Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold492
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: 781693
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 6
Found at i:453340 original size:50 final size:50
Alignment explanation
Indices: 453281--453404 Score: 169
Period size: 50 Copynumber: 2.5 Consensus size: 50
453271 TAAATTTCTA
* *
453281 GATTTTTCATCTCGGGGATACTCTAACCCTGCTTTTATTTCTAAAATAGT-
1 GATTTTTCATCTCGGGGATACTCTAACCCCGCTTTTATTTCTAAAACA-TC
* *
453331 GATTTTTCATCTCGGGGATACTCTAACCCCGGTTTTATTTTTAAAACATC
1 GATTTTTCATCTCGGGGATACTCTAACCCCGCTTTTATTTCTAAAACATC
* *
453381 AATTTTTCATAATCGGGGATACTC
1 GATTTTTCAT-CTCGGGGATACTC
453405 CAATCCCGTT
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
49 1 0.02
50 53 0.80
51 12 0.18
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (50 bp):
GATTTTTCATCTCGGGGATACTCTAACCCCGCTTTTATTTCTAAAACATC
Found at i:453475 original size:79 final size:79
Alignment explanation
Indices: 453344--453725 Score: 317
Period size: 79 Copynumber: 4.8 Consensus size: 79
453334 TTTTCATCTC
* * * * *
453344 GGGGATACTCTAACCCCGGTTTTATTTTTAAAACATCAATTTTTCATAATCGGGGATACTCCAAT
1 GGGGATACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTCTCACAATCGGGGATACTCCAA-
*
453409 CC-CGTTATTTCCGA
65 CCTCGTTATTTCTGA
* * * **
453423 GGGGATACTCCAATCCCAGCTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTCTCACAATCGGGGATACTCCAAC
* *
453488 CCCGTTATTT-TGGT
66 CTCGTTATTTCT-GA
** ** * * * *
453502 GGGGATACTCCAACCCTGGCCTTATTTCTAAAGCGTCAATTTTTCACAATCGGAGATACTCCAAC
1 GGGGATACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTCTCACAATCGGGGATACTCCAAC
* *
453567 CTCCTTATTTTTGA
66 CTCGTTATTTCTGA
* * ** * * * *
453581 AGGGATACTCCAACTCC-GATTTTATTT-TCAAAACGCCGATTTC-CTATAATCAGGGATGCTCC
1 GGGGATACTCCAACCCCAG-TTTTATTTCT-AAAACATCAATTTCTC-ACAATCGGGGATACTCC
*
453643 AACCTTGTTATTTCTGA
63 AACCTCGTTATTTCTGA
* * * * * *
453660 GGGGATACTCCAACCCCAATTTTATTTCTAGAACACCGATTT-TCCATAATCAGGGGATATTCCA
1 GGGGATACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTCT-CACAATC-GGGGATACTCCA
453724 AC
64 AC
453726 TCGGTTGTCA
Statistics
Matches: 242, Mismatches: 50, Indels: 21
0.77 0.16 0.07
Matches are distributed among these distances:
78 5 0.02
79 223 0.92
80 14 0.06
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (79 bp):
GGGGATACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTCTCACAATCGGGGATACTCCAAC
CTCGTTATTTCTGA
Found at i:453685 original size:158 final size:158
Alignment explanation
Indices: 453344--453694 Score: 370
Period size: 158 Copynumber: 2.2 Consensus size: 158
453334 TTTTCATCTC
* * * *
453344 GGGGATACTCTAACCCCGGTTTTATTTTTAAAACATCAATTTTTCATAATCGGGGATACTCCAAT
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGAGATACTCCAAT
* * * **
453409 CCCGTTATTTCCGAGGGGATACTCCAATCCCAGCTTTATTTCTAAAATATTGATTTCTCACAATC
66 CCCCTTATTTCCGAAGGGATACTCCAATCCCAGCTTTATTTCTAAAACACCGATTTCTCACAATC
* *
453474 GGGGATACTCCAACCCCGTTATTTTGGT
131 AGGGATACTCCAACCCCGTTATTTTGGA
* ** * *
453502 GGGGATACTCCAACCCTGGCCTTATTTCTAAAGCGTCAATTTTTCACAATCGGAGATACTCCAA-
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGAGATACTCCAAT
** * * * *
453566 CCTCCTTATTTTTGAAGGGATACTCCAACTCCGA-TTTTATTT-TCAAAACGCCGATTTC-CTAT
66 CC-CCTTATTTCCGAAGGGATACTCCAA-TCCCAGCTTTATTTCT-AAAACACCGATTTCTC-AC
* **
453628 AATCAGGGATGCTCCAACCTTGTTATTTCT-GA
127 AATCAGGGATACTCCAACCCCGTTATTT-TGGA
** *
453660 GGGGATACTCCAACCCCAATTTTATTTCTAGAACA
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACA
453695 CCGATTTTCC
Statistics
Matches: 155, Mismatches: 33, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
157 4 0.03
158 146 0.94
159 5 0.03
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (158 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGAGATACTCCAAT
CCCCTTATTTCCGAAGGGATACTCCAATCCCAGCTTTATTTCTAAAACACCGATTTCTCACAATC
AGGGATACTCCAACCCCGTTATTTTGGA
Found at i:458460 original size:23 final size:22
Alignment explanation
Indices: 458430--458497 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 22
458420 AGAGAAAAAA
458430 ATTAAATATTATATATTTAATAT
1 ATTAAATATTATATATTTAAT-T
*
458453 ATTAAATATAATATATTTAATT
1 ATTAAATATTATATATTTAATT
458475 ATTATATTATATTATATTATTTA
1 ATTA-A--ATATTATA-TATTTA
458498 TAAATTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
22 5 0.13
23 21 0.54
25 7 0.18
26 6 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTAAATATTATATATTTAATT
Found at i:458464 original size:14 final size:13
Alignment explanation
Indices: 458428--458488 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
458418 GGAGAGAAAA
458428 AAATTAA-ATATT
1 AAATTAATATATT
458440 ATATATTTAATATATT
1 A-A-A-TTAATATATT
458456 AAATATAATATATT
1 AAAT-TAATATATT
* *
458470 TAATTATTATATT
1 AAATTAATATATT
*
458483 ATATTA
1 AAATTA
458489 TATTATTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
12 1 0.03
13 14 0.35
14 14 0.35
15 5 0.12
16 6 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
AAATTAATATATT
Found at i:458480 original size:18 final size:19
Alignment explanation
Indices: 458459--458500 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
458449 ATATATTAAA
458459 TATAATATATT-TAATTA-T
1 TATAATATATTAT-ATTATT
*
458477 TATATTATATTATATTATT
1 TATAATATATTATATTATT
458496 TATAA
1 TATAA
458501 ATTTTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATAATATATTATATTATT
Found at i:463399 original size:55 final size:55
Alignment explanation
Indices: 463314--463417 Score: 172
Period size: 55 Copynumber: 1.9 Consensus size: 55
463304 CTTAAAGTTG
* * *
463314 TGATGCCATGGTGGCAATCAGATTTGGAGTGACTTGGTGTCACTTAGTGTTGTGA
1 TGATGCCATAGTCGCAATCAGATTTAGAGTGACTTGGTGTCACTTAGTGTTGTGA
*
463369 TGATGCCATAGTCGCGATCAGATTTAGAGTGACTTGGTGTCACTTAGTG
1 TGATGCCATAGTCGCAATCAGATTTAGAGTGACTTGGTGTCACTTAGTG
463418 ATGCTGTGGT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.21, C:0.14, G:0.31, T:0.34
Consensus pattern (55 bp):
TGATGCCATAGTCGCAATCAGATTTAGAGTGACTTGGTGTCACTTAGTGTTGTGA
Found at i:463439 original size:47 final size:47
Alignment explanation
Indices: 463382--463484 Score: 163
Period size: 47 Copynumber: 2.2 Consensus size: 47
463372 TGCCATAGTC
*
463382 GCGATCAGATTTAGAGTGACTTGGTGTCACTTAGTGATG-CTGTGGTG
1 GCGATTAGATTTAGAGTGACTTGGTGTCACTTAGTGATGTC-GTGGTG
* *
463429 GCGATTAGATTTGGAGTGGCTTGGTGTCACTTAGTGATGTCGTGGTG
1 GCGATTAGATTTAGAGTGACTTGGTGTCACTTAGTGATGTCGTGGTG
463476 GCGATTAGA
1 GCGATTAGA
463485 AAAGCCTTGG
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
47 51 0.98
48 1 0.02
ACGTcount: A:0.18, C:0.12, G:0.36, T:0.34
Consensus pattern (47 bp):
GCGATTAGATTTAGAGTGACTTGGTGTCACTTAGTGATGTCGTGGTG
Found at i:472906 original size:17 final size:17
Alignment explanation
Indices: 472884--472936 Score: 52
Period size: 22 Copynumber: 2.8 Consensus size: 17
472874 AATATATAAA
472884 ATTTTAGATGGTAACAG
1 ATTTTAGATGGTAACAG
*
472901 ATTTTAGAATGTATACTAACAG
1 ATTTTAG-ATG----GTAACAG
472923 ATTTTAGATGGTAA
1 ATTTTAGATGGTAA
472937 ATGATAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
17 10 0.34
18 3 0.10
21 3 0.10
22 13 0.45
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.38
Consensus pattern (17 bp):
ATTTTAGATGGTAACAG
Found at i:474825 original size:15 final size:15
Alignment explanation
Indices: 474797--474841 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
474787 AGGTGGGTCA
*
474797 GATTAATTTTGGGTTG
1 GATT-ATTTCGGGTTG
474813 GATTATTTCGGGTTG
1 GATTATTTCGGGTTG
*
474828 GGTTATTTCGGGTT
1 GATTATTTCGGGTT
474842 ATAAAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 23 0.85
16 4 0.15
ACGTcount: A:0.13, C:0.04, G:0.33, T:0.49
Consensus pattern (15 bp):
GATTATTTCGGGTTG
Found at i:474943 original size:16 final size:16
Alignment explanation
Indices: 474850--474987 Score: 107
Period size: 16 Copynumber: 8.6 Consensus size: 16
474840 TTATAAAATT
* *
474850 TTCGGGTTATTTTCAGG
1 TTCGGGTCA-TTTCGGG
*
474867 TTCGGGTCATTTTGGG
1 TTCGGGTCATTTCGGG
*
474883 TTCGGGTCATTTTGGG
1 TTCGGGTCATTTCGGG
* *
474899 TTCAGGTCACTTT-GGA
1 TTCGGGTCA-TTTCGGG
* *
474915 TTCAGATCATTTCGGG
1 TTCGGGTCATTTCGGG
*
474931 TTCGGGTCATTTCAGG
1 TTCGGGTCATTTCGGG
* ** *
474947 TTTGGGTTGTTTCGAG
1 TTCGGGTCATTTCGGG
* **
474963 TTCAGGTCATTTCAAG
1 TTCGGGTCATTTCGGG
474979 TTCGGGTCA
1 TTCGGGTCA
474988 ATCGGGTTTA
Statistics
Matches: 98, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
15 3 0.03
16 84 0.86
17 11 0.11
ACGTcount: A:0.13, C:0.15, G:0.30, T:0.41
Consensus pattern (16 bp):
TTCGGGTCATTTCGGG
Found at i:480098 original size:16 final size:16
Alignment explanation
Indices: 480056--480103 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
480046 TTAGTCAATT
480056 TATTTAATT-TAATAAA
1 TATTTAATTATAAT-AA
* *
480072 TTTTTATATTAAAATAA
1 TATTTA-ATTATAATAA
480089 TATTTAATTATAATA
1 TATTTAATTATAATA
480104 GTAACATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 13 0.50
17 10 0.38
18 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATTTAATTATAATAA
Found at i:481168 original size:16 final size:16
Alignment explanation
Indices: 481143--481173 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
481133 TAAATAAAAT
481143 TTTAAATTAATTTAAA
1 TTTAAATTAATTTAAA
*
481159 TTTAATTTAATTTAA
1 TTTAAATTAATTTAA
481174 TCATGAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTAAATTAATTTAAA
Found at i:481168 original size:40 final size:39
Alignment explanation
Indices: 481071--481168 Score: 103
Period size: 38 Copynumber: 2.5 Consensus size: 39
481061 AAATTTATTT
* * *
481071 TTATTTAAATTTAA-TTATAATATTAATATGAAATTTTTAA
1 TTATTTAAATTTAATTTA-AATAATAA-ATAAAATTTTAAA
*
481111 TT-TTT-AATATTATTTTAAATAATAAATAAAATTTTAAA
1 TTATTTAAAT-TTAATTTAAATAATAAATAAAATTTTAAA
481149 TTAATTTAAATTTAATTTAA
1 TT-ATTTAAATTTAATTTAA
481169 TTTAATCATG
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
38 16 0.33
39 13 0.27
40 16 0.33
41 3 0.06
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (39 bp):
TTATTTAAATTTAATTTAAATAATAAATAAAATTTTAAA
Found at i:481207 original size:79 final size:78
Alignment explanation
Indices: 481054--481211 Score: 187
Period size: 79 Copynumber: 2.0 Consensus size: 78
481044 TATTATTTAT
** * *
481054 TAAATAAAAATTTATTTTTATTTAAATTTAATTATAATATTAATATGAAATTTTTAATTTTTAAT
1 TAAATAAAAATTTAAATTAATTTAAATTTAATTATAATATTAATATGAAATTTTTAATTATTAAT
** *
481119 ATTATTTTAAATAA
66 AAAAATTT-AATAA
*
481133 TAAATAAAATTTTAAATTAATTTAAATTTAATT-TAAT-TTAATCATGAATATTTTTAA-TATTA
1 TAAATAAAAATTTAAATTAATTTAAATTTAATTATAATATTAAT-ATGAA-ATTTTTAATTATTA
481195 ATAAAAAATTTAATAA
64 AT-AAAAATTTAATAA
481211 T
1 T
481212 TTTAAATATG
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
77 5 0.07
78 21 0.31
79 42 0.62
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (78 bp):
TAAATAAAAATTTAAATTAATTTAAATTTAATTATAATATTAATATGAAATTTTTAATTATTAAT
AAAAATTTAATAA
Found at i:481255 original size:9 final size:11
Alignment explanation
Indices: 481230--481369 Score: 56
Period size: 11 Copynumber: 12.5 Consensus size: 11
481220 TGATATTATT
481230 ATATAATATAA
1 ATATAATATAA
*
481241 ATATAATAAAA
1 ATATAATATAA
481252 ATA-AAT-TAAA
1 ATATAATAT-AA
481262 ATATTATATTATAA
1 ATA-TA-A-TATAA
*
481276 AAATAA-ATAA
1 ATATAATATAA
* **
481286 ATAAAATATTT
1 ATATAATATAA
*
481297 ATAAAATATATA
1 ATATAATATA-A
* * *
481309 GTATTATTTTAA
1 ATA-TAATATAA
* *
481321 ATTTTATATAA
1 ATATAATATAA
*
481332 ATTCTAATA-AA
1 A-TATAATATAA
*
481343 ATAAAATATAA
1 ATATAATATAA
*
481354 ATATCATA-AA
1 ATATAATATAA
481364 ATATAA
1 ATATAA
481370 AAATTTGTTA
Statistics
Matches: 93, Mismatches: 25, Indels: 23
0.66 0.18 0.16
Matches are distributed among these distances:
10 28 0.30
11 41 0.44
12 11 0.12
13 7 0.08
14 5 0.05
15 1 0.01
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (11 bp):
ATATAATATAA
Found at i:481287 original size:24 final size:26
Alignment explanation
Indices: 481234--481302 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
481224 ATTATTATAT
*
481234 AATATAAATATAATAAAAATAAATTAA
1 AATA-AAATATTATAAAAATAAATTAA
**
481261 AATATTATATTATAAAAATAAA-T-A
1 AATAAAATATTATAAAAATAAATTAA
481285 AATAAAATATTTATAAAA
1 AATAAAATA-TTATAAAA
481303 TATATAGTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 8 0.22
25 9 0.25
26 15 0.42
27 4 0.11
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (26 bp):
AATAAAATATTATAAAAATAAATTAA
Found at i:481301 original size:45 final size:45
Alignment explanation
Indices: 481187--481301 Score: 106
Period size: 45 Copynumber: 2.5 Consensus size: 45
481177 TGAATATTTT
* * * * * *
481187 TAATATTAATAAAAAATTTAATAATTTTAAATATGATATTATTATA
1 TAATATAAATAAAATATTT-ATAAATTAAAATATGATATTATAAAA
* *** *
481233 TAATATAAATATAATAAAAATAAATTAAAATATTATATTATAAAAA
1 TAATATAAATAAAATATTTATAAATTAAAATATGATATTAT-AAAA
481279 TAA-ATAAATAAAATATTTATAAA
1 TAATATAAATAAAATATTTATAAA
481302 ATATATAGTA
Statistics
Matches: 53, Mismatches: 15, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
45 35 0.66
46 18 0.34
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (45 bp):
TAATATAAATAAAATATTTATAAATTAAAATATGATATTATAAAA
Found at i:481356 original size:16 final size:16
Alignment explanation
Indices: 481337--481370 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
481327 TATAAATTCT
481337 AATAAAATAAAATATA
1 AATAAAATAAAATATA
**
481353 AATATCATAAAATATA
1 AATAAAATAAAATATA
481369 AA
1 AA
481371 AATTTGTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AATAAAATAAAATATA
Found at i:483495 original size:5 final size:5
Alignment explanation
Indices: 483485--483591 Score: 50
Period size: 5 Copynumber: 22.0 Consensus size: 5
483475 AATATAATTT
* *
483485 TTTAA TTTAA TTT-A TTTGAA TTTAAA TTTAA ATT-- TTTAA ATT-- TTTAA
1 TTTAA TTTAA TTTAA TTT-AA TTT-AA TTTAA TTTAA TTTAA TTTAA TTTAA
* * * *
483532 -TTAA TTGAA TTTGAA -TT-A TTAAA TTTTTA TTTAA TTTAA TTTTAT
1 TTTAA TTTAA TTT-AA TTTAA TTTAA -TTTAA TTTAA TTTAA -TTTAA
*
483577 TTTAT TTTAA TTTAA
1 TTTAA TTTAA TTTAA
483592 ATAAATTAAA
Statistics
Matches: 77, Mismatches: 13, Indels: 24
0.68 0.11 0.21
Matches are distributed among these distances:
3 5 0.06
4 9 0.12
5 45 0.58
6 18 0.23
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (5 bp):
TTTAA
Found at i:483508 original size:15 final size:15
Alignment explanation
Indices: 483468--483514 Score: 62
Period size: 13 Copynumber: 3.2 Consensus size: 15
483458 AAACTTTGAA
*
483468 TTATTTGAATATAAT
1 TTATTTGAATTTAAT
483483 TT-TTT-AATTTAAT
1 TTATTTGAATTTAAT
483496 TTATTTGAATTTAAAT
1 TTATTTGAATTT-AAT
483512 TTA
1 TTA
483515 AATTTTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 9 0.32
14 6 0.21
15 7 0.25
16 6 0.21
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (15 bp):
TTATTTGAATTTAAT
Found at i:483543 original size:30 final size:30
Alignment explanation
Indices: 483509--483573 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
483499 TTTGAATTTA
*
483509 AATTTAAATTTTTAAATTTTTAATTAATTG
1 AATTTAAATTATTAAATTTTTAATTAATTG
* * *
483539 AATTTGAATTATTAAATTTTTATTTAATTT
1 AATTTAAATTATTAAATTTTTAATTAATTG
483569 AATTT
1 AATTT
483574 TATTTTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (30 bp):
AATTTAAATTATTAAATTTTTAATTAATTG
Found at i:483590 original size:15 final size:15
Alignment explanation
Indices: 483468--483589 Score: 58
Period size: 15 Copynumber: 8.1 Consensus size: 15
483458 AAACTTTGAA
*
483468 TTATTTGAATATAA-T
1 TTATTT-AATTTAATT
483483 TT-TTTAATTTAA-T
1 TTATTTAATTTAATT
483496 TTATTTGAATTTAAATT
1 TTATTT-AATTT-AATT
* *
483513 TAAATTT--TTAAATTT
1 T-TATTTAATTTAA-TT
* *
483528 TTAATTAATTGAATT
1 TTATTTAATTTAATT
* * *
483543 TGAATT-ATTAAATTT
1 TTATTTAATTTAA-TT
483558 TTATTTAATTTAATT
1 TTATTTAATTTAATT
*
483573 TTATTTTATTTTAATT
1 TTA-TTTAATTTAATT
483589 T
1 T
483590 AAATAAATTA
Statistics
Matches: 84, Mismatches: 12, Indels: 21
0.72 0.10 0.18
Matches are distributed among these distances:
13 9 0.11
14 16 0.19
15 30 0.36
16 23 0.27
17 2 0.02
18 4 0.05
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (15 bp):
TTATTTAATTTAATT
Found at i:483739 original size:11 final size:11
Alignment explanation
Indices: 483714--483765 Score: 61
Period size: 11 Copynumber: 4.8 Consensus size: 11
483704 TTTGAACGTA
483714 ATAAA-ATAAT
1 ATAAATATAAT
*
483724 TTAAATATAAT
1 ATAAATATAAT
* * *
483735 GTAAAAATAAA
1 ATAAATATAAT
483746 ATAAATATAAT
1 ATAAATATAAT
483757 ATAAATATA
1 ATAAATATA
483766 TAAATTTATT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
10 4 0.12
11 30 0.88
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (11 bp):
ATAAATATAAT
Found at i:484152 original size:31 final size:32
Alignment explanation
Indices: 484094--484154 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 32
484084 TTTATTAAAA
*
484094 TAAATATTTATATTATAATTTTATTAAATATT
1 TAAATATTTATATTATAATATTATTAAATATT
484126 TAAATACTTTATA-T-TAATATTATTAAATA
1 TAAATA-TTTATATTATAATATTATTAAATA
484155 AATATTAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 14 0.52
32 7 0.26
33 6 0.22
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (32 bp):
TAAATATTTATATTATAATATTATTAAATATT
Found at i:485141 original size:5 final size:5
Alignment explanation
Indices: 485131--485203 Score: 64
Period size: 5 Copynumber: 15.0 Consensus size: 5
485121 ATTAATTTTA
*
485131 AATAT AATAT AATAT AATAT AATAT AATAAT AA-A- AATAT AAAAT AAATAT
1 AATAT AATAT AATAT AATAT AATAT AAT-AT AATAT AATAT AATAT -AATAT
* * *
485181 ATTAA AAT-T TATAT AATA- AATAT
1 AATAT AATAT AATAT AATAT AATAT
485204 TTAAATTTTC
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
3 2 0.04
4 8 0.15
5 36 0.67
6 8 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AATAT
Found at i:485169 original size:34 final size:36
Alignment explanation
Indices: 485130--485200 Score: 92
Period size: 35 Copynumber: 2.0 Consensus size: 36
485120 TATTAATTTT
* *
485130 AAATATAATAT-AATATAATATAATATA-ATAATAA
1 AAATATAAAATAAATATAATAAAATATATATAATAA
* *
485164 AAATATAAAATAAATATATTAAAATTTATATAATAA
1 AAATATAAAATAAATATAATAAAATATATATAATAA
485200 A
1 A
485201 TATTTAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 10 0.32
35 13 0.42
36 8 0.26
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (36 bp):
AAATATAAAATAAATATAATAAAATATATATAATAA
Found at i:485182 original size:13 final size:13
Alignment explanation
Indices: 485137--485188 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 13
485127 TTTAAATATA
*
485137 ATATAATATAATAT
1 ATATAAAATAA-AT
*
485151 AATATAATAATAAAA
1 -ATATAA-AATAAAT
485166 ATATAAAATAAAT
1 ATATAAAATAAAT
485179 ATATTAAAAT
1 ATA-TAAAAT
485189 TTATATAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 12 0.38
15 7 0.22
16 4 0.12
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
ATATAAAATAAAT
Found at i:485201 original size:13 final size:13
Alignment explanation
Indices: 485131--485203 Score: 64
Period size: 13 Copynumber: 5.7 Consensus size: 13
485121 ATTAATTTTA
485131 AATATAATATAATAT
1 AATA-AATAT-ATAT
485146 AATATAATATA-AT
1 AATA-AATATATAT
* *
485159 AATAAAAATATAA
1 AATAAATATATAT
485172 AATAAATATAT-T
1 AATAAATATATAT
*
485184 -A-AAATTTATAT
1 AATAAATATATAT
485195 AATAAATAT
1 AATAAATAT
485204 TTAAATTTTC
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
10 7 0.15
11 2 0.04
12 6 0.12
13 22 0.46
14 1 0.02
15 10 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AATAAATATATAT
Found at i:485202 original size:34 final size:35
Alignment explanation
Indices: 485129--485203 Score: 84
Period size: 34 Copynumber: 2.2 Consensus size: 35
485119 TTATTAATTT
* *
485129 TAAATATAATATAATATAATATAATATAATAATAA
1 TAAATATAAAATAATATAATAAAATATAATAATAA
* *
485164 -AAATATAAAATAAATATATTAAAAT-TTAT-ATAA
1 TAAATATAAAAT-AATATAATAAAATATAATAATAA
485197 TAAATAT
1 TAAATAT
485204 TTAAATTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
33 4 0.12
34 19 0.56
35 11 0.32
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (35 bp):
TAAATATAAAATAATATAATAAAATATAATAATAA
Found at i:485203 original size:21 final size:21
Alignment explanation
Indices: 485147--485211 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
485137 ATATAATATA
* *
485147 ATATAATATAATAATAAAA-AT
1 ATATAATA-AATATTAAAATTT
*
485168 ATAAAATAAATATATTAAAATTT
1 ATATAAT-AA-ATATTAAAATTT
*
485191 ATATAATAAATATTTAAATTT
1 ATATAATAAATATTAAAATTT
485212 TCTATAAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
21 18 0.50
22 11 0.31
23 7 0.19
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
ATATAATAAATATTAAAATTT
Found at i:485207 original size:22 final size:23
Alignment explanation
Indices: 485129--485218 Score: 71
Period size: 22 Copynumber: 4.0 Consensus size: 23
485119 TTATTAATTT
* * *
485129 TAAATATAATATAATATAATATAA
1 TAAATATATTAAAAT-TTATATAA
* *
485153 TATAATA-A-TAAAA-ATATAAAA
1 TA-AATATATTAAAATTTATATAA
485174 TAAATATATTAAAATTTATATAA
1 TAAATATATTAAAATTTATATAA
* *
485197 TAAATAT-TTAAATTTTCTATAA
1 TAAATATATTAAAATTTATATAA
485219 ATATCATACT
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
20 4 0.07
21 8 0.15
22 18 0.33
23 17 0.31
24 3 0.06
25 4 0.07
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (23 bp):
TAAATATATTAAAATTTATATAA
Found at i:485221 original size:23 final size:24
Alignment explanation
Indices: 485166--485221 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
485156 AATAATAAAA
485166 ATATAAAATAAATATATTAAAATTT
1 ATAT-AAATAAATATATTAAAATTT
*
485191 ATAT-AATAAATAT-TTAAATTTT
1 ATATAAATAAATATATTAAAATTT
*
485213 CTATAAATA
1 ATATAAATA
485222 TCATACTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 11 0.39
23 13 0.46
25 4 0.14
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
ATATAAATAAATATATTAAAATTT
Found at i:487287 original size:6 final size:6
Alignment explanation
Indices: 487278--487315 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
487268 AATGTTAATG
*
487278 TTGGTT TTGGAT TTGGAT TTGGAT TTGGAT TTGGAT TT
1 TTGGAT TTGGAT TTGGAT TTGGAT TTGGAT TTGGAT TT
487316 TGAAGGTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.13, C:0.00, G:0.32, T:0.55
Consensus pattern (6 bp):
TTGGAT
Found at i:489103 original size:196 final size:196
Alignment explanation
Indices: 488769--489357 Score: 1169
Period size: 196 Copynumber: 3.0 Consensus size: 196
488759 TAATTTTTAA
488769 TTTCATTTGTATAATTAAAAAGTGTATCAGAAATTAATTTATTTTTTAATATTAACGATATATTT
1 TTTCATTTGTATAATTAAAAAGTGTATCAGAAATTAATTTATTTTTTAATATTAACGATATATTT
488834 AGAGTCTACATTTAAAGTTTGTAAGGTAATGTGTATTTAATAAATATAAATTCGAATCTTAAACC
66 AGAGTCTACATTTAAAGTTTGTAAGGTAATGTGTATTTAATAAATATAAATTCGAATCTTAAACC
488899 ACGTATGTTAAATTATGTTGGCTTTTATTCTTTTATTTGGATTCATTTGACTCCCATATTGATAA
131 ACGTATGTTAAATTATGTTGGCTTTTATTCTTTTATTTGGATTCATTTGACTCCCATATTGATAA
488964 T
196 T
*
488965 TTTCATTTGTATAATTAAAAAGTGTATCAAAAATTAATTTATTTTTTAATATTAACGATATATTT
1 TTTCATTTGTATAATTAAAAAGTGTATCAGAAATTAATTTATTTTTTAATATTAACGATATATTT
489030 AGAGTCTACATTTAAAGTTTGTAAGGTAATGTGTATTTAATAAATATAAATTCGAATCTTAAACC
66 AGAGTCTACATTTAAAGTTTGTAAGGTAATGTGTATTTAATAAATATAAATTCGAATCTTAAACC
489095 ACGTATGTTAAATTATGTTGGCTTTTATTCTTTTATTTGGATTCATTTGACTCCCATATTGATAA
131 ACGTATGTTAAATTATGTTGGCTTTTATTCTTTTATTTGGATTCATTTGACTCCCATATTGATAA
489160 T
196 T
489161 TTTCATTTGTATAATTAAAAAGTGTATCAGAAATTAATTTATTTTTTAATATTAACGATATATTT
1 TTTCATTTGTATAATTAAAAAGTGTATCAGAAATTAATTTATTTTTTAATATTAACGATATATTT
489226 AGAGTCTACATTTAAAGTTTGTAAGGTAATGTGTATTTAATAAATATAAATTCGAATCTTAAACC
66 AGAGTCTACATTTAAAGTTTGTAAGGTAATGTGTATTTAATAAATATAAATTCGAATCTTAAACC
489291 ACGTATGTTAAATTATGTTGGCTTTTATTCTTTTATTTGGATTCATTTGACTCCCATATTGATAA
131 ACGTATGTTAAATTATGTTGGCTTTTATTCTTTTATTTGGATTCATTTGACTCCCATATTGATAA
489356 T
196 T
489357 T
1 T
489358 CTGATCAAAT
Statistics
Matches: 391, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
196 391 1.00
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.46
Consensus pattern (196 bp):
TTTCATTTGTATAATTAAAAAGTGTATCAGAAATTAATTTATTTTTTAATATTAACGATATATTT
AGAGTCTACATTTAAAGTTTGTAAGGTAATGTGTATTTAATAAATATAAATTCGAATCTTAAACC
ACGTATGTTAAATTATGTTGGCTTTTATTCTTTTATTTGGATTCATTTGACTCCCATATTGATAA
T
Found at i:489950 original size:4 final size:4
Alignment explanation
Indices: 489941--489968 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
489931 TGGCCATGGG
489941 GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA
489969 TGAGAAAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:491831 original size:3 final size:3
Alignment explanation
Indices: 491823--491863 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
491813 ACATCAAAAT
* *
491823 TTA TTA TTA TCA TCA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
491864 TATAACGGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:492842 original size:2 final size:2
Alignment explanation
Indices: 492835--492900 Score: 105
Period size: 2 Copynumber: 33.0 Consensus size: 2
492825 TCTATTGTTT
* * *
492835 TA TA TA TA TA CA TA CA TA TA TA CA 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
492877 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
492901 ACATGCAAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:496216 original size:20 final size:21
Alignment explanation
Indices: 496177--496217 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
496167 ACAGCCCATG
496177 TTCATGCATTTTGAGCTATGT
1 TTCATGCATTTTGAGCTATGT
*
496198 TTCATGCATTTTTAG-TATGT
1 TTCATGCATTTTGAGCTATGT
496218 CCAACATCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.12, G:0.17, T:0.51
Consensus pattern (21 bp):
TTCATGCATTTTGAGCTATGT
Found at i:501754 original size:16 final size:16
Alignment explanation
Indices: 501729--501759 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
501719 ATCATATTTG
501729 ATTTAGAATTTTTTAT
1 ATTTAGAATTTTTTAT
*
501745 ATTTATAATTTTTTA
1 ATTTAGAATTTTTTA
501760 GCCTTTTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (16 bp):
ATTTAGAATTTTTTAT
Found at i:502832 original size:25 final size:25
Alignment explanation
Indices: 502781--502830 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
502771 ATATTATCAA
502781 ATTTAATTTTAAATTATGATAAAAT
1 ATTTAATTTTAAATTATGATAAAAT
*
502806 ATTTATTTTTAAA-TAT-ATAAAAT
1 ATTTAATTTTAAATTATGATAAAAT
502829 AT
1 AT
502831 ATATATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 9 0.38
24 3 0.12
25 12 0.50
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (25 bp):
ATTTAATTTTAAATTATGATAAAAT
Found at i:503216 original size:40 final size:37
Alignment explanation
Indices: 503160--503235 Score: 91
Period size: 40 Copynumber: 2.0 Consensus size: 37
503150 TTTAGCTTGT
503160 ATTTTTAAAAAAAAATT-ATAATTAATATGTAATATTTTAA
1 ATTTTTAAAAAAAAATTGA-AATTAA-AT-TAA-ATTTTAA
**
503200 ATTTTTAAAATTAAATTGAAATTAAATTAAATTTTA
1 ATTTTTAAAAAAAAATTGAAATTAAATTAAATTTTA
503236 TATATAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
37 6 0.18
38 3 0.09
39 2 0.06
40 21 0.64
41 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (37 bp):
ATTTTTAAAAAAAAATTGAAATTAAATTAAATTTTAA
Found at i:505391 original size:13 final size:13
Alignment explanation
Indices: 505375--505400 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
505365 AAAAGCACTT
505375 TGGAAAAACCCAA
1 TGGAAAAACCCAA
505388 TGGAAAAACCCAA
1 TGGAAAAACCCAA
505401 ACATGTAATT
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:0.54, C:0.23, G:0.15, T:0.08
Consensus pattern (13 bp):
TGGAAAAACCCAA
Found at i:507331 original size:13 final size:14
Alignment explanation
Indices: 507302--507335 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
507292 ATTTAATTTA
507302 TTAATAATAAAAAT
1 TTAATAATAAAAAT
*
507316 TTAATAAT-ATAAT
1 TTAATAATAAAAAT
507329 TTAATAA
1 TTAATAA
507336 AATTAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TTAATAATAAAAAT
Found at i:507344 original size:23 final size:23
Alignment explanation
Indices: 507306--507366 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 23
507296 AATTTATTAA
* *
507306 TAATAAAAATTTAATAATATAATT
1 TAAT-AAAATTAAATAATATAACT
*
507330 TAATAAAATTAAATATTATAACT
1 TAATAAAATTAAATAATATAACT
507353 TATATATAAATTAA
1 TA-ATA-AAATTAA
507367 TATTAAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.56
24 7 0.22
25 7 0.22
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
TAATAAAATTAAATAATATAACT
Found at i:507383 original size:31 final size:32
Alignment explanation
Indices: 507337--507397 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 32
507327 ATTTAATAAA
*
507337 ATTAAATATTATAACTT-ATATATAAATTAAT
1 ATTAAATATTATAACTTAAAATATAAATTAAT
507368 ATTAAAT-TTATTAACTTAAAATATAAATTA
1 ATTAAATATTA-TAACTTAAAATATAAATTA
507398 TTTACAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 3 0.11
31 13 0.48
32 11 0.41
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (32 bp):
ATTAAATATTATAACTTAAAATATAAATTAAT
Found at i:507653 original size:17 final size:17
Alignment explanation
Indices: 507633--507666 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
507623 CTTAAAACAT
507633 ATTTTTTATTTTTTAAA
1 ATTTTTTATTTTTTAAA
507650 ATTTTTTATTTTTTAAA
1 ATTTTTTATTTTTTAAA
507667 TTATTATCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTTTTATTTTTTAAA
Found at i:508028 original size:19 final size:20
Alignment explanation
Indices: 507990--508029 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
507980 ACGTTTTTGG
507990 TGAAAAATAATAATAATTTTT
1 TGAAAAAT-ATAATAATTTTT
508011 TGAAAAAT-TAAT-ATTTTT
1 TGAAAAATATAATAATTTTT
508029 T
1 T
508030 ATTTGAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.37
19 4 0.21
21 8 0.42
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
TGAAAAATATAATAATTTTT
Found at i:509207 original size:18 final size:18
Alignment explanation
Indices: 509184--509223 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
509174 ATTATAAAAT
509184 ATATATAAATAAATATTA
1 ATATATAAATAAATATTA
* * *
509202 ATATATAATTAATTTTTA
1 ATATATAAATAAATATTA
509220 ATAT
1 ATAT
509224 TTTAATATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATATAAATAAATATTA
Found at i:509705 original size:19 final size:19
Alignment explanation
Indices: 509659--509695 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
509649 ACATTATCTT
509659 TAAAAAT-ATATATATTTTA
1 TAAAAATAAT-TATATTTTA
509678 TAAAAATAATTATATTTT
1 TAAAAATAATTATATTTT
509696 TACATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TAAAAATAATTATATTTTA
Found at i:512438 original size:6 final size:6
Alignment explanation
Indices: 512422--512452 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
512412 CACTACACTT
*
512422 GCTGGA ACTGGA GCTGGA GCTGGA GCTGGA G
1 GCTGGA GCTGGA GCTGGA GCTGGA GCTGGA G
512453 GCTCTTCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.19, C:0.16, G:0.48, T:0.16
Consensus pattern (6 bp):
GCTGGA
Found at i:513635 original size:22 final size:21
Alignment explanation
Indices: 513610--513658 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
513600 TTTTTCGTTA
* *
513610 ATAAAATATTAAATTTTTAATT
1 ATAAAATA-AAAATTTTTAAAT
*
513632 ATAAATTAAAAATTTTTAAAT
1 ATAAAATAAAAATTTTTAAAT
513653 ATAAAA
1 ATAAAA
513659 AAATCATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
ATAAAATAAAAATTTTTAAAT
Found at i:516012 original size:29 final size:31
Alignment explanation
Indices: 515950--516034 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 31
515940 GGTTTAAGGT
*
515950 AAAAGATATTTATCTCTCTAAAGTTTTATAA
1 AAAATATATTTATCTCTCTAAAGTTTTATAA
* * *
515981 AAAATATATTTATCTTTTTAATG-TTTA-AA
1 AAAATATATTTATCTCTCTAAAGTTTTATAA
**
516010 AAAATCCATTTATC-CTCTAAAGTTT
1 AAAATATATTTATCTCTCTAAAGTTT
516035 AGTTAAAAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
28 5 0.11
29 16 0.36
30 4 0.09
31 19 0.43
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.45
Consensus pattern (31 bp):
AAAATATATTTATCTCTCTAAAGTTTTATAA
Found at i:516272 original size:34 final size:34
Alignment explanation
Indices: 516206--516390 Score: 264
Period size: 34 Copynumber: 5.5 Consensus size: 34
516196 TTAAATTATT
* *
516206 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
516239 ATTGTTGACTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
516273 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
516307 ATTATTGATTAAATGGGTGATTTGGTGGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
516341 ATTGTTGACTAAATGGGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
516375 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
516391 TGGTTTTTAC
Statistics
Matches: 134, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
33 13 0.10
34 121 0.90
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.40
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:516735 original size:19 final size:19
Alignment explanation
Indices: 516691--516727 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
516681 TTGGTTGTCG
516691 AGGTACTATTCACGTATAT
1 AGGTACTATTCACGTATAT
516710 AGGTACTATTCACGTATA
1 AGGTACTATTCACGTATA
516728 CGGTTACTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
AGGTACTATTCACGTATAT
Found at i:520895 original size:34 final size:34
Alignment explanation
Indices: 520801--520984 Score: 255
Period size: 34 Copynumber: 5.5 Consensus size: 34
520791 AAGTGGGAGA
* *
520801 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
520834 ATTGTTGACTAAAT-GGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
520867 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
520901 ATTATTGATTAAATGGGTGATTTGGTGGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
520935 ATTGTTGACTAAATGGGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
520969 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
520985 TGGTTTTTAC
Statistics
Matches: 133, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
33 42 0.32
34 91 0.68
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.40
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:521567 original size:18 final size:18
Alignment explanation
Indices: 521539--521583 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 18
521529 TTTAAATATA
521539 AAAATATTTTTTTAT-TTT
1 AAAA-ATTTTTTTATCTTT
521557 AATAAA-TTTTTTATCTTT
1 AA-AAATTTTTTTATCTTT
521575 AAAAATTTT
1 AAAAATTTT
521584 AAAATAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
17 11 0.46
18 11 0.46
19 2 0.08
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
AAAAATTTTTTTATCTTT
Found at i:521568 original size:17 final size:17
Alignment explanation
Indices: 521546--521583 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
521536 ATAAAAATAT
521546 TTTTTTAT-TTTAATAAA
1 TTTTTTATCTTTAA-AAA
521563 TTTTTTATCTTTAAAAA
1 TTTTTTATCTTTAAAAA
521580 TTTT
1 TTTT
521584 AAAATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTTTATCTTTAAAAA
Found at i:521607 original size:25 final size:26
Alignment explanation
Indices: 521579--521632 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
521569 ATCTTTAAAA
* *
521579 ATTTTAAAATAATAATAAT-TAATTT
1 ATTTTAAAATAAAAATAATATAATAT
*
521604 ATTTTTAAATAAAAATAATATAATAT
1 ATTTTAAAATAAAAATAATATAATAT
521630 ATT
1 ATT
521633 ACTATCAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 17 0.68
26 8 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
ATTTTAAAATAAAAATAATATAATAT
Found at i:522665 original size:15 final size:15
Alignment explanation
Indices: 522640--522682 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 15
522630 CACCTCTCTC
522640 TATTT-TTTTTAAAT
1 TATTTATTTTTAAAT
522654 TATTTATTTTTAAAT
1 TATTTATTTTTAAAT
522669 TAATTATATTTTTA
1 T-ATT-TATTTTTA
522683 TTTCATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.19
15 10 0.38
16 3 0.12
17 8 0.31
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTATTTTTAAAT
Found at i:522678 original size:17 final size:16
Alignment explanation
Indices: 522645--522710 Score: 64
Period size: 17 Copynumber: 4.0 Consensus size: 16
522635 CTCTCTATTT
522645 TTTTTAAATT-ATT-TA
1 TTTTT-AATTAATTATA
522660 TTTTTAAATTAATTATA
1 TTTTT-AATTAATTATA
* *
522677 TTTTTATTTCATTTATA
1 TTTTTAATT-AATTATA
522694 TTTTTAATATAATTATA
1 TTTTTAAT-TAATTATA
522711 ATTATTATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
15 10 0.23
16 6 0.14
17 26 0.60
18 1 0.02
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTTAATTAATTATA
Found at i:522716 original size:21 final size:21
Alignment explanation
Indices: 522692--522734 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
522682 ATTTCATTTA
*
522692 TATT-TTTAATATAATTATAAT
1 TATTATTTAACATAA-TATAAT
*
522713 TATTATTTAGCATAATATAAT
1 TATTATTTAACATAATATAAT
522734 T
1 T
522735 TTAGTATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
TATTATTTAACATAATATAAT
Found at i:522794 original size:87 final size:88
Alignment explanation
Indices: 522698--522859 Score: 217
Period size: 89 Copynumber: 1.8 Consensus size: 88
522688 TTTATATTTT
*
522698 TAATATAATTAT-AATTATTATTT-AGCAT-AATATAATTT-TAGTATATACTT-TGTTATTTAA
1 TAATATAATT-TGAATTATTATTTGA-CATAAATATAATTTATA-TATATA-TTATATTATTTAA
522758 TATAAATATAATTATTTATTTTTAATA
62 TATAAATATAATTATTTATTTTTAATA
* *
522785 TAATATAATTTGAATTATTGTTTGACATAAAATATAATTTATATTTATATTATATTATTTAATAT
1 TAATATAATTTGAATTATTATTTGACAT-AAATATAATTTATATATATATTATATTATTTAATAT
522850 AAATATAATT
65 AAATATAATT
522860 TTAATAATTT
Statistics
Matches: 66, Mismatches: 3, Indels: 10
0.84 0.04 0.13
Matches are distributed among these distances:
86 1 0.02
87 23 0.35
88 3 0.05
89 37 0.56
90 2 0.03
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (88 bp):
TAATATAATTTGAATTATTATTTGACATAAATATAATTTATATATATATTATATTATTTAATATA
AATATAATTATTTATTTTTAATA
Found at i:522868 original size:9 final size:9
Alignment explanation
Indices: 522854--522878 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
522844 TAATATAAAT
522854 ATAATTTTA
1 ATAATTTTA
522863 ATAATTTTA
1 ATAATTTTA
522872 ATAATTT
1 ATAATTT
522879 GTCCTATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
ATAATTTTA
Found at i:524459 original size:24 final size:24
Alignment explanation
Indices: 524404--524460 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
524394 GATTTGATAT
*
524404 ATTTATTGTGACTAAATAATTTAC
1 ATTTATTTTGACTAAATAATTTAC
524428 ATTTATTTTGACTAAATAATTTAC
1 ATTTATTTTGACTAAATAATTTAC
524452 ATTTATTTT
1 ATTTATTTT
524461 TTTAAATCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (24 bp):
ATTTATTTTGACTAAATAATTTAC
Found at i:526535 original size:9 final size:8
Alignment explanation
Indices: 526511--526562 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
526501 ACGGTTGATA
*
526511 TAATATTT
1 TAATTTTT
526519 TAATTTTT
1 TAATTTTT
526527 TATATTTTT
1 TA-ATTTTT
**
526536 TAAAATTT
1 TAATTTTT
*
526544 TATTTTTT
1 TAATTTTT
*
526552 TGATTTTT
1 TAATTTTT
526560 TAA
1 TAA
526563 AAATAAATTT
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
8 26 0.76
9 8 0.24
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (8 bp):
TAATTTTT
Found at i:526566 original size:25 final size:25
Alignment explanation
Indices: 526515--526564 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 25
526505 TTGATATAAT
526515 ATTTTAATTTTTTATATTTTTTAAA
1 ATTTTAATTTTTTATATTTTTTAAA
526540 ATTTT-ATTTTTT-TGATTTTTTAAA
1 ATTTTAATTTTTTAT-ATTTTTTAAA
526564 A
1 A
526565 ATAAATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 1 0.04
24 18 0.75
25 5 0.21
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (25 bp):
ATTTTAATTTTTTATATTTTTTAAA
Found at i:526572 original size:24 final size:24
Alignment explanation
Indices: 526520--526573 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
526510 ATAATATTTT
* *
526520 AATTTTTTATATTTTTTAAAATTT
1 AATTTTTTATATTTTTTAAAAATA
*
526544 TATTTTTT-TGATTTTTTAAAAATA
1 AATTTTTTAT-ATTTTTTAAAAATA
526568 AATTTT
1 AATTTT
526574 AATTTTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (24 bp):
AATTTTTTATATTTTTTAAAAATA
Found at i:527112 original size:5 final size:5
Alignment explanation
Indices: 527102--527136 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
527092 TGATTTATTG
*
527102 AAATA AAATA AAATTA TAATA AAATA AAATA AAAT
1 AAATA AAATA AAA-TA AAATA AAATA AAATA AAAT
527137 TAGTTATAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (5 bp):
AAATA
Found at i:527124 original size:11 final size:11
Alignment explanation
Indices: 527105--527138 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
527095 TTTATTGAAA
527105 TAAAATAAAAT
1 TAAAATAAAAT
*
527116 TATAATAAAA-
1 TAAAATAAAAT
527126 TAAAATAAAAT
1 TAAAATAAAAT
527137 TA
1 TA
527139 GTTATAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
TAAAATAAAAT
Found at i:530556 original size:14 final size:14
Alignment explanation
Indices: 530537--530757 Score: 119
Period size: 14 Copynumber: 15.6 Consensus size: 14
530527 CCATAATACT
530537 CTTTGGCACAGGTA
1 CTTTGGCACAGGTA
*
530551 CTTTGGCACAAGTA
1 CTTTGGCACAGGTA
* *
530565 C-CTAGCACAGGTA
1 CTTTGGCACAGGTA
* * *
530578 TTTTGACACCGGTA
1 CTTTGGCACAGGTA
* *
530592 CTTTGACAAAGGTA
1 CTTTGGCACAGGTA
* *
530606 C-CTGGCACAAGTA
1 CTTTGGCACAGGTA
* * * *
530619 C-CTAGCACATGTG
1 CTTTGGCACAGGTA
*
530632 CTTTGGCATAGGTA
1 CTTTGGCACAGGTA
* *
530646 C-CTGGCACATGTA
1 CTTTGGCACAGGTA
*
530659 TCTTTGGCATAGGTA
1 -CTTTGGCACAGGTA
*
530674 CTTCTGGCACAAGTA
1 CTT-TGGCACAGGTA
* *
530689 CTTTGACACAGATA
1 CTTTGGCACAGGTA
530703 CTTGACATAGGCACAGGTA
1 CTT----T-GGCACAGGTA
* *
530722 TCTTTAGCACGGGTA
1 -CTTTGGCACAGGTA
*
530737 CTTTGGCACAAGTA
1 CTTTGGCACAGGTA
530751 C-TTGGCA
1 CTTTGGCA
530758 TAATAGGTTC
Statistics
Matches: 154, Mismatches: 42, Indels: 23
0.70 0.19 0.11
Matches are distributed among these distances:
13 43 0.28
14 69 0.45
15 29 0.19
16 1 0.01
18 1 0.01
19 8 0.05
20 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.28
Consensus pattern (14 bp):
CTTTGGCACAGGTA
Found at i:530582 original size:27 final size:27
Alignment explanation
Indices: 530542--530667 Score: 101
Period size: 27 Copynumber: 4.6 Consensus size: 27
530532 ATACTCTTTG
530542 GCACAGGTACTTTGGCACAAGTACCTA
1 GCACAGGTACTTTGGCACAAGTACCTA
* * ** * *
530569 GCACAGGTATTTTGACACCGGTACTTT
1 GCACAGGTACTTTGGCACAAGTACCTA
* *
530596 GACAAAGGTAC-CTGGCACAAGTACCTA
1 G-CACAGGTACTTTGGCACAAGTACCTA
* * * * *
530623 GCACATGTGCTTTGGCATAGGTACCTG
1 GCACAGGTACTTTGGCACAAGTACCTA
*
530650 GCACATGTATCTTTGGCA
1 GCACAGGTA-CTTTGGCA
530668 TAGGTACTTC
Statistics
Matches: 74, Mismatches: 22, Indels: 5
0.73 0.22 0.05
Matches are distributed among these distances:
26 6 0.08
27 53 0.72
28 15 0.20
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (27 bp):
GCACAGGTACTTTGGCACAAGTACCTA
Found at i:538335 original size:118 final size:117
Alignment explanation
Indices: 538027--538382 Score: 426
Period size: 118 Copynumber: 3.0 Consensus size: 117
538017 GTACAAGCTG
* *
538027 CAGCTATAATCACTCGTATATTGGCCTAAGTCATTTATTCAAAAAA-GGTTGAATAATCTACTTC
1 CAGCTATAATCACTCATATATTGGCCTAAGTCATTTATTCAAAAAAGGGTTGAATAATTTACTTC
* * * **
538091 ATTTAAGGTTGAAAGACAATCTCCATAATGAAGTGGATAGTTCCCTTTGGCA
66 ATTTAAGGTTGAGATACAATCTCCCTAACAAAGTGGATAGTTCCCTTTGGCA
* ** * *
538143 CAGCTATGATTGCTCATATATTGGCCTAAGTCATTTATTCCAAAAAGGGTTGAATAATTTGCTTC
1 CAGCTATAATCACTCATATATTGGCCTAAGTCATTTATTCAAAAAAGGGTTGAATAATTTACTTC
* *
538208 ATTTAAGGTTGAGATACAATCTCCCTAACAAAGTAGATAGTTCCTTTTGGCTA
66 ATTTAAGGTTGAGATACAATCTCCCTAACAAAGTGGATAGTTCCCTTTGGC-A
* * * ** * * * *
538261 TAGTTGTAATCACTCATACGTTGGCCTAAGTTACTTATTTAAAAAAGGGTTGAATAATTTACTTT
1 CAGCTATAATCACTCATATATTGGCCTAAGTCATTTATTCAAAAAAGGGTTGAATAATTTACTTC
* * * *
538326 GTTTTAGGTTGAGATTCGATCTCCCTAATCAAAGTGGATAGTTCCCCTTTGAGCA
66 ATTTAAGGTTGAGATACAATCTCCCTAA-CAAAGTGGATAGTT-CCCTTTG-GCA
538381 CA
1 CA
538383 TTTTTAAGAC
Statistics
Matches: 200, Mismatches: 35, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
116 41 0.20
117 60 0.30
118 76 0.38
119 13 0.06
120 8 0.04
121 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (117 bp):
CAGCTATAATCACTCATATATTGGCCTAAGTCATTTATTCAAAAAAGGGTTGAATAATTTACTTC
ATTTAAGGTTGAGATACAATCTCCCTAACAAAGTGGATAGTTCCCTTTGGCA
Found at i:539262 original size:24 final size:23
Alignment explanation
Indices: 539235--539316 Score: 87
Period size: 24 Copynumber: 3.6 Consensus size: 23
539225 ATCCAAACTG
*
539235 TGTTCCAAGAGTCATCCCAAAGGA
1 TGTTCCAAGAGTCATGCCAAA-GA
* *
539259 TGTTCTAGGAGTCATGCCAAAG-
1 TGTTCCAAGAGTCATGCCAAAGA
* *
539281 -GTTCCAAAAGTCGTGCCAAAAGA
1 TGTTCCAAGAGTCATGCC-AAAGA
539304 TGTTCCAAGAGTC
1 TGTTCCAAGAGTC
539317 CTGTCAAATG
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
21 13 0.28
22 4 0.09
23 1 0.02
24 29 0.62
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (23 bp):
TGTTCCAAGAGTCATGCCAAAGA
Found at i:542120 original size:19 final size:18
Alignment explanation
Indices: 542089--542131 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 18
542079 ATTTTTGTTT
542089 AAAAAATTTGTATTGCA-
1 AAAAAATTTGTATTGCAC
*
542106 AAAAAATATTAGTATTTCAC
1 AAAAAAT-TT-GTATTGCAC
542126 AAAAAA
1 AAAAAA
542132 ATAGAGAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 7 0.32
20 6 0.27
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (18 bp):
AAAAAATTTGTATTGCAC
Found at i:542437 original size:22 final size:22
Alignment explanation
Indices: 542398--542439 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
542388 AAATTTTTTA
*
542398 TATATATATTTATTATTTAAGT
1 TATATATATTTATAATTTAAGT
542420 TATATAT-TTTATAAATTTAA
1 TATATATATTTAT-AATTTAA
542440 AAAAATTCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TATATATATTTATAATTTAAGT
Found at i:542995 original size:17 final size:17
Alignment explanation
Indices: 542973--543007 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
542963 TATTTTTTTC
542973 TTTTGTTCTTCTATTAT
1 TTTTGTTCTTCTATTAT
* *
542990 TTTTGTTTTTCTTTTAT
1 TTTTGTTCTTCTATTAT
543007 T
1 T
543008 GGTTTTGTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.09, G:0.06, T:0.77
Consensus pattern (17 bp):
TTTTGTTCTTCTATTAT
Found at i:543026 original size:62 final size:62
Alignment explanation
Indices: 542959--543152 Score: 191
Period size: 62 Copynumber: 3.1 Consensus size: 62
542949 TTTGTTTCTT
542959 TTATTATTTTTTTCTTTTGTTCTTCTATTATTTTTGTTTTTCTTTTATTGGTTTTGTTATCA
1 TTATTATTTTTTTCTTTTGTTCTTCTATTATTTTTGTTTTTCTTTTATTGGTTTTGTTATCA
* ** * * ** * * **
543021 TTATTATTGTTATTCTTGTT-TAATT-AATTACATTTATGTTAAT-ATTCA-TGACTTTGTT-TC
1 TTATTATT-TTTTTCTT-TTGTTCTTCTATT--ATTTTTGTTTTTCTTTTATTGGTTTTGTTATC
*
543081 TT
62 -A
*
543083 TTATCATTTTTTTCTTTTGTTCTTCTATTATTTTTGTTTTTCTTTTATTGGTTTTGTTATCA
1 TTATTATTTTTTTCTTTTGTTCTTCTATTATTTTTGTTTTTCTTTTATTGGTTTTGTTATCA
543145 TTATTATT
1 TTATTATT
543153 GTTACTCTTG
Statistics
Matches: 96, Mismatches: 26, Indels: 20
0.68 0.18 0.14
Matches are distributed among these distances:
60 11 0.11
61 15 0.16
62 44 0.46
63 15 0.16
64 11 0.11
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.68
Consensus pattern (62 bp):
TTATTATTTTTTTCTTTTGTTCTTCTATTATTTTTGTTTTTCTTTTATTGGTTTTGTTATCA
Found at i:543119 original size:17 final size:17
Alignment explanation
Indices: 543097--543131 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
543087 CATTTTTTTC
543097 TTTTGTTCTTCTATTAT
1 TTTTGTTCTTCTATTAT
* *
543114 TTTTGTTTTTCTTTTAT
1 TTTTGTTCTTCTATTAT
543131 T
1 T
543132 GGTTTTGTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.09, G:0.06, T:0.77
Consensus pattern (17 bp):
TTTTGTTCTTCTATTAT
Found at i:543154 original size:124 final size:124
Alignment explanation
Indices: 542934--543179 Score: 474
Period size: 124 Copynumber: 2.0 Consensus size: 124
542924 TTTTTCACAC
*
542934 GTTAATATTCATGACTTTGTTTCTTTTATTATTTTTTTCTTTTGTTCTTCTATTATTTTTGTTTT
1 GTTAATATTCATGACTTTGTTTCTTTTATCATTTTTTTCTTTTGTTCTTCTATTATTTTTGTTTT
*
542999 TCTTTTATTGGTTTTGTTATCATTATTATTGTTATTCTTGTTTAATTAATTACATTTAT
66 TCTTTTATTGGTTTTGTTATCATTATTATTGTTACTCTTGTTTAATTAATTACATTTAT
543058 GTTAATATTCATGACTTTGTTTCTTTTATCATTTTTTTCTTTTGTTCTTCTATTATTTTTGTTTT
1 GTTAATATTCATGACTTTGTTTCTTTTATCATTTTTTTCTTTTGTTCTTCTATTATTTTTGTTTT
543123 TCTTTTATTGGTTTTGTTATCATTATTATTGTTACTCTTGTTTAATTAATTACATTT
66 TCTTTTATTGGTTTTGTTATCATTATTATTGTTACTCTTGTTTAATTAATTACATTT
543180 CTTTATTTTT
Statistics
Matches: 120, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
124 120 1.00
ACGTcount: A:0.17, C:0.09, G:0.08, T:0.65
Consensus pattern (124 bp):
GTTAATATTCATGACTTTGTTTCTTTTATCATTTTTTTCTTTTGTTCTTCTATTATTTTTGTTTT
TCTTTTATTGGTTTTGTTATCATTATTATTGTTACTCTTGTTTAATTAATTACATTTAT
Found at i:543191 original size:62 final size:62
Alignment explanation
Indices: 543001--543193 Score: 155
Period size: 62 Copynumber: 3.1 Consensus size: 62
542991 TTTGTTTTTC
* *
543001 TTTTATTGGTTTTGTTATCATTATTATTGTTATTCTTGTTTAATTAATTACATTTATGTTAAT
1 TTTTATTGGTTTTGTTATCATTATTATTGTTACTCTTGTTTAATTAATTACATTTAT-TTATT
* * ** * * * * * ** *
543064 ATTCA-TGACTTTGTT-TCTTTTATCATTTTTTTCTTTTGTTCT--TCT-ATTATTTTTGTTT-T
1 TTTTATTGGTTTTGTTATC-ATTATTA-TTGTTACTCTTGTT-TAAT-TAATTACATTTATTTAT
543123 T
62 T
*
543124 CTTTTATTGGTTTTGTTATCATTATTATTGTTACTCTTGTTTAATTAATTACATTTCTTTATT
1 -TTTTATTGGTTTTGTTATCATTATTATTGTTACTCTTGTTTAATTAATTACATTTATTTATT
543187 TTTTATT
1 TTTTATT
543194 TTTATTTTAT
Statistics
Matches: 93, Mismatches: 26, Indels: 23
0.65 0.18 0.16
Matches are distributed among these distances:
60 2 0.02
61 19 0.20
62 53 0.57
63 18 0.19
64 1 0.01
ACGTcount: A:0.19, C:0.08, G:0.08, T:0.65
Consensus pattern (62 bp):
TTTTATTGGTTTTGTTATCATTATTATTGTTACTCTTGTTTAATTAATTACATTTATTTATT
Found at i:543445 original size:13 final size:13
Alignment explanation
Indices: 543427--543510 Score: 53
Period size: 13 Copynumber: 6.3 Consensus size: 13
543417 TATTAATTGA
543427 CACAGGTACTTGG
1 CACAGGTACTTGG
**
543440 CACAGGTGTTTTGG
1 CACAGGT-ACTTGG
* * *
543454 CACAAGTACCTGA
1 CACAGGTACTTGG
*
543467 CACAAGTA-TCTGG
1 CACAGGTACT-TGG
*
543480 CACAGGTATTTTGG
1 CACAGGTA-CTTGG
* *
543494 CATAGGTACTTCG
1 CACAGGTACTTGG
543507 CACA
1 CACA
543511 AGTATCTTTA
Statistics
Matches: 53, Mismatches: 14, Indels: 8
0.71 0.19 0.11
Matches are distributed among these distances:
13 32 0.60
14 20 0.38
15 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (13 bp):
CACAGGTACTTGG
Found at i:543481 original size:40 final size:40
Alignment explanation
Indices: 543424--543517 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
543414 TAATATTAAT
* *
543424 TGACACAGGTA-CTTGGCACAGGTGTTTTGGCACAAGTACC
1 TGACACAAGTATC-TGGCACAGGTATTTTGGCACAAGTACC
* * *
543464 TGACACAAGTATCTGGCACAGGTATTTTGGCATAGGTACT
1 TGACACAAGTATCTGGCACAGGTATTTTGGCACAAGTACC
543504 TCG-CACAAGTATCT
1 T-GACACAAGTATCT
543518 TTAGCATAGA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 45 0.96
41 2 0.04
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (40 bp):
TGACACAAGTATCTGGCACAGGTATTTTGGCACAAGTACC
Found at i:548593 original size:21 final size:22
Alignment explanation
Indices: 548555--548595 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
548545 TAATTTCAAC
**
548555 ACAGAAAAAAACTCAGGAAATA
1 ACAGAAAAAAACGAAGGAAATA
548577 ACAGAAAAAAA-GAAGGAAA
1 ACAGAAAAAAACGAAGGAAA
548596 AGGGAAAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.68, C:0.10, G:0.17, T:0.05
Consensus pattern (22 bp):
ACAGAAAAAAACGAAGGAAATA
Found at i:550587 original size:43 final size:43
Alignment explanation
Indices: 550523--550606 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
550513 AACCAAGTCA
* *
550523 TGGTTCCATTATTGAATCAATATTCCAAACTAAAGGAATGTTG
1 TGGTTCCATAATTGAACCAATATTCCAAACTAAAGGAATGTTG
550566 TGGTTCCATAATTGAACCAATATTCCAAACTAAAGGAATGT
1 TGGTTCCATAATTGAACCAATATTCCAAACTAAAGGAATGT
550607 CATGGTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.32
Consensus pattern (43 bp):
TGGTTCCATAATTGAACCAATATTCCAAACTAAAGGAATGTTG
Found at i:552920 original size:20 final size:20
Alignment explanation
Indices: 552884--552921 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
552874 TTAATTTATA
*
552884 TTATAAATGAATAATTATTT
1 TTATAAATGAAAAATTATTT
552904 TTATAAAT-AAAAGATTAT
1 TTATAAATGAAAA-ATTAT
552922 ATAGTATCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
TTATAAATGAAAAATTATTT
Found at i:552965 original size:29 final size:28
Alignment explanation
Indices: 552933--553006 Score: 69
Period size: 29 Copynumber: 2.5 Consensus size: 28
552923 TAGTATCGTA
*
552933 AATTATTTTAAAAATTATTAATTTTTTAT
1 AATTATTTTAAAAATTATT-ATCTTTTAT
* *
552962 AATTATAATT-AGAATTATTATCTTTTAT
1 AATTAT-TTTAAAAATTATTATCTTTTAT
*
552990 AATAAATTTTATAAAAT
1 AAT-TATTTTA-AAAAT
553007 AAAAAAATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
28 13 0.37
29 16 0.46
30 6 0.17
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (28 bp):
AATTATTTTAAAAATTATTATCTTTTAT
Found at i:557268 original size:16 final size:16
Alignment explanation
Indices: 557247--557307 Score: 79
Period size: 16 Copynumber: 3.8 Consensus size: 16
557237 TAGATTCAAA
*
557247 TTATTTAAAATTAAAT
1 TTATTTAAATTTAAAT
557263 TTATTTTAAATTTAAAT
1 TTA-TTTAAATTTAAAT
*
557280 TAATTTAAATTTAAAT
1 TTATTTAAATTTAAAT
557296 ATT-TTTAAATTT
1 -TTATTTAAATTT
557308 TAAAATTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
16 25 0.62
17 15 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATTTAAATTTAAAT
Found at i:557276 original size:6 final size:6
Alignment explanation
Indices: 557249--557295 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
557239 GATTCAAATT
* *
557249 ATTTAA AATTAA ATTT-A TTTTAA ATTTAA A-TT-A ATTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
557294 AT
1 AT
557296 ATTTTTAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
4 2 0.06
5 8 0.24
6 24 0.71
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
ATTTAA
Found at i:557280 original size:32 final size:32
Alignment explanation
Indices: 557233--557307 Score: 98
Period size: 32 Copynumber: 2.3 Consensus size: 32
557223 GATCCGACTT
* * *
557233 TTTTTAGATTCAAATT-ATTTAAAATTAAATT
1 TTTTTAAATTTAAATTAATTTAAAATTAAATA
*
557264 TATTTTAAATTTAAATTAATTTAAATTTAAATA
1 T-TTTTAAATTTAAATTAATTTAAAATTAAATA
557297 TTTTTAAATTT
1 TTTTTAAATTT
557308 TAAAATTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 1 0.03
32 23 0.61
33 14 0.37
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (32 bp):
TTTTTAAATTTAAATTAATTTAAAATTAAATA
Found at i:557286 original size:10 final size:11
Alignment explanation
Indices: 557249--557295 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
557239 GATTCAAATT
557249 ATTTAAAATTAA
1 ATTT-AAATTAA
**
557261 ATTTATTTTAA
1 ATTTAAATTAA
557272 ATTTAAATT-A
1 ATTTAAATTAA
557282 ATTTAAATTTAA
1 ATTTAAA-TTAA
557294 AT
1 AT
557296 ATTTTTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 8 0.28
11 14 0.48
12 7 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
ATTTAAATTAA
Found at i:557325 original size:16 final size:16
Alignment explanation
Indices: 557250--557316 Score: 66
Period size: 16 Copynumber: 4.1 Consensus size: 16
557240 ATTCAAATTA
* *
557250 TTTAAAATTAAATTTAT
1 TTTAAATTTAAATAT-T
*
557267 TTTAAATTTAAAT-TAA
1 TTTAAATTTAAATAT-T
557283 TTTAAATTTAAATATT
1 TTTAAATTTAAATATT
557299 TTTAAATTTTAAA-ATT
1 TTTAAA-TTTAAATATT
557315 TT
1 TT
557317 ATGAATTTAG
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
16 26 0.58
17 19 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTAAATTTAAATATT
Found at i:557808 original size:21 final size:22
Alignment explanation
Indices: 557784--557835 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
557774 ACATGATAGT
557784 AAATAATAAT-TTTTAATTTAA
1 AAATAATAATATTTTAATTTAA
*
557805 AAATAAAAATATTTTAATTTAA
1 AAATAATAATATTTTAATTTAA
557827 AAATAATAA
1 AAATAATAA
557836 ATATATTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 9 0.32
22 19 0.68
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AAATAATAATATTTTAATTTAA
Found at i:557849 original size:20 final size:21
Alignment explanation
Indices: 557824--557863 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
557814 TATTTTAATT
*
557824 TAAAAATAATA-AATATATTG
1 TAAAAATAAAAGAATATATTG
557844 TAAAAATAAAAGAATATATT
1 TAAAAATAAAAGAATATATT
557864 TTTCTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (21 bp):
TAAAAATAAAAGAATATATTG
Found at i:557859 original size:21 final size:20
Alignment explanation
Indices: 557802--557863 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
557792 ATTTTTAATT
*
557802 TAAAAATAAAAATATTTTAATT-
1 TAAAAATAAAAA-A-TAT-ATTG
*
557824 TAAAAATAATAAATATATTG
1 TAAAAATAAAAAATATATTG
557844 TAAAAATAAAAGAATATATT
1 TAAAAATAAAA-AATATATT
557864 TTTCTTTTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 3 0.09
20 12 0.34
21 9 0.26
22 11 0.31
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (20 bp):
TAAAAATAAAAAATATATTG
Found at i:557908 original size:6 final size:6
Alignment explanation
Indices: 557899--557938 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
557889 CTCCCCTTCC
557899 CCTCTT CCTCTT CCTCTT CCTCTTT CCTTCTT CCT-TT CCT
1 CCTCTT CCTCTT CCTCTT CCTC-TT CC-TCTT CCTCTT CCT
557939 TCCCAATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.16
6 17 0.53
7 8 0.25
8 2 0.06
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (6 bp):
CCTCTT
Found at i:557917 original size:20 final size:20
Alignment explanation
Indices: 557894--557937 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
557884 TTTCCCTCCC
557894 CTTCCCCTCTTCC-TCTTCCT
1 CTTCCCCT-TTCCTTCTTCCT
*
557914 CTTCCTCTTTCCTTCTTCCT
1 CTTCCCCTTTCCTTCTTCCT
557934 -TTCC
1 CTTCC
557938 TTCCCAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (20 bp):
CTTCCCCTTTCCTTCTTCCT
Found at i:557937 original size:19 final size:18
Alignment explanation
Indices: 557899--557938 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
557889 CTCCCCTTCC
557899 CCTCTTCCTCTTCCTCTT
1 CCTCTTCCTCTTCCTCTT
557917 CCTCTTTCCTTCTTCCT-TT
1 CCTC-TTCC-TCTTCCTCTT
557936 CCT
1 CCT
557939 TCCCAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 9 0.45
20 7 0.35
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (18 bp):
CCTCTTCCTCTTCCTCTT
Found at i:558976 original size:19 final size:20
Alignment explanation
Indices: 558931--558982 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
558921 TTACAAGCCA
*
558931 ATGTATCGATACATTTTGGG
1 ATGTATCGATACATATTGGG
*
558951 ATGTATCGATACATATTGTG
1 ATGTATCGATACATATTGGG
558971 -TGTATCGATACA
1 ATGTATCGATACA
558983 ACCAGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATATTGGG
Found at i:559580 original size:27 final size:27
Alignment explanation
Indices: 559538--559591 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
559528 CTCGTGTACA
*
559538 GTCATTCTCCTTGTATCAACATATTGC
1 GTCATTCTCCTGGTATCAACATATTGC
*
559565 GTCATTCTGCTGGTATCAACATATTGC
1 GTCATTCTCCTGGTATCAACATATTGC
559592 TTAACCTGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (27 bp):
GTCATTCTCCTGGTATCAACATATTGC
Found at i:559734 original size:16 final size:16
Alignment explanation
Indices: 559710--559741 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
559700 CCTTAATAAA
*
559710 GCAATTTAACAATTTC
1 GCAAATTAACAATTTC
559726 GCAAATTAACAATTTC
1 GCAAATTAACAATTTC
559742 TTTCTCCCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.34
Consensus pattern (16 bp):
GCAAATTAACAATTTC
Found at i:562794 original size:70 final size:70
Alignment explanation
Indices: 562672--562802 Score: 183
Period size: 70 Copynumber: 1.9 Consensus size: 70
562662 TTAGAGAATG
* * * * *
562672 TAAGATACAGTTGTAGAAATTATTGGAAAAGGGATTCATTTCGCCTAACATGCTTCTAGGGGTGA
1 TAAGATACAATTGTAGAAATTATTGGAAAAAGGATTCATTTAGACTAACATGCTCCTAGGGGTGA
562737 ATATT
66 ATATT
* *
562742 TAAGATACAATTGTTGAAATTATTGGATAAAAGG-TTCATTTAGACTAGCATGCTCCTAGGG
1 TAAGATACAATTGTAGAAATTATTGGA-AAAAGGATTCATTTAGACTAACATGCTCCTAGGG
562803 TGCTCTTATG
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
70 48 0.91
71 5 0.09
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.33
Consensus pattern (70 bp):
TAAGATACAATTGTAGAAATTATTGGAAAAAGGATTCATTTAGACTAACATGCTCCTAGGGGTGA
ATATT
Found at i:564170 original size:13 final size:13
Alignment explanation
Indices: 564152--564177 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
564142 CAATTTTTTG
564152 TGTATCGATACAT
1 TGTATCGATACAT
564165 TGTATCGATACAT
1 TGTATCGATACAT
564178 ACTTTATGTA
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:564193 original size:32 final size:33
Alignment explanation
Indices: 564132--564195 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
564122 TGCAAGCCAA
** *
564132 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTATGTATCGATACAT
564165 TGTATCGATAC-ATACTTTATGTATCGATACA
1 TGTATCGATACAATACTTTATGTATCGATACA
564196 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTATGTATCGATACAT
Found at i:564897 original size:39 final size:40
Alignment explanation
Indices: 564822--564901 Score: 108
Period size: 39 Copynumber: 2.0 Consensus size: 40
564812 TTTTCTTTCT
**
564822 CCCTTAACTAAAGTAATTTTAACAAATTTGTACATTCTCC
1 CCCTTAACTAAAGTAATTTTAACAAATTTACACATTCTCC
* * *
564862 CCCTTAA-TAAGGTAATTTTAGCAAATTTACGCATTCTCC
1 CCCTTAACTAAAGTAATTTTAACAAATTTACACATTCTCC
564901 C
1 C
564902 ATTTTAAGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
39 28 0.80
40 7 0.20
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.36
Consensus pattern (40 bp):
CCCTTAACTAAAGTAATTTTAACAAATTTACACATTCTCC
Found at i:566774 original size:13 final size:13
Alignment explanation
Indices: 566756--566794 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
566746 ATAATCCCCC
*
566756 TGTATCGATACAG
1 TGTATCGATACAA
566769 TGTATCGATACAA
1 TGTATCGATACAA
*
566782 TGTATTGATACAA
1 TGTATCGATACAA
566795 AGAAAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:567008 original size:8 final size:8
Alignment explanation
Indices: 566995--567026 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
566985 CATCATTCAA
566995 CACAAAAT
1 CACAAAAT
567003 CACAAAAT
1 CACAAAAT
567011 CACAAAAT
1 CACAAAAT
567019 CACAAAAT
1 CACAAAAT
567027 TTAATCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.62, C:0.25, G:0.00, T:0.12
Consensus pattern (8 bp):
CACAAAAT
Found at i:572430 original size:13 final size:13
Alignment explanation
Indices: 572412--572437 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
572402 CAATTTTTTG
572412 TGTATCGATACAT
1 TGTATCGATACAT
572425 TGTATCGATACAT
1 TGTATCGATACAT
572438 ACTTTGTGTA
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:572449 original size:32 final size:33
Alignment explanation
Indices: 572392--572455 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
572382 TGCAAGCCAA
**
572392 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
572425 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
572456 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:576606 original size:118 final size:118
Alignment explanation
Indices: 576472--576707 Score: 427
Period size: 118 Copynumber: 2.0 Consensus size: 118
576462 TAATTTAAGC
* *
576472 AATAAACATACAAGCACAGATTATTTAACTTAGGTTATATTTTACATTGCAATCAATAAAAACTT
1 AATAAACACACAAGCACAGATTATTTAACTGAGGTTATATTTTACATTGCAATCAATAAAAACTT
*
576537 AACCATAATCATTGGTCACAAACTACTACTAATGAATAGGAAACAAGATAATA
66 AACCATAATCATTGATCACAAACTACTACTAATGAATAGGAAACAAGATAATA
*
576590 AATAAACACACAAGCACGGATTATTTAACTGAGGTTATATTTTACATTGCAATCAATAAAAACTT
1 AATAAACACACAAGCACAGATTATTTAACTGAGGTTATATTTTACATTGCAATCAATAAAAACTT
*
576655 AACCATAATCATTGATCACAAACTACTACTAATGAATATGAAACAAGATAATA
66 AACCATAATCATTGATCACAAACTACTACTAATGAATAGGAAACAAGATAATA
576708 GAGAATCAAG
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
118 113 1.00
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (118 bp):
AATAAACACACAAGCACAGATTATTTAACTGAGGTTATATTTTACATTGCAATCAATAAAAACTT
AACCATAATCATTGATCACAAACTACTACTAATGAATAGGAAACAAGATAATA
Found at i:579278 original size:58 final size:58
Alignment explanation
Indices: 579226--579569 Score: 255
Period size: 58 Copynumber: 6.1 Consensus size: 58
579216 AAAATGTATG
* * *
579226 AAATTACATGAAAGCCCTTAGATCATAGAAAATTACCAAAATGGCATCAAAATTCATA
1 AAATTACATAAAAGCCCTTAGATCATAGAAAATGACCAAAATGACATCAAAATTCATA
* ** * *
579284 AAATTGCATCCAAGCCC----CT-ATA-AAAATGACCTAAATGACATCAAAATTCATA
1 AAATTACATAAAAGCCCTTAGATCATAGAAAATGACCAAAATGACATCAAAATTCATA
* ** *
579336 AAATTACATTAAAG-TTTCTAGATCAT-GAAAAATTG-CCAAAATGACATCAACATT-ATA
1 AAATTACATAAAAGCCCT-TAGATCATAG-AAAA-TGACCAAAATGACATCAAAATTCATA
* * *
579393 AAATTACATAAAAGTCCTTAGATC-TAGAAAATGACCTAAATGACATAAAAATTTCATA
1 AAATTACATAAAAGCCCTTAGATCATAGAAAATGACCAAAATGACATCAAAA-TTCATA
* ** * * * * * *
579451 AAATTGCATCCAAGTCCCTAAG-TTATGGACAATGGCCTAAATGACATCAAAA-TCGATA
1 AAATTACATAAAAG-CCCTTAGATCATAGAAAATGACCAAAATGACATCAAAATTC-ATA
* * * * * * * *
579509 TAACTACATTAAAGTCCTTATATCATGGAAAATGACCAAAATAACATCAACATTCATA
1 AAATTACATAAAAGCCCTTAGATCATAGAAAATGACCAAAATGACATCAAAATTCATA
579567 AAA
1 AAA
579570 AATACATCAA
Statistics
Matches: 221, Mismatches: 46, Indels: 38
0.72 0.15 0.12
Matches are distributed among these distances:
52 38 0.17
53 3 0.01
54 1 0.00
55 2 0.01
56 20 0.09
57 33 0.15
58 92 0.42
59 32 0.14
ACGTcount: A:0.47, C:0.18, G:0.10, T:0.26
Consensus pattern (58 bp):
AAATTACATAAAAGCCCTTAGATCATAGAAAATGACCAAAATGACATCAAAATTCATA
Found at i:579340 original size:110 final size:113
Alignment explanation
Indices: 579226--579455 Score: 265
Period size: 110 Copynumber: 2.0 Consensus size: 113
579216 AAAATGTATG
*
579226 AAATTACATGAAAGCC-CTTAGATCAT-AGAAAATTACCAAAATGGCATCAAAATTCATAAAATT
1 AAATTACATGAAAGCCTC-TAGATCATGA-AAAATTACCAAAATGACATCAAAATT-ATAAAATT
* ** *
579289 GCATCCAAGCCCCT-A-TA-AAAATGACCTAAATGACATCAAAA-TTCATA
63 ACATAAAAGCCCCTAACTAGAAAATGACCTAAATGACATAAAAATTTCATA
* ** * *
579336 AAATTACATTAAAGTTTCTAGATCATGAAAAATTGCCAAAATGACATCAACATTATAAAATTACA
1 AAATTACATGAAAGCCTCTAGATCATGAAAAATTACCAAAATGACATCAAAATTATAAAATTACA
* *
579401 TAAAAGTCCTTAGATCTAGAAAATGACCTAAATGACATAAAAATTTCATA
66 TAAAAGCCCCTA-A-CTAGAAAATGACCTAAATGACATAAAAATTTCATA
579451 AAATT
1 AAATT
579456 GCATCCAAGT
Statistics
Matches: 100, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
109 17 0.17
110 44 0.44
111 3 0.03
113 2 0.02
114 23 0.23
115 11 0.11
ACGTcount: A:0.48, C:0.17, G:0.09, T:0.27
Consensus pattern (113 bp):
AAATTACATGAAAGCCTCTAGATCATGAAAAATTACCAAAATGACATCAAAATTATAAAATTACA
TAAAAGCCCCTAACTAGAAAATGACCTAAATGACATAAAAATTTCATA
Found at i:579558 original size:173 final size:171
Alignment explanation
Indices: 579226--579687 Score: 465
Period size: 173 Copynumber: 2.7 Consensus size: 171
579216 AAAATGTATG
* * * * * *
579226 AAATTACATGAAAGCCCTTAGATCATAGAAAATTACCAAAATGGCATCAAAA-TTCATAAAATTG
1 AAATTACATAAAAGTCCTTAGATCATAGAAAATAACCTAAATGACATAAAAATTTCATAAAATTG
* * *
579290 CATCCAAGCCCCT-ATAAAAATGACCTAAATGACATCAAAATTCATAAAATTACATTAAAGTTTC
66 CATCCAAGTCCCTAATAAAAATGACCTAAATGACATCAAAATTCATAAAACTACATTAAAGTCTC
*
579354 TAGATCATGAAAAATTGCCAAAATGACATCAACATT-AT-A
131 TAGATCATGAAAAATTGCCAAAATAACATCAACATTCATAA
*
579393 AAATTACATAAAAGTCCTTAGATC-TAGAAAATGACCTAAATGACATAAAAATTTCATAAAATTG
1 AAATTACATAAAAGTCCTTAGATCATAGAAAATAACCTAAATGACATAAAAATTTCATAAAATTG
* * *
579457 CATCCAAGTCCCTAAGTTATGGACAATGGCCTAAATGACATCAAAA-TCGATATAACTACATTAA
66 CATCCAAGTCCCTAA--TA---AAAATGACCTAAATGACATCAAAATTC-ATAAAACTACATTAA
* *
579521 AGTC-CTTATATCATGGAAAA-TGACCAAAATAACATCAACATTCATAA
125 AGTCTC-TAGATCATGAAAAATTG-CCAAAATAACATCAACATTCATAA
* * ** * * *
579568 AAAATACATCAAAGTCCACAGA-CAATGGAAAATAACCTAAATGACATTAAAATTTTATAAAAAA
1 AAATTACATAAAAGTCCTTAGATC-ATAGAAAATAACCTAAATGACATAAAAATTTCAT--AAAA
* * * * *
579632 TTGCATGCAAATCCCTAGATAATGAAAAATAACCTAAATAACATCATAATTCATAA
63 TTGCATCCAAGTCCC----TAAT-AAAAATGACCTAAATGACATCAAAATTCATAA
579688 TATGATGTAA
Statistics
Matches: 242, Mismatches: 31, Indels: 33
0.79 0.10 0.11
Matches are distributed among these distances:
166 23 0.10
167 46 0.19
168 1 0.00
170 2 0.01
172 5 0.02
173 68 0.28
174 3 0.01
175 19 0.08
176 29 0.12
178 39 0.16
179 2 0.01
180 1 0.00
181 1 0.00
182 3 0.01
ACGTcount: A:0.48, C:0.17, G:0.09, T:0.26
Consensus pattern (171 bp):
AAATTACATAAAAGTCCTTAGATCATAGAAAATAACCTAAATGACATAAAAATTTCATAAAATTG
CATCCAAGTCCCTAATAAAAATGACCTAAATGACATCAAAATTCATAAAACTACATTAAAGTCTC
TAGATCATGAAAAATTGCCAAAATAACATCAACATTCATAA
Found at i:579596 original size:59 final size:59
Alignment explanation
Indices: 579533--579687 Score: 163
Period size: 61 Copynumber: 2.6 Consensus size: 59
579523 TCCTTATATC
* *
579533 ATGGAAAATGACCAAAATAACATCAACATTCATAAAAAA-TACAT-CAAAGTCCAC-AGACA
1 ATGGAAAATAACCTAAATAACATCAA-ATTCATAAAAAATTACATGCAAA-TCC-CTAGACA
* * * * *
579592 ATGGAAAATAACCTAAATGACATTAAAATTTTATAAAAAATTGCATGCAAATCCCTAGATA
1 ATGGAAAATAACCTAAATAACA-TCAAA-TTCATAAAAAATTACATGCAAATCCCTAGACA
*
579653 ATGAAAAATAACCTAAATAACATCATAATTCATAA
1 ATGGAAAATAACCTAAATAACATCA-AATTCATAA
579688 TATGATGTAA
Statistics
Matches: 79, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
59 20 0.25
60 22 0.28
61 33 0.42
62 4 0.05
ACGTcount: A:0.53, C:0.16, G:0.08, T:0.23
Consensus pattern (59 bp):
ATGGAAAATAACCTAAATAACATCAAATTCATAAAAAATTACATGCAAATCCCTAGACA
Found at i:582197 original size:21 final size:20
Alignment explanation
Indices: 582167--582205 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
582157 CACATTTTTG
582167 TCTAAATGTATCGATACATT
1 TCTAAATGTATCGATACATT
582187 TCTAGAATGTATCGATACA
1 TCTA-AATGTATCGATACA
582206 AGGTCCCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (20 bp):
TCTAAATGTATCGATACATT
Found at i:582288 original size:19 final size:19
Alignment explanation
Indices: 582264--582387 Score: 86
Period size: 19 Copynumber: 7.5 Consensus size: 19
582254 AAACAGTAAC
582264 TGTATCGATGCATAGGTGT
1 TGTATCGATGCATAGGTGT
*
582283 TGTATCGATACA-A-----
1 TGTATCGATGCATAGGTGT
582296 TGTATCGATGCATAGGTGT
1 TGTATCGATGCATAGGTGT
*
582315 TGTATCGATACA-A-----
1 TGTATCGATGCATAGGTGT
582328 TGTATCGATGCATAGGTGT
1 TGTATCGATGCATAGGTGT
*
582347 TGTATCGATACA-A-----
1 TGTATCGATGCATAGGTGT
*
582360 TGTATCGATGAATAGGTGT
1 TGTATCGATGCATAGGTGT
582379 TGTATCGAT
1 TGTATCGAT
582388 ACAATTTATC
Statistics
Matches: 80, Mismatches: 7, Indels: 36
0.65 0.06 0.29
Matches are distributed among these distances:
13 32 0.40
14 3 0.04
18 3 0.04
19 42 0.52
ACGTcount: A:0.27, C:0.11, G:0.26, T:0.35
Consensus pattern (19 bp):
TGTATCGATGCATAGGTGT
Found at i:582305 original size:32 final size:32
Alignment explanation
Indices: 582264--582462 Score: 326
Period size: 32 Copynumber: 6.2 Consensus size: 32
582254 AAACAGTAAC
582264 TGTATCGATGCATAGGTGTTGTATCGATACAA
1 TGTATCGATGCATAGGTGTTGTATCGATACAA
582296 TGTATCGATGCATAGGTGTTGTATCGATACAA
1 TGTATCGATGCATAGGTGTTGTATCGATACAA
582328 TGTATCGATGCATAGGTGTTGTATCGATACAA
1 TGTATCGATGCATAGGTGTTGTATCGATACAA
*
582360 TGTATCGATGAATAGGTGTTGTATCGATACAA
1 TGTATCGATGCATAGGTGTTGTATCGATACAA
* * **
582392 TTTATCGATACATAAATGTTGTATCGATACAA
1 TGTATCGATGCATAGGTGTTGTATCGATACAA
* * *
582424 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATGCATAGGTGTTGTATCGATACAA
582456 TGTATCG
1 TGTATCG
582463 CTATGAAGCT
Statistics
Matches: 158, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 158 1.00
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.36
Consensus pattern (32 bp):
TGTATCGATGCATAGGTGTTGTATCGATACAA
Found at i:582418 original size:19 final size:18
Alignment explanation
Indices: 582394--582454 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 18
582384 CGATACAATT
582394 TATCGATACATAAATGTTG
1 TATCGATACATAAAT-TTG
582413 TATCGATAC---AA--TG
1 TATCGATACATAAATTTG
*
582426 TATCGATACATAAGTTTTG
1 TATCGATACATAA-ATTTG
582445 TATCGATACA
1 TATCGATACA
582455 ATGTATCGCT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.31
16 3 0.09
19 21 0.60
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (18 bp):
TATCGATACATAAATTTG
Found at i:582526 original size:13 final size:13
Alignment explanation
Indices: 582508--582533 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
582498 TTACTCAATA
582508 TATCGATACATTG
1 TATCGATACATTG
582521 TATCGATACATTG
1 TATCGATACATTG
582534 ATCTTTTGTA
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):
TATCGATACATTG
Found at i:596169 original size:1 final size:1
Alignment explanation
Indices: 596163--596267 Score: 57
Period size: 1 Copynumber: 105.0 Consensus size: 1
596153 CATCCTCCGT
* * * * * * * * * *
596163 AAAAAAAAAAAAAACAAAACAAAACAAAAAAAGAGACAAAAAAACAAAATAAAACAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* ** * ** *
596228 AACAAAGTAAAAAAAAACAAAGCAAAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
596268 CAACAACGAA
Statistics
Matches: 72, Mismatches: 32, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 72 1.00
ACGTcount: A:0.84, C:0.10, G:0.04, T:0.03
Consensus pattern (1 bp):
A
Done.