Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 36 of 259
Found at i:10613712 original size:16 final size:16
Alignment explanation
Indices: 10613691--10613728 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
10613681 GTCCTTCTCA
10613691 AAAATCAAAAGAATTG
1 AAAATCAAAAGAATTG
10613707 AAAATCAAAAGAATTG
1 AAAATCAAAAGAATTG
10613723 AAAATC
1 AAAATC
10613729 CTTGTGTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.63, C:0.08, G:0.11, T:0.18
Consensus pattern (16 bp):
AAAATCAAAAGAATTG
Found at i:10621123 original size:16 final size:16
Alignment explanation
Indices: 10621102--10621139 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
10621092 GTCCTTCTCA
10621102 AAAATCAAAAGAATTG
1 AAAATCAAAAGAATTG
10621118 AAAATCAAAAGAATTG
1 AAAATCAAAAGAATTG
10621134 AAAATC
1 AAAATC
10621140 CTCATGTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.63, C:0.08, G:0.11, T:0.18
Consensus pattern (16 bp):
AAAATCAAAAGAATTG
Found at i:10621698 original size:59 final size:62
Alignment explanation
Indices: 10621624--10621748 Score: 175
Period size: 64 Copynumber: 2.0 Consensus size: 62
10621614 TTAATATGTA
** *
10621624 TTAGATACTGCAATTATTT-A-TGTTTT-TTATCAAATTAATATTTAAATACTATTTTATAT
1 TTAGATACAACAATTATTTAATTGTTTTCTTACCAAATTAATATTTAAATACTATTTTATAT
*
10621683 TTAGATACAACAATTATTTAACATTGTTTTCTTACCAAATTAATATTTAAATACTATTTTGTAT
1 TTAGATACAACAATTATTT-A-ATTGTTTTCTTACCAAATTAATATTTAAATACTATTTTATAT
10621747 TT
1 TT
10621749 GTTTTTCAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
59 17 0.30
62 1 0.02
63 6 0.11
64 33 0.58
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (62 bp):
TTAGATACAACAATTATTTAATTGTTTTCTTACCAAATTAATATTTAAATACTATTTTATAT
Found at i:10623406 original size:22 final size:24
Alignment explanation
Indices: 10623372--10623415 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
10623362 TAATATTCAA
*
10623372 TATATATTGAAATTTTAAAAAATG
1 TATATATTGAAATTTAAAAAAATG
10623396 TATATA-T-AAATTTAAAAAAA
1 TATATATTGAAATTTAAAAAAA
10623416 AAACTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 1 0.05
24 6 0.32
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (24 bp):
TATATATTGAAATTTAAAAAAATG
Found at i:10623427 original size:21 final size:22
Alignment explanation
Indices: 10623403--10623447 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
10623393 ATGTATATAT
10623403 AAAT-TTAAAAAAAAAACTAAA
1 AAATATTAAAAAAAAAACTAAA
* *
10623424 AAATATTGAAAAAAAATCTAAA
1 AAATATTAAAAAAAAAACTAAA
10623446 AA
1 AA
10623448 CGCTATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (22 bp):
AAATATTAAAAAAAAAACTAAA
Found at i:10628389 original size:37 final size:37
Alignment explanation
Indices: 10628339--10628412 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
10628329 GTCCTAAAAC
10628339 TTGAGCAAATTTTATAATGTAATATTTATTTTTTTAA
1 TTGAGCAAATTTTATAATGTAATATTTATTTTTTTAA
10628376 TTGAGCAAATTTTATAATGTAATATTTATTTTTTTAA
1 TTGAGCAAATTTTATAATGTAATATTTATTTTTTTAA
10628413 CATGTTAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.54
Consensus pattern (37 bp):
TTGAGCAAATTTTATAATGTAATATTTATTTTTTTAA
Found at i:10633272 original size:15 final size:15
Alignment explanation
Indices: 10633237--10633278 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
10633227 ATTAAGAATT
*
10633237 TATTAAATTAT-ATA
1 TATTTAATTATAATA
10633251 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
10633265 TATTTAATAATAAT
1 TATTTAATTATAAT
10633279 TATGTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:10633513 original size:45 final size:44
Alignment explanation
Indices: 10633431--10633521 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
10633421 ACCTCTATTC
*
10633431 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCATTA
*** * *
10633475 CATTCAACCAAACAGTTGATTTGCTATTACATCTCTATTCCATTA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTATTCCATTA
10633520 CA
1 CA
10633522 CCTCTATTCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 16 0.40
45 24 0.60
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.33
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCATTA
Found at i:10633521 original size:16 final size:16
Alignment explanation
Indices: 10633500--10633553 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
10633490 TTGATTTGCT
*
10633500 ATTACATCTCTATTCC
1 ATTACACCTCTATTCC
10633516 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
10633532 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
*
10633548 AATACA
1 ATTACA
10633554 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.35
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:10634960 original size:27 final size:27
Alignment explanation
Indices: 10634903--10634962 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
10634893 AGGCGCGACT
* * *
10634903 AGGCGCGACTAGTTGAACCTATTTGAC
1 AGGCGCAACTAGTTGAACCTATCTCAC
** *
10634930 AGGCGCAACTAGTTGTGCCTATCTCAG
1 AGGCGCAACTAGTTGAACCTATCTCAC
10634957 AGGCGC
1 AGGCGC
10634963 GAATGGTGGG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (27 bp):
AGGCGCAACTAGTTGAACCTATCTCAC
Found at i:10638273 original size:30 final size:30
Alignment explanation
Indices: 10638223--10638280 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
10638213 TACTAACAAA
*
10638223 ATAATTATAAAATATATTTTTAAGAAAATAC
1 ATAACTATAAAATATATTTTTAA-AAAATAC
10638254 ATAACTATAAAAT-TATTTTTAAAAAAT
1 ATAACTATAAAATATATTTTTAAAAAAT
10638281 TCATGTACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 5 0.19
30 9 0.35
31 12 0.46
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (30 bp):
ATAACTATAAAATATATTTTTAAAAAATAC
Found at i:10638350 original size:22 final size:21
Alignment explanation
Indices: 10638322--10638364 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
10638312 TATTTGTGGG
**
10638322 TGTTAAATTTTTTTAATTAAAA
1 TGTTAAATAATTTTAA-TAAAA
10638344 TGTTAAATAATTTTAATAAAA
1 TGTTAAATAATTTTAATAAAA
10638365 GTATTTATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (21 bp):
TGTTAAATAATTTTAATAAAA
Found at i:10639003 original size:19 final size:19
Alignment explanation
Indices: 10638981--10639064 Score: 59
Period size: 19 Copynumber: 4.3 Consensus size: 19
10638971 CAAAAATTTA
10638981 TAACATAATCCTAAATTAT
1 TAACATAATCCTAAATTAT
*
10639000 TAACAAATTAATCCTAAAATAAT
1 TAAC--A-TAATCCT-AAATTAT
*
10639023 T-ACA-AA-CACAAAAAATTA-
1 TAACATAATC-C--TAAATTAT
10639041 TAACATAATCCTAAATTAT
1 TAACATAATCCTAAATTAT
10639060 TAACA
1 TAACA
10639065 AATTAATTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 22
0.66 0.05 0.29
Matches are distributed among these distances:
17 1 0.02
18 10 0.20
19 17 0.34
20 4 0.08
21 2 0.04
22 9 0.18
23 7 0.14
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (19 bp):
TAACATAATCCTAAATTAT
Found at i:10639008 original size:60 final size:60
Alignment explanation
Indices: 10638906--10639084 Score: 295
Period size: 60 Copynumber: 3.0 Consensus size: 60
10638896 ATACTAAACT
* * * *
10638906 AAACACAATAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTATTAACAAATTAATTTTAAAATAATTAC
**
10638966 AAACACAAAAATTTATAACATAATCCTAAATTATTAACAAATTAATCCTAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTATTAACAAATTAATTTTAAAATAATTAC
*
10639026 AAACACAAAAAATTATAACATAATCCTAAATTATTAACAAATTAATTTTAAAATAATTA
1 AAACACAAAAATTTATAACATAATCCTAAATTATTAACAAATTAATTTTAAAATAATTA
10639085 TAAAAAAGAA
Statistics
Matches: 110, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 110 1.00
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTATTAACAAATTAATTTTAAAATAATTAC
Found at i:10639027 original size:22 final size:22
Alignment explanation
Indices: 10638986--10639028 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10638976 ATTTATAACA
*
10638986 TAATCCTAAATTATTAACAAAT
1 TAATCCTAAATAATTAACAAAT
10639008 TAATCCTAAAATAATT-ACAAA
1 TAATCCT-AAATAATTAACAAA
10639029 CACAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (22 bp):
TAATCCTAAATAATTAACAAAT
Found at i:10639160 original size:14 final size:15
Alignment explanation
Indices: 10639136--10639178 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
10639126 ATAGACACTA
10639136 AACATAAATAATTTAT
1 AACA-AAATAATTTAT
*
10639152 AA-AAAATAATTAAT
1 AACAAAATAATTTAT
*
10639166 AACAAAAAAATTT
1 AACAAAATAATTT
10639179 CACAACATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 12 0.52
15 9 0.39
16 2 0.09
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (15 bp):
AACAAAATAATTTAT
Found at i:10639264 original size:14 final size:13
Alignment explanation
Indices: 10639242--10639306 Score: 53
Period size: 13 Copynumber: 4.8 Consensus size: 13
10639232 AATAATTACC
10639242 TTTTT-TTCTTTCT
1 TTTTTCTTC-TTCT
10639255 TTTTTCTTCTTCT
1 TTTTTCTTCTTCT
*
10639268 TCTTTTTTTCTTCT
1 T-TTTTCTTCTTCT
*
10639282 CTTTTCTCTCTT-T
1 TTTTTCT-TCTTCT
*
10639295 TCTTTCTCTCTT
1 TTTTTCT-TCTT
10639307 TCGGTGGGTG
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
13 26 0.59
14 18 0.41
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTTCTTCTTCT
Found at i:10639272 original size:20 final size:19
Alignment explanation
Indices: 10639245--10639308 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
10639235 AATTACCTTT
10639245 TTTTCTTTCTTTT-TTCTTC
1 TTTTCTTTCTTTTCTTC-TC
10639264 TTCTTCTTT-TTTTCTTCTC
1 TT-TTCTTTCTTTTCTTCTC
*
10639283 TTTTCTCTCTTTTCTTTCTC
1 TTTTCTTTCTTTTC-TTCTC
10639303 TCTTTC
1 T-TTTC
10639309 GGTGGGTGAG
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
18 5 0.13
19 15 0.38
20 15 0.38
21 4 0.10
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTCTTTCTTTTCTTCTC
Found at i:10639281 original size:27 final size:28
Alignment explanation
Indices: 10639241--10639308 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 28
10639231 TAATAATTAC
*
10639241 CTTTTTTTCTTTCTTTTTTCT-TCTTCTT
1 CTTTTTTTCTTTCTCTTTTCTCTCTT-TT
10639269 CTTTTTTTC-TTCTCTTTTCTCTCTTTT
1 CTTTTTTTCTTTCTCTTTTCTCTCTTTT
* *
10639296 CTTTCTCTCTTTC
1 CTTTTTTTCTTTC
10639309 GGTGGGTGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 19 0.54
28 16 0.46
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (28 bp):
CTTTTTTTCTTTCTCTTTTCTCTCTTTT
Found at i:10639286 original size:28 final size:27
Alignment explanation
Indices: 10639241--10639308 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 27
10639231 TAATAATTAC
10639241 CTTTTTTTCTTTCTTTTT-TCTTCTTCTT
1 CTTTTTTTCTTTCTTTTTCTC-TCTT-TT
10639269 CTTTTTTTC-TTCTCTTTTCTCTCTTTT
1 CTTTTTTTCTTTCT-TTTTCTCTCTTTT
* *
10639296 CTTTCTCTCTTTC
1 CTTTTTTTCTTTC
10639309 GGTGGGTGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 13 0.37
28 20 0.57
29 2 0.06
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (27 bp):
CTTTTTTTCTTTCTTTTTCTCTCTTTT
Found at i:10639293 original size:22 final size:21
Alignment explanation
Indices: 10639241--10639307 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 21
10639231 TAATAATTAC
* *
10639241 CTTTTTTTC-TTTCTTT-TTT
1 CTTTTCTTCTTTTCTTTCTCT
10639260 CTTCTTCTTCTTTT-TTTCTTCT
1 CTT-TTCTTCTTTTCTTTC-TCT
10639282 CTTTTCTCTCTTTTCTTTCTCT
1 CTTTTCT-TCTTTTCTTTCTCT
10639304 CTTT
1 CTTT
10639308 CGGTGGGTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 3 0.08
20 8 0.20
21 7 0.17
22 18 0.45
23 4 0.10
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (21 bp):
CTTTTCTTCTTTTCTTTCTCT
Found at i:10639302 original size:11 final size:10
Alignment explanation
Indices: 10639245--10639308 Score: 57
Period size: 9 Copynumber: 6.5 Consensus size: 10
10639235 AATTACCTTT
10639245 TTTTCTT-TC
1 TTTTCTTCTC
10639254 TTTT-TTCTTC
1 TTTTCTTC-TC
10639264 TTCTTCTT-T-
1 TT-TTCTTCTC
10639273 TTTTCTTCTC
1 TTTTCTTCTC
10639283 TTTTC-TCTC
1 TTTTCTTCTC
10639292 TTTTCTTTCTC
1 TTTTC-TTCTC
10639303 TCTTTC
1 T-TTTC
10639309 GGTGGGTGAG
Statistics
Matches: 46, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
8 7 0.15
9 16 0.35
10 10 0.22
11 7 0.15
12 6 0.13
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTCTTCTC
Found at i:10639596 original size:25 final size:25
Alignment explanation
Indices: 10639575--10639630 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 25
10639565 TAATAAAAAT
10639575 AAAAAATAATATTTTATTTAAACAAACA
1 AAAAAAT-ATA-TTT-TTTAAACAAACA
*
10639603 AAAAAATATATTTTTTAATATAAACA
1 AAAAAATATATTTTTTAA-ACAAACA
10639629 AA
1 AA
10639631 GGAGTCGCGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 5 0.19
26 11 0.42
27 3 0.12
28 7 0.27
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (25 bp):
AAAAAATATATTTTTTAAACAAACA
Found at i:10639629 original size:30 final size:28
Alignment explanation
Indices: 10639575--10639630 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
10639565 TAATAAAAAT
*
10639575 AAAAAATAATATTTTATTTAAACAAACA
1 AAAAAATAATATTTTATATAAACAAACA
*
10639603 AAAAAATATATTTTTTAATATAAACAAA
1 AAAAAATA-ATATTTT-ATATAAACAAA
10639631 GGAGTCGCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 8 0.33
29 6 0.25
30 10 0.42
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (28 bp):
AAAAAATAATATTTTATATAAACAAACA
Found at i:10642300 original size:40 final size:40
Alignment explanation
Indices: 10642193--10642377 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
10642183 TATTCGGATG
10642193 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
* *
10642236 ATACCCGGACTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * * *
10642276 ATTTCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
10642316 ATATCCGGGTTAAGTCCCGAAGACATTTGTGCGAGTTG-CG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
10642356 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
10642378 TACTTGGTTT
Statistics
Matches: 121, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 15 0.12
40 75 0.62
41 1 0.01
43 30 0.25
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:10642363 original size:80 final size:82
Alignment explanation
Indices: 10642192--10642377 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 82
10642182 TTATTCGGAT
* * *
10642192 GATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGACTAAGTCCCGAA
1 GATATCCGGGCTAAGACCCGAAGGCATGTGTGC-AGTAGTTACTATACCCGGACTAAGTCCCGAA
* *
10642257 GGCATTTGTGCTAGTGAC
65 GACATTTGTGCGAGTGAC
* * * **
10642275 TATTTCCGGGCTAAGACCCGAAGGCATGTGTGC-G-AGTTACTATATCCGGGTTAAGTCCCGAAG
1 GATATCCGGGCTAAGACCCGAAGGCATGTGTGCAGTAGTTACTATACCCGGACTAAGTCCCGAAG
10642338 ACATTTGTGCGAGTTG-C
66 ACATTTGTGCGAG-TGAC
10642355 GATATCC-GGCTAA-ATCCCGAAGG
1 GATATCCGGGCTAAGA-CCCGAAGG
10642378 TACTTGGTTT
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 14 0.16
80 42 0.47
81 3 0.03
83 29 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (82 bp):
GATATCCGGGCTAAGACCCGAAGGCATGTGTGCAGTAGTTACTATACCCGGACTAAGTCCCGAAG
ACATTTGTGCGAGTGAC
Found at i:10645353 original size:24 final size:24
Alignment explanation
Indices: 10645326--10645372 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
10645316 TTAGACTAGA
*
10645326 TCTAATCCTAAGTTCTAAATTTAG
1 TCTAATCCTAAGCTCTAAATTTAG
*
10645350 TCTAATTCTAAGCTCTAAATTTA
1 TCTAATCCTAAGCTCTAAATTTA
10645373 AGTTAAGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (24 bp):
TCTAATCCTAAGCTCTAAATTTAG
Found at i:10645474 original size:12 final size:12
Alignment explanation
Indices: 10645454--10645518 Score: 58
Period size: 12 Copynumber: 5.3 Consensus size: 12
10645444 CTAAGTTTAA
10645454 TCTAATTCTAAG
1 TCTAATTCTAAG
* *
10645466 TCTAGTTCTAAA
1 TCTAATTCTAAG
* *
10645478 ACTAGTTCTAAAG
1 TCTAATTCT-AAG
*
10645491 GCTAATTCTAAG
1 TCTAATTCTAAG
* *
10645503 ACCAATTCTAAG
1 TCTAATTCTAAG
10645515 TCTA
1 TCTA
10645519 TATGATAATT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
12 33 0.79
13 9 0.21
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.35
Consensus pattern (12 bp):
TCTAATTCTAAG
Found at i:10645511 original size:25 final size:25
Alignment explanation
Indices: 10645457--10645513 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
10645447 AGTTTAATCT
* * *
10645457 AATTCT-AAGTCTAGTTCTAAAACT
1 AATTCTAAAGGCTAATTCTAAAACC
* *
10645481 AGTTCTAAAGGCTAATTCTAAGACC
1 AATTCTAAAGGCTAATTCTAAAACC
10645506 AATTCTAA
1 AATTCTAA
10645514 GTCTATATGA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.33
Consensus pattern (25 bp):
AATTCTAAAGGCTAATTCTAAAACC
Found at i:10650594 original size:20 final size:20
Alignment explanation
Indices: 10650569--10650633 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
10650559 CACATACATG
*
10650569 CCCCTGTTTGGACTTTGGTA
1 CCCCTGTTTGAACTTTGGTA
** *
10650589 CCCCTGAATGAACATATGTGT-
1 CCCCTGTTTGAAC-TTTG-GTA
*
10650610 -CCCTGTTTGTACTTTGGTA
1 CCCCTGTTTGAACTTTGGTA
10650629 CCCCT
1 CCCCT
10650634 AAATGCATAT
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
18 2 0.06
19 3 0.09
20 23 0.70
21 3 0.09
22 2 0.06
ACGTcount: A:0.15, C:0.28, G:0.20, T:0.37
Consensus pattern (20 bp):
CCCCTGTTTGAACTTTGGTA
Found at i:10654832 original size:14 final size:14
Alignment explanation
Indices: 10654813--10654854 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
10654803 CACAACCATT
10654813 TCCACACTCACATA
1 TCCACACTCACATA
* *
10654827 TCCACA-AC-CATT
1 TCCACACTCACATA
10654839 TCCACACTCACATA
1 TCCACACTCACATA
10654853 TC
1 TC
10654855 ACAACAAAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
12 9 0.41
13 2 0.09
14 11 0.50
ACGTcount: A:0.33, C:0.43, G:0.00, T:0.24
Consensus pattern (14 bp):
TCCACACTCACATA
Found at i:10654839 original size:26 final size:25
Alignment explanation
Indices: 10654803--10654859 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 25
10654793 TTAACCTATG
10654803 CACAACCATTTCCACACTCACATAT
1 CACAACCATTTCCACACTCACATAT
10654828 CCACAACCATTTCCACACTCACATAT
1 -CACAACCATTTCCACACTCACATAT
10654854 CACAAC
1 CACAAC
10654860 AAAACCTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 6 0.19
26 25 0.81
ACGTcount: A:0.37, C:0.42, G:0.00, T:0.21
Consensus pattern (25 bp):
CACAACCATTTCCACACTCACATAT
Found at i:10655102 original size:24 final size:25
Alignment explanation
Indices: 10655070--10655135 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
10655060 GTACTTTTTT
10655070 CGTCAATTCATCCTTTGCA-TATAC
1 CGTCAATTCATCCTTTGCATTATAC
* * *
10655094 CGTCAATTCCTACTTTGCATTTTAC
1 CGTCAATTCATCCTTTGCATTATAC
10655119 CGTCAATTCATCCTTTG
1 CGTCAATTCATCCTTTG
10655136 ACACAAAATG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
24 17 0.47
25 19 0.53
ACGTcount: A:0.21, C:0.29, G:0.09, T:0.41
Consensus pattern (25 bp):
CGTCAATTCATCCTTTGCATTATAC
Found at i:10659752 original size:21 final size:20
Alignment explanation
Indices: 10659728--10659767 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
10659718 CATGTATTTT
10659728 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
10659749 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
10659768 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:10659775 original size:20 final size:21
Alignment explanation
Indices: 10659733--10659775 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
10659723 ATTTTAATGA
*
10659733 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
10659754 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
10659774 TT
1 TT
10659776 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:10661111 original size:6 final size:6
Alignment explanation
Indices: 10661100--10661131 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
10661090 CACCATAAGG
*
10661100 GTAACA GTAACA GTAACA GTAACA ATAACA GT
1 GTAACA GTAACA GTAACA GTAACA GTAACA GT
10661132 CAAGTACTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:10661921 original size:38 final size:38
Alignment explanation
Indices: 10661870--10661945 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
10661860 TCCTAGGATA
10661870 CCATAGACACCAAAATTACAAGAAAAATGATTAAATTG
1 CCATAGACACCAAAATTACAAGAAAAATGATTAAATTG
10661908 CCATAGACACCAAAATTACAAGAAAAATGATTAAATTG
1 CCATAGACACCAAAATTACAAGAAAAATGATTAAATTG
10661946 ACTTACCAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.53, C:0.16, G:0.11, T:0.21
Consensus pattern (38 bp):
CCATAGACACCAAAATTACAAGAAAAATGATTAAATTG
Found at i:10673340 original size:164 final size:159
Alignment explanation
Indices: 10673057--10673452 Score: 437
Period size: 164 Copynumber: 2.5 Consensus size: 159
10673047 GTTAACACTA
* * * *
10673057 TATTAAAAAAAAAGACCACAGAGAACCTAGTTAACACTCCAAATTTAATCTTCTCTCTTCAATTT
1 TATTAAAAAAAAA-ACCGCAAAGAACCTAGCTAACACTCCAAATTTAATCTTCTCTCTTCAATTC
* * * * *
10673122 CTACTGAGTCCTTATCAAAAGTCTCTCGACTTCTATGTAATCGATAACAAGATCAACAAAACAAA
65 CAACTGAGTCCTTATCAAAAATCTCTCAACATCTATATAATCGATAACAAGAT---C-AAACAAA
* * * * ** *
10673187 CCATTGTCGATAAGCACCTCCAGACAAAGGACCT
126 CCATTATCAATAAACACCTCAAGACAAAACACAT
* *
10673221 TATTAAAAAAAAACACCGTAAAGAACTTAGCTAACACTCCAAATTTAATCTTCTCTCTTCAATTC
1 TATTAAAAAAAAA-ACCGCAAAGAACCTAGCTAACACTCCAAATTTAATCTTCTCTCTTCAATTC
* * *
10673286 CAACT-AGGTCCTTATTAAAAATCTCTCAACATCTATATAATCGGTAGA-AAGATCAAATAAACC
65 CAACTGA-GTCCTTATCAAAAATCTCTCAACATCTATATAATCGATA-ACAAGATCAAACAAACC
10673349 ATTATCAATAAACACCTCAAGACAAAACACAT
128 ATTATCAATAAACACCTCAAGACAAAACACAT
** * *
10673381 TATT---AAAAAAAGGGCAAAGAACCTAACTAACACTCCAAATTTAATCTTCTCTTTTCAAATTC
1 TATTAAAAAAAAAACCGCAAAGAACCTAGCTAACACTCCAAATTTAATCTTCTCTCTTC-AATTC
10673443 CAA-TGA-TCCT
65 CAACTGAGTCCT
10673453 AAAACCCAAT
Statistics
Matches: 200, Mismatches: 28, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
155 4 0.02
156 41 0.20
157 15 0.08
160 37 0.19
161 1 0.00
163 1 0.00
164 100 0.50
165 1 0.00
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.27
Consensus pattern (159 bp):
TATTAAAAAAAAAACCGCAAAGAACCTAGCTAACACTCCAAATTTAATCTTCTCTCTTCAATTCC
AACTGAGTCCTTATCAAAAATCTCTCAACATCTATATAATCGATAACAAGATCAAACAAACCATT
ATCAATAAACACCTCAAGACAAAACACAT
Found at i:10673994 original size:23 final size:23
Alignment explanation
Indices: 10673964--10674009 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
10673954 TGTCCCAAGA
10673964 TCATCAGCAAGTCGAAAAATTAT
1 TCATCAGCAAGTCGAAAAATTAT
10673987 TCATCAGCAAGTCGAAAAATTAT
1 TCATCAGCAAGTCGAAAAATTAT
10674010 GGCCGAGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.26
Consensus pattern (23 bp):
TCATCAGCAAGTCGAAAAATTAT
Found at i:10679647 original size:35 final size:35
Alignment explanation
Indices: 10679601--10679671 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
10679591 CACATCGAAG
*
10679601 CGTTCAAACCATTTTATGTTGTTTATCTAGAAAAA
1 CGTTCAAACCATTTTATGTTGTTGATCTAGAAAAA
*
10679636 CGTTCAAACCATTTTATGTTGTTGATCTTGAAAAA
1 CGTTCAAACCATTTTATGTTGTTGATCTAGAAAAA
10679671 C
1 C
10679672 TTACTTAGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (35 bp):
CGTTCAAACCATTTTATGTTGTTGATCTAGAAAAA
Found at i:10680534 original size:27 final size:26
Alignment explanation
Indices: 10680499--10680610 Score: 152
Period size: 27 Copynumber: 4.2 Consensus size: 26
10680489 AGAATGGCTG
* *
10680499 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
10680525 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
10680553 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
10680580 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
10680607 CCAG
1 CCAG
10680611 GACGCTTCCT
Statistics
Matches: 78, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
26 6 0.08
27 55 0.71
28 17 0.22
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:10680563 original size:54 final size:54
Alignment explanation
Indices: 10680499--10680610 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 54
10680489 AGAATGGCTG
*
10680499 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * *
10680553 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
10680607 CCAG
1 CCAG
10680611 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 35 0.66
55 18 0.34
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:10696595 original size:50 final size:50
Alignment explanation
Indices: 10696531--10696928 Score: 341
Period size: 50 Copynumber: 7.9 Consensus size: 50
10696521 TAAGATAGTT
* * * *
10696531 TTAGGTCACGTGTGTAGTACTCAGTGTAGGCTACTACGTGTACTAGATTG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * * ** * *
10696581 TTTGGTCACATGTGTAGTACAAAGTG-AAGTTACTATGCATACCCGATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * * *
10696630 CTTCGATCACATGTGTAGTACAAAGTGCATGCTACTACGTGTATCAGATGG
1 -TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
** * * * * *
10696681 TTAGGTCATGTGTGTAGTACTAAGTGGAGGGTACTACATGTACCAAATTA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * * ** *
10696731 TTAGATCGCATGTGTATTACTAAGTGTAGGCTACTATGCATACCCA-ATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATTG
* * * * * * *
10696781 CTTTGATGACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATGG
1 -TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * *
10696832 TCAGGTCACCTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* *
10696882 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
10696929 GAGCTTCGGT
Statistics
Matches: 269, Mismatches: 74, Indels: 10
0.76 0.21 0.03
Matches are distributed among these distances:
49 15 0.06
50 200 0.74
51 54 0.20
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (50 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
Found at i:10696816 original size:151 final size:150
Alignment explanation
Indices: 10696497--10696925 Score: 552
Period size: 151 Copynumber: 2.8 Consensus size: 150
10696487 GTGAGAACAC
* * * * * *
10696497 ACTATGTGCAGGCTACTATGTGTTTAAGATAGTTTTAGGTCACGTGTGTAGTACTCAGTGTAGGC
1 ACTAAGTGCAGGCTACTACGTGTATCAGAT-G-GTTAGGTCACGTGTGTAGTACTAAGTGTAGGC
* * * * * *
10696562 TACTACGTGTACTAGATTGTTTGGTCACATGTGTAGTACAAAGTGAAGTTACTATGCATACCCGA
64 TACTACGTGTACCAGATTGTTAGGTCACATGTGTAGTACTAAGTGAGGCTACTATGCATACCCAA
10696627 TAGCTTCGATCACATGTGTAGT
129 TAGCTTCGATCACATGTGTAGT
* * * * *
10696649 ACAAAGTGCATGCTACTACGTGTATCAGATGGTTAGGTCATGTGTGTAGTACTAAGTGGAGGGTA
1 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGTAGGCTA
* * * * * *
10696714 CTACATGTACCAAATTATTAGATCGCATGTGTATTACTAAGTGTAGGCTACTATGCATACCCAAT
66 CTACGTGTACCAGATTGTTAGGTCACATGTGTAGTACTAAGTG-AGGCTACTATGCATACCCAAT
* * *
10696779 AGCTTTGATGACGTGTGTAGT
130 AGCTTCGATCACATGTGTAGT
* * *
10696800 ACTAAGTGCAGGCTACTACGTGTATCGGATGGTCAGGTCACCTGTGTAGTACTAAGTGTAGGCTA
1 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGTAGGCTA
*
10696865 CTACGTGTACCAGATTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
66 CTACGTGTACCAGATTGTTAGGTCACATGTGTAGTACTAAGTG-AGGCTACTATGCATACC
10696926 AGAGAGCTTC
Statistics
Matches: 234, Mismatches: 42, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
150 63 0.27
151 147 0.63
152 24 0.10
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (150 bp):
ACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGTAGGCTA
CTACGTGTACCAGATTGTTAGGTCACATGTGTAGTACTAAGTGAGGCTACTATGCATACCCAATA
GCTTCGATCACATGTGTAGT
Found at i:10704301 original size:42 final size:42
Alignment explanation
Indices: 10704252--10704366 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 42
10704242 TATTGAGATA
* * *
10704252 ACATGTAAGACGATATCTAGGATATGACATCGATATGAGACGT
1 ACATGTAAGACCATATCTGGGATATGACATCGATACGAGA-GT
* * * * *
10704295 -CGTGTAAGACCATAGCTGGGCTATTGGCATCGATACGAGATT
1 ACATGTAAGACCATATCTGGGATA-TGACATCGATACGAGAGT
10704337 ACATGTAAGACCATATCTGGGATATGACAT
1 ACATGTAAGACCATATCTGGGATATGACAT
10704367 TGGTACGTTA
Statistics
Matches: 58, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
42 24 0.41
43 34 0.59
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (42 bp):
ACATGTAAGACCATATCTGGGATATGACATCGATACGAGAGT
Found at i:10705875 original size:38 final size:38
Alignment explanation
Indices: 10705831--10705910 Score: 160
Period size: 38 Copynumber: 2.1 Consensus size: 38
10705821 TGTTATTGTT
10705831 GTTTTACATGAAATCTATCTGGCTATGATCATATTGAA
1 GTTTTACATGAAATCTATCTGGCTATGATCATATTGAA
10705869 GTTTTACATGAAATCTATCTGGCTATGATCATATTGAA
1 GTTTTACATGAAATCTATCTGGCTATGATCATATTGAA
10705907 GTTT
1 GTTT
10705911 ATGTTAATGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.41
Consensus pattern (38 bp):
GTTTTACATGAAATCTATCTGGCTATGATCATATTGAA
Found at i:10713313 original size:28 final size:27
Alignment explanation
Indices: 10713212--10713313 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 27
10713202 TCAGTGTTAA
* *
10713212 CTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCC-TAGCCCATATCAGTATCAAT
*
10713240 CTGGGCCATAGCCCCT-TACAGTATCAGAGTAT
1 CTGGGCC-TAGCCCATAT-CAGTATC--A--AT
*
10713272 ATTGGGCCTAGCCCATATCAGTATCAAT
1 -CTGGGCCTAGCCCATATCAGTATCAAT
10713300 CTGGGCCGTAGCCC
1 CTGGGCC-TAGCCC
10713314 TATTACAAGT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
27 7 0.12
28 27 0.46
30 2 0.03
32 16 0.27
33 7 0.12
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (27 bp):
CTGGGCCTAGCCCATATCAGTATCAAT
Found at i:10713333 original size:60 final size:59
Alignment explanation
Indices: 10713213--10713340 Score: 161
Period size: 60 Copynumber: 2.1 Consensus size: 59
10713203 CAGTGTTAAC
* *
10713213 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAG-ATCAGAGTATAT
* *
10713274 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACA-AGTC-GAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTACAGA-TCAGAG-TATAT
10713334 TGGGCCT
1 TGGGCCT
10713341 TGGCTATATT
Statistics
Matches: 60, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
59 4 0.07
60 45 0.75
61 11 0.18
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGATCAGAGTATAT
Found at i:10715390 original size:19 final size:18
Alignment explanation
Indices: 10715354--10715397 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
10715344 ATATATGCAG
10715354 TAAT-ATTTTTCAAATAA
1 TAATAATTTTTCAAATAA
*
10715371 TAATAATTTTATCTAATAA
1 TAATAATTTT-TCAAATAA
*
10715390 TACTAATT
1 TAATAATT
10715398 AAAATTTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (18 bp):
TAATAATTTTTCAAATAA
Found at i:10718038 original size:20 final size:21
Alignment explanation
Indices: 10718008--10718047 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
10717998 TCCTTTTTGG
10718008 AAGGTGGATATCACAATACCC
1 AAGGTGGATATCACAATACCC
*
10718029 AAGG-GGATATCGCAATACC
1 AAGGTGGATATCACAATACC
10718048 AATGAAGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (21 bp):
AAGGTGGATATCACAATACCC
Found at i:10722760 original size:42 final size:42
Alignment explanation
Indices: 10722701--10722816 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 42
10722691 CCTATGGTGT
10722701 CCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCAATACTGC
1 CCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCAATACTGC
* * * * * ** **
10722743 TCGAGGCTCCTGGACATCCGAGGCACTAAGGTGCCGGTGGTGC
1 CCGAGGCTCCCGCACATCC-AAGCACCAAGGTGCCAATACTGC
*
10722786 CCGAAGCTCCCGCACATCCAAGCACCAAGGT
1 CCGAGGCTCCCGCACATCCAAGCACCAAGGT
10722817 ACTGATGGTA
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
42 26 0.45
43 32 0.55
ACGTcount: A:0.23, C:0.36, G:0.27, T:0.14
Consensus pattern (42 bp):
CCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCAATACTGC
Found at i:10722849 original size:42 final size:43
Alignment explanation
Indices: 10722803--10722911 Score: 114
Period size: 43 Copynumber: 2.6 Consensus size: 43
10722793 TCCCGCACAT
*
10722803 CCAAGCACCAAGG-TACTGATGGTACCCGAGGCTCTCACACGA
1 CCAAGCACCAAGGTTACCGATGGTACCCGAGGCTCTCACACGA
** * * * *
10722845 CCAAGGGCCTAGGTTACCGATGGTGCCCGAGGCTCTCGCGCGA
1 CCAAGCACCAAGGTTACCGATGGTACCCGAGGCTCTCACACGA
* *
10722888 CCAAAG-GCCTAGGTTACCGATGGT
1 CC-AAGCACCAAGGTTACCGATGGT
10722912 GTCCGTGGCT
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
42 10 0.17
43 45 0.78
44 3 0.05
ACGTcount: A:0.23, C:0.31, G:0.29, T:0.17
Consensus pattern (43 bp):
CCAAGCACCAAGGTTACCGATGGTACCCGAGGCTCTCACACGA
Found at i:10722874 original size:43 final size:43
Alignment explanation
Indices: 10722820--10722922 Score: 152
Period size: 43 Copynumber: 2.4 Consensus size: 43
10722810 CCAAGGTACT
* *
10722820 GATGGTACCCGAGGCTCTCACACGACCAAGGGCCTAGGTTACC
1 GATGGTGCCCGAGGCTCTCACACGACCAAAGGCCTAGGTTACC
* *
10722863 GATGGTGCCCGAGGCTCTCGCGCGACCAAAGGCCTAGGTTACC
1 GATGGTGCCCGAGGCTCTCACACGACCAAAGGCCTAGGTTACC
* *
10722906 GATGGTGTCCGTGGCTC
1 GATGGTGCCCGAGGCTC
10722923 CCGGACATCC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.18, C:0.31, G:0.32, T:0.18
Consensus pattern (43 bp):
GATGGTGCCCGAGGCTCTCACACGACCAAAGGCCTAGGTTACC
Found at i:10723271 original size:24 final size:24
Alignment explanation
Indices: 10723244--10723311 Score: 118
Period size: 24 Copynumber: 2.8 Consensus size: 24
10723234 TTCTGGGAAC
*
10723244 GCTCGCCAGAGCACCGCCGGGATG
1 GCTCGCCGGAGCACCGCCGGGATG
10723268 GCTCGCCGGAGCACCGCCGGGATG
1 GCTCGCCGGAGCACCGCCGGGATG
*
10723292 TCTCGCCGGAGCACCGCCGG
1 GCTCGCCGGAGCACCGCCGG
10723312 AAACCTAATC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.13, C:0.40, G:0.38, T:0.09
Consensus pattern (24 bp):
GCTCGCCGGAGCACCGCCGGGATG
Found at i:10736606 original size:6 final size:6
Alignment explanation
Indices: 10736597--10736643 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
10736587 AGAAAAAGAA
* **
10736597 AAAAAT -AAAAT AAGAAT AATAAAT ACGAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AA-AAAT AAAAAT AAAAAT AAAAAT AAAAA
10736644 GATAGGAGGA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
5 5 0.15
6 24 0.73
7 4 0.12
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:10739894 original size:76 final size:76
Alignment explanation
Indices: 10739796--10739949 Score: 281
Period size: 76 Copynumber: 2.0 Consensus size: 76
10739786 TGGTAAGTTA
* *
10739796 ATATGTAATTTCTTTAAAAGTTTGACAAACTTACCGAATTGTTCTTCTGTTCTGTCTTTCGTCAT
1 ATATGTAATTTCTTTAAAAGTTTGACAAACTTACCGAATTGTTCTTCTGTTCTATATTTCGTCAT
10739861 CGCTTTAGGAT
66 CGCTTTAGGAT
*
10739872 ATATGTAATTTCTTTAAGAGTTTGACAAACTTACCGAATTGTTCTTCTGTTCTATATTTCGTCAT
1 ATATGTAATTTCTTTAAAAGTTTGACAAACTTACCGAATTGTTCTTCTGTTCTATATTTCGTCAT
10739937 CGCTTTAGGAT
66 CGCTTTAGGAT
10739948 AT
1 AT
10739950 GGCACACGAG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.25, C:0.16, G:0.14, T:0.45
Consensus pattern (76 bp):
ATATGTAATTTCTTTAAAAGTTTGACAAACTTACCGAATTGTTCTTCTGTTCTATATTTCGTCAT
CGCTTTAGGAT
Found at i:10741879 original size:13 final size:13
Alignment explanation
Indices: 10741857--10741889 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
10741847 AAGGGTTTGT
10741857 TTAT-TAAACTAA
1 TTATCTAAACTAA
10741869 TTATCTAAACTAA
1 TTATCTAAACTAA
*
10741882 TTAACTAA
1 TTATCTAA
10741890 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:10747702 original size:46 final size:45
Alignment explanation
Indices: 10747559--10747702 Score: 118
Period size: 46 Copynumber: 3.1 Consensus size: 45
10747549 CCCGCCCCTA
*
10747559 AGTGAACTCGGACTCAACTCAACTAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * * *
10747606 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCT
*
10747652 AGTGAACTCGAACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
10747698 AGTGA
1 AGTGA
10747703 CATGTCACTT
Statistics
Matches: 77, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 32 0.42
47 30 0.39
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.24
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:10748139 original size:30 final size:30
Alignment explanation
Indices: 10748105--10748164 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
10748095 ATTTTATACG
10748105 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
10748135 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
10748165 GGCTTGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:10763712 original size:16 final size:17
Alignment explanation
Indices: 10763686--10763733 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
10763676 TCCTTCTCCA
10763686 TCTTCTTTTTCCTTCTT
1 TCTTCTTTTTCCTTCTT
*
10763703 TCTT-TTTTTCTTTCTT
1 TCTTCTTTTTCCTTCTT
*
10763719 T-TTCTTCTT-CTTCTT
1 TCTTCTTTTTCCTTCTT
10763734 CAACTTTCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 7 0.26
16 16 0.59
17 4 0.15
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (17 bp):
TCTTCTTTTTCCTTCTT
Found at i:10763730 original size:12 final size:13
Alignment explanation
Indices: 10763688--10763727 Score: 64
Period size: 12 Copynumber: 3.1 Consensus size: 13
10763678 CTTCTCCATC
10763688 TTCTTTTTCCTTCT
1 TTCTTTTT-CTTCT
10763702 TTCTTTTT-TTCT
1 TTCTTTTTCTTCT
10763714 TTCTTTTTCTTCT
1 TTCTTTTTCTTCT
10763727 T
1 T
10763728 CTTCTTCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.48
13 5 0.20
14 8 0.32
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (13 bp):
TTCTTTTTCTTCT
Found at i:10770130 original size:116 final size:116
Alignment explanation
Indices: 10769926--10770154 Score: 368
Period size: 116 Copynumber: 2.0 Consensus size: 116
10769916 AATATTATAA
* *
10769926 AGAATTTATACAGTTTAACTCCACATGGTCTTAACTTAGATAACAACTAGTAATTAAAACATACA
1 AGAATTTATACAGTTTAACTCCACATAGTCTTAACTTAGATAACAACCAGTAATTAAAACATACA
* * *
10769991 TCTCATAAAAATATCATAATTTATATATCAACCCAATTTCATATATAGCAG
66 TCTCATAAAAATATCAAAATTTATATATCAACACAATTTCATAAATAGCAG
* * * *
10770042 AGAATTTATACAGTTTAATTCTACATAGTCTTAACTTAGGTAACAACCAGTAATTAAAACATACG
1 AGAATTTATACAGTTTAACTCCACATAGTCTTAACTTAGATAACAACCAGTAATTAAAACATACA
*
10770107 TTTCATAAAAATATCAAAATTTATATATCAACACAATTTCATAAATAG
66 TCTCATAAAAATATCAAAATTTATATATCAACACAATTTCATAAATAG
10770155 TAGTATGCAT
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
116 103 1.00
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (116 bp):
AGAATTTATACAGTTTAACTCCACATAGTCTTAACTTAGATAACAACCAGTAATTAAAACATACA
TCTCATAAAAATATCAAAATTTATATATCAACACAATTTCATAAATAGCAG
Found at i:10770569 original size:48 final size:48
Alignment explanation
Indices: 10770496--10770603 Score: 144
Period size: 48 Copynumber: 2.2 Consensus size: 48
10770486 TTCCAGTGGA
* * * * *
10770496 CATGCTTAATATGTATTTTAGATTAATTTTACAGAACAGTTTAATGGG
1 CATGCTTAACATGTATTTCAAATTAATTTTACAGAACAGTTCAATGAG
* *
10770544 CATGCTTAACATGTGTTTCAAATTAATTTTACAGAACAGTTCAGTGAG
1 CATGCTTAACATGTATTTCAAATTAATTTTACAGAACAGTTCAATGAG
*
10770592 CATTCTTAACAT
1 CATGCTTAACAT
10770604 ACGAATAATA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (48 bp):
CATGCTTAACATGTATTTCAAATTAATTTTACAGAACAGTTCAATGAG
Found at i:10779286 original size:44 final size:44
Alignment explanation
Indices: 10779232--10779318 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 44
10779222 GCAGGACAGC
* *
10779232 TCAACGCCGTAGGCAGGACAGCTCAACACCATAGGCAGGACGAT
1 TCAACACCGTAGGCAGGACAGCTCAACACCATAGACAGGACGAT
* *
10779276 TCAACACCGTAGGCAGGACGGCTCAACACCTTAGACAGGACGA
1 TCAACACCGTAGGCAGGACAGCTCAACACCATAGACAGGACGA
10779319 CTAAAGGCCG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.32, C:0.30, G:0.26, T:0.11
Consensus pattern (44 bp):
TCAACACCGTAGGCAGGACAGCTCAACACCATAGACAGGACGAT
Found at i:10779317 original size:22 final size:22
Alignment explanation
Indices: 10779222--10779317 Score: 120
Period size: 22 Copynumber: 4.4 Consensus size: 22
10779212 CACTAAGTCA
* *
10779222 GCAGGACAGCTCAACGCCGTAG
1 GCAGGACGGCTCAACACCGTAG
* *
10779244 GCAGGACAGCTCAACACCATAG
1 GCAGGACGGCTCAACACCGTAG
**
10779266 GCAGGACGATTCAACACCGTAG
1 GCAGGACGGCTCAACACCGTAG
*
10779288 GCAGGACGGCTCAACACCTTAG
1 GCAGGACGGCTCAACACCGTAG
*
10779310 ACAGGACG
1 GCAGGACG
10779318 ACTAAAGGCC
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 64 1.00
ACGTcount: A:0.31, C:0.30, G:0.28, T:0.10
Consensus pattern (22 bp):
GCAGGACGGCTCAACACCGTAG
Found at i:10779330 original size:44 final size:44
Alignment explanation
Indices: 10779234--10779330 Score: 131
Period size: 44 Copynumber: 2.2 Consensus size: 44
10779224 AGGACAGCTC
* * *
10779234 AACGCCGTAGGCAGGACAGCTCAACACCATAGGCAGGACGATTC
1 AACGCCGTAGGCAGGACAGCTCAACACCATAGACAGGACGACTA
* * *
10779278 AACACCGTAGGCAGGACGGCTCAACACCTTAGACAGGACGACTA
1 AACGCCGTAGGCAGGACAGCTCAACACCATAGACAGGACGACTA
*
10779322 AAGGCCGTA
1 AACGCCGTA
10779331 AATATCGCAG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.33, C:0.29, G:0.27, T:0.11
Consensus pattern (44 bp):
AACGCCGTAGGCAGGACAGCTCAACACCATAGACAGGACGACTA
Found at i:10779593 original size:27 final size:26
Alignment explanation
Indices: 10779563--10779654 Score: 85
Period size: 27 Copynumber: 3.4 Consensus size: 26
10779553 GGGCATAATC
* *
10779563 GTCATTCTACCTTACAAGGGTATTATG
1 GTCATTTTACC-TACAAGGGTATTACG
* *
10779590 GTCATTTTACCCTATAGGGGTATTACG
1 GTCATTTTA-CCTACAAGGGTATTACG
* *
10779617 ATCATTTTACACTACAAGGGTATTTCG
1 GTCATTTTAC-CTACAAGGGTATTACG
* *
10779644 ATAATTTTACC
1 GTCATTTTACC
10779655 AATATTGGGG
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
26 2 0.04
27 50 0.93
28 2 0.04
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.38
Consensus pattern (26 bp):
GTCATTTTACCTACAAGGGTATTACG
Found at i:10783058 original size:42 final size:42
Alignment explanation
Indices: 10782946--10783067 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 42
10782936 TTCCACACCA
* * *
10782946 ATGCCATATCCCAGATATAGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAGATCTCATATCG
* * * *
10782988 ATGCCAATAGCCTAGGTATGGTCTTACACGA-AGTTTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAGA-TCTCATATCG
*
10783031 ATGTCATATCCCAGATATGGTCTTACACGTA-ATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACG-AGATCTCA
10783068 GTAACCCTAA
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
42 31 0.48
43 34 0.52
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAGATCTCATATCG
Found at i:10796197 original size:17 final size:16
Alignment explanation
Indices: 10796169--10796211 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
10796159 AACAAATAAT
*
10796169 TTAAAAATTAAAAATA
1 TTAAAAAATAAAAATA
10796185 TTGAAAAAAT-AAAATA
1 TT-AAAAAATAAAAATA
10796201 TTAAGAAAATA
1 TTAA-AAAATA
10796212 GCATAAACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 2 0.09
16 15 0.65
17 6 0.26
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (16 bp):
TTAAAAAATAAAAATA
Found at i:10798244 original size:47 final size:47
Alignment explanation
Indices: 10798152--10798271 Score: 116
Period size: 47 Copynumber: 2.6 Consensus size: 47
10798142 TCGGCTTCGC
* * * **
10798152 CACATATATACAC-TTCCACGTTTATCACATTAGCCATTCTACCTTAT
1 CACACATATACACATT-CACATTCATCACATTAGCCATTAGACCTTAT
* ** * *
10798199 CACACATATGCATGTTCACATTCATCACATTGGCCATTAGGCCTTAT
1 CACACATATACACATTCACATTCATCACATTAGCCATTAGACCTTAT
* *
10798246 CTCATATATACACATTCACATTCATC
1 CACACATATACACATTCACATTCATC
10798272 TCATAAAATC
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
47 56 0.97
48 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.34
Consensus pattern (47 bp):
CACACATATACACATTCACATTCATCACATTAGCCATTAGACCTTAT
Found at i:10801165 original size:21 final size:21
Alignment explanation
Indices: 10801122--10801166 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
10801112 GAAAAATAAG
* *
10801122 AAAGAAAAAAGAAATAATGTA
1 AAAGAAAAAAAAAAGAATGTA
10801143 AAAGAAAAAATAAAAGAAT-TA
1 AAAGAAAAAA-AAAAGAATGTA
10801164 AAA
1 AAA
10801167 AAATATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (21 bp):
AAAGAAAAAAAAAAGAATGTA
Found at i:10807816 original size:57 final size:58
Alignment explanation
Indices: 10807692--10807821 Score: 147
Period size: 57 Copynumber: 2.3 Consensus size: 58
10807682 CATATGTTGC
* * * * *
10807692 AGATAGAATTTAGCCCGGACGGGTAATTCTAATGTAAGCCCTCTTGAGCTTAGGCTAT
1 AGATAGGATTTAGCCCAGACGAGTAATTCTAATGTAAGCCCTCTAGAGCATAGGCTAT
* * * *
10807750 AAATTGGATTTAGCCCAGACGAGTAA-TCTATAT-TAAGCTCTCTAGAGCATATGCTAT
1 AGATAGGATTTAGCCCAGACGAGTAATTCTA-ATGTAAGCCCTCTAGAGCATAGGCTAT
*
10807807 GGATAGGATTTAGCC
1 AGATAGGATTTAGCC
10807822 TAGATTGGTA
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
57 36 0.61
58 23 0.39
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (58 bp):
AGATAGGATTTAGCCCAGACGAGTAATTCTAATGTAAGCCCTCTAGAGCATAGGCTAT
Found at i:10822502 original size:29 final size:29
Alignment explanation
Indices: 10822443--10822516 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
10822433 GTTGTGAGAT
* *
10822443 TGGCACTAGGTGTGCGAACTTGAAATGCA
1 TGGCACTAAGTGTGCGAACTTGAAAGGCA
* *
10822472 TGGCACTAAGTGTGCG-AGTTTAAAGGACA
1 TGGCACTAAGTGTGCGAACTTGAAAGG-CA
*
10822501 TGGCAATAAGTGTGCG
1 TGGCACTAAGTGTGCG
10822517 TGGTTGATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 7 0.18
29 32 0.82
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAACTTGAAAGGCA
Found at i:10827331 original size:43 final size:42
Alignment explanation
Indices: 10827283--10827510 Score: 281
Period size: 40 Copynumber: 5.5 Consensus size: 42
10827273 TATTCGGATG
*
10827283 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCG-GTAGTTACT
** *
10827326 ATATCCGGGCTAAGTCCTAAAGGCATTTGTGC--TAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGGTAGTTACT
* *
10827366 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCG-GTAGTTACT
* *
10827409 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGC--TAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGGTAGTTACT
* * *
10827449 ATATCCGGGCTAAGACCCGAAGGCATTTGTG-TG-AGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGGTAGTTACT
*
10827489 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
10827511 TACTTGGGTT
Statistics
Matches: 161, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
39 14 0.09
40 81 0.50
43 66 0.41
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (42 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGGTAGTTACT
Found at i:10827422 original size:83 final size:83
Alignment explanation
Indices: 10827283--10827484 Score: 341
Period size: 83 Copynumber: 2.4 Consensus size: 83
10827273 TATTCGGATG
* *
10827283 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTCCTATATCCGGGCTAAGTCCTAAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTCCTATACCCGGGCTAAGTCCCAAAG
10827348 GCATTTGTGCTAGTGACT
66 GCATTTGTGCTAGTGACT
* * *
10827366 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTCCTATACCCGGGCTAAGTCCCAAAG
10827431 GCATTTGTGCTAGTGACT
66 GCATTTGTGCTAGTGACT
* *
10827449 ATATCCGGGCTAAGACCCGAAGGCATTTGTGTGAGT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
10827485 TGCTATATCC
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 111 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.27
Consensus pattern (83 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTCCTATACCCGGGCTAAGTCCCAAAG
GCATTTGTGCTAGTGACT
Found at i:10827529 original size:83 final size:82
Alignment explanation
Indices: 10827283--10827510 Score: 291
Period size: 83 Copynumber: 2.8 Consensus size: 82
10827273 TATTCGGATG
* * * * * **
10827283 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTCCTATATCCGGGCTAAGTCCTAAAG
1 ATATCCGGGCGAAGACCCGAAGGCATTTGT-CGAGTAGTTGCTATACCCGGGCTAAATCCCGAAG
*
10827348 GCATTTGTGCTAGTGACT
65 GCATTTGTGCAAGTGACT
* *
10827366 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCGAAGACCCGAAGGCATTTGT-CGAGTAGTTGCTATACCCGGGCTAAATCCCGAAG
*
10827431 GCATTTGTGCTAGTGACT
65 GCATTTGTGCAAGTGACT
* * *
10827449 ATATCCGGGCTAAGACCCGAAGGCATTTGT-GTG-AGTTGCTATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCGAAGACCCGAAGGCATTTGTCGAGTAGTTGCTATACCCGGGCTAAATCCCGAAGG
10827511 TACTTGGGTT
Statistics
Matches: 135, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
79 15 0.11
80 12 0.09
81 2 0.01
83 106 0.79
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (82 bp):
ATATCCGGGCGAAGACCCGAAGGCATTTGTCGAGTAGTTGCTATACCCGGGCTAAATCCCGAAGG
CATTTGTGCAAGTGACT
Found at i:10835437 original size:40 final size:40
Alignment explanation
Indices: 10835371--10835638 Score: 299
Period size: 40 Copynumber: 6.6 Consensus size: 40
10835361 TATTCGGATG
*
10835371 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * **
10835411 ATATCTGGGCGAAGTCCCGGAGGCATTTGTGCGAGTAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTGACT
*
10835454 ATATACGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
10835494 ATATCCTGGCGAAGTCCTGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
*
10835537 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
10835577 ATATCCGGGCTAAGACTCGAAGGCATTTGTACGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
10835617 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
10835639 TACTTGGGTT
Statistics
Matches: 191, Mismatches: 28, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
39 15 0.08
40 105 0.55
41 2 0.01
43 67 0.35
44 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:10835518 original size:83 final size:83
Alignment explanation
Indices: 10835371--10835612 Score: 362
Period size: 83 Copynumber: 2.9 Consensus size: 83
10835361 TATTCGGATG
* * *
10835371 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATAT-CTGGGCGAAGTCCCGGAGGC
1 ATATACGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCT-GGCGAAGTCCTGAAGGC
10835435 ATTTGTGCGAGTAGTTCCT
65 ATTTGTGCGAGTAGTTCCT
10835454 ATATACGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCTGGCGAAGTCCTGAAGGCA
1 ATATACGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCTGGCGAAGTCCTGAAGGCA
*
10835519 TTTGTGCGAGTAGTTGCT
66 TTTGTGCGAGTAGTTCCT
** * * *
10835537 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAG-ACTCGAAGGC
1 ATATACGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCTGGCGAAGTCCT-GAAGGC
*
10835601 ATTTGTACGAGT
65 ATTTGTGCGAGT
10835613 TGCTATATCC
Statistics
Matches: 147, Mismatches: 10, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
82 2 0.01
83 143 0.97
84 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.28
Consensus pattern (83 bp):
ATATACGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCTGGCGAAGTCCTGAAGGCA
TTTGTGCGAGTAGTTCCT
Found at i:10835619 original size:123 final size:121
Alignment explanation
Indices: 10835382--10835638 Score: 297
Period size: 123 Copynumber: 2.1 Consensus size: 121
10835372 TATTCGGGCT
* * *
10835382 AAGTCCCGAAGGCATTTGTGCTAGTGACTATATCTGGGCGAAGTCCCGGAGGCATTTGTGCGAGT
1 AAGTCCCGAAGGCATTTGTGCTAGTGACTATACCCGGGCGAAGTCCCGAAGGCATTTGTGC--GT
** * * *
10835447 AGTTCCTATATACGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCTGGCG
64 AGTGACTATATACGGGCTAAGACCCGAAGGCATTTGTACGAGTGACTATATCCTGGCG
* *
10835505 AAGTCCTGAAGGCATTTGTGCGAGTAGTTG-CTATACCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 AAGTCCCGAAGGCATTTGTGC---TAG-TGACTATACCCGGGCGAAGTCCCGAAGGCATTTGTGC
* * *
10835569 -TAGTGACTATATCCGGGCTAAGACTCGAAGGCATTTGTACGAGTTG-CTATATCC-GGCT
62 GTAGTGACTATATACGGGCTAAGACCCGAAGGCATTTGTACGAG-TGACTATATCCTGGCG
*
10835627 AAATCCCGAAGG
1 AAGTCCCGAAGG
10835639 TACTTGGGTT
Statistics
Matches: 114, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
122 13 0.11
123 64 0.56
124 2 0.02
126 33 0.29
127 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (121 bp):
AAGTCCCGAAGGCATTTGTGCTAGTGACTATACCCGGGCGAAGTCCCGAAGGCATTTGTGCGTAG
TGACTATATACGGGCTAAGACCCGAAGGCATTTGTACGAGTGACTATATCCTGGCG
Found at i:10838941 original size:22 final size:19
Alignment explanation
Indices: 10838915--10838956 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
10838905 AGATAGTTAT
10838915 TAATATATAATTATATCTATTA
1 TAATATAT-ATTA-AT-TATTA
10838937 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
10838956 T
1 T
10838957 CAACTTTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:10838952 original size:16 final size:15
Alignment explanation
Indices: 10838912--10838953 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
10838902 AAAAGATAGT
10838912 TATTAATATATAATTA
1 TATTAAT-TATAATTA
10838928 TATCT-ATTATAATATA
1 TAT-TAATTATAAT-TA
10838944 TATTAATTAT
1 TATTAATTAT
10838954 TATCAACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.30
16 15 0.65
17 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:10854411 original size:46 final size:46
Alignment explanation
Indices: 10854344--10854509 Score: 223
Period size: 46 Copynumber: 3.6 Consensus size: 46
10854334 TACATCTCAC
10854344 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
* * * *
10854390 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGTTC-GA--AC-A-TTCGCATCCGTAAGT
10854437 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
10854483 GAACTCGGACTCAACTCAACGAGTTCG
1 GAACTCGGACTCAACTCAACGAGTTCG
10854510 GATGCTCAAC
Statistics
Matches: 103, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 55 0.53
47 28 0.27
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
Found at i:10854451 original size:93 final size:93
Alignment explanation
Indices: 10854292--10854514 Score: 437
Period size: 93 Copynumber: 2.4 Consensus size: 93
10854282 AACCCGCCCC
*
10854292 TAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTACATCTCACGAACTCGGACTCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGACTCA
10854357 ACTCAACGAGTTCGAACATTCGCATCCG
66 ACTCAACGAGTTCGAACATTCGCATCCG
10854385 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGACTCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGACTCA
10854450 ACTCAACGAGTTCGAACATTCGCATCCG
66 ACTCAACGAGTTCGAACATTCGCATCCG
10854478 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
10854515 TCAACCATCC
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 129 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGACTCA
ACTCAACGAGTTCGAACATTCGCATCCG
Found at i:10854462 original size:47 final size:47
Alignment explanation
Indices: 10854297--10854463 Score: 218
Period size: 47 Copynumber: 3.6 Consensus size: 47
10854287 GCCCCTAAGT
*
10854297 GAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
10854344 GAACTCGGACTCAACTCAACGAGTTC-GA--AC-A-TTCGCATCCGTAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-C
10854390 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
10854437 GAACTCGGACTCAACTCAACGAGTTCG
1 GAACTCGGACTCAACTCAACGAGTTCG
10854464 AACATTCGCA
Statistics
Matches: 102, Mismatches: 9, Indels: 18
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 28 0.27
47 54 0.53
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:10854530 original size:46 final size:46
Alignment explanation
Indices: 10854290--10854530 Score: 185
Period size: 46 Copynumber: 5.2 Consensus size: 46
10854280 GTAACCCGCC
*
10854290 CCTAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGC-CTAGTTACAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACAT
* * * *** *
10854339 -CTCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTC-GCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAT
10854382 CCGTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACAT
* * * *** *
10854432 -CTCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTC-GCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAT
10854475 CCGTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA-CAT
10854523 CCT-AGTGA
1 CCTAAGTGA
10854531 CATGTCACTT
Statistics
Matches: 148, Mismatches: 29, Indels: 33
0.70 0.14 0.16
Matches are distributed among these distances:
43 6 0.04
44 2 0.01
45 5 0.03
46 63 0.43
47 56 0.38
48 12 0.08
49 1 0.01
50 3 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (46 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAT
Found at i:10859588 original size:16 final size:16
Alignment explanation
Indices: 10859567--10859598 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10859557 ACTTGGGGAC
10859567 GAGGATTCATATTTCT
1 GAGGATTCATATTTCT
10859583 GAGGATTCATATTTCT
1 GAGGATTCATATTTCT
10859599 TGACTTTCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (16 bp):
GAGGATTCATATTTCT
Found at i:10866924 original size:23 final size:23
Alignment explanation
Indices: 10866870--10866925 Score: 96
Period size: 22 Copynumber: 2.5 Consensus size: 23
10866860 CATTTCATGG
*
10866870 ATTTTCATGCAATGAATATCTAA
1 ATTTTCATACAATGAATATCTAA
10866893 A-TTTCATACAATGAATATCTAA
1 ATTTTCATACAATGAATATCTAA
10866915 ATTTTCATACA
1 ATTTTCATACA
10866926 TTCAAGAACA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 21 0.68
23 10 0.32
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.39
Consensus pattern (23 bp):
ATTTTCATACAATGAATATCTAA
Found at i:10883411 original size:39 final size:40
Alignment explanation
Indices: 10883340--10883562 Score: 258
Period size: 39 Copynumber: 5.7 Consensus size: 40
10883330 GCTACTCGTT
* * *
10883340 CAAATGCTTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
* *
10883380 CAATTGCCTTC-GGACTTAACCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
10883419 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
10883458 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
10883498 CAAATGCCTTCGGGACTTAA-CCAGATTTGGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
*
10883538 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
10883563 CATCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 92 0.59
40 65 0.41
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:10883474 original size:79 final size:80
Alignment explanation
Indices: 10883307--10883562 Score: 265
Period size: 79 Copynumber: 3.2 Consensus size: 80
10883297 AAATCACGTA
* * * * * * **
10883307 CCTTCGGAATTTAA-CCGGATATAGCT-ACTCGTTCAAATGCTTTCGGGACATAGCCCGGTTATA
1 CCTTCGGGACTTAACCCGGATTTAG-TAACTCGTACAAATGCCTTCGGGACTTAGCCCGAATATA
*
10883370 GTAACTCGCACAATTG
65 GTAACTCGCACAAATG
10883386 CCTTC-GGACTTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGG-CTTAGCCCGAA-ATTA
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGGACTTAGCCCGAATA-TA
*
10883448 GTATCTCGCACAAATG
65 GTAACTCGCACAAATG
* * * * * *
10883464 CCTTCGGGACTTAACCCAGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCAG-ATTTGG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGGACTTAGCCCGAATATAG
* *
10883528 TCACTTAGCACAAA-G
66 TAAC-TCGCACAAATG
*
10883543 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
10883563 CATCATTCAA
Statistics
Matches: 149, Mismatches: 21, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
77 1 0.01
78 36 0.24
79 97 0.65
80 15 0.10
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGGACTTAGCCCGAATATAG
TAACTCGCACAAATG
Found at i:10891434 original size:79 final size:78
Alignment explanation
Indices: 10891290--10891547 Score: 279
Period size: 79 Copynumber: 3.3 Consensus size: 78
10891280 AAATCACGTA
* * * * * * *
10891290 CCTTCGGAATTTAA-CCGGATATAGCT-ACTCGTTCAAATGCTTTCGGGACATAGCCCGGTTATA
1 CCTTCGGGACTTAACCCGGATTTAG-TAACTCGTACAAATGCCTTCGGGACTTAGCCCGATT-TA
10891353 GTAACTCGCACAATTG
64 GTAACTCGCACAA-TG
*
10891369 CCTTCGGGACTTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGG-CTTAGCCCGAAATTAG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGGACTTAGCCCG-ATTTAG
*
10891433 TATCTCGCACAAATG
65 TAACTCGCAC-AATG
* * * *
10891448 CCTTCGGGACTTAACCCAGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGGACTTAGCCC-GATTTAG
* * *
10891513 TCACTTAGCACAAAG
65 TAAC-TCGCACAATG
*
10891528 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
10891548 CATCATTCAA
Statistics
Matches: 152, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
79 81 0.53
80 65 0.43
81 6 0.04
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (78 bp):
CCTTCGGGACTTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGGACTTAGCCCGATTTAGT
AACTCGCACAATG
Found at i:10891501 original size:119 final size:120
Alignment explanation
Indices: 10891323--10891545 Score: 326
Period size: 119 Copynumber: 1.9 Consensus size: 120
10891313 GCTACTCGTT
* * * *
10891323 CAAATGCTTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
10891388 ATTTAGTAAC-TCGTACAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
66 ATTTAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGAAATTAGTATCTCGCA
*
10891442 CAAATGCCTTCGGGACTTAACCCAGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACATAACCC-GATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
10891506 GATTTGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
65 GATTTAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCG
10891546 GACATCATTC
Statistics
Matches: 92, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
119 73 0.79
120 19 0.21
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAACCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATTTAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGAAATTAGTATCTCGCA
Found at i:10891547 original size:40 final size:40
Alignment explanation
Indices: 10891323--10891547 Score: 285
Period size: 40 Copynumber: 5.7 Consensus size: 40
10891313 GCTACTCGTT
* * *
10891323 CAAATGCTTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
* *
10891363 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
10891403 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
10891442 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
10891482 CAAATGCCTTCGGGACTTAACCCGGATTTGGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
*
10891523 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
10891548 CATCATTCAA
Statistics
Matches: 161, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
39 34 0.21
40 117 0.73
41 10 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:10894467 original size:15 final size:15
Alignment explanation
Indices: 10894447--10894477 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10894437 TTTAATTATT
10894447 TTATAAGTCCGGTAA
1 TTATAAGTCCGGTAA
10894462 TTATAAGTCCGGTAA
1 TTATAAGTCCGGTAA
10894477 T
1 T
10894478 ACTCTGTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (15 bp):
TTATAAGTCCGGTAA
Found at i:10904285 original size:40 final size:40
Alignment explanation
Indices: 10904208--10904285 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 40
10904198 CGACTATGTT
* **
10904208 TAGCACTTAGTGTGCGTTTCAAAATAGCTTCGGCTATAAA
1 TAGCACTTAGTGTGCGATTCAAAATAGCTTCAACTATAAA
**
10904248 TAGCACTTAGTGTGCGAATT-GGAATAGCTTCAACTATA
1 TAGCACTTAGTGTGCG-ATTCAAAATAGCTTCAACTATA
10904286 TGAGGCACTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 30 0.94
41 2 0.06
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.32
Consensus pattern (40 bp):
TAGCACTTAGTGTGCGATTCAAAATAGCTTCAACTATAAA
Found at i:10909387 original size:30 final size:29
Alignment explanation
Indices: 10909352--10909412 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 29
10909342 AACAAGAAAA
10909352 CAGAATAAAGAAATCCAAGATAGAA-AAACC
1 CAGAATAAAGAAATCC-AGATA-AAGAAACC
10909382 CAGAATAAAGAAATCCAGATAAAGAAACC
1 CAGAATAAAGAAATCCAGATAAAGAAACC
10909411 CA
1 CA
10909413 AGATACGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
28 2 0.07
29 12 0.40
30 16 0.53
ACGTcount: A:0.59, C:0.18, G:0.13, T:0.10
Consensus pattern (29 bp):
CAGAATAAAGAAATCCAGATAAAGAAACC
Found at i:10909416 original size:15 final size:14
Alignment explanation
Indices: 10909356--10909417 Score: 63
Period size: 15 Copynumber: 4.2 Consensus size: 14
10909346 AGAAAACAGA
*
10909356 ATAAAGAAATCCAAG
1 ATAAAGAAA-CCCAG
10909371 ATAGAA-AAACCCAG
1 ATA-AAGAAACCCAG
*
10909385 AATAAAGAAATCCAG
1 -ATAAAGAAACCCAG
10909400 ATAAAGAAACCCAAG
1 ATAAAGAAACCC-AG
10909415 ATA
1 ATA
10909418 CGATACTATG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
14 17 0.43
15 21 0.52
16 2 0.05
ACGTcount: A:0.60, C:0.16, G:0.13, T:0.11
Consensus pattern (14 bp):
ATAAAGAAACCCAG
Found at i:10920447 original size:46 final size:45
Alignment explanation
Indices: 10920304--10920447 Score: 118
Period size: 46 Copynumber: 3.1 Consensus size: 45
10920294 ACCCGCCCTA
*
10920304 AGTGAACTCGGACTCAACTCAACTAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * * *
10920351 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCT
*
10920397 AGTGAACTCGAACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
10920443 AGTGA
1 AGTGA
10920448 CATGTCACTT
Statistics
Matches: 77, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 32 0.42
47 30 0.39
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.24
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:10920883 original size:30 final size:30
Alignment explanation
Indices: 10920849--10920908 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
10920839 ATTTTATACG
10920849 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
10920879 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
10920909 GGCTTGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:10928006 original size:93 final size:93
Alignment explanation
Indices: 10927847--10928017 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
10927837 GCCCCTAAGT
*
10927847 GAACTCAGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
10927912 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
10927940 GAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAATGAACTCGGACTCAACTCA
10928004 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
10928018 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:10928012 original size:46 final size:46
Alignment explanation
Indices: 10927842--10928014 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
10927832 AACCCGCCCC
* * * *
10927842 TAAGTGAACTCAGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCA
* * *
10927888 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
10927936 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
10927981 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
10928015 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 13, Indels: 16
0.79 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 57 0.54
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:10928033 original size:46 final size:45
Alignment explanation
Indices: 10927892--10928033 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 45
10927882 CATCCATAAA
10927892 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * *
10927939 CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
10927985 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
10928031 TGA
1 TGA
10928034 CATGTCACTT
Statistics
Matches: 78, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 33 0.42
47 31 0.40
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:10935364 original size:43 final size:43
Alignment explanation
Indices: 10935309--10935420 Score: 158
Period size: 43 Copynumber: 2.6 Consensus size: 43
10935299 AATGTCCCTA
* *
10935309 ACGTGGTCTTACATGTA-ATCACATATCGATGCC-ACTATCCCAG
1 ACGTGGTCTTACACG-AGAACACATATCGATGCCAACT-TCCCAG
10935352 ACAG-GGTCTTACACGAGAACACATATCGATGCCAACTTCCCAG
1 AC-GTGGTCTTACACGAGAACACATATCGATGCCAACTTCCCAG
10935395 ACGTGGTCTTACACGAGAACACATAT
1 ACGTGGTCTTACACGAGAACACATAT
10935421 TGATAATCCT
Statistics
Matches: 63, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
42 2 0.03
43 57 0.90
44 4 0.06
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (43 bp):
ACGTGGTCTTACACGAGAACACATATCGATGCCAACTTCCCAG
Found at i:10940063 original size:85 final size:84
Alignment explanation
Indices: 10939961--10940212 Score: 258
Period size: 84 Copynumber: 3.0 Consensus size: 84
10939951 GTTTTTTAGA
* * * * *
10939961 AAAAAAG-GCCGCTAAAGACCACGATCTTTAGCGGC-CTTTTTTATAACAGCGTCGCTGA-AGAC
1 AAAAAAGCGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTTA-AAAAACGCCGCT-ATAGAC
10940023 CAGGACCTTTAGCGGCGCTCTT
64 CAGGACCTTTAGCGGCGCT-TT
* * * *
10940045 AAAAAAGCGCCGCCAAAGACCAGGACCTATAGCGGCGCTTTTTTAAAAAACGCCGCTATAGACCT
1 AAAAAAGCGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTTAAAAAACGCCGCTATAGACCA
* *
10940110 GTACTTTTAGCGGCGCTTT
66 GGACCTTTAGCGGCGCTTT
* * * * * * * * *
10940129 ACAAAAGCGCTGCTATAGACCAAGAGCTTTAGCAGCGCTTCTGTAAAAAAAGCCGCTATAGACCT
1 AAAAAAGCGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTTAAAAAACGCCGCTATAGACCA
* *
10940194 GTACTTTTAGCGGCGCTTT
66 GGACCTTTAGCGGCGCTTT
10940213 TGCAAAAAAA
Statistics
Matches: 144, Mismatches: 21, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
84 83 0.58
85 53 0.37
86 8 0.06
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (84 bp):
AAAAAAGCGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTTAAAAAACGCCGCTATAGACCA
GGACCTTTAGCGGCGCTTT
Found at i:10940108 original size:43 final size:43
Alignment explanation
Indices: 10939961--10940213 Score: 196
Period size: 43 Copynumber: 6.0 Consensus size: 43
10939951 GTTTTTTAGA
* * * *
10939961 AAAAAAGGCCGCTAAAGACCACGATCTTTAGCGGC-CTTTTTT
1 AAAAAACGCCGCTATAGACCAGGACCTTTAGCGGCGCTTTTTT
* * * *
10940003 ATAACAGCGTCGCTGA-AGACCAGGACCTTTAGCGGCGC--TCTT
1 A-AAAAACGCCGCT-ATAGACCAGGACCTTTAGCGGCGCTTTTTT
* * *
10940045 AAAAAAGCGCCGCCAAAGACCAGGACCTATAGCGGCGCTTTTTT
1 AAAAAA-CGCCGCTATAGACCAGGACCTTTAGCGGCGCTTTTTT
* * *
10940089 AAAAAACGCCGCTATAGACCTGTACTTTTAGCGGCGC---TTT
1 AAAAAACGCCGCTATAGACCAGGACCTTTAGCGGCGCTTTTTT
* * * * * * *
10940129 ACAAAAGCGCTGCTATAGACCAAGAGCTTTAGCAGCGCTTCTGT
1 A-AAAAACGCCGCTATAGACCAGGACCTTTAGCGGCGCTTTTTT
* * * *
10940173 AAAAAAAGCCGCTATAGACCTGTACTTTTAGCGGCGCTTTT
1 AAAAAACGCCGCTATAGACCAGGACCTTTAGCGGCGCTTTT
10940214 GCAAAAAAAT
Statistics
Matches: 162, Mismatches: 38, Indels: 21
0.73 0.17 0.10
Matches are distributed among these distances:
40 4 0.02
41 32 0.20
42 31 0.19
43 81 0.50
44 14 0.09
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (43 bp):
AAAAAACGCCGCTATAGACCAGGACCTTTAGCGGCGCTTTTTT
Found at i:10940220 original size:43 final size:43
Alignment explanation
Indices: 10940074--10940230 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
10940064 CCAGGACCTA
** *
10940074 TAGCGGCGCTTTTTTAAAAAACGCCGCTATAGACCTGTACTTT
1 TAGCGGCGCTTTTGCAAAAAAAGCCGCTATAGACCTGTACTTT
* ** * *
10940117 TAGCGGCGC-TTTAC-AAAAGCGCTGCTATAGACCAAG-AGC-TT
1 TAGCGGCGCTTTTGCAAAAAAAGCCGCTATAGACC-TGTA-CTTT
* * *
10940158 TAGCAGCGCTTCTGTAAAAAAAGCCGCTATAGACCTGTACTTT
1 TAGCGGCGCTTTTGCAAAAAAAGCCGCTATAGACCTGTACTTT
10940201 TAGCGGCGCTTTTGCAAAAAAATGCCGCTA
1 TAGCGGCGCTTTTGCAAAAAAA-GCCGCTA
10940231 GTTTGCCCAG
Statistics
Matches: 91, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
41 28 0.31
42 9 0.10
43 47 0.52
44 7 0.08
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.27
Consensus pattern (43 bp):
TAGCGGCGCTTTTGCAAAAAAAGCCGCTATAGACCTGTACTTT
Found at i:10940554 original size:21 final size:21
Alignment explanation
Indices: 10940530--10940571 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
10940520 TCCTATTCTG
*
10940530 CTCCACCTCCCTCGCTGCTGC
1 CTCCACATCCCTCGCTGCTGC
*
10940551 CTCCGCATCCCTCGCTGCTGC
1 CTCCACATCCCTCGCTGCTGC
10940572 TTCTACTCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.05, C:0.55, G:0.17, T:0.24
Consensus pattern (21 bp):
CTCCACATCCCTCGCTGCTGC
Found at i:10941164 original size:18 final size:18
Alignment explanation
Indices: 10941132--10941169 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
10941122 TACAATATAG
10941132 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
10941151 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
10941168 TA
1 TA
10941170 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:10946311 original size:21 final size:21
Alignment explanation
Indices: 10946287--10946330 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
10946277 TGAAATTTTT
* * *
10946287 AATTCTTTTTAAGGTCAATAG
1 AATTATTTATAAGCTCAATAG
*
10946308 AATTATTTATAAGCTCCATAG
1 AATTATTTATAAGCTCAATAG
10946329 AA
1 AA
10946331 CTTTTTTGGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (21 bp):
AATTATTTATAAGCTCAATAG
Found at i:10946735 original size:21 final size:21
Alignment explanation
Indices: 10946711--10946750 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
10946701 AAATTAATTC
*
10946711 ATACTTAAGTTGAATCAAATA
1 ATACTTAAGTTGAACCAAATA
10946732 ATACTTAAGTTGAACCAAA
1 ATACTTAAGTTGAACCAAA
10946751 ATATAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.30
Consensus pattern (21 bp):
ATACTTAAGTTGAACCAAATA
Found at i:10951963 original size:15 final size:15
Alignment explanation
Indices: 10951943--10951973 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10951933 CAAATAATAA
*
10951943 TATATATATTTATCT
1 TATATACATTTATCT
10951958 TATATACATTTATCT
1 TATATACATTTATCT
10951973 T
1 T
10951974 CTAAATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (15 bp):
TATATACATTTATCT
Found at i:10952036 original size:22 final size:22
Alignment explanation
Indices: 10952006--10952047 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10951996 ACTCTAAATT
10952006 TAAAACCCTAAACCTGAGACTC
1 TAAAACCCTAAACCTGAGACTC
* *
10952028 TAAACCCCTAAACCTTAGAC
1 TAAAACCCTAAACCTGAGAC
10952048 CACAAACACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.33, G:0.07, T:0.19
Consensus pattern (22 bp):
TAAAACCCTAAACCTGAGACTC
Found at i:10952377 original size:25 final size:25
Alignment explanation
Indices: 10952342--10952393 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
10952332 TTTCTAGCTA
10952342 ATAGTTAAACAAATGCTAATTCCAC
1 ATAGTTAAACAAATGCTAATTCCAC
*
10952367 ATAGTTCAACAAATGCTAATTCCAC
1 ATAGTTAAACAAATGCTAATTCCAC
10952392 AT
1 AT
10952394 TCAAAATCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (25 bp):
ATAGTTAAACAAATGCTAATTCCAC
Found at i:10953054 original size:41 final size:41
Alignment explanation
Indices: 10952805--10953039 Score: 289
Period size: 41 Copynumber: 5.8 Consensus size: 41
10952795 GGTTTATGAC
* *
10952805 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGATCTAGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
*
10952846 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
**
10952887 TTTTAGCGTTGTTTTACCTAAAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
** *
10952928 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATTCTCT-AT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
* ** *
10952968 TTTTAGCGGCGTTTTTTA-CTAAAACGCCGCTGTTGCTCT-GT
1 TTTTAGCGGCG--TTTTACCTAAAGCGCCGCTAATGATCTGGT
* *
10953009 TTTTAGTGGCGTTTT-CCTTAAGACGCCGCTA
1 TTTTAGCGGCGTTTTACCTAAAG-CGCCGCTA
10953040 TTGCTCTGTA
Statistics
Matches: 171, Mismatches: 19, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
39 8 0.05
40 19 0.11
41 139 0.81
42 5 0.03
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.37
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
Found at i:10969394 original size:18 final size:19
Alignment explanation
Indices: 10969373--10969414 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
10969363 AAAAGTAATT
* *
10969373 TAAAAAG-ATAAATAAAGA
1 TAAAAAGTAAAAATAAAAA
10969391 T-AAAAGTAAAAATAAAAA
1 TAAAAAGTAAAAATAAAAA
10969409 TAAAAA
1 TAAAAA
10969415 TTAATAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (19 bp):
TAAAAAGTAAAAATAAAAA
Found at i:10969402 original size:7 final size:6
Alignment explanation
Indices: 10969382--10969415 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
10969372 TTAAAAAGAT
* *
10969382 AAATAA AGATAA AAGTAA AAATAA AAATAA AAAT
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAAT
10969416 TAATAATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:10975929 original size:20 final size:20
Alignment explanation
Indices: 10975893--10975931 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
10975883 TTCACGTTGA
*
10975893 CCCATTTTCTCTATTTTTTG
1 CCCATTTTCGCTATTTTTTG
10975913 CCCATTTCTCGCT-TTTTTT
1 CCCATTT-TCGCTATTTTTT
10975932 ACACTCCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.08, C:0.28, G:0.05, T:0.59
Consensus pattern (20 bp):
CCCATTTTCGCTATTTTTTG
Found at i:10986444 original size:31 final size:32
Alignment explanation
Indices: 10986406--10986467 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 32
10986396 ACGAGTCAAT
10986406 TCGAAACAAATTCATTCAATAAAATT-TTAAC
1 TCGAAACAAATTCATTCAATAAAATTATTAAC
10986437 TCGAAACAAATTCATTCAATAAAATTATTAA
1 TCGAAACAAATTCATTCAATAAAATTATTAA
10986468 AATAACTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 26 0.87
32 4 0.13
ACGTcount: A:0.50, C:0.15, G:0.03, T:0.32
Consensus pattern (32 bp):
TCGAAACAAATTCATTCAATAAAATTATTAAC
Found at i:10987340 original size:14 final size:16
Alignment explanation
Indices: 10987308--10987342 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
10987298 AGTACTTCAA
*
10987308 TTTTTAATACTTAATT
1 TTTTTAACACTTAATT
10987324 TTTTTAACACTT-ATT
1 TTTTTAACACTTAATT
10987339 TTTT
1 TTTT
10987343 CAGTAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTTAACACTTAATT
Found at i:10996248 original size:12 final size:12
Alignment explanation
Indices: 10996231--10996256 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10996221 CACACGCCCA
10996231 TGTGCTAGGCCG
1 TGTGCTAGGCCG
10996243 TGTGCTAGGCCG
1 TGTGCTAGGCCG
10996255 TG
1 TG
10996257 CCAAACTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.23, G:0.42, T:0.27
Consensus pattern (12 bp):
TGTGCTAGGCCG
Found at i:10997412 original size:40 final size:40
Alignment explanation
Indices: 10997311--10997493 Score: 215
Period size: 40 Copynumber: 4.5 Consensus size: 40
10997301 AAATTCTCGT
* *
10997311 ACACTAAGTGCCAATACATAGCCGAAGCTATTTC-AATCTCGC
1 ACACTAAGTGCC-ATACATAGCCGAAGCTATCTCGAA--TCAC
* * * *
10997353 ACACTAAGTGACATTCATAGCCGAATCTATCTCGACTCAC
1 ACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCAC
* * ** *
10997393 GCACTAAGTGCTATACATAGTTGAAGCTATCTCGAATCGC
1 ACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCAC
*
10997433 ACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATCAC
1 ACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCAC
*
10997473 ACACTAAGTACCATACATAGC
1 ACACTAAGTGCCATACATAGC
10997494 TGAATTGTCG
Statistics
Matches: 118, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
40 88 0.75
41 18 0.15
42 12 0.10
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (40 bp):
ACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCAC
Done.