Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 2 of 175
Found at i:367261 original size:18 final size:17
Alignment explanation
Indices: 367221--367273 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
367211 AAATATAAAT
367221 TAAAATA-ATAA-TT-A
1 TAAAATATATAATTTAA
*
367235 TTAAATATAT--TTTAA
1 TAAAATATATAATTTAA
367250 TTAAAATATATAATTTAA
1 -TAAAATATATAATTTAA
367268 TAAAAT
1 TAAAAT
367274 TCTAATAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 8 0.26
15 3 0.10
16 9 0.29
17 6 0.19
18 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAATATATAATTTAA
Found at i:367331 original size:60 final size:59
Alignment explanation
Indices: 367147--367333 Score: 157
Period size: 60 Copynumber: 3.1 Consensus size: 59
367137 ATATAATTTA
*
367147 ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTC-TAATAA-TAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
* * ** * * * ** * * * *
367208 GTAAAATAT-AAATTAA-AATAATAATTAT-TAAATATATTTTAATTAAAATATATAAT-TT
1 ATAAAAT-TCTAA-TAATAAT-ATTCTTATATGAATTTACTAAAATCATAATATATGATACT
367266 AATAAAATTCTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
1 -ATAAAATTCTAATAAT-AATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
367327 ATAAAAT
1 ATAAAAT
367334 ATAATTTGAA
Statistics
Matches: 91, Mismatches: 26, Indels: 19
0.67 0.19 0.14
Matches are distributed among these distances:
58 5 0.05
59 37 0.41
60 38 0.42
61 10 0.11
62 1 0.01
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (59 bp):
ATAAAATTCTAATAATAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
Found at i:367332 original size:119 final size:120
Alignment explanation
Indices: 367099--367390 Score: 489
Period size: 119 Copynumber: 2.4 Consensus size: 120
367089 TTACTCATAT
*
367099 TTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTAAA-ATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* * *
367164 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA
65 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
367220 TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTC-TAATAATC
1 TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATC
*
367284 AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAT
66 AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
* *
367339 TTGAAATAATTAA-TATTAAATATATTTTAATTAAAATATATGATTTAATAAA
1 TTAAAATAA-TAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAA
367391 TTTTAAAATA
Statistics
Matches: 163, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
119 105 0.64
120 53 0.33
121 5 0.03
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (120 bp):
TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATC
AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
Found at i:376977 original size:21 final size:21
Alignment explanation
Indices: 376944--377125 Score: 87
Period size: 21 Copynumber: 8.7 Consensus size: 21
376934 ACTGTACCCA
* *
376944 GGAGAAGTGGGGCTATATGCT
1 GGAGAAGTAGGGCTATATGAT
* *
376965 GGGGAAGTAGGGCTGTATGAT
1 GGAGAAGTAGGGCTATATGAT
* * *
376986 GGAGATGTAGGGCTATAGGAG
1 GGAGAAGTAGGGCTATATGAT
* * * * * *
377007 GGTGAGGTTGGGCTGTAAGAA
1 GGAGAAGTAGGGCTATATGAT
* * * *
377028 GGAGATGTCGGACTGTATGAT
1 GGAGAAGTAGGGCTATATGAT
* * * *
377049 GGCGATGTTGGGCTGTATGAT
1 GGAGAAGTAGGGCTATATGAT
* * *
377070 GGAGACGTGGGGCTGTATGCA-
1 GGAGAAGTAGGGCTATATG-AT
* * **
377091 GGTGAAGTTGGGCTATATGCC
1 GGAGAAGTAGGGCTATATGAT
*
377112 GGTGAAGTAGGGCT
1 GGAGAAGTAGGGCT
377126 GTAGCTTGGT
Statistics
Matches: 126, Mismatches: 33, Indels: 4
0.77 0.20 0.02
Matches are distributed among these distances:
21 125 0.99
22 1 0.01
ACGTcount: A:0.22, C:0.09, G:0.45, T:0.25
Consensus pattern (21 bp):
GGAGAAGTAGGGCTATATGAT
Found at i:376990 original size:42 final size:42
Alignment explanation
Indices: 376944--377109 Score: 147
Period size: 42 Copynumber: 4.0 Consensus size: 42
376934 ACTGTACCCA
* * *
376944 GGAGAAGTGGGGCTATATGCTGGGGAAGTAGGGCTGTATGAT
1 GGAGATGTGGGGCTATATGCAGGGGAAGTTGGGCTGTATGAT
* * * * *
376986 GGAGATGTAGGGCTATA-GGAGGGTGAGGTTGGGCTGTAAGAA
1 GGAGATGTGGGGCTATATGCAGGG-GAAGTTGGGCTGTATGAT
* * * * *
377028 GGAGATGTCGGACTGTATG-ATGGCGATGTTGGGCTGTATGAT
1 GGAGATGTGGGGCTATATGCA-GGGGAAGTTGGGCTGTATGAT
* * * *
377070 GGAGACGTGGGGCTGTATGCAGGTGAAGTTGGGCTATATG
1 GGAGATGTGGGGCTATATGCAGGGGAAGTTGGGCTGTATG
377110 CCGGTGAAGT
Statistics
Matches: 99, Mismatches: 21, Indels: 8
0.77 0.16 0.06
Matches are distributed among these distances:
41 4 0.04
42 91 0.92
43 4 0.04
ACGTcount: A:0.22, C:0.08, G:0.45, T:0.25
Consensus pattern (42 bp):
GGAGATGTGGGGCTATATGCAGGGGAAGTTGGGCTGTATGAT
Found at i:377245 original size:21 final size:21
Alignment explanation
Indices: 377112--377242 Score: 136
Period size: 21 Copynumber: 6.2 Consensus size: 21
377102 GCTATATGCC
377112 GGTGAAGTAGGGCTGTAGCTT
1 GGTGAAGTAGGGCTGTAGCTT
* * * *
377133 GGTGAAGTTGGACTATAACTT
1 GGTGAAGTAGGGCTGTAGCTT
* *
377154 GGTGAAGTAGGACTGTAACTT
1 GGTGAAGTAGGGCTGTAGCTT
* *
377175 GGAGACGTAGGGCTGTAGCTT
1 GGTGAAGTAGGGCTGTAGCTT
* *
377196 GGAGACGTAGGGCTGTAGCTT
1 GGTGAAGTAGGGCTGTAGCTT
* * * *
377217 GGAGAGGTAGGGCTATAGCTC
1 GGTGAAGTAGGGCTGTAGCTT
377238 GGTGA
1 GGTGA
377243 GGTTGGAGAA
Statistics
Matches: 96, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 96 1.00
ACGTcount: A:0.23, C:0.11, G:0.40, T:0.26
Consensus pattern (21 bp):
GGTGAAGTAGGGCTGTAGCTT
Found at i:377335 original size:42 final size:43
Alignment explanation
Indices: 377289--377428 Score: 169
Period size: 42 Copynumber: 3.3 Consensus size: 43
377279 TGGACTTGTT
* * ** * * *
377289 GGGCTGTAACCTGGTGAACTAGGACTGTAAG-TAGGTGATGTG
1 GGGCTGTAACCAGGCGAGGTAGGACTGTAAGCCAGGAGATGTA
377331 GGGCTGTAACCAGGCGAGGTAGGACTGT-AGCCAGGAGATGTA
1 GGGCTGTAACCAGGCGAGGTAGGACTGTAAGCCAGGAGATGTA
*
377373 GGGCTGTAACCAGGCGAGGTAGGACTGT-AGCCAGGAGATGAA
1 GGGCTGTAACCAGGCGAGGTAGGACTGTAAGCCAGGAGATGTA
* *
377415 GGACTGTAGCCAGG
1 GGGCTGTAACCAGG
377429 AGATGATGGG
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
41 2 0.02
42 85 0.98
ACGTcount: A:0.26, C:0.16, G:0.40, T:0.19
Consensus pattern (43 bp):
GGGCTGTAACCAGGCGAGGTAGGACTGTAAGCCAGGAGATGTA
Found at i:377358 original size:21 final size:21
Alignment explanation
Indices: 377334--377431 Score: 124
Period size: 21 Copynumber: 4.7 Consensus size: 21
377324 TGATGTGGGG
* *
377334 CTGTAACCAGGCGAGGTAGGA
1 CTGTAGCCAGGAGAGGTAGGA
* *
377355 CTGTAGCCAGGAGATGTAGGG
1 CTGTAGCCAGGAGAGGTAGGA
* *
377376 CTGTAACCAGGCGAGGTAGGA
1 CTGTAGCCAGGAGAGGTAGGA
* *
377397 CTGTAGCCAGGAGATGAAGGA
1 CTGTAGCCAGGAGAGGTAGGA
377418 CTGTAGCCAGGAGA
1 CTGTAGCCAGGAGA
377432 TGATGGGCTG
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 65 1.00
ACGTcount: A:0.29, C:0.17, G:0.39, T:0.15
Consensus pattern (21 bp):
CTGTAGCCAGGAGAGGTAGGA
Found at i:377432 original size:21 final size:21
Alignment explanation
Indices: 377351--377455 Score: 120
Period size: 21 Copynumber: 5.0 Consensus size: 21
377341 CAGGCGAGGT
*
377351 AGGACTGTAGCCAGGAGATGT
1 AGGACTGTAGCCAGGAGATGA
* * * * *
377372 AGGGCTGTAACCAGGCGAGGT
1 AGGACTGTAGCCAGGAGATGA
377393 AGGACTGTAGCCAGGAGATGA
1 AGGACTGTAGCCAGGAGATGA
377414 AGGACTGTAGCCAGGAGATGA
1 AGGACTGTAGCCAGGAGATGA
* * * *
377435 TGGGCTGTAACCAGGGGATGA
1 AGGACTGTAGCCAGGAGATGA
377456 CGTGGGAGAG
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 71 1.00
ACGTcount: A:0.29, C:0.15, G:0.40, T:0.16
Consensus pattern (21 bp):
AGGACTGTAGCCAGGAGATGA
Found at i:377443 original size:42 final size:42
Alignment explanation
Indices: 377334--377455 Score: 138
Period size: 42 Copynumber: 2.9 Consensus size: 42
377324 TGATGTGGGG
* * * *
377334 CTGTAACCAGGCGAGGTAGGACTGTAGCCAGGAGATGTAGGG
1 CTGTAACCAGGAGAGATAGGACTGTAGCCAGGAGATGAAGGA
* *
377376 CTGTAACCAGGCGAGGTAGGACTGTAGCCAGGAGATGAAGGA
1 CTGTAACCAGGAGAGATAGGACTGTAGCCAGGAGATGAAGGA
* * * *
377418 CTGTAGCCAGGAGATGAT-GGGCTGTAACCAGGGGATGA
1 CTGTAACCAGGAGA-GATAGGACTGTAGCCAGGAGATGA
377456 CGTGGGAGAG
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 69 0.97
43 2 0.03
ACGTcount: A:0.28, C:0.16, G:0.39, T:0.16
Consensus pattern (42 bp):
CTGTAACCAGGAGAGATAGGACTGTAGCCAGGAGATGAAGGA
Found at i:386431 original size:29 final size:31
Alignment explanation
Indices: 386371--386436 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 31
386361 TGAACTTGAA
* * **
386371 TTTAAAAATCTAAATAATTTAAGGACTAAAT
1 TTTAAAAATATAAATAATATAAGGAAAAAAT
386402 TTTAAAAA-ATAAA-AATATAAGGAAAAAAT
1 TTTAAAAATATAAATAATATAAGGAAAAAAT
386431 TTTAAA
1 TTTAAA
386437 TAACAGAGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 19 0.61
30 4 0.13
31 8 0.26
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (31 bp):
TTTAAAAATATAAATAATATAAGGAAAAAAT
Found at i:396887 original size:31 final size:31
Alignment explanation
Indices: 396850--396918 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 31
396840 TGGACCCCAA
*
396850 AAAGTTTAAGTACCAACTTCA-GAAAAAGTGT
1 AAAGTTTAAGTACCAAATT-AGGAAAAAGTGT
*
396881 AAAGTTTAGGTACCAAATTAGGAAAAAGTGT
1 AAAGTTTAAGTACCAAATTAGGAAAAAGTGT
*
396912 CAAGTTT
1 AAAGTTT
396919 GGGTATCTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 1 0.03
31 33 0.97
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.28
Consensus pattern (31 bp):
AAAGTTTAAGTACCAAATTAGGAAAAAGTGT
Found at i:396983 original size:89 final size:90
Alignment explanation
Indices: 396800--396987 Score: 229
Period size: 89 Copynumber: 2.1 Consensus size: 90
396790 AAAAAATTAA
* * *
396800 GTACCGAATTAAGAAAAAGAGTCAAGTTCATGTACCAAATTGGACCCCAAAAAGTTTAAGTACCA
1 GTACCAAATTAAGAAAAAGAGTCAAGTTCAGGTACCAAATTGGACCCAAAAAAGTTTAAGTACCA
*
396865 ACTTCAGAAAAAGTGTAAAGTTTAG
66 AATTCAGAAAAAGTGTAAAGTTTAG
* * ** * *
396890 GTACCAAATTAGGAAAAAGTGTCAAGTTTGGGTATCTAATTGGA-CCAAAAAAGTTT-AGATACC
1 GTACCAAATTAAGAAAAAGAGTCAAGTTCAGGTACCAAATTGGACCCAAAAAAGTTTAAG-TACC
* *
396953 AAATT-AGAAAAAATTGTCAAGTTTAG
65 AAATTCAG-AAAAAGTGTAAAGTTTAG
396979 GTACCAAAT
1 GTACCAAAT
396988 ATTATATTAA
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
88 4 0.05
89 44 0.52
90 36 0.43
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.26
Consensus pattern (90 bp):
GTACCAAATTAAGAAAAAGAGTCAAGTTCAGGTACCAAATTGGACCCAAAAAAGTTTAAGTACCA
AATTCAGAAAAAGTGTAAAGTTTAG
Found at i:397032 original size:14 final size:14
Alignment explanation
Indices: 397007--397056 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
396997 AGCCCGTACT
397007 ATTTTCTTATTATTA
1 ATTTT-TTATTATTA
*
397022 ATTTTTTATTA-CA
1 ATTTTTTATTATTA
*
397035 ATTTTTTATTTTTA
1 ATTTTTTATTATTA
*
397049 ATATTTTA
1 ATTTTTTA
397057 AAGAAAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 11 0.37
14 14 0.47
15 5 0.17
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTTTTTATTATTA
Found at i:397039 original size:13 final size:14
Alignment explanation
Indices: 397007--397044 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
396997 AGCCCGTACT
*
397007 ATTTTCTTATTATTA
1 ATTTT-TTATTATCA
397022 ATTTTTTATTA-CA
1 ATTTTTTATTATCA
397035 ATTTTTTATT
1 ATTTTTTATT
397045 TTTAATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.50
14 6 0.27
15 5 0.23
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTTTTTATTATCA
Found at i:397769 original size:18 final size:18
Alignment explanation
Indices: 397730--397772 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
397720 GAATAGATTT
*
397730 TTAATTAAATAATTTTAT
1 TTAATTAAATAATTTTAA
397748 TTAATTAAA-AATTTTAAA
1 TTAATTAAATAATTTT-AA
397766 TTAATTA
1 TTAATTA
397773 CATCTTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAATTAAATAATTTTAA
Found at i:401575 original size:2 final size:2
Alignment explanation
Indices: 401568--401597 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
401558 AGGCAACAAC
401568 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
401598 TATATAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:402620 original size:5 final size:5
Alignment explanation
Indices: 402612--402652 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
402602 GACATCAATT
* *
402612 AAAAC AAAAAC CAGAC AAAAC AAAAC AAAAC AAAAC AAAAC
1 AAAAC -AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC
402653 TCATTTCTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.76, C:0.22, G:0.02, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:408878 original size:14 final size:13
Alignment explanation
Indices: 408832--408894 Score: 56
Period size: 13 Copynumber: 4.5 Consensus size: 13
408822 ACAATAATTA
408832 TAAAA-ATAAAATT
1 TAAAATATAAAA-T
408845 TAAAAGTATACCAAAT
1 TAAAA-TATA--AAAT
408861 TAAAATATAAAGAT
1 TAAAATATAAA-AT
* *
408875 TAAATTATAAATT
1 TAAAATATAAAAT
408888 TAAAATA
1 TAAAATA
408895 GTATAGGGAC
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
13 14 0.33
14 12 0.29
15 7 0.17
16 6 0.14
17 3 0.07
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (13 bp):
TAAAATATAAAAT
Found at i:410567 original size:26 final size:26
Alignment explanation
Indices: 410490--410579 Score: 80
Period size: 26 Copynumber: 3.5 Consensus size: 26
410480 CCGAATATAA
410490 TAAATATATTTTT-TTATTT-TTATTTT
1 TAAA-ATATTTTTATT-TTTATTATTTT
* * * *
410516 T-AAAT-TTTTAATTTTAAAATACTTT
1 TAAAATATTTTTATTTT-TATTATTTT
410541 TAAAATATTTTTATTTTTATTATTTT
1 TAAAATATTTTTATTTTTATTATTTT
410567 TAAAATAATTTTT
1 TAAAAT-ATTTTT
410580 TAATGTTTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
23 6 0.12
24 4 0.08
25 8 0.16
26 17 0.34
27 15 0.30
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (26 bp):
TAAAATATTTTTATTTTTATTATTTT
Found at i:410590 original size:29 final size:26
Alignment explanation
Indices: 410538--410591 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
410528 TTTAAAATAC
*
410538 TTTTAAAATATTTTTATTTTTATTAT
1 TTTTAAAATATTTTTATGTTTATTAT
410564 TTTTAAAATAATTTTTTAATGTTTATTA
1 TTTTAAAAT-A-TTTTT-ATGTTTATTA
410592 AAAAATATGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 9 0.38
27 1 0.04
28 5 0.21
29 9 0.38
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (26 bp):
TTTTAAAATATTTTTATGTTTATTAT
Found at i:413816 original size:27 final size:28
Alignment explanation
Indices: 413785--413849 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
413775 TAAAAAAATA
413785 ATCAAAATATTAT-AACTTTTTTTATTT
1 ATCAAAATATTATAAACTTTTTTTATTT
*
413812 ATCAAAATATTATAAAGTTTTTTTATTT
1 ATCAAAATATTATAAACTTTTTTTATTT
*
413840 ACCAAAATAT
1 ATCAAAATAT
413850 ACAAAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 13 0.37
28 22 0.63
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.49
Consensus pattern (28 bp):
ATCAAAATATTATAAACTTTTTTTATTT
Found at i:414118 original size:15 final size:15
Alignment explanation
Indices: 414075--414124 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
414065 AACTCTATTT
414075 TAATTTAATAAACTATTC
1 TAATTTAATAAAC---TC
* *
414093 TCATCTAATAAACTC
1 TAATTTAATAAACTC
414108 TAATTTAATAAACTC
1 TAATTTAATAAACTC
414123 TA
1 TA
414125 TTTTGGTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 17 0.61
18 11 0.39
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (15 bp):
TAATTTAATAAACTC
Found at i:414811 original size:28 final size:27
Alignment explanation
Indices: 414768--414826 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
414758 AGTTTTTGTT
*
414768 TTTTGTTAAATAAAAAAAATTATAATA
1 TTTTGGTAAATAAAAAAAATTATAATA
*
414795 TTTTGGTAAATAAAAAAAGTTATAATA
1 TTTTGGTAAATAAAAAAAATTATAATA
414822 TTTTG
1 TTTTG
414827 ATTATTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.42
Consensus pattern (27 bp):
TTTTGGTAAATAAAAAAAATTATAATA
Found at i:416162 original size:21 final size:21
Alignment explanation
Indices: 416136--416180 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
416126 TTATTAATTT
416136 AAAACTTTATCAATTATAAAA
1 AAAACTTTATCAATTATAAAA
416157 AAAACTTTATCAATTATAAAA
1 AAAACTTTATCAATTATAAAA
416178 AAA
1 AAA
416181 TTTATTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAACTTTATCAATTATAAAA
Found at i:416684 original size:26 final size:26
Alignment explanation
Indices: 416653--416706 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
416643 CCAATTTTTT
* *
416653 AATAAACACCAAAAAAATATTTTAAA
1 AATAAAAAACAAAAAAATATTTTAAA
*
416679 AATAAAAAATAAAAAAATATTTTAAA
1 AATAAAAAACAAAAAAATATTTTAAA
416705 AA
1 AA
416707 AATTAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (26 bp):
AATAAAAAACAAAAAAATATTTTAAA
Found at i:416696 original size:15 final size:15
Alignment explanation
Indices: 416676--416730 Score: 60
Period size: 15 Copynumber: 3.8 Consensus size: 15
416666 AAAATATTTT
*
416676 AAAAATAAAAAATAA
1 AAAAATAAAAATTAA
**
416691 AAAAAT--ATTTTAA
1 AAAAATAAAAATTAA
*
416704 AAAAATTAAAATTAA
1 AAAAATAAAAATTAA
416719 AAAAATAAAAAT
1 AAAAATAAAAAT
416731 ATTTTTTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
13 10 0.31
15 22 0.69
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAAATAAAAATTAA
Found at i:416720 original size:26 final size:26
Alignment explanation
Indices: 416663--416725 Score: 92
Period size: 26 Copynumber: 2.3 Consensus size: 26
416653 AATAAACACC
416663 AAAAAAATATTTTAAAAATAAAAAAT
1 AAAAAAATATTTTAAAAATAAAAAAT
416689 AAAAAAATATTTTAAAAA-AATTAAAATT
1 AAAAAAATATTTTAAAAATAA--AAAA-T
416717 AAAAAAATA
1 AAAAAAATA
416726 AAAATATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
25 2 0.06
26 18 0.53
27 4 0.12
28 10 0.29
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (26 bp):
AAAAAAATATTTTAAAAATAAAAAAT
Found at i:419111 original size:18 final size:18
Alignment explanation
Indices: 419088--419125 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
419078 TCTGTTTTTG
419088 TTAGAAAGATTGCTGAAC
1 TTAGAAAGATTGCTGAAC
* *
419106 TTAGAAGGATTGTTGAAC
1 TTAGAAAGATTGCTGAAC
419124 TT
1 TT
419126 CAAGCAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.34
Consensus pattern (18 bp):
TTAGAAAGATTGCTGAAC
Found at i:420504 original size:18 final size:17
Alignment explanation
Indices: 420476--420510 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
420466 ATTATTAAAA
*
420476 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
420493 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
420511 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:420624 original size:18 final size:17
Alignment explanation
Indices: 420596--420644 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
420586 ATTATTAAGA
*
420596 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
420613 ATTTTAATTAAAATATA-
1 ATTTT-ATTAAAATATAT
* *
420630 ATTATGTTAAAATAT
1 ATTTTATTAAAATAT
420645 GATTAAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 9 0.32
17 9 0.32
18 10 0.36
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:425516 original size:18 final size:18
Alignment explanation
Indices: 425476--425517 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
425466 TTTAATTAAT
*
425476 AAAA-TTAAAAAAAAAGT
1 AAAATTTAAAAAAAAAGC
**
425493 TGAATTTAAAAAAAAAGC
1 AAAATTTAAAAAAAAAGC
425511 AAAATTT
1 AAAATTT
425518 TGAATGGGTC
Statistics
Matches: 19, Mismatches: 5, Indels: 1
0.76 0.20 0.04
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (18 bp):
AAAATTTAAAAAAAAAGC
Found at i:426124 original size:18 final size:20
Alignment explanation
Indices: 426103--426164 Score: 64
Period size: 18 Copynumber: 3.4 Consensus size: 20
426093 TTTAAAAAAA
426103 TATAAAT-TTTT-AAATTTT
1 TATAAATATTTTGAAATTTT
426121 TATAAATATTTTGAAA--TT
1 TATAAATATTTTGAAATTTT
*
426139 TAAAAATCATTTTG-AATTTT
1 TATAAAT-ATTTTGAAATTTT
426159 T-TAAAT
1 TATAAAT
426165 TTATTTTTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
18 17 0.46
19 14 0.38
20 6 0.16
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (20 bp):
TATAAATATTTTGAAATTTT
Found at i:428056 original size:11 final size:12
Alignment explanation
Indices: 428040--428079 Score: 59
Period size: 11 Copynumber: 3.6 Consensus size: 12
428030 AAAATATAAG
428040 TTTTTATGAAT-
1 TTTTTATGAATA
428051 TTTTTAT-AATA
1 TTTTTATGAATA
428062 TTTTT-TGAATA
1 TTTTTATGAATA
428073 TTTTTAT
1 TTTTTAT
428080 ATTTTTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 4 0.15
11 21 0.81
12 1 0.04
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (12 bp):
TTTTTATGAATA
Found at i:431573 original size:6 final size:6
Alignment explanation
Indices: 431562--431589 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
431552 GTGGCCCGGT
431562 AATTTA AATTTA AATTTA AATTTA AATT
1 AATTTA AATTTA AATTTA AATTTA AATT
431590 CTTAATGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
AATTTA
Found at i:432569 original size:17 final size:18
Alignment explanation
Indices: 432532--432570 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
432522 TGTTTGATTC
**
432532 AATAAAATTATGATATTA
1 AATAAAATTATGATAGAA
432550 AATAAAATT-TGATAGAA
1 AATAAAATTATGATAGAA
432567 AATA
1 AATA
432571 TTAATAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (18 bp):
AATAAAATTATGATAGAA
Found at i:441604 original size:13 final size:13
Alignment explanation
Indices: 441586--441620 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
441576 GAAGTTTATA
441586 TGGTTTTGCCCCC
1 TGGTTTTGCCCCC
441599 TGGTTTTGCCCCC
1 TGGTTTTGCCCCC
441612 TGGTTTTGC
1 TGGTTTTGC
441621 TTCCTCTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.00, C:0.31, G:0.26, T:0.43
Consensus pattern (13 bp):
TGGTTTTGCCCCC
Found at i:447745 original size:7 final size:7
Alignment explanation
Indices: 447733--447761 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
447723 AGTACGGTGA
447733 TTAAATT
1 TTAAATT
447740 TTAAATT
1 TTAAATT
447747 TTAAATT
1 TTAAATT
447754 TTAAATT
1 TTAAATT
447761 T
1 T
447762 ACAATGTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TTAAATT
Found at i:448258 original size:16 final size:16
Alignment explanation
Indices: 448237--448276 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
448227 CGTTTGGTTC
*
448237 GCTGTAATGGAATAGA
1 GCTGTAATGCAATAGA
448253 GCTGTAATGCAATAGA
1 GCTGTAATGCAATAGA
*
448269 ACTGTAAT
1 GCTGTAAT
448277 AGTAATTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.28
Consensus pattern (16 bp):
GCTGTAATGCAATAGA
Found at i:448596 original size:28 final size:28
Alignment explanation
Indices: 448559--448613 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
448549 AATTTACTAA
*
448559 AATAATAATATAT-AGTTAATAATAATTT
1 AATAAAAATATATAAGTTAATAA-AATTT
*
448587 AATAAAAATATATAATTTAATAAAATT
1 AATAAAAATATATAAGTTAATAAAATT
448614 CTTAATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (28 bp):
AATAAAAATATATAAGTTAATAAAATTT
Found at i:448619 original size:17 final size:18
Alignment explanation
Indices: 448576--448611 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
448566 ATATATAGTT
448576 AATA-ATAATTTAATAAA
1 AATATATAATTTAATAAA
448593 AATATATAATTTAATAAA
1 AATATATAATTTAATAAA
448611 A
1 A
448612 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AATATATAATTTAATAAA
Found at i:451675 original size:15 final size:15
Alignment explanation
Indices: 451652--451682 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
451642 TGAAAATGAC
451652 CTAAAATTTGCAAAT
1 CTAAAATTTGCAAAT
*
451667 CTAACATTTGCAAAT
1 CTAAAATTTGCAAAT
451682 C
1 C
451683 AGCTGTAACA
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:0.42, C:0.19, G:0.06, T:0.32
Consensus pattern (15 bp):
CTAAAATTTGCAAAT
Found at i:452201 original size:23 final size:23
Alignment explanation
Indices: 452133--452201 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
452123 TTAATTTTAA
*
452133 ATTAA-ATAAAATTTTAAAATTT
1 ATTAATATAAAATTCTAAAATTT
452155 AATT-ATA-AAAATATCTAAAA--T
1 -ATTAATATAAAAT-TCTAAAATTT
*
452176 ATTAATATAAAATTGTAAAATTT
1 ATTAATATAAAATTCTAAAATTT
452199 ATT
1 ATT
452202 TTTCTTTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
20 3 0.08
21 10 0.26
22 11 0.29
23 14 0.37
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (23 bp):
ATTAATATAAAATTCTAAAATTT
Found at i:453875 original size:50 final size:50
Alignment explanation
Indices: 453759--454001 Score: 351
Period size: 50 Copynumber: 4.8 Consensus size: 50
453749 GATCATAACA
* * ** *
453759 TGCCAAAGCCATGTCCCAGACGTGGTCTTACATGGGATGTACTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGG
* **
453810 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
453860 TGCCAACGCCATGTCCCAGACATGGTCTTATATAGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
453910 TGCCCATGCCATGTCCCAGACATGGTCTTACATGGGACCTCACATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
453960 TGCCAATGCCATGTCCCAGACATGGTATTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
454002 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 22, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 137 0.81
51 33 0.19
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:456639 original size:59 final size:58
Alignment explanation
Indices: 456551--456663 Score: 165
Period size: 60 Copynumber: 1.9 Consensus size: 58
456541 GTTTGACAAG
*
456551 TACCAAATTGAACAAAAAAACAATTAGGTACCAAATTAGGGAAAAAATGTCAAGTTTGGA
1 TACCAAATTGAACAAAAAAACAATTAGGTACCAAATTA--GAAAAAATATCAAGTTTGGA
* * *
456611 TACCAACTTGGACAAAAAAA-AATTAGGTACTAAATTAGAAAAAATATCAAGTT
1 TACCAAATTGAACAAAAAAACAATTAGGTACCAAATTAGAAAAAATATCAAGTT
456664 CATATACCAA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
57 15 0.31
59 16 0.33
60 18 0.37
ACGTcount: A:0.51, C:0.12, G:0.14, T:0.23
Consensus pattern (58 bp):
TACCAAATTGAACAAAAAAACAATTAGGTACCAAATTAGAAAAAATATCAAGTTTGGA
Found at i:465154 original size:32 final size:32
Alignment explanation
Indices: 465113--465189 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
465103 TGTTGGCTTT
* *
465113 TTACATGTTGCGACGAAATACGGTTCTTT-TCG
1 TTACTTGTTGCGACGAAATACGCTT-TTTCTCG
*
465145 TTACTTGTTGCGACGAAATATGCTTTTTCTCG
1 TTACTTGTTGCGACGAAATACGCTTTTTCTCG
*
465177 TGACTTGTTGCGA
1 TTACTTGTTGCGA
465190 AATGAAATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 3 0.08
32 37 0.93
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.40
Consensus pattern (32 bp):
TTACTTGTTGCGACGAAATACGCTTTTTCTCG
Found at i:467470 original size:8 final size:8
Alignment explanation
Indices: 467459--467488 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
467449 GAAGCAGAGG
467459 TTATCGAA
1 TTATCGAA
467467 TTATCGAA
1 TTATCGAA
467475 TTATCGAA
1 TTATCGAA
467483 TTATCG
1 TTATCG
467489 CTGCTCTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (8 bp):
TTATCGAA
Found at i:486544 original size:16 final size:16
Alignment explanation
Indices: 486525--486558 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
486515 AAAAGTATTT
* *
486525 TAAAAAAATTTAAAAA
1 TAAAAAAAATAAAAAA
486541 TAAAAAAAATAAAAAA
1 TAAAAAAAATAAAAAA
486557 TA
1 TA
486559 TATTTATTAT
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:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (16 bp):
TAAAAAAAATAAAAAA
Found at i:490556 original size:72 final size:72
Alignment explanation
Indices: 490471--490616 Score: 256
Period size: 72 Copynumber: 2.0 Consensus size: 72
490461 CAAACTGCTC
* *
490471 CAAGCCTTATCAAGCTCAAGCATGAATACATACAAGCTTAACCAAACTCTGGCTCAAGCTCAAGT
1 CAAGCCTTATCAAGCTCAAGCATGAATACATACAAGCTTAACCAAACTCAGCCTCAAGCTCAAGT
490536 AGGAATG
66 AGGAATG
* *
490543 CAAGCCTTATCAAGCTCAAGCATGAATACATACAAGCTTAATCAAGCTCAGCCTCAAGCTCAAGT
1 CAAGCCTTATCAAGCTCAAGCATGAATACATACAAGCTTAACCAAACTCAGCCTCAAGCTCAAGT
490608 AGGAATG
66 AGGAATG
490615 CA
1 CA
490617 TATGAAACAC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.21
Consensus pattern (72 bp):
CAAGCCTTATCAAGCTCAAGCATGAATACATACAAGCTTAACCAAACTCAGCCTCAAGCTCAAGT
AGGAATG
Found at i:495076 original size:29 final size:29
Alignment explanation
Indices: 495033--495090 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
495023 CATATGCATC
*
495033 GTGCAATGATCGAGTTTTTAGAGGGGAAA
1 GTGCAATGATAGAGTTTTTAGAGGGGAAA
*
495062 GTGCGATGATAGAGTTTTTAGAGGGGAAA
1 GTGCAATGATAGAGTTTTTAGAGGGGAAA
495091 AATGCAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.31, C:0.05, G:0.36, T:0.28
Consensus pattern (29 bp):
GTGCAATGATAGAGTTTTTAGAGGGGAAA
Found at i:495657 original size:12 final size:12
Alignment explanation
Indices: 495640--495674 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
495630 GACCCAACCC
495640 ATATTAATTTTT
1 ATATTAATTTTT
495652 ATATT-ATTTTT
1 ATATTAATTTTT
495663 ATA-TAATTTTT
1 ATATTAATTTTT
495674 A
1 A
495675 GATATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 16 0.73
12 5 0.23
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:495831 original size:30 final size:30
Alignment explanation
Indices: 495797--495858 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
495787 CTTAACAAGT
495797 AAATGCCTCTAAAATAATAAAAAAATTAAC
1 AAATGCCTCTAAAATAATAAAAAAATTAAC
* *
495827 AAATGCCTTTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAAAAAAATTAAC
495857 AA
1 AA
495859 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.60, C:0.13, G:0.03, T:0.24
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAAAAAAATTAAC
Found at i:498230 original size:118 final size:119
Alignment explanation
Indices: 498009--498227 Score: 370
Period size: 118 Copynumber: 1.8 Consensus size: 119
497999 CGAGTCTCTC
498009 CTGCACGTTAAACATTCAAAATAAATATGGCAAATACCAACTACTCATAGTACTTCATTGAAGTT
1 CTGCACGTTAAACATTCAAAATAAATATGGCAAATACCAACTACTCATAGTACTTCATTGAAGTT
498074 AATCAAGCCATATATATGCATAAACTTATTAACACATATGCCTTGACTCGAAGT
66 AATCAAGCCATATATATGCATAAACTTATTAACACATATGCCTTGACTCGAAGT
*
498128 CTGCAGGTTAAACATTC-AAATAAATATGGCAAATACCAACTACTCATA-TCACTTCATTGAAGT
1 CTGCACGTTAAACATTCAAAATAAATATGGCAAATACCAACTACTCATAGT-ACTTCATTGAAGT
* *
498191 TAATCAAGCTATATATATGTGCATAAACTTATGAACA
65 TAATCAAGCCATATATA--TGCATAAACTTATTAACA
498228 TATTTTCGAG
Statistics
Matches: 94, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
117 1 0.01
118 60 0.64
119 16 0.17
120 17 0.18
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (119 bp):
CTGCACGTTAAACATTCAAAATAAATATGGCAAATACCAACTACTCATAGTACTTCATTGAAGTT
AATCAAGCCATATATATGCATAAACTTATTAACACATATGCCTTGACTCGAAGT
Found at i:503911 original size:24 final size:24
Alignment explanation
Indices: 503883--503934 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
503873 TTAGTAGGTC
* * *
503883 AAATAAATTGTGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
503907 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
503931 AAAT
1 AAAT
503935 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:507049 original size:20 final size:18
Alignment explanation
Indices: 507024--507063 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 18
507014 ATTTTAAATG
507024 TATTTTAAAATTTTAAAAAA
1 TATTTTAAAA--TTAAAAAA
507044 TATTTTAAAATTAAAAAA
1 TATTTTAAAATTAAAAAA
507062 TA
1 TA
507064 AATATATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.50
20 10 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TATTTTAAAATTAAAAAA
Found at i:510816 original size:19 final size:20
Alignment explanation
Indices: 510782--510823 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
510772 AATTTTTAAT
510782 TTTATTGTATATTATAATAA
1 TTTATTGTATATTATAATAA
* *
510802 TTTATTTTA-ATTATAATTA
1 TTTATTGTATATTATAATAA
510821 TTT
1 TTT
510824 GAAAGTATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTATTGTATATTATAATAA
Found at i:511346 original size:9 final size:9
Alignment explanation
Indices: 511330--511372 Score: 77
Period size: 9 Copynumber: 4.8 Consensus size: 9
511320 GGTATTTTTC
511330 GGTAATTCG
1 GGTAATTCG
*
511339 GTTAATTCG
1 GGTAATTCG
511348 GGTAATTCG
1 GGTAATTCG
511357 GGTAATTCG
1 GGTAATTCG
511366 GGTAATT
1 GGTAATT
511373 TTTAACCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.23, C:0.09, G:0.30, T:0.37
Consensus pattern (9 bp):
GGTAATTCG
Found at i:517512 original size:16 final size:16
Alignment explanation
Indices: 517490--517558 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
517480 TTTGGTTCGC
517490 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
517506 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
517522 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
517539 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
517555 TGTA
1 TGTA
517559 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:517536 original size:33 final size:32
Alignment explanation
Indices: 517490--517558 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
517480 TTTGGTTCGC
517490 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
517522 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
517555 TGTA
1 TGTA
517559 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:517623 original size:44 final size:45
Alignment explanation
Indices: 517544--517628 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 45
517534 AGAGGTGTAT
* *
517544 TGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAATATAA
1 TGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAATATAA
***
517589 TGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAAT
1 TGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAAT
517629 GGAATAGAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
44 18 0.51
45 17 0.49
ACGTcount: A:0.29, C:0.07, G:0.27, T:0.36
Consensus pattern (45 bp):
TGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAATATAA
Found at i:517815 original size:18 final size:17
Alignment explanation
Indices: 517794--517828 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
517784 TTATTATTAA
*
517794 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
517812 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
517829 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:518778 original size:120 final size:120
Alignment explanation
Indices: 517777--518751 Score: 1869
Period size: 120 Copynumber: 8.1 Consensus size: 120
517767 ATCATATTTA
* *
517777 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
*
517842 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
517897 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
517962 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
**
518017 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
518082 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
**
518137 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
518202 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
**
518257 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
518322 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
518377 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
518442 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
518497 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
518562 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
518617 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
518682 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
518737 AACATAATTATTATT
1 AACATAATTATTATT
518752 CTTATATTAA
Statistics
Matches: 848, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 848 1.00
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:518864 original size:120 final size:120
Alignment explanation
Indices: 518740--519425 Score: 1345
Period size: 120 Copynumber: 5.7 Consensus size: 120
518730 ATAAATTAAC
* *
518740 ATAATTATTATTCTTATATTAATTTATTCAAATCATAATATATGATACTGTAAAATATAAATTAA
1 ATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAA
518805 CATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTA
66 CATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTA
518860 ATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAA
1 ATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAA
518925 CATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTA
66 CATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTA
518980 ATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAA
1 ATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAA
519045 CATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTA
66 CATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTA
519100 ATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAA
1 ATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAA
519165 CATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTA
66 CATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTA
*
519220 ATAATTAATGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAA
1 ATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAA
519285 CATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTA
66 CATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTA
519340 ATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAA
1 ATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAA
519405 CATAATTATTATTAAATATAT
66 CATAATTATTATTAAATATAT
519426 AACTTGAAAA
Statistics
Matches: 562, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 562 1.00
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.44
Consensus pattern (120 bp):
ATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAA
CATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTA
Found at i:518919 original size:426 final size:426
Alignment explanation
Indices: 518314--519177 Score: 1710
Period size: 426 Copynumber: 2.0 Consensus size: 426
518304 GAAATTCTTA
*
518314 ATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAA
1 ATAATTATTATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAA
518379 CATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATA
66 CATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATA
518444 TTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATT
131 TTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATT
518509 ATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATT
196 ATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATT
518574 AATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATA
261 AATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATA
518639 TTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCA
326 TTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCA
518704 AATCATAATATATGATACTGTAAAATATAAATTAAC
391 AATCATAATATATGATACTGTAAAATATAAATTAAC
*
518740 ATAATTATTATTCTTATATTAATTTATTCAAATCATAATATATGATACTGTAAAATATAAATTAA
1 ATAATTATTATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAA
518805 CATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATA
66 CATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATA
518870 TTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATT
131 TTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATT
518935 ATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATT
196 ATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATT
519000 AATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATA
261 AATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATA
519065 TTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCA
326 TTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCA
519130 AATCATAATATATGATACTGTAAAATATAAATTAAC
391 AATCATAATATATGATACTGTAAAATATAAATTAAC
519166 ATAATTATTATT
1 ATAATTATTATT
519178 AAATATATTT
Statistics
Matches: 436, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
426 436 1.00
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (426 bp):
ATAATTATTATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAA
CATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATA
TTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATT
ATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATT
AATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATA
TTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCA
AATCATAATATATGATACTGTAAAATATAAATTAAC
Found at i:519105 original size:666 final size:666
Alignment explanation
Indices: 518074--519417 Score: 2625
Period size: 666 Copynumber: 2.0 Consensus size: 666
518064 GAAATTCTTA
*
518074 ATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAA
1 ATAATTATTATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAA
**
518139 CATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATGAAATTCTTAATAATTAATA
66 CATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATA
518204 TTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATT
131 TTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATT
**
518269 ATTAAATATATTTTAATTAAACTATATAATTTAATGAAATTCTTAATAATTAATATTCTTATATT
196 ATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATT
518334 AATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATA
261 AATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATA
518399 TTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCA
326 TTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCA
518464 AATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATTAA
391 AATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATTAA
518529 ACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAATA
456 ACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAATA
518594 TATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATTAAACTATATAAT
521 TATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATTAAACTATATAAT
518659 TTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTG
586 TTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTG
518724 TAAAATATAAATTAAC
651 TAAAATATAAATTAAC
*
518740 ATAATTATTATTCTTATATTAATTTATTCAAATCATAATATATGATACTGTAAAATATAAATTAA
1 ATAATTATTATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAA
518805 CATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATA
66 CATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATA
518870 TTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATT
131 TTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATT
518935 ATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATT
196 ATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATT
519000 AATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATA
261 AATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATA
519065 TTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCA
326 TTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCA
519130 AATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATTAA
391 AATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATTAA
*
519195 ACTATATAATTTAAAAAAATTCTTAATAATTAATGTTCTTATATTAATTTACTCAAATCATAATA
456 ACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAATA
519260 TATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATTAAACTATATAAT
521 TATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATTAAACTATATAAT
519325 TTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTG
586 TTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTG
519390 TAAAATATAAATTAAC
651 TAAAATATAAATTAAC
519406 ATAATTATTATT
1 ATAATTATTATT
519418 AAATATATAA
Statistics
Matches: 671, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
666 671 1.00
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.44
Consensus pattern (666 bp):
ATAATTATTATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAA
CATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATA
TTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATT
ATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATT
AATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATA
TTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCA
AATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATTAA
ACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAATA
TATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATTAAACTATATAAT
TTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTG
TAAAATATAAATTAAC
Found at i:519106 original size:546 final size:546
Alignment explanation
Indices: 518194--519297 Score: 2163
Period size: 546 Copynumber: 2.0 Consensus size: 546
518184 GAAATTCTTA
*
518194 ATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAA
1 ATAATTATTATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAA
**
518259 CATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATGAAATTCTTAATAATTAATA
66 CATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATA
518324 TTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATT
131 TTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATT
518389 ATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATT
196 ATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATT
518454 AATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATA
261 AATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATA
518519 TTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCA
326 TTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCA
518584 AATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATTAA
391 AATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATTAA
518649 ACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAATA
456 ACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAATA
518714 TATGATACTGTAAAATATAAATTAAC
521 TATGATACTGTAAAATATAAATTAAC
*
518740 ATAATTATTATTCTTATATTAATTTATTCAAATCATAATATATGATACTGTAAAATATAAATTAA
1 ATAATTATTATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAA
518805 CATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATA
66 CATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATA
518870 TTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATT
131 TTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATT
518935 ATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATT
196 ATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATT
519000 AATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATA
261 AATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATA
519065 TTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCA
326 TTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCA
519130 AATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATTAA
391 AATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATTAA
*
519195 ACTATATAATTTAAAAAAATTCTTAATAATTAATGTTCTTATATTAATTTACTCAAATCATAATA
456 ACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAATA
519260 TATGATACTGTAAAATATAAATTAAC
521 TATGATACTGTAAAATATAAATTAAC
519286 ATAATTATTATT
1 ATAATTATTATT
519298 AAATATATTT
Statistics
Matches: 553, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
546 553 1.00
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (546 bp):
ATAATTATTATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAA
CATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATA
TTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATT
ATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATT
AATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATA
TTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCA
AATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATTAA
ACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAATA
TATGATACTGTAAAATATAAATTAAC
Found at i:524456 original size:45 final size:44
Alignment explanation
Indices: 524378--524466 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 44
524368 AAAATATGTC
*
524378 TATAGTGATTGTATTTTTGAAAATTTCAAAGTAGGAAATTTAATT
1 TATAGTGATTGTATTTTTAAAAATTTCAAAGTAGG-AATTTAATT
* *
524423 TATAGTGGTTGTATTTTTAAAAAATTT-ATAGTAGGAATTTAATT
1 TATAGTGATTGTATTTTT-AAAAATTTCAAAGTAGGAATTTAATT
524467 CTGTGAAGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
44 9 0.22
45 24 0.60
46 7 0.17
ACGTcount: A:0.37, C:0.01, G:0.16, T:0.46
Consensus pattern (44 bp):
TATAGTGATTGTATTTTTAAAAATTTCAAAGTAGGAATTTAATT
Found at i:524518 original size:24 final size:25
Alignment explanation
Indices: 524481--524528 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
524471 GAAGAATAAG
*
524481 TTTTATTATAAAAATCATGTTTAAT
1 TTTTATTATAAAAATCAAGTTTAAT
*
524506 TTTTATT-TCAAAATCAAGTTTAA
1 TTTTATTATAAAAATCAAGTTTAA
524529 GAATTGGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (25 bp):
TTTTATTATAAAAATCAAGTTTAAT
Found at i:524802 original size:23 final size:23
Alignment explanation
Indices: 524772--524817 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
524762 AGAAGCTAGT
524772 ATGTAACTTAATCAGGCAGCAGA
1 ATGTAACTTAATCAGGCAGCAGA
524795 ATGTAACTTAATCAGGCAGCAGA
1 ATGTAACTTAATCAGGCAGCAGA
524818 CATGAAACAC
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:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (23 bp):
ATGTAACTTAATCAGGCAGCAGA
Found at i:525551 original size:39 final size:39
Alignment explanation
Indices: 525484--525559 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
525474 TTCTTATATT
* *
525484 AAAATTCGAATCTAGCAGTCTTAAGTTTTAAGGTGTTTA
1 AAAATTCGAATCCAGCAATCTTAAGTTTTAAGGTGTTTA
* **
525523 AAAATTCGAATCCAGTAATCTTGTGTTTTAAGGTGTT
1 AAAATTCGAATCCAGCAATCTTAAGTTTTAAGGTGTT
525560 CAAGAAAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (39 bp):
AAAATTCGAATCCAGCAATCTTAAGTTTTAAGGTGTTTA
Found at i:528550 original size:22 final size:22
Alignment explanation
Indices: 528513--528579 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
528503 TTTTCCTTTC
528513 TTTATT-TATT-TCATTTACTTA
1 TTTATTATATTAT-ATTTACTTA
*
528534 TTTATTATATTATATTTA-TTT
1 TTTATTATATTATATTTACTTA
528555 TATTATTATATTATATATTTACTTA
1 T-TTATTATA-T-TATATTTACTTA
528580 AATATTAAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
21 9 0.24
22 17 0.45
23 2 0.05
24 8 0.21
25 2 0.05
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (22 bp):
TTTATTATATTATATTTACTTA
Found at i:528551 original size:14 final size:14
Alignment explanation
Indices: 528532--528570 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
528522 TTCATTTACT
528532 TATTTATTATATTA
1 TATTTATTATATTA
*
528546 TATTTATTTTATTA
1 TATTTATTATATTA
*
528560 T-TATATTATAT
1 TATTTATTATAT
528571 ATTTACTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTTATTATATTA
Found at i:529573 original size:58 final size:58
Alignment explanation
Indices: 529423--529575 Score: 225
Period size: 58 Copynumber: 2.6 Consensus size: 58
529413 ATTCATCGGA
* * * *
529423 ATTAAACTCTAAACTTAACGCCAATTAACTTGAACTTACTAGCAATATCATTGACTCG
1 ATTAAACTCTGAACTTAACGCCAATCAACTTGAATTTACCAGCAATATCATTGACTCG
* * * *
529481 ATTAAACTTTGAATTTAACGCCAATCAACTTGAATTTACCATCAATATGATTGACTCG
1 ATTAAACTCTGAACTTAACGCCAATCAACTTGAATTTACCAGCAATATCATTGACTCG
*
529539 ATTAAACTCTGAACTTAATGCCAATCAACTTGAATTT
1 ATTAAACTCTGAACTTAACGCCAATCAACTTGAATTT
529576 TCCAATATCT
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 84 1.00
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.33
Consensus pattern (58 bp):
ATTAAACTCTGAACTTAACGCCAATCAACTTGAATTTACCAGCAATATCATTGACTCG
Found at i:533592 original size:3 final size:3
Alignment explanation
Indices: 533586--533610 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
533576 ATTGTCTGGT
533586 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
533611 AAATCTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:533678 original size:15 final size:16
Alignment explanation
Indices: 533647--533679 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
533637 TGTTATCAAC
*
533647 TAGTTAGACATAAATT
1 TAGTTAGACAAAAATT
533663 TAGTTAGA-AAAAATT
1 TAGTTAGACAAAAATT
533678 TA
1 TA
533680 AAATTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.48, C:0.03, G:0.12, T:0.36
Consensus pattern (16 bp):
TAGTTAGACAAAAATT
Found at i:534782 original size:28 final size:29
Alignment explanation
Indices: 534731--534798 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
534721 AGCCTCTATC
*
534731 TTTATAATTTTTAAAGGATTAAAT-CAAAT
1 TTTATAATTTTTAAAGGATAAAATAC-AAT
* *
534760 TTTATTATTTTT-AGGGATAAAATACAAT
1 TTTATAATTTTTAAAGGATAAAATACAAT
534788 TTTACTAATTT
1 TTTA-TAATTT
534799 AAAATTTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 16 0.48
29 17 0.52
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (29 bp):
TTTATAATTTTTAAAGGATAAAATACAAT
Found at i:534798 original size:29 final size:29
Alignment explanation
Indices: 534731--534798 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 29
534721 AGCCTCTATC
*
534731 TTTATAATTTTTAAAGGATTAAATCAAAT
1 TTTATAATTTTTAAAGGATAAAATCAAAT
* *
534760 TTTATTATTTTT-AGGGATAAAAT-ACAAT
1 TTTATAATTTTTAAAGGATAAAATCA-AAT
534788 TTTACTAATTT
1 TTTA-TAATTT
534799 AAAATTTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 1 0.03
28 16 0.48
29 16 0.48
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (29 bp):
TTTATAATTTTTAAAGGATAAAATCAAAT
Found at i:535148 original size:29 final size:29
Alignment explanation
Indices: 535096--535151 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
535086 TATAGAGACG
** * *
535096 GATTAATTTAGTCTTTTTATTATTAAATA
1 GATTAATTTAGTCACTGTAATATTAAATA
535125 GATTAATTTAGTCACTGTAATATTAAA
1 GATTAATTTAGTCACTGTAATATTAAA
535152 AAGAATCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (29 bp):
GATTAATTTAGTCACTGTAATATTAAATA
Found at i:540642 original size:21 final size:21
Alignment explanation
Indices: 540616--540656 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
540606 ATCTGCTCAA
* *
540616 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
540637 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
540657 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:544843 original size:4 final size:4
Alignment explanation
Indices: 544834--544890 Score: 114
Period size: 4 Copynumber: 14.2 Consensus size: 4
544824 TTAAAACTTC
544834 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
544882 ATGT ATGT A
1 ATGT ATGT A
544891 CCTGCAAGAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 53 1.00
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:548089 original size:6 final size:7
Alignment explanation
Indices: 548073--548100 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
548063 CATGGATATT
548073 AAAAAGA
1 AAAAAGA
548080 AAAAAGA
1 AAAAAGA
548087 AAAAAGA
1 AAAAAGA
548094 AAAAAGA
1 AAAAAGA
548101 GAGAGTTGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:554737 original size:278 final size:282
Alignment explanation
Indices: 553933--554791 Score: 728
Period size: 278 Copynumber: 3.0 Consensus size: 282
553923 GGAATGTTGC
* * * *
553933 TTGAAAATGAAACCTAGCTTGTACTAAAGCTGCATGTAAATTTGA-ACTGGAGACTGGAACAAAA
1 TTGAAAATGAAACCTAACTTGTACCAAAGCTGCATGTAAATTT-ACACTGGAGAATGGAACAAAG
* * * ** * * *
553997 AATCATGCAAGTTATATAGTGGG-A-ATCATTTAACAGATTATGAAGCTTATATCTTCAATGAGT
65 AATCATGCAAGTTATATAATGGGAATATCATCTAA-TGATCGTGAAGCTTACATATTC--TGACT
** * * ***** * * *
554060 -TTTTTATTCATTAGTTACAGTGAAAGAGTCCCTCTTTCACTTCGATTTGTTCTTGCTGCACATT
127 GACTTT-TT-ATTAGTAACAGTGAAGGAGGGAAACTCTAACTTCAATTTGTTCTTGCTGCACATT
* * * ** ** **
554124 GGTTCTAGGCCTGCTTGTGTTCTTTCACTACAGTTTAGCTTCTTTCT-TTGTATT-AGCTAGAAT
190 GGTTCTAGGCCTGCTTGTGTTCTTTCACTACTGGTTAGCTTCTTTGTATTGGCTTCCCCT-GTGT
** * * *
554187 -CT-AGTGAAA-TTGCATTTTGCCCATGGTGAAATGTT
254 GCTCA-T-AAACTAACA-CTTGCTC-T--TGCAA---T
* * *
554222 GCTTGAACATGAAACCTAACTTGTACCAAAGCTGCATGTAAATTTACTCTGGAGAATGGAGCAAA
1 --TTGAAAATGAAACCTAACTTGTACCAAAGCTGCATGTAAATTTACACTGGAGAATGGAACAAA
*
554287 GAATCATGCAAGTTATATAATGGGAAATATCATCTAATGGATCGTGAAGCTTACATCTTCTGACT
64 GAATCATGCAAGTTATATAATGGG-AATATCATCTAAT-GATCGTGAAGCTTACATATTCTGACT
** * * * *
554352 TTCTTTTTAATTAGTAACATTGGAGGAGGGACACTTTAACTTCAATTTGTTCTTGCTGCACATTG
127 GACTTTTT-ATTAGTAACAGTGAAGGAGGGAAACTCTAACTTCAATTTGTTCTTGCTGCACATTG
* * *
554417 GTTCTAGGTCTGCTTGTGTTCTTTCACTAGTGGTTAGCTTCTTTGTATTGGTTTCCCCTGTGTGC
191 GTTCTAGGCCTGCTTGTGTTCTTTCACTACTGGTTAGCTTCTTTGTATTGGCTTCCCCTGTGTGC
554482 TCATAAACTAACACTTGCTCTTGCAAT
256 TCATAAACTAACACTTGCTCTTGCAAT
* * *
554509 TTGAAAATGAAACCTAGCTTGTACTAAAGCTGCATGGT-AATTTGCACTGGAGAATGGAACAAAG
1 TTGAAAATGAAACCTAACTTGTACCAAAGCTGCAT-GTAAATTTACACTGGAGAATGGAACAAAG
*
554573 AATCATGCAAGTTATATAAT-GG-A-ATCATTTAAT-ATACTGTGAAGCTTACATATT-TGA-TG
65 AATCATGCAAGTTATATAATGGGAATATCATCTAATGAT-C-GTGAAGCTTACATATTCTGACTG
* * ** *
554632 AGTATTTT-TTAGTAACAGTGAAGGAGGGATAAC-CTCACTTGTATTTGTTCTTGTTGCACATTG
128 ACT-TTTTATTAGTAACAGTGAAGGAGGGA-AACTCTAACTTCAATTTGTTCTTGCTGCACATTG
** ** * * *
554695 GTTCTCTGCCTGCTTGTGTTCTTTTGCTACTGTTTAGCTTCTTTGTATTGGCTTCCCCTTTGTGT
191 GTTCTAGGCCTGCTTGTGTTCTTTCACTACTGGTTAGCTTCTTTGTATTGGCTTCCCCTGTGTGC
* * *
554760 TCATAAACTGACACTTTCTCTTGTAAT
256 TCATAAACTAACACTTGCTCTTGCAAT
554787 TTGAA
1 TTGAA
554792 GATTAAGAGA
Statistics
Matches: 478, Mismatches: 74, Indels: 45
0.80 0.12 0.08
Matches are distributed among these distances:
278 128 0.27
279 6 0.01
280 8 0.02
281 24 0.05
282 1 0.00
284 2 0.00
285 75 0.16
286 2 0.00
287 1 0.00
290 5 0.01
291 77 0.16
292 94 0.20
293 20 0.04
294 34 0.07
295 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.38
Consensus pattern (282 bp):
TTGAAAATGAAACCTAACTTGTACCAAAGCTGCATGTAAATTTACACTGGAGAATGGAACAAAGA
ATCATGCAAGTTATATAATGGGAATATCATCTAATGATCGTGAAGCTTACATATTCTGACTGACT
TTTTATTAGTAACAGTGAAGGAGGGAAACTCTAACTTCAATTTGTTCTTGCTGCACATTGGTTCT
AGGCCTGCTTGTGTTCTTTCACTACTGGTTAGCTTCTTTGTATTGGCTTCCCCTGTGTGCTCATA
AACTAACACTTGCTCTTGCAAT
Found at i:554860 original size:21 final size:22
Alignment explanation
Indices: 554817--554879 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 22
554807 AGAGAAGGCC
*
554817 AAGAAGGA-AAGGAAGAAAGAA
1 AAGAAGGAGAAGAAAGAAAGAA
554838 AAGAAGGAGAAGAAAG--AGAA
1 AAGAAGGAGAAGAAAGAAAGAA
554858 AA-AACGGGAGAAGAAAGAAAGA
1 AAGAA--GGAGAAGAAAGAAAGA
554880 GATAAGTCTC
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 2 0.06
20 6 0.17
21 19 0.53
22 6 0.17
23 3 0.08
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (22 bp):
AAGAAGGAGAAGAAAGAAAGAA
Found at i:556989 original size:124 final size:126
Alignment explanation
Indices: 556663--557012 Score: 463
Period size: 126 Copynumber: 2.8 Consensus size: 126
556653 ATTTCGAGTT
** *
556663 AACGTTTCTGATAAAATAATATAAAATCGCTTCTAGCAGGATGGTATTTGAGAAGAATTTGTGAA
1 AACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAA
*
556728 ATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATAGAAGAAATAATTATTTTTTA
66 ATCGCGCCCTCGTAGACGCGCTTTTGCTACAGTAGGTCATAGAAGAAATAATTATTTTTTA
* * * *
556789 AACGTTTCTAAGCAAATAGTATAAAATCGTTTCTAGCAGGATGTTATTTGAGAAGAATTTGTGAA
1 AACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAA
* * * * **
556854 ATTGTGGCCTCGTCAG-TGCGCTTTTGCTACAGTAGGTCATCTAAGAAATAATT-TTTTTT-
66 ATCGCGCCCTCGT-AGACGCGCTTTTGCTACAGTAGGTCATAGAAGAAATAATTATTTTTTA
* * * * *
556913 GATGTTTCTGAGCAAATAATATAAAATCGCTTATAACAGGATGCTATTTGAGAAGAATTTATGAA
1 AACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAA
* * * *
556978 ATCGCGCCCTCGTGGACGCGATTTTGTTATAGTAG
66 ATCGCGCCCTCGTAGACGCGCTTTTGCTACAGTAG
557013 CATGTTTGGG
Statistics
Matches: 192, Mismatches: 30, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
123 1 0.01
124 81 0.42
125 6 0.03
126 103 0.54
127 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (126 bp):
AACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAA
ATCGCGCCCTCGTAGACGCGCTTTTGCTACAGTAGGTCATAGAAGAAATAATTATTTTTTA
Found at i:560118 original size:23 final size:23
Alignment explanation
Indices: 560088--560546 Score: 358
Period size: 23 Copynumber: 19.7 Consensus size: 23
560078 TATTACGTTA
560088 AGGTTAGGGTTTTTAATTGAATTAGGTT
1 AGGTTAGGGTTTTTAATT-AA--A--TT
560116 AGGGTTAGGGTTTTTAATTAAATT
1 A-GGTTAGGGTTTTTAATTAAATT
*
560140 AGGTTAGAGTTTTTAAGTT-AA--
1 AGGTTAGGGTTTTTAA-TTAAATT
*
560161 GGGTTTAGGGTTTTTAATTAAATT
1 AGG-TTAGGGTTTTTAATTAAATT
* *
560185 AGGCTAGGATTTTTAATTAAATT
1 AGGTTAGGGTTTTTAATTAAATT
* *
560208 AGGTTAGGATCTTTAATT-AA--
1 AGGTTAGGGTTTTTAATTAAATT
*
560228 GGGTTTA-GGTTTTTAATTAAATT
1 AGG-TTAGGGTTTTTAATTAAATT
* *
560251 AAGCTAGGGTTTTTAATTAAATT
1 AGGTTAGGGTTTTTAATTAAATT
560274 AGGTTAGGGTTTTTAATT-AA--
1 AGGTTAGGGTTTTTAATTAAATT
*
560294 GGGTTTAGGGTTTTTAATTAAATT
1 AGG-TTAGGGTTTTTAATTAAATT
* *
560318 AGGCTAGGATTTTTAATTAAATT
1 AGGTTAGGGTTTTTAATTAAATT
*
560341 AGGCTAGGGTTTTTAATTAAATT
1 AGGTTAGGGTTTTTAATTAAATT
* *
560364 AGGTTAGAGTTTTTAATTTAA--
1 AGGTTAGGGTTTTTAATTAAATT
*
560385 GGGTTTAGGGTTTTTAATTTAATTGAATT
1 AGG-TTAGGGTTTTTAA-TT-A---AATT
*
560414 AGGTTAGGGTTTTTAATTTAA--
1 AGGTTAGGGTTTTTAATTAAATT
*
560435 GGGTTTAGGGTTTTTAATTGAATTAGGTT
1 AGG-TTAGGGTTTTTAATT-AA--A--TT
560464 AGGGTTAGGGTTTTTAATT-AA--
1 A-GGTTAGGGTTTTTAATTAAATT
* * *
560485 GGGTTTCGGGCTTTTAATTAAATT
1 AGG-TTAGGGTTTTTAATTAAATT
***
560509 AGGTTAGGGTTTAGGATTAAATT
1 AGGTTAGGGTTTTTAATTAAATT
*
560532 AGGCTAGGGTTTTTA
1 AGGTTAGGGTTTTTA
560547 TTACATGTCA
Statistics
Matches: 350, Mismatches: 45, Indels: 77
0.74 0.10 0.16
Matches are distributed among these distances:
20 15 0.04
21 41 0.12
22 51 0.15
23 172 0.49
24 11 0.03
25 2 0.01
26 1 0.00
27 5 0.01
28 16 0.05
29 34 0.10
30 2 0.01
ACGTcount: A:0.28, C:0.02, G:0.24, T:0.46
Consensus pattern (23 bp):
AGGTTAGGGTTTTTAATTAAATT
Found at i:560121 original size:29 final size:29
Alignment explanation
Indices: 560079--560146 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 29
560069 CAAATCAAAT
* * *
560079 ATTACGTTAAGGTTAGGGTTTTTAATTGA
1 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
560108 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
1 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
560137 ATTAGGTTAG
1 ATTAGGTTAG
560147 AGTTTTTAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.44
Consensus pattern (29 bp):
ATTAGGTTAGGGTTAGGGTTTTTAATTAA
Found at i:560343 original size:67 final size:67
Alignment explanation
Indices: 560121--560469 Score: 445
Period size: 67 Copynumber: 5.1 Consensus size: 67
560111 AGGTTAGGGT
*
560121 TAGGGTTTTTAATTAAATTAGGTTAGAGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTA
1 TAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAA-TTAAGGGTTTAGGGTTTTTAATTAAATTA
560186 GGC
65 GGC
* * * *
560189 TAGGATTTTTAATTAAATTAGGTTAGGATCTTTAATTAAGGGTTTA-GGTTTTTAATTAAATTAA
1 TAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGGGTTTAGGGTTTTTAATTAAATTAG
560253 GC
66 GC
560255 TAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGGGTTTAGGGTTTTTAATTAAATTAG
1 TAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGGGTTTAGGGTTTTTAATTAAATTAG
560320 GC
66 GC
* * * * *
560322 TAGGATTTTTAATTAAATTAGGCTAGGGTTTTTAATTAAATTAGG-TTAGAGTTTTTAATTTAA-
1 TAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATT-AA--GGGTTTAGGGTTTTTAATTAAAT
* *
560385 -GGGTT
63 TAGG-C
*
560390 TAGGGTTTTTAATTTAATTGAATTAGGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAATTG
1 TAGGGTTTTTAA-TT-A---AATTAGGTTAGGGTTTTTAA-TTAAGGGTTTAGGGTTTTTAATTA
*
560455 AATTAGGT
60 AATTAGGC
560463 TAGGGTT
1 TAGGGTT
560470 AGGGTTTTTA
Statistics
Matches: 245, Mismatches: 22, Indels: 23
0.84 0.08 0.08
Matches are distributed among these distances:
66 62 0.25
67 67 0.27
68 44 0.18
69 18 0.07
70 3 0.01
71 2 0.01
72 16 0.07
73 29 0.12
74 4 0.02
ACGTcount: A:0.29, C:0.01, G:0.23, T:0.47
Consensus pattern (67 bp):
TAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGGGTTTAGGGTTTTTAATTAAATTAG
GC
Found at i:560392 original size:22 final size:22
Alignment explanation
Indices: 560345--560453 Score: 96
Period size: 22 Copynumber: 4.6 Consensus size: 22
560335 TAAATTAGGC
* *
560345 TAGGGTTTTTAATTAAATTAGG-T
1 TAGGGTTTTTAATTTAA--GGGTT
*
560368 TAGAGTTTTTAATTTAAGGGTT
1 TAGGGTTTTTAATTTAAGGGTT
560390 TAGGGTTTTTAATTTAATTGAATTAGG-T
1 TAGGGTTTTTAATTTAA--G-----GGTT
560418 TAGGGTTTTTAATTTAAGGGTT
1 TAGGGTTTTTAATTTAAGGGTT
560440 TAGGGTTTTTAATT
1 TAGGGTTTTTAATT
560454 GAATTAGGTT
Statistics
Matches: 73, Mismatches: 4, Indels: 19
0.76 0.04 0.20
Matches are distributed among these distances:
21 4 0.05
22 32 0.44
23 15 0.21
24 1 0.01
26 1 0.01
28 18 0.25
29 2 0.03
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (22 bp):
TAGGGTTTTTAATTTAAGGGTT
Found at i:560414 original size:50 final size:49
Alignment explanation
Indices: 560262--560520 Score: 269
Period size: 50 Copynumber: 5.5 Consensus size: 49
560252 AGCTAGGGTT
560262 TTTAATTAAATTAGGTTAGGGTTTTTAA-TTAAGGGTTTAGGGTTTTTAA
1 TTTAATT-AATTAGGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAA
* * * * *
560311 -TT-A--AATTAGGCTAGGATTTTTAATTAAATTAGG-CTAGGGTTTTTAA
1 TTTAATTAATTAGGTTAGGGTTTTTAATTTAA--GGGTTTAGGGTTTTTAA
*
560357 -TT-A--AATTAGGTTAGAGTTTTTAATTTAAGGGTTTAGGGTTTTTAA
1 TTTAATTAATTAGGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAA
560402 TTTAATTGAATTAGGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAA
1 TTTAATT-AATTAGGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAA
* * * *
560452 TTGAATTAGGTTAGGGTTAGGGTTTTTAA-TTAAGGGTTTCGGGCTTTTAA
1 TTTAATTA-ATTA-GGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAA
560502 -TT-A--AATTAGGTTAGGGTTT
1 TTTAATTAATTAGGTTAGGGTTT
560521 AGGATTAAAT
Statistics
Matches: 181, Mismatches: 18, Indels: 27
0.80 0.08 0.12
Matches are distributed among these distances:
44 31 0.17
45 18 0.10
46 39 0.22
47 4 0.02
48 3 0.02
49 2 0.01
50 69 0.38
51 15 0.08
ACGTcount: A:0.27, C:0.02, G:0.24, T:0.47
Consensus pattern (49 bp):
TTTAATTAATTAGGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAA
Found at i:560626 original size:43 final size:43
Alignment explanation
Indices: 560565--560690 Score: 126
Period size: 52 Copynumber: 2.7 Consensus size: 43
560555 CATAAACTTT
*
560565 TATTTTATTACATTAAATAATATCAAAATAACTAAAAAAATTTA
1 TATTTT-TTACATAAAATAATATCAAAATAACTAAAAAAATTTA
* *
560609 TATTTTTTACATAAAATAATATTAAAATATTCAAAATAACTCAAAAATTTTA
1 TATTTTTTACAT---A-AA-A-T--AATA-TCAAAATAACTAAAAAAATTTA
560661 TATTTTTTTACATAAAATAATATCAAAATA
1 TA-TTTTTTACATAAAATAATATCAAAATA
560691 TTCAAAATAT
Statistics
Matches: 69, Mismatches: 3, Indels: 20
0.75 0.03 0.22
Matches are distributed among these distances:
43 6 0.09
44 14 0.20
45 4 0.06
47 3 0.04
48 2 0.03
49 3 0.04
50 1 0.01
51 4 0.06
52 22 0.32
53 10 0.14
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (43 bp):
TATTTTTTACATAAAATAATATCAAAATAACTAAAAAAATTTA
Found at i:560648 original size:52 final size:53
Alignment explanation
Indices: 560583--560699 Score: 193
Period size: 53 Copynumber: 2.2 Consensus size: 53
560573 TACATTAAAT
*
560583 AATA-TCAAAATAACTAAAAAAATTTATA-TTTTTTACATAAAATAATATTAA
1 AATATTCAAAATAACTAAAAAAATTTATATTTTTTTACATAAAATAATATCAA
* *
560634 AATATTCAAAATAACTCAAAAATTTTATATTTTTTTACATAAAATAATATCAA
1 AATATTCAAAATAACTAAAAAAATTTATATTTTTTTACATAAAATAATATCAA
560687 AATATTCAAAATA
1 AATATTCAAAATA
560700 TTTGTATAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
51 4 0.07
52 22 0.36
53 35 0.57
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.38
Consensus pattern (53 bp):
AATATTCAAAATAACTAAAAAAATTTATATTTTTTTACATAAAATAATATCAA
Found at i:561094 original size:18 final size:18
Alignment explanation
Indices: 561071--561105 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
561061 CGAAAAATGA
*
561071 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
561089 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
561106 AAACGCACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:561768 original size:7 final size:7
Alignment explanation
Indices: 561758--561782 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
561748 ATACATACAT
561758 AATACTA
1 AATACTA
561765 AATACTA
1 AATACTA
561772 AATACTA
1 AATACTA
561779 AATA
1 AATA
561783 TCAATCGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:563037 original size:22 final size:22
Alignment explanation
Indices: 563012--563085 Score: 80
Period size: 22 Copynumber: 3.4 Consensus size: 22
563002 AAATATAGAT
*
563012 TTGAAAGAATTTTGGAAGGAAA
1 TTGAAAGAATTTTGAAAGGAAA
*
563034 TTGAGAGAATTTTGAAAGGAAA
1 TTGAAAGAATTTTGAAAGGAAA
* *
563056 TTGAGAGGAA--TTGAGAGGAAA
1 TTGA-AAGAATTTTGAAAGGAAA
563077 TATGAAAGA
1 T-TGAAAGA
563086 GGATTTGTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
21 14 0.32
22 27 0.61
23 3 0.07
ACGTcount: A:0.46, C:0.00, G:0.30, T:0.24
Consensus pattern (22 bp):
TTGAAAGAATTTTGAAAGGAAA
Found at i:563040 original size:51 final size:51
Alignment explanation
Indices: 562925--563040 Score: 187
Period size: 51 Copynumber: 2.3 Consensus size: 51
562915 TATTTTAAAA
* * * * *
562925 AAGGAAATTGAGAAGAAATTGAAATTAAATATGGATTTGAGAGAATTTTTG
1 AAGGAAATTGAGAGGAAATTAAAATTAAATATAGATTTGAAAGAATTTTGG
562976 AAGGAAATTGAGAGGAAATTAAAATTAAATATAGATTTGAAAGAATTTTGG
1 AAGGAAATTGAGAGGAAATTAAAATTAAATATAGATTTGAAAGAATTTTGG
563027 AAGGAAATTGAGAG
1 AAGGAAATTGAGAG
563041 AATTTTGAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.47, C:0.00, G:0.24, T:0.28
Consensus pattern (51 bp):
AAGGAAATTGAGAGGAAATTAAAATTAAATATAGATTTGAAAGAATTTTGG
Found at i:566026 original size:102 final size:103
Alignment explanation
Indices: 565879--566073 Score: 302
Period size: 102 Copynumber: 1.9 Consensus size: 103
565869 TAGCCTAAGA
* *
565879 CCCCTCTATCCGGTAGCTACATTGGACTTAAATAAACCCGAAGTTTAGCCAAATTAGACCCTTAC
1 CCCCTCTATCCGGTAGCTACATTGAACTTAAATAAACCCGAAGTTTAGCCAAATTAGACCCTTAA
**
565944 GAAAGCAAGCTCTCCTAGTGGTATTTTCAATCCAGACT
66 GAAAGCAAGCTCTCCTACCGGTATTTTCAATCCAGACT
* * * * *
565982 CCCC-CTATCTGGTAGCTACGTTGAACTTAACTAAACCCGGAGTTTAGCCGAATTAGACCCTTAA
1 CCCCTCTATCCGGTAGCTACATTGAACTTAAATAAACCCGAAGTTTAGCCAAATTAGACCCTTAA
566046 GAAAGCAAGCTCTCCTACCGGTATTTTC
66 GAAAGCAAGCTCTCCTACCGGTATTTTC
566074 TCCACTCCTA
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
102 79 0.95
103 4 0.05
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (103 bp):
CCCCTCTATCCGGTAGCTACATTGAACTTAAATAAACCCGAAGTTTAGCCAAATTAGACCCTTAA
GAAAGCAAGCTCTCCTACCGGTATTTTCAATCCAGACT
Found at i:571881 original size:30 final size:30
Alignment explanation
Indices: 571804--571880 Score: 111
Period size: 30 Copynumber: 2.5 Consensus size: 30
571794 AAACCGTATA
*
571804 AATTAAATTAAATTTTTATAATTTTTAAAAG
1 AATTAAATTAAATTTTTA-ATTTTTTAAAAG
*
571835 -ATTAAATTAAATTTTTAATTTTTTAAATG
1 AATTAAATTAAATTTTTAATTTTTTAAAAG
571864 AATTAAATTACAATTTT
1 AATTAAATTA-AATTTT
571881 ACTTTTATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
29 10 0.24
30 26 0.62
31 6 0.14
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (30 bp):
AATTAAATTAAATTTTTAATTTTTTAAAAG
Found at i:573241 original size:18 final size:18
Alignment explanation
Indices: 573218--573254 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
573208 AAAACGGGCT
573218 TAACTTGACTTGATTTCA
1 TAACTTGACTTGATTTCA
573236 TAACTTGACTTGATTTCA
1 TAACTTGACTTGATTTCA
573254 T
1 T
573255 TTACATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.46
Consensus pattern (18 bp):
TAACTTGACTTGATTTCA
Found at i:573837 original size:10 final size:10
Alignment explanation
Indices: 573824--573849 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
573814 ATAAAATTAA
573824 ATAATTTTTT
1 ATAATTTTTT
573834 ATAATTTTTT
1 ATAATTTTTT
573844 ATAATT
1 ATAATT
573850 AAATAATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:575478 original size:31 final size:32
Alignment explanation
Indices: 575442--575512 Score: 99
Period size: 31 Copynumber: 2.2 Consensus size: 32
575432 TTATAAAATT
575442 GTCACTAAAATATTTGAAAGTTTTCA-TTTAA
1 GTCACTAAAATATTTGAAAGTTTTCATTTTAA
* * *
575473 GTCACTGAACTATTTGAAAGTTTTTATTTTTAA
1 GTCACTAAAATATTTGAAAGTTTTCA-TTTTAA
575506 GTCACTA
1 GTCACTA
575513 GGTTGTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 23 0.68
33 11 0.32
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (32 bp):
GTCACTAAAATATTTGAAAGTTTTCATTTTAA
Found at i:577323 original size:4 final size:4
Alignment explanation
Indices: 577316--577369 Score: 108
Period size: 4 Copynumber: 13.5 Consensus size: 4
577306 AGGCAGGAAG
577316 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
577364 GTAT GT
1 GTAT GT
577370 GGTCATGGCT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 50 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:588054 original size:13 final size:13
Alignment explanation
Indices: 588036--588060 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
588026 GTAATCAGCT
588036 CCCCTCCCCCCCC
1 CCCCTCCCCCCCC
588049 CCCCTCCCCCCC
1 CCCCTCCCCCCC
588061 AAAACTTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.92, G:0.00, T:0.08
Consensus pattern (13 bp):
CCCCTCCCCCCCC
Found at i:589245 original size:146 final size:145
Alignment explanation
Indices: 589016--589373 Score: 533
Period size: 146 Copynumber: 2.5 Consensus size: 145
589006 GGGACTAATT
* * * *
589016 CCAAAATTAGAGCATAATAGAAGGG-CCAAAATCAGAATTTGA-CCCT-GATTTTAACCATGGAT
1 CCAAATTTA-AGCATAACAG-AGGGACCAAAATCAGAATTTGACCCCTAG-TTTCAGCCATGGAT
* * *
589078 GAGCAAACTACTATTTGATTGGAATTCTAACGATATTTTGATTAACTAAAGGAAAAGAATCATGC
63 GAGCAAAATACTATTTCATTGGAATTCTAACGATATTTTGATCAACTAAAGGAAAAGAATCATGC
589143 CAAATTATAAACACAACC
128 CAAATTATAAACACAACC
*
589161 CCAAATTTAAGCATAACAGAGGGAACAAAATCAGAATTTGACCCGCTAGTTTCAGCCATGGATGA
1 CCAAATTTAAGCATAACAGAGGGACCAAAATCAGAATTTGACCC-CTAGTTTCAGCCATGGATGA
*
589226 GTAAAATACTATTTCATTGGAATTCTAACGATATTTTGATCAACTAAAGGAAAAGAATCATGCCA
65 GCAAAATACTATTTCATTGGAATTCTAACGATATTTTGATCAACTAAAGGAAAAGAATCATGCCA
* *
589291 AATTTTAAGCACAACC
130 AATTATAAACACAACC
* *
589307 CCAAATTTGAGCATAACAGAGGGACCAAAACCAGAATTTGACCCTCTAGTTTCAGCCATGGATGA
1 CCAAATTTAAGCATAACAGAGGGACCAAAATCAGAATTTGACCC-CTAGTTTCAGCCATGGATGA
589372 GC
65 GC
589374 TGAGAAAAAG
Statistics
Matches: 193, Mismatches: 16, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
143 4 0.02
144 25 0.13
145 10 0.05
146 153 0.79
147 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.25
Consensus pattern (145 bp):
CCAAATTTAAGCATAACAGAGGGACCAAAATCAGAATTTGACCCCTAGTTTCAGCCATGGATGAG
CAAAATACTATTTCATTGGAATTCTAACGATATTTTGATCAACTAAAGGAAAAGAATCATGCCAA
ATTATAAACACAACC
Found at i:596085 original size:7 final size:7
Alignment explanation
Indices: 596073--596098 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
596063 TAAGGGGAGA
596073 TGAGAGT
1 TGAGAGT
596080 TGAGAGT
1 TGAGAGT
596087 TGAGAGT
1 TGAGAGT
596094 TGAGA
1 TGAGA
596099 CTATAATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.42, T:0.27
Consensus pattern (7 bp):
TGAGAGT
Found at i:596278 original size:20 final size:20
Alignment explanation
Indices: 596253--596293 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
596243 TTCGTGTTAC
596253 TTGTTCAAGTCATTTCAAGT
1 TTGTTCAAGTCATTTCAAGT
596273 TTGTTCAAGTCATTTCAAGT
1 TTGTTCAAGTCATTTCAAGT
596293 T
1 T
596294 CAAGTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (20 bp):
TTGTTCAAGTCATTTCAAGT
Found at i:596296 original size:16 final size:17
Alignment explanation
Indices: 596254--596298 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 17
596244 TCGTGTTACT
596254 TGTTCAAGTCATTTCAA
1 TGTTCAAGTCATTTCAA
596271 GTTTGTTCAAGTCATTTCAA
1 ---TGTTCAAGTCATTTCAA
596291 -GTTCAAGT
1 TGTTCAAGT
596299 TTTTTCTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.32
20 17 0.68
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.42
Consensus pattern (17 bp):
TGTTCAAGTCATTTCAA
Found at i:596502 original size:29 final size:29
Alignment explanation
Indices: 596460--596518 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
596450 GGGTTAAAAT
596460 TGAAAACTATACATATATGGTCTCCATGG
1 TGAAAACTATACATATATGGTCTCCATGG
596489 TGAAAACTATACATATATGGTCTCCATGG
1 TGAAAACTATACATATATGGTCTCCATGG
596518 T
1 T
596519 ACATGTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (29 bp):
TGAAAACTATACATATATGGTCTCCATGG
Found at i:599708 original size:18 final size:18
Alignment explanation
Indices: 599682--599741 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
599672 CCCATTATCC
*
599682 AAAACAAAAGGAAAA-AAA
1 AAAAGAAAA-GAAAAGAAA
599700 AAAAGAAAAGAAAAGAAA
1 AAAAGAAAAGAAAAGAAA
* *
599718 AAAAGAAATGAAAACATAA
1 AAAAGAAAAGAAAAGA-AA
599737 AAAAG
1 AAAAG
599742 TAACATCATA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
17 5 0.14
18 25 0.68
19 7 0.19
ACGTcount: A:0.80, C:0.03, G:0.13, T:0.03
Consensus pattern (18 bp):
AAAAGAAAAGAAAAGAAA
Found at i:600649 original size:66 final size:65
Alignment explanation
Indices: 600541--600711 Score: 207
Period size: 66 Copynumber: 2.6 Consensus size: 65
600531 AGGAGGAGAA
* * **
600541 GGATCTGAGTAACCGTTATGGCCGCTAACGGAATATTCAAAAGACGGTGCCGTTGGCGCAAAAGA
1 GGATCTGAGTAACCGTTATGG-TGCTAACGGAATATTGAAAAGACGCAGCCGTTGGCGCAAAAGA
600606 C
65 C
* * *
600607 GGATCTGAGTAACCGTTATGGTGACTGACGGAATATTGAAAAGACTCAGCCGTTGGTGCAAAAGA
1 GGATCTGAGTAACCGTTATGGTG-CTAACGGAATATTGAAAAGACGCAGCCGTTGGCGCAAAAGA
600672 C
65 C
* *** *
600673 GGAGCTGAGTGGTCGTTACGGTGTCTAACGGAATATTGA
1 GGATCTGAGTAACCGTTATGGTG-CTAACGGAATATTGA
600712 GGATAGTCCG
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
65 1 0.01
66 89 0.99
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (65 bp):
GGATCTGAGTAACCGTTATGGTGCTAACGGAATATTGAAAAGACGCAGCCGTTGGCGCAAAAGAC
Found at i:603825 original size:29 final size:29
Alignment explanation
Indices: 603782--603837 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
603772 GTTGAGATTT
*
603782 TGTCAATTTAGTCCTTATACTAATAAATG
1 TGTCAATTTAATCCTTATACTAATAAATG
*
603811 TGTCAATTTAATCCTTATACTATTAAA
1 TGTCAATTTAATCCTTATACTAATAAA
603838 AGAAATTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (29 bp):
TGTCAATTTAATCCTTATACTAATAAATG
Found at i:604145 original size:20 final size:20
Alignment explanation
Indices: 604122--604161 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
604112 AAAAAATTCC
604122 AAAAAT-TTCTAAAGAAATAA
1 AAAAATATT-TAAAGAAATAA
*
604142 AAAAATATTTAAATAAATAA
1 AAAAATATTTAAAGAAATAA
604162 TAATGTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (20 bp):
AAAAATATTTAAAGAAATAA
Found at i:622719 original size:164 final size:164
Alignment explanation
Indices: 622255--622870 Score: 819
Period size: 164 Copynumber: 3.7 Consensus size: 164
622245 ATGCAATTCT
* * * *
622255 TTACATTTATT-AGTGAGTACTCGAAACTTGTCCATCAAATGAGTATGACAGAGACTTTAGCTCC
1 TTACATTTATTGA-TGAGTACTCGAAACTTGTCCGTTACATGAGCATGACAGAGACTTTAGCTCC
* * *
622319 AGTATCATGTGGCCTTAGGCTCAAAACTTCTGTCCTTACGTCAACTTATGTCTAAGTTATATGTA
65 GGTATCATGTGGCCTTAGGCTCAAAACTTCCGTCCTTACGTCAACGTATGTCTAAGTTATATGTA
*
622384 TATGCAACTTTTTCTAATGTGTAA-AGTTGATTTTC
130 TATGCAACTTTTTCTAATGTGTAACA-CTGATTTTC
* * *
622419 TTACATTTATTGATGAATACTCGAAACATGTCGGTTACATGAGCATGACAGAG-CTTTAGCTCCG
1 TTACATTTATTGATGAGTACTCGAAACTTGTCCGTTACATGAGCATGACAGAGACTTTAGCTCCG
* *
622483 GTATCATGTGGCCTTAGGCTCAAAACTCCCGTCCTTACGTCAACGTATGTCTAAGTTTTATGTAT
66 GTATCATGTGGCCTTAGGCTCAAAACTTCCGTCCTTACGTCAACGTATGTCTAAGTTATATGTAT
*
622548 ATGCAACTTGTTCTAATGTGTAACACTGATTTTC
131 ATGCAACTTTTTCTAATGTGTAACACTGATTTTC
* *
622582 TTACATTTATTGACGAGTACTCGAAACTTGTCCGTTACATGAGCATGACAGAGACTTTAGTTCCG
1 TTACATTTATTGATGAGTACTCGAAACTTGTCCGTTACATGAGCATGACAGAGACTTTAGCTCCG
* *
622647 GTATCATGTGGCCTTAGGCTCAAAACTTCCGTCCTTACGTTAAGGTATGTCTAAGTTATATGTAT
66 GTATCATGTGGCCTTAGGCTCAAAACTTCCGTCCTTACGTCAACGTATGTCTAAGTTATATGTAT
*
622712 ATGCAACTTTTTCTAATGTGTAACGCTGATTTTC
131 ATGCAACTTTTTCTAATGTGTAACACTGATTTTC
* * * * * *
622746 CTACCTTTATTAAAGAGTACTCGAAACTTGCCCGTCCGTTGCATGAGAATGGA-AGAGACTTTAG
1 TTACATTTATTGATGAGTACTCGAAACTT----GTCCGTTACATGAGCAT-GACAGAGACTTTAG
* * * * * * * * *
622810 CTCCGGCATCTTGCCGTCC-TAGACTCAAAACTTACGTCCTTACATCAACATACGTCTAAGT
61 CTCCGGTATCATG-TGGCCTTAGGCTCAAAACTTCCGTCCTTACGTCAACGTATGTCTAAGT
622871 CGTCAACGTT
Statistics
Matches: 400, Mismatches: 43, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
163 150 0.38
164 173 0.43
165 1 0.00
168 71 0.18
169 5 0.01
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (164 bp):
TTACATTTATTGATGAGTACTCGAAACTTGTCCGTTACATGAGCATGACAGAGACTTTAGCTCCG
GTATCATGTGGCCTTAGGCTCAAAACTTCCGTCCTTACGTCAACGTATGTCTAAGTTATATGTAT
ATGCAACTTTTTCTAATGTGTAACACTGATTTTC
Found at i:627502 original size:34 final size:33
Alignment explanation
Indices: 627462--627552 Score: 87
Period size: 37 Copynumber: 2.7 Consensus size: 33
627452 AATTTGGCAA
* *
627462 AATTAAACTTATTATATAATTTTTTAATTTTTTT
1 AATTAAACTTATTATAT-ATTTTTTAATTTCTAT
* *
627496 AATTAAAAAATTATTATAATTATTTTTTTATTTCTAT
1 AATT--AAACTTATTAT-A-TATTTTTTAATTTCTAT
627533 AA--AAACTTATTATATATTTT
1 AATTAAACTTATTATATATTTT
627553 AATTTTATAA
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
31 6 0.12
32 1 0.02
33 10 0.21
34 4 0.08
36 10 0.21
37 16 0.33
38 1 0.02
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (33 bp):
AATTAAACTTATTATATATTTTTTAATTTCTAT
Found at i:633521 original size:47 final size:46
Alignment explanation
Indices: 633458--633551 Score: 145
Period size: 47 Copynumber: 2.0 Consensus size: 46
633448 GTCACCAAAC
**
633458 TATGAAAAGTTACAAAAT-AGTCATTCAACTATTTAATTTTGTCTTT
1 TATGAAAAGTTACAAAATGA-TCACCCAACTATTTAATTTTGTCTTT
633504 TATGAAAAGGTTACAAAATGATCACCCAACTATTTAATTTTGTCTTT
1 TATGAAAA-GTTACAAAATGATCACCCAACTATTTAATTTTGTCTTT
633551 T
1 T
633552 CTAGTCACGT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
46 8 0.18
47 35 0.80
48 1 0.02
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (46 bp):
TATGAAAAGTTACAAAATGATCACCCAACTATTTAATTTTGTCTTT
Found at i:633867 original size:18 final size:18
Alignment explanation
Indices: 633844--633878 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
633834 TTAATTTCAC
633844 AAAAAAAACCAAATTACA
1 AAAAAAAACCAAATTACA
633862 AAAAAAAACCAAATTAC
1 AAAAAAAACCAAATTAC
633879 TCAATGTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.71, C:0.17, G:0.00, T:0.11
Consensus pattern (18 bp):
AAAAAAAACCAAATTACA
Found at i:634519 original size:198 final size:198
Alignment explanation
Indices: 634179--634579 Score: 730
Period size: 198 Copynumber: 2.0 Consensus size: 198
634169 TACACTTTTT
*
634179 TTTTATATTTAAACGATTAAATCCATTTTGATCCCTAAACTTGATAAATATAAAAATGGGTAAGC
1 TTTTATACTTAAACGATTAAATCCATTTTGATCCCTAAACTTGATAAATATAAAAATGGGTAAGC
634244 TACAAAAAGTTACTTTTATTTGCCTCAGATTACATTTTAGTCACTTACGTTATCGTTTTGTTACG
66 TACAAAAAGTTACTTTTATTTGCCTCAGATTACATTTTAGTCACTTACGTTATCGTTTTGTTACG
** * * *
634309 AAGTGGTCACTCTACCATTAAACTCCGTTACCTTCCTAGCTGCAATCCTACGTGTCAGTCTAAAT
131 AAGTAATCACTCTACCATTAAACTCCGTTACCTCCCTAGCGGCAATCCTACGTGGCAGTCTAAAT
634374 GGG
196 GGG
634377 TTTTATACTTAAACGATTAAATCCATTTTGATCCCTAAACTTGATAAATATAAAAATGGGTAAGC
1 TTTTATACTTAAACGATTAAATCCATTTTGATCCCTAAACTTGATAAATATAAAAATGGGTAAGC
* *
634442 TACAAAAAGTTACTTTTGTTTGTCTCAGATTACATTTTAGTCACTTACGTTATCGTTTTGTTACG
66 TACAAAAAGTTACTTTTATTTGCCTCAGATTACATTTTAGTCACTTACGTTATCGTTTTGTTACG
634507 AAGTAATCACTCTACCATTAAACTCCGTTACCTCCCTAGCGGCAATCCTACGTGGCAGTCTAAAT
131 AAGTAATCACTCTACCATTAAACTCCGTTACCTCCCTAGCGGCAATCCTACGTGGCAGTCTAAAT
634572 GGG
196 GGG
634575 TTTTA
1 TTTTA
634580 AATGTCAACT
Statistics
Matches: 195, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
198 195 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (198 bp):
TTTTATACTTAAACGATTAAATCCATTTTGATCCCTAAACTTGATAAATATAAAAATGGGTAAGC
TACAAAAAGTTACTTTTATTTGCCTCAGATTACATTTTAGTCACTTACGTTATCGTTTTGTTACG
AAGTAATCACTCTACCATTAAACTCCGTTACCTCCCTAGCGGCAATCCTACGTGGCAGTCTAAAT
GGG
Found at i:638911 original size:16 final size:17
Alignment explanation
Indices: 638878--638911 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
638868 TATAATAGTG
638878 TATATTATGTTACTTTTA
1 TATATTATGTTAC-TTTA
638896 TATATTATGTTA-TTTA
1 TATATTATGTTACTTTA
638912 GAACACATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
18 12 0.75
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.62
Consensus pattern (17 bp):
TATATTATGTTACTTTA
Found at i:639029 original size:16 final size:15
Alignment explanation
Indices: 639010--639061 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
639000 AATAAAAAAT
*
639010 ATATTAAATATATTAA
1 ATATTAAATAT-TAAA
639026 ATATTAAATATTAAA
1 ATATTAAATATTAAA
*
639041 ATAATATAATA-TAAA
1 ATATTA-AATATTAAA
639056 TATATT
1 -ATATT
639062 TTTTTAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 12 0.39
16 19 0.61
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATATTAAATATTAAA
Found at i:639040 original size:23 final size:22
Alignment explanation
Indices: 639010--639058 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
639000 AATAAAAAAT
*
639010 ATATTAAATATATTA-AATATTAA
1 ATATTAAA-ATAATATAATA-TAA
639033 ATATTAAAATAATATAATATAA
1 ATATTAAAATAATATAATATAA
639055 ATAT
1 ATAT
639059 ATTTTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
ATATTAAAATAATATAATATAA
Found at i:646054 original size:16 final size:17
Alignment explanation
Indices: 646013--646054 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 17
646003 TTTTTCTTTA
646013 AAATTTAAAAAATAAAT
1 AAATTTAAAAAATAAAT
*
646030 -AA-TTATAAAATAAAAT
1 AAATTTAAAAAAT-AAAT
646046 AAATTTAAA
1 AAATTTAAA
646055 TTTAAAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 5
0.74 0.07 0.19
Matches are distributed among these distances:
15 8 0.40
16 6 0.30
17 2 0.10
18 4 0.20
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAATTTAAAAAATAAAT
Done.