTTTAATATC
831685 AAATATATATTTAAT
1 AAATATATATTTAAT
831700 AAATATATATTTAA
1 AAATATATATTTAA
831714 CTATGTGACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AAATATATATTTAAT
Found at i:833410 original size:13 final size:13
Alignment explanation
Indices: 833384--833427 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
833374 TCTAAAAACT
833384 TTTTAAAAACATAA
1 TTTTAAAAA-ATAA
833398 TTTTAAAAAATAA
1 TTTTAAAAAATAA
*
833411 TTATT-AAAGATAA
1 TT-TTAAAAAATAA
833424 TTTT
1 TTTT
833428 TTATCTCTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 2 0.07
13 15 0.54
14 11 0.39
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (13 bp):
TTTTAAAAAATAA
Found at i:833874 original size:13 final size:14
Alignment explanation
Indices: 833850--833881 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
833840 TTATTGGAGA
833850 TAAAAATAAATTTT
1 TAAAAATAAATTTT
*
833864 TAAAAATAATTTTT
1 TAAAAATAAATTTT
833878 TAAA
1 TAAA
833882 TTTAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TAAAAATAAATTTT
Found at i:834592 original size:77 final size:80
Alignment explanation
Indices: 834511--834675 Score: 201
Period size: 77 Copynumber: 2.1 Consensus size: 80
834501 TATTTATTAA
* * *
834511 ATATTATTACTAAAATATTTTAATATATTATTAAATGTTA-TTA-AAT-TTATAAAATATAATTA
1 ATATTATTACTAAAATATTTTAATATATAATTAAATATTAGTCAGAATGTTATAAAATATAATTA
*
834573 TTAAAACATTTGAAT
66 TTAAAACATTTGAAG
* * * * * *
834588 ATATTATAATTGAAATATTTTAATATATAATTAAATATTAGTCAGTATGTTATTAAATATTATTA
1 ATATTATTACTAAAATATTTTAATATATAATTAAATATTAGTCAGAATGTTATAAAATATAATTA
* *
834653 TTAAAATATTTTAAG
66 TTAAAACATTTGAAG
834668 ATATTATT
1 ATATTATT
834676 TTATATAATT
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
77 35 0.49
78 2 0.03
79 2 0.03
80 33 0.46
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (80 bp):
ATATTATTACTAAAATATTTTAATATATAATTAAATATTAGTCAGAATGTTATAAAATATAATTA
TTAAAACATTTGAAG
Found at i:834706 original size:80 final size:79
Alignment explanation
Indices: 834557--834706 Score: 176
Period size: 80 Copynumber: 1.9 Consensus size: 79
834547 GTTATTAAAT
* * *
834557 TTATAAAATATAATTATTAAAACATTTGAATATATTATAATTGAAATATTTTAATATATAATTAA
1 TTATAAAATATAATTATTAAAACATTTGAAGATATTAT-ATTGAAATAATTAAATATATAATTAA
834622 ATATTAGTCAGTATG
65 ATATTAGTCAGTATG
* * * * * * *
834637 TTATTAAATATTATTATTAAAATATTTTAAGATATTAT-TTTATATAATTAAATAATATCATTAA
1 TTATAAAATATAATTATTAAAACATTTGAAGATATTATATTGAAATAATTAAAT-ATATAATTAA
834701 GATATT
65 -ATATT
834707 CTAATTTACT
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
78 11 0.19
79 9 0.16
80 38 0.66
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (79 bp):
TTATAAAATATAATTATTAAAACATTTGAAGATATTATATTGAAATAATTAAATATATAATTAAA
TATTAGTCAGTATG
Found at i:834742 original size:21 final size:21
Alignment explanation
Indices: 834504--834757 Score: 78
Period size: 21 Copynumber: 11.5 Consensus size: 21
834494 TTCATGTTAT
*
834504 TTATTAAATATTATTACTAAAATA
1 TTATTAAATA-TATT--TAATATA
*
834528 TT-TT-AATATATTATTAA-ATG
1 TTATTAAATATA-T-TTAATATA
* **
834548 TTATTAAATTTATAAAATATAA
1 TTATTAAATATATTTAATAT-A
*
834570 TTATTAAA-ACATTTGAATATA
1 TTATTAAATATATTT-AATATA
834591 TTATAATTGAAATAT-TTTAATATA
1 -T-T-ATT-AAATATATTTAATATA
* * * * *
834615 TAATTAAATATTAGTCAGTATG
1 TTATTAAATA-TATTTAATATA
*
834637 TTATTAAATATTATTATTAAAATA
1 TTATTAAATA-TA-T-TTAATATA
834661 TT-TTAAGATATTATTT--TATA
1 TTATTAA-ATA-TATTTAATATA
* *
834681 TAATTAAATAATATCATTAAGATA
1 TTATTAAAT-ATAT--TTAATATA
* *
834705 TT-CT-AATTTACTATTAATATA
1 TTATTAAATATA-T-TTAATATA
**
834726 TTATTAAATATATTTAACGTA
1 TTATTAAATATATTTAATATA
834747 TTATTAAATAT
1 TTATTAAATAT
834758 TACTAAATAT
Statistics
Matches: 172, Mismatches: 32, Indels: 55
0.66 0.12 0.21
Matches are distributed among these distances:
20 20 0.12
21 51 0.30
22 51 0.30
23 16 0.09
24 27 0.16
25 6 0.03
26 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.48
Consensus pattern (21 bp):
TTATTAAATATATTTAATATA
Found at i:834996 original size:20 final size:20
Alignment explanation
Indices: 834858--834996 Score: 50
Period size: 21 Copynumber: 6.5 Consensus size: 20
834848 ATATAATTAA
* *
834858 ATTATTAAATATTATTATAAA
1 ATTATTAAATAATATTA-AAT
* *
834879 ATATGTTAATATATTATTAAAT
1 AT-TATTAA-ATAATATTAAAT
* *
834901 ATT-GTAACATAATTATTAGAT
1 ATTATTAA-ATAA-TATTAAAT
* * *
834922 AATT-TTCAATATTAACTAAAT
1 -ATTATTAAATAAT-ATTAAAT
*
834943 ATTATTATTAA-AATATTAGATT
1 ATTATTA--AATAATATTA-AAT
* *
834965 TTATATTTAATAATATTAAAT
1 AT-TATTAAATAATATTAAAT
834986 ATTATTAAATA
1 ATTATTAAATA
834997 TTTTAAAAAT
Statistics
Matches: 87, Mismatches: 20, Indels: 23
0.67 0.15 0.18
Matches are distributed among these distances:
20 18 0.21
21 28 0.32
22 26 0.30
23 15 0.17
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.47
Consensus pattern (20 bp):
ATTATTAAATAATATTAAAT
Found at i:835002 original size:9 final size:10
Alignment explanation
Indices: 834504--835148 Score: 107
Period size: 10 Copynumber: 61.5 Consensus size: 10
834494 TTCATGTTAT
834504 TTATTAAATA
1 TTATTAAATA
834514 TTATTACTAAAATA
1 TTA-T--T-AAATA
834528 TT-TTAATATA
1 TTATTAA-ATA
*
834538 TTATTAAATG
1 TTATTAAATA
834548 TTATTAAAT-
1 TTATTAAATA
*
834557 TTATAAAATATAA
1 TTAT-TAA-AT-A
*
834570 TTATTAAAACA
1 TTATT-AAATA
*
834581 TT-TGAATATA
1 TTATTAA-ATA
834591 TTATAATTGAAATA
1 -T-T-ATT-AAATA
834605 TT-TTAATATA
1 TTATTAA-ATA
*
834615 TAATTAAATA
1 TTATTAAATA
* * *
834625 TTAGTCAGTATG
1 TTA-TTA-AATA
834637 TTATTAAATATTA
1 TTATT-AA-A-TA
834650 TTATTAAAATA
1 TTATT-AAATA
834661 TT-TTAAGATA
1 TTATTAA-ATA
**
834671 TTATTTTATA
1 TTATTAAATA
*
834681 TAATTAAATAA
1 TTATTAAAT-A
834692 TATCATTAAGATA
1 T-T-ATTAA-ATA
* *
834705 TT-CTAATTTA
1 TTATTAA-ATA
*
834715 CTATTAATATA
1 TTATTAA-ATA
834726 TTATTAAATA
1 TTATTAAATA
*
834736 -TATTTAACGTA
1 TTA-TTAA-ATA
834747 TTATTAAATA
1 TTATTAAATA
*
834757 TTACTAAATA
1 TTATTAAATA
*
834767 -TATT-CA-A
1 TTATTAAATA
834774 TTATTAAATA
1 TTATTAAATA
834784 TTA--AAATA
1 TTATTAAATA
*
834792 --CTT-AATGCA
1 TTATTAAAT--A
834801 TTATTAAATA
1 TTATTAAATA
*
834811 TTGTT--AT-
1 TTATTAAATA
834818 TT-TTAAATA
1 TTATTAAATA
*
834827 TAATTAGTCAAGTA
1 TTATTA---AA-TA
*
834841 TT-TCAATATA
1 TTATTAA-ATA
*
834851 TAATT-AA-A
1 TTATTAAATA
834859 TTATTAAATA
1 TTATTAAATA
*
834869 TTATTATAAAA
1 TTATTA-AATA
*
834880 TATGTTAATATA
1 T-TATTAA-ATA
834892 TTATTAAATA
1 TTATTAAATA
*
834902 TT-GTAACATAA
1 TTATTAA-AT-A
*
834913 TTATTAGATAA
1 TTATTAAAT-A
*
834924 TT-TTCAATA
1 TTATTAAATA
*
834933 TTAACTAAATA
1 TT-ATTAAATA
834944 TTATTATTAA-A
1 TTATTA--AATA
* * *
834955 ATATTAGATTT
1 TTATTA-AATA
*
834966 TATATTTAATA
1 T-TATTAAATA
*
834977 ATATTAAATA
1 TTATTAAATA
834987 TTATTAAATA
1 TTATTAAATA
834997 TT-TTAAAAATCA
1 TTATT--AAAT-A
835009 TTATTTGTAATATA
1 TTA--T-TAA-ATA
835023 TTATTAAATA
1 TTATTAAATA
*
835033 TTA--AATTATT
1 TTATTAA--ATA
*
835043 TTTTTAAA-A
1 TTATTAAATA
835052 TTATTAACAT-
1 TTATTAA-ATA
*
835062 TTA--AAGAGA
1 TTATTAA-ATA
835071 TTATTAAATA
1 TTATTAAATA
*
835081 TTTTTAAATATA
1 TTATT-AA-ATA
* *
835093 TTATTTAGATG
1 TTA-TTAAATA
835104 TTATTAAATA
1 TTATTAAATA
*
835114 TTTTTAAA-A
1 TTATTAAATA
*
835123 TTA-AAATATA
1 TTATTAA-ATA
835133 TTATTAAAATA
1 TTATT-AAATA
835144 TTATT
1 TTATT
835149 GACTTAAATT
Statistics
Matches: 460, Mismatches: 83, Indels: 183
0.63 0.11 0.25
Matches are distributed among these distances:
6 2 0.00
7 6 0.01
8 26 0.06
9 44 0.10
10 171 0.37
11 106 0.23
12 47 0.10
13 30 0.07
14 22 0.05
15 5 0.01
16 1 0.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (10 bp):
TTATTAAATA
Found at i:836339 original size:2 final size:2
Alignment explanation
Indices: 836334--836366 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
836324 TCTCTCTCTT
836334 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
836367 GTATTCTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:837375 original size:18 final size:17
Alignment explanation
Indices: 837341--837391 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
837331 AAAATATTGT
*
837341 AAAAAGTTAAAATATAAA
1 AAAAATTTAAAA-ATAAA
* *
837359 AAAAATATTTAAAATAAT
1 AAAAAT-TTAAAAATAAA
837377 AAAAATTTAAAAATA
1 AAAAATTTAAAAATA
837392 TGAAGATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 8 0.29
18 15 0.54
19 5 0.18
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
AAAAATTTAAAAATAAA
Found at i:837381 original size:29 final size:29
Alignment explanation
Indices: 837328--837389 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
837318 GTATTACTGT
* *
837328 AAAAAAATATTGTAAAAAGTTAAAATATA
1 AAAAAAATATTGTAAAAAATAAAAATATA
*
837357 AAAAAAATATT-TAAAATAATAAAAATTTA
1 AAAAAAATATTGTAAAA-AATAAAAATATA
837386 AAAA
1 AAAA
837390 TATGAAGATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 5 0.17
29 24 0.83
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.27
Consensus pattern (29 bp):
AAAAAAATATTGTAAAAAATAAAAATATA
Found at i:837740 original size:21 final size:21
Alignment explanation
Indices: 837702--837747 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
837692 AATAATAGTG
*
837702 ATAGTAAGATTAATTATTATA
1 ATAGTAAGATTAAGTATTATA
* *
837723 ATAGTAAGATTAGGTATTGTA
1 ATAGTAAGATTAAGTATTATA
837744 ATAG
1 ATAG
837748 CGAAGTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.39
Consensus pattern (21 bp):
ATAGTAAGATTAAGTATTATA
Found at i:839391 original size:270 final size:270
Alignment explanation
Indices: 838902--839410 Score: 804
Period size: 270 Copynumber: 1.9 Consensus size: 270
838892 ATAAGTTGTG
* * *
838902 AATGGTGTTGAAGTTTTGAAAAGTGAGAACAAAATGCTATTGGTTAAAAATAGAGATTTAAAGAT
1 AATGATGTTGAAGTTTTGAAAAGTGAAAACAAAATACTATTGGTTAAAAATAGAGATTTAAAGAT
*
838967 TGAGAATAACTAGTTGAAGCAAAATGAAAATGGTGAAAAAATTAGTAAACTGACGAAAGAGGTGA
66 TGAGAATAACTAGTTGAAGCAAAATGAAAATAGTGAAAAAATTAGTAAACTGACGAAAGAGGTGA
* * * * * *
839032 AAATTTTGTAAGTTCGAAACGAAGCATATAAGGATTTGGTCGACAAAAGGAACAGGATAATTAGA
131 AAATTTTGCAAGTTCAAAACGAAGCATATAAAGATCTAGTCGACAAAAAGAACAGGATAATTAGA
* * *
839097 TTGTATAGAATTGGATTGTGGTTTTCTTGGATGATATCTTAATTATAAATAATGTTGTCTGAGAT
196 TTATATAGAATTAGATTATGGTTTTCTTGGATGATATCTTAATTATAAATAATGTTGTCTGAGAT
839162 TCATTGATTA
261 TCATTGATTA
* *
839172 AATGATGTTGAAGTTTTGAAAAGTGAAAACAAAATATTATTGGTTAAAAATAGAGATTTAAGGAT
1 AATGATGTTGAAGTTTTGAAAAGTGAAAACAAAATACTATTGGTTAAAAATAGAGATTTAAAGAT
* * *
839237 TGAGAATAACTAGTTGAAGCAAAATTAAAATAGTGAAAAAGTTAGTAAACTGATGAAAGAGGTGA
66 TGAGAATAACTAGTTGAAGCAAAATGAAAATAGTGAAAAAATTAGTAAACTGACGAAAGAGGTGA
* * * *
839302 AAATTTTGCAGGTTCAAAATGAAGCATATAAAGATCTAGTTGACAAAAATAACAAGG-TAATTAG
131 AAATTTTGCAAGTTCAAAACGAAGCATATAAAGATCTAGTCGACAAAAAGAAC-AGGATAATTAG
839366 ATTATATAGAATTAGATTATGGTTTTCTTGGATGATATCTTAATT
195 ATTATATAGAATTAGATTATGGTTTTCTTGGATGATATCTTAATT
839411 GTAATATTTT
Statistics
Matches: 216, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
270 213 0.99
271 3 0.01
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (270 bp):
AATGATGTTGAAGTTTTGAAAAGTGAAAACAAAATACTATTGGTTAAAAATAGAGATTTAAAGAT
TGAGAATAACTAGTTGAAGCAAAATGAAAATAGTGAAAAAATTAGTAAACTGACGAAAGAGGTGA
AAATTTTGCAAGTTCAAAACGAAGCATATAAAGATCTAGTCGACAAAAAGAACAGGATAATTAGA
TTATATAGAATTAGATTATGGTTTTCTTGGATGATATCTTAATTATAAATAATGTTGTCTGAGAT
TCATTGATTA
Found at i:839984 original size:237 final size:238
Alignment explanation
Indices: 839552--840018 Score: 810
Period size: 237 Copynumber: 2.0 Consensus size: 238
839542 TCAGTTGCTC
839552 TTTGATCTGTGTTTTTGTGTAATAAACAAAAAAAAAAGGTTGCATAACATAATTGCATTACTCAG
1 TTTGATCTGTGTTTTTGTGTAATAAACAAAAAAAAAAGGTTGCATAACATAATTGCATTACTCAG
* *
839617 ACAGACAAAAACTTTTAGCTTACAGTGAATTATTTCCTAAAAATTGGAATATCTGATATAGTGAA
66 ACA-ACAAAAACTTTTAGCTTACAATGAATTATTTCCCAAAAATTGGAATATCTGATATAGTGAA
* * *
839682 AGCATCAAATAATAATGAACAACCACCTTGAGAGTTTGAAGAAAATAATAGCCTTAAAATGATAC
130 AGCATCAAACAATAATGAACAACCACCTTAAGAGTTTGAAGAAAATAATAACCTTAAAATGATAC
839747 AAAACAAAGTTTAAAGTTGTCATTTGAAGAAGTTATAGTTGTTT
195 AAAACAAAGTTTAAAGTTGTCATTTGAAGAAGTTATAGTTGTTT
839791 TTTGATCTGTGTTTTTGTGTAATAAACAAAAAAAAAAGGTTGCATAACATAATTGCATTACTCAG
1 TTTGATCTGTGTTTTTGTGTAATAAACAAAAAAAAAAGGTTGCATAACATAATTGCATTACTCAG
* * *
839856 AC-ATAAATACTTTTAGCTTACAATGAATTATTTCCCAAAACTTGGAATATCTGATATAGTGAAA
66 ACAACAAAAACTTTTAGCTTACAATGAATTATTTCCCAAAAATTGGAATATCTGATATAGTGAAA
* * *
839920 GCATCAAACAATAATGAACAACCACTTTAAGAGTTTGAAGAAAATAATAACTTTAAAGTGATACA
131 GCATCAAACAATAATGAACAACCACCTTAAGAGTTTGAAGAAAATAATAACCTTAAAATGATACA
*
839985 AAACAAAGTTTAAAGTTGTCATTTGAGGAAGTTA
196 AAACAAAGTTTAAAGTTGTCATTTGAAGAAGTTA
840019 CAAACATGAA
Statistics
Matches: 216, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
237 149 0.69
239 67 0.31
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.32
Consensus pattern (238 bp):
TTTGATCTGTGTTTTTGTGTAATAAACAAAAAAAAAAGGTTGCATAACATAATTGCATTACTCAG
ACAACAAAAACTTTTAGCTTACAATGAATTATTTCCCAAAAATTGGAATATCTGATATAGTGAAA
GCATCAAACAATAATGAACAACCACCTTAAGAGTTTGAAGAAAATAATAACCTTAAAATGATACA
AAACAAAGTTTAAAGTTGTCATTTGAAGAAGTTATAGTTGTTT
Found at i:851109 original size:21 final size:21
Alignment explanation
Indices: 851085--851124 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
851075 TCCACCATAA
*
851085 CTCAA-ACTATAGCCAAGAAAC
1 CTCAATACCATAG-CAAGAAAC
851106 CTCAATACCATAGCAAGAA
1 CTCAATACCATAGCAAGAA
851125 TCCAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.47, C:0.28, G:0.10, T:0.15
Consensus pattern (21 bp):
CTCAATACCATAGCAAGAAAC
Found at i:872305 original size:19 final size:19
Alignment explanation
Indices: 872281--872343 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
872271 AGTGATACAT
872281 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
872300 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
*
872313 TGTATCGATATAACACTTA
1 TGTATCGATACAACACTTA
*
872332 TGGATCGATACA
1 TGTATCGATACA
872344 GTTACTGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 9 0.25
14 1 0.03
16 6 0.17
18 1 0.03
19 19 0.53
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:872315 original size:32 final size:32
Alignment explanation
Indices: 872274--872343 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
872264 GCTTTGTAGT
*
872274 GATACATTGTATCGATACAACACTTATGTATC
1 GATACATTGTATCGATACAACACTTATGGATC
*
872306 GATACATTGTATCGATATAACACTTATGGATC
1 GATACATTGTATCGATACAACACTTATGGATC
872338 GATACA
1 GATACA
872344 GTTACTGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (32 bp):
GATACATTGTATCGATACAACACTTATGGATC
Found at i:873161 original size:52 final size:50
Alignment explanation
Indices: 873122--873822 Score: 619
Period size: 52 Copynumber: 14.5 Consensus size: 50
873112 CGAAGAATGA
* * * *
873122 CAATGTGCTGATTCATGGCCAGCGACATTAGACTTGAAGA-AGAA--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGAAGGTGC
** * * ** *
873169 CAATGTGCTGAGACAAGGCCAACGACATTGGGCTTAGGAATG-TTAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA--AA-GATGGAAGGTGC
* ** * * *
873221 TAATACGCTGATTCAAGGCCAACGATATTGGACTTAAGGAT-GAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGAAGGTGC
**
873270 CAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGACGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--GAAGGTGC
* * *
873322 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-GAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGAAGGTGC
** *
873371 CAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGACGAAGGCGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--GAAGGTGC
* *
873423 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-GAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGAAGGTGC
* ** *
873472 CAATGTGCTGATTCAAGGCCAACGACATTGGTTTTAAAGATGACGAAGGAGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--GAAGGTGC
* *
873524 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-GAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGAAGGTGC
* *
873573 CAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGACGAAGGTAC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--GAAGGTGC
* *
873625 CAATATGCTGATTCAAGGCCAGCGATATTAGG-C-T-----T-----GTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGATGGAAGGTGC
* **
873664 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA-A-ACAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGAAGGTGC
* * * *
873712 CAATATGCTGATTCAAGGCCAACGATATTGGGC-T-----T---A--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGAAGGTGC
* *
873751 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGAT--AA-GTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGAAGGTGC
*
873798 CAATATGCTGATTCAAGGCCAGCGA
1 CAATGTGCTGATTCAAGGCCAGCGA
873823 TATTAAACTT
Statistics
Matches: 540, Mismatches: 74, Indels: 80
0.78 0.11 0.12
Matches are distributed among these distances:
38 2 0.00
39 64 0.12
40 2 0.00
41 1 0.00
45 1 0.00
46 2 0.00
47 56 0.10
48 33 0.06
49 174 0.32
50 5 0.01
51 1 0.00
52 197 0.36
53 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (50 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGAAGGTGC
Found at i:873296 original size:101 final size:101
Alignment explanation
Indices: 873122--873826 Score: 803
Period size: 101 Copynumber: 7.3 Consensus size: 101
873112 CGAAGAATGA
* * * * * * **
873122 CAATGTGCTGATTCATGGCCAGCGACATTAGACTTGAAGAAGAA--TGCCAATGTGCTGAGACAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* ** * **
873185 GGCCAACGACATTGGGCTT-AGGAATGTTAAAGATGC
66 GGCCAGCGACATTGGTTTTAAAG-ATGACAAAGATGC
* * * *
873221 TAATACGCTGATTCAAGGCCAACGATATTGGACTTAAGGATGAAGGTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* *
873286 GGCCAGCGACATTGGTTTTAAAGATGACGAAGGTGC
66 GGCCAGCGACATTGGTTTTAAAGATGACAAAGATGC
*
873322 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* **
873387 GGCCAGCGACATTGGTTTTAAAGATGACGAAGGCGC
66 GGCCAGCGACATTGGTTTTAAAGATGACAAAGATGC
873423 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* *
873488 GGCCAACGACATTGGTTTTAAAGATGACGAAGGA-GC
66 GGCCAGCGACATTGGTTTTAAAGATGAC-AAAGATGC
873524 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* ** * * *
873589 GGCCAGTGACATTGGACTTAAAGATGACGAAGGTAC
66 GGCCAGCGACATTGGTTTTAAAGATGACAAAGATGC
873625 CAATATGCTGATTCAAGGCCAGCGATATTAGG-C-T-----T----GTGCCAATGTGCTGATTCA
1 CAATATGCTGATTCAAGGCCAGCGATATT-GGACTTAAAGATGAAGGTGCCAATGTGCTGATTCA
* *
873679 AGGCCAGCGACATTGGTCTTAAA-A--AC-AAGGTGC
65 AGGCCAGCGACATTGGTTTTAAAGATGACAAAGATGC
* *
873712 CAATATGCTGATTCAAGGCCAACGATATTGGGC-T-----T--A--TGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* *
873767 GGCCAACGACATTGGTCTTAAAGAT----AAG-TGC
66 GGCCAGCGACATTGGTTTTAAAGATGACAAAGATGC
873798 CAATATGCTGATTCAAGGCCAGCGATATT
1 CAATATGCTGATTCAAGGCCAGCGATATT
873827 AAACTTAGAA
Statistics
Matches: 551, Mismatches: 45, Indels: 33
0.88 0.07 0.05
Matches are distributed among these distances:
86 33 0.06
87 80 0.15
88 3 0.01
90 1 0.00
91 40 0.07
95 1 0.00
99 34 0.06
100 3 0.01
101 350 0.64
102 6 0.01
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (101 bp):
CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
GGCCAGCGACATTGGTTTTAAAGATGACAAAGATGC
Found at i:873678 original size:39 final size:38
Alignment explanation
Indices: 873624--873826 Score: 154
Period size: 39 Copynumber: 4.8 Consensus size: 38
873614 GACGAAGGTA
873624 CCAATATGCTGATTCAAGGCCAGCGATATTAGGCTTGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATT-GGCTTGTG
* *
873663 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAACAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGG-CTT---------GTG
* *
873711 CCAATATGCTGATTCAAGGCCAACGATATTGGGCTTATG
1 CCAATATGCTGATTCAAGGCCAGCGATATT-GGCTTGTG
* * *
873750 CCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATAAGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGG-C-T-----T--GTG
873797 CCAATATGCTGATTCAAGGCCAGCGATATT
1 CCAATATGCTGATTCAAGGCCAGCGATATT
873827 AAACTTAGAA
Statistics
Matches: 132, Mismatches: 12, Indels: 32
0.75 0.07 0.18
Matches are distributed among these distances:
38 4 0.03
39 62 0.47
40 1 0.01
45 1 0.01
47 29 0.22
48 33 0.25
49 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.26
Consensus pattern (38 bp):
CCAATATGCTGATTCAAGGCCAGCGATATTGGCTTGTG
Found at i:873731 original size:48 final size:45
Alignment explanation
Indices: 873660--873818 Score: 186
Period size: 39 Copynumber: 3.6 Consensus size: 45
873650 TATTAGGCTT
* *
873660 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAACAA
1 GTGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTT-AAAA-AA
* *
873707 GGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTT-----A
1 -GTGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAAAA
*
873748 -TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATAA
1 GTGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAA-A-AA
873794 GTGCCAATATGCTGATTCAAGGCCA
1 GTGCCAATATGCTGATTCAAGGCCA
873819 GCGATATTAA
Statistics
Matches: 95, Mismatches: 8, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
39 35 0.37
41 1 0.01
46 1 0.01
47 23 0.24
48 35 0.37
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (45 bp):
GTGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAAAA
Found at i:873752 original size:87 final size:87
Alignment explanation
Indices: 873570--873827 Score: 392
Period size: 87 Copynumber: 2.9 Consensus size: 87
873560 AAGATGAAGG
* * *
873570 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGACGAAGGTACCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA-A--AC-AAGGTGCCAATATGCTG
*
873635 ATTCAAGGCCAGCGATATTAGGCTTG
62 ATTCAAGGCCAGCGATATTAGGCTTA
873661 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAACAAGGTGCCAATATGCTGATTC
* *
873726 AAGGCCAACGATATTGGGCTTA
66 AAGGCCAGCGATATTAGGCTTA
* * *
873748 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATAA-GTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAACAAGGTGCCAATATGCTGATTC
873812 AAGGCCAGCGATATTA
66 AAGGCCAGCGATATTA
873828 AACTTAGAAG
Statistics
Matches: 156, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
86 32 0.21
87 82 0.53
88 2 0.01
90 1 0.01
91 39 0.25
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (87 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAACAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTAGGCTTA
Found at i:873913 original size:28 final size:29
Alignment explanation
Indices: 873845--873922 Score: 88
Period size: 28 Copynumber: 2.7 Consensus size: 29
873835 AAGAAGACGC
873845 CACCAACTTGTGTAGGCTTTTGAAAGGGTTG
1 CACCAACTTGTGT--GCTTTTGAAAGGGTTG
873876 CACCAACTTGTGTGCTTTTG-AA-GGTTG
1 CACCAACTTGTGTGCTTTTGAAAGGGTTG
** *
873903 CCACTGACTTGTGGGCTTTT
1 -CACCAACTTGTGTGCTTTT
873923 AAAAATGGTG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 5 0.12
28 18 0.42
29 7 0.16
31 13 0.30
ACGTcount: A:0.18, C:0.19, G:0.27, T:0.36
Consensus pattern (29 bp):
CACCAACTTGTGTGCTTTTGAAAGGGTTG
Found at i:873996 original size:27 final size:27
Alignment explanation
Indices: 873964--874102 Score: 129
Period size: 27 Copynumber: 4.9 Consensus size: 27
873954 AGGAGAAAGA
873964 TGCCACGAAGTTGTGGACTTAAAAGGG
1 TGCCACGAAGTTGTGGACTTAAAAGGG
*
873991 TGCCAC-AGAGTTGTGGATTTAAAAGGG
1 TGCCACGA-AGTTGTGGACTTAAAAGGG
*
874018 TGCCACTG-AGTTGTGAACTTAAAGAGAAAAAGAG
1 TGCCAC-GAAGTTGTGGACTTAAA-AG-----G-G
*
874052 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGAAGTTGTGGACTTAAAAGGG
* * *
874079 TGCTACGGAGTCGTGGACTTAAAA
1 TGCCACGAAGTTGTGGACTTAAAA
874103 AGAAAAGGTG
Statistics
Matches: 95, Mismatches: 6, Indels: 22
0.77 0.05 0.18
Matches are distributed among these distances:
26 1 0.01
27 66 0.69
28 3 0.03
33 4 0.04
34 21 0.22
ACGTcount: A:0.32, C:0.14, G:0.32, T:0.23
Consensus pattern (27 bp):
TGCCACGAAGTTGTGGACTTAAAAGGG
Found at i:874063 original size:61 final size:61
Alignment explanation
Indices: 873984--874108 Score: 178
Period size: 61 Copynumber: 2.0 Consensus size: 61
873974 TTGTGGACTT
* * * * *
873984 AAAAGGGTGCCACAGAGTTGTGGATTTAAAAGGGTGCCACTGAGTTGTGAACTTAAAGAGA
1 AAAAGAGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTCGTGAACTTAAAAAGA
* * *
874045 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCTACGGAGTCGTGGACTTAAAAAGA
1 AAAAGAGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTCGTGAACTTAAAAAGA
874106 AAA
1 AAA
874109 GGTGCCCTCA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.21
Consensus pattern (61 bp):
AAAAGAGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTCGTGAACTTAAAAAGA
Found at i:874073 original size:88 final size:87
Alignment explanation
Indices: 873924--874102 Score: 252
Period size: 88 Copynumber: 2.0 Consensus size: 87
873914 TGGGCTTTTA
* * * *
873924 AAAATGGTGCCACTGATTTGTGAGCTTAAAAGGAGAAAGATGCCACGAAGTTGTGGACTTAAAAG
1 AAAAGGGTGCCACTGAGTTGTGAACTTAAAAGGAAAAAGATGCCACGAAGTTGTGGACTTAAAAG
* *
873989 GGTGCCACAGAGTTGTGGATTT
66 GGTGCCACAGAGTCGTGGACTT
*
874011 AAAAGGGTGCCACTGAGTTGTGAACTT-AAAGAGAAAAAGAGTGCCACGGAGTTGTGGACTTAAA
1 AAAAGGGTGCCACTGAGTTGTGAACTTAAAAG-GAAAAAGA-TGCCACGAAGTTGTGGACTTAAA
* *
874075 AGGGTGCTACGGAGTCGTGGACTT
64 AGGGTGCCACAGAGTCGTGGACTT
874099 AAAA
1 AAAA
874103 AGAAAAGGTG
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
86 4 0.05
87 31 0.38
88 46 0.57
ACGTcount: A:0.34, C:0.13, G:0.31, T:0.23
Consensus pattern (87 bp):
AAAAGGGTGCCACTGAGTTGTGAACTTAAAAGGAAAAAGATGCCACGAAGTTGTGGACTTAAAAG
GGTGCCACAGAGTCGTGGACTT
Found at i:878497 original size:19 final size:18
Alignment explanation
Indices: 878473--878527 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 18
878463 TATTTACAGT
878473 TATAATAATTAATTTTATA
1 TATAATAATT-ATTTTATA
*
878492 TATAATAATTGATTTAATA
1 TATAATAATT-ATTTTATA
* *
878511 -AAAATAGTTATTTTATA
1 TATAATAATTATTTTATA
878528 ATTAATGCAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
17 7 0.23
18 7 0.23
19 17 0.55
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (18 bp):
TATAATAATTATTTTATA
Found at i:879434 original size:101 final size:101
Alignment explanation
Indices: 879288--879471 Score: 228
Period size: 101 Copynumber: 1.8 Consensus size: 101
879278 TTGGAGAAAG
* * * *
879288 TTTAGGCGGGAAATTTTCTTCCATTCTTTTTAATTTCAGCACAAAAACTATTGCTAACCGAAAAT
1 TTTAGGCGGGAAATTTTCTTCCATTCTTTTCAATTCCAGCACAAAAACTACTACTAACCGAAAAT
*
879353 TTCATTG-AAAATACTATTTCTAATGAAATATTTTGA
66 TTCATCGTAAAA-ACTATTTCTAATGAAATATTTTGA
* *** * * *
879389 TTTAGGTGGGAAATTTT-TCTCCATTCTTTTCAATTCCATTGCAAAAATTACTATTGACCGAAAA
1 TTTAGGCGGGAAATTTTCT-TCCATTCTTTTCAATTCCAGCACAAAAACTACTACTAACCGAAAA
879453 TTTCATCGTAAAAACTATT
65 TTTCATCGTAAAAACTATT
879472 ATCAATAAAA
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
100 1 0.01
101 64 0.93
102 4 0.06
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.40
Consensus pattern (101 bp):
TTTAGGCGGGAAATTTTCTTCCATTCTTTTCAATTCCAGCACAAAAACTACTACTAACCGAAAAT
TTCATCGTAAAAACTATTTCTAATGAAATATTTTGA
Found at i:880500 original size:2 final size:2
Alignment explanation
Indices: 880493--880519 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
880483 GTAAATCTCT
880493 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
880520 GATTTCTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:886941 original size:12 final size:12
Alignment explanation
Indices: 886926--886974 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
886916 AACAAAGAAA
*
886926 ATGAATATGATG
1 ATGAATATAATG
*
886938 ATGAAGATAATG
1 ATGAATATAATG
886950 AT-AATGATAATG
1 ATGAAT-ATAATG
*
886962 ATGAAAATAATG
1 ATGAATATAATG
886974 A
1 A
886975 GCATATGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 2 0.06
12 27 0.87
13 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.20, T:0.29
Consensus pattern (12 bp):
ATGAATATAATG
Found at i:886949 original size:21 final size:22
Alignment explanation
Indices: 886920--886974 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 22
886910 GAGTAAAACA
* *
886920 AAGAAAATGAAT-ATGATGATG
1 AAGATAATGAATGATAATGATG
886941 AAGATAATGATAATGATAATGATG
1 AAGATAATG--AATGATAATGATG
*
886965 AAAATAATGA
1 AAGATAATGA
886975 GCATATGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 8 0.29
22 1 0.04
23 3 0.11
24 16 0.57
ACGTcount: A:0.55, C:0.00, G:0.20, T:0.25
Consensus pattern (22 bp):
AAGATAATGAATGATAATGATG
Found at i:889536 original size:24 final size:23
Alignment explanation
Indices: 889509--889584 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 23
889499 TATTCGATAT
889509 AAAATCAAAAAGATCAAAAATAAA
1 AAAATCAAAAA-ATCAAAAATAAA
*
889533 AAAAT-AAAAATCATCAAAAAGAAA
1 AAAATCAAAAA--ATCAAAAATAAA
*
889557 AAAAACAAAAAAT-AATCAAATAAA
1 AAAATCAAAAAATCAA--AAATAAA
889581 AAAA
1 AAAA
889585 AGTGAAATGG
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
22 2 0.05
23 7 0.16
24 30 0.68
25 5 0.11
ACGTcount: A:0.78, C:0.08, G:0.03, T:0.12
Consensus pattern (23 bp):
AAAATCAAAAAATCAAAAATAAA
Found at i:889567 original size:26 final size:24
Alignment explanation
Indices: 889521--889585 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 24
889511 AATCAAAAAG
* * *
889521 ATCAAAAATAAAAAAATAAAAATC
1 ATCAAAAAAAAAAAAAAAAAAATA
889545 ATCAAAAAGAAAAAAAACAAAAAATA
1 ATCAAAAA-AAAAAAAA-AAAAAATA
*
889571 ATCAAATAAAAAAAA
1 ATCAAAAAAAAAAAA
889586 GTGAAATGGT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
24 8 0.23
25 14 0.40
26 13 0.37
ACGTcount: A:0.78, C:0.08, G:0.02, T:0.12
Consensus pattern (24 bp):
ATCAAAAAAAAAAAAAAAAAAATA
Found at i:890031 original size:99 final size:98
Alignment explanation
Indices: 889790--890035 Score: 377
Period size: 98 Copynumber: 2.5 Consensus size: 98
889780 GGTGGCAGAC
* * * *
889790 AAAGCAACGTGGAGCAAATGATGAAGAAGAGCATGGCCAACTGCAACAGACAGCATCACAGCAAA
1 AAAGCAATGTGGAGCAAATGATGAAGAAAAGCATGGGCAGCTGCAACAGACAGCATCACAGCAAA
*
889855 GAAGAATGGAGGCAACATGAAGCAACCATAGCT
66 AAAGAATGGAGGCAACATGAAGCAACCATAGCT
* * *
889888 AAAGCAATGTGGAGTAAATGATGAAGAAGAA-CATGGGAAGCTGCAACAGACAGCATCATAGCAA
1 AAAGCAATGTGGAGCAAATGATGAAGAA-AAGCATGGGCAGCTGCAACAGACAGCATCACAGCAA
* *
889952 AAAAGAATGGGGGCAACGTGAAGCAACCCATAGCT
65 AAAAGAATGGAGGCAACATGAAGCAA-CCATAGCT
889987 AAAGCAATGTGGAGCAAATGATGAAGAAAAGCATGGGCAGCTGCAACAG
1 AAAGCAATGTGGAGCAAATGATGAAGAAAAGCATGGGCAGCTGCAACAG
890036 CAAAAAAAAA
Statistics
Matches: 133, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
98 80 0.60
99 53 0.40
ACGTcount: A:0.43, C:0.17, G:0.27, T:0.12
Consensus pattern (98 bp):
AAAGCAATGTGGAGCAAATGATGAAGAAAAGCATGGGCAGCTGCAACAGACAGCATCACAGCAAA
AAAGAATGGAGGCAACATGAAGCAACCATAGCT
Found at i:890254 original size:34 final size:34
Alignment explanation
Indices: 890216--890298 Score: 130
Period size: 34 Copynumber: 2.4 Consensus size: 34
890206 AATACGGGAT
890216 GCAAAAGACGAGAAACGAGCAGTAAAAAGAGAAA
1 GCAAAAGACGAGAAACGAGCAGTAAAAAGAGAAA
** * *
890250 GCAAAAGATAAAAAATGAGCAGTAAAAAGAGAAA
1 GCAAAAGACGAGAAACGAGCAGTAAAAAGAGAAA
890284 GCAAAAGACGAGAAA
1 GCAAAAGACGAGAAA
890299 AAACAAGCAG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.61, C:0.10, G:0.24, T:0.05
Consensus pattern (34 bp):
GCAAAAGACGAGAAACGAGCAGTAAAAAGAGAAA
Found at i:890398 original size:20 final size:19
Alignment explanation
Indices: 890350--890389 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
890340 AATCGCAACA
*
890350 AACAGCAAAA-CAGCAAGC
1 AACAGAAAAACCAGCAAGC
890368 AACAGAAAAACCAGCAAGC
1 AACAGAAAAACCAGCAAGC
890387 AAC
1 AAC
890390 GTGAAAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.57, C:0.28, G:0.15, T:0.00
Consensus pattern (19 bp):
AACAGAAAAACCAGCAAGC
Found at i:892460 original size:19 final size:19
Alignment explanation
Indices: 892436--892473 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
892426 AGATGGGCGA
892436 TTCATCTACCGATCTTCCC
1 TTCATCTACCGATCTTCCC
*
892455 TTCATCTATCGATCTTCCC
1 TTCATCTACCGATCTTCCC
892474 CTTTTAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.39, G:0.05, T:0.39
Consensus pattern (19 bp):
TTCATCTACCGATCTTCCC
Found at i:894880 original size:22 final size:22
Alignment explanation
Indices: 894819--894887 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 22
894809 TCAAAATTAC
*
894819 AAAAA-GTCAAAAGCAAAAGCACA
1 AAAAATGT-AAAAGCAAAA-CAAA
* *
894842 AAAAATGT-ATAGAAAAACAAA
1 AAAAATGTAAAAGCAAAACAAA
*
894863 AAAAATGTAAAAGCAAAATAAA
1 AAAAATGTAAAAGCAAAACAAA
894885 AAA
1 AAA
894888 TGGAACAACA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
21 11 0.29
22 20 0.53
23 5 0.13
24 2 0.05
ACGTcount: A:0.71, C:0.09, G:0.10, T:0.10
Consensus pattern (22 bp):
AAAAATGTAAAAGCAAAACAAA
Found at i:894885 original size:21 final size:22
Alignment explanation
Indices: 894861--894909 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 22
894851 TAGAAAAACA
*
894861 AAAAAAATGTAA-AAGC-AAAAT
1 AAAAAAATGGAACAA-CAAAAAT
894882 -AAAAAATGGAACAACAAAAAT
1 AAAAAAATGGAACAACAAAAAT
894903 AAAAAAA
1 AAAAAAA
894910 CAAAGACATG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 11 0.46
21 7 0.29
22 6 0.25
ACGTcount: A:0.76, C:0.06, G:0.08, T:0.10
Consensus pattern (22 bp):
AAAAAAATGGAACAACAAAAAT
Found at i:895182 original size:11 final size:13
Alignment explanation
Indices: 895165--895194 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
895155 TCCTGATTAT
895165 AAAAAAA-AAGAG
1 AAAAAAAGAAGAG
895177 AAAAAAAGAAGAG
1 AAAAAAAGAAGAG
895190 AAAAA
1 AAAAA
895195 TCCTTTTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAGAG
Found at i:896704 original size:28 final size:28
Alignment explanation
Indices: 896670--896766 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
896660 GAAATAAGGC
896670 CGGGGTTGGAGTATCCTCGTGAAAATAA
1 CGGGGTTGGAGTATCCTCGTGAAAATAA
*
896698 CGGGGTTGGAGTATCC-CCTCGAAAATAA
1 CGGGGTTGGAGTATCCTCGT-GAAAATAA
* *
896726 CGGGATTGGAGTATCCTCGATG-ACATAA
1 CGGGGTTGGAGTATCCTCG-TGAAAATAA
*
896754 CGGGGTTAGAGTA
1 CGGGGTTGGAGTA
896767 CCCCCCCGAT
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
27 2 0.03
28 55 0.92
29 2 0.03
30 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCTCGTGAAAATAA
Found at i:896924 original size:51 final size:51
Alignment explanation
Indices: 896840--897057 Score: 192
Period size: 51 Copynumber: 4.3 Consensus size: 51
896830 AAATAACATT
* ** ** *
896840 GTTGGAGTATCCCAG-TTGTGAAAAATTGGTGTTTTGGAAATAAAATTGGA
1 GTTGGAGTATCCCCGATTAAGAAAAATTAATGTTTTGGAAATAAAATCGGA
* * *
896890 GTTGGAGTATCCCCGATTAAGAAAAATTAATGTTTTGGAGATGAAA-CCGA
1 GTTGGAGTATCCCCGATTAAGAAAAATTAATGTTTTGGAAATAAAATCGGA
* ** ** * * * *
896940 GATTGGAGTATCCCCGGTTGCGGTAAATCAATGCTTTAGAAATAAAATCAGA
1 G-TTGGAGTATCCCCGATTAAGAAAAATTAATGTTTTGGAAATAAAATCGGA
* * * *
896992 GTTGGAGTATCCCCGATTAA-AAAAATTGATGTTTTGGCAATGAAACCGG-
1 GTTGGAGTATCCCCGATTAAGAAAAATTAATGTTTTGGAAATAAAATCGGA
897041 GATTGGAGTATCCCCGA
1 G-TTGGAGTATCCCCGA
897058 GACGAAAATT
Statistics
Matches: 131, Mismatches: 33, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
49 1 0.01
50 51 0.39
51 75 0.57
52 4 0.03
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTAAGAAAAATTAATGTTTTGGAAATAAAATCGGA
Found at i:899381 original size:20 final size:20
Alignment explanation
Indices: 899356--899450 Score: 136
Period size: 20 Copynumber: 4.8 Consensus size: 20
899346 AAAATGCCTG
* **
899356 AATGTATCGATACATTTTAC
1 AATGTATCGATACAATGAAC
*
899376 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAAC
899396 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATGAAC
* *
899416 AATATATCGATACAATGAAT
1 AATGTATCGATACAATGAAC
899436 AATGTATCGATACAA
1 AATGTATCGATACAA
899451 ATTCCAAAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 67 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:900180 original size:42 final size:42
Alignment explanation
Indices: 900121--900265 Score: 154
Period size: 42 Copynumber: 3.5 Consensus size: 42
900111 GAAAAGAGCA
* * *
900121 CGTCCTACT-TTTCGAGGATAAAGGAAAAAAGGAAAACGAAATG
1 CGTCCTGCTCTTT-GAGGACAAAGGAAAAAAGGAAAA-AAAATG
* *
900164 -GTCCTGCTCTTTGAGGACAAAAG-AAAAAGGAAAATAAAGTG
1 CGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAA-AAAATG
* *
900205 CGTCCTGCTCTTTAAGGACAAAGGAAAGAA-GAAAATAAAATG
1 CGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAA-AAAATG
*
900247 CGTCCCGCTCTTTGAGGAC
1 CGTCCTGCTCTTTGAGGAC
900266 TAAAAAGTGT
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
41 15 0.17
42 65 0.75
43 7 0.08
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (42 bp):
CGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAAAAAATG
Found at i:900212 original size:119 final size:117
Alignment explanation
Indices: 900012--900227 Score: 262
Period size: 119 Copynumber: 1.8 Consensus size: 117
900002 TGTCCCACCT
* * * *
900012 TTTTTGAGGACAAAGGAAAAAAGAATGAAATAGGTCTTGCTCCTTGAGGACAAAGGAAGAGAAGA
1 TTTTCGAGGACAAAGGAAAAAAGAACGAAATAGGTCCTGCTCCTTGAGGACAAAAGAAGAGAAGA
*
900077 AAAGGAAAGTGTCCTGCT-TCTTGAGGACAAAGTGGAAAAGAGCACGTCCTAC
66 AAAGGAAAGTGTCCTGCTCT-TTAAGGACAAAGTGGAAAAGAGCACGTCCTAC
* *
900129 TTTTCGAGGATAAAGGAAAAAAGGAAAACGAAAT-GGTCCTGCTCTTTGAGGACAAAAGAA-A-A
1 TTTTCGAGGACAAAGGAAAAAA-G--AACGAAATAGGTCCTGCTCCTTGAGGACAAAAGAAGAGA
*
900191 AGGAAAA-TAAAGTGCGTCCTGCTCTTTAAGGACAAAG
63 A-GAAAAGGAAAGT--GTCCTGCTCTTTAAGGACAAAG
900228 GAAAGAAGAA
Statistics
Matches: 84, Mismatches: 8, Indels: 12
0.81 0.08 0.12
Matches are distributed among these distances:
117 27 0.32
118 7 0.08
119 42 0.50
120 8 0.10
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.20
Consensus pattern (117 bp):
TTTTCGAGGACAAAGGAAAAAAGAACGAAATAGGTCCTGCTCCTTGAGGACAAAAGAAGAGAAGA
AAAGGAAAGTGTCCTGCTCTTTAAGGACAAAGTGGAAAAGAGCACGTCCTAC
Found at i:900341 original size:61 final size:60
Alignment explanation
Indices: 900253--900922 Score: 677
Period size: 61 Copynumber: 10.9 Consensus size: 60
900243 AATGCGTCCC
* * * * *
900253 GCTCTTTGAGGACTAAAAAGTGTCACCAACTCGTGTGGGCTGTGAAAAGGAAAGGCATCCT
1 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAGGAAAGGCATCCT
* * *
900314 ACTCTTTAAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAA-GCATCCT
1 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-GAAAGGCATCCT
** * * *
900375 GCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTAGGCTTTGAAAGAAAAAG-ATGTCCT
1 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGGCA--TCCT
* * *
900436 GCTTTTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCT
1 GCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAAGGCATCCT
* * *
900497 GCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGGCATCCT
1 GCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-GAAAG--GAAAGGCATCCT
* * * * *
900561 GCTCTTTGAAGACCGGAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGGAAAAGGCGTCCT
1 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAAGGCATCCT
* * * *
900622 ACTTTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTG-AGGGAGAAGGCGTCCT
1 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGA-AAGGCATCCT
* ** **
900681 GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAAGGTGTCCT
1 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----GAAAGGAAAGGCATCCT
* *
900746 GCTCTTTGAGGACTGGAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGGAAAAGGCATCCT
1 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAAGGCATCCT
* * * * *
900807 GCTCTTTGAGGACT-AAAGGTGCCACCAACTTATGTAGGCTTTAAAAAGAAAAAAGGGCGTCCT
1 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-GAAAG--GAAA-GGCATCCT
* * * * *
900870 TCTCTTTGAGGACTAGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAA
1 GCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAA
900923 AAAAAGACGT
Statistics
Matches: 514, Mismatches: 68, Indels: 53
0.81 0.11 0.08
Matches are distributed among these distances:
58 1 0.00
59 29 0.06
60 88 0.17
61 199 0.39
62 45 0.09
63 50 0.10
64 26 0.05
65 74 0.14
66 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (60 bp):
GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGGCATCCT
Found at i:900601 original size:125 final size:123
Alignment explanation
Indices: 900241--900949 Score: 756
Period size: 125 Copynumber: 5.7 Consensus size: 123
900231 AGAAGAAAAT
* * * * * *
900241 AAAATGCGTCCCGCTCTTTGAGGACTAAAAAGTGTCACCAACTCGTGTGGGCTGTGAAAAG--GA
1 AAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCT-TTAAAAGAAAA
* * *
900304 AAGGCATCCTACTCTTTAAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAA-G
65 AAGGCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAGG
* * * * *
900363 AGAAA-GCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTAGGCTTTGAAAGAAAA
1 A-AAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAA
* * **
900427 AGATG--TCCTGCTTTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
65 A-AGGCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
*
900485 AAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAA
1 AAAAGGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAA
* ** *
900550 AAAGGCATCCTGCTCTTTGAAGACCGGAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGG
64 AAAGGCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
* * * * * ** *
900610 AAAAGGCGTCCTACTTTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT--GAGGGAGA
1 AAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAA
* * * *
900672 AGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAA
66 AGGCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT-GAAAG---G
* * * * *
900734 AAAAGGTGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGTGTGGGCTTTGAAAG-GAAA
1 AAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAA
* * * *
900798 AGGCATCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTATGTAGGCTTTAAAAAGAA
66 AGGCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT-GAAAG-G
*
900857 AAAAGGGCGTCCTTCTCTTTGAGGACTAGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAAGAA
1 AAAA-GGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTCGTGTGGGCTTT-AAAAG--
* * *
900922 AAAAAAGACGTCTTGCTCTTTGAGGACT
61 AAAAAAGGCATCCTGCTCTTTGAGGACT
900950 GGAAAGGCTA
Statistics
Matches: 501, Mismatches: 63, Indels: 39
0.83 0.10 0.06
Matches are distributed among these distances:
120 50 0.10
121 15 0.03
122 106 0.21
123 67 0.13
124 54 0.11
125 154 0.31
126 30 0.06
127 2 0.00
129 23 0.05
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (123 bp):
AAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAA
AGGCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
Found at i:900766 original size:185 final size:185
Alignment explanation
Indices: 900241--900953 Score: 898
Period size: 185 Copynumber: 3.8 Consensus size: 185
900231 AGAAGAAAAT
* * * * * *
900241 AAAATGCGTCCCGCTCTTTGAGGACTAAAAAGTGTCACCAACTCGTGTGGGCTGTGAAAAGG-AA
1 AAAAGGCGTCCTGCTTTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAGGAAA
* * * * * ** *
900305 AGGCATCCTACTCTTTAAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAG-AGAAA
64 AGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAA
* ** * * *
900368 -GCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTAGGCTTTGAAAGA
129 GGCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGG
** *
900424 AAAAGATGTCCTGCTTTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAA
1 AAAAGGCGTCCTGCTTTTTGAGGACTA-AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAA
900489 GGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAG
65 GGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAG
* *
900554 GCATCCTGCTCTTTGAAGACCGGAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGG
130 GCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGG
* * * *
900610 AAAAGGCGTCCTACTTTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTG-AGGGAGAAG
1 AAAAGGCGTCCTGCTTTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
*
900674 GCGTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAA
66 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAG--AAAAAA
**
900738 GGTGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGG
129 GGCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGG
* * * * * * *
900795 AAAAGGCATCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTATGTAGGCTTTAAAAAGAAAAA
1 AAAAGGCGTCCTGCTTTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTT-GAAAG-GAAA
* *
900860 AGGGCGTCCTTCTCTTTGAGGACTAGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAA
64 A-GGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAG--AAA
* * *
900925 AAAGACGTCTTGCTCTTTGAGGACTGGAA
126 AAAGGCATCCTGCTCTTTGAGGACTGGAA
900954 AGGCTAAAAG
Statistics
Matches: 466, Mismatches: 52, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
182 6 0.01
183 100 0.21
184 60 0.13
185 138 0.30
186 72 0.15
187 2 0.00
188 3 0.01
189 22 0.05
190 63 0.14
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (185 bp):
AAAAGGCGTCCTGCTTTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGG
CATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGG
Found at i:902971 original size:65 final size:64
Alignment explanation
Indices: 902895--903893 Score: 497
Period size: 64 Copynumber: 15.7 Consensus size: 64
902885 TCAGTGGCAC
* * * * *
902895 CTTTTTAAAGCCCACACAAATTGGTGGCGCCTTTTTTTAGTCCTCAAAAAGCAGGACGCTTTTTT
1 CTTTTAAAAGCCCACACAAGTTAGTGGCACC-CTTTTTAGTCCTCAAAAAGCAGGACGCTTTTTT
* * * *
902960 CTTTTAAAAGCCTACACAAGTTGGTGGCACCCCTTTTAGTCCTCAAAGAGCAGGACG-TCTTTTT
1 CTTTTAAAAGCCCACACAAGTTAGTGGCACCCTTTTTAGTCCTCAAAAAGCAGGACGCT-TTTTT
* * * * * *
903024 -TTTAAAAAACCCACACAAGTTAGTGTCA-CC-TTTTAGTCCTCAAAGAGTAGGATGTTCTCTTT
1 CTTTTAAAAGCCCACACAAGTTAGTGGCACCCTTTTTAGTCCTCAAAAAGCAGGA----CGC-TT
903086 TTTT
61 TTTT
* * * *
903090 CTTTTAAAAGCCCACACAAGTTAGTGGTAACCCTTTTTAGTCCTCAAAAAGCAAGATGCATTTTT
1 CTTTTAAAAGCCCACACAAGTTAGTGG-CACCCTTTTTAGTCCTCAAAAAGCAGGACGCTTTTTT
* * * ** * ** ** *
903155 CTTTT-AAAGCCCACACAAGCTAGTAGCAACTCTTCTAAAAG-CC-CACACAAGTTGGTGGC--A
1 CTTTTAAAAGCCCACACAAGTTAGTGGC-ACCCTT-T-TTAGTCCTCA-AAAAGCAGGACGCTTT
***
903215 CCC
62 TTT
* * * ** * * * ** **
903218 CTTTT--TAGTCCTCA-AAGAACAG-GACACCTTTTTCTTTTAAAG-CCT-ACACAAGCTCGTGG
1 CTTTTAAAAGCCCACACAAG-TTAGTGGCACC-----CTTTT-TAGTCCTCA-AAAAGCAGGACG
****
903277 CAACCTT
58 CTTTTTT
* * * * * *
903284 -TTTTAAAAGTCCACACAAGTTGGTGGCACCTCTTTTTAGTCCTCAAAGAGTAGGATGCCTTTTT
1 CTTTTAAAAGCCCACACAAGTTAGTGGCACC-CTTTTTAGTCCTCAAAAAGCAGGACGCTTTTTT
* *
903348 CTTTTAAAAGCCCACACAAGTTAGTGGCACCTCTTTTT-GTCCTCAAAGAGCAGGACG--TTTTC
1 CTTTTAAAAGCCCACACAAGTTAGTGGCACC-CTTTTTAGTCCTCAAAAAGCAGGACGCTTTTTT
* * *
903410 CTTTTTAAAGCCCACACAAGTT-GATGGCACATCTTTTTAGTCCTCAAAAAGCATGACGCTTTTT
1 CTTTTAAAAGCCCACACAAGTTAG-TGGCAC-CCTTTTTAGTCCTCAAAAAGCAGGACGCTTTTT
903474 T
64 T
* * * * * * *
903475 CTTTTAAAAGCCCACACAAGTTGGTGACACCCCTTTTAGTCCTCAAAGAGTAGGATG-TCTTTTC
1 CTTTTAAAAGCCCACACAAGTTAGTGGCACCCTTTTTAGTCCTCAAAAAGCAGGACGCT-TTTTT
* * * * * * * * * * *
903539 CTTTTTAAATCCCACATAAGTTGGTGACA-CC-TTTCAGTCCTCAAAGAGTAGTACAC-TTTCT
1 CTTTTAAAAGCCCACACAAGTTAGTGGCACCCTTTTTAGTCCTCAAAAAGCAGGACGCTTTTTT
* * * * * *
903600 CTTTTTAAAGCCCACACAAGTTGGTGGCA--CATTTCAGTCCTCAAAAAGTAAGACGCCTTTTTT
1 CTTTTAAAAGCCCACACAAGTTAGTGGCACCCTTTTTAGTCCTCAAAAAGCAGGACG-CTTTTTT
* * * * * * * *
903663 CTTTTTAAAGCTCACACAAATT-GTTTGGCA-CC-TTTTAGTCCTCAAAGAGCAAGATGCCTTCT
1 CTTTTAAAAGCCCACACAAGTTAG--TGGCACCCTTTTTAGTCCTCAAAAAGCAGGACGCTTTTT
*
903725 C
64 T
* * * * * *
903726 CTTTT-AAAGCCCACACAAGTTGGTGGCA-CC-TTTCAGTCCTCAGAGAGCAAGACG-TCTTTTC
1 CTTTTAAAAGCCCACACAAGTTAGTGGCACCCTTTTTAGTCCTCAAAAAGCAGGACGCT-TTTTT
* * * * * *
903787 CTTTT-AAAGGCCACACAAATTGGTGGCA-CC-TTTTAGTCCTCAAAGAGCAGGATGCCTTTTT
1 CTTTTAAAAGCCCACACAAGTTAGTGGCACCCTTTTTAGTCCTCAAAAAGCAGGACGCTTTTTT
* * * *
903848 CTTTTCAAAGCCCACACGAGTTGGTGGCACTC-TTTTAGTCCTCAAA
1 CTTTTAAAAGCCCACACAAGTTAGTGGCACCCTTTTTAGTCCTCAAA
903894 GAGTATGACA
Statistics
Matches: 747, Mismatches: 136, Indels: 104
0.76 0.14 0.11
Matches are distributed among these distances:
60 3 0.00
61 164 0.22
62 103 0.14
63 100 0.13
64 183 0.24
65 122 0.16
66 10 0.01
67 32 0.04
68 9 0.01
69 2 0.00
70 19 0.03
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (64 bp):
CTTTTAAAAGCCCACACAAGTTAGTGGCACCCTTTTTAGTCCTCAAAAAGCAGGACGCTTTTTT
Found at i:903329 original size:97 final size:96
Alignment explanation
Indices: 903091--903385 Score: 380
Period size: 96 Copynumber: 3.0 Consensus size: 96
903081 TCTTTTTTTC
* * * *
903091 TTTTAAAAGCCCACACAAGTTAGTGGTAACCCTTTTTAGTCCTCAAA-AAGCAAGATGCATTTTT
1 TTTTAAAAGCCCACACAAGTTGGTGG-CACCCTTTTTAGTCCTCAAAGAA-CAGGATGCCTTTTT
* *
903155 CTTTTAAAGCCCACACAAGCTAGTAGCAA-CTC
64 CTTTTAAAGCCCACACAAGCTAGTGGCAACCTT
* **
903187 TTCTAAAAGCCCACACAAGTTGGTGGCACCCCTTTTTAGTCCTCAAAGAACAGGACACCTTTTTC
1 TTTTAAAAGCCCACACAAGTTGGTGGCA-CCCTTTTTAGTCCTCAAAGAACAGGATGCCTTTTTC
* *
903252 TTTTAAAGCCTACACAAGCTCGTGGCAACCTT
65 TTTTAAAGCCCACACAAGCTAGTGGCAACCTT
* **
903284 TTTTAAAAGTCCACACAAGTTGGTGGCACCTCTTTTTAGTCCTCAAAGAGTAGGATGCCTTTTTC
1 TTTTAAAAGCCCACACAAGTTGGTGGCACC-CTTTTTAGTCCTCAAAGAACAGGATGCCTTTTTC
*
903349 TTTTAAAAGCCCACACAAGTTAGTGGC-ACCTCT
65 TTTT-AAAGCCCACACAAGCTAGTGGCAACCT-T
903382 TTTT
1 TTTT
903386 GTCCTCAAAG
Statistics
Matches: 173, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
95 1 0.01
96 80 0.46
97 68 0.39
98 24 0.14
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (96 bp):
TTTTAAAAGCCCACACAAGTTGGTGGCACCCTTTTTAGTCCTCAAAGAACAGGATGCCTTTTTCT
TTTAAAGCCCACACAAGCTAGTGGCAACCTT
Found at i:903625 original size:125 final size:124
Alignment explanation
Indices: 903283--903898 Score: 688
Period size: 127 Copynumber: 4.9 Consensus size: 124
903273 GTGGCAACCT
* *
903283 TTTTTAAAAGTCCACACAAGTTGGTGGCACCTCTTTTTAGTCCTCAAAGAGTAGGATGCCTTTTT
1 TTTTT-AAAGCCCACACAAGTTGGTGGCA-C-C-TTTTAGTCCTCAAAGAGCA-GATGCCTTTTT
* * * *
903348 CTTTTAAAAGCCCACACAAGTTAGTGGCACCTCTTTTTGTCCTCAAAGAGCAGGACG--TTTTCC
61 CTTTTAAAAGCCCACACAAGTTGGTGGCACC-CTTTTAGTCCTCAAAGAGTAAGACGTCTTTTCC
* * * *
903411 TTTTTAAAGCCCACACAAGTTGATGGCACATCTTTTTAGTCCTCAAAAAGCATGACGCTTTTTTC
1 TTTTTAAAGCCCACACAAGTTGGTGGCAC--C-TTTTAGTCCTCAAAGAGCA-GATGCCTTTTTC
* * *
903476 TTTTAAAAGCCCACACAAGTTGGTGACACCCCTTTTAGTCCTCAAAGAGTAGGATGTCTTTTCC
62 TTTTAAAAGCCCACACAAGTTGGTGGCA-CCCTTTTAGTCCTCAAAGAGTAAGACGTCTTTTCC
* * * * * * *
903540 TTTTTAAATCCCACATAAGTTGGTGACACCTTTCAGTCCTCAAAGAGTAG-TACACTTTCTCTTT
1 TTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGATGC-CTTTTTCTTT
* * * * * *
903604 TTAAAGCCCACACAAGTTGGTGGCA-CATTTCAGTCCTCAAAAAGTAAGACGCCTTTTTTC
65 TAAAAGCCCACACAAGTTGGTGGCACCCTTTTAGTCCTCAAAGAGTAAGACGTC-TTTTCC
* * * * *
903664 TTTTTAAAGCTCACACAAATTGTTTGGCACCTTTTAGTCCTCAAAGAGCAAGATGCCTTCTCCTT
1 TTTTTAAAGCCCACACAAGTTG-GTGGCACCTTTTAGTCCTCAAAGAGC-AGATGCCTTTTTCTT
* * *
903729 TT-AAAGCCCACACAAGTTGGTGGCA-CCTTTCAGTCCTCAGAGAGCAAGACGTCTTTTCC
64 TTAAAAGCCCACACAAGTTGGTGGCACCCTTTTAGTCCTCAAAGAGTAAGACGTCTTTTCC
* *
903788 -TTTTAAAGGCCACACAAATTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTT
1 TTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCA-GATGCCTTTTTCTTT
* * *
903852 TCAAAGCCCACACGAGTTGGTGGCACTCTTTTAGTCCTCAAAGAGTA
65 TAAAAGCCCACACAAGTTGGTGGCACCCTTTTAGTCCTCAAAGAGTA
903899 TGACATTTTT
Statistics
Matches: 416, Mismatches: 60, Indels: 28
0.83 0.12 0.06
Matches are distributed among these distances:
121 1 0.00
122 39 0.09
123 63 0.15
124 46 0.11
125 100 0.24
126 27 0.06
127 102 0.25
128 7 0.02
129 31 0.07
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.32
Consensus pattern (124 bp):
TTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGATGCCTTTTTCTTTT
AAAAGCCCACACAAGTTGGTGGCACCCTTTTAGTCCTCAAAGAGTAAGACGTCTTTTCC
Found at i:903860 original size:438 final size:429
Alignment explanation
Indices: 903283--904304 Score: 1006
Period size: 438 Copynumber: 2.3 Consensus size: 429
903273 GTGGCAACCT
* * * * * *
903283 TTTTTAAAAGTCCACACAAGTTGGTGGCACCTCTTTTTAGTCCTCAAAGAGTAGGATGCCTTTTT
1 TTTTT-AAAGCCCACACAAGTTGGTGGCA-C-C-TTTCAGTCCTCAAAGAGCAAGACG-CTTTTC
* * * *
903348 CTTTTAAAAGCCCACACAAGTTAGTGGCACCTCTTTTTGTCCTCAAAGAGCAGGACG-TTTTCCT
61 CTTTTAAAAGCCCACACAAGTTGGTGGCA-C-CTTTTAGTCCTCAAAGAGCAGGATGCTTTTTCT
* * *
903412 TTTTAAAGCCCACACAAGTTGATGGCACATCTTTTTAGTCCTCAAAAAGCATGACGCTTTTTTCT
124 TTTCAAAGCCCACACAAGTTGATGGCAC-TC-TTTTAGTCCTCAAAAAGCATGACACTTTTTTCC
* * *
903477 TTTAAAAGCCCACACAAGTTGGT-GACACC-CCTTTT-AGTCCTCA-AAGAGTA-GG-ATGTCTT
187 TTT---AGCCCACA-AAG--AGTAGA-ACCTCCTTTTAAGCCCACACAA-AGTAGGGCAT-TCTT
* ** * ** * *
903536 TTCCTTTTTAAATCCCACATAAGTTGGTGACACCTTTCAGTCCTCAAAGAGTAGTACA-CTTTCT
243 TTACTCCTCAAAGACCA-AGAAGTT-GTGACACCTTTCAGTCCTCAAAGAGTAGGACACCTTTCT
* *
903600 CTTTTTAAAGCCCACACAAGTTGGTGGCACATTTCAGTCCTCAAAAAGTAAGACGCCTTTTTTCT
306 CTTTTTAAAGCCCACACAAGTTGGTGGCACATTTCAATCCTCAAAAAGTAAGACGCC-ATTTTCT
* *
903665 TTTTAAAG-CTCACACAAATTGTTTGGCACCTTTTAGTCCTCAAAGAGCAAGATGCCTTCTCC
370 TTTTAAAGCCT-ACACAAATTG-GTGGCACCTTTCAGTCCTCAAAGAGCAAGATGCCTT-TCC
*
903727 -TTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAGAGAGCAAGACGTCTTTTCCTTT
1 TTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAAGACG-CTTTTCCTTT
* *
903791 T-AAAGGCCACACAAATTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCA
65 TAAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATG-CTTTTTCTTTTCA
* * * * * *
903855 AAGCCCACACGAGTTGGTGGCACTCTTTTAGTCCTCAAAGAGTATGACATTTTTTTCCTTTAGTC
129 AAGCCCACACAAGTTGATGGCACTCTTTTAGTCCTCAAAAAGCATGACACTTTTTTCCTTTAGCC
* * * *
903920 CTCAAAGAGTAAGAACCTTTTTTCTTTTTAAAGCCCACACAAATTAGTGGCATTCTTTTAGTCCT
194 CACAAAGAGT-AGAACC-----TCCTTTT-AAGCCCACACAAAGTAG-GGCATTCTTTTACTCCT
* * * * **** *
903985 CAAAGAGCAGGACGTTTTTTTTCCTTTCAGTCCTCAAAGAGTAGGACACCTTTTTCTTTTTAAAG
251 CAAAGACCAAGAAGTTGTGACACCTTTCAGTCCTCAAAGAGTAGGACACCTTTCTCTTTTTAAAG
* * * * *
904050 CCTACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGTAGGATGCCATTTTCTTTTTAAAGCCT
316 CCCACACAAGTTGGTGGCACATTTCAATCCTCAAAAAGTAAGACGCCATTTTCTTTTTAAAGCCT
* * *
904115 ATACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTCC
381 ACACAAATTGGTGGCACCTTTCAGTCCTCAAAGAGCAAGATGCCTTTCC
* * * *
904164 TTTTTAAACCCCACACAAGTTGATGGCACCTTTCAGTCCTCAAAGAGCATGACGCCTTTCCTTTT
1 TTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAAGACGCTTTTCCTTTT
* * * ** * * * *
904229 CAAAGCCCACATAAGTTGGTGGTACCTTCCAATCCCCAAAGAGCTGGATG-TTTTTCTTCTCAAA
66 AAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAA
*
904293 ACCCACACAAGT
131 GCCCACACAAGT
904305 CGGTGGCAAG
Statistics
Matches: 482, Mismatches: 76, Indels: 48
0.80 0.13 0.08
Matches are distributed among these distances:
430 2 0.00
431 3 0.01
432 5 0.01
433 6 0.01
436 77 0.16
437 21 0.04
438 173 0.36
439 86 0.18
440 65 0.13
441 16 0.03
442 24 0.05
443 4 0.01
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (429 bp):
TTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAAGACGCTTTTCCTTTT
AAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAA
GCCCACACAAGTTGATGGCACTCTTTTAGTCCTCAAAAAGCATGACACTTTTTTCCTTTAGCCCA
CAAAGAGTAGAACCTCCTTTTAAGCCCACACAAAGTAGGGCATTCTTTTACTCCTCAAAGACCAA
GAAGTTGTGACACCTTTCAGTCCTCAAAGAGTAGGACACCTTTCTCTTTTTAAAGCCCACACAAG
TTGGTGGCACATTTCAATCCTCAAAAAGTAAGACGCCATTTTCTTTTTAAAGCCTACACAAATTG
GTGGCACCTTTCAGTCCTCAAAGAGCAAGATGCCTTTCC
Found at i:903909 original size:62 final size:60
Alignment explanation
Indices: 903283--903896 Score: 557
Period size: 61 Copynumber: 9.8 Consensus size: 60
903273 GTGGCAACCT
* * *
903283 TTTTTAAAAGTCCACACAAGTTGGTGGCACCTCTTTTTAGTCCTCAAAGAGTAGGATGCCTTTTT
1 TTTTT-AAAGCCCACACAAGTTGGTGGCA-C-C-TTTTAGTCCTCAAAGAGCAGGA--CTTTTTT
903348 C
60 C
* * * * *
903349 TTTTAAAAGCCCACACAAGTTAGTGGCACCTCTTTTTGTCCTCAAAGAGCAGGACGTTTTCC
1 TTTTTAAAGCCCACACAAGTTGGTGGCA-C-CTTTTAGTCCTCAAAGAGCAGGACTTTTTTC
* * *
903411 TTTTTAAAGCCCACACAAGTTGATGGCACATCTTTTTAGTCCTCAAAAAGCATGACGCTTTTTTC
1 TTTTTAAAGCCCACACAAGTTGGTGGCAC--C-TTTTAGTCCTCAAAGAGCAGGA--CTTTTTTC
* * *
903476 TTTTAAAAGCCCACACAAGTTGGTGACACCCCTTTTAGTCCTCAAAGAGTAGGA-TGTCTTTTCC
1 TTTTTAAAGCCCACACAAGTTGGTGGCA--CCTTTTAGTCCTCAAAGAGCAGGACT-T-TTTT-C
* * * * * * * *
903540 TTTTTAAATCCCACATAAGTTGGTGACACCTTTCAGTCCTCAAAGAGTAGTACACTTTCTC
1 TTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGAC-TTTTTTC
* * * * *
903601 TTTTTAAAGCCCACACAAGTTGGTGGCACATTTCAGTCCTCAAAAAGTAAGACGCCTTTTTTC
1 TTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAG-CAG--GACTTTTTTC
* * * * * *
903664 TTTTTAAAGCTCACACAAATTGTTTGGCACCTTTTAGTCCTCAAAGAGCAAGA-TGCCTTCTC
1 TTTTTAAAGCCCACACAAGTTG-GTGGCACCTTTTAGTCCTCAAAGAGCAGGACT--TTTTTC
* * * * *
903726 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAGAGAGCAAGACGTCTTTTC
1 TTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGAC-TTTTTTC
* * * *
903787 CTTTTAAAGGCCACACAAATTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTC
1 TTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGA--CTTTTTTC
* *
903849 TTTTCAAAGCCCACACGAGTTGGTGGCACTCTTTTAGTCCTCAAAGAG
1 TTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTTTAGTCCTCAAAGAG
903897 TATGACATTT
Statistics
Matches: 458, Mismatches: 68, Indels: 47
0.80 0.12 0.08
Matches are distributed among these distances:
60 1 0.00
61 125 0.27
62 113 0.25
63 70 0.15
64 87 0.19
65 57 0.12
66 4 0.01
67 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.32
Consensus pattern (60 bp):
TTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACTTTTTTC
Found at i:903926 original size:95 final size:95
Alignment explanation
Indices: 903818--904092 Score: 374
Period size: 95 Copynumber: 2.9 Consensus size: 95
903808 GGTGGCACCT
* * * *
903818 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTCTTT
1 TTTAGTCCTCAAAGAGTAGGA-ACCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTCTTT
*
903883 TAGTCCTCAAAGAGTATGAC-ATTTTTTTCC
65 TAGTCCTCAAAGAGTAGGACGATTTTTTTCC
* * * *
903913 TTTAGTCCTCAAAGAGTAAGAACCTTTTTTCTTTTTAAAGCCCACACAAATTAGTGGCATTCTTT
1 TTTAGTCCTCAAAGAGTAGGAACC-TTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTCTTT
* *
903978 TAGTCCTCAAAGAGCAGGACGTTTTTTTTCC
65 TAGTCCTCAAAGAGTAGGACGATTTTTTTCC
*
904009 TTTCAGTCCTCAAAGAGTAGGACACCTTTTTCTTTTTAAAGCCTACACAAGTTGGTGGCAC-CTT
1 TTT-AGTCCTCAAAGAGTAGGA-ACCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTCTT
* *
904073 TCAATCCTCAAAGAGTAGGA
64 TTAGTCCTCAAAGAGTAGGA
904093 TGCCATTTTC
Statistics
Matches: 157, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
94 2 0.01
95 72 0.46
96 32 0.20
97 48 0.31
98 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (95 bp):
TTTAGTCCTCAAAGAGTAGGAACCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTCTTTT
AGTCCTCAAAGAGTAGGACGATTTTTTTCC
Found at i:903941 original size:32 final size:32
Alignment explanation
Indices: 903881--903943 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
903871 GTGGCACTCT
* *
903881 TTTAGTCCTCAAAGAGTATGACATTTTTTTCC
1 TTTAGTCCTCAAAGAGTAAGACACTTTTTTCC
903913 TTTAGTCCTCAAAGAGTAAGA-ACCTTTTTTC
1 TTTAGTCCTCAAAGAGTAAGACA-CTTTTTTC
903944 TTTTTAAAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 1 0.04
32 27 0.96
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (32 bp):
TTTAGTCCTCAAAGAGTAAGACACTTTTTTCC
Found at i:904039 original size:34 final size:34
Alignment explanation
Indices: 903974--904039 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
903964 TAGTGGCATT
* ***
903974 CTTTTAGTCCTCAAAGAGCAGGACGTTTTTTTTC
1 CTTTCAGTCCTCAAAGAGCAGGACACCTTTTTTC
*
904008 CTTTCAGTCCTCAAAGAGTAGGACACCTTTTT
1 CTTTCAGTCCTCAAAGAGCAGGACACCTTTTT
904040 CTTTTTAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (34 bp):
CTTTCAGTCCTCAAAGAGCAGGACACCTTTTTTC
Found at i:904197 original size:61 final size:61
Alignment explanation
Indices: 904007--904312 Score: 353
Period size: 61 Copynumber: 5.0 Consensus size: 61
903997 CGTTTTTTTT
* ** *
904007 CCTTTCAGTCCTCAAAGAGTAGGACACCTTTTTCTTTTTAAAGCCTACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGATGCC-TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
904069 CCTTTCAATCCTCAAAGAGTAGGATGCCATTTTCTTTTTAAAGCCTATACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGATGCC-TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
904131 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTCCTTTTTAAACCCCACACAAGTTGATGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
904192 CCTTTCAGTCCTCAAAGAGCATGACGCCTTTCCTTTTCAAAGCCCACATAAGTTGGTGGTA
1 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * * * * *
904253 CCTTCCAATCCCCAAAGAGCTGGATG-TTTTTCTTCTCAAAACCCACACAAGTCGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
904313 AGCCTTCTTC
Statistics
Matches: 212, Mismatches: 32, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
60 27 0.13
61 102 0.48
62 83 0.39
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (61 bp):
CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:904335 original size:31 final size:33
Alignment explanation
Indices: 904284--904370 Score: 99
Period size: 31 Copynumber: 2.7 Consensus size: 33
904274 GGATGTTTTT
* * * *
904284 CTTC-TCAAAACCCACACAAGTCGGTGGCAAGC
1 CTTCTTCAAAGCCTACACAAGTCGGTCGCAACC
*
904316 CTTCTTCAAAGCC-A-ACAAGTCGGTCGTAACC
1 CTTCTTCAAAGCCTACACAAGTCGGTCGCAACC
*
904347 CTTCTTTAAAGCCTACACAAGTCG
1 CTTCTTCAAAGCCTACACAAGTCG
904371 ATGGTAACTC
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
31 26 0.55
32 6 0.13
33 15 0.32
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.22
Consensus pattern (33 bp):
CTTCTTCAAAGCCTACACAAGTCGGTCGCAACC
Found at i:904378 original size:33 final size:32
Alignment explanation
Indices: 904295--904384 Score: 110
Period size: 31 Copynumber: 2.8 Consensus size: 32
904285 TTCTCAAAAC
* *
904295 CCACACAAGTCGGTGGCAAGCCTTCTTCAAAG
1 CCACACAAGTCGGTGGTAACCCTTCTTCAAAG
* *
904327 CCA-ACAAGTCGGTCGTAACCCTTCTTTAAAG
1 CCACACAAGTCGGTGGTAACCCTTCTTCAAAG
* *
904358 CCTACACAAGTCGATGGTAACTCTTCT
1 CC-ACACAAGTCGGTGGTAACCCTTCT
904385 AAGTCCGATG
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
31 26 0.53
32 4 0.08
33 19 0.39
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (32 bp):
CCACACAAGTCGGTGGTAACCCTTCTTCAAAG
Found at i:905227 original size:9 final size:9
Alignment explanation
Indices: 905210--905288 Score: 71
Period size: 9 Copynumber: 9.4 Consensus size: 9
905200 TATTCGATAT
*
905210 AAAACCAAA
1 AAAATCAAA
905219 AAAATCAAA
1 AAAATCAAA
*
905228 AAGATCAAA
1 AAAATCAAA
905237 AAAAT---A
1 AAAATCAAA
**
905243 AAAATCATC
1 AAAATCAAA
905252 AAAATCAAA
1 AAAATCAAA
905261 AAAATC-AA
1 AAAATCAAA
*
905269 AAAAT-AAT
1 AAAATCAAA
905277 AAAAT-AAA
1 AAAATCAAA
905285 AAAA
1 AAAA
905289 AACGTGAAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
6 6 0.10
8 19 0.33
9 33 0.57
ACGTcount: A:0.76, C:0.10, G:0.01, T:0.13
Consensus pattern (9 bp):
AAAATCAAA
Found at i:905238 original size:18 final size:17
Alignment explanation
Indices: 905217--905287 Score: 69
Period size: 15 Copynumber: 4.4 Consensus size: 17
905207 TATAAAACCA
*
905217 AAAAAATCAAAAAGATC
1 AAAAAATCAAAAAAATC
*
905234 AAAAAA--ATAAAAATC
1 AAAAAATCAAAAAAATC
*
905249 ATCAAAATCAAAAAAATC
1 A-AAAAATCAAAAAAATC
*
905267 AAAAAAT-AATAAAAT-
1 AAAAAATCAAAAAAATC
905282 AAAAAA
1 AAAAAA
905288 AAACGTGAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
15 14 0.31
16 11 0.24
17 11 0.24
18 9 0.20
ACGTcount: A:0.76, C:0.08, G:0.01, T:0.14
Consensus pattern (17 bp):
AAAAAATCAAAAAAATC
Found at i:905245 original size:24 final size:25
Alignment explanation
Indices: 905218--905289 Score: 78
Period size: 24 Copynumber: 2.9 Consensus size: 25
905208 ATAAAACCAA
905218 AAAAATCA-AAAAGATCAAAAAAAT-
1 AAAAATCATAAAA-ATCAAAAAAATC
*
905242 AAAAATCATCAAAATCAAAAAAATC
1 AAAAATCATAAAAATCAAAAAAATC
* *
905267 AAAAAATAAT-AAAATAAAAAAAA
1 -AAAAATCATAAAAATCAAAAAAA
905290 ACGTGAAATG
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
24 19 0.45
25 15 0.36
26 8 0.19
ACGTcount: A:0.76, C:0.08, G:0.01, T:0.14
Consensus pattern (25 bp):
AAAAATCATAAAAATCAAAAAAATC
Found at i:905701 original size:96 final size:96
Alignment explanation
Indices: 905496--905737 Score: 346
Period size: 98 Copynumber: 2.5 Consensus size: 96
905486 GGTGGCAGAC
** * *
905496 AAAGCAACATGGAGCAAATGATGAAAAAAAGCATAGGCAGCTACAACAGACAGCATCACAGCAAA
1 AAAGCAATGTGGAGCAAATGATGAAAAAGAGCATAGGCAGCTGCAACAGACAGCATCACAGCAAA
905561 GAAGAATGGAGGCAACGTGAAGCAACCATAGCT
66 GAAG-A-GGAGGCAACGTGAAGCAACCATAGCT
* * *
905594 AAAGCAATGTGGGGCAAATGATGAAGAAGAGCATAGGCAAGCTGCAACAGACAGCATCATAGCAA
1 AAAGCAATGTGGAGCAAATGATGAAAAAGAGCATAGGC-AGCTGCAACAGACAGCATCACAGCAA
905659 AGAAG-GG-GGCAACGTGAAGCAACCCATAGCT
65 AGAAGAGGAGGCAACGTGAAGCAA-CCATAGCT
* *
905690 AAAGCAATGTGGAGCAAATGAT-AAAAAGAGCATGGGTAGCTGCAACAG
1 AAAGCAATGTGGAGCAAATGATGAAAAAGAGCATAGGCAGCTGCAACAG
905738 CAAAAAAAGG
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
94 11 0.08
95 27 0.21
96 31 0.24
98 33 0.25
99 29 0.22
ACGTcount: A:0.44, C:0.18, G:0.27, T:0.12
Consensus pattern (96 bp):
AAAGCAATGTGGAGCAAATGATGAAAAAGAGCATAGGCAGCTGCAACAGACAGCATCACAGCAAA
GAAGAGGAGGCAACGTGAAGCAACCATAGCT
Found at i:906028 original size:19 final size:20
Alignment explanation
Indices: 906004--906045 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
905994 TCGCAACAAA
906004 CAGCAAGCAAC-AGAAAAAC
1 CAGCAAGCAACGAGAAAAAC
*
906023 CAGCAAGCAACGTGAAAAAC
1 CAGCAAGCAACGAGAAAAAC
906043 CAG
1 CAG
906046 TAGTGATAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.52, C:0.26, G:0.19, T:0.02
Consensus pattern (20 bp):
CAGCAAGCAACGAGAAAAAC
Found at i:909360 original size:13 final size:13
Alignment explanation
Indices: 909319--909353 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
909309 AACTATTGGA
*
909319 ATAATATTTTATT
1 ATAATATTATATT
*
909332 ATTATATTATATT
1 ATAATATTATATT
909345 ATAATATTA
1 ATAATATTA
909354 ATATATATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
ATAATATTATATT
Found at i:910387 original size:22 final size:23
Alignment explanation
Indices: 910351--910406 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
910341 ATCATAGGTT
* *
910351 TAAAATATTAATTATTGA-AATTA
1 TAAAAAATTATTTATT-ATAATTA
*
910374 T-TAAAATTATTTATTATAATTA
1 TAAAAAATTATTTATTATAATTA
910396 TAAAAAATTAT
1 TAAAAAATTAT
910407 ACAAAGTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 1 0.04
22 17 0.63
23 9 0.33
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
TAAAAAATTATTTATTATAATTA
Found at i:910960 original size:16 final size:17
Alignment explanation
Indices: 910895--910978 Score: 68
Period size: 16 Copynumber: 4.8 Consensus size: 17
910885 AAAAATTTTA
*
910895 ATAAAATATTAAT-TTAT
1 ATAAAATA-TAATATAAT
910912 -TAAAAT-TAATATAAAT
1 ATAAAATATAATAT-AAT
910928 ATAAAATATTTTAAATATAAT
1 ATAAAATA---T-AATATAAT
910949 -TAAAATATAATATAAT
1 ATAAAATATAATATAAT
910965 ATATAAATATAATA
1 ATA-AAATATAATA
910979 CGATCAACAC
Statistics
Matches: 56, Mismatches: 1, Indels: 19
0.74 0.01 0.25
Matches are distributed among these distances:
14 4 0.07
15 1 0.02
16 16 0.29
17 9 0.16
18 10 0.18
20 7 0.12
21 4 0.07
22 5 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATAAAATATAATATAAT
Found at i:913951 original size:12 final size:12
Alignment explanation
Indices: 913930--913964 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
913920 TCAGTGAAAG
913930 CCCTCTCTCTCT
1 CCCTCTCTCTCT
*
913942 CCCTCCCTCTCT
1 CCCTCTCTCTCT
*
913954 CTCTCTCTCTC
1 CCCTCTCTCTC
913965 ATGCATGCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (12 bp):
CCCTCTCTCTCT
Found at i:914069 original size:2 final size:2
Alignment explanation
Indices: 914062--914090 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
914052 CCTTAATACC
914062 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
914091 ATGCATGCAT
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:914155 original size:122 final size:124
Alignment explanation
Indices: 913936--914176 Score: 371
Period size: 126 Copynumber: 1.9 Consensus size: 124
913926 AAAGCCCTCT
*
913936 CTCTCTCCCTCCCTCTCTCTCTCTCTCTCATGCATGCATGCGCTTGTGCCTACCCTGATAAAACC
1 CTCTCTCCCTCCCTCTCTCTCTCTCTCTCATGCATGCATGCGCTTGTGCCTACCCCGAT-AAA-C
* * *
914001 TCCTGGCACAGCAAATTCCAGCTTGTTTTGCTCAGCATACAATGAAACAACCCTTAATACC
64 GCCTGGCACAGCAAATTCCAGCTTGCTATGCTCAGCATACAATGAAACAACCCTTAATACC
* *
914062 CTCTCTCTCTCTCTCTCTCTCTCTCTCTCATGCATGCATGCAG-TTGTGCCTACCCCGAT-AA-G
1 CTCTCTCCCTCCCTCTCTCTCTCTCTCTCATGCATGCATGC-GCTTGTGCCTACCCCGATAAACG
*
914124 CCTGGCACAGCAATTTCCAGCTTGCTATGCTCAGCATACAATGAAACAACCCT
65 CCTGGCACAGCAAATTCCAGCTTGCTATGCTCAGCATACAATGAAACAACCCT
914177 CGATACGATT
Statistics
Matches: 107, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
122 50 0.47
124 2 0.02
126 54 0.50
127 1 0.01
ACGTcount: A:0.22, C:0.36, G:0.13, T:0.29
Consensus pattern (124 bp):
CTCTCTCCCTCCCTCTCTCTCTCTCTCTCATGCATGCATGCGCTTGTGCCTACCCCGATAAACGC
CTGGCACAGCAAATTCCAGCTTGCTATGCTCAGCATACAATGAAACAACCCTTAATACC
Found at i:915050 original size:3 final size:3
Alignment explanation
Indices: 915042--915091 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
915032 GTTAATTATG
915042 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
915090 TT
1 TT
915092 TAGAAAAAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:915385 original size:3 final size:3
Alignment explanation
Indices: 915379--915426 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
915369 TTTCATGATG
915379 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
915427 GTTGTTATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:922498 original size:2 final size:2
Alignment explanation
Indices: 922486--922522 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
922476 TCTATATGTG
*
922486 TA TA CA 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
922523 TTAAGATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:923716 original size:20 final size:21
Alignment explanation
Indices: 923693--923734 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
923683 TATAAAAATA
* *
923693 TAATATATTTAATAA-ACATG
1 TAATATAATAAATAAGACATG
923713 TAATATAATAAATAAGACATG
1 TAATATAATAAATAAGACATG
923734 T
1 T
923735 TTATAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36
Consensus pattern (21 bp):
TAATATAATAAATAAGACATG
Found at i:923746 original size:20 final size:19
Alignment explanation
Indices: 923702--923750 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
923692 ATAATATATT
923702 TAATAAACATGTAATATAA
1 TAATAAACATGTAATATAA
*
923721 TAAATAAGACATGT-TTATAAA
1 T-AATAA-ACATGTAATAT-AA
923742 TAATAAACA
1 TAATAAACA
923751 CGATTAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 4 0.15
20 13 0.50
21 9 0.35
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (19 bp):
TAATAAACATGTAATATAA
Found at i:924666 original size:13 final size:14
Alignment explanation
Indices: 924623--924667 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
924613 TATAAATTTG
924623 TTTTTATTAATAAA
1 TTTTTATTAATAAA
*
924637 -TTATA-TAATAAA
1 TTTTTATTAATAAA
*
924649 ATTTTATTAA-AAA
1 TTTTTATTAATAAA
924662 TTTTTA
1 TTTTTA
924668 AAAATAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
12 7 0.27
13 16 0.62
14 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTTTATTAATAAA
Done.