Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2792_ERROPOS1793843
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: 513059
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.32
Warning! 18467 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:3367 original size:42 final size:42
Alignment explanation
Indices: 3321--3457 Score: 211
Period size: 42 Copynumber: 3.3 Consensus size: 42
3311 TAGAAAAGAC
** *
3321 AAACTGAAGCTGGAGAAGGATGAAGCTGACTTAAAAGAGAAG
1 AAACTGAAGCTGGATCAGGACGAAGCTGACTTAAAAGAGAAG
3363 AAACTGAAGCTGGATCAGGACGAAGCTGACTTAAAAGAGAAG
1 AAACTGAAGCTGGATCAGGACGAAGCTGACTTAAAAGAGAAG
* * *
3405 AAACTGAAGCTGGATCAGGACGAAGCTGAGTTAAAAGAAAAC
1 AAACTGAAGCTGGATCAGGACGAAGCTGACTTAAAAGAGAAG
*
3447 CAACTGAAGCT
1 AAACTGAAGCT
3458 AGCCAGGTTG
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 88 1.00
ACGTcount: A:0.44, C:0.14, G:0.28, T:0.15
Consensus pattern (42 bp):
AAACTGAAGCTGGATCAGGACGAAGCTGACTTAAAAGAGAAG
Found at i:3641 original size:74 final size:75
Alignment explanation
Indices: 3510--3704 Score: 266
Period size: 74 Copynumber: 2.6 Consensus size: 75
3500 TTTGAAATAC
* * **
3510 AATCTCAATGGTTTATTGGGATGTTTATAAACTGAAGATACTGCCGGTATGCATTTGTGTGATGG
1 AATCTCAATGGTTTATTGGGATGTTTATAAACTGAAGATACAGACAATATGCATTTGTGTGATGG
3575 -TTGTGTTTG
66 TTTGTGTTTG
* * * * **
3584 AATGTCAATGGTTTATTGGGATGTTTATGAACTGAAGATGCAGATAATATGTGTTTGTGTGATGG
1 AATCTCAATGGTTTATTGGGATGTTTATAAACTGAAGATACAGACAATATGCATTTGTGTGATGG
3649 TTTTGTGTTTG
66 -TTTGTGTTTG
* *
3660 AATCCCAATGGTTTATTGGGATGTTTATCAACTGAAGATACAGAC
1 AATCTCAATGGTTTATTGGGATGTTTATAAACTGAAGATACAGAC
3705 TGTGTTTGTG
Statistics
Matches: 104, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
74 55 0.53
76 49 0.47
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.39
Consensus pattern (75 bp):
AATCTCAATGGTTTATTGGGATGTTTATAAACTGAAGATACAGACAATATGCATTTGTGTGATGG
TTTGTGTTTG
Found at i:5396 original size:20 final size:20
Alignment explanation
Indices: 5359--5396 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
5349 TAGTATTCCA
*
5359 ATATAACAATCGATTTAATC
1 ATATAACAATCGAATTAATC
5379 ATATACACAATC-AATTAA
1 ATATA-ACAATCGAATTAA
5397 AAAGAAGCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.50, C:0.16, G:0.03, T:0.32
Consensus pattern (20 bp):
ATATAACAATCGAATTAATC
Found at i:5400 original size:55 final size:55
Alignment explanation
Indices: 5323--5537 Score: 270
Period size: 55 Copynumber: 3.9 Consensus size: 55
5313 TTGATCTAAA
* *
5323 CATATAAACAATCGATTCAAAAGAAGTAGTATTCCAATATAACAATCGATTTAAT
1 CATATACACAATCGATTCAAAAGAAGTAGTATTCCAATATGACAATCGATTTAAT
* * * * *
5378 CATATACACAATCAATTAAAAAGAAGCAGTATTCCAACATGACAATCAATTTAAT
1 CATATACACAATCGATTCAAAAGAAGTAGTATTCCAATATGACAATCGATTTAAT
* *
5433 CATATACACAATCGATTCAAAAGAAGTAGTGTTCCAACT-TGACAATCGATTTAAA
1 CATATACACAATCGATTCAAAAGAAGTAGTATTCCAA-TATGACAATCGATTTAAT
* * * * * * *
5488 CATATAAAGAATTGACTCAAAAGAAGCACTATTCCAATATGATAATCGAT
1 CATATACACAATCGATTCAAAAGAAGTAGTATTCCAATATGACAATCGAT
5538 CCAAAAGAAG
Statistics
Matches: 136, Mismatches: 22, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
54 1 0.01
55 135 0.99
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (55 bp):
CATATACACAATCGATTCAAAAGAAGTAGTATTCCAATATGACAATCGATTTAAT
Found at i:5879 original size:22 final size:23
Alignment explanation
Indices: 5854--5900 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
5844 CTATAGATTT
* *
5854 ATTTTTAAAAA-AAAATTATATA
1 ATTTATAAAAATAAAATAATATA
*
5876 ATTTATAAAAATAACATAATATA
1 ATTTATAAAAATAAAATAATATA
5899 AT
1 AT
5901 ATATTAGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
ATTTATAAAAATAAAATAATATA
Found at i:12063 original size:23 final size:23
Alignment explanation
Indices: 12020--12065 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
12010 ATGTAAACTA
**
12020 CTTTTTATTTATTTATCAAGTTT
1 CTTTTTATTTATTTAAAAAGTTT
12043 CTTTTTATTT-TTTAAAAAAGTTT
1 CTTTTTATTTATTT-AAAAAGTTT
12066 TTCTGATGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.63
Consensus pattern (23 bp):
CTTTTTATTTATTTAAAAAGTTT
Found at i:20734 original size:18 final size:18
Alignment explanation
Indices: 20711--20803 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
20701 CCCAACTACT
*
20711 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
20729 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
20747 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
20765 GTATACGTGAATAGTATC
1 GTATACGTGAATAGTACC
*
20783 ATATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
20801 GTA
1 GTA
20804 AACGGTCGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:29293 original size:42 final size:42
Alignment explanation
Indices: 29247--29383 Score: 211
Period size: 42 Copynumber: 3.3 Consensus size: 42
29237 TAGAAAAGAC
** *
29247 AAACTGAAGCTGGAGAAGGATGAAGCTGACTTAAAAGAGAAG
1 AAACTGAAGCTGGATCAGGACGAAGCTGACTTAAAAGAGAAG
29289 AAACTGAAGCTGGATCAGGACGAAGCTGACTTAAAAGAGAAG
1 AAACTGAAGCTGGATCAGGACGAAGCTGACTTAAAAGAGAAG
* * *
29331 AAACTGAAGCTGGATCAGGACGAAGCTGAGTTAAAAGAAAAC
1 AAACTGAAGCTGGATCAGGACGAAGCTGACTTAAAAGAGAAG
*
29373 CAACTGAAGCT
1 AAACTGAAGCT
29384 AGCCAGTTTG
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 88 1.00
ACGTcount: A:0.44, C:0.14, G:0.28, T:0.15
Consensus pattern (42 bp):
AAACTGAAGCTGGATCAGGACGAAGCTGACTTAAAAGAGAAG
Found at i:29567 original size:74 final size:75
Alignment explanation
Indices: 29436--29629 Score: 300
Period size: 74 Copynumber: 2.6 Consensus size: 75
29426 TTTGAAATAC
* * *
29436 AATCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACTGCCAGTATGCATTTGTGTGATGG
1 AATCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACAGACAATATGCATTTGTGTGATGG
29501 -TTGTGTTTG
66 TTTGTGTTTG
* * **
29510 AATGTCAATGGTTTATTGGGATGTTTATGAACCGAAGATACAGACAATATGTGTTTGTGTGATGG
1 AATCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACAGACAATATGCATTTGTGTGATGG
29575 TTTTGTGTTTG
66 -TTTGTGTTTG
*
29586 AATCCCAATGGTTTATTGGGATGTTTATGAACTGAAGATACAGA
1 AATCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACAGA
29630 GTGTGTTTGT
Statistics
Matches: 108, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
74 58 0.54
76 50 0.46
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.39
Consensus pattern (75 bp):
AATCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACAGACAATATGCATTTGTGTGATGG
TTTGTGTTTG
Found at i:30357 original size:21 final size:20
Alignment explanation
Indices: 30324--30381 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 20
30314 CATATTGTTT
* *
30324 TTTTTAAATTATTTATATTA
1 TTTTTAATTTATTTATATAA
30344 TTTTTAATTCTATTTA-ATAA
1 TTTTTAATT-TATTTATATAA
*
30364 TTTATATATTTTATTTAT
1 TTT-T-TAATTTATTTAT
30382 TAAACTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 14 0.45
21 13 0.42
22 4 0.13
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTTAATTTATTTATATAA
Found at i:31780 original size:55 final size:55
Alignment explanation
Indices: 31704--31843 Score: 201
Period size: 55 Copynumber: 2.5 Consensus size: 55
31694 ACAAATGATC
* * * *
31704 TAAACATATAAATAATCGATTCAAAAGAAGTAGTATTCCAACATAACAATCAATT
1 TAAACATATAAACAATCGATTCAAAAGAAGCAGTATTCCAACACAACAACCAATT
* * *
31759 TGAACATATAAACAATGGATTCAAAAGCAA-CAGTATTCCAACACAACAACCGATT
1 TAAACATATAAACAATCGATTCAAAAG-AAGCAGTATTCCAACACAACAACCAATT
31814 TAAACATATAAACAATCGATTCAAAAGAAG
1 TAAACATATAAACAATCGATTCAAAAGAAG
31844 AAAAAGTAGT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
54 2 0.03
55 70 0.95
56 2 0.03
ACGTcount: A:0.51, C:0.17, G:0.09, T:0.23
Consensus pattern (55 bp):
TAAACATATAAACAATCGATTCAAAAGAAGCAGTATTCCAACACAACAACCAATT
Found at i:33138 original size:55 final size:55
Alignment explanation
Indices: 33069--33304 Score: 267
Period size: 55 Copynumber: 4.3 Consensus size: 55
33059 ATGTGTTATG
*
33069 TAACAATCGATTTAAACATATA-AGCAATCGATTCAAAAGAAGTAATATTCCAACA
1 TAACAATCGATTTAAACATATACA-CAATCGATTCAAAAGAAGCAATATTCCAACA
* * * * *
33124 TAATAATCGATTTAATCATATACACAATCAATTAAAAAGAAGCATTATTCCAACA
1 TAACAATCGATTTAAACATATACACAATCGATTCAAAAGAAGCAATATTCCAACA
* * * * * *
33179 TAACAATCAATTTAATCATATACACAATCGATTCAAAAGAAGTAGTGTTCCAACT
1 TAACAATCGATTTAAACATATACACAATCGATTCAAAAGAAGCAATATTCCAACA
* * * * * *
33234 TGACAATCGATTTAAACATATAAAGAATTGACTCAAAAGAAGCACTATTCCAACA
1 TAACAATCGATTTAAACATATACACAATCGATTCAAAAGAAGCAATATTCCAACA
* * *
33289 TGATAATCGATCTAAA
1 TAACAATCGATTTAAA
33305 AGAAGCAGTA
Statistics
Matches: 153, Mismatches: 27, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
55 152 0.99
56 1 0.01
ACGTcount: A:0.47, C:0.17, G:0.09, T:0.27
Consensus pattern (55 bp):
TAACAATCGATTTAAACATATACACAATCGATTCAAAAGAAGCAATATTCCAACA
Found at i:36983 original size:4 final size:4
Alignment explanation
Indices: 36958--37001 Score: 52
Period size: 4 Copynumber: 11.0 Consensus size: 4
36948 TTTGCCATTC
* * * *
36958 ATAT ATAC ATAC ATAT ACAT ATAT ATCT ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
37002 GCTGGAACCT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (4 bp):
ATAT
Found at i:36988 original size:6 final size:6
Alignment explanation
Indices: 36958--37001 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
36948 TTTGCCATTC
* * * *
36958 ATATAT ACATAC ATATAC ATATAT ATCTAT ATATAT ATATAT AT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT AT
37002 GCTGGAACCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (6 bp):
ATATAT
Found at i:38728 original size:47 final size:47
Alignment explanation
Indices: 38668--38764 Score: 117
Period size: 47 Copynumber: 2.1 Consensus size: 47
38658 CTTTATTTGA
* * *
38668 TTTGATTTGATTTTGAA-TGTATCATATATGTTGAAATGTTGCATTAG
1 TTTGATTTGATTTTGAATTG-AACATATATATCGAAATGTTGCATTAG
* *
38715 TTTGATCTT-ATTTTTACTTGAACATATATATCGAAATGTTGCATTAG
1 TTTGAT-TTGATTTTGAATTGAACATATATATCGAAATGTTGCATTAG
38762 TTT
1 TTT
38765 CTTATTTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
47 39 0.91
48 4 0.09
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.49
Consensus pattern (47 bp):
TTTGATTTGATTTTGAATTGAACATATATATCGAAATGTTGCATTAG
Found at i:45016 original size:18 final size:19
Alignment explanation
Indices: 44993--45030 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
44983 GGAAGCAAGC
*
44993 AATGATTGAAGA-AATCAG
1 AATGATTGAAAAGAATCAG
45011 AATGATTGAAAAGAATCAG
1 AATGATTGAAAAGAATCAG
45030 A
1 A
45031 CCTGGAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGATTGAAAAGAATCAG
Found at i:65275 original size:39 final size:40
Alignment explanation
Indices: 65160--65283 Score: 135
Period size: 40 Copynumber: 3.1 Consensus size: 40
65150 TGCTTGGACA
* *
65160 AAAAACGCAGGTAAAAATCGAGCATTAGCGGCGCTTTATG
1 AAAAACGCAGGTAAAAATCGAGCATTAGCGGCGTTTTTTG
* * * * *
65200 GAAATCGCCA-CTAAAGATCGAGCATTAGTGGCGTTTTTTG
1 AAAAACG-CAGGTAAAAATCGAGCATTAGCGGCGTTTTTTG
* * *
65240 AAAAACGCTGGTAAAAAT-GGGCATTAGCGGCGTTTTTCG
1 AAAAACGCAGGTAAAAATCGAGCATTAGCGGCGTTTTTTG
65279 AAAAA
1 AAAAA
65284 ACGTCGCAAA
Statistics
Matches: 67, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
39 24 0.36
40 41 0.61
41 2 0.03
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (40 bp):
AAAAACGCAGGTAAAAATCGAGCATTAGCGGCGTTTTTTG
Found at i:65295 original size:39 final size:39
Alignment explanation
Indices: 65221--65295 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
65211 TAAAGATCGA
* * * *
65221 GCATTAGTGGCGTTTTTTGAAAAACGCTGGTAAAAATGG
1 GCATTAGCGGCGTTTTTCGAAAAACGCTCGCAAAAATGG
65260 GCATTAGCGGCGTTTTTCGAAAAAACG-TCGCAAAAA
1 GCATTAGCGGCGTTTTTCG-AAAAACGCTCGCAAAAA
65296 ACCAAAGCCC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 24 0.77
40 7 0.23
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (39 bp):
GCATTAGCGGCGTTTTTCGAAAAACGCTCGCAAAAATGG
Found at i:65430 original size:40 final size:40
Alignment explanation
Indices: 65330--65446 Score: 207
Period size: 41 Copynumber: 2.9 Consensus size: 40
65320 GTTACATTTC
*
65330 GGGGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCT
1 GGGGCTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCT
65370 GAGGGCTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCT
1 G-GGGCTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCT
*
65411 GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAA
1 GGGGCTTTAGCGGCATTTTTGGAAAAGCGCCGCTAA
65447 AAATATTTTA
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
40 35 0.47
41 39 0.53
ACGTcount: A:0.21, C:0.20, G:0.32, T:0.26
Consensus pattern (40 bp):
GGGGCTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCT
Found at i:67303 original size:112 final size:116
Alignment explanation
Indices: 67137--67361 Score: 336
Period size: 112 Copynumber: 2.0 Consensus size: 116
67127 ATCAATTTAT
*
67137 TAAAAAAATTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAATAAAATAATTTTTTTGCGGCGT
1 TAAAAAAATTTAGCACAGCAAAACGGCGTCATTTTGTTCAAAATAAAATAA-TTTTTTGCGGCGT
*
67202 TTTTAT-AAAAGCGCCGC-AA-A-AATAAATCAATTTA-TAAAAAAATAAAA
65 TTTTATGAAAAACGCCGCAAAGATAATAAATCAATTTATTAAAAAAATAAAA
* * *
67249 TAAAAAAATTTTAGCACAGCAAAACGGCGTCATTTT-TTCAAACTGAAATAATTTTTTGCGGTGT
1 TAAAAAAA-TTTAGCACAGCAAAACGGCGTCATTTTGTTCAAAATAAAATAATTTTTTGCGGCGT
67313 TTTTATGAAAAACGCCGCAAAAGATAATAAATCAATTTATTAAAAAAAT
65 TTTTATGAAAAACGCCGC-AAAGATAATAAATCAATTTATTAAAAAAAT
67362 TAGTATAGCA
Statistics
Matches: 101, Mismatches: 5, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
111 18 0.18
112 31 0.31
113 26 0.26
114 2 0.02
115 1 0.01
116 14 0.14
117 9 0.09
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (116 bp):
TAAAAAAATTTAGCACAGCAAAACGGCGTCATTTTGTTCAAAATAAAATAATTTTTTGCGGCGTT
TTTATGAAAAACGCCGCAAAGATAATAAATCAATTTATTAAAAAAATAAAA
Found at i:67443 original size:217 final size:217
Alignment explanation
Indices: 67007--68166 Score: 1807
Period size: 216 Copynumber: 5.4 Consensus size: 217
66997 ATTTTATAAA
* *
67007 AAATCAATTTAAAAAAAAAGCAAAATAAAAAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTG
1 AAATCAATTTATAAAAAAA-CAAAATAAAAAATTTTTAGCACAGCAAAACGGCGTCATTTT-TT-
* * * *
67072 GAAA-TGAAATAATTTTTTGTGGCGTTTTTATGTAAAACGCCGTAAAAGATAATAAATCAATTTA
63 CAAACTGAAATAATTTTTTGCGGCGTTTTTATGAAAAACGCCGCAAAAGATAATAAATCAATTTA
* **
67136 TTAAAAAAATTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAATAAAATAATTTTTTTGCGGCG
128 TTAAAAAAATTTAGTATAGCAAAACGGCGTCATTTTGTTCAAAACGAAATAATTTTTTTGCGGCG
67201 -TTTTTATAAAAGCGCCGCAAAAAT
193 TTTTTTATAAAAGCGCCGCAAAAAT
* *
67225 AAATCAATTTATAAAAAAATAAAATAAAAAAATTTTAGCACAGCAAAACGGCGTCATTTTTTCAA
1 AAATCAATTTATAAAAAAACAAAATAAAAAATTTTTAGCACAGCAAAACGGCGTCATTTTTTCAA
*
67290 ACTGAAATAATTTTTTGCGGTGTTTTTATGAAAAACGCCGCAAAAGATAATAAATCAATTTATTA
66 ACTGAAATAATTTTTTGCGGCGTTTTTATGAAAAACGCCGCAAAAGATAATAAATCAATTTATTA
* * *
67355 AAAAAA-TTAGTATAGCAAAACGGCATCATTTTGTTTAAAACGAAATAAATTTTTTTGTGGCGTT
131 AAAAAATTTAGTATAGCAAAACGGCGTCATTTTGTTCAAAACGAAAT-AATTTTTTTGCGGCGTT
67419 TTTTATAAAAGCGCCGCAAAAAT
195 TTTTATAAAAGCGCCGCAAAAAT
* *
67442 AAATCAATTTAT-AAAAAACAAAATAAAAAATTTTTAGCACAACAAAACGGCGTCATCTTTTCAA
1 AAATCAATTTATAAAAAAACAAAATAAAAAATTTTTAGCACAGCAAAACGGCGTCATTTTTTCAA
67506 ACTGAAATAATTTTTTGCGGCGTTTTTCAT-AAAAACGCCGCAAAAGATAATAAATCAATTTATT
66 ACTGAAATAATTTTTTGCGGCGTTTTT-ATGAAAAACGCCGCAAAAGATAATAAATCAATTTATT
* * *
67570 AAAAAAAATTAGTATAGCAAAACGGCATCATTTTGTTCAAAACGAAATAATTTTTTTGTGGCGTT
130 AAAAAAATTTAGTATAGCAAAACGGCGTCATTTTGTTCAAAACGAAATAATTTTTTTGCGGCGTT
67635 TTTTATAAAAGCGCCGCAAAAAT
195 TTTTATAAAAGCGCCGCAAAAAT
67658 AAATCAATTTATAAAAAAACAAAATAAAAAATTTTTAGCACAGCAAAACGGCGTCATTTTTTCAA
1 AAATCAATTTATAAAAAAACAAAATAAAAAATTTTTAGCACAGCAAAACGGCGTCATTTTTTCAA
*
67723 ATTGAAATAATTTTTTGCGGCGTTTTTATGAAAAACGCCGCAAAAGATAATAAATCAATTTATTA
66 ACTGAAATAATTTTTTGCGGCGTTTTTATGAAAAACGCCGCAAAAGATAATAAATCAATTTATTA
*
67788 AAAAAATTTAGCT-TAGCAAAACGGCGTCATTTTGTTCAAAACGAAAT-ATTTTTTTGCGGCATT
131 AAAAAATTTAG-TATAGCAAAACGGCGTCATTTTGTTCAAAACGAAATAATTTTTTTGCGGCGTT
67851 TTTTATAAAAGCGCCGCAAAAAT
195 TTTTATAAAAGCGCCGCAAAAAT
*
67874 AAATCAATTTATAAAAAAATAAAATAAAAAATTTTTAGCACAGCAAAACGGCGTCATTTTTTCAA
1 AAATCAATTTATAAAAAAACAAAATAAAAAATTTTTAGCACAGCAAAACGGCGTCATTTTTTCAA
67939 ACT-AAATAATTTTTTGCGGCG-TTTT-T-----------C----GATAATAAATCAATTTATTA
66 ACTGAAATAATTTTTTGCGGCGTTTTTATGAAAAACGCCGCAAAAGATAATAAATCAATTTATTA
*
67986 AAAAAATTTAGCT-TAGCAAAACGGCGTCATTTTGTTCAAAACGAAAT-ATTTTTTTGAGGCGTT
131 AAAAAATTTAG-TATAGCAAAACGGCGTCATTTTGTTCAAAACGAAATAATTTTTTTGCGGCGTT
68049 TTTTATAAAAGCGCCGCAAAAAT
195 TTTTATAAAAGCGCCGCAAAAAT
** *
68072 AAATCAATTTATAAAAAAAACAAAATAAAAAATTTTTAGCACAGCAAAACAACGTAATTTTTTCA
1 AAATCAATTTAT-AAAAAAACAAAATAAAAAATTTTTAGCACAGCAAAACGGCGTCATTTTTTCA
*
68137 AACTGAAATAATTTTTTGCGACGTTTTTAT
65 AACTGAAATAATTTTTTGCGGCGTTTTTAT
68167 AAATAAGCAA
Statistics
Matches: 893, Mismatches: 37, Indels: 40
0.92 0.04 0.04
Matches are distributed among these distances:
198 116 0.13
199 52 0.06
200 17 0.02
201 4 0.00
202 2 0.00
213 1 0.00
214 4 0.00
215 56 0.06
216 353 0.40
217 269 0.30
218 19 0.02
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.32
Consensus pattern (217 bp):
AAATCAATTTATAAAAAAACAAAATAAAAAATTTTTAGCACAGCAAAACGGCGTCATTTTTTCAA
ACTGAAATAATTTTTTGCGGCGTTTTTATGAAAAACGCCGCAAAAGATAATAAATCAATTTATTA
AAAAAATTTAGTATAGCAAAACGGCGTCATTTTGTTCAAAACGAAATAATTTTTTTGCGGCGTTT
TTTATAAAAGCGCCGCAAAAAT
Found at i:67688 original size:113 final size:116
Alignment explanation
Indices: 67569--67793 Score: 291
Period size: 114 Copynumber: 2.0 Consensus size: 116
67559 ATCAATTTAT
* * *
67569 TAAAAAA-AATTAGTATAGCAAAACGGCATCATTTTGTTCAAAACGAAATAATTTTTTTGTGGCG
1 TAAAAAATAATTAGCACAGCAAAACGGCATCATTTT-TTCAAAACGAAATAA-TTTTTTGCGGCG
*
67633 TTTTTTAT-AAAAGCGCCGC-AA-A-AATAAATCAATTTA-TAAAAAAACAAAA
64 -TTTTTATGAAAAACGCCGCAAAGATAATAAATCAATTTATTAAAAAAACAAAA
** * **
67682 TAAAAAATTTTTAGCACAGCAAAACGGCGTCATTTTTTCAAATTGAAATAATTTTTTGCGGCGTT
1 TAAAAAATAATTAGCACAGCAAAACGGCATCATTTTTTCAAAACGAAATAATTTTTTGCGGCGTT
67747 TTTATGAAAAACGCCGCAAAAGATAATAAATCAATTTATTAAAAAAA
66 TTTATGAAAAACGCCGC-AAAGATAATAAATCAATTTATTAAAAAAA
67794 TTTAGCTTAG
Statistics
Matches: 96, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
111 7 0.07
112 21 0.22
113 20 0.21
114 25 0.26
115 1 0.01
116 14 0.15
117 8 0.08
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (116 bp):
TAAAAAATAATTAGCACAGCAAAACGGCATCATTTTTTCAAAACGAAATAATTTTTTGCGGCGTT
TTTATGAAAAACGCCGCAAAGATAATAAATCAATTTATTAAAAAAACAAAA
Found at i:67900 original size:433 final size:431
Alignment explanation
Indices: 67007--68166 Score: 1808
Period size: 433 Copynumber: 2.7 Consensus size: 431
66997 ATTTTATAAA
* *
67007 AAATCAATTTAAAAAAAAAGCAAAATAAAAAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTG
1 AAATCAATTTATAAAAAAA-CAAAATAAAAAATTTTTAGCACAGCAAAACGGCGTCATTTT-TT-
* * *
67072 GAAA-TGAAATAATTTTTTGTGGCGTTTTTATGTAAAACGCCGTAAAAGATAATAAATCAATTTA
63 CAAACTGAAATAATTTTTTGCGGCGTTTTTA--TAAAACGCCGCAAAAGATAATAAATCAATTTA
* ** *
67136 TTAAAAAAATTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAATAAAATAATTTTTTTGCGGCG
126 TTAAAAAAATTTAGTATAGCAAAACGGCGTCATTTTGTTCAAAACGAAATAATTTTTTTGAGGCG
* *
67201 -TTTTTATAAAAGCGCCGCAAAAATAAATCAATTTATAAAAAAATAAAATAAAAAAATTTTAGCA
191 TTTTTTATAAAAGCGCCGCAAAAATAAATCAATTTATAAAAAAACAAAATAAAAAATTTTTAGCA
*
67265 CAGCAAAACGGCGTCATTTTTTCAAACTGAAATAATTTTTTGCGGTGTTTTTATGAAAAACGCCG
256 CAGCAAAACGGCGTCATTTTTTCAAACTGAAATAATTTTTTGCGGCGTTTTTATGAAAAACGCCG
*
67330 CAAAAGATAATAAATCAATTTATTAAAAAAATTAGTATAGCAAAACGGCATCATTTTGTTTAAAA
321 CAAAAGATAATAAATCAATTTATTAAAAAAATTAGTATAGCAAAACGGCATCATTTTGTTCAAAA
* *
67395 CGAAATAAATTTTTTTGTGGCGTTTTTTATAAAAGCGCCGCAAAAAT
386 CGAAAT-AATTTTTTTGCGGCATTTTTTATAAAAGCGCCGCAAAAAT
* *
67442 AAATCAATTTAT-AAAAAACAAAATAAAAAATTTTTAGCACAACAAAACGGCGTCATCTTTTCAA
1 AAATCAATTTATAAAAAAACAAAATAAAAAATTTTTAGCACAGCAAAACGGCGTCATTTTTTCAA
67506 ACTGAAATAATTTTTTGCGGCGTTTTTCATAAAAACGCCGCAAAAGATAATAAATCAATTTATTA
66 ACTGAAATAATTTTTTGCGGCGTTTTT-AT-AAAACGCCGCAAAAGATAATAAATCAATTTATTA
* * *
67571 AAAAAAATTAGTATAGCAAAACGGCATCATTTTGTTCAAAACGAAATAATTTTTTTGTGGCGTTT
129 AAAAAATTTAGTATAGCAAAACGGCGTCATTTTGTTCAAAACGAAATAATTTTTTTGAGGCGTTT
67636 TTTATAAAAGCGCCGCAAAAATAAATCAATTTATAAAAAAACAAAATAAAAAATTTTTAGCACAG
194 TTTATAAAAGCGCCGCAAAAATAAATCAATTTATAAAAAAACAAAATAAAAAATTTTTAGCACAG
*
67701 CAAAACGGCGTCATTTTTTCAAATTGAAATAATTTTTTGCGGCGTTTTTATGAAAAACGCCGCAA
259 CAAAACGGCGTCATTTTTTCAAACTGAAATAATTTTTTGCGGCGTTTTTATGAAAAACGCCGCAA
*
67766 AAGATAATAAATCAATTTATTAAAAAAATTTAGCT-TAGCAAAACGGCGTCATTTTGTTCAAAAC
324 AAGATAATAAATCAATTTATTAAAAAAA-TTAG-TATAGCAAAACGGCATCATTTTGTTCAAAAC
67830 GAAAT-ATTTTTTTGCGGCATTTTTTATAAAAGCGCCGCAAAAAT
387 GAAATAATTTTTTTGCGGCATTTTTTATAAAAGCGCCGCAAAAAT
*
67874 AAATCAATTTATAAAAAAATAAAATAAAAAATTTTTAGCACAGCAAAACGGCGTCATTTTTTCAA
1 AAATCAATTTATAAAAAAACAAAATAAAAAATTTTTAGCACAGCAAAACGGCGTCATTTTTTCAA
67939 ACT-AAATAATTTTTTGCGGCG-TTTT-T---------C----GATAATAAATCAATTTATTAAA
66 ACTGAAATAATTTTTTGCGGCGTTTTTATAAAACGCCGCAAAAGATAATAAATCAATTTATTAAA
67988 AAAATTTAGCT-TAGCAAAACGGCGTCATTTTGTTCAAAACGAAAT-ATTTTTTTGAGGCGTTTT
131 AAAATTTAG-TATAGCAAAACGGCGTCATTTTGTTCAAAACGAAATAATTTTTTTGAGGCGTTTT
68051 TTATAAAAGCGCCGCAAAAATAAATCAATTTATAAAAAAAACAAAATAAAAAATTTTTAGCACAG
195 TTATAAAAGCGCCGCAAAAATAAATCAATTTAT-AAAAAAACAAAATAAAAAATTTTTAGCACAG
** * *
68116 CAAAACAACGTAATTTTTTCAAACTGAAATAATTTTTTGCGACGTTTTTAT
259 CAAAACGGCGTCATTTTTTCAAACTGAAATAATTTTTTGCGGCGTTTTTAT
68167 AAATAAGCAA
Statistics
Matches: 684, Mismatches: 32, Indels: 38
0.91 0.04 0.05
Matches are distributed among these distances:
414 50 0.07
415 140 0.20
416 1 0.00
419 1 0.00
429 1 0.00
431 8 0.01
432 182 0.27
433 247 0.36
434 42 0.06
435 12 0.02
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.32
Consensus pattern (431 bp):
AAATCAATTTATAAAAAAACAAAATAAAAAATTTTTAGCACAGCAAAACGGCGTCATTTTTTCAA
ACTGAAATAATTTTTTGCGGCGTTTTTATAAAACGCCGCAAAAGATAATAAATCAATTTATTAAA
AAAATTTAGTATAGCAAAACGGCGTCATTTTGTTCAAAACGAAATAATTTTTTTGAGGCGTTTTT
TATAAAAGCGCCGCAAAAATAAATCAATTTATAAAAAAACAAAATAAAAAATTTTTAGCACAGCA
AAACGGCGTCATTTTTTCAAACTGAAATAATTTTTTGCGGCGTTTTTATGAAAAACGCCGCAAAA
GATAATAAATCAATTTATTAAAAAAATTAGTATAGCAAAACGGCATCATTTTGTTCAAAACGAAA
TAATTTTTTTGCGGCATTTTTTATAAAAGCGCCGCAAAAAT
Found at i:67993 original size:198 final size:200
Alignment explanation
Indices: 67768--68164 Score: 717
Period size: 198 Copynumber: 2.0 Consensus size: 200
67758 CGCCGCAAAA
67768 GATAATAAATCAATTTATTAAAAAAATTTAGCTTAGCAAAACGGCGTCATTTTGTTCAAAACGAA
1 GATAATAAATCAATTTATTAAAAAAATTTAGCTTAGCAAAACGGCGTCATTTTGTTCAAAACGAA
* *
67833 ATATTTTTTTGCGGCATTTTTTATAAAAGCGCCGCAAAAATAAATCAATTTAT-AAAAAAATAAA
66 ATATTTTTTTGAGGCATTTTTTATAAAAGCGCCGCAAAAATAAATCAATTTATAAAAAAAACAAA
** * *
67897 ATAAAAAATTTTTAGCACAGCAAAACGGCGTCATTTTTTCAAACT-AAATAATTTTTTGCGGCGT
131 ATAAAAAATTTTTAGCACAGCAAAACAACGTAATTTTTTCAAACTGAAATAATTTTTTGCGACGT
67961 TTTTC
196 TTTTC
67966 GATAATAAATCAATTTATTAAAAAAATTTAGCTTAGCAAAACGGCGTCATTTTGTTCAAAACGAA
1 GATAATAAATCAATTTATTAAAAAAATTTAGCTTAGCAAAACGGCGTCATTTTGTTCAAAACGAA
*
68031 ATATTTTTTTGAGGCGTTTTTTATAAAAGCGCCGCAAAAATAAATCAATTTATAAAAAAAACAAA
66 ATATTTTTTTGAGGCATTTTTTATAAAAGCGCCGCAAAAATAAATCAATTTATAAAAAAAACAAA
68096 ATAAAAAATTTTTAGCACAGCAAAACAACGTAATTTTTTCAAACTGAAATAATTTTTTGCGACGT
131 ATAAAAAATTTTTAGCACAGCAAAACAACGTAATTTTTTCAAACTGAAATAATTTTTTGCGACGT
68161 TTTT
196 TTTT
68165 ATAAATAAGC
Statistics
Matches: 190, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
198 116 0.61
199 52 0.27
200 22 0.12
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (200 bp):
GATAATAAATCAATTTATTAAAAAAATTTAGCTTAGCAAAACGGCGTCATTTTGTTCAAAACGAA
ATATTTTTTTGAGGCATTTTTTATAAAAGCGCCGCAAAAATAAATCAATTTATAAAAAAAACAAA
ATAAAAAATTTTTAGCACAGCAAAACAACGTAATTTTTTCAAACTGAAATAATTTTTTGCGACGT
TTTTC
Found at i:71732 original size:43 final size:44
Alignment explanation
Indices: 71666--71992 Score: 366
Period size: 43 Copynumber: 7.6 Consensus size: 44
71656 ATATTTTTTT
* * * *
71666 AAAGGTCATGTTTTTTAGCGGCGTTTTTGGGAAAAGCGTTG-TA
1 AAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAAAAGCGTTGCTA
* * *
71709 AAAGGTTTTGTT-TTATAGTGGCGTTTGTGGAAAAAGCGTTGTTA
1 AAAGGTCTTGTTCTT-TAGCGGCGTTTGTGGAAAAAGCGTTGCTA
* *
71753 AAAGGTGTTGTTCTTTAGCGGCGTTTGTGGAAAAAGTGTTGCT-
1 AAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAAAAGCGTTGCTA
**
71796 AAAGGTCTTGTTCTTTAGCGGCGTTTGT-GAAAAAGCGCCGCT-
1 AAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAAAAGCGTTGCTA
* * *** *
71838 AAAGGTCTTATTCTTTAGTGGCGTTTGT-GAAAGAAGCACCG-TT
1 AAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAA-AAGCGTTGCTA
* * **
71881 AAAGGTCTTGTTCTTTAGCGGCGTTTGTGAAAAAAGTGCCGCT-
1 AAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAAAAGCGTTGCTA
* *
71924 AAAGGTCTTGTTCTTTAGCGGCATTTGTGGAAAAAGCGCTGCT-
1 AAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAAAAGCGTTGCTA
71967 AAAGGTCTTGTTCTTTAGCGGCGTTT
1 AAAGGTCTTGTTCTTTAGCGGCGTTT
71993 TTAGAAATAA
Statistics
Matches: 251, Mismatches: 26, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
42 44 0.18
43 163 0.65
44 42 0.17
45 2 0.01
ACGTcount: A:0.23, C:0.13, G:0.29, T:0.36
Consensus pattern (44 bp):
AAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAAAAGCGTTGCTA
Found at i:71909 original size:128 final size:130
Alignment explanation
Indices: 71665--71992 Score: 441
Period size: 129 Copynumber: 2.5 Consensus size: 130
71655 AATATTTTTT
* * * * * *
71665 TAAAGGTCATGTTTTTTAGCGGCGTTTTTGGGAAAAGCGTTG-TAAAAGGTTTTGTT-TTATAGT
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCTGCT-AAAGGTCTTGTTCTT-TAGT
*** * * **
71728 GGCGTTTGTGGAAAAAGCGTTGTTAAAAGGTGTTGTTCTTTAGCGGCGTTTGTGGAAAAAGTGTT
64 GGCGTTTGTGGAAAAAGCACCGTTAAAAGGTCTTGTTCTTTAGCGGCGTTTGTGAAAAAAGTGCC
71793 GC
129 GC
* *
71795 TAAAGGTCTTGTTCTTTAGCGGCGTTTGT-GAAAAAGCGCCGCTAAAGGTCTTATTCTTTAGTGG
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCTGCTAAAGGTCTTGTTCTTTAGTGG
71859 CGTTTGT-GAAAGAAGCACCGTT-AAAGGTCTTGTTCTTTAGCGGCGTTTGTGAAAAAAGTGCCG
66 CGTTTGTGGAAA-AAGCACCGTTAAAAGGTCTTGTTCTTTAGCGGCGTTTGTGAAAAAAGTGCCG
71922 C
130 C
* *
71923 TAAAGGTCTTGTTCTTTAGCGGCATTTGTGGAAAAAGCGCTGCTAAAGGTCTTGTTCTTTAGCGG
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCTGCTAAAGGTCTTGTTCTTTAGTGG
71988 CGTTT
66 CGTTT
71993 TTAGAAATAA
Statistics
Matches: 175, Mismatches: 19, Indels: 9
0.86 0.09 0.04
Matches are distributed among these distances:
128 70 0.40
129 76 0.43
130 29 0.17
ACGTcount: A:0.23, C:0.13, G:0.29, T:0.36
Consensus pattern (130 bp):
TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCTGCTAAAGGTCTTGTTCTTTAGTGG
CGTTTGTGGAAAAAGCACCGTTAAAAGGTCTTGTTCTTTAGCGGCGTTTGTGAAAAAAGTGCCGC
Found at i:73814 original size:20 final size:20
Alignment explanation
Indices: 73789--73827 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
73779 CTTATCTTTA
73789 GTGGTAAGTTTAATGGTTTG
1 GTGGTAAGTTTAATGGTTTG
73809 GTGGTAAGTTTAATGGTTT
1 GTGGTAAGTTTAATGGTTT
73828 ATTGGGCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (20 bp):
GTGGTAAGTTTAATGGTTTG
Found at i:82508 original size:42 final size:42
Alignment explanation
Indices: 82462--82596 Score: 189
Period size: 42 Copynumber: 3.2 Consensus size: 42
82452 CAAAAGACAG
** *
82462 ACTGAAGCTGGAGAAGGATGAAGCTGACTTAAAAGAGAAGAA
1 ACTGAAGCTGGATCAGGACGAAGCTGACTTAAAAGAGAAGAA
*
82504 ACTGAAGCTGGATCAGGACGAAGCAGACTTAAAAGAGAAGAA
1 ACTGAAGCTGGATCAGGACGAAGCTGACTTAAAAGAGAAGAA
* * * **
82546 ACCGAAGCTGGATCAGGACGAAGCTGAGTTAAAAGAAAACCA
1 ACTGAAGCTGGATCAGGACGAAGCTGACTTAAAAGAGAAGAA
82588 ACTGAAGCT
1 ACTGAAGCT
82597 AGCCAGTTTG
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 82 1.00
ACGTcount: A:0.44, C:0.15, G:0.28, T:0.13
Consensus pattern (42 bp):
ACTGAAGCTGGATCAGGACGAAGCTGACTTAAAAGAGAAGAA
Found at i:84067 original size:49 final size:49
Alignment explanation
Indices: 83956--84069 Score: 117
Period size: 49 Copynumber: 2.3 Consensus size: 49
83946 TTCAATGTTA
* *
83956 TTATTTTTACTATTATTAATTATTATTAGTTTTATTTTCCTTTTACGTAT
1 TTATTTTTATTA-TATTAATTATTATTAGTTTTATTTTCATTTTACGTAT
** * *
84006 TTGCTATTATTATATTAATATATTAATTAGTTTTATTTT-ATTTT-CAG-CT
1 TTATTTTTATTATATTAAT-TATT-ATTAGTTTTATTTTCATTTTAC-GTAT
84055 TTATTTTTATTATAT
1 TTATTTTTATTATAT
84070 ATATACGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
49 21 0.40
50 17 0.33
51 14 0.27
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.63
Consensus pattern (49 bp):
TTATTTTTATTATATTAATTATTATTAGTTTTATTTTCATTTTACGTAT
Found at i:84071 original size:51 final size:47
Alignment explanation
Indices: 83956--84071 Score: 119
Period size: 51 Copynumber: 2.4 Consensus size: 47
83946 TTCAATGTTA
* *
83956 TTATTTTTACTAT-TATTAATTATTATTAGTTTTATTTTCCTTTTAC
1 TTATTTTTATTATATATTAATTATTATTAGTTTTATTTTCATTTTAC
* *
84002 GTATTTGCTATTATTATATTAATATATTAATTAGTTTTATTTT-ATTTTCAGC
1 TTATTT-TTATTA-TATATTAAT-TATT-ATTAGTTTTATTTTCATTTT-A-C
84054 TTTATTTTTATTATATAT
1 -TTATTTTTATTATATAT
84072 ATACGTATAT
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
46 5 0.09
47 4 0.07
48 1 0.02
49 7 0.12
50 8 0.14
51 20 0.36
52 6 0.11
53 5 0.09
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (47 bp):
TTATTTTTATTATATATTAATTATTATTAGTTTTATTTTCATTTTAC
Found at i:84109 original size:17 final size:18
Alignment explanation
Indices: 84064--84109 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
84054 TTTATTTTTA
*
84064 TTATATATATACGTATATT
1 TTATA-ATATACATATATT
84083 TTATAA-ATACATATATT
1 TTATAATATACATATATT
84100 TT-TAATATAC
1 TTATAATATAC
84110 TTACATACCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 3 0.12
17 16 0.64
18 1 0.04
19 5 0.20
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (18 bp):
TTATAATATACATATATT
Found at i:84363 original size:5 final size:5
Alignment explanation
Indices: 84353--84380 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
84343 GATATGTACA
84353 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
84381 TGTATAAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:87227 original size:17 final size:17
Alignment explanation
Indices: 87205--87238 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
87195 ATCCACTAAT
*
87205 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
87222 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
87239 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:91866 original size:17 final size:17
Alignment explanation
Indices: 91844--91877 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
91834 ATCCACTAAT
*
91844 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
91861 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
91878 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:92557 original size:55 final size:55
Alignment explanation
Indices: 92481--92620 Score: 201
Period size: 55 Copynumber: 2.5 Consensus size: 55
92471 ACAATTGATC
* * *
92481 TAAACATATAAACAATCGATTCAAAAGAAGTAGTATTCCAACATAACAATCAATT
1 TAAACATATAAACAATCGATTCAAAAGAAGCAATATTCCAACACAACAATCAATT
* * *
92536 TGAACATATAAACAATTGATTCAAAAGCAA-CAATATTCCAACACAACAATCGATT
1 TAAACATATAAACAATCGATTCAAAAG-AAGCAATATTCCAACACAACAATCAATT
*
92591 TAAACATATGAACAATCGATTCAAAAGAAG
1 TAAACATATAAACAATCGATTCAAAAGAAG
92621 AAGAAGTAGT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
54 2 0.03
55 70 0.95
56 2 0.03
ACGTcount: A:0.51, C:0.17, G:0.09, T:0.24
Consensus pattern (55 bp):
TAAACATATAAACAATCGATTCAAAAGAAGCAATATTCCAACACAACAATCAATT
Found at i:92769 original size:28 final size:29
Alignment explanation
Indices: 92736--92792 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 29
92726 CAAGTTATTT
*
92736 TTGTGCAAGTATTGATAAGGGA-CAAATG
1 TTGTGCAAGTATTGATAAAGGACCAAATG
92764 TTGTGCAAGTATTGATAAAGGACCAAATG
1 TTGTGCAAGTATTGATAAAGGACCAAATG
92793 AATATCAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 21 0.78
29 6 0.22
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.28
Consensus pattern (29 bp):
TTGTGCAAGTATTGATAAAGGACCAAATG
Found at i:93682 original size:21 final size:20
Alignment explanation
Indices: 93634--93708 Score: 60
Period size: 21 Copynumber: 3.6 Consensus size: 20
93624 TAGGAGTTTG
* **
93634 AATCAATTCAAACAATAATG
1 AATCAATTCAAACAACAAAC
*
93654 AATTAATTCAAAACAACAAAC
1 AATCAATTC-AAACAACAAAC
* * *
93675 AATCAATTGAAATAAGCAAAG
1 AATCAATTCAAACAA-CAAAC
*
93696 AATCGATTCAAAC
1 AATCAATTCAAAC
93709 TCCAACATAA
Statistics
Matches: 42, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
20 13 0.31
21 29 0.69
ACGTcount: A:0.56, C:0.16, G:0.07, T:0.21
Consensus pattern (20 bp):
AATCAATTCAAACAACAAAC
Found at i:93957 original size:55 final size:55
Alignment explanation
Indices: 93864--94093 Score: 271
Period size: 55 Copynumber: 4.2 Consensus size: 55
93854 ATGTGTTATG
* * * *
93864 TAACAATCGATTTAAACATATAAATAATGGATTCAAAAGAAGTAGTATTCTAACA
1 TAACAATCGATTTAAACATATACACAATTGATTCAAAAGAAGTAGTATTCCAACA
* * * *
93919 TAACAATCGATTTAATCATATACACAATTGATTAAAAAGAAGCAGTATTCCAATA
1 TAACAATCGATTTAAACATATACACAATTGATTCAAAAGAAGTAGTATTCCAACA
* * * *
93974 TAACAATCAATTTAATCATATACACAATTGATTCAAAAGAAGTAGTGTTCCAACT
1 TAACAATCGATTTAAACATATACACAATTGATTCAAAAGAAGTAGTATTCCAACA
* * * * * * *
94029 TGACAATCGATTTAAACATATAGAGAATCGACTCAAAAGAAGCACTATTCCAACA
1 TAACAATCGATTTAAACATATACACAATTGATTCAAAAGAAGTAGTATTCCAACA
* *
94084 TGATAATCGA
1 TAACAATCGA
94094 CCCAAAAGAA
Statistics
Matches: 149, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 149 1.00
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (55 bp):
TAACAATCGATTTAAACATATACACAATTGATTCAAAAGAAGTAGTATTCCAACA
Found at i:104020 original size:16 final size:15
Alignment explanation
Indices: 103999--104028 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
103989 GAAGATCAAT
103999 AAATAATTATTTTTAG
1 AAATAATT-TTTTTAG
104015 AAATAATTTTTTTA
1 AAATAATTTTTTTA
104029 AACCTCTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
AAATAATTTTTTTAG
Found at i:105099 original size:15 final size:15
Alignment explanation
Indices: 105079--105108 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
105069 AAAACAACAT
105079 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
105094 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
105109 CCTTACATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.33, G:0.07, T:0.40
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:112662 original size:51 final size:52
Alignment explanation
Indices: 112554--112675 Score: 158
Period size: 51 Copynumber: 2.4 Consensus size: 52
112544 ATACTATTTT
* * *
112554 TACACCTCCTCCACCTGTCCTACCTAGCCCACCCTTATCAACCTACTGTTTC
1 TACATCTCCTCCACCTGCCCTACCTAGCCCACCCTTATCAACCTACTGCTTC
* *
112606 TACATCTCCTCCACTTGCCCTACCTAGCCCA-TCTTATCAACCTAC-GACTTC
1 TACATCTCCTCCACCTGCCCTACCTAGCCCACCCTTATCAACCTACTG-CTTC
* *
112657 TACATCCCCTCCATCTGCC
1 TACATCTCCTCCACCTGCC
112676 TCTTGTCCAC
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
50 1 0.02
51 32 0.52
52 28 0.46
ACGTcount: A:0.20, C:0.46, G:0.06, T:0.29
Consensus pattern (52 bp):
TACATCTCCTCCACCTGCCCTACCTAGCCCACCCTTATCAACCTACTGCTTC
Found at i:115278 original size:22 final size:22
Alignment explanation
Indices: 115253--115297 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
115243 CATAAAAAAT
115253 AAATATTAACTATGAATAAGAA
1 AAATATTAACTATGAATAAGAA
115275 AAATATTAACTATGAATAAGAA
1 AAATATTAACTATGAATAAGAA
115297 A
1 A
115298 GATGGTAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.27
Consensus pattern (22 bp):
AAATATTAACTATGAATAAGAA
Found at i:115406 original size:20 final size:20
Alignment explanation
Indices: 115381--115430 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
115371 TGGCTTAAAA
115381 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
115401 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
115418 GTGGTAGTGGATT
1 TTGGTAGTGGATT
115431 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:120034 original size:20 final size:20
Alignment explanation
Indices: 120009--120058 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
119999 TGGCTTAAAA
120009 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
120029 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
120046 GTGGTAGTGGATT
1 TTGGTAGTGGATT
120059 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:122676 original size:16 final size:16
Alignment explanation
Indices: 122655--122689 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
122645 GACATGCAGA
*
122655 ACTTTATAATACTATG
1 ACTTTATAATACAATG
*
122671 ACTTTATAGTACAATG
1 ACTTTATAATACAATG
122687 ACT
1 ACT
122690 GACTTAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (16 bp):
ACTTTATAATACAATG
Found at i:125518 original size:42 final size:42
Alignment explanation
Indices: 125472--125608 Score: 211
Period size: 42 Copynumber: 3.3 Consensus size: 42
125462 TAGAAAAGAC
** *
125472 AAACTGAAGCTGGAGAAGGATGAAGCTGACTTAAAAGAGAAG
1 AAACTGAAGCTGGATCAGGACGAAGCTGACTTAAAAGAGAAG
125514 AAACTGAAGCTGGATCAGGACGAAGCTGACTTAAAAGAGAAG
1 AAACTGAAGCTGGATCAGGACGAAGCTGACTTAAAAGAGAAG
* * *
125556 AAACTGAAGCTGGATCAGGACGAAGCTGATTTAAAAGAAAAC
1 AAACTGAAGCTGGATCAGGACGAAGCTGACTTAAAAGAGAAG
*
125598 CAACTGAAGCT
1 AAACTGAAGCT
125609 AGCCAGGTTG
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 88 1.00
ACGTcount: A:0.44, C:0.14, G:0.27, T:0.15
Consensus pattern (42 bp):
AAACTGAAGCTGGATCAGGACGAAGCTGACTTAAAAGAGAAG
Found at i:125792 original size:74 final size:75
Alignment explanation
Indices: 125661--125852 Score: 296
Period size: 74 Copynumber: 2.6 Consensus size: 75
125651 TTTGATATAC
* * **
125661 AATCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACTGCCGGTATGCATTTGTGTGATGG
1 AATCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACAGACAATATGCATTTGTGTGATGG
125726 -TTGTGTTTG
66 TTTGTGTTTG
* **
125735 AATGTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACAGACAATATGTGTTTGTGTGATGG
1 AATCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACAGACAATATGCATTTGTGTGATGG
125800 TTTTGTGTTTG
66 -TTTGTGTTTG
*
125811 AATCCCAATGGTTTATTGGGATGTTTATGAACTGAAGATACA
1 AATCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACA
125853 TACTGTGTTT
Statistics
Matches: 107, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
74 58 0.54
76 49 0.46
ACGTcount: A:0.26, C:0.08, G:0.27, T:0.40
Consensus pattern (75 bp):
AATCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACAGACAATATGCATTTGTGTGATGG
TTTGTGTTTG
Found at i:127605 original size:21 final size:21
Alignment explanation
Indices: 127580--127620 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
127570 TTTTTTCTGG
*
127580 GCCTGGTCCGAACCCGGCCCC
1 GCCTGGCCCGAACCCGGCCCC
127601 GCCTGGCCCGAACCCGGCCC
1 GCCTGGCCCGAACCCGGCCC
127621 ATGGATAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.10, C:0.54, G:0.29, T:0.07
Consensus pattern (21 bp):
GCCTGGCCCGAACCCGGCCCC
Found at i:128305 original size:55 final size:55
Alignment explanation
Indices: 128233--128428 Score: 272
Period size: 55 Copynumber: 3.6 Consensus size: 55
128223 TTGATCTAAG
* * *
128233 CATATAAACAATCGATTCAAAAGAAGTAGTATTCCAACATAACAATCAATTTGAA
1 CATATAAACAATTGATTCAAAAGAAGCAGTATTCCAACATAACAATCAATTTAAA
* * *
128288 CATATAATCAGTTGATTCAAAAGCAA-CAGTATTCCAACATAACAATCGATTTAAA
1 CATATAAACAATTGATTCAAAAG-AAGCAGTATTCCAACATAACAATCAATTTAAA
* *
128343 CATATAAACAATTGATTCAAAAGAAGCAATATTCCAACATGACAATCAATTTAAA
1 CATATAAACAATTGATTCAAAAGAAGCAGTATTCCAACATAACAATCAATTTAAA
128398 CATATAAACAATCT-ATTCGAAAA-AAGCAGTA
1 CATATAAACAAT-TGATTC-AAAAGAAGCAGTA
128429 ATCACAAGTT
Statistics
Matches: 125, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
54 2 0.02
55 116 0.93
56 7 0.06
ACGTcount: A:0.49, C:0.17, G:0.09, T:0.26
Consensus pattern (55 bp):
CATATAAACAATTGATTCAAAAGAAGCAGTATTCCAACATAACAATCAATTTAAA
Found at i:129647 original size:55 final size:55
Alignment explanation
Indices: 129558--129774 Score: 247
Period size: 55 Copynumber: 3.9 Consensus size: 55
129548 GTTATGTAAT
* * *
129558 AATCGATTTAAACATATAAACAATCGATTTAAAAGAAGTAGTATTCCAACATAAC
1 AATCGATTTAATCATATACACAATCGATTAAAAAGAAGTAGTATTCCAACATAAC
* * *
129613 AATCGATTTTATCATATACACAATCAATTAAAAAGAAGCAGTATTCCAACATAAC
1 AATCGATTTAATCATATACACAATCGATTAAAAAGAAGTAGTATTCCAACATAAC
** * * * *
129668 AATTAATTTAATCATATACACAATCGATTCAAAAGAAGTAGTGTTCCAACTTGAC
1 AATCGATTTAATCATATACACAATCGATTAAAAAGAAGTAGTATTCCAACATAAC
* * * * * * *
129723 AATCGATTTAAAT-ATATAAAGAATTGACTCAAAAGAAGCACTATTCCAACAT
1 AATCGATTT-AATCATATACACAATCGATTAAAAAGAAGTAGTATTCCAACAT
129775 GATAATTGAT
Statistics
Matches: 136, Mismatches: 25, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
55 133 0.98
56 3 0.02
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (55 bp):
AATCGATTTAATCATATACACAATCGATTAAAAAGAAGTAGTATTCCAACATAAC
Found at i:129757 original size:110 final size:110
Alignment explanation
Indices: 129563--129774 Score: 282
Period size: 110 Copynumber: 1.9 Consensus size: 110
129553 GTAATAATCG
* *
129563 ATTTAAACATATAAACAATCGATTTAAAAGAAGTAGTATTCCAACATAACAATCGATTTTATCAT
1 ATTTAAACATATAAACAATCGATTCAAAAGAAGTAGTATTCCAACATAACAATCGATTTAATCAT
* * *
129628 ATACACAATCAATTAAAAAGAAGCAGTATTCCAACATAACAATTA
66 ATAAACAATCAACTAAAAAGAAGCACTATTCCAACATAACAATTA
* * * * *
129673 ATTTAATCATATACACAATCGATTCAAAAGAAGTAGTGTTCCAACTTGACAATCGATTTAAAT-A
1 ATTTAAACATATAAACAATCGATTCAAAAGAAGTAGTATTCCAACATAACAATCGATTT-AATCA
* ** *
129737 TATAAAGAATTGACTCAAAAGAAGCACTATTCCAACAT
65 TATAAACAATCAACTAAAAAGAAGCACTATTCCAACAT
129775 GATAATTGAT
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
110 85 0.98
111 2 0.02
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (110 bp):
ATTTAAACATATAAACAATCGATTCAAAAGAAGTAGTATTCCAACATAACAATCGATTTAATCAT
ATAAACAATCAACTAAAAAGAAGCACTATTCCAACATAACAATTA
Found at i:135959 original size:24 final size:25
Alignment explanation
Indices: 135932--135989 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
135922 GAAAATGAGC
*
135932 TTAAAATAACTAATATA-AATTGA-T
1 TTAAAATAAATAATATAGAA-TGATT
* *
135956 TTAAAGTAAATAGTATAGAATGATT
1 TTAAAATAAATAATATAGAATGATT
135981 TTAAAATAA
1 TTAAAATAA
135990 TTATTATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 17 0.61
25 11 0.39
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.36
Consensus pattern (25 bp):
TTAAAATAAATAATATAGAATGATT
Found at i:136136 original size:25 final size:24
Alignment explanation
Indices: 136108--136167 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 24
136098 AAATAAATAT
*
136108 AATAATAATAATCTATAATACTAAA
1 AATAATAATAATATATAATAC-AAA
* * *
136133 AATAACAGTAATATATAATACAAT
1 AATAATAATAATATATAATACAAA
*
136157 AACAATAATAA
1 AATAATAATAA
136168 CAGTAGCTTA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
24 10 0.36
25 18 0.64
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.28
Consensus pattern (24 bp):
AATAATAATAATATATAATACAAA
Found at i:137677 original size:9 final size:9
Alignment explanation
Indices: 137663--137693 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
137653 GTTAAACGAA
137663 TCGAGTTAT
1 TCGAGTTAT
*
137672 TCGAGTTAA
1 TCGAGTTAT
137681 TCGAGTTAT
1 TCGAGTTAT
137690 TCGA
1 TCGA
137694 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:137764 original size:9 final size:9
Alignment explanation
Indices: 137747--137783 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
137737 TGAGTTTTCG
137747 AATTCGAAT
1 AATTCGAAT
*
137756 AACTCGAAT
1 AATTCGAAT
137765 AATTCGAAT
1 AATTCGAAT
137774 AATTCGAAT
1 AATTCGAAT
137783 A
1 A
137784 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:145790 original size:18 final size:17
Alignment explanation
Indices: 145767--145806 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
145757 CCCAACTACT
145767 GTATACGTAAACAGTACC
1 GTATACGTAAACAGTA-C
* *
145785 GTATACGTGAATAGTAC
1 GTATACGTAAACAGTAC
145802 GTATA
1 GTATA
145807 TATGAATAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.28
Consensus pattern (17 bp):
GTATACGTAAACAGTAC
Found at i:145823 original size:35 final size:35
Alignment explanation
Indices: 145779--145858 Score: 108
Period size: 35 Copynumber: 2.3 Consensus size: 35
145769 ATACGTAAAC
145779 AGTACCGTATACGTGAATAGTACGTATATA-TGAAT
1 AGTACCGTATACGTGAATAGTAC-TATATACTGAAT
* * *
145814 AGTATCGTATATGTGAATAGTGCTATATACGTGAAT
1 AGTACCGTATACGTGAATAGTACTATATAC-TGAAT
145850 AGTACCGTA
1 AGTACCGTA
145859 AACGGTTGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
34 6 0.15
35 20 0.51
36 13 0.33
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (35 bp):
AGTACCGTATACGTGAATAGTACTATATACTGAAT
Found at i:145824 original size:18 final size:17
Alignment explanation
Indices: 145792--145854 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 17
145782 ACCGTATACG
145792 TGAATAGTACGTATATA
1 TGAATAGTACGTATATA
*
145809 TGAATAGTATCGTATATG
1 TGAATAGTA-CGTATATA
*
145827 TGAATAGTGC-TATATA
1 TGAATAGTACGTATATA
145843 CGTGAATAGTAC
1 --TGAATAGTAC
145855 CGTAAACGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
16 5 0.13
17 10 0.26
18 24 0.62
ACGTcount: A:0.37, C:0.08, G:0.21, T:0.35
Consensus pattern (17 bp):
TGAATAGTACGTATATA
Found at i:147817 original size:18 final size:18
Alignment explanation
Indices: 147788--147880 Score: 114
Period size: 18 Copynumber: 5.2 Consensus size: 18
147778 TACGACCGTT
147788 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* * *
147806 TATGGCACTATTCACATA
1 TACGGTACTATTCACGTA
* *
147824 TACAGTACTATTCATGTA
1 TACGGTACTATTCACGTA
* *
147842 TACGATACTATTTACGTA
1 TACGGTACTATTCACGTA
*
147860 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
147878 TAC
1 TAC
147881 AGTAGTTGGG
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 60 1.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.35
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:155425 original size:22 final size:20
Alignment explanation
Indices: 155390--155429 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
155380 GTAAAAGAAC
155390 AAATTTATCATTTTTATTAA
1 AAATTTATCATTTTTATTAA
155410 AAATTTCATCCATTTTTATT
1 AAATTT-AT-CATTTTTATT
155430 GTTAAAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 2 0.11
22 10 0.56
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (20 bp):
AAATTTATCATTTTTATTAA
Found at i:166901 original size:16 final size:16
Alignment explanation
Indices: 166868--166901 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
166858 ATCATGTGTT
* *
166868 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
166884 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
166900 AA
1 AA
166902 TACAAAGTGG
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:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:168121 original size:21 final size:21
Alignment explanation
Indices: 168095--168135 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
168085 AGACGAGCAA
* *
168095 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
168116 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
168136 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:170071 original size:16 final size:16
Alignment explanation
Indices: 170038--170071 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
170028 GGAGATTGTT
* *
170038 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
170054 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
170070 AA
1 AA
170072 TACAAAGTGG
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:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:180384 original size:794 final size:784
Alignment explanation
Indices: 178856--180397 Score: 2422
Period size: 794 Copynumber: 1.9 Consensus size: 784
178846 GGTTCTTTAC
178856 TTGGTTATGTGTATTAATTTAATTTAATTACATTTATTTACTTAAAAAATTAATTTGAATATATT
1 TTGGTTATGTGTATTAATTTAATTTAATTACATTTATTTACTTAAAAAATTAATTTGAATATATT
178921 AAAAAAATAAAATATAAAAAATAATTGTATAAATTAAAAATTCATAATTTTCTTGATATATATTA
66 AAAAAAATAAAATATAAAAAATAATTGTATAAATTAAAAATTCATAATTTTCTTGATATATATTA
178986 AGTTATATATTATTTTAATTAAATCTTTACTTTTAATATTATTTTAAACATAAAAAATAAATATT
131 AGTTATATATTATTTTAATTAAATCTTTACTTTTAATATTATTTTAAACATAAAAAATAAATATT
179051 AACTATGAATAAGAAAGATATGGTAAAGTAGAAAATAACAAATTTTGAGTTTATAAGACACCCAA
196 AACTATGAATAAGAAAGATATGGTAAAGTAGAAAATAACAAATTTTGAGTTTATAAGACACCCAA
* *
179116 AAATATTGTAGTAACACGTGTTCTGTTAGGTTTTTTTATGTTAAATTATACGATATAGAGAAAAT
261 AAATATTGTAGTAACACGTGTTCTGTTAGGTTGTTTTATGTAAAATTATACGATATAGAGAAAAT
*
179181 ATAAGGCAAGCCACTTACAACATTTAGTAAAACTAATGTTCAAAATGGCGTGGGTTACGTGAATA
326 ATAAGGCAAGCCACTTACAACATTGAGTAAAACTAATGTTCAAAATGGCGTGGGTTACGTGAATA
*
179246 TATGTATTTATATTCTTATTATTTGTAGAAGACATTAAAGAGGTATGTATGTACAATATTTATTT
391 TATGTATTTATATTCTAATTATTTGTAGAAGACATTAAAGAGG--TGTATGTACAATATTTATTT
* *
179311 TTACACAATCATAAAAAAAATATGTATGTACAATGTTTAAAAGATGGAAATGTTGTGTATCTATA
454 TTACACAATCATAAAAAAAATATGTATGTACAATGTTTAAAAGATAGAAATGTTGTATATCTATA
*
179376 CTTATATTTTAAGAAATATTTTCTTGCAAAAATTCTCAGAATATAAAATTAAAAAAAAAGATACT
519 CTTATATTTTAAGAAATATTTTATTGCAAAAATTCTCAGAATAT--AATT------AAAGATACT
* * *
179441 ATCTAGAAAATTAGATATTTTAGATGAACATTCTAATTATTAGATATTTATAAAATAAATTATAC
576 ATCTAGAAAATTAAATATTTTAGATGAACATCCTAATTATTAGATATTTATAAAATAAATTATAA
* *
179506 GGATGTTTACATGTGTTAACAATCTAACGACCCCTAAACTTTATAAATAAGGGTGAGAGCTTTAA
641 GGATGTTTACATGTGTTAACAATCTAACAACCCCTAAACTTTATAAATAAGGATGAGAGCTTTAA
179571 TTCTTGCTATGATGTAAAAAAAGAGTCATAAGCAAGAGATGTGAGAGATAATGGTAAAAAATTAG
706 TTCTTGCTATGATGTAAAAAAAGAGTCATAAGCAAGAGATGTGAGAGATAATGGTAAAAAATTAG
179636 GTTTTTATTCCGAG
771 GTTTTTATTCCGAG
*
179650 TTGGTTATGTGTATTAATTTAATTTAATTACATTTATTTACTTAAAAATTTAATTTGAATATATT
1 TTGGTTATGTGTATTAATTTAATTTAATTACATTTATTTACTTAAAAAATTAATTTGAATATATT
* *
179715 GAAAAAATAAAATATAAAAAATAATTGTATAAATTAAAAATTCGTAATTTTCTTGATATATATTA
66 AAAAAAATAAAATATAAAAAATAATTGTATAAATTAAAAATTCATAATTTTCTTGATATATATTA
*
179780 AGTTATATATTAATTTTATGCAGTAAACCATTTTAATTAAATTTTTACTTTTAATATTATTTTAA
131 AG---T-TA-T-A---TAT----T-----ATTTTAATTAAATCTTTACTTTTAATATTATTTTAA
179845 ACATAAAAAATAAATATTAACTATGAATAAGAAAGATATGGTAAAGTAGAAAATAACAAATTTTG
178 ACATAAAAAATAAATATTAACTATGAATAAGAAAGATATGGTAAAGTAGAAAATAACAAATTTTG
179910 AGTTTATAAGACACCCAAAAATATTGTAGTAACACGTGTTCTGTTAGG-TGTTTTATGTAAAATT
243 AGTTTATAAGACACCCAAAAATATTGTAGTAACACGTGTTCTGTTAGGTTGTTTTATGTAAAATT
* * *
179974 ATAGGATATAGAGAAAATATAAGGCAAGGCAGTTACAACATTGAGTAAAACTAATGTTCAAAATG
308 ATACGATATAGAGAAAATATAAGGCAAGCCACTTACAACATTGAGTAAAACTAATGTTCAAAATG
*
180039 GCGTGGGTTGTACGTGAATATATGTATTTATATTCTAATTATTTTTAGAAGACATTAAAGA-G-G
373 GCGTGGG-T-TACGTGAATATATGTATTTATATTCTAATTATTTGTAGAAGACATTAAAGAGGTG
*
180102 T-TGTACCATATTTATTTTTACACAATCATAAAAAAAATATGTATGTACAATGTTTAAAAGATAG
436 TATGTACAATATTTATTTTTACACAATCATAAAAAAAATATGTATGTACAATGTTTAAAAGATAG
* * ** *
180166 AAATGTTGTATATCTATACTTATCTTTTAAGAGATATTTTATTGGGAAGATTCT-AG-A-AT-A-
501 AAATGTTGTATATCTATACTTATATTTTAAGAAATATTTTATTGCAAAAATTCTCAGAATATAAT
* *
180226 T-AGGATATTATCTAGAAAATTAAATATTTTAGATGAACATCCTAATTATTAGATATTTATAAAA
566 TAAAGATACTATCTAGAAAATTAAATATTTTAGATGAACATCCTAATTATTAGATATTTATAAAA
*
180290 TAAA-TAGTAAGGATGTTTACATGTGTTAATAATCTAACAACCCCTAAACTTTATAAATAAGGAT
631 TAAATTA-TAAGGATGTTTACATGTGTTAACAATCTAACAACCCCTAAACTTTATAAATAAGGAT
* * * * *
180354 GGGGGTTTTAATTCTTGCTATGATGTAAAAAGAGAGTCGTAAGC
695 GAGAGCTTTAATTCTTGCTATGATGTAAAAAAAGAGTCATAAGC
180398 GTGTGAGAGG
Statistics
Matches: 693, Mismatches: 34, Indels: 42
0.90 0.04 0.05
Matches are distributed among these distances:
793 2 0.00
794 284 0.41
797 1 0.00
798 2 0.00
799 1 0.00
800 1 0.00
801 1 0.00
802 1 0.00
803 3 0.00
805 2 0.00
806 1 0.00
807 3 0.00
808 108 0.16
809 2 0.00
811 82 0.12
812 150 0.22
813 49 0.07
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (784 bp):
TTGGTTATGTGTATTAATTTAATTTAATTACATTTATTTACTTAAAAAATTAATTTGAATATATT
AAAAAAATAAAATATAAAAAATAATTGTATAAATTAAAAATTCATAATTTTCTTGATATATATTA
AGTTATATATTATTTTAATTAAATCTTTACTTTTAATATTATTTTAAACATAAAAAATAAATATT
AACTATGAATAAGAAAGATATGGTAAAGTAGAAAATAACAAATTTTGAGTTTATAAGACACCCAA
AAATATTGTAGTAACACGTGTTCTGTTAGGTTGTTTTATGTAAAATTATACGATATAGAGAAAAT
ATAAGGCAAGCCACTTACAACATTGAGTAAAACTAATGTTCAAAATGGCGTGGGTTACGTGAATA
TATGTATTTATATTCTAATTATTTGTAGAAGACATTAAAGAGGTGTATGTACAATATTTATTTTT
ACACAATCATAAAAAAAATATGTATGTACAATGTTTAAAAGATAGAAATGTTGTATATCTATACT
TATATTTTAAGAAATATTTTATTGCAAAAATTCTCAGAATATAATTAAAGATACTATCTAGAAAA
TTAAATATTTTAGATGAACATCCTAATTATTAGATATTTATAAAATAAATTATAAGGATGTTTAC
ATGTGTTAACAATCTAACAACCCCTAAACTTTATAAATAAGGATGAGAGCTTTAATTCTTGCTAT
GATGTAAAAAAAGAGTCATAAGCAAGAGATGTGAGAGATAATGGTAAAAAATTAGGTTTTTATTC
CGAG
Found at i:181500 original size:30 final size:30
Alignment explanation
Indices: 181454--181575 Score: 199
Period size: 30 Copynumber: 4.0 Consensus size: 30
181444 TTTTATTATG
*
181454 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
181485 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
181515 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
181545 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
181575 C
1 C
181576 ATAAATATGG
Statistics
Matches: 87, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
30 80 0.92
31 7 0.08
ACGTcount: A:0.25, C:0.24, G:0.07, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:181509 original size:15 final size:15
Alignment explanation
Indices: 181464--181571 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
181454 CCAATATCTC
181464 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
181479 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
181494 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
181509 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
181524 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
181539 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
181554 GATACCCATATCTTT
1 GATACCCATATCTTT
181569 GAT
1 GAT
181572 TTTCATAAAT
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:186186 original size:30 final size:30
Alignment explanation
Indices: 186140--186263 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
186130 TTTTATTATG
*
186140 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
186171 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
186201 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
186231 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
186261 CCA
1 CCA
186264 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:186195 original size:15 final size:15
Alignment explanation
Indices: 186150--186257 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
186140 CCAATATCTC
186150 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
186165 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
186180 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
186195 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
186210 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
186225 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
186240 GATACCCATATCTTT
1 GATACCCATATCTTT
186255 GAT
1 GAT
186258 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:192570 original size:18 final size:18
Alignment explanation
Indices: 192547--192639 Score: 114
Period size: 18 Copynumber: 5.2 Consensus size: 18
192537 CCCAACTACT
*
192547 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
192565 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
* * *
192583 ATATATGTAAATAGTACC
1 GTATACGTGAATAGTACC
* * *
192601 ATATACGTAAATAGTGCC
1 GTATACGTGAATAGTACC
192619 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
192637 GTA
1 GTA
192640 AACGGTCATA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:200220 original size:29 final size:29
Alignment explanation
Indices: 200172--200227 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
200162 ATTAATTATT
200172 TTAATCTTATTACTACTATCATCATATCA
1 TTAATCTTATTACTACTATCATCATATCA
* * * *
200201 TTAATGTTATTATTATTATCATTATAT
1 TTAATCTTATTACTACTATCATCATAT
200228 TTCCACTCAT
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:0.34, C:0.12, G:0.02, T:0.52
Consensus pattern (29 bp):
TTAATCTTATTACTACTATCATCATATCA
Found at i:200303 original size:16 final size:19
Alignment explanation
Indices: 200279--200328 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 19
200269 CATATTATAT
*
200279 TATAAATATATAAT-TAC-
1 TATACATATATAATATACG
200296 T-TACATATAT-ATATACG
1 TATACATATATAATATACG
200313 TATACATATAT-ATATA
1 TATACATATATAATATA
200329 TTTTAAACTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 2 0.07
16 11 0.38
17 2 0.07
18 14 0.48
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.42
Consensus pattern (19 bp):
TATACATATATAATATACG
Found at i:206305 original size:40 final size:39
Alignment explanation
Indices: 206245--206394 Score: 106
Period size: 40 Copynumber: 3.7 Consensus size: 39
206235 GGCACTTTTT
*
206245 GCGGCGTTTGGAACAAAAGCGCCACAAAAAATAGAGCATTA
1 GCGGCGTTT--AACCAAAGCGCCACAAAAAATAGAGCATTA
* * * ** *
206286 GCGGCGATTTAGCCAAAGCGCCGCTAAAGGTAGAGCATCA
1 GCGGCG-TTTAACCAAAGCGCCACAAAAAATAGAGCATTA
** * * *
206326 GCGGCGTTTATACGGAAGCGCCGCTAAAAATAG-GAATTA
1 GCGGCGTTTA-ACCAAAGCGCCACAAAAAATAGAGCATTA
* *
206365 ACGGCGTTTTATA-TAAAGCGCCACAAAAAA
1 GCGGCG-TTTA-ACCAAAGCGCCACAAAAAA
206395 CCTAAGACGA
Statistics
Matches: 87, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
39 26 0.30
40 52 0.60
41 6 0.07
42 3 0.03
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (39 bp):
GCGGCGTTTAACCAAAGCGCCACAAAAAATAGAGCATTA
Found at i:206606 original size:25 final size:25
Alignment explanation
Indices: 206578--206648 Score: 59
Period size: 25 Copynumber: 3.2 Consensus size: 25
206568 TTTTCGTCTA
206578 AGCGCCGCTAATGCTCCGAGTCTTT
1 AGCGCCGCTAATGCTCCGAGTCTTT
* *
206603 AGCGGCGCT--T--T-C--GTC-TA
1 AGCGCCGCTAATGCTCCGAGTCTTT
*
206620 AGCACCGCTAATGCTCCGAGTCTTT
1 AGCGCCGCTAATGCTCCGAGTCTTT
206645 AGCG
1 AGCG
206649 GCGTTTTCAT
Statistics
Matches: 32, Mismatches: 6, Indels: 16
0.59 0.11 0.30
Matches are distributed among these distances:
17 8 0.25
18 3 0.09
19 1 0.03
20 1 0.03
21 2 0.06
22 1 0.03
23 1 0.03
24 3 0.09
25 12 0.38
ACGTcount: A:0.17, C:0.31, G:0.25, T:0.27
Consensus pattern (25 bp):
AGCGCCGCTAATGCTCCGAGTCTTT
Found at i:206619 original size:42 final size:42
Alignment explanation
Indices: 206435--206803 Score: 478
Period size: 42 Copynumber: 8.9 Consensus size: 42
206425 TTTTTAAACA
* *
206435 TTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCT-CAGGTC
1 TTTAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCCGGGTC
* *
206476 TATAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCT-CGGGTC
1 TTTAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCCGGGTC
*
206517 TATAGCGGCGTCTTT-GTCTAAGCGCCGCTAATGCT-CGGGTC
1 TTTAGCGGCGT-TTTCGTCTAAGCGCCGCTAATGCTCCGGGTC
* *
206558 TATAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCCGAGTC
1 TTTAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCCGGGTC
* * *
206600 TTTAGCGGCGCTTTCGTCTAAGCACCGCTAATGCTCCGAGTC
1 TTTAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCCGGGTC
* * *
206642 TTTAGCGGCGTTTTCATCTAAGCGCCGGTAATGCTCCGAGTC
1 TTTAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCCGGGTC
*
206684 TTTAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCTGGGTC
1 TTTAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCCGGGTC
* * * *
206726 TATAGCGGCGTTTTCGCCTATGCGCCGCTAATGCT-CGGGTT
1 TTTAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCCGGGTC
* ** * * *
206767 TTTAGCGGTGTTTTTATATATGCGCCGCTAATTCTCC
1 TTTAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCC
206804 TGTATTCAGT
Statistics
Matches: 298, Mismatches: 26, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
40 3 0.01
41 139 0.47
42 156 0.52
ACGTcount: A:0.15, C:0.26, G:0.27, T:0.32
Consensus pattern (42 bp):
TTTAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCCGGGTC
Found at i:207705 original size:16 final size:16
Alignment explanation
Indices: 207684--207714 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
207674 AGGGTTATGC
*
207684 TTTAGGGGTTAGGGGA
1 TTTAGGGGTAAGGGGA
207700 TTTAGGGGTAAGGGG
1 TTTAGGGGTAAGGGG
207715 CTAGGGGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.00, G:0.52, T:0.29
Consensus pattern (16 bp):
TTTAGGGGTAAGGGGA
Found at i:208978 original size:25 final size:22
Alignment explanation
Indices: 208924--208980 Score: 60
Period size: 25 Copynumber: 2.4 Consensus size: 22
208914 CACGATTTCA
*
208924 TTTCCCCAATTTCCCAACTTCT
1 TTTCCCCAATTTCCCAACTTAT
*
208946 TTTCCCCCAATTTCCCCCAAGTTAT
1 TTT-CCCCAATTT--CCCAACTTAT
208971 TCTTCCCCAA
1 T-TTCCCCAA
208981 AGTATTTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 3 0.10
23 9 0.31
25 15 0.52
26 2 0.07
ACGTcount: A:0.19, C:0.42, G:0.02, T:0.37
Consensus pattern (22 bp):
TTTCCCCAATTTCCCAACTTAT
Found at i:208992 original size:14 final size:15
Alignment explanation
Indices: 208956--208994 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
208946 TTTCCCCCAA
*
208956 TTTCCCCCAAGTTAT
1 TTTCCCCAAAGTTAT
208971 TCTTCCCCAAAG-TAT
1 T-TTCCCCAAAGTTAT
208986 TTTCCCCAA
1 TTTCCCCAA
208995 TTTCCCAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 8 0.36
15 5 0.23
16 9 0.41
ACGTcount: A:0.23, C:0.36, G:0.05, T:0.36
Consensus pattern (15 bp):
TTTCCCCAAAGTTAT
Found at i:209257 original size:33 final size:33
Alignment explanation
Indices: 209215--209282 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
209205 CATCTATGTT
*
209215 ATTCGAGTTAAATGAGATGAGTGTTGGGTATGA
1 ATTCGAGTTAAATGAGATGAGTGTTAGGTATGA
*
209248 ATTCGAGTTAAATGAGATTAGTGTTAGGTATGA
1 ATTCGAGTTAAATGAGATGAGTGTTAGGTATGA
209281 AT
1 AT
209283 ATATATATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.32, C:0.03, G:0.29, T:0.35
Consensus pattern (33 bp):
ATTCGAGTTAAATGAGATGAGTGTTAGGTATGA
Found at i:209543 original size:17 final size:17
Alignment explanation
Indices: 209521--209558 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
209511 ATCCCAGGAA
209521 CTTGCAGCCTCTACTTC
1 CTTGCAGCCTCTACTTC
*
209538 CTTGCAGCCTTTACTTC
1 CTTGCAGCCTCTACTTC
209555 CTTG
1 CTTG
209559 TGAACTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.11, C:0.37, G:0.13, T:0.39
Consensus pattern (17 bp):
CTTGCAGCCTCTACTTC
Found at i:211055 original size:24 final size:24
Alignment explanation
Indices: 211028--211080 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
211018 TATTTGTATA
211028 ATATTTGTAACTAAAATTAATATT
1 ATATTTGTAACTAAAATTAATATT
*
211052 ATATTTGTATCTAAAATTAATATT
1 ATATTTGTAACTAAAATTAATATT
211076 ATATT
1 ATATT
211081 ATAAAATACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (24 bp):
ATATTTGTAACTAAAATTAATATT
Found at i:211232 original size:22 final size:22
Alignment explanation
Indices: 211187--211232 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
211177 AACTTAATTA
*
211187 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAACTGAC
211209 ATTAATATTATACATAGA-TGAC
1 ATTAATATTATACATA-ACTGAC
211231 AT
1 AT
211233 AACTAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (22 bp):
ATTAATATTATACATAACTGAC
Found at i:211233 original size:31 final size:31
Alignment explanation
Indices: 211198--211377 Score: 167
Period size: 31 Copynumber: 5.9 Consensus size: 31
211188 TTAATATTAT
*
211198 ACATAACTTACATTAATATTATACATAGATG
1 ACATAACTTACATTAATATTATACATAAATG
* * *
211229 ACATAAC-TAAATT-A-ATTA-ATAT-TAT-
1 ACATAACTTACATTAATATTATACATAAATG
* *
211254 ACATAACTTACATTAATATTATACATAACTT
1 ACATAACTTACATTAATATTATACATAAATG
* * * *
211285 ACATAAATTA-ATTAGTTAATATACATAAATT
1 ACATAACTTACATTA-ATATTATACATAAATG
*
211316 ACATAACTTACATTAATATGATACATAAATG
1 ACATAACTTACATTAATATTATACATAAATG
*
211347 ACATAACTTAGTTAATTAATATTATACATAA
1 ACATAACTTA---CATTAATATTATACATAA
211378 CTTACAACTT
Statistics
Matches: 120, Mismatches: 18, Indels: 19
0.76 0.11 0.12
Matches are distributed among these distances:
25 7 0.06
26 7 0.06
27 4 0.03
28 8 0.07
29 4 0.03
30 10 0.08
31 60 0.50
32 4 0.03
34 16 0.13
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.37
Consensus pattern (31 bp):
ACATAACTTACATTAATATTATACATAAATG
Found at i:211235 original size:56 final size:55
Alignment explanation
Indices: 211172--211383 Score: 289
Period size: 56 Copynumber: 3.7 Consensus size: 55
211162 TATTGTAAGG
211172 GACATAACTTAATTAATTAATATTATACATAACTTACATTAATATTATACATAGAT
1 GACATAACTTAATTAATTAATATTATACATAACTTACATTAATATTATACATA-AT
*
211228 GACATAACTAAATTAATTAATATTATACATAACTTACATTAATATTATACATAACT
1 GACATAACTTAATTAATTAATATTATACATAACTTACATTAATATTATACATAA-T
* * * *
211284 TACATAAATTAATTAGTTAATATACATAAATTACATAACTTACATTAATATGATACATAAAT
1 GACATAACTTAATTAATTAATAT---T--A-TACATAACTTACATTAATATTATACAT-AAT
*
211346 GACATAACTTAGTTAATTAATATTATACATAACTTACA
1 GACATAACTTAATTAATTAATATTATACATAACTTACA
211384 ACTTACATAA
Statistics
Matches: 138, Mismatches: 10, Indels: 16
0.84 0.06 0.10
Matches are distributed among these distances:
55 1 0.01
56 85 0.62
57 1 0.01
59 2 0.01
61 1 0.01
62 46 0.33
63 2 0.01
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.38
Consensus pattern (55 bp):
GACATAACTTAATTAATTAATATTATACATAACTTACATTAATATTATACATAAT
Found at i:211271 original size:22 final size:22
Alignment explanation
Indices: 211243--211343 Score: 99
Period size: 22 Copynumber: 4.8 Consensus size: 22
211233 AACTAAATTA
211243 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAACTTAC
211265 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAACTTAC
**
211287 A-TAA-ATTAATTAGTTAA-TATAC
1 ATTAATATT-A-TACATAACT-TAC
211309 A-TAA-A-T-TACATAACTTAC
1 ATTAATATTATACATAACTTAC
*
211327 ATTAATATGATACATAA
1 ATTAATATTATACATAA
211344 ATGACATAAC
Statistics
Matches: 66, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
18 9 0.14
19 4 0.06
20 4 0.06
21 6 0.09
22 43 0.65
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.39
Consensus pattern (22 bp):
ATTAATATTATACATAACTTAC
Found at i:211289 original size:9 final size:9
Alignment explanation
Indices: 211275--211503 Score: 60
Period size: 9 Copynumber: 26.7 Consensus size: 9
211265 ATTAATATTA
211275 TACATAACT
1 TACATAACT
*
211284 TACATAAAT
1 TACATAACT
* *
211293 TA-ATTAGT
1 TACATAACT
211301 TA-AT-A-T
1 TACATAACT
*
211307 -ACATAAAT
1 TACATAACT
211315 TACATAACT
1 TACATAACT
*
211324 TACATTAATAT
1 TACA-TAA-CT
*
211335 GATACATAAAT
1 --TACATAACT
*
211346 GACATAACT
1 TACATAACT
**
211355 TAGTTAA-T
1 TACATAACT
*
211363 TA-AT-ATT
1 TACATAACT
211370 ATACATAACT
1 -TACATAACT
211380 TAC--AACT
1 TACATAACT
211387 TACATAACT
1 TACATAACT
**
211396 TACATATTTT
1 TACATA-ACT
*
211406 TA-ATTA-T
1 TACATAACT
* *
211413 T-CGTAAAT
1 TACATAACT
211421 TACATAACT
1 TACATAACT
* *
211430 TACTTAATT
1 TACATAACT
*
211439 TTCATAA--
1 TACATAACT
*
211446 TAAATAACT
1 TACATAACT
*
211455 TACATAAAT
1 TACATAACT
* *
211464 AAC-T-TCT
1 TACATAACT
211471 TACATAACT
1 TACATAACT
** *
211480 TATGTGACT
1 TACATAACT
211489 TACATAACT
1 TACATAACT
211498 TACATA
1 TACATA
211504 GCATAATTTT
Statistics
Matches: 159, Mismatches: 39, Indels: 44
0.66 0.16 0.18
Matches are distributed among these distances:
5 1 0.01
6 4 0.03
7 23 0.14
8 18 0.11
9 95 0.60
10 8 0.05
11 3 0.02
12 3 0.02
13 4 0.03
ACGTcount: A:0.44, C:0.14, G:0.03, T:0.39
Consensus pattern (9 bp):
TACATAACT
Found at i:211458 original size:34 final size:34
Alignment explanation
Indices: 211383--211461 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
211373 CATAACTTAC
* * ***
211383 AACTTACATAACTTACATATTTTTAATTATTCGT
1 AACTTACATAACTTACATAATTTTAATAATAAAT
* * *
211417 AAATTACATAACTTACTTAATTTTCATAATAAAT
1 AACTTACATAACTTACATAATTTTAATAATAAAT
211451 AACTTACATAA
1 AACTTACATAA
211462 ATAACTTCTT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.43, C:0.14, G:0.01, T:0.42
Consensus pattern (34 bp):
AACTTACATAACTTACATAATTTTAATAATAAAT
Found at i:211534 original size:25 final size:25
Alignment explanation
Indices: 211505--211560 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
211495 ACTTACATAG
*
211505 CATAATTTTCATAATACAC-AACTTA
1 CATAATTTGCATAATA-ACTAACTTA
**
211530 CATAATTTGGGTAATAACTAACTTA
1 CATAATTTGCATAATAACTAACTTA
211555 CATAAT
1 CATAAT
211561 ACATAACTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 2 0.07
25 25 0.93
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.36
Consensus pattern (25 bp):
CATAATTTGCATAATAACTAACTTA
Found at i:217073 original size:66 final size:65
Alignment explanation
Indices: 216979--217149 Score: 209
Period size: 66 Copynumber: 2.6 Consensus size: 65
216969 GAGCAAATTA
* * * * *
216979 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGATGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCA
217043 G
65 G
*
217044 CTACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
217109 G
65 G
* * * * *
217110 CAGCAGCTTAGAGCAGATGCGGCAGCAAGAGAAGCAGAGG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
217150 CGGCAGCGAG
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
65 2 0.02
66 86 0.93
67 4 0.04
ACGTcount: A:0.40, C:0.19, G:0.27, T:0.13
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAG
Found at i:217147 original size:21 final size:21
Alignment explanation
Indices: 217121--217232 Score: 80
Period size: 21 Copynumber: 5.3 Consensus size: 21
217111 AGCAGCTTAG
*
217121 AGCAGATGCGGCAGCAAGAGA
1 AGCAGAGGCGGCAGCAAGAGA
*
217142 AGCAGAGGCGGCAGCGAGAGA
1 AGCAGAGGCGGCAGCAAGAGA
* * * ** *
217163 AGAACAAGCTACAGCAAGGGA
1 AGCAGAGGCGGCAGCAAGAGA
*** * *
217184 AGCAGAGGCTAAAGCGAGGGA
1 AGCAGAGGCGGCAGCAAGAGA
* * *
217205 AGCAGAGGCTGCAGCGAGGGA
1 AGCAGAGGCGGCAGCAAGAGA
217226 AGCAGAG
1 AGCAGAG
217233 CAGCGTCAAA
Statistics
Matches: 75, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 75 1.00
ACGTcount: A:0.38, C:0.18, G:0.41, T:0.04
Consensus pattern (21 bp):
AGCAGAGGCGGCAGCAAGAGA
Found at i:217200 original size:42 final size:42
Alignment explanation
Indices: 217132--217232 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
217122 GCAGATGCGG
* **
217132 CAGCAAGAGAAGCAGAGGCGGCAGCGAGAGAAGAACAAGCTA
1 CAGCAAGGGAAGCAGAGGCGAAAGCGAGAGAAGAACAAGCTA
* * * * * *
217174 CAGCAAGGGAAGCAGAGGCTAAAGCGAGGGAAGCAGAGGCTG
1 CAGCAAGGGAAGCAGAGGCGAAAGCGAGAGAAGAACAAGCTA
*
217216 CAGCGAGGGAAGCAGAG
1 CAGCAAGGGAAGCAGAG
217233 CAGCGTCAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.39, C:0.18, G:0.41, T:0.03
Consensus pattern (42 bp):
CAGCAAGGGAAGCAGAGGCGAAAGCGAGAGAAGAACAAGCTA
Found at i:217586 original size:43 final size:42
Alignment explanation
Indices: 217538--217743 Score: 209
Period size: 43 Copynumber: 4.7 Consensus size: 42
217528 ATCTGCCAAA
217538 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATTAGGGTC
1 TTTAGCGGCGTTTTTGG-AAAAGCGCCGCTATAGATTAGGGTC
** * ** *
217581 TTTAGCGGCGTTTTTGCGCGAAGTGCCGCTATATAGACAAAGGGTA
1 TTTAGCGGCGTTTTTG-GAAAAGCGCCGC--TATAGA-TTAGGGTC
* *
217627 TTTAGCGGCATTTTTTGGATAAGCGCCGCTATAGATTAGGGTC
1 TTTAGCGGC-GTTTTTGGAAAAGCGCCGCTATAGATTAGGGTC
* *
217670 TATT-GCGGCGTTTTCTGGATAAGCGCCGCTATAGATCAGGGTC
1 T-TTAGCGGCGTTTT-TGGAAAAGCGCCGCTATAGATTAGGGTC
*
217713 TATT-GCGGCGTTTTGGGGAAAAGCGCCGCTA
1 T-TTAGCGGCGTTTT-TGGAAAAGCGCCGCTA
217744 AAGGCCATGA
Statistics
Matches: 138, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
42 4 0.03
43 90 0.65
44 9 0.07
45 6 0.04
46 23 0.17
47 6 0.04
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.31
Consensus pattern (42 bp):
TTTAGCGGCGTTTTTGGAAAAGCGCCGCTATAGATTAGGGTC
Found at i:217698 original size:89 final size:89
Alignment explanation
Indices: 217537--217743 Score: 241
Period size: 89 Copynumber: 2.4 Consensus size: 89
217527 AATCTGCCAA
*
217537 ATTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATTAGGGTCTTTAGCGGCGTTTTTGCGCGA
1 ATTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATTAGGGTCTTTAGCGGCGTTTTTGCGAGA
*
217602 AGTGCCGCTATATAGACAAAGGGT
66 AGCGCCGCTATATAGACAAAGGGT
* *
217626 ATTTAGCGGCATTTTTTGG-ATAAGCGCCGCTATAGATTAGGGTCTATT-GCGGCGTTTTCTG-G
1 ATTTAGCGGC-GTTTTTGGTAAAAGCGCCGCTATAGATTAGGGTCT-TTAGCGGCGTTTT-TGCG
*
217688 ATAAGCGCCGC--TATAGATC--AGGGT
63 AGAAGCGCCGCTATATAGA-CAAAGGGT
* * *
217712 CTATT-GCGGCGTTTTGGGGAAAAGCGCCGCTA
1 AT-TTAGCGGCGTTTTTGGTAAAAGCGCCGCTA
217744 AAGGCCATGA
Statistics
Matches: 103, Mismatches: 9, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
85 6 0.06
86 23 0.22
87 8 0.08
88 1 0.01
89 54 0.52
90 11 0.11
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.30
Consensus pattern (89 bp):
ATTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATTAGGGTCTTTAGCGGCGTTTTTGCGAGA
AGCGCCGCTATATAGACAAAGGGT
Found at i:217758 original size:43 final size:43
Alignment explanation
Indices: 217647--217764 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 43
217637 TTTTTTGGAT
* ** * * *
217647 AAGCGCCGCTATAGATTAGGGTCTATTGCGGCGTTTTCTGGAT
1 AAGCGCCGCTAAAGACCAGGATCTATTGCGGCGTTTTCGGGAA
* * * *
217690 AAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTTGGGGAA
1 AAGCGCCGCTAAAGACCAGGATCTATTGCGGCGTTTTCGGGAA
* * *
217733 AAGCGCCGCTAAAGGCCATGATCTATAGCGGC
1 AAGCGCCGCTAAAGACCAGGATCTATTGCGGC
217765 TCTTATATAA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.25
Consensus pattern (43 bp):
AAGCGCCGCTAAAGACCAGGATCTATTGCGGCGTTTTCGGGAA
Found at i:217783 original size:43 final size:42
Alignment explanation
Indices: 217731--217875 Score: 143
Period size: 43 Copynumber: 3.4 Consensus size: 42
217721 CGTTTTGGGG
* * *
217731 AAAAGCGCCGCTAAAGGCCATGATCTATAGCGGCTCTTATATA
1 AAAAACGCCGCTAAAGACCAT-ATCTATAGCGGCGCTTATATA
*
217774 AAAAACGCCGCTAAAGACCCTAATCTATAGCGGCGCTT-TCA-A
1 AAAAACGCCGCTAAAGACCAT-ATCTATAGCGGCGCTTAT-ATA
* * *
217816 CAAAAACGCCGCTAAATACACCA-ATCTATAGCGGCGGTTATATT
1 -AAAAACGCCGCT-AA-AGACCATATCTATAGCGGCGCTTATATA
*
217860 AAAAACGCTGCTAAAG
1 AAAAACGCCGCTAAAG
217876 CTCTTAGTCT
Statistics
Matches: 85, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
41 1 0.01
42 4 0.05
43 73 0.86
44 3 0.04
45 4 0.05
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.21
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCATATCTATAGCGGCGCTTATATA
Found at i:218013 original size:22 final size:22
Alignment explanation
Indices: 217985--218028 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
217975 TTGCGGCGCT
*
217985 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
218007 AAAAAGCGCCGCTAAAAGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
218029 TTTTGGTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.27, G:0.20, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:223296 original size:20 final size:20
Alignment explanation
Indices: 223271--223309 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
223261 CTTATCTTTA
223271 GTGGTAAGTTTAATGGTTTG
1 GTGGTAAGTTTAATGGTTTG
223291 GTGGTAAGTTTAATGGTTT
1 GTGGTAAGTTTAATGGTTT
223310 ATTGGGCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (20 bp):
GTGGTAAGTTTAATGGTTTG
Found at i:223354 original size:10 final size:10
Alignment explanation
Indices: 223325--223368 Score: 54
Period size: 10 Copynumber: 4.3 Consensus size: 10
223315 GCTTAAATCA
223325 TTTTTATAATT
1 TTTTTATAA-T
223336 TTATTTATAAT
1 TT-TTTATAAT
223347 TTTTTATAA-
1 TTTTTATAAT
*
223356 TTTTAATAAT
1 TTTTTATAAT
223366 TTT
1 TTT
223369 CTTTTTACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 8 0.27
10 10 0.33
11 5 0.17
12 7 0.23
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:227092 original size:19 final size:20
Alignment explanation
Indices: 227068--227107 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
227058 TTTATATTTA
227068 GAAAA-TAAATAATTTTTTT
1 GAAAATTAAATAATTTTTTT
227087 GAAAATTTAAATAATTTTTTT
1 GAAAA-TTAAATAATTTTTTT
227108 AGAATTATCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
21 14 0.74
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
GAAAATTAAATAATTTTTTT
Found at i:234356 original size:13 final size:14
Alignment explanation
Indices: 234338--234378 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
234328 TTTTCAAAGA
234338 TATGGTTTAGGA-T
1 TATGGTTTAGGACT
*
234351 TATGGTTTATGACT
1 TATGGTTTAGGACT
*
234365 TACGGTTTA-GACT
1 TATGGTTTAGGACT
234378 T
1 T
234379 TAGGGGTGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 16 0.64
14 9 0.36
ACGTcount: A:0.22, C:0.07, G:0.24, T:0.46
Consensus pattern (14 bp):
TATGGTTTAGGACT
Found at i:234478 original size:25 final size:26
Alignment explanation
Indices: 234435--234483 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
234425 TTGTTTGTGG
** *
234435 TTTACGGGTTTAATTTTTATGGTTAA
1 TTTACGGGTTTAAGATTTACGGTTAA
234461 TTTA-GGGTTTAAGATTTACGGTT
1 TTTACGGGTTTAAGATTTACGGTT
234484 CATGCGTACG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.22, C:0.04, G:0.22, T:0.51
Consensus pattern (26 bp):
TTTACGGGTTTAAGATTTACGGTTAA
Found at i:236904 original size:47 final size:47
Alignment explanation
Indices: 236835--236928 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
236825 TGCTTCGATT
*
236835 CCCCTTCCAAAAGATAATTTAGGGCTTGATTAATGCATATGGAGGTG
1 CCCCTTCCAAAAGATAATTTAGGACTTGATTAATGCATATGGAGGTG
* * * *
236882 CCCCTTCTAAAATATAATTTAGGATTTGATTAATGCATGTGGAGGTG
1 CCCCTTCCAAAAGATAATTTAGGACTTGATTAATGCATATGGAGGTG
236929 GTCTAGCGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (47 bp):
CCCCTTCCAAAAGATAATTTAGGACTTGATTAATGCATATGGAGGTG
Found at i:237434 original size:9 final size:9
Alignment explanation
Indices: 237420--237826 Score: 134
Period size: 9 Copynumber: 44.6 Consensus size: 9
237410 ATTAATATTA
*
237420 TACATAAAT
1 TACATAACT
237429 TACATAACT
1 TACATAACT
237438 TA-ATTAA-T
1 TACA-TAACT
*
237446 TA-AT-ATT
1 TACATAACT
237453 ATACATAACT
1 -TACATAACT
237463 TAC--AACT
1 TACATAACT
237470 TACATAACT
1 TACATAACT
*
237479 TACATTAATATT
1 TACA-T-A-ACT
*
237491 ATACATAAAT
1 -TACATAACT
237501 TACATAACT
1 TACATAACT
237510 TACATTAACATT
1 TACA-TAAC--T
*
237522 ATACATAAAT
1 -TACATAACT
237532 TACATAACT
1 TACATAACT
237541 TA-ATTAA-T
1 TACA-TAACT
*
237549 TA-AT-ATT
1 TACATAACT
237556 ATACATAACT
1 -TACATAACT
*
237566 TACCTAACT
1 TACATAACT
237575 TA-ATTAA-T
1 TACA-TAACT
*
237583 TA-AT-ATT
1 TACATAACT
237590 ATACATAACT
1 -TACATAACT
237600 TAC--AACT
1 TACATAACT
237607 TACATAACT
1 TACATAACT
237616 TACATTGATA-T
1 TACA-T-A-ACT
*
237627 TACACATAAAT
1 T--ACATAACT
237638 TACATAACT
1 TACATAACT
*
237647 TACATTAATATT
1 TACA-T-A-ACT
237659 ATACATAACT
1 -TACATAACT
*
237669 TACCTAACT
1 TACATAACT
237678 TA-ATTAA-T
1 TACA-TAACT
*
237686 TA-AT-ATT
1 TACATAACT
237693 ATACATAACT
1 -TACATAACT
237703 TAC--AACT
1 TACATAACT
237710 TACATAACT
1 TACATAACT
*
237719 TACATTAATAT
1 TACA-TAA-CT
*
237730 TACACATAAAT
1 T--ACATAACT
237741 TACATAACT
1 TACATAACT
*
237750 TACATTAATATT
1 TACA-T-A-ACT
237762 ATACATAGA-T
1 -TACATA-ACT
237772 TACATAACT
1 TACATAACT
*
237781 TA-ATTAATT
1 TACA-TAACT
* *
237790 TATATTA--
1 TACATAACT
237797 TACATAACT
1 TACATAACT
237806 TAC--AACT
1 TACATAACT
237813 TACATAACT
1 TACATAACT
237822 TACAT
1 TACAT
237827 TAATATTATA
Statistics
Matches: 314, Mismatches: 25, Indels: 118
0.69 0.05 0.26
Matches are distributed among these distances:
6 4 0.01
7 41 0.13
8 28 0.09
9 156 0.50
10 27 0.09
11 18 0.06
12 18 0.06
13 22 0.07
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (9 bp):
TACATAACT
Found at i:237504 original size:31 final size:31
Alignment explanation
Indices: 237469--237884 Score: 369
Period size: 31 Copynumber: 12.6 Consensus size: 31
237459 AACTTACAAC
237469 TTACATAACTTACATTAATATTATACATAAA
1 TTACATAACTTACATTAATATTATACATAAA
*
237500 TTACATAACTTACATTAACATTATACATAAA
1 TTACATAACTTACATTAATATTATACATAAA
* *
237531 TTACATAACTTAATTAATTAATATTATACATAAC
1 TTACATAACTT-A--CATTAATATTATACATAAA
* *
237565 TTACCTAACTTAATTAATTAATATTATACATAACTTACAA
1 TTACATAACTT-A--CATTAATATTATAC---A--TA-AA
* *
237605 CTTACATAACTTACATTGATATTACACATAAA
1 -TTACATAACTTACATTAATATTATACATAAA
*
237637 TTACATAACTTACATTAATATTATACATAAC
1 TTACATAACTTACATTAATATTATACATAAA
* *
237668 TTACCTAACTTAATTAATTAATATTATACATAACTTACAA
1 TTACATAACTT-A--CATTAATATTATAC---A--TA-AA
*
237708 CTTACATAACTTACATTAATATTACACATAAA
1 -TTACATAACTTACATTAATATTATACATAAA
*
237740 TTACATAACTTACATTAATATTATACATAGA
1 TTACATAACTTACATTAATATTATACATAAA
*
237771 TTACATAACTTA-ATTAAT-TTAT--AT-TA
1 TTACATAACTTACATTAATATTATACATAAA
*
237797 -TACATAACTTACAACTTACATAACT-TACATTAATA
1 TTACATAACTTAC-A-TTA-AT-ATTATACA-TAA-A
*
237832 TTATACATAAATTACATTAATATTATACATAAA
1 -T-TACATAACTTACATTAATATTATACATAAA
237865 TTACATAACTTACATTAATA
1 TTACATAACTTACATTAATA
237885 CGACATAACT
Statistics
Matches: 323, Mismatches: 27, Indels: 70
0.77 0.06 0.17
Matches are distributed among these distances:
25 11 0.03
26 1 0.00
27 3 0.01
28 3 0.01
29 6 0.02
30 7 0.02
31 139 0.43
32 8 0.02
33 6 0.02
34 62 0.19
35 9 0.03
36 3 0.01
37 3 0.01
38 34 0.11
39 4 0.01
40 4 0.01
41 20 0.06
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (31 bp):
TTACATAACTTACATTAATATTATACATAAA
Found at i:237654 original size:103 final size:105
Alignment explanation
Indices: 237408--237848 Score: 645
Period size: 103 Copynumber: 4.2 Consensus size: 105
237398 CGTAGAAGCC
*
237408 ACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACAACTTAC
1 ACATTAATATTATACATAAATTACATAACTTAA-TAATTAATATTATACATAACTTAC--CTAAC
*
237473 ATAACTTACATTAATATTATAC---A--TA-AA-TTACATAACTT
63 TTAA-TTA-ATTAATATTATACATAACTTACAACTTACATAACTT
*
237511 ACATTAACATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACCTAACTT
1 ACATTAATATTATACATAAATTACATAACTTAA-TAATTAATATTATACATAACTTACCTAACTT
237576 AATTAATTAATATTATACATAACTTACAACTTACATAACTT
65 AATTAATTAATATTATACATAACTTACAACTTACATAACTT
* * *
237617 ACATTGATATTACACATAAATTACATAACTT-A-CATTAATATTATACATAACTTACCTAACTTA
1 ACATTAATATTATACATAAATTACATAACTTAATAATTAATATTATACATAACTTACCTAACTTA
237680 ATTAATTAATATTATACATAACTTACAACTTACATAACTT
66 ATTAATTAATATTATACATAACTTACAACTTACATAACTT
* * *
237720 ACATTAATATTACACATAAATTACATAACTT-A-CATTAATATTATACATAGA-TTACATAACTT
1 ACATTAATATTATACATAAATTACATAACTTAATAATTAATATTATACATA-ACTTACCTAACTT
*
237782 AATTAATTTATATTATACATAACTTACAACTTACATAACTT
65 AATTAATTAATATTATACATAACTTACAACTTACATAACTT
237823 ACATTAATATTATACATAAATTACAT
1 ACATTAATATTATACATAAATTACAT
237849 TAATATTATA
Statistics
Matches: 319, Mismatches: 11, Indels: 16
0.92 0.03 0.05
Matches are distributed among these distances:
99 13 0.04
100 3 0.01
101 7 0.02
102 1 0.00
103 250 0.78
104 3 0.01
105 3 0.01
106 39 0.12
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (105 bp):
ACATTAATATTATACATAAATTACATAACTTAATAATTAATATTATACATAACTTACCTAACTTA
ATTAATTAATATTATACATAACTTACAACTTACATAACTT
Found at i:237660 original size:137 final size:137
Alignment explanation
Indices: 237410--237846 Score: 584
Period size: 137 Copynumber: 3.2 Consensus size: 137
237400 TAGAAGCCAC
*
237410 ATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACAACTTACAT
1 ATTAATATTATACATAAATTACCTAACTTAATTAATTAATATTATACATAACTTACAACTTACAT
* *
237475 AACTTACATTAATATTATACATAAATTACATAACTTACATTAACATTATACATAAATTACATAAC
66 AACTTACATTAATATTATACATAAATTACATAACTTACATTAATATTATACATAACTTACATAAC
237540 TTAATTA
131 TTAATTA
*
237547 ATTAATATTATACATAACTTACCTAACTTAATTAATTAATATTATACATAACTTACAACTTACAT
1 ATTAATATTATACATAAATTACCTAACTTAATTAATTAATATTATACATAACTTACAACTTACAT
* * *
237612 AACTTACATTGATATTACACATAAATTACATAACTTACATTAATATTATACATAACTTACCTAAC
66 AACTTACATTAATATTATACATAAATTACATAACTTACATTAATATTATACATAACTTACATAAC
237677 TTAATTA
131 TTAATTA
* * * *
237684 ATTAATATTATACATAACTTA-C-AACTTACA-TAACTTACAT-TAATA-TTACACATA-AA-TT
1 ATTAATATTATACATAAATTACCTAACTTA-ATTAA-TTA-ATATTATACATA-ACTTACAACTT
*
237742 ACATAACTTACATTAATATTATACATAGATTACATAACTTA-ATTAATTTATATTATACATAACT
62 ACATAACTTACATTAATATTATACATAAATTACATAACTTACATT-A---ATATTATACATAACT
* *
237806 TACAACTTACATAACTTA
123 TAC-A-TAACTTAA-TTA
237824 CATTAATATTATACATAAATTAC
1 -ATTAATATTATACATAAATTAC
237847 ATTAATATTA
Statistics
Matches: 270, Mismatches: 17, Indels: 21
0.88 0.06 0.07
Matches are distributed among these distances:
133 3 0.01
134 41 0.15
135 13 0.05
136 13 0.05
137 171 0.63
139 6 0.02
140 3 0.01
141 20 0.07
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (137 bp):
ATTAATATTATACATAAATTACCTAACTTAATTAATTAATATTATACATAACTTACAACTTACAT
AACTTACATTAATATTATACATAAATTACATAACTTACATTAATATTATACATAACTTACATAAC
TTAATTA
Found at i:237725 original size:240 final size:243
Alignment explanation
Indices: 237408--237847 Score: 769
Period size: 240 Copynumber: 1.8 Consensus size: 243
237398 CGTAGAAGCC
237408 ACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACAACTTAC
1 ACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACAACTTAC
*
237473 ATAACTTACATTAATATTATACATAAATTACATAACTTACATTAACATTATACATAAATTACATA
66 ATAACTTACATTAATATTACACATAAATTACATAACTTACATTAACATTATACATAAATTACATA
* *
237538 ACTTAATTAATTAATATTATACATAACTTAC-CTAACTTAA-TTA-ATTAATATTATACATAACT
131 ACTTAATTAATTAATATTATACATAACTTACACTAACATAACTTACATTAATATTATACATAAAT
237600 TACAACTTACATAACTTACATTGATATTACACATAAATTACATAACTT
196 TACAACTTACATAACTTACATTGATATTACACATAAATTACATAACTT
* *
237648 ACATTAATATTATACATAACTTACCTAACTTAATTAATTAATATTATACATAACTTACAACTTAC
1 ACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACAACTTAC
* *
237713 ATAACTTACATTAATATTACACATAAATTACATAACTTACATTAATATTATACATAGATTACATA
66 ATAACTTACATTAATATTACACATAAATTACATAACTTACATTAACATTATACATAAATTACATA
* *
237778 ACTTAATTAATTTATATTATACATAACTTACAACTTACATAACTTACATTAATATTATACATAAA
131 ACTTAATTAATTAATATTATACATAACTTAC-ACTAACATAACTTACATTAATATTATACATAAA
237843 TTACA
195 TTACA
237848 TTAATATTAT
Statistics
Matches: 187, Mismatches: 9, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
240 155 0.83
242 7 0.04
243 3 0.02
244 22 0.12
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (243 bp):
ACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACAACTTAC
ATAACTTACATTAATATTACACATAAATTACATAACTTACATTAACATTATACATAAATTACATA
ACTTAATTAATTAATATTATACATAACTTACACTAACATAACTTACATTAATATTATACATAAAT
TACAACTTACATAACTTACATTGATATTACACATAAATTACATAACTT
Found at i:237839 original size:22 final size:22
Alignment explanation
Indices: 237813--237870 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
237803 ACTTACAACT
*
237813 TACATAACTTACATTAATATTA
1 TACATAAATTACATTAATATTA
237835 TACATAAATTACATTAATATTA
1 TACATAAATTACATTAATATTA
237857 TACATAAATTACAT
1 TACATAAATTACAT
237871 AACTTACATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (22 bp):
TACATAAATTACATTAATATTA
Found at i:243571 original size:21 final size:20
Alignment explanation
Indices: 243545--243594 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
243535 CTACAACTTA
* *
243545 AAGCAGATGCGGCAGCGAGAG
1 AAGCAGAGGCAGCAG-GAGAG
*
243566 AAGCAGAGGCAGCAGTAGAG
1 AAGCAGAGGCAGCAGGAGAG
*
243586 AAGCTGAGG
1 AAGCAGAGG
243595 TTTAACGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.36, C:0.16, G:0.42, T:0.06
Consensus pattern (20 bp):
AAGCAGAGGCAGCAGGAGAG
Found at i:243586 original size:86 final size:86
Alignment explanation
Indices: 243496--243661 Score: 264
Period size: 86 Copynumber: 1.9 Consensus size: 86
243486 GGCAACATCG
*
243496 AGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAGCTA-CAACTTAAAGCAGATGCGGCA
1 AGAGAAGCTGAGGTTCAACAAAAG-CATGAAGAACTCCAG-TAGCAACTTAAAGCAGATGCGGCA
243559 GCGAGAGAAGCAGAGGCAGCAGT
64 GCGAGAGAAGCAGAGGCAGCAGT
* * *
243582 AGAGAAGCTGAGGTTTAACGAAAGCATGAAGAACTCCAGTAGCAGCTTAAAGCAGATGCGGCAGC
1 AGAGAAGCTGAGGTTCAACAAAAGCATGAAGAACTCCAGTAGCAACTTAAAGCAGATGCGGCAGC
243647 GAGAGAAGCAGAGGC
66 GAGAGAAGCAGAGGC
243662 TAAAGCGAGT
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
85 2 0.03
86 68 0.92
87 4 0.05
ACGTcount: A:0.39, C:0.17, G:0.31, T:0.13
Consensus pattern (86 bp):
AGAGAAGCTGAGGTTCAACAAAAGCATGAAGAACTCCAGTAGCAACTTAAAGCAGATGCGGCAGC
GAGAGAAGCAGAGGCAGCAGT
Found at i:243668 original size:21 final size:21
Alignment explanation
Indices: 243644--243683 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
243634 CAGATGCGGC
243644 AGCGAG-AGAAGCAGAGGCTAA
1 AGCGAGTA-AAGCAGAGGCTAA
*
243665 AGCGAGTAAAGTAGAGGCT
1 AGCGAGTAAAGCAGAGGCT
243684 GCGGCGAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.40, C:0.12, G:0.38, T:0.10
Consensus pattern (21 bp):
AGCGAGTAAAGCAGAGGCTAA
Found at i:244075 original size:43 final size:43
Alignment explanation
Indices: 244004--244605 Score: 714
Period size: 43 Copynumber: 14.1 Consensus size: 43
243994 CAAAATTAGC
* *
244004 GGCGTTTTTTGCATAAGCGCCACTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGCCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * * *
244047 GGCATTTTTTTCCTAAGCGCCGCGAAAGACAATGGTCTATAGT
1 GGCGTTTTTTGCCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* *
244090 GGCGTTTTTCGCCTAAGCGCCGCGAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGCCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* *
244133 GACGTTTTTCGCCTAAGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGCCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * * **
244176 GGCG-TTTTTG-GTCAGTGCCGCTAAAGACCACAGTCTATAGT
1 GGCGTTTTTTGCCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * * * *
244217 GGCGTTTTTTTCCTAAGCGCCGCGAAAAACCATGGTTTATATT
1 GGCGTTTTTTGCCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* *
244260 GGCGTTTTTCGCCTAAGCGCCGCGAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGCCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* *
244303 GGCGTTTTTCGCCTAAGCGCCACTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGCCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* ** *
244346 GGCGTTTGTTGGTTAAGCGCCGCTAAAGACCATGGTCTGTAGT
1 GGCGTTTTTTGCCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* ** *
244389 GGCGTTTGTTGGTTAAGCGCCGCTAAAGACCATGGTCTGTAGT
1 GGCGTTTTTTGCCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* ** *
244432 GGCGTTTGTTGGTTAAGCACCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGCCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * * * *
244475 GGCATTTTTTG-GTAAGCGTCGCTAAAGACCACGATCTATAGT
1 GGCGTTTTTTGCCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
244517 GGCGTTTTTT--TTAAGCGCCGCTAAAGATCACGGTCTATAGT
1 GGCGTTTTTTGCCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * * *
244558 GGTGTTTTTAT--TTAAGCGCCGCTAAAGAACATGGTCTATAGC
1 GGCGTTTTT-TGCCTAAGCGCCGCTAAAGACCATGGTCTATAGT
244600 GGCGTT
1 GGCGTT
244606 GTAAAAAAAA
Statistics
Matches: 495, Mismatches: 61, Indels: 7
0.88 0.11 0.01
Matches are distributed among these distances:
41 65 0.13
42 79 0.16
43 351 0.71
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (43 bp):
GGCGTTTTTTGCCTAAGCGCCGCTAAAGACCATGGTCTATAGT
Found at i:244881 original size:42 final size:42
Alignment explanation
Indices: 244818--244960 Score: 169
Period size: 42 Copynumber: 3.4 Consensus size: 42
244808 AGCTAATATT
* *
244818 AGAAAAGACAGACTGAAGCTGGAGAAGGATGGAGCTGACTTAAA
1 AGAAAAGA-A-ACTGAAGCTGGAGAAGGACGAAGCTGACTTAAA
* **
244862 AGAGAAGAAACTGAAGCTGGATCAGGACGAAGCTGACTTAAA
1 AGAAAAGAAACTGAAGCTGGAGAAGGACGAAGCTGACTTAAA
** **
244904 AGAAAAGAAACTGAAGCTGGATCAGGACGAAGCTGGGTTAAA
1 AGAAAAGAAACTGAAGCTGGAGAAGGACGAAGCTGACTTAAA
**
244946 AGAAAACCAACTGAA
1 AGAAAAGAAACTGAA
244961 TCTAGCCAGT
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 81 0.91
43 1 0.01
44 7 0.08
ACGTcount: A:0.45, C:0.13, G:0.29, T:0.13
Consensus pattern (42 bp):
AGAAAAGAAACTGAAGCTGGAGAAGGACGAAGCTGACTTAAA
Found at i:245147 original size:74 final size:75
Alignment explanation
Indices: 245016--245206 Score: 312
Period size: 74 Copynumber: 2.5 Consensus size: 75
245006 TTTGAAATAC
* *
245016 AATCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACTGCCAGTATGCATTTGTGTGATGG
1 AATCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACTGACAATATGCATTTGTGTGATGG
245081 -TTGTGTTTG
66 TTTGTGTTTG
* **
245090 AATGTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACTGACAATATGTGTTTGTGTGATGG
1 AATCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACTGACAATATGCATTTGTGTGATGG
245155 TTTTGTGTTTG
66 -TTTGTGTTTG
*
245166 AATCCCAATGGTTTATTGGGATGTTTATGAACTGAAGATAC
1 AATCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATAC
245207 AGACTGTGTT
Statistics
Matches: 108, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
74 60 0.56
76 48 0.44
ACGTcount: A:0.25, C:0.08, G:0.26, T:0.40
Consensus pattern (75 bp):
AATCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACTGACAATATGCATTTGTGTGATGG
TTTGTGTTTG
Found at i:245975 original size:21 final size:20
Alignment explanation
Indices: 245945--245985 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
245935 CCCATATAAT
*
245945 TATTTTTTTAAAATTATTTA
1 TATTTTTTTAAAACTATTTA
*
245965 TATTATTTTTAATACTATTTA
1 TATT-TTTTTAAAACTATTTA
245986 ATAATTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TATTTTTTTAAAACTATTTA
Found at i:246918 original size:29 final size:29
Alignment explanation
Indices: 246886--246974 Score: 75
Period size: 29 Copynumber: 3.3 Consensus size: 29
246876 CCTTCCAAAA
246886 TTCTCTCAAATCCATATTTAATTTCAATT
1 TTCTCTCAAATCCATATTTAATTTCAATT
** * **
246915 TTCTCT----T--A-ATTTCCTTCCAAAA
1 TTCTCTCAAATCCATATTTAATTTCAATT
246937 TTCTCTCAAATCCATATTTAATTTCAATT
1 TTCTCTCAAATCCATATTTAATTTCAATT
*
246966 TGCTCTCAA
1 TTCTCTCAA
246975 TTTCCTTTTT
Statistics
Matches: 42, Mismatches: 11, Indels: 14
0.63 0.16 0.21
Matches are distributed among these distances:
22 15 0.36
23 1 0.02
25 1 0.02
26 1 0.02
28 1 0.02
29 23 0.55
ACGTcount: A:0.29, C:0.24, G:0.01, T:0.46
Consensus pattern (29 bp):
TTCTCTCAAATCCATATTTAATTTCAATT
Found at i:246947 original size:51 final size:51
Alignment explanation
Indices: 246861--246981 Score: 215
Period size: 51 Copynumber: 2.4 Consensus size: 51
246851 GCTCTCTCGT
246861 ATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCA
1 ATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCA
* *
246912 ATTTTCTCTTAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCA
1 ATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCA
*
246963 ATTTGCTCTCAATTTCCTT
1 ATTTCCTCTCAATTTCCTT
246982 TTTAAAAATA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.27, C:0.26, G:0.01, T:0.46
Consensus pattern (51 bp):
ATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCA
Found at i:248779 original size:18 final size:18
Alignment explanation
Indices: 248756--248790 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
248746 CGTTTCCTAG
248756 CCCTTATATGTACCCTTA
1 CCCTTATATGTACCCTTA
*
248774 CCCTTATATGTATCCTT
1 CCCTTATATGTACCCTT
248791 TTCCGAGTCC
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:0.20, C:0.31, G:0.06, T:0.43
Consensus pattern (18 bp):
CCCTTATATGTACCCTTA
Found at i:249245 original size:25 final size:25
Alignment explanation
Indices: 249217--249264 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
249207 TATTTTGATA
249217 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
249242 TTATTTGATGTAATAAAATAGAA
1 TTATTTGATGTAATAAAATAGAA
249265 ATTTTTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.40
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:249393 original size:44 final size:44
Alignment explanation
Indices: 249316--250071 Score: 872
Period size: 44 Copynumber: 17.1 Consensus size: 44
249306 ATTAATACCC
*
249316 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAA-C-AATTAAATTAAAAACCCTAACCTAA
*
249362 TTAAATTAAAAACACTAACAATTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACAATTAAATTAAAAACCCTAACCTAA
* ** *
249406 TTAAATTCAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACAATTAAATTAAAAACCCTAACCTAA
* * **
249450 TTAAATTAAGAACCCTAACTTAATTAAATTAAAAATCCTAACC-CG
1 TTAAATTAAAAACCCTAAC--AATTAAATTAAAAACCCTAACCTAA
* * ** ** *
249495 TT-ACTTAAAAACTCTAACCCTTAGCTTAAAAACCCTAACC--C
1 TTAAATTAAAAACCCTAACAATTAAATTAAAAACCCTAACCTAA
** *
249536 TTAACGTAAAAACCCTAACCTAATTAAATTAAGAACCCTAACCTAA
1 TTAAATTAAAAACCCTAA-C-AATTAAATTAAAAACCCTAACCTAA
*
249582 TTAAATTAAAAACCCTAACAATTAAATTAAAAACCCTAACATAA
1 TTAAATTAAAAACCCTAACAATTAAATTAAAAACCCTAACCTAA
* * *
249626 TTAAATTAAAAACTCTAACCTAATTAAATTAAAAATCCTAACC--C
1 TTAAATTAAAAACCCTAA-C-AATTAAATTAAAAACCCTAACCTAA
**
249670 TTAGCTTAAAAACCCTAACAATTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACAATTAAATTAAAAACCCTAACCTAA
* ** *
249714 TTAAATTTAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACAATTAAATTAAAAACCCTAACCTAA
* *
249758 TTAAATTAAAAACCTTAACAATTAAATTAAAAACCCTAACC--C
1 TTAAATTAAAAACCCTAACAATTAAATTAAAAACCCTAACCTAA
* *
249800 TTAACTTAAAAACCCTAACCTAATGAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAA-C-AATTAAATTAAAAACCCTAACCTAA
** *
249846 TTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACAATTAAATTAAAAACCCTAACCTAA
*
249890 TTAAATTAAAACCCCTAACCTAATTAAATTAAAAACCCTAA-C-AA
1 TTAAATTAAAAACCCTAA-C-AATTAAATTAAAAACCCTAACCTAA
249934 TTAAATTAAAAACCCTAACAATTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACAATTAAATTAAAAACCCTAACCTAA
** * *
249978 TTAAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACC--C
1 TTAAATTAAAAACCCT-AACAATTAAATTAAAAACCCTAACCTAA
* *
250021 TTAACTTAAAAACCCTAAACTAAGTT-AATTAAAAACCCTAAACTAA
1 TTAAATTAAAAACCCT-AAC-AA-TTAAATTAAAAACCCTAACCTAA
250067 GTTAA
1 -TTAA
250072 TAATTTTACT
Statistics
Matches: 604, Mismatches: 81, Indels: 49
0.82 0.11 0.07
Matches are distributed among these distances:
41 2 0.00
42 87 0.14
43 24 0.04
44 351 0.58
45 32 0.05
46 104 0.17
47 4 0.01
ACGTcount: A:0.50, C:0.23, G:0.01, T:0.26
Consensus pattern (44 bp):
TTAAATTAAAAACCCTAACAATTAAATTAAAAACCCTAACCTAA
Found at i:249424 original size:67 final size:67
Alignment explanation
Indices: 249316--250061 Score: 932
Period size: 67 Copynumber: 11.3 Consensus size: 67
249306 ATTAATACCC
* * *
249316 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACACTAA-
1 TTAAATTAAAAACCCTAACC--ATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAC
249380 C-AA
64 CTAA
* * * *
249383 TTAAATTAAAAACCCTAACCTAATTAAATTCAAAACCCTAACC--CTTAACTTAAAAACCCTAAC
1 TTAAATTAAAAACCCTAACC--ATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAC
249446 CTAA
64 CTAA
* * * * ** * *
249450 TTAAATTAAGAACCCTAACTTAATTAAATTAAAAATCCTAACC-CGTT-ACTTAAAAACTCTAAC
1 TTAAATTAAAAACCCTAAC--CATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAC
*
249513 C--C
64 CTAA
** * * *
249515 TTAGCTTAAAAACCCTAACCCTTAACGTAAAAACCCTAACCTAATTAAATTAAGAACCCTAACCT
1 TTAAATTAAAAACCCTAACCATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCT
249580 AA
66 AA
* * * *
249582 TTAAATTAAAAACCCTAACAATTAAATTAAAAACCCTAACATAATTAAATTAAAAACTCTAACCT
1 TTAAATTAAAAACCCTAACCATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCT
249647 AA
66 AA
* * *
249649 TTAAATTAAAAATCCTAACCCTTAGCTTAAAAACCCTAA-C-AATTAAATTAAAAACCCTAACCT
1 TTAAATTAAAAACCCTAACCATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCT
249712 AA
66 AA
* * *
249714 TTAAATTTAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCTTAA-C-
1 TTAAATTAAAAACCCTAACCATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCT
249777 AA
66 AA
* *
249779 TTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAATGAAATTAAAAACCCTAACCT
1 TTAAATTAAAAACCCTAACCATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCT
249844 AA
66 AA
* *
249846 TTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAACCCCTAACCT
1 TTAAATTAAAAACCCTAACCATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCT
249911 AA
66 AA
* *
249913 TTAAATTAAAAACCCTAACAATTAAATTAAAAACCCTAA-C-AATTAAATTAAAAACCCTAACCT
1 TTAAATTAAAAACCCTAACCATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCT
249976 AA
66 AA
* * * *
249978 TTAAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACC--CTTAACTTAAAAACCCTAAAC
1 TTAAATTAAAAACCCT-AACCATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC
250041 TAA
65 TAA
250044 GTT-AATTAAAAACCCTAA
1 -TTAAATTAAAAACCCTAA
250062 ACTAAGTTAA
Statistics
Matches: 602, Mismatches: 61, Indels: 34
0.86 0.09 0.05
Matches are distributed among these distances:
63 17 0.03
64 2 0.00
65 209 0.35
66 59 0.10
67 313 0.52
68 2 0.00
ACGTcount: A:0.50, C:0.24, G:0.01, T:0.26
Consensus pattern (67 bp):
TTAAATTAAAAACCCTAACCATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCT
AA
Done.