Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold400
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: 2847997
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 6 of 17
Found at i:805438 original size:15 final size:16
Alignment explanation
Indices: 805398--805449 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
805388 ATCAAAATTT
*
805398 ATATAAATATATATTTTA
1 ATATAAATA-A-ATATTA
*
805416 AAATAAATAAATA-TA
1 ATATAAATAAATATTA
*
805431 ATATAAATATATATTA
1 ATATAAATAAATATTA
805447 ATA
1 ATA
805450 AATCTAAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 13 0.45
16 7 0.24
17 1 0.03
18 8 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATAAATAAATATTA
Found at i:805989 original size:18 final size:18
Alignment explanation
Indices: 805966--806003 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
805956 TATTATTTTT
*
805966 TTAATTTCATA-AAAATAA
1 TTAATTTAATATAAAA-AA
805984 TTAATTTAATATAAAAAA
1 TTAATTTAATATAAAAAA
806002 TT
1 TT
806004 TTTAGTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
TTAATTTAATATAAAAAA
Found at i:806212 original size:21 final size:21
Alignment explanation
Indices: 806186--806225 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
806176 ATTAATGTAT
* *
806186 TAAAAAATAATTAATAAAAAA
1 TAAAAAATAAATAAGAAAAAA
806207 TAAAAAATAAATAAGAAAA
1 TAAAAAATAAATAAGAAAA
806226 TAACTAATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (21 bp):
TAAAAAATAAATAAGAAAAAA
Found at i:806303 original size:44 final size:44
Alignment explanation
Indices: 806253--806388 Score: 263
Period size: 44 Copynumber: 3.1 Consensus size: 44
806243 TTTAACATAT
*
806253 TTAACATCTTTTAAGACCTAATGTTTAAGTCTAAAGTTTAGAGA
1 TTAACATCTTTTAAGACCTAATGTTTAAGCCTAAAGTTTAGAGA
806297 TTAACATCTTTTAAGACCTAATGTTTAAGCCTAAAGTTTAGAGA
1 TTAACATCTTTTAAGACCTAATGTTTAAGCCTAAAGTTTAGAGA
806341 TTAACATCTTTTAAGACCTAATGTTTAAGCCTAAAGTTTAGAGA
1 TTAACATCTTTTAAGACCTAATGTTTAAGCCTAAAGTTTAGAGA
806385 TTAA
1 TTAA
806389 AATGAAAAAA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
44 91 1.00
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (44 bp):
TTAACATCTTTTAAGACCTAATGTTTAAGCCTAAAGTTTAGAGA
Found at i:806335 original size:13 final size:13
Alignment explanation
Indices: 806306--806380 Score: 51
Period size: 13 Copynumber: 5.3 Consensus size: 13
806296 ATTAACATCT
*
806306 TTTAAGACCTAATG
1 TTTAAG-CCTAAAG
806320 TTTAAGCCTAAAG
1 TTTAAGCCTAAAG
** *
806333 TTTAGAGATTAACATCT
1 TTTA-AGCCTAA-A--G
*
806350 TTTAAGACCTAATG
1 TTTAAG-CCTAAAG
806364 TTTAAGCCTAAAG
1 TTTAAGCCTAAAG
806377 TTTA
1 TTTA
806381 GAGATTAAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 11
0.70 0.13 0.16
Matches are distributed among these distances:
13 20 0.43
14 17 0.36
15 1 0.02
16 2 0.04
17 7 0.15
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.37
Consensus pattern (13 bp):
TTTAAGCCTAAAG
Found at i:806624 original size:21 final size:22
Alignment explanation
Indices: 806580--806625 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
806570 AATTTTAAAA
* **
806580 AATAAATTATTTACATTTCTTT
1 AATAAATTATATACATTTAATT
806602 AATAAA-TATATACATTTAATT
1 AATAAATTATATACATTTAATT
806623 AAT
1 AAT
806626 GTTAGTAAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.48
Consensus pattern (22 bp):
AATAAATTATATACATTTAATT
Found at i:810206 original size:22 final size:21
Alignment explanation
Indices: 810181--810221 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
810171 AATAAAAAAT
810181 TATTTT-TATATTAATATTTATG
1 TATTTTGTA-ATTAA-ATTTATG
810203 TATTTTGTAATTAAATTTA
1 TATTTTGTAATTAAATTTA
810222 ATAAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 11 0.61
23 2 0.11
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (21 bp):
TATTTTGTAATTAAATTTATG
Found at i:810292 original size:21 final size:21
Alignment explanation
Indices: 810266--810307 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
810256 AAGTTAAGTC
810266 GAGCCTATTAAACTAAGCAAA
1 GAGCCTATTAAACTAAGCAAA
810287 GAGCCTATTAAACTAAGCAAA
1 GAGCCTATTAAACTAAGCAAA
810308 TAGCTCGGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.19, G:0.14, T:0.19
Consensus pattern (21 bp):
GAGCCTATTAAACTAAGCAAA
Found at i:811424 original size:30 final size:30
Alignment explanation
Indices: 811384--811458 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
811374 TATCCTTTCA
*
811384 TTTGGATCAATTT-GAC-CCTATGCATTTTATC
1 TTTGG-TCAATTTAGACACC-ATGC-TATTATC
*
811415 TTTGGTCAATTTAGACACCATGCTATTATT
1 TTTGGTCAATTTAGACACCATGCTATTATC
*
811445 TTTGATCAATTTAG
1 TTTGGTCAATTTAG
811459 CTTCAATTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
30 25 0.64
31 12 0.31
32 2 0.05
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (30 bp):
TTTGGTCAATTTAGACACCATGCTATTATC
Found at i:815989 original size:2 final size:2
Alignment explanation
Indices: 815982--816023 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
815972 GTATTTAAAG
815982 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
816023 T
1 T
816024 TGATAATGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:816277 original size:2 final size:2
Alignment explanation
Indices: 816270--816298 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
816260 AACTTTGCCA
816270 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
816299 AATTAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:817656 original size:19 final size:19
Alignment explanation
Indices: 817634--817677 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
817624 AAAATAATCC
817634 ATTAAAAACATATTAAAT-T
1 ATTAAAAA-ATATTAAATAT
*
817653 ATTAATAAATATTAAATAT
1 ATTAAAAAATATTAAATAT
817672 ATTAAA
1 ATTAAA
817678 TTATTTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTAAAAAATATTAAATAT
Found at i:823000 original size:21 final size:21
Alignment explanation
Indices: 822976--823018 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
822966 ATGATATTTT
822976 TTTTTAAT-TTTTAAAGAATAA
1 TTTTTAATCTTTTAAA-AATAA
* *
822997 TTTTTCATCTTTTGAAAATAA
1 TTTTTAATCTTTTAAAAATAA
823018 T
1 T
823019 AACTAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (21 bp):
TTTTTAATCTTTTAAAAATAA
Found at i:823650 original size:15 final size:16
Alignment explanation
Indices: 823619--823653 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
823609 ATTTGAATAA
823619 AAAATAACTCAAAACT
1 AAAATAACTCAAAACT
823635 AAAATAACTC-AAACT
1 AAAATAACTCAAAACT
823650 AAAA
1 AAAA
823654 AATAATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAATAACTCAAAACT
Found at i:827021 original size:18 final size:17
Alignment explanation
Indices: 827000--827104 Score: 55
Period size: 16 Copynumber: 6.4 Consensus size: 17
826990 CAATAATTTG
* *
827000 AATATAATTATTAATATA
1 AATATAAATA-TAATATT
*
827018 AATAT-AATATAAAATAT
1 AATATAAATATAATAT-T
827035 AAT-TAAAATATAAT-TT
1 AATAT-AAATATAATATT
*
827051 AATATAAAAATAA-A-T
1 AATATAAATATAATATT
*
827066 AA-ATAAATA-AAAATT
1 AATATAAATATAATATT
*
827081 TATAT-AATATAAATTATT
1 AATATAAATAT-AA-TATT
827099 AATATA
1 AATATA
827105 TTAAAATTTA
Statistics
Matches: 66, Mismatches: 9, Indels: 23
0.67 0.09 0.23
Matches are distributed among these distances:
13 2 0.03
14 7 0.11
15 9 0.14
16 19 0.29
17 10 0.15
18 19 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AATATAAATATAATATT
Found at i:827052 original size:12 final size:12
Alignment explanation
Indices: 827017--827052 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
827007 TTATTAATAT
*
827017 AAATATAATATA
1 AAATATAATTTA
827029 AAATATAA-TTA
1 AAATATAATTTA
827040 AAATATAATTTA
1 AAATATAATTTA
827052 A
1 A
827053 TATAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
AAATATAATTTA
Found at i:827075 original size:28 final size:28
Alignment explanation
Indices: 827022--827075 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
827012 AATATAAATA
* *
827022 TAATATAAAATATAATTAAAATATAATT
1 TAATATAAAATATAAATAAAAAATAATT
827050 TAATATAAAA-ATAAATAAATAAATAA
1 TAATATAAAATATAAATAAA-AAATAA
827076 AAATTTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (28 bp):
TAATATAAAATATAAATAAAAAATAATT
Found at i:827126 original size:15 final size:15
Alignment explanation
Indices: 827068--827126 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 15
827058 AAATAAATAA
827068 ATAAATAAAAATTTAT
1 ATAAAT-AAAATTTAT
*
827084 ATAATATAAATTATTA-
1 ATAA-ATAAAAT-TTAT
*
827100 ATATATTAAAATTTAT
1 ATA-AATAAAATTTAT
827116 ATAAATAAAAT
1 ATAAATAAAAT
827127 GTGATATGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
15 10 0.29
16 19 0.54
17 6 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAAATAAAATTTAT
Found at i:827931 original size:24 final size:22
Alignment explanation
Indices: 827885--827945 Score: 97
Period size: 24 Copynumber: 2.7 Consensus size: 22
827875 GGACACTAGC
827885 TTGAACTCATAAG-AAATATGT
1 TTGAACTCATAAGTAAATATGT
827906 TTGAACTCATAAGTTATAATATGT
1 TTGAACTCATAAG-TA-AATATGT
827930 TTGAACTCATAAGTAA
1 TTGAACTCATAAGTAA
827946 TGCTTATTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
21 13 0.35
22 1 0.03
23 3 0.08
24 20 0.54
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (22 bp):
TTGAACTCATAAGTAAATATGT
Found at i:827983 original size:18 final size:19
Alignment explanation
Indices: 827952--827990 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
827942 GTAATGCTTA
827952 TTTAACATTAAAAA-TATT
1 TTTAACATTAAAAATTATT
* *
827970 TTTAATATTTAAAATTATT
1 TTTAACATTAAAAATTATT
827989 TT
1 TT
827991 AATTAAAGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTAACATTAAAAATTATT
Found at i:828949 original size:34 final size:33
Alignment explanation
Indices: 828856--828952 Score: 92
Period size: 35 Copynumber: 2.8 Consensus size: 33
828846 AATCTTCTTG
828856 TTATTTAAATAATAAAA-AAATATTTTTATTTAAAT
1 TTATTTAAATAATAAAATAAA-A-TTTT-TTTAAAT
* *
828891 TTAATTAAA-AATATTAATATAAATTTTTTT-AAT
1 TTATTTAAATAATA-AAATA-AAATTTTTTTAAAT
828924 ATTATTTTAAATAATAAAATAAAATTTTT
1 -TTA-TTTAAATAATAAAATAAAATTTTT
828953 AATCCATTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
33 3 0.06
34 18 0.35
35 23 0.44
36 6 0.12
37 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (33 bp):
TTATTTAAATAATAAAATAAAATTTTTTTAAAT
Found at i:829604 original size:19 final size:18
Alignment explanation
Indices: 829577--829625 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
829567 ACTGATTATG
*
829577 ATAAAAATTATATTTATAA
1 ATAAAAATTATATATAT-A
* *
829596 ATAATAATTAAATATATA
1 ATAAAAATTATATATATA
829614 ATAAAAATTATA
1 ATAAAAATTATA
829626 AAATAAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATAAAAATTATATATATA
Found at i:829941 original size:30 final size:28
Alignment explanation
Indices: 829893--829976 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 28
829883 CATTCGATTA
*
829893 TTTATTTAATTTAAATTTTAAATATAAT-TT
1 TTTATTTAAATT-AATTTTAAA-A-AATATT
829923 TTTAATTTAAATTAATTTTACAAAAATATT
1 TTT-ATTTAAATTAATTTTA-AAAAATATT
*
829953 TTTATTTAAATTTAATTATAAAAA
1 TTTATTTAAA-TTAATTTTAAAAA
829977 TATAAATATT
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
29 14 0.29
30 24 0.50
31 10 0.21
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (28 bp):
TTTATTTAAATTAATTTTAAAAAATATT
Found at i:831546 original size:13 final size:12
Alignment explanation
Indices: 831529--831563 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
831519 TTTTTAAATA
831529 ATTATATTTAAT
1 ATTATATTTAAT
831541 ATTTATATTTAAT
1 A-TTATATTTAAT
831554 A-TATATTTAA
1 ATTATATTTAA
831564 ATATAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 9 0.41
12 1 0.05
13 12 0.55
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
ATTATATTTAAT
Found at i:831591 original size:39 final size:39
Alignment explanation
Indices: 831538--831641 Score: 99
Period size: 38 Copynumber: 2.6 Consensus size: 39
831528 AATTATATTT
* *
831538 AATAT-TTATATTTAATATATATTTAAATA-TAAATATAAA
1 AATATATT-TATTTAATATATATTTAAAAATTAAAAAT-AA
**
831577 AATATAATTT-TTTAA-ATATATAAAAAAATTAAAAATAA
1 AATAT-ATTTATTTAATATATATTTAAAAATTAAAAATAA
831615 AATATATTTATATTAAATATATATTTA
1 AATATATTTAT-TT-AATATATATTTA
831642 TATTTAATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
37 4 0.08
38 18 0.35
39 18 0.35
40 3 0.06
41 9 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (39 bp):
AATATATTTATTTAATATATATTTAAAAATTAAAAATAA
Found at i:831638 original size:17 final size:17
Alignment explanation
Indices: 831612--831651 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
831602 AAATTAAAAA
831612 TAAA-ATATATTTATAT
1 TAAATATATATTTATAT
831628 TAAATATATATTTATAT
1 TAAATATATATTTATAT
*
831645 TTAATAT
1 TAAATAT
831652 TCATTCGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TAAATATATATTTATAT
Found at i:832970 original size:32 final size:28
Alignment explanation
Indices: 832910--832974 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 28
832900 GAATTTTAAA
* *
832910 TTTATTTATTAAATATTTTTAAATAAAT
1 TTTATTAATTAAATATTTTTAAAAAAAT
832938 TTTATTAATTATAATATTATTTAATTAAAAAT
1 TTTATTAATTA-AATATT-TTTAA--AAAAAT
832970 TTTAT
1 TTTAT
832975 AAATATTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 10 0.32
29 6 0.19
30 5 0.16
32 10 0.32
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
TTTATTAATTAAATATTTTTAAAAAAAT
Found at i:833399 original size:2 final size:2
Alignment explanation
Indices: 833392--833418 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
833382 TCGAGTTTGG
833392 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
833419 GAACTGACCA
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:836963 original size:14 final size:14
Alignment explanation
Indices: 836934--836969 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
836924 GGGCTAATCG
*
836934 ATTTATTTTATTTTT
1 ATTTA-TTTATATTT
836949 ATTTATTTATATTT
1 ATTTATTTATATTT
836963 ATTTATT
1 ATTTATT
836970 AAGTTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (14 bp):
ATTTATTTATATTT
Found at i:836967 original size:10 final size:10
Alignment explanation
Indices: 836934--836968 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
836924 GGGCTAATCG
836934 ATTTAT-TTT
1 ATTTATATTT
*
836943 ATTTTTATTT
1 ATTTATATTT
836953 ATTTATATTT
1 ATTTATATTT
836963 ATTTAT
1 ATTTAT
836969 TAAGTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 5 0.22
10 18 0.78
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTATATTT
Found at i:841739 original size:3 final size:3
Alignment explanation
Indices: 841731--841771 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
841721 TTTGAAACAA
841731 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
841772 AATCTTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:842948 original size:17 final size:18
Alignment explanation
Indices: 842906--842949 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
842896 TATATAAATA
842906 TAAATATAATAAAATTAT
1 TAAATATAATAAAATTAT
*
842924 TAAATATATTAAAATT-T
1 TAAATATAATAAAATTAT
*
842941 TTAATATAA
1 TAAATATAA
842950 ATATAATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAATATAATAAAATTAT
Found at i:843500 original size:15 final size:15
Alignment explanation
Indices: 843480--843511 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
843470 ATAGATAATC
843480 TATAAATATTACTAT
1 TATAAATATTACTAT
843495 TATAAATATTACTAT
1 TATAAATATTACTAT
843510 TA
1 TA
843512 ACTTGAAGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (15 bp):
TATAAATATTACTAT
Found at i:845718 original size:15 final size:16
Alignment explanation
Indices: 845689--845766 Score: 52
Period size: 15 Copynumber: 4.6 Consensus size: 16
845679 AAATTTATAT
845689 AATATT-AATTATTAA
1 AATATTAAATTATTAA
*
845704 GATATTAAATT-TTAA
1 AATATTAAATTATTAA
* *
845719 AATATAAAATATTTTAA
1 AATATTAAAT-TATTAA
*
845736 ATATGATTATAATATAATAA
1 A-AT-ATTA-AAT-TATTAA
845756 AATATATAAAT
1 AATAT-TAAAT
845767 ATAATATGAA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
15 17 0.34
16 5 0.10
17 5 0.10
18 7 0.14
19 7 0.14
20 9 0.18
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
AATATTAAATTATTAA
Found at i:845734 original size:17 final size:17
Alignment explanation
Indices: 845712--845768 Score: 51
Period size: 20 Copynumber: 3.1 Consensus size: 17
845702 AAGATATTAA
845712 ATTTTAAAATATAAAAT
1 ATTTTAAAATATAAAAT
*
845729 ATTTTAAATATGATTATAAT
1 ATTTTAAA-AT-A-TAAAAT
**
845749 ATAATAAAATATATAAAT
1 ATTTTAAAATATA-AAAT
845767 AT
1 AT
845769 AATATGAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
17 10 0.31
18 8 0.25
19 3 0.09
20 11 0.34
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
ATTTTAAAATATAAAAT
Found at i:845760 original size:21 final size:18
Alignment explanation
Indices: 845716--845772 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
845706 TATTAAATTT
*
845716 TAAAATATA-AAATAT-T
1 TAAAATATATAAATATAA
*
845732 TTAAATATGATTATAATATAA
1 TAAAATAT-A-TA-AATATAA
845753 TAAAATATATAAATATAA
1 TAAAATATATAAATATAA
845771 TA
1 TA
845773 TGAATACACG
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
16 7 0.21
17 1 0.03
18 9 0.27
19 3 0.09
20 6 0.18
21 7 0.21
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (18 bp):
TAAAATATATAAATATAA
Found at i:845778 original size:29 final size:30
Alignment explanation
Indices: 845722--845778 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
845712 ATTTTAAAAT
* *
845722 ATAAAATATTTTAAATATGATTATAATATA
1 ATAAAATATTATAAATATGAATATAATATA
845752 ATAAAATA-TATAAATAT-AATATGAATA
1 ATAAAATATTATAAATATGAATAT-AATA
845779 CACGATACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.17
29 12 0.50
30 8 0.33
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.39
Consensus pattern (30 bp):
ATAAAATATTATAAATATGAATATAATATA
Found at i:846280 original size:19 final size:20
Alignment explanation
Indices: 846239--846296 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 20
846229 TTTAAGTTTA
** *
846239 ATTTAAAATTATATTTTATT
1 ATTTAAAATTATATTAAAAT
846259 ATTTAAAA-TATATTAAAAT
1 ATTTAAAATTATATTAAAAT
*
846278 ATTAAAAAAATTATATTAA
1 ATT--TAAAATTATATTAA
846297 TATTTATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 11 0.35
20 8 0.26
21 4 0.13
22 8 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTTAAAATTATATTAAAAT
Found at i:847292 original size:2 final size:2
Alignment explanation
Indices: 847285--847328 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
847275 CTTTACAAAT
847285 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
847327 TA
1 TA
847329 AGAAATTAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:848289 original size:10 final size:10
Alignment explanation
Indices: 848274--848315 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
848264 ATAAAATTAA
848274 TTTTATATAT
1 TTTTATATAT
848284 TTTTATA-AT
1 TTTTATATAT
848293 TTTTATATTAT
1 TTTTATA-TAT
* *
848304 TTATATTTAT
1 TTTTATATAT
848314 TT
1 TT
848316 AATTTGATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 9 0.32
10 12 0.43
11 7 0.25
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTATATAT
Found at i:848311 original size:17 final size:18
Alignment explanation
Indices: 848271--848308 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
848261 AAAATAAAAT
848271 TAATTTTATATATTTTTA
1 TAATTTTATATATTTTTA
848289 TAATTTT-TATATTATTTA
1 TAATTTTATATATT-TTTA
848307 TA
1 TA
848309 TTTATTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TAATTTTATATATTTTTA
Found at i:848316 original size:10 final size:9
Alignment explanation
Indices: 848274--848320 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
848264 ATAAAATTAA
848274 TTTTATATAT
1 TTTTATAT-T
*
848284 TTTTATAAT
1 TTTTATATT
848293 TTTTATATT
1 TTTTATATT
*
848302 ATTTATATT
1 TTTTATATT
848311 TATTTA-ATT
1 T-TTTATATT
848320 T
1 T
848321 GATCATCATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
9 21 0.66
10 11 0.34
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTATATT
Found at i:850593 original size:20 final size:20
Alignment explanation
Indices: 850556--850598 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
850546 AAAGACTTAG
*
850556 ATAATATTAAATATAATATGA
1 ATAATATTAAATAAAATAT-A
*
850577 ATAA-ATTAATTAAAATATA
1 ATAATATTAAATAAAATATA
850596 ATA
1 ATA
850599 TTATATGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 12 0.60
21 4 0.20
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
ATAATATTAAATAAAATATA
Found at i:850599 original size:30 final size:29
Alignment explanation
Indices: 850565--850671 Score: 85
Period size: 30 Copynumber: 3.5 Consensus size: 29
850555 GATAATATTA
*
850565 AATATAATATGAATAAATTAATTAAAATAT
1 AATATAATATAAATAAATT-ATTAAAATAT
* *
850595 AATATTATATGAAGTAATATT-TTAAAAT-T
1 AATATAATAT-AAATAA-ATTATTAAAATAT
*
850624 TATATAAATATAAAATAAA-TATTAAAATAATT
1 AATAT-AATAT-AAATAAATTATTAAAAT-A-T
850656 AAATATAATATAAATA
1 -AATATAATATAAATA
850672 TATAAATTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 15
0.73 0.10 0.18
Matches are distributed among these distances:
28 1 0.02
29 13 0.21
30 25 0.41
31 9 0.15
32 9 0.15
33 4 0.07
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (29 bp):
AATATAATATAAATAAATTATTAAAATAT
Found at i:850658 original size:27 final size:27
Alignment explanation
Indices: 850628--850686 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
850618 AAAATTTATA
850628 TAAATATAAAATAAATAT-TAAAATAAT
1 TAAATATAAAATAAATATAT-AAATAAT
* *
850655 TAAATATAATATAAATATATAAATTAT
1 TAAATATAAAATAAATATATAAATAAT
850682 TAAAT
1 TAAAT
850687 CATGTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (27 bp):
TAAATATAAAATAAATATATAAATAAT
Found at i:850671 original size:11 final size:11
Alignment explanation
Indices: 850625--850673 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
850615 TTTAAAATTT
850625 ATATAAATATAA
1 ATAT-AATATAA
850637 A-ATAAATATTAA
1 ATAT-AATA-TAA
850649 A-ATAAT-TAA
1 ATATAATATAA
850658 ATATAATATAA
1 ATATAATATAA
850669 ATATA
1 ATATA
850674 TAAATTATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
9 4 0.12
10 5 0.15
11 18 0.53
12 7 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
ATATAATATAA
Found at i:855886 original size:18 final size:17
Alignment explanation
Indices: 855855--855888 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
855845 TAGTATGAAT
*
855855 GAATTAAATTAAAAATC
1 GAATTAAATAAAAAATC
855872 GAATCTAAATAAAAAAT
1 GAAT-TAAATAAAAAAT
855889 TTAATTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (17 bp):
GAATTAAATAAAAAATC
Found at i:856970 original size:19 final size:18
Alignment explanation
Indices: 856903--856968 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 18
856893 TATCTTGATA
856903 TTATATT-TATATCATTTT
1 TTATATTATATAT-ATTTT
*
856921 TTCATATTATA-ATATATT
1 TT-ATATTATATATATTTT
*
856939 TTATATTATATTTAATTTT
1 TTATATTATATAT-ATTTT
856958 TTATATTATAT
1 TTATATTATAT
856969 TTTTATTAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
17 8 0.20
18 9 0.22
19 22 0.54
20 2 0.05
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATATTATATATATTTT
Found at i:857889 original size:2 final size:2
Alignment explanation
Indices: 857884--857923 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
857874 TGGCTTAGAA
857884 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
857924 CTACTGTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:863394 original size:149 final size:149
Alignment explanation
Indices: 863149--863445 Score: 513
Period size: 149 Copynumber: 2.0 Consensus size: 149
863139 TATCCCATGG
* **
863149 TAGATGAATTTAGACACATTATGAGATAAGTTCAGCCAACTTTTTAATTGTTGGAGATTAAATTA
1 TAGACGAATTTAGACACATTATGAGATAAGTTCAGCCAACTTTTTAATTGTTAAAGATTAAATTA
863214 AACCTAAAAAGTAAAGGATAGGAAGAGTTCCTATTCTAATTGGAGCTTTAGTGAGATTGAAACTT
66 AACCTAAAAAGTAAAGGATAGGAAGAGTTCCTATTCTAATTGGAGCTTTAGTGAGATTGAAACTT
863279 TAACTAGTTCCCTAAGGTA
131 TAACTAGTTCCCTAAGGTA
*
863298 TAGACGAATTTAGACACATTATGAGATAAGTTCAGCCAACTTTTTAATTGTTAAAGATTAAGTTA
1 TAGACGAATTTAGACACATTATGAGATAAGTTCAGCCAACTTTTTAATTGTTAAAGATTAAATTA
* * * *
863363 AACCTAAACAGTAAATGATAGGAAGAGTTCCTATTCTATTTGGGGCTTTAGTGAGATTGAAACTT
66 AACCTAAAAAGTAAAGGATAGGAAGAGTTCCTATTCTAATTGGAGCTTTAGTGAGATTGAAACTT
*
863428 TAACTAGTTCCTTAAGGT
131 TAACTAGTTCCCTAAGGT
863446 GTTTTGACAC
Statistics
Matches: 139, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
149 139 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.34
Consensus pattern (149 bp):
TAGACGAATTTAGACACATTATGAGATAAGTTCAGCCAACTTTTTAATTGTTAAAGATTAAATTA
AACCTAAAAAGTAAAGGATAGGAAGAGTTCCTATTCTAATTGGAGCTTTAGTGAGATTGAAACTT
TAACTAGTTCCCTAAGGTA
Found at i:863570 original size:19 final size:19
Alignment explanation
Indices: 863548--863586 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
863538 CTTGGTGTTT
863548 ATTTTC-TATGAAAAAAATA
1 ATTTTCTTA-GAAAAAAATA
*
863567 ATTTTCTTAGTAAAAAATA
1 ATTTTCTTAGAAAAAAATA
863586 A
1 A
863587 AAAGCCCCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (19 bp):
ATTTTCTTAGAAAAAAATA
Found at i:869476 original size:16 final size:16
Alignment explanation
Indices: 869430--869495 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 16
869420 TGGCATTCAA
*
869430 AAAAGTTAATGTTTAG
1 AAAAGTTATTGTTTAG
* *
869446 AAAAGTTTTTATTTAG
1 AAAAGTTATTGTTTAG
*
869462 AACAA-TTATTGTTTAC
1 AA-AAGTTATTGTTTAG
* * *
869478 AATAGTTCTTGCTTAG
1 AAAAGTTATTGTTTAG
869494 AA
1 AA
869496 TAATTGTTAC
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
15 1 0.03
16 35 0.92
17 2 0.05
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (16 bp):
AAAAGTTATTGTTTAG
Found at i:869624 original size:16 final size:16
Alignment explanation
Indices: 869605--869659 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
869595 ATTTTTTAAA
869605 AAAATAACTCTTATTC
1 AAAATAACTCTTATTC
**
869621 AAAATAACTCTTATAG
1 AAAATAACTCTTATTC
*
869637 AAAATAACT-TCTATTT
1 AAAATAACTCT-TATTC
869653 AAAATAA
1 AAAATAA
869660 TTTATATTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
15 1 0.03
16 33 0.97
ACGTcount: A:0.51, C:0.13, G:0.02, T:0.35
Consensus pattern (16 bp):
AAAATAACTCTTATTC
Found at i:869627 original size:32 final size:33
Alignment explanation
Indices: 869591--869662 Score: 78
Period size: 32 Copynumber: 2.2 Consensus size: 33
869581 TTTTACTTAG
*
869591 AATAATTTTTTA-AAAAAATAAC-TCTTATTCAA
1 AATAATTTCTTATAAAAAATAACTTC-TATTCAA
* * *
869623 AATAA-CTCTTATAGAAAATAACTTCTATTTAA
1 AATAATTTCTTATAAAAAATAACTTCTATTCAA
869655 AATAATTT
1 AATAATTT
869663 ATATTTGGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
31 4 0.12
32 25 0.78
33 3 0.09
ACGTcount: A:0.49, C:0.10, G:0.01, T:0.40
Consensus pattern (33 bp):
AATAATTTCTTATAAAAAATAACTTCTATTCAA
Found at i:869667 original size:16 final size:16
Alignment explanation
Indices: 869605--869668 Score: 51
Period size: 16 Copynumber: 4.0 Consensus size: 16
869595 ATTTTTTAAA
*
869605 AAAATAACTCT-TATTC
1 AAAATAACT-TATATTT
**
869621 AAAATAACTCT-TATAG
1 AAAATAACT-TATATTT
*
869637 AAAATAACTTCTATTT
1 AAAATAACTTATATTT
*
869653 AAAATAATTTATATTT
1 AAAATAACTTATATTT
869669 GGTATAGCTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
15 1 0.02
16 40 0.98
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.41
Consensus pattern (16 bp):
AAAATAACTTATATTT
Found at i:870437 original size:26 final size:26
Alignment explanation
Indices: 870405--870462 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 26
870395 ATAAATACAA
* *
870405 TATATTTTTAAATATTTTATATT-AAT
1 TATATTTTTAAATA-TATAAATTAAAT
870431 TATA--TTTAAATATATAAATTAAAT
1 TATATTTTTAAATATATAAATTAAAT
870455 TATATTTT
1 TATATTTT
870463 ATATAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
23 6 0.22
24 15 0.56
26 6 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
TATATTTTTAAATATATAAATTAAAT
Found at i:870441 original size:24 final size:24
Alignment explanation
Indices: 870411--870502 Score: 94
Period size: 24 Copynumber: 4.2 Consensus size: 24
870401 ACAATATATT
* *
870411 TTTAAATATTTTATATT-AATTATA
1 TTTAAATA-TATAAATTAAATTATA
870435 TTTAAATATATAAATTAAATTATA
1 TTTAAATATATAAATTAAATTATA
870459 -TT---T-TAT--A-TAAATTATA
1 TTTAAATATATAAATTAAATTATA
870475 TTTAAATATATAAATTAAATTATA
1 TTTAAATATATAAATTAAATTATA
870499 TTTA
1 TTTA
870503 TTATACTATT
Statistics
Matches: 57, Mismatches: 2, Indels: 18
0.74 0.03 0.23
Matches are distributed among these distances:
16 9 0.16
17 3 0.05
19 3 0.05
20 2 0.04
21 3 0.05
23 9 0.16
24 28 0.49
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
TTTAAATATATAAATTAAATTATA
Found at i:870444 original size:19 final size:19
Alignment explanation
Indices: 870422--870491 Score: 86
Period size: 19 Copynumber: 3.6 Consensus size: 19
870412 TTAAATATTT
*
870422 TATATTAATTATATTTAAA
1 TATATAAATTATATTTAAA
* **
870441 TATATAAATTAAATTATATTT
1 TATATAAATTATATT-TA-AA
870462 TATATAAATTATATTTAAA
1 TATATAAATTATATTTAAA
870481 TATATAAATTA
1 TATATAAATTA
870492 AATTATATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
19 24 0.57
20 4 0.10
21 14 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATATAAATTATATTTAAA
Found at i:870469 original size:16 final size:17
Alignment explanation
Indices: 870450--870491 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 17
870440 ATATATAAAT
870450 TAAATTATATTT-TATA
1 TAAATTATATTTATATA
870466 TAAATTATATTTAAATATA
1 TAAATTATATTT--ATATA
870485 TAAATTA
1 TAAATTA
870492 AATTATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 12 0.52
19 11 0.48
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAATTATATTTATATA
Found at i:870472 original size:40 final size:40
Alignment explanation
Indices: 870416--870501 Score: 163
Period size: 40 Copynumber: 2.1 Consensus size: 40
870406 ATATTTTTAA
*
870416 ATATTTTATATTAATTATATTTAAATATATAAATTAAATT
1 ATATTTTATATAAATTATATTTAAATATATAAATTAAATT
870456 ATATTTTATATAAATTATATTTAAATATATAAATTAAATT
1 ATATTTTATATAAATTATATTTAAATATATAAATTAAATT
870496 ATATTT
1 ATATTT
870502 ATTATACTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (40 bp):
ATATTTTATATAAATTATATTTAAATATATAAATTAAATT
Found at i:871214 original size:24 final size:25
Alignment explanation
Indices: 871187--871233 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
871177 GTGATAAATA
*
871187 TAATATAATTTATTTAA-ATATAAT
1 TAATATAATGTATTTAATATATAAT
871211 TAATATAATGTATTTAATATATA
1 TAATATAATGTATTTAATATATA
871234 TTATATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
TAATATAATGTATTTAATATATAAT
Found at i:872059 original size:16 final size:16
Alignment explanation
Indices: 872009--872084 Score: 66
Period size: 16 Copynumber: 4.8 Consensus size: 16
871999 CAAAGAAATT
872009 AATAA-TTAAATTTTAA
1 AATAATTTAAA-TTTAA
* *
872025 AATGATTCAAACTTT-A
1 AATAATTTAAA-TTTAA
872041 AATAATTTAAATTTAA
1 AATAATTTAAATTTAA
* * *
872057 AATTATTTATATCTAA
1 AATAATTTAAATTTAA
*
872073 AATAATTCAAAT
1 AATAATTTAAAT
872085 AAAAAATGAG
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
15 3 0.06
16 37 0.79
17 7 0.15
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.42
Consensus pattern (16 bp):
AATAATTTAAATTTAA
Found at i:872668 original size:3 final size:3
Alignment explanation
Indices: 872656--872704 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
872646 TTAATAGATT
872656 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
872703 TA
1 TA
872705 CTTATTCATG
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:872985 original size:15 final size:13
Alignment explanation
Indices: 872962--872999 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
872952 TATTCATATC
872962 TTATTTATTTTAA
1 TTATTTATTTTAA
872975 TTTATTATATTTTAA
1 -TTATT-TATTTTAA
872990 TTATTTATTT
1 TTATTTATTT
873000 ATATCAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.22
14 10 0.43
15 8 0.35
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTTATTTTAA
Found at i:873818 original size:22 final size:22
Alignment explanation
Indices: 873774--873825 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
873764 ACATAATTTA
*
873774 TTATAATAATTTAATTTTAATT
1 TTATAATAATTTAATTTAAATT
*
873796 TTATATTAATTT-ATTTAAGATT
1 TTATAATAATTTAATTTAA-ATT
*
873818 TTAAAATA
1 TTATAATA
873826 TAAAAATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TTATAATAATTTAATTTAAATT
Found at i:873887 original size:16 final size:16
Alignment explanation
Indices: 873866--873908 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
873856 TTAATAAAAT
*
873866 TTAATT-TTCAATTTAC
1 TTAATTATT-AATTTAA
873882 TTAATTATTAATTTAA
1 TTAATTATTAATTTAA
*
873898 TTAAATATTAA
1 TTAATTATTAA
873909 AAAAATTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 22 0.92
17 2 0.08
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAATTATTAATTTAA
Found at i:873947 original size:3 final size:3
Alignment explanation
Indices: 873939--873970 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
873929 AAGAATTTTA
873939 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
873971 ATTGAAAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:883133 original size:19 final size:19
Alignment explanation
Indices: 883090--883134 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
883080 ACCATAGGAA
*
883090 TTAATTCAATTTTCAATTT
1 TTAATTTAATTTTCAATTT
* * *
883109 TCAATTTAATTTTTATTTT
1 TTAATTTAATTTTCAATTT
883128 TTAATTT
1 TTAATTT
883135 TAAAAATAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (19 bp):
TTAATTTAATTTTCAATTT
Found at i:883167 original size:12 final size:12
Alignment explanation
Indices: 883134--883173 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
883124 TTTTTTAATT
883134 TTAAAAA-TAAA
1 TTAAAAATTAAA
*
883145 ATAAAATATTAAA
1 TTAAAA-ATTAAA
883158 TTAAAAATTAAA
1 TTAAAAATTAAA
883170 TTAA
1 TTAA
883174 TTAAATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 5 0.20
12 11 0.44
13 9 0.36
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TTAAAAATTAAA
Found at i:884197 original size:9 final size:9
Alignment explanation
Indices: 884174--884202 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
884164 AATTTCCAAC
884174 TTCTCTTTT
1 TTCTCTTTT
884183 TT-TCTTTT
1 TTCTCTTTT
884191 TTCTCTTTT
1 TTCTCTTTT
884200 TTC
1 TTC
884203 ATATTTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TTCTCTTTT
Found at i:884614 original size:32 final size:32
Alignment explanation
Indices: 884577--884637 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
884567 ATTTAAATTT
*
884577 AATAGTA-TATAAATGAA-TATTATTTTTAAGTA
1 AATAGTATTAAAAAT-AACTATT-TTTTTAAGTA
884609 AATAGTATTAAAAATAACTATTTTTTTAA
1 AATAGTATTAAAAATAACTATTTTTTTAA
884638 AAATTTTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
32 16 0.62
33 10 0.38
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.44
Consensus pattern (32 bp):
AATAGTATTAAAAATAACTATTTTTTTAAGTA
Found at i:884721 original size:22 final size:23
Alignment explanation
Indices: 884693--884741 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
884683 CGTTTTAAAA
884693 TTTTTAAAA-ATAATTTT-ATATT
1 TTTTTAAAATA-AATTTTAATATT
*
884715 TTTTTAAGATAAATTTTAATATT
1 TTTTTAAAATAAATTTTAATATT
884738 TTTT
1 TTTT
884742 ATTTTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
TTTTTAAAATAAATTTTAATATT
Found at i:884742 original size:22 final size:21
Alignment explanation
Indices: 884685--884742 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
884675 AATGATTTCG
* *
884685 TTTTAAAATTTTTAAAAATAA
1 TTTTAATATTTTTTAAAATAA
*
884706 TTTT-ATATTTTTTTAAGATAAA
1 TTTTAATA-TTTTTTAAAAT-AA
884728 TTTTAATATTTTTTA
1 TTTTAATATTTTTTA
884743 TTTTTTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 2 0.06
21 13 0.42
22 13 0.42
23 3 0.10
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTAATATTTTTTAAAATAA
Found at i:885026 original size:18 final size:19
Alignment explanation
Indices: 884994--885036 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
884984 TAATTTAAAG
884994 ATAATA-TAATATAAA-AA
1 ATAATATTAATATAAATAA
*
885011 ATAATATTATTATAAATAA
1 ATAATATTAATATAAATAA
885030 AT-ATATT
1 ATAATATT
885037 TAAATTAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 6 0.26
18 13 0.57
19 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAATATTAATATAAATAA
Found at i:886710 original size:19 final size:19
Alignment explanation
Indices: 886677--886743 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
886667 ATTTATTTAT
*
886677 TAAATA-AAAATGATATAA
1 TAAATATAATATGATATAA
*
886695 TAAATATAATATGATATATT
1 TAAATATAATATGATATA-A
*
886715 TAAATATAAT-TAATATAAA
1 TAAATATAATATGATAT-AA
*
886734 TTAATATAAT
1 TAAATATAAT
886744 GAATGTATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
18 6 0.15
19 24 0.59
20 11 0.27
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (19 bp):
TAAATATAATATGATATAA
Found at i:886718 original size:20 final size:19
Alignment explanation
Indices: 886674--886724 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
886664 GTAATTTATT
*
886674 TATTAAATA-AAAATGATA
1 TATTAAATATAATATGATA
*
886692 TAATAAATATAATATGATA
1 TATTAAATATAATATGATA
886711 TATTTAAATATAAT
1 TA-TTAAATATAAT
886725 TAATATAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 8 0.29
19 10 0.36
20 10 0.36
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (19 bp):
TATTAAATATAATATGATA
Found at i:886721 original size:10 final size:9
Alignment explanation
Indices: 886689--886743 Score: 56
Period size: 10 Copynumber: 5.8 Consensus size: 9
886679 AATAAAAATG
*
886689 ATATAATAA
1 ATATAATTA
*
886698 ATATAATATG
1 ATATAAT-TA
*
886708 ATATATTTAA
1 ATATAATT-A
886718 ATATAATTA
1 ATATAATTA
886727 ATATAAATTA
1 ATAT-AATTA
886737 ATATAAT
1 ATATAAT
886744 GAATGTATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
9 16 0.42
10 22 0.58
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (9 bp):
ATATAATTA
Found at i:887258 original size:9 final size:9
Alignment explanation
Indices: 887223--887270 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
887213 TGGCAGGGGG
887223 AAAGAAAGA
1 AAAGAAAGA
*
887232 CAAGTAAGAGA
1 AAAG-AA-AGA
887243 AAA-AAAGA
1 AAAGAAAGA
887251 AAAGAAAGA
1 AAAGAAAGA
*
887260 AAGGAAAGA
1 AAAGAAAGA
887269 AA
1 AA
887271 GGAAGGAGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
8 6 0.18
9 20 0.61
10 2 0.06
11 5 0.15
ACGTcount: A:0.73, C:0.02, G:0.23, T:0.02
Consensus pattern (9 bp):
AAAGAAAGA
Found at i:887271 original size:13 final size:13
Alignment explanation
Indices: 887221--887283 Score: 63
Period size: 13 Copynumber: 4.7 Consensus size: 13
887211 CTTGGCAGGG
887221 GGAAAGAAAGACAA
1 GGAAAGAAAGA-AA
* *
887235 GTAAGAGAAAAAAA
1 GGAA-AGAAAGAAA
*
887249 GAAAAGAAAGAAA
1 GGAAAGAAAGAAA
*
887262 GGAAAGAAAGGAA
1 GGAAAGAAAGAAA
*
887275 GGAGAGAAA
1 GGAAAGAAA
887284 AAAAAAAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
13 27 0.66
14 8 0.20
15 6 0.15
ACGTcount: A:0.67, C:0.02, G:0.30, T:0.02
Consensus pattern (13 bp):
GGAAAGAAAGAAA
Found at i:887361 original size:14 final size:14
Alignment explanation
Indices: 887342--887416 Score: 51
Period size: 14 Copynumber: 5.0 Consensus size: 14
887332 ATGATAAGTT
887342 TATATAATATTTTA
1 TATATAATATTTTA
* *
887356 TATATATTTTTTTA
1 TATATAATATTTTA
* *
887370 TATATTTATGTATTTA
1 TATA-TAATAT-TTTA
887386 TATTATAATTATTTTAA
1 TA-TATAA-TATTTT-A
* *
887403 TTTATTATATTTTA
1 TATATAATATTTTA
887417 ATTATTTATT
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
14 17 0.36
15 9 0.19
16 15 0.32
17 6 0.13
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (14 bp):
TATATAATATTTTA
Found at i:887361 original size:16 final size:16
Alignment explanation
Indices: 887342--887416 Score: 52
Period size: 16 Copynumber: 4.9 Consensus size: 16
887332 ATGATAAGTT
887342 TATATAATATTTTATA
1 TATATAATATTTTATA
*
887358 TATAT--TTTTTTATA
1 TATATAATATTTTATA
* *
887372 TAT-TTATGTATTTATA
1 TATATAATAT-TTTATA
887388 T-TATAATTATTTTA-A
1 TATATAA-TATTTTATA
* *
887403 TTTATTATATTTTA
1 TATATAATATTTTA
887417 ATTATTTATT
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
13 1 0.02
14 11 0.23
15 12 0.25
16 22 0.46
17 2 0.04
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (16 bp):
TATATAATATTTTATA
Found at i:887434 original size:24 final size:23
Alignment explanation
Indices: 887372--887438 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 23
887362 TTTTTTTATA
* *
887372 TATTTATGTATTTATATTATAAT
1 TATTTATTTATTTATATTTTAAT
887395 TATTTTAATTTA-TTATATTTTAAT
1 TA-TTT-ATTTATTTATATTTTAAT
887419 TATTTATTTATGTTATATTT
1 TATTTATTTAT-TTATATTT
887439 GTGTTATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
22 5 0.13
23 5 0.13
24 24 0.63
25 4 0.11
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (23 bp):
TATTTATTTATTTATATTTTAAT
Found at i:887437 original size:15 final size:15
Alignment explanation
Indices: 887349--887448 Score: 78
Period size: 15 Copynumber: 6.4 Consensus size: 15
887339 GTTTATATAA
*
887349 TATTTTATATATATT
1 TATTTTATATTTATT
* *
887364 TTTTTATATATTTATG
1 TATTT-TATATTTATT
*
887380 TA-TTTATATTATAAT
1 TATTTTATATT-TATT
887395 TATTTTA-ATTTATT
1 TATTTTATATTTATT
887409 ATATTTTAATTATTTATT
1 -TATTTT-A-TATTTATT
* *
887427 TATGTTATATTTGTGT
1 TATTTTATATTTAT-T
887443 TATTTT
1 TATTTT
887449 TTACATATTA
Statistics
Matches: 67, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
14 9 0.13
15 25 0.37
16 21 0.31
17 5 0.07
18 7 0.10
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (15 bp):
TATTTTATATTTATT
Found at i:887567 original size:15 final size:15
Alignment explanation
Indices: 887547--887592 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
887537 TATTTCGTGT
887547 TTATATTATTTTATA
1 TTATATTATTTTATA
*
887562 TTATATTTTTTTATA
1 TTATATTATTTTATA
*
887577 -TATATTGTGTTTATA
1 TTATATTAT-TTTATA
887592 T
1 T
887593 CGTATCTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 7 0.26
15 20 0.74
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (15 bp):
TTATATTATTTTATA
Found at i:888156 original size:32 final size:33
Alignment explanation
Indices: 888103--888174 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 33
888093 ATATTATAAA
*
888103 TTTATATAAATTTTTACATATTAAT-AATTTAT
1 TTTATATAAATTTTAACATATTAATCAATTTAT
* * *
888135 TTTATATAAATTTTAATATATTCATCTATTTAT
1 TTTATATAAATTTTAACATATTAATCAATTTAT
*
888168 ATTATAT
1 TTTATAT
888175 TTATATTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 22 0.65
33 12 0.35
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (33 bp):
TTTATATAAATTTTAACATATTAATCAATTTAT
Found at i:888363 original size:28 final size:26
Alignment explanation
Indices: 888319--888374 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 26
888309 TATTTAATAA
*
888319 AATTTAATTTTAAATTTATATAATTATT
1 AATTTAATTTAAAATTTATA-AA-TATT
888347 AATTTAA-TTAAATATTTATAAATATT
1 AATTTAATTTAAA-ATTTATAAATATT
888373 AA
1 AA
888375 AAGTTCTCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 6 0.23
27 6 0.23
28 14 0.54
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
AATTTAATTTAAAATTTATAAATATT
Found at i:894004 original size:16 final size:16
Alignment explanation
Indices: 893963--894007 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 16
893953 AGCATCAATT
*
893963 ACAGATTTTAGGAATC
1 ACAGTTTTTAGGAATC
*
893979 ACATATTTTTTAGGAATC
1 AC--AGTTTTTAGGAATC
893997 ACAGTTTTTAG
1 ACAGTTTTTAG
894008 CCAATCATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 10 0.42
18 14 0.58
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (16 bp):
ACAGTTTTTAGGAATC
Found at i:901594 original size:48 final size:48
Alignment explanation
Indices: 901532--901759 Score: 330
Period size: 48 Copynumber: 4.8 Consensus size: 48
901522 AGAGAAGTGC
** * **
901532 CAATGTGCCAATTCAAGGCCAACAACATCAAGCTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAAGGGAAAAGTGGA
* * *
901580 CAATGTGCTGATTCAAGGCCAGCGACATTGAGTTAAGGAAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAAGGGAAAAGTGGA
* * * *
901628 CAATGTGCTGATTTAAGGCCAGCGACATTGAGTTAAGAGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAAGGGAAAAGTGGA
* *
901676 CAATATGCTGATTCAAGGCCAATGACATTGAGCTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAAGGGAAAAGTGGA
901724 CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAA
1 CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAA
901760 TAAAGGTACC
Statistics
Matches: 161, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 161 1.00
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.20
Consensus pattern (48 bp):
CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAAGGGAAAAGTGGA
Found at i:901956 original size:28 final size:28
Alignment explanation
Indices: 901919--903102 Score: 939
Period size: 28 Copynumber: 42.5 Consensus size: 28
901909 CACCGACTTG
*
901919 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
901947 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
901975 TATGGGCTTTGAAGGGGTACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
902003 TGTGGGCTTTGAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
902031 TGTGGGCTTTGAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
902059 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
902087 TGTGGGCTTTGAATGGGTGCCACCGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
902115 TGTGGTCTTTTG-AAGAGATGCCACTGACT
1 TGTGGGC-TTTGAAAG-GGTGCCACTGACT
902144 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
902172 T-TGGGCTTTGGAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
902199 TGTGGTCTTTTG-AAGAGATGCCAATGACT
1 TGTGGGC-TTTGAAAG-GGTGCCACTGACT
902228 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
902256 TGTGGGCTTTGGAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
902284 TGTGGTCTTTTG-AAGAGATGCCACTGACT
1 TGTGGGC-TTTGAAAG-GGTGCCACTGACT
* * *
902313 TGTGGGCTTTGAAAGGGTTGGCACGGAGT
1 TGTGGGCTTTGAAAGGG-TGCCACTGACT
* * * *
902342 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * * *
902369 TGTGGACTTTAAAAGGATGCAACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
902397 TGTGGACTTTAAAAGGGTGCCAC-GAAGT
1 TGTGGGCTTTGAAAGGGTGCCACTG-ACT
* * * * * *
902425 TATGGACTTTAAAATGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
902453 TGTGGACTTTAAAAGGCTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
902481 TGTGGACTTTAAAAGGGCGCCACAGATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
902509 TGTGGAC-TTAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * **
902536 TGTGGAG--TTAAAAGGGTGCCACGGTGT
1 TGTGG-GCTTTGAAAGGGTGCCACTGACT
* * * *
902563 TATGGACTTTGAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
902591 TGTGGAC-TTAAAAGGTTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
902618 TGTGGAC-TTAAAAGGTTGCCACAGATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
902645 TGTGGAC-TTAAAAGGCTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * * * *
902672 TGTGGG-GTTAAAATGGTACAACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * ** * *
902699 TATGGACTTAAAAAGGGCTGCCACGGAGT
1 TGTGGGCTTTGAAAGGG-TGCCACTGACT
* * * * *
902728 TGTGGACTTTAAAAGGTTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * * *
902756 TGTGGAC-TTAAAAGGTTGGCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
902783 TATGGAC-TTAAAAGGTTGCCA-TGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACT-GACT
* * * * *
902810 TGTGGAC-TT-AAATGGTTACCACGGAGT
1 TGTGGGCTTTGAAA-GGGTGCCACTGACT
* *
902837 TGTGGGC-TTAAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
902864 TGTGGTCTTTTGAAAAGATGCCACTGACT
1 TGTGGGC-TTTGAAAGGGTGCCACTGACT
*
902893 TGTGGACTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
902921 TGTGGGGTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
902949 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
902977 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* ** *
903005 TGTGGTCTTTTGAAAGAATGCCACTAACT
1 TGTGGGC-TTTGAAAGGGTGCCACTGACT
*
903034 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
903062 TGTGGGCTTTGAAAGGGTGCCACCGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
903090 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
903103 GAGATGAACA
Statistics
Matches: 1007, Mismatches: 122, Indels: 54
0.85 0.10 0.05
Matches are distributed among these distances:
26 3 0.00
27 261 0.26
28 583 0.58
29 160 0.16
ACGTcount: A:0.23, C:0.16, G:0.33, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:902367 original size:27 final size:27
Alignment explanation
Indices: 902324--902971 Score: 650
Period size: 27 Copynumber: 23.4 Consensus size: 27
902314 GTGGGCTTTG
*
902324 AAAGGGTTGGCACGGAGTTGTGGACTTA
1 AAAGGG-TGCCACGGAGTTGTGGACTTA
902352 AAAGGGTGCCACGGAGTTGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
* *
902380 AAAGGATGCAACGGAGTTGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
* *
902408 AAAGGGTGCCACGAAGTTATGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
*
902436 AAATGGTGCCACGGAGTTGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
*
902464 AAAGGCTGCCACGGAGTTGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
* * *
902492 AAAGGGCGCCACAGATTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* *
902519 AAAAGGTGCCACGGAGTTGTGGAGTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* * *
902546 AAAGGGTGCCACGGTGTTATGGACTTTG
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
902574 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
902601 AAAGGTTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* * *
902628 AAAGGTTGCCACAGATTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* **
902655 AAAGGCTGCCACGGAGTTGTGGGGTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* * * *
902682 AAATGGTACAACGGAGTTATGGACTTAA
1 AAAGGGTGCCACGGAGTTGTGGACTT-A
902710 AAAGGGCTGCCACGGAGTTGTGGACTTTA
1 AAAGGG-TGCCACGGAGTTGTGGAC-TTA
*
902739 AAAGGTTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* * * *
902766 AAAGGTTGGCACAGAGTTATGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* *
902793 AAAGGTTGCCATGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* * * *
902820 AATGGTTACCACGGAGTTGTGGGCTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
** * *
902847 AAAGGGTGCCACTAACTTGTGGTCTTTTGA
1 AAAGGGTGCCACGGAGTTGTGGAC--TT-A
* * * *
902877 AAA-GATGCCACTGACTTGTGGACTTTG
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
* * ** *
902904 AAAGGGTGCCACTGACTTGTGGGGTTTG
1 AAAGGGTGCCACGGAGTTGT-GGACTTA
* * * * *
902932 AAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
902960 AAAGGGTGCCAC
1 AAAGGGTGCCAC
902972 TAACTTGTGG
Statistics
Matches: 532, Mismatches: 77, Indels: 22
0.84 0.12 0.03
Matches are distributed among these distances:
27 252 0.47
28 232 0.44
29 42 0.08
30 6 0.01
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.26
Consensus pattern (27 bp):
AAAGGGTGCCACGGAGTTGTGGACTTA
Found at i:904366 original size:8 final size:7
Alignment explanation
Indices: 904350--904452 Score: 93
Period size: 7 Copynumber: 13.9 Consensus size: 7
904340 TTTGGACCCC
904350 TTTTTTG
1 TTTTTTG
904357 TTTGTTTG
1 TTT-TTTG
904365 TTTTTT-
1 TTTTTTG
*
904371 TTTTGT-
1 TTTTTTG
904377 TTTTTTG
1 TTTTTTG
* *
904384 CTTTTGG
1 TTTTTTG
904391 TTTTTTCCG
1 TTTTTT--G
904400 TTTTTTTG
1 -TTTTTTG
904408 TTTTTTG
1 TTTTTTG
904415 TTTTTTGG
1 TTTTTT-G
904423 TTTTTTGG
1 TTTTTT-G
904431 TTTTTTTTG
1 --TTTTTTG
904440 TTTTTTG
1 TTTTTTG
904447 TTTTTT
1 TTTTTT
904453 TTTCGTACGA
Statistics
Matches: 82, Mismatches: 6, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
6 10 0.12
7 41 0.50
8 17 0.21
9 2 0.02
10 12 0.15
ACGTcount: A:0.00, C:0.03, G:0.16, T:0.82
Consensus pattern (7 bp):
TTTTTTG
Found at i:904394 original size:24 final size:22
Alignment explanation
Indices: 904350--904453 Score: 106
Period size: 24 Copynumber: 4.6 Consensus size: 22
904340 TTTGGACCCC
*
904350 TTTTTTGTTTGTTTG--TTTT-
1 TTTTTTGTTTTTTTGTTTTTTG
* *
904369 TTTTTTGTTTTTTTGCTTTTGG
1 TTTTTTGTTTTTTTGTTTTTTG
904391 TTTTTTCCGTTTTTTTGTTTTTTG
1 TTTTTT--GTTTTTTTGTTTTTTG
*
904415 TTTTTTGGTTTTTTGGTTTTTTTTG
1 TTTTTT-GTTTTTT--TGTTTTTTG
904440 TTTTTTGTTTTTTT
1 TTTTTTGTTTTTTT
904454 TTCGTACGAA
Statistics
Matches: 72, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
19 14 0.19
21 3 0.04
22 7 0.10
23 7 0.10
24 27 0.38
25 14 0.19
ACGTcount: A:0.00, C:0.03, G:0.15, T:0.82
Consensus pattern (22 bp):
TTTTTTGTTTTTTTGTTTTTTG
Found at i:904446 original size:32 final size:32
Alignment explanation
Indices: 904350--904452 Score: 122
Period size: 32 Copynumber: 3.2 Consensus size: 32
904340 TTTGGACCCC
*
904350 TTTTTT-GTTTGTTTGTTTTTTTTTTGTTTTTT-
1 TTTTTTGGTTT-TTTG-GTTTTTTTTGTTTTTTG
* *
904382 TGCTTTTGGTTTTTTCCG-TTTTTTTGTTTTTTG
1 T-TTTTTGGTTTTTT-GGTTTTTTTTGTTTTTTG
904415 TTTTTTGGTTTTTTGGTTTTTTTTGTTTTTTG
1 TTTTTTGGTTTTTTGGTTTTTTTTGTTTTTTG
904447 TTTTTT
1 TTTTTT
904453 TTTCGTACGA
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
31 1 0.02
32 48 0.79
33 8 0.13
34 4 0.07
ACGTcount: A:0.00, C:0.03, G:0.16, T:0.82
Consensus pattern (32 bp):
TTTTTTGGTTTTTTGGTTTTTTTTGTTTTTTG
Found at i:904453 original size:8 final size:8
Alignment explanation
Indices: 904352--904453 Score: 95
Period size: 8 Copynumber: 12.9 Consensus size: 8
904342 TGGACCCCTT
904352 TTTTGTTTG
1 TTTT-TTTG
*
904361 TTTGTTT-
1 TTTTTTTG
904368 TTTTTTTG
1 TTTTTTTG
904376 TTTTTTTG
1 TTTTTTTG
* *
904384 -CTTTTGG
1 TTTTTTTG
*
904391 TTTTTTCCG
1 TTTTTT-TG
904400 TTTTTTTG
1 TTTTTTTG
904408 -TTTTTTG
1 TTTTTTTG
*
904415 TTTTTTGG
1 TTTTTTTG
*
904423 TTTTTTGG
1 TTTTTTTG
904431 TTTTTTT-
1 TTTTTTTG
904438 TGTTTTTTG
1 T-TTTTTTG
904447 TTTTTTT
1 TTTTTTT
904454 TTCGTACGAA
Statistics
Matches: 78, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
7 19 0.24
8 48 0.62
9 11 0.14
ACGTcount: A:0.00, C:0.03, G:0.16, T:0.81
Consensus pattern (8 bp):
TTTTTTTG
Found at i:904453 original size:15 final size:15
Alignment explanation
Indices: 904350--904453 Score: 102
Period size: 15 Copynumber: 6.4 Consensus size: 15
904340 TTTGGACCCC
904350 TTTTTTGTTTGTTTGT
1 TTTTTTGTTT-TTTGT
*
904366 TTTTTT-TTTGTTTTT
1 TTTTTTGTTT-TTTGT
904381 TTGCTTTTGGTTTTTTCCGT
1 TT--TTTT-GTTTTTT--GT
904401 TTTTTTGTTTTTTGT
1 TTTTTTGTTTTTTGT
*
904416 TTTTTGGTTTTTTGGTT
1 TTTTTTGTTTTTT-G-T
904433 TTTTTTGTTTTTTGT
1 TTTTTTGTTTTTTGT
904448 TTTTTT
1 TTTTTT
904454 TTCGTACGAA
Statistics
Matches: 76, Mismatches: 4, Indels: 17
0.78 0.04 0.18
Matches are distributed among these distances:
15 31 0.41
16 8 0.11
17 24 0.32
18 7 0.09
19 3 0.04
20 3 0.04
ACGTcount: A:0.00, C:0.03, G:0.15, T:0.82
Consensus pattern (15 bp):
TTTTTTGTTTTTTGT
Found at i:913781 original size:13 final size:13
Alignment explanation
Indices: 913763--913789 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
913753 ACATTATGCT
913763 TTGTATCGATACA
1 TTGTATCGATACA
913776 TTGTATCGATACA
1 TTGTATCGATACA
913789 T
1 T
913790 GTACTTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:913802 original size:32 final size:32
Alignment explanation
Indices: 913744--913808 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 32
913734 CACTCCCAGA
913744 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATTA-GCTTTGTATCGATACAT
913777 TGTATCGATACATGTA-CTTTGTATCGATACAT
1 TGTATCGATACAT-TAGCTTTGTATCGATACAT
913809 GTCTCAATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 16 0.52
33 13 0.42
34 2 0.06
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (32 bp):
TGTATCGATACATTAGCTTTGTATCGATACAT
Found at i:913821 original size:21 final size:20
Alignment explanation
Indices: 913775--913830 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 20
913765 GTATCGATAC
913775 ATTGTATCGATACATGTACT
1 ATTGTATCGATACATGTACT
913795 -TTGTATCGATACATGT-CT
1 ATTGTATCGATACATGTACT
*
913813 CAATTGTATCAATACATG
1 --ATTGTATCGATACATG
913831 CAACTAGCAG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
18 2 0.06
19 16 0.50
21 14 0.44
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.39
Consensus pattern (20 bp):
ATTGTATCGATACATGTACT
Found at i:913885 original size:20 final size:20
Alignment explanation
Indices: 913860--913897 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
913850 TATCACTATT
913860 TGTATCGATACATGGTATAA
1 TGTATCGATACATGGTATAA
*
913880 TGTATCGATACATTGTAT
1 TGTATCGATACATGGTAT
913898 CGATACATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATGGTATAA
Found at i:913896 original size:13 final size:13
Alignment explanation
Indices: 913880--913905 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
913870 CATGGTATAA
913880 TGTATCGATACAT
1 TGTATCGATACAT
913893 TGTATCGATACAT
1 TGTATCGATACAT
913906 AAAGAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:919552 original size:20 final size:20
Alignment explanation
Indices: 919527--919653 Score: 92
Period size: 20 Copynumber: 5.8 Consensus size: 20
919517 AATTTTAACT
919527 AAATGTATCGATACATTGAA
1 AAATGTATCGATACATTGAA
919547 AAATGTATCGATACATCTGGGAAAAAA
1 AAATGTATCGATACAT-T--G----AA
919574 GGCAGAATGTATCGATACATTGAA
1 ---A-AATGTATCGATACATTGAA
* * * *
919598 GAATGTATCGATATATTCAT
1 AAATGTATCGATACATTGAA
* * *
919618 ACATGTATCAATACACTGAA
1 AAATGTATCGATACATTGAA
919638 AAATGTATCGATACAT
1 AAATGTATCGATACAT
919654 CTGGGTAAAA
Statistics
Matches: 82, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
20 58 0.71
21 1 0.01
23 1 0.01
24 2 0.02
27 2 0.02
28 1 0.01
30 2 0.02
31 15 0.18
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.28
Consensus pattern (20 bp):
AAATGTATCGATACATTGAA
Found at i:919585 original size:51 final size:50
Alignment explanation
Indices: 919528--919736 Score: 240
Period size: 51 Copynumber: 4.3 Consensus size: 50
919518 ATTTTAACTA
919528 AATGTATCGATACATTGAAAAATGTATCGATACATCTGGGAAAAAAGGCAG
1 AATGTATCGATACATTGAAAAATGTATCGATACATCTGGGAAAAAA-GCAG
* * * *
919579 AATGTATCGATACATTGAAGAATGTATCGATATAT-T-----CATA-C--
1 AATGTATCGATACATTGAAAAATGTATCGATACATCTGGGAAAAAAGCAG
* *
919620 -ATGTATCAATACACTGAAAAATGTATCGATACATCTGGGTAAAAAAGCAG
1 AATGTATCGATACATTGAAAAATGTATCGATACATCTGGG-AAAAAAGCAG
* * *
919670 AATGTATCGATACATTGAAGAATGTATCGATACATCAGGGTAAAAAGACAG
1 AATGTATCGATACATTGAAAAATGTATCGATACATCTGGGAAAAAAG-CAG
919721 AATGTATCGATACATT
1 AATGTATCGATACATT
919737 TGGGTAAAAA
Statistics
Matches: 131, Mismatches: 15, Indels: 24
0.77 0.09 0.14
Matches are distributed among these distances:
40 30 0.23
41 1 0.01
43 1 0.01
45 2 0.02
47 2 0.02
48 1 0.01
50 7 0.05
51 87 0.66
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (50 bp):
AATGTATCGATACATTGAAAAATGTATCGATACATCTGGGAAAAAAGCAG
Found at i:919684 original size:91 final size:91
Alignment explanation
Indices: 919529--919701 Score: 312
Period size: 91 Copynumber: 1.9 Consensus size: 91
919519 TTTTAACTAA
* *
919529 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGAAAAAAGGCAGAATGTATCGATACAT
1 ATGTATCAATACACTGAAAAATGTATCGATACATCTGGGAAAAAAGGCAGAATGTATCGATACAT
919594 TGAAGAATGTATCGATATATTCATAC
66 TGAAGAATGTATCGATATATTCATAC
919620 ATGTATCAATACACTGAAAAATGTATCGATACATCTGGGTAAAAAA-GCAGAATGTATCGATACA
1 ATGTATCAATACACTGAAAAATGTATCGATACATCTGGG-AAAAAAGGCAGAATGTATCGATACA
919684 TTGAAGAATGTATCGATA
65 TTGAAGAATGTATCGATA
919702 CATCAGGGTA
Statistics
Matches: 79, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
91 73 0.92
92 6 0.08
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (91 bp):
ATGTATCAATACACTGAAAAATGTATCGATACATCTGGGAAAAAAGGCAGAATGTATCGATACAT
TGAAGAATGTATCGATATATTCATAC
Found at i:919723 original size:31 final size:31
Alignment explanation
Indices: 919688--919746 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
919678 GATACATTGA
919688 AGAATGTATCGATACATCAGGGTAAAAAGAC
1 AGAATGTATCGATACATCAGGGTAAAAAGAC
**
919719 AGAATGTATCGATACATTTGGGTAAAAA
1 AGAATGTATCGATACATCAGGGTAAAAA
919747 TGTGACTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.24
Consensus pattern (31 bp):
AGAATGTATCGATACATCAGGGTAAAAAGAC
Found at i:925622 original size:28 final size:28
Alignment explanation
Indices: 925578--926411 Score: 1057
Period size: 28 Copynumber: 29.8 Consensus size: 28
925568 TACATTGAGC
*
925578 AATGATGCCACCGACTTGTGGGCTTTGA
1 AATGATGCCACTGACTTGTGGGCTTTGA
*
925606 AATGATACCAC-GAACTTGTGGGCTTTGA
1 AATGATGCCACTG-ACTTGTGGGCTTTGA
* * * *
925634 AAGGATGGCATTGTCTTGTGGGCTTTGGA
1 AATGATGCCACTGACTTGTGGGCTTT-GA
* *
925663 GA-GATGCCACTAACTTGTGGGCTTTGA
1 AATGATGCCACTGACTTGTGGGCTTTGA
925690 AATGATGCCACTGACTTGTGGGCTTTGA
1 AATGATGCCACTGACTTGTGGGCTTTGA
* ** *
925718 AATGATGCCACTAACTTGTGAACATTGA
1 AATGATGCCACTGACTTGTGGGCTTTGA
*
925746 AAGGATGCCACTGACTTGTGGGCTTTGA
1 AATGATGCCACTGACTTGTGGGCTTTGA
* *
925774 AATGGTGCCATTGACTTGTGGGCTTTGA
1 AATGATGCCACTGACTTGTGGGCTTTGA
* *
925802 AAGGATGCCATTGACTTGTGGGCTTTGA
1 AATGATGCCACTGACTTGTGGGCTTTGA
* * *
925830 AATGATGCCATTGACATGGGGGCTTTGA
1 AATGATGCCACTGACTTGTGGGCTTTGA
*
925858 AAGGATGCCACTGACTTGTGGGCTTTGA
1 AATGATGCCACTGACTTGTGGGCTTTGA
* * *
925886 AATGGTACCGCTGACTTGTGGGCTTTGA
1 AATGATGCCACTGACTTGTGGGCTTTGA
925914 AATGATGCCACTGACTTGTGGGCTTTGA
1 AATGATGCCACTGACTTGTGGGCTTTGA
**
925942 AATGATGCCACTGACTTGTGGTTTTTGA
1 AATGATGCCACTGACTTGTGGGCTTTGA
925970 AATGATGCCACTGACTTGTGGGCTTTGA
1 AATGATGCCACTGACTTGTGGGCTTTGA
*
925998 AGTGATGCCACTGACTTGTGGGCTTTGA
1 AATGATGCCACTGACTTGTGGGCTTTGA
* * *
926026 AATAATGCCACTAACTTGTGGCCTTTGA
1 AATGATGCCACTGACTTGTGGGCTTTGA
* *
926054 AAGGATGCCACTGACTTGTGGGATTTGA
1 AATGATGCCACTGACTTGTGGGCTTTGA
*
926082 AATGGTGCCACTGACTTGTGGGCTTTGA
1 AATGATGCCACTGACTTGTGGGCTTTGA
* *
926110 CATGATGCCACTGACTTGTGGTCTTTGA
1 AATGATGCCACTGACTTGTGGGCTTTGA
926138 AATGATGCCACTGACTTGTGGGCTTTGA
1 AATGATGCCACTGACTTGTGGGCTTTGA
*
926166 AATGATGCCACTGACTTATGGGCTTTGAA
1 AATGATGCCACTGACTTGTGGGCTTTG-A
* * *
926195 AAGGATGTCATTGACTTGTGGGCTTTGA
1 AATGATGCCACTGACTTGTGGGCTTTGA
* *
926223 AAAGATGCTACTGACTTGTGGGCTTTGAA
1 AATGATGCCACTGACTTGTGGGCTTTG-A
* *
926252 AAGGATGCCATTGACTTGTGGGCTTTGA
1 AATGATGCCACTGACTTGTGGGCTTTGA
* *
926280 AAAGATGCCATTGACTTGTGGGCTTTGA
1 AATGATGCCACTGACTTGTGGGCTTTGA
*
926308 GAAGGATGCCACTGACTTGTGGGCTTTGA
1 -AATGATGCCACTGACTTGTGGGCTTTGA
* * * *
926337 AA-GGTGCCACGGAGTTGTGGG-TTTAA
1 AATGATGCCACTGACTTGTGGGCTTTGA
* * * * *
926363 AAAGGTGCCACGGAGTTGTGGACTTT-A
1 AATGATGCCACTGACTTGTGGGCTTTGA
* * *
926390 AAAGAGTGCCACGGAGTTGTGG
1 AATGA-TGCCACTGACTTGTGG
926412 TCTTAAAAGG
Statistics
Matches: 712, Mismatches: 84, Indels: 20
0.87 0.10 0.02
Matches are distributed among these distances:
26 6 0.01
27 43 0.06
28 584 0.82
29 79 0.11
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (28 bp):
AATGATGCCACTGACTTGTGGGCTTTGA
Found at i:926406 original size:55 final size:55
Alignment explanation
Indices: 926210--926623 Score: 369
Period size: 55 Copynumber: 7.4 Consensus size: 55
926200 TGTCATTGAC
* * * * * ** *
926210 TTGTGGGCTTTGAAAAGA-TGCTACTGACTTGTGGGCTTTGAAAAGGATGCCATTGAC
1 TTGTGGACTTT-AAAAGAGTGCCACGGAGTTGTGGG-TTTAAAAAGG-TGCCACGGAG
* ** * * * * *
926267 TTGTGGGCTTTGAAAAGA-TGCCATTGACTTGTGGGCTTTGAGAAGGATGCCACTGAC
1 TTGTGGACTTT-AAAAGAGTGCCACGGAGTTGTGGG-TTTAAAAAGG-TGCCACGGAG
* *
926324 TTGTGGGCTTTGAAAG-GTGCCACGGAGTTGTGGGTTTAAAAAGGTGCCACGGAG
1 TTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGGTTTAAAAAGGTGCCACGGAG
*
926378 TTGTGGACTTTAAAAGAGTGCCACGGAGTTGT-GGTCTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGGT-TTAAAAAGGTGCCACGGAG
* **
926433 TTGTGGA-TTTAAAAGGGTGCCACGGAGTTGTAGACTTT-AAAAGAGTGCCACGGAG
1 TTGTGGACTTTAAAAGAGTGCCACGGAGTTGT-GGGTTTAAAAAG-GTGCCACGGAG
* * * *
926488 TTGTGGAC-TTAAAAGGGTGCCATGGAGTTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGG-GTTTAAAAAGGTGCCACGGAG
* ** *
926543 TTGTAGACTTTAAAAG-GATGCCACGGAGTTGTGGACTT-AAAAGGATGCAACGGAG
1 TTGTGGACTTTAAAAGAG-TGCCACGGAGTTGTGGGTTTAAAAAGG-TGCCACGGAG
926598 TTGTGGACTTTAAAAAGAGATGCCAC
1 TTGTGGACTTT-AAAAGAG-TGCCAC
926624 TGAATCGTGG
Statistics
Matches: 314, Mismatches: 29, Indels: 28
0.85 0.08 0.08
Matches are distributed among these distances:
54 58 0.18
55 134 0.43
56 50 0.16
57 72 0.23
ACGTcount: A:0.27, C:0.14, G:0.33, T:0.27
Consensus pattern (55 bp):
TTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGGTTTAAAAAGGTGCCACGGAG
Found at i:926480 original size:28 final size:28
Alignment explanation
Indices: 926210--926638 Score: 389
Period size: 28 Copynumber: 15.4 Consensus size: 28
926200 TGTCATTGAC
* * * *
926210 TTGTGGGCTTTGAAAAGA-TGCTACTGAC
1 TTGTGGACTTT-AAAAGAGTGCCACGGAG
* ** *
926238 TTGTGGGCTTTGAAAAG-GATGCCATTGAC
1 TTGTGGACTTT-AAAAGAG-TGCCACGGAG
* ** *
926267 TTGTGGGCTTTGAAAAGA-TGCCATTGAC
1 TTGTGGACTTT-AAAAGAGTGCCACGGAG
* * * *
926295 TTGTGGGCTTTGAGAAG-GATGCCACTGAC
1 TTGTGGACTTT-AAAAGAG-TGCCACGGAG
* *
926324 TTGTGGGCTTTGAAAG-GTGCCACGGAG
1 TTGTGGACTTTAAAAGAGTGCCACGGAG
*
926351 TTGTGG-GTTTAAAA-AGGTGCCACGGAG
1 TTGTGGACTTTAAAAGA-GTGCCACGGAG
926378 TTGTGGACTTTAAAAGAGTGCCACGGAG
1 TTGTGGACTTTAAAAGAGTGCCACGGAG
* *
926406 TTGTGGTC-TTAAAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGAGTGCCACGGAG
*
926433 TTGTGGA-TTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGAGTGCCACGGAG
*
926460 TTGTAGACTTTAAAAGAGTGCCACGGAG
1 TTGTGGACTTTAAAAGAGTGCCACGGAG
* *
926488 TTGTGGAC-TTAAAAGGGTGCCATGGAG
1 TTGTGGACTTTAAAAGAGTGCCACGGAG
*
926515 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGAGTGCCACGGAG
*
926543 TTGTAGACTTTAAAAG-GATGCCACGGAG
1 TTGTGGACTTTAAAAGAG-TGCCACGGAG
*
926571 TTGTGGAC-TTAAAAG-GATGCAACGGAG
1 TTGTGGACTTTAAAAGAG-TGCCACGGAG
* *
926598 TTGTGGACTTTAAAAAGAGATGCCACTGAA
1 TTGTGGACTTT-AAAAGAG-TGCCACGGAG
*
926628 TCGTGGACTTT
1 TTGTGGACTTT
926639 GAAGAGGTCA
Statistics
Matches: 358, Mismatches: 27, Indels: 30
0.86 0.07 0.07
Matches are distributed among these distances:
26 6 0.02
27 132 0.37
28 150 0.42
29 51 0.14
30 19 0.05
ACGTcount: A:0.26, C:0.14, G:0.33, T:0.27
Consensus pattern (28 bp):
TTGTGGACTTTAAAAGAGTGCCACGGAG
Found at i:927910 original size:22 final size:22
Alignment explanation
Indices: 927864--927914 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
927854 CATTGCCTCG
*
927864 TTTTTTTATTTTTGTTATTCCC
1 TTTTTTTATTTTTGTTATTCAC
927886 TTTTTTTA-TTTTGCTT-TTGCAC
1 TTTTTTTATTTTTG-TTATT-CAC
927908 TTTTTTT
1 TTTTTTT
927915 TTCATTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.08, C:0.12, G:0.06, T:0.75
Consensus pattern (22 bp):
TTTTTTTATTTTTGTTATTCAC
Found at i:937506 original size:13 final size:13
Alignment explanation
Indices: 937488--937514 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
937478 ACATTATGCT
937488 TTGTATCGATACA
1 TTGTATCGATACA
937501 TTGTATCGATACA
1 TTGTATCGATACA
937514 T
1 T
937515 GTCTCAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:943269 original size:20 final size:20
Alignment explanation
Indices: 943244--943368 Score: 79
Period size: 20 Copynumber: 5.7 Consensus size: 20
943234 TTTTAACTAG
943244 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
943264 ATGTATCGATACATCTGGGAAAAAAGGCAGA
1 ATGTATCGATACAT-T--G----AA---A-A
* *
943295 ATGTATTGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
* * * *
943315 ATGTATCGATATATTCATAC
1 ATGTATCGATACATTGAAAA
* *
943335 ATGTATCAATACACTGAAAA
1 ATGTATCGATACATTGAAAA
943355 ATGTATCGATACAT
1 ATGTATCGATACAT
943369 CTAGGTAAAA
Statistics
Matches: 78, Mismatches: 16, Indels: 22
0.67 0.14 0.19
Matches are distributed among these distances:
20 55 0.71
21 1 0.01
23 1 0.01
24 2 0.03
27 2 0.03
28 1 0.01
30 2 0.03
31 14 0.18
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:943306 original size:51 final size:50
Alignment explanation
Indices: 943244--943450 Score: 177
Period size: 51 Copynumber: 4.3 Consensus size: 50
943234 TTTTAACTAG
*
943244 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGAAAAAAGGCAGA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGAAAAAA-ACAGA
* * * * *
943295 ATGTATTGATACATTGAAGAATGTATCGATATAT-T------CATAC---
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGAAAAAAACAGA
* * *
943335 ATGTATCAATACACTGAAAAATGTATCGATACATCTAGGTAAAAAAACAGA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCT-GGGAAAAAAACAGA
* * *
943386 ATGTATTGATACATT-AAAGAATGTATCGATATATC-GGAGTAAAAAGACAGA
1 ATGTATCGATACATTGAAA-AATGTATCGATACATCTGG-G-AAAAAAACAGA
943437 ATGTATCGATACAT
1 ATGTATCGATACAT
943451 CTGGGTAAAA
Statistics
Matches: 122, Mismatches: 20, Indels: 28
0.72 0.12 0.16
Matches are distributed among these distances:
40 29 0.24
41 1 0.01
43 1 0.01
44 1 0.01
48 3 0.02
49 2 0.02
50 4 0.03
51 81 0.66
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.28
Consensus pattern (50 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGAAAAAAACAGA
Found at i:943399 original size:91 final size:91
Alignment explanation
Indices: 943244--943419 Score: 291
Period size: 91 Copynumber: 1.9 Consensus size: 91
943234 TTTTAACTAG
* * *
943244 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGAAAAAAGGCAGAATGTATTGATACAT
1 ATGTATCAATACACTGAAAAATGTATCGATACATCTGGGAAAAAAGACAGAATGTATTGATACAT
*
943309 TGAAGAATGTATCGATATATTCATAC
66 TAAAGAATGTATCGATATATTCATAC
*
943335 ATGTATCAATACACTGAAAAATGTATCGATACATCTAGGTAAAAAA-ACAGAATGTATTGATACA
1 ATGTATCAATACACTGAAAAATGTATCGATACATCT-GGGAAAAAAGACAGAATGTATTGATACA
943399 TTAAAGAATGTATCGATATAT
65 TTAAAGAATGTATCGATATAT
943420 CGGAGTAAAA
Statistics
Matches: 79, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
91 71 0.90
92 8 0.10
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (91 bp):
ATGTATCAATACACTGAAAAATGTATCGATACATCTGGGAAAAAAGACAGAATGTATTGATACAT
TAAAGAATGTATCGATATATTCATAC
Found at i:943438 original size:31 final size:31
Alignment explanation
Indices: 943403--943461 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
943393 GATACATTAA
*
943403 AGAATGTATCGATATATC-GGAGTAAAAAGAC
1 AGAATGTATCGATACATCTGG-GTAAAAAGAC
943434 AGAATGTATCGATACATCTGGGTAAAAA
1 AGAATGTATCGATACATCTGGGTAAAAA
943462 TGTGGCTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.24
Consensus pattern (31 bp):
AGAATGTATCGATACATCTGGGTAAAAAGAC
Found at i:944139 original size:21 final size:21
Alignment explanation
Indices: 944114--944158 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
944104 AAAACCCTAA
*
944114 CAAAT-TTTCATCAAATTTCTT
1 CAAATCTTTC-TCAAATTTCAT
944135 CAAATCTTTCTCAAATTTCAT
1 CAAATCTTTCTCAAATTTCAT
944156 CAA
1 CAA
944159 TTCCACATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42
Consensus pattern (21 bp):
CAAATCTTTCTCAAATTTCAT
Found at i:947518 original size:20 final size:19
Alignment explanation
Indices: 947493--947595 Score: 73
Period size: 20 Copynumber: 5.1 Consensus size: 19
947483 TTTTAATTAG
947493 ATGTATCGATACATTGAGCA
1 ATGTATCGATACATTGAG-A
*
947513 ATGTAT-TATTACATCTGGATAGA
1 ATGTATCGA-TACAT-T-G--AGA
*
947536 ATGTATCGATTCATTGAAGA
1 ATGTATCGATACATTG-AGA
* * **
947556 ATGTATCGATATATTCATCC
1 ATGTATCGATACATTGA-GA
947576 ATGTATCGATACATTGAGA
1 ATGTATCGATACATTGAGA
947595 A
1 A
947596 ATATATTGGT
Statistics
Matches: 63, Mismatches: 13, Indels: 15
0.69 0.14 0.16
Matches are distributed among these distances:
19 3 0.05
20 42 0.67
21 2 0.03
22 2 0.03
23 11 0.17
24 3 0.05
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (19 bp):
ATGTATCGATACATTGAGA
Found at i:948189 original size:32 final size:30
Alignment explanation
Indices: 948143--948905 Score: 218
Period size: 28 Copynumber: 26.5 Consensus size: 30
948133 TGGTAATTTG
*
948143 AAAATGGTTGCCACTGACTTGCGTGGGCTTTT
1 AAAAGGGTTGCCACTGACTT--GTGGGCTTTT
* ** *
948175 AAAAGGGTTGCCACTAAAAGTGTGGACTTTT
1 AAAAGGGTTGCCACT-GACTTGTGGGCTTTT
* * * *
948206 GAAAGAGGTTTCCA-TCAACTTGTGTGGGCTTTG
1 AAAAG-GGTTGCCACT-GAC-T-TGTGGGCTTTT
* ** *
948239 AAAAGGGTTGTCACCAACTCGTGTGGGCTTTG
1 AAAAGGGTTGCCACTGACT--TGTGGGCTTTT
* * *
948271 AAATGAGTTGCCACCGACTTGTGGG-TTTT
1 AAAAGGGTTGCCACTGACTTGTGGGCTTTT
* * * *
948300 GAAA-TGATGCCACTAACTTGTGGGC-TTT
1 AAAAGGGTTGCCACTGACTTGTGGGCTTTT
* * *
948328 GAAA-GGATGCCACCGACTTGTGGGC-TTT
1 AAAAGGGTTGCCACTGACTTGTGGGCTTTT
* * *
948356 AAAATGGGTTACCACTGATTTGTGTAGGCTTTC
1 AAAA-GGGTTGCCACTGACTTGTG--GGCTTTT
* * * *
948389 AAATGAGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACTGAC-T-TGTGGGCTTTT
* * * **
948421 AAATGAGTTTCCACCAACTTGTGGGC-TTT
1 AAAAGGGTTGCCACTGACTTGTGGGCTTTT
* * *
948450 GAAA-TGATGCCA-TGAACTTGTGGGC-TTT
1 AAAAGGGTTGCCACTG-ACTTGTGGGCTTTT
* * *
948478 GAAA-GGATGCCACTAACTTGTGGGC-TTT
1 AAAAGGGTTGCCACTGACTTGTGGGCTTTT
* * * *
948506 AAAA-AGATGCTACTGACTTGTGGGCTTTG
1 AAAAGGGTTGCCACTGACTTGTGGGCTTTT
* *
948535 AAAA-GGATGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTTGCCACTGACTTGTGGGCTTTT
* * * * *
948564 AAAA--GATGTCATTGACTTGTGCGCTTTG
1 AAAAGGGTTGCCACTGACTTGTGGGCTTTT
* **
948592 AGAA-GGACGCCACTGACTTGTGGGC-TTT
1 AAAAGGGTTGCCACTGACTTGTGGGCTTTT
* * * * *
948620 GAAA-GG-TGGCACGGATTTGT-GG-ATTT
1 AAAAGGGTTGCCACTGACTTGTGGGCTTTT
* * * *
948646 AAAAAGG-TGCCACGGAGTTGTGGAC-TTT
1 AAAAGGGTTGCCACTGACTTGTGGGCTTTT
* * * *
948674 AAAAGAG-TGCCACGGAGTTGTGGAC--TT
1 AAAAGGGTTGCCACTGACTTGTGGGCTTTT
* *
948701 AAAAGGG-TGCCA-TGGAGTTGTGGAC--TT
1 AAAAGGGTTGCCACT-GACTTGTGGGCTTTT
* * *
948728 AAAAGGG-TGCCACGGAGTTGTGGAC-TTT
1 AAAAGGGTTGCCACTGACTTGTGGGCTTTT
* * * * *
948756 AAAAGAG-TGCCACAGAGTTATGGAC--TT
1 AAAAGGGTTGCCACTGACTTGTGGGCTTTT
* *
948783 AAAAGGG-TGCCA-TAGAGTTGT-GG-ATTT
1 AAAAGGGTTGCCACT-GACTTGTGGGCTTTT
* * *
948810 AAAAGGG-TGCCACGGAGTTGTGGAC-TTT
1 AAAAGGGTTGCCACTGACTTGTGGGCTTTT
* * * *
948838 AAAAGAG-TGCCACAGAGTTGTGGAC--TT
1 AAAAGGGTTGCCACTGACTTGTGGGCTTTT
* * * *
948865 AAAAAGG-TGCCACGGAGTTGTGGAC-TTT
1 AAAAGGGTTGCCACTGACTTGTGGGCTTTT
948893 AAAAGGG-TGCCAC
1 AAAAGGGTTGCCAC
948906 GGAGTTATGG
Statistics
Matches: 599, Mismatches: 100, Indels: 68
0.78 0.13 0.09
Matches are distributed among these distances:
26 9 0.02
27 137 0.23
28 232 0.39
29 59 0.10
30 27 0.05
31 18 0.03
32 92 0.15
33 21 0.04
34 4 0.01
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.29
Consensus pattern (30 bp):
AAAAGGGTTGCCACTGACTTGTGGGCTTTT
Found at i:948291 original size:64 final size:63
Alignment explanation
Indices: 948139--948566 Score: 316
Period size: 64 Copynumber: 7.1 Consensus size: 63
948129 AAAATGGTAA
* * * ** *
948139 TTTGAAAATG-GTTGCCACTGACTTGCGTGGGCTTTTAAAAGGGTTGCCACTAAAAGTGTGGAC
1 TTTG-AAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACTAACTGTGTGGGC
* * * * *
948202 TTTTGAAA-GAGGTTTCCATCAACTTGTGTGGGCTTTGAAAAGGGTTGTCACCAACTCGTGTGGG
1 -TTTGAAATGA-GTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACTAACT-GTGTGGG
948266 C
63 C
* * *
948267 TTTGAAATGAGTTGCCACCGAC-T-TGTGGGTTTTG-AAA-TGATGCCACTAACT-TGTGGGC
1 TTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACTAACTGTGTGGGC
* * ** *
948325 TTTGAAA-G-GATGCCACCGAC-T-TGTGGGCTTT-AAAATGGGTTACCACTGATTTGTGTAGGC
1 TTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAAA-GGGTTGCCACT-AACTGTGTGGGC
* * * * *
948385 TTTCAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGAGTTTCCACCAACT-TGTGGGC
1 TTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACTAACTGTGTGGGC
* *
948447 TTTGAAATGA--TGCCA-TGAAC-T-TGTGGGCTTTG-AAA-GGATGCCACTAACT-TGTGGGC
1 TTTGAAATGAGTTGCCACCG-ACTTGTGTGGGCTTTGAAAAGGGTTGCCACTAACTGTGTGGGC
* * * * * *
948503 TTT-AAA-AAGATGCTACTGAC-T-TGTGGGCTTTGAAAA-GGATGCCACTGACT-TGTGGGC
1 TTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACTAACTGTGTGGGC
948560 TTTGAAA
1 TTTGAAA
948567 AGATGTCATT
Statistics
Matches: 298, Mismatches: 46, Indels: 46
0.76 0.12 0.12
Matches are distributed among these distances:
54 1 0.00
55 3 0.01
56 62 0.21
57 31 0.10
58 35 0.12
59 4 0.01
60 29 0.10
61 4 0.01
62 37 0.12
63 7 0.02
64 73 0.24
65 12 0.04
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.32
Consensus pattern (63 bp):
TTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACTAACTGTGTGGGC
Found at i:948319 original size:28 final size:28
Alignment explanation
Indices: 948260--948623 Score: 352
Period size: 28 Copynumber: 12.5 Consensus size: 28
948250 CACCAACTCG
*
948260 TGTGGGCTTTGAAATGAGTTGCCACCGACT
1 TGTGGGCTTTGAAATGA--TGCCACTGACT
* *
948290 TGTGGGTTTTGAAATGATGCCACTAACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
* *
948318 TGTGGGCTTTGAAAGGATGCCACCGACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
* * * *
948346 TGTGGGCTTTAAAATGGGTTACCACTGATT
1 TGTGGGCTTTGAAAT--GATGCCACTGACT
* *
948376 TGTGTAGGCTTTCAAATGAGTTGCCACCGACTT
1 TGTG--GGCTTTGAAATGA--TGCCACTGAC-T
* **
948409 GTGTGGGCTTTGAAATGAGTTTCCACCAACT
1 -TGTGGGCTTTGAAATGA--TGCCACTGACT
948440 TGTGGGCTTTGAAATGATGCCA-TGAACT
1 TGTGGGCTTTGAAATGATGCCACTG-ACT
* *
948468 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
* * *
948496 TGTGGGCTTTAAAAAGATGCTACTGACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
*
948524 TGTGGGCTTTGAAAAGGATGCCACTGACT
1 TGTGGGCTTTG-AAATGATGCCACTGACT
* * *
948553 TGTGGGCTTTGAAAAGATGTCATTGACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
* * *
948581 TGTGCGCTTTGAGAAGGACGCCACTGACT
1 TGTGGGCTTTGA-AATGATGCCACTGACT
948610 TGTGGGCTTTGAAA
1 TGTGGGCTTTGAAA
948624 GGTGGCACGG
Statistics
Matches: 280, Mismatches: 42, Indels: 26
0.80 0.12 0.07
Matches are distributed among these distances:
28 138 0.49
29 50 0.18
30 47 0.17
31 1 0.00
32 39 0.14
33 1 0.00
34 4 0.01
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (28 bp):
TGTGGGCTTTGAAATGATGCCACTGACT
Found at i:948418 original size:150 final size:150
Alignment explanation
Indices: 948225--948509 Score: 446
Period size: 150 Copynumber: 1.9 Consensus size: 150
948215 TTCCATCAAC
* * * * *
948225 TTGTGTGGGCTTTGAAAAGGGTTGTCACCAACTCGTGTGGGCTTTGAAATGAGTTGCCACCGACT
1 TTGTGTAGGCTTTCAAAAGAGTTGCCACCAACTCGTGTGGGCTTTGAAATGAGTTGCCACCAACT
* *
948290 TGTGGGTTTTGAAATGATGCCACT-AACTTGTGGGCTTTGAAAGGATGCCACCGACTTGTGGGCT
66 TGTGGGCTTTGAAATGATGCCA-TGAACTTGTGGGCTTTGAAAGGATGCCACCAACTTGTGGGCT
948354 TTAAAATGGGTTACCACTGAT
130 TTAAAATGGGTTACCACTGAT
* * * *
948375 TTGTGTAGGCTTTCAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGAGTTTCCACCAACT
1 TTGTGTAGGCTTTCAAAAGAGTTGCCACCAACTCGTGTGGGCTTTGAAATGAGTTGCCACCAACT
*
948440 TGTGGGCTTTGAAATGATGCCATGAACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTT
66 TGTGGGCTTTGAAATGATGCCATGAACTTGTGGGCTTTGAAAGGATGCCACCAACTTGTGGGCTT
948505 TAAAA
131 TAAAA
948510 AGATGCTACT
Statistics
Matches: 122, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
149 1 0.01
150 121 0.99
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (150 bp):
TTGTGTAGGCTTTCAAAAGAGTTGCCACCAACTCGTGTGGGCTTTGAAATGAGTTGCCACCAACT
TGTGGGCTTTGAAATGATGCCATGAACTTGTGGGCTTTGAAAGGATGCCACCAACTTGTGGGCTT
TAAAATGGGTTACCACTGAT
Found at i:948568 original size:57 final size:57
Alignment explanation
Indices: 948228--948712 Score: 360
Period size: 56 Copynumber: 8.4 Consensus size: 57
948218 CATCAACTTG
* * * *
948228 TGTGGGCTTTGAAAAGGGTTGTCACCAACTCGTGTGGGCTTTGAAATGAGTTGCCACCGACT
1 TGTGGGCTTTGAAAA-GGATGCCACTAACT--TGTGGGCTTTGAAA--AGATGCCACCGACT
* * *
948290 TGTGGGTTTTG-AAATGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACCGACT
1 TGTGGGCTTTGAAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACCGACT
* * * * * *
948346 TGTGGGCTTT-AAAATGGGTTACCACTGATTTGTGTAGGCTTTCAAATGAGTTGCCACCGACTT
1 TGTGGGCTTTGAAAA--GGATGCCACTAACTTGTG--GGCTTTGAAA--AGATGCCACCGAC-T
* * * * * *
948409 GTGTGGGCTTTGAAATGAGTTTCCACCAACTTGTGGGCTTTGAAATGATGCCA-TGAACT
1 -TGTGGGCTTTGAAAAG-GATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACCG-ACT
* * *
948468 TGTGGGCTTTG-AAAGGATGCCACTAACTTGTGGGCTTTAAAAAGATGCTACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACCGACT
* * **
948524 TGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGTCATTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACCGACT
* * * * * * * *
948581 TGTGCGCTTTGAGAAGGACGCCACTGACTTGTGGGCTTTG-AAAGGTGGCACGGATT
1 TGTGGGCTTTGAAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACCGACT
* * ** * * * *
948637 TGT-GGATTTAAAAAGG-TGCCACGGAGTTGTGGACTTT-AAAAGAGTGCCACGGAGT
1 TGTGGGCTTTGAAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGA-TGCCACCGACT
* *
948692 TGTGGAC-TT-AAAAGGGTGCCA
1 TGTGGGCTTTGAAAAGGATGCCA
948713 TGGAGTTGTG
Statistics
Matches: 347, Mismatches: 58, Indels: 43
0.77 0.13 0.10
Matches are distributed among these distances:
54 27 0.08
55 28 0.08
56 82 0.24
57 82 0.24
58 38 0.11
59 2 0.01
60 27 0.08
61 3 0.01
62 30 0.09
63 2 0.01
64 23 0.07
65 3 0.01
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (57 bp):
TGTGGGCTTTGAAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACCGACT
Done.