Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 109 of 199
Found at i:30860321 original size:17 final size:17
Alignment explanation
Indices: 30860299--30860332 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
30860289 GACTAATCCC
*
30860299 TATACATCACTTAGGTA
1 TATACATCACCTAGGTA
*
30860316 TATACATTACCTAGGTA
1 TATACATCACCTAGGTA
30860333 CATGCCACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (17 bp):
TATACATCACCTAGGTA
Found at i:30861073 original size:26 final size:24
Alignment explanation
Indices: 30860993--30861074 Score: 125
Period size: 24 Copynumber: 3.5 Consensus size: 24
30860983 ATACGGAACA
* *
30860993 AATA-CAGAGAGCACAAATGTGCT
1 AATATCAGAGAGCACCAACGTGCT
30861016 AA-A-CAGAGAGCACCAACGTGCT
1 AATATCAGAGAGCACCAACGTGCT
30861038 AATATCAGAGAGCACCAACGTGCT
1 AATATCAGAGAGCACCAACGTGCT
30861062 AATATCAGAGAGC
1 AATATCAGAGAGC
30861075 GCACTAAAGT
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
22 20 0.36
23 3 0.05
24 32 0.58
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.15
Consensus pattern (24 bp):
AATATCAGAGAGCACCAACGTGCT
Found at i:30862223 original size:5 final size:5
Alignment explanation
Indices: 30862210--30862281 Score: 62
Period size: 5 Copynumber: 14.4 Consensus size: 5
30862200 TTGTTTTATG
30862210 TATATA TATAA TATAA TATAA TAT-A T-TAA TAATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
30862258 CATAA TCATTAC TATAA TATAA TA
1 TATAA T-A-TAA TATAA TATAA TA
30862282 ATATTTTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 34 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:30862235 original size:19 final size:19
Alignment explanation
Indices: 30862211--30862253 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
30862201 TGTTTTATGT
30862211 ATATATATAAT-ATAATATA
1 ATATAT-TAATAATAATATA
30862230 ATATATTAATAATAATATA
1 ATATATTAATAATAATATA
30862249 ATATA
1 ATATA
30862254 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATTAATAATAATATA
Found at i:30862263 original size:24 final size:25
Alignment explanation
Indices: 30862217--30862282 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 25
30862207 ATGTATATAT
* *
30862217 ATAATATAATATAATATATTAAT-A
1 ATAATATAATATAATAAAATAATCA
30862241 ATAATATAATATAA-AAACATAATCA
1 ATAATATAATATAATAAA-ATAATCA
* *
30862266 TTACTATAATATAATAA
1 ATAATATAATATAATAA
30862283 TATTTTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
23 2 0.06
24 18 0.51
25 13 0.37
26 2 0.06
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (25 bp):
ATAATATAATATAATAAAATAATCA
Found at i:30866286 original size:23 final size:24
Alignment explanation
Indices: 30866259--30866306 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
30866249 TGTGCTTATT
*
30866259 TTGAATG-TTCATGAGTTTGGACC
1 TTGAATGATACATGAGTTTGGACC
* *
30866282 TTGAATGATACTTGATTTTGGACC
1 TTGAATGATACATGAGTTTGGACC
30866306 T
1 T
30866307 GAAACAATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.42
Consensus pattern (24 bp):
TTGAATGATACATGAGTTTGGACC
Found at i:30868291 original size:54 final size:53
Alignment explanation
Indices: 30868230--30868413 Score: 186
Period size: 45 Copynumber: 3.8 Consensus size: 53
30868220 TACCGAGTAT
* *
30868230 CATTGATTGTAACA-GTGGTTGCTATGTGCTGATTCCACCGGGTAAATTGGGTAC
1 CATTGATTATAA-AGGTGGTTGCTATGTGCTGATTCCACCGGGT-AATCGGGTAC
*
30868284 CATTGATTATAAAGGTGGTTGCTATGTGTTGATT---CC-----ATCGGGTAC
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAATCGGGTAC
30868329 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCA-C-------CGGGTAC
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAATCGGGTAC
* *
30868374 CATTGATTTTAAAGGTGGTTGCTATGTGTTGATTCCACCG
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCG
30868414 AGTATCATTG
Statistics
Matches: 118, Mismatches: 6, Indels: 19
0.83 0.04 0.13
Matches are distributed among these distances:
45 83 0.70
46 1 0.01
47 1 0.01
51 2 0.02
53 1 0.01
54 30 0.25
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.36
Consensus pattern (53 bp):
CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAATCGGGTAC
Found at i:30868342 original size:45 final size:45
Alignment explanation
Indices: 30868278--30868456 Score: 263
Period size: 45 Copynumber: 4.0 Consensus size: 45
30868268 CGGGTAAATT
* *
30868278 GGGTACCATTGATTATAAAGGTGGTTGCTATGTGTTGATTCCATC
1 GGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
30868323 GGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
1 GGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
* *
30868368 GGGTACCATTGATTTTAAAGGTGGTTGCTATGTGTTGATTCCACC
1 GGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
* * * * *
30868413 GAGTATCATTGACTATAAGGGTGG-TGCTGTGTGCTGA-TCCACC
1 GGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
30868456 G
1 G
30868457 TGTATTTGTT
Statistics
Matches: 123, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
43 7 0.06
44 11 0.09
45 105 0.85
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.35
Consensus pattern (45 bp):
GGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
Found at i:30868645 original size:16 final size:16
Alignment explanation
Indices: 30868624--30868655 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30868614 TGATTAAGAG
30868624 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
*
30868640 TGAAAAAGTAGAATTA
1 TGAAAAAGTAAAATTA
30868656 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:30877734 original size:68 final size:68
Alignment explanation
Indices: 30877657--30877877 Score: 343
Period size: 68 Copynumber: 3.2 Consensus size: 68
30877647 CTGTGAAATC
* * * **
30877657 AACAGATTCGGATAGCTACATTTATTAAATAAAACAGCATAAATGGCAGTGCATTGAACAGTGAA
1 AACACATTCGGACAGCTACATTTACTAAATAAAACAGCATAAATGATAGTGCATTGAACAGTGAA
30877722 TTT
66 TTT
*
30877725 AACACATTCGGACAGCTACATTTACTAAATGAAACAGCATAAATGATAGTGCATTGAACAGTGAA
1 AACACATTCGGACAGCTACATTTACTAAATAAAACAGCATAAATGATAGTGCATTGAACAGTGAA
30877790 TTT
66 TTT
* * * *
30877793 AACACATTCGGACTGCTACATTTACTAAATAAAACAGCATAAATGATGGTGCTTTGATCAGTGAA
1 AACACATTCGGACAGCTACATTTACTAAATAAAACAGCATAAATGATAGTGCATTGAACAGTGAA
*
30877858 TCT
66 TTT
30877861 AACACATTCGGACAGCT
1 AACACATTCGGACAGCT
30877878 TAATTTTAAG
Statistics
Matches: 140, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 140 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (68 bp):
AACACATTCGGACAGCTACATTTACTAAATAAAACAGCATAAATGATAGTGCATTGAACAGTGAA
TTT
Found at i:30880794 original size:19 final size:18
Alignment explanation
Indices: 30880772--30880807 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
30880762 AAAATTTATA
30880772 AAAAATACTAAACAAATTC
1 AAAAATACTAAA-AAATTC
*
30880791 AAAAATATTAAAAAATT
1 AAAAATACTAAAAAATT
30880808 AATAAAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (18 bp):
AAAAATACTAAAAAATTC
Found at i:30880814 original size:19 final size:19
Alignment explanation
Indices: 30880750--30880814 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
30880740 TATATATTTG
*
30880750 TAAAATATTATTAAAATTTATA
1 TAAAATATTA--AAAAATTA-A
* * *
30880772 AAAAATACTAAACAAATTCA
1 TAAAATATTAAA-AAATTAA
30880792 -AAAATATTAAAAAATTAA
1 TAAAATATTAAAAAATTAA
30880810 TAAAA
1 TAAAA
30880815 ATCATTTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
18 6 0.17
19 14 0.40
20 3 0.09
21 4 0.11
22 8 0.23
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAATATTAAAAAATTAA
Found at i:30880825 original size:21 final size:21
Alignment explanation
Indices: 30880791--30880839 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
30880781 AAACAAATTC
30880791 AAAAATATTAAAAAATTAA-T
1 AAAAATATTAAAAAATTAAGT
* *
30880811 AAAAATCATTTAAAATTTAAGT
1 AAAAAT-ATTAAAAAATTAAGT
30880833 ACAAAAT
1 A-AAAAT
30880840 GAATTTGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 6 0.25
21 11 0.46
22 2 0.08
23 5 0.21
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAAATATTAAAAAATTAAGT
Found at i:30881569 original size:33 final size:34
Alignment explanation
Indices: 30881532--30881599 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
30881522 AACAATTTTC
** * *
30881532 TAAATTATTTTTCTA-AAATTTTATGGTTTTTAA
1 TAAATTATTTTTAAATAAATTTTACGATTTTTAA
30881565 TAAATTATTTTTAAATAAATTTTACGATTTTTAA
1 TAAATTATTTTTAAATAAATTTTACGATTTTTAA
30881599 T
1 T
30881600 TCATTTATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 13 0.43
34 17 0.57
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (34 bp):
TAAATTATTTTTAAATAAATTTTACGATTTTTAA
Found at i:30881625 original size:29 final size:29
Alignment explanation
Indices: 30881593--30881654 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
30881583 ATTTTACGAT
30881593 TTTTAATTC-ATTTATAAT-AATTATTATAA
1 TTTTAA-TCAATTT-TAATGAATTATTATAA
* *
30881622 TTTTAATCAATTTTAATGACTTTTTATAA
1 TTTTAATCAATTTTAATGAATTATTATAA
30881651 TTTT
1 TTTT
30881655 TATAAACTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 6 0.21
29 23 0.79
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (29 bp):
TTTTAATCAATTTTAATGAATTATTATAA
Found at i:30881663 original size:20 final size:20
Alignment explanation
Indices: 30881640--30881679 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
30881630 AATTTTAATG
30881640 ACTTTT-TATAATTTTTATAA
1 ACTTTTCTAT-ATTTTTATAA
*
30881660 ACTTTTCTATGTTTTTATAA
1 ACTTTTCTATATTTTTATAA
30881680 TTCTAAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (20 bp):
ACTTTTCTATATTTTTATAA
Found at i:30905192 original size:5 final size:5
Alignment explanation
Indices: 30905182--30905256 Score: 105
Period size: 5 Copynumber: 14.2 Consensus size: 5
30905172 AATTATGTTT
*
30905182 TTATA TTATA TTATTA TTATTA ATATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTA-TA TTA-TA TTATA TTATA TTATA TTATA TTATA TTATA
30905234 TTATA TTATTA TTATA TATATA T
1 TTATA TTA-TA TTATA T-TATA T
30905257 GACAAAGAAA
Statistics
Matches: 65, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
5 45 0.69
6 20 0.31
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:30905198 original size:3 final size:3
Alignment explanation
Indices: 30905185--30905248 Score: 63
Period size: 3 Copynumber: 24.0 Consensus size: 3
30905175 TATGTTTTTA
*
30905185 TAT TA- TAT TAT TAT TAT TAA TA- TAT TA- TAT TA- TAT TA- TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
30905227 TAT TA- TAT TA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT
30905249 ATATATATGA
Statistics
Matches: 52, Mismatches: 1, Indels: 16
0.75 0.01 0.23
Matches are distributed among these distances:
2 16 0.31
3 36 0.69
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:30905330 original size:39 final size:39
Alignment explanation
Indices: 30905265--30905379 Score: 137
Period size: 39 Copynumber: 2.9 Consensus size: 39
30905255 ATGACAAAGA
30905265 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACA-AGAGCAAAACAAAACAGAGAAGG
* *
30905306 GAGAAAGAAAGAAACAAGAGCAAAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAAGAGCAAAACAAAACAGAGAAGG
* * *
30905345 AAGGAAGGAAAGAAA-AAAAG-AAAAGAAAA-AGAGAA
1 AA-GAAAGAAAGAAACAAGAGCAAAACAAAACAGAGAA
30905380 ATTTGGGGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
37 6 0.09
38 7 0.11
39 27 0.41
40 20 0.30
41 6 0.09
ACGTcount: A:0.67, C:0.07, G:0.26, T:0.00
Consensus pattern (39 bp):
AAGAAAGAAAGAAACAAGAGCAAAACAAAACAGAGAAGG
Found at i:30918199 original size:11 final size:11
Alignment explanation
Indices: 30918183--30918226 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
30918173 TAATTATCCT
*
30918183 TCATTATACTA
1 TCATTATACCA
30918194 TCATTATACCA
1 TCATTATACCA
30918205 TCATTATACC-
1 TCATTATACCA
*
30918215 TAATTAT-CCA
1 TCATTATACCA
30918225 TC
1 TC
30918227 TCTAATTACA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 2 0.07
10 7 0.24
11 20 0.69
ACGTcount: A:0.34, C:0.25, G:0.00, T:0.41
Consensus pattern (11 bp):
TCATTATACCA
Found at i:30919736 original size:29 final size:29
Alignment explanation
Indices: 30919704--30919777 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
30919694 ATTTTTTTTT
30919704 TATTTTTTAATTTTAAAATACTTTTAAAA
1 TATTTTTTAATTTTAAAATACTTTTAAAA
* *** *
30919733 TATTTTTTTATTTT-TTTTATTTTTAAAA
1 TATTTTTTAATTTTAAAATACTTTTAAAA
30919761 TAATTTTTTAATGTTTA
1 T-ATTTTTTAAT-TTTA
30919778 TTAAAAAATG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
28 11 0.31
29 22 0.61
30 3 0.08
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (29 bp):
TATTTTTTAATTTTAAAATACTTTTAAAA
Found at i:30919750 original size:39 final size:40
Alignment explanation
Indices: 30919692--30919767 Score: 118
Period size: 39 Copynumber: 1.9 Consensus size: 40
30919682 TAATAAATAT
* *
30919692 ATATTTTTTTTTTATTTTTTAATTTTAAAATACTTTTAAA
1 ATATTTTTTTATTATTTTTTAATTTTAAAATAATTTTAAA
*
30919732 ATATTTTTTTATT-TTTTTTATTTTTAAAATAATTTT
1 ATATTTTTTTATTATTTTTTAATTTTAAAATAATTTT
30919768 TTAATGTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 21 0.64
40 12 0.36
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.68
Consensus pattern (40 bp):
ATATTTTTTTATTATTTTTTAATTTTAAAATAATTTTAAA
Found at i:30919882 original size:10 final size:10
Alignment explanation
Indices: 30919867--30919896 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
30919857 GGCCCATATT
30919867 TCGGGCCGGG
1 TCGGGCCGGG
30919877 TCGGGCCGGG
1 TCGGGCCGGG
30919887 TCGGGCCGGG
1 TCGGGCCGGG
30919897 CCCGGGCCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.00, C:0.30, G:0.60, T:0.10
Consensus pattern (10 bp):
TCGGGCCGGG
Found at i:30920242 original size:23 final size:23
Alignment explanation
Indices: 30920207--30920653 Score: 260
Period size: 23 Copynumber: 19.2 Consensus size: 23
30920197 TATATATACC
*
30920207 AATTTGGATAGCACTTATACACAA
1 AATTT-GACAGCACTTATACACAA
*
30920231 AATTTGACAGCA-TGTATATACAA
1 AATTTGACAGCACT-TATACACAA
* * *
30920254 AATTGGACAGCATTTATTCACCAA
1 AATTTGACAGCACTTATACA-CAA
* * * *
30920278 AATTAGGCAGCA-TATATATAC-C
1 AATTTGACAGCACT-TATACACAA
*
30920300 GATTTGGACAGCACTTATACACAA
1 AATTT-GACAGCACTTATACACAA
*
30920324 AATTTGACAGCA-TGTATATACAA
1 AATTTGACAGCACT-TATACACAA
* * *
30920347 AATTGGACAGCATTTATTCACCAA
1 AATTTGACAGCACTTATACA-CAA
* * *
30920371 AATTGGGCAGCATACATATAC-C--
1 AATTTGACAGC--ACTTATACACAA
*
30920393 AATTTGGACAACACTTATACACAA
1 AATTT-GACAGCACTTATACACAA
30920417 AATTTGACAGCA-TGTATACACAA
1 AATTTGACAGCACT-TATACACAA
* * *
30920440 AATTGGACAGCATTTATTCACCAA
1 AATTTGACAGCACTTATACA-CAA
* * *
30920464 AATTGGGCAGCATACATATAC-C--
1 AATTTGACAGC--ACTTATACACAA
*
30920486 AATTTGGACAGCACTTATACATAA
1 AATTT-GACAGCACTTATACACAA
30920510 AATTTGACAGCA-TGTATACACAA
1 AATTTGACAGCACT-TATACACAA
* * *
30920533 AATTGGACAGCATTTATTCACCAA
1 AATTTGACAGCACTTATACA-CAA
* * *
30920557 AATTGGGCAGCATACATATAC-C--
1 AATTTGACAGC--ACTTATACACAA
30920579 AATTTGGACAGCACTTATACACAA
1 AATTT-GACAGCACTTATACACAA
*
30920603 AATTTGACAGCA-TGTATATACAA
1 AATTTGACAGCACT-TATACACAA
* * * *
30920626 AATTGGACAACATTTATTCACCAA
1 AATTTGACAGCACTTATACA-CAA
30920650 AATT
1 AATT
30920654 GGGCAGCATA
Statistics
Matches: 332, Mismatches: 54, Indels: 74
0.72 0.12 0.16
Matches are distributed among these distances:
21 21 0.06
22 22 0.07
23 178 0.54
24 96 0.29
26 15 0.05
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (23 bp):
AATTTGACAGCACTTATACACAA
Found at i:30920296 original size:93 final size:93
Alignment explanation
Indices: 30920152--30920676 Score: 933
Period size: 93 Copynumber: 5.6 Consensus size: 93
30920142 CATATATATA
* * * *
30920152 TATATACAAAATTGGACAGCATTTATTCACCAAATTTGGGCAGTATATATATACCAATTTGGATA
1 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTTGGACA
30920217 GCACTTATACACAAAATTTGACAGCATG
66 GCACTTATACACAAAATTTGACAGCATG
* * *
30920245 TATATACAAAATTGGACAGCATTTATTCACCAAAATTAGGCAGCATATATATACCGATTTGGACA
1 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTTGGACA
30920310 GCACTTATACACAAAATTTGACAGCATG
66 GCACTTATACACAAAATTTGACAGCATG
30920338 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTTGGACA
1 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTTGGACA
*
30920403 ACACTTATACACAAAATTTGACAGCATG
66 GCACTTATACACAAAATTTGACAGCATG
*
30920431 TATACACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTTGGACA
1 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTTGGACA
*
30920496 GCACTTATACATAAAATTTGACAGCATG
66 GCACTTATACACAAAATTTGACAGCATG
*
30920524 TATACACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTTGGACA
1 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTTGGACA
30920589 GCACTTATACACAAAATTTGACAGCATG
66 GCACTTATACACAAAATTTGACAGCATG
* *
30920617 TATATACAAAATTGGACAACATTTATTCACCAAAATTGGGCAGCATACATATATCAATTT
1 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTT
30920677 TAGACCGTTA
Statistics
Matches: 416, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 416 1.00
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.28
Consensus pattern (93 bp):
TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTTGGACA
GCACTTATACACAAAATTTGACAGCATG
Found at i:30921402 original size:28 final size:28
Alignment explanation
Indices: 30921371--30921489 Score: 166
Period size: 28 Copynumber: 4.2 Consensus size: 28
30921361 ATAAGTTCGT
** * * *
30921371 ACACTTAGTGCTCAATAATCAAACTCAC
1 ACACTTAGTGCTTTACAATTAAACTCGC
* *
30921399 ACACTTAGTGATTTACCATTAAACTCGC
1 ACACTTAGTGCTTTACAATTAAACTCGC
30921427 ACACTTAGTGCTTTACAATTAAACTCGC
1 ACACTTAGTGCTTTACAATTAAACTCGC
*
30921455 ACACTTAGTGCTTTACAATTAAATTCGC
1 ACACTTAGTGCTTTACAATTAAACTCGC
30921483 ACACTTA
1 ACACTTA
30921490 ATGTCGAAAG
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 81 1.00
ACGTcount: A:0.34, C:0.25, G:0.09, T:0.31
Consensus pattern (28 bp):
ACACTTAGTGCTTTACAATTAAACTCGC
Found at i:30922179 original size:17 final size:17
Alignment explanation
Indices: 30922146--30922180 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
30922136 TTAAAGCAAC
30922146 AATTACAAAAACGTAAA
1 AATTACAAAAACGTAAA
30922163 AATTATCAAAAAC-TAAA
1 AATTA-CAAAAACGTAAA
30922180 A
1 A
30922181 TCAAACTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.66, C:0.11, G:0.03, T:0.20
Consensus pattern (17 bp):
AATTACAAAAACGTAAA
Found at i:30924530 original size:11 final size:11
Alignment explanation
Indices: 30924514--30924550 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
30924504 TCAACACCGA
*
30924514 AATTTTTGGGT
1 AATTTTCGGGT
*
30924525 AATTTTCGGAT
1 AATTTTCGGGT
30924536 AATTTTCGGGT
1 AATTTTCGGGT
30924547 AATT
1 AATT
30924551 CGGTTAATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.24, C:0.05, G:0.22, T:0.49
Consensus pattern (11 bp):
AATTTTCGGGT
Found at i:30924558 original size:9 final size:9
Alignment explanation
Indices: 30924540--30924612 Score: 96
Period size: 9 Copynumber: 8.2 Consensus size: 9
30924530 TCGGATAATT
*
30924540 TTCGGGTAA
1 TTCGGTTAA
30924549 TTCGGTTAA
1 TTCGGTTAA
30924558 TTCGGTTAA
1 TTCGGTTAA
*
30924567 TTCGATTAA
1 TTCGGTTAA
30924576 TTCGGTTAA
1 TTCGGTTAA
30924585 TTCGGTTAA
1 TTCGGTTAA
30924594 TT-GAG-TAA
1 TTCG-GTTAA
*
30924602 TTCGGGTAA
1 TTCGGTTAA
30924611 TT
1 TT
30924613 TTTAACCAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
8 7 0.12
9 51 0.88
ACGTcount: A:0.25, C:0.10, G:0.23, T:0.42
Consensus pattern (9 bp):
TTCGGTTAA
Found at i:30924578 original size:27 final size:26
Alignment explanation
Indices: 30924545--30924612 Score: 109
Period size: 27 Copynumber: 2.6 Consensus size: 26
30924535 TAATTTTCGG
30924545 GTAATTCGGTTAATTCGGTTAATTCGA
1 GTAATTCGGTTAATTCGGTTAATT-GA
*
30924572 TTAATTCGGTTAATTCGGTTAATTGA
1 GTAATTCGGTTAATTCGGTTAATTGA
*
30924598 GTAATTCGGGTAATT
1 GTAATTCGGTTAATT
30924613 TTTAACCAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
26 15 0.39
27 23 0.61
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.43
Consensus pattern (26 bp):
GTAATTCGGTTAATTCGGTTAATTGA
Found at i:30928865 original size:70 final size:70
Alignment explanation
Indices: 30927415--30928854 Score: 1630
Period size: 70 Copynumber: 20.6 Consensus size: 70
30927405 CAGCTGACGA
* * *
30927415 TTAAGGCTCGCAGGTTCAATACTGCAGCCTACAAAACAGTTAGCGCGAGCCTACGCTCCCAACTG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
30927480 GTATC
66 GTATC
* * * *
30927485 TTAAGGCTTGCAGGTTCAATACCACAGCCTCCAAAACAATTAGCGCGAGCCTACGCTCCCAACTG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
30927550 GTATC
66 GTATC
* * * *
30927555 TTAAGGCTCGCAGGTTCAATACCGTAGCCTCCAAAACAGTTAGTGCAAGCCTACGCTCCTAGCTG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
*
30927620 ATATC
66 GTATC
* * *
30927625 CTAAGACTCGCAGGTTTAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
*
30927690 ATATC
66 GTATC
* * * * * * * *
30927695 CTAAGGCTCGTAGCTTTAATACCGCAGCCTCCAAAATAATTAGCGCGAGCCTACACTCCTAGCTG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
*
30927760 ATATC
66 GTATC
* * *** * * * * *
30927765 CTAAGGCTCGTAGGTTCAATACTATAGCCTCCAAAACAGTTAACGTGAGCTTACGCTCCTAGGTG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
30927830 GTATC
66 GTATC
* * * * ** * *
30927835 ATAAGGCTCGCAGGTTTAATACCGTAACCTCCAAAACAGTTAGCGCGAGTTTATGCTCCCAGCTA
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
30927900 GTATC
66 GTATC
*** * * *
30927905 TTAAGGCTCAG-AGGTTCAATATTACAGCCTCCAAAATAGTTAGCGCGAGCTTACGCTCCCAGAT
1 TTAAGGCTC-GCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCT
30927969 GGTATC
65 GGTATC
* * * * * * *
30927975 CTAAGGCTTGCATGTTCAATACCGCAACCTCTAAAACAGTTAACGCGAGCCTACGCTCCTAGCTG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
*
30928040 ATATC
66 GTATC
* * * *
30928045 CTAAGGCTCACAGGTTCAATACCGCAGCCTCCAAAATAGTTAGCGCGAGCCTATGCTCCCAGCTG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
*
30928110 ATATC
66 GTATC
* * * * *
30928115 TTAAGGCTCGCAGGTTTAATACTGCAACCTCCAAAA-TGATTAGCGCGAGCTTACGCTCCCAGCT
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAG-TTAGCGCGAGCCTACGCTCCCAGCT
30928179 GGTATC
65 GGTATC
* * * ** * * * * * *
30928185 ATAAGGCTCGTAGGTTTAATATTGCAGCGTTCAAAATAGTTAGTGCGAGCTTATGCTCCCAGCTG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
30928250 GTATC
66 GTATC
* * *
30928255 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGTGCGAACCTACGCTCCCAACTG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
30928320 GTATC
66 GTATC
* * * * * * * *
30928325 CTAAGGCTCGCAGGTTCAATACTGCA-ACTCTAAAACAATTAGCGTGAGCCTACACTCCCAGTTG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
*
30928389 ATATC
66 GTATC
* * * * *
30928394 TTAAGGCTCCCAGGTTCAATACCGCAGCCTCCAAAACAATTAGCGCGAGCTTATGCTCCCAGTTG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
*
30928459 GTACC
66 GTATC
* * * * * *
30928464 TTAAGGCTCACAAGTTCAATACCGCAGCCTTCAAAACAGTTAGCGCAAACCTACGCTCCCAACTG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
*
30928529 ATATC
66 GTATC
* * * * * * *
30928534 CTAA-GCTTGCAGGTTCAATACCGCA-ACTCTAAAACAATTAGCGTGAGCCTACGCTCCCAGTTG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
*
30928597 ATATC
66 GTATC
* * * * * * * *
30928602 CTAAGGCTCGCAAGTTCAATACCGCAACATCCAAAATAGTTAGTGCGAGCTTACGCTCCCAACTG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
30928667 GTATC
66 GTATC
* * * * *
30928672 TTAAGACTCGCAGATTCAATACTGCAACCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCACCTG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
30928737 GTATC
66 GTATC
* * * * * * *
30928742 CTAAGGCTCGCAGGTTCAATATCGCAGCATCCAAAATAGTTAGCGCGAGCTTACACTCCCAGCTA
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
*
30928807 ATATC
66 GTATC
*
30928812 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAATAGTTAG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAG
30928855 TGCCAACTTA
Statistics
Matches: 1157, Mismatches: 206, Indels: 14
0.84 0.15 0.01
Matches are distributed among these distances:
68 38 0.03
69 95 0.08
70 1022 0.88
71 2 0.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (70 bp):
TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
GTATC
Found at i:30932760 original size:17 final size:18
Alignment explanation
Indices: 30932732--30932768 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
30932722 TCCTTAGTTA
*
30932732 TTGCATATTTTTAATATT
1 TTGCATATTTTTAAAATT
30932750 TTGCA-ATTTTTAAAATT
1 TTGCATATTTTTAAAATT
30932767 TT
1 TT
30932769 AAACAGTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (18 bp):
TTGCATATTTTTAAAATT
Found at i:30935678 original size:21 final size:23
Alignment explanation
Indices: 30935654--30935696 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
30935644 GAGCCGATTT
*
30935654 ATTACTATAAT-TT-TAAAATTA
1 ATTAATATAATCTTCTAAAATTA
*
30935675 ATTAATTTAATCTTCTAAAATT
1 ATTAATATAATCTTCTAAAATT
30935697 TTAAATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 2 0.11
23 7 0.39
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTAATATAATCTTCTAAAATTA
Found at i:30936789 original size:20 final size:20
Alignment explanation
Indices: 30936764--30936805 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
30936754 AATTCTTATA
30936764 AAGTATGAATTTTAAATTTT
1 AAGTATGAATTTTAAATTTT
30936784 AAGTATGAATTTTAAATTTT
1 AAGTATGAATTTTAAATTTT
30936804 AA
1 AA
30936806 CAAATAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.48
Consensus pattern (20 bp):
AAGTATGAATTTTAAATTTT
Found at i:30938186 original size:15 final size:15
Alignment explanation
Indices: 30938168--30938200 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
30938158 TTTCCACTCT
*
30938168 TTTACTTTCTTTTCA
1 TTTAATTTCTTTTCA
30938183 TTTAATTTCTTTTCA
1 TTTAATTTCTTTTCA
30938198 TTT
1 TTT
30938201 CCTACTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTAATTTCTTTTCA
Found at i:30940129 original size:27 final size:27
Alignment explanation
Indices: 30940082--30940160 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 27
30940072 AGAGTGCGCT
* *
30940082 ACAAAGGCATTCCCTTT-ATAGATTGCC
1 ACAAAGGC-TTACTTTTCATAGATTGCC
* *
30940109 ACAAAGGCTTTCTTTTCATAGATCGCC
1 ACAAAGGCTTACTTTTCATAGATTGCC
* *
30940136 AAAAAGAC-TACTTTTTCATAGATTG
1 ACAAAGGCTTAC-TTTTCATAGATTG
30940161 ACGCAAACAC
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
26 8 0.19
27 35 0.81
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.33
Consensus pattern (27 bp):
ACAAAGGCTTACTTTTCATAGATTGCC
Found at i:30942218 original size:19 final size:20
Alignment explanation
Indices: 30942187--30942226 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
30942177 TTATATGAAA
30942187 AATATTATCATGT-AAATAT
1 AATATTATCATGTAAAATAT
30942206 AATATATAT-ATGTAAAATAT
1 AATAT-TATCATGTAAAATAT
30942226 A
1 A
30942227 CAAAAGATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.40
Consensus pattern (20 bp):
AATATTATCATGTAAAATAT
Found at i:30943477 original size:12 final size:12
Alignment explanation
Indices: 30943460--30943484 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30943450 GGTGTTCATT
30943460 CGGTTAACCGAC
1 CGGTTAACCGAC
30943472 CGGTTAACCGAC
1 CGGTTAACCGAC
30943484 C
1 C
30943485 CGAAATAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:30943659 original size:9 final size:9
Alignment explanation
Indices: 30943645--30943711 Score: 98
Period size: 9 Copynumber: 7.4 Consensus size: 9
30943635 TTTGGTTAAA
30943645 AATTAACCG
1 AATTAACCG
*
30943654 AATTAACCA
1 AATTAACCG
30943663 AATTAACCG
1 AATTAACCG
* *
30943672 GATTACCCG
1 AATTAACCG
30943681 AATTAACCG
1 AATTAACCG
*
30943690 AATTACCCG
1 AATTAACCG
30943699 AATTAACCG
1 AATTAACCG
30943708 AATT
1 AATT
30943712 GAATCACTAC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.42, C:0.24, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:30946569 original size:54 final size:54
Alignment explanation
Indices: 30946506--30946618 Score: 208
Period size: 54 Copynumber: 2.1 Consensus size: 54
30946496 AGTATCATAT
30946506 ATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAATTTTATTAA
* *
30946560 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAATTTTATTAA
30946614 ATTAT
1 ATTAT
30946619 ATATTTTAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.45
Consensus pattern (54 bp):
ATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAATTTTATTAA
Found at i:30946606 original size:28 final size:27
Alignment explanation
Indices: 30946521--30946606 Score: 63
Period size: 28 Copynumber: 3.1 Consensus size: 27
30946511 GATTTGAGTA
*
30946521 AATTCATATAAAAATATTAATTATTAAG
1 AATTCATAT-AAAATATTGATTATTAAG
* * *
30946549 AATT-TTATTAAAT-TATGA-T-TTGAG
1 AATTCATATAAAATAT-TGATTATTAAG
30946573 TAAATTCATATAAGAATATTGATTATTAAG
1 --AATTCATATAA-AATATTGATTATTAAG
30946603 AATT
1 AATT
30946607 TTATTAAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 16
0.65 0.11 0.24
Matches are distributed among these distances:
24 4 0.09
25 2 0.05
26 10 0.23
27 7 0.16
28 14 0.33
29 2 0.05
30 4 0.09
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (27 bp):
AATTCATATAAAATATTGATTATTAAG
Found at i:30946638 original size:16 final size:16
Alignment explanation
Indices: 30946617--30946658 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
30946607 TTATTAAATT
*
30946617 ATATATTTTAATTATA
1 ATATATTTTAATAATA
30946633 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
30946648 AT-TATGTTTAA
1 ATATAT-TTTAA
30946659 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:30946643 original size:15 final size:15
Alignment explanation
Indices: 30946608--30946649 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
30946598 TTAAGAATTT
*
30946608 TATTAAATTAT-ATA
1 TATTTAATTATAATA
30946622 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
30946636 TATTTAATAATAAT
1 TATTTAATTATAAT
30946650 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:30946896 original size:16 final size:16
Alignment explanation
Indices: 30946875--30946910 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
30946865 GATTTGCTAT
30946875 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
30946891 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
30946907 TACA
1 TACA
30946911 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:30947010 original size:18 final size:18
Alignment explanation
Indices: 30946970--30947013 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
30946960 AATTTTTATG
**
30946970 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
30946988 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
30947006 CTTGGGTT
1 ATTGGGTT
30947014 TGGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:30961120 original size:22 final size:23
Alignment explanation
Indices: 30961095--30961151 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 23
30961085 TGCACTAATG
*
30961095 AACAGAGAGCACTA-AAGTGCTA
1 AACAGAGAGCACTAGAAGTGCAA
*
30961117 AACAGAGAGCAC-AGATGTGCAA
1 AACAGAGAGCACTAGAAGTGCAA
*
30961139 AACGGAGAGCACT
1 AACAGAGAGCACT
30961152 GTCGTGCTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.03
22 29 0.97
ACGTcount: A:0.44, C:0.19, G:0.26, T:0.11
Consensus pattern (23 bp):
AACAGAGAGCACTAGAAGTGCAA
Found at i:30961172 original size:25 final size:24
Alignment explanation
Indices: 30961143--30961200 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 24
30961133 GTGCAAAACG
* *
30961143 GAGAGCACTGTCGTGCTAGTAATCA
1 GAGAGCACT-ACGTGCTAATAATCA
30961168 GAGAGCACCTACGTGCTAATAATCA
1 GAGAGCA-CTACGTGCTAATAATCA
30961193 GAGAGCAC
1 GAGAGCAC
30961201 GCTAAAGTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 1 0.03
25 27 0.90
26 2 0.07
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (24 bp):
GAGAGCACTACGTGCTAATAATCA
Found at i:30962193 original size:13 final size:13
Alignment explanation
Indices: 30962172--30962203 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
30962162 TTTGATTAAT
*
30962172 TAATGTAATATAA
1 TAATATAATATAA
30962185 TAATATAATATAA
1 TAATATAATATAA
30962198 TAATAT
1 TAATAT
30962204 TTTAATCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (13 bp):
TAATATAATATAA
Found at i:30973523 original size:3 final size:3
Alignment explanation
Indices: 30973517--30973542 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
30973507 AAAAAAAAAG
30973517 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
30973543 TGAAACCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:30977995 original size:23 final size:22
Alignment explanation
Indices: 30977963--30978020 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
30977953 GTCCAAGTAA
* *
30977963 GTTTTAAATGTTGTCCAAAATAT
1 GTTTT-AATGTTATCCAAAACAT
* *
30977986 GTTTTGAATGTCATCCAAAGCAT
1 GTTTT-AATGTTATCCAAAACAT
30978009 GTTTTAATGTTA
1 GTTTTAATGTTA
30978021 ATATTGTCGG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
22 6 0.21
23 23 0.79
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (22 bp):
GTTTTAATGTTATCCAAAACAT
Found at i:30980413 original size:28 final size:28
Alignment explanation
Indices: 30980373--30980428 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
30980363 ATATTCACAC
30980373 ATCGTACTATCAAAGTCATTTGTTCTAT
1 ATCGTACTATCAAAGTCATTTGTTCTAT
30980401 ATCGTACTATCAAAGTCATTTGTTCTAT
1 ATCGTACTATCAAAGTCATTTGTTCTAT
30980429 CTCTTTCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.43
Consensus pattern (28 bp):
ATCGTACTATCAAAGTCATTTGTTCTAT
Found at i:30985075 original size:18 final size:18
Alignment explanation
Indices: 30985048--30985095 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
30985038 AAAATATAAG
* *
30985048 AAATGGTGTTCACATTTT
1 AAATGATGTTCACATTTC
30985066 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
30985084 AAATGATGTTCA
1 AAATGATGTTCA
30985096 AATTGATGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:30985619 original size:72 final size:72
Alignment explanation
Indices: 30985524--30985761 Score: 365
Period size: 72 Copynumber: 3.3 Consensus size: 72
30985514 CAATGCTAAA
* *
30985524 CTAGTTTTATCAATAATTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
*
30985589 TTGTAAT
66 CTGTAAT
*
30985596 CTAGTTTTATCAATGGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
*
30985661 GTGTAAT
66 CTGTAAT
* * *
30985668 CTAGTTTTATTAATAGTTGTTTATGTTCGGTCTTTGGATATTGAATTTATGTTC-ACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
*
30985732 ACT-AAAT
66 -CTGTAAT
30985739 -TAGTTTTATCAATAGTTGTTTAT
1 CTAGTTTTATCAATAGTTGTTTAT
30985762 ATATGATTTT
Statistics
Matches: 154, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
70 22 0.14
71 13 0.08
72 119 0.77
ACGTcount: A:0.24, C:0.06, G:0.15, T:0.55
Consensus pattern (72 bp):
CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
CTGTAAT
Found at i:30987160 original size:15 final size:15
Alignment explanation
Indices: 30987140--30987172 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
30987130 GTTGAGAAAG
30987140 TGACGATGATGGTGA
1 TGACGATGATGGTGA
30987155 TGACGATGATGGTGA
1 TGACGATGATGGTGA
30987170 TGA
1 TGA
30987173 TGACGGTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.06, G:0.39, T:0.27
Consensus pattern (15 bp):
TGACGATGATGGTGA
Found at i:30994243 original size:41 final size:41
Alignment explanation
Indices: 30994159--30994249 Score: 128
Period size: 41 Copynumber: 2.2 Consensus size: 41
30994149 TCAGTGAACC
* *
30994159 AATTCAGGCTAAAAGCCTAGCAGGCTAAGTGCTGGTGAACTG
1 AATT-AGGCTAAAAGCCTAGCAGGCTAAGTGCCGATGAACTG
* *
30994201 AATTAGGCTATAAGCCTAGCAGGCTAAGTGCCGATGATCTG
1 AATTAGGCTAAAAGCCTAGCAGGCTAAGTGCCGATGAACTG
*
30994242 AATCAGGC
1 AATTAGGC
30994250 CTAGCAGGCT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 40 0.91
42 4 0.09
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (41 bp):
AATTAGGCTAAAAGCCTAGCAGGCTAAGTGCCGATGAACTG
Found at i:30994493 original size:38 final size:39
Alignment explanation
Indices: 30994436--30994525 Score: 103
Period size: 38 Copynumber: 2.3 Consensus size: 39
30994426 AATTGTTGGA
* * *
30994436 TATATATATGTGTACGCATTTGACATATGTGGATT-ATAAG
1 TATATATATATGTA-GCATTCGACACATGTGG-TTGATAAG
*
30994476 TATATATATATGT-GCATTCGGCACATGTGGTTGATAAG
1 TATATATATATGTAGCATTCGACACATGTGGTTGATAAG
*
30994514 TATAAATATATG
1 TATATATATATG
30994526 CTTTTGGCAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
37 2 0.05
38 30 0.68
40 12 0.27
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (39 bp):
TATATATATATGTAGCATTCGACACATGTGGTTGATAAG
Found at i:30998742 original size:119 final size:119
Alignment explanation
Indices: 30998554--30999004 Score: 629
Period size: 119 Copynumber: 3.8 Consensus size: 119
30998544 TATCTTAATA
* * * * * ***
30998554 TTAAAATCTA-AAATTATTATTACAATATAAAAAATATATACAATAGTCAAACCAATCTTAATAT
1 TTAAAATATACAAATTATTATTACAATA-AAAAAAAACATACACTA-CCAAAATTATCTTAATAT
*
30998618 TACTTTTAACACAAATCTAATCATTCAAACAAAAATATAATGTTGAATGTTATATC
64 TACTTTTAACACAAATCTAATAATTCAAACAAAAATATAATGTTGAATGTTATATC
* *
30998674 TTAAAATATACAAGTTATTATTACAA-AAAAAAAAGACATACACTACCAAAATTATCTTAATGTT
1 TTAAAATATACAAATTATTATTACAATAAAAAAAA-ACATACACTACCAAAATTATCTTAATATT
*
30998738 ACTTTTAACACAAATATAATAATTCAAACAAAAATATAATGTTGAATGTTATATC
65 ACTTTTAACACAAATCTAATAATTCAAACAAAAATATAATGTTGAATGTTATATC
* * *
30998793 TTAAAATATACAAATTATTATTAGAATATAAAAAACCATACACTACCAAAATTATCTTAATATTA
1 TTAAAATATACAAATTATTATTACAATAAAAAAAAACATACACTACCAAAATTATCTTAATATTA
* * * * *
30998858 CTTTTAACGCAATTCTAATAATTCAAACAAAAATATAATATTAAATGCTATATC
66 CTTTTAACACAAATCTAATAATTCAAACAAAAATATAATGTTGAATGTTATATC
* *
30998912 TTAAAATATAAAAATTATTATTACAATATATAAAAAAA-ATACACTACTAAAATTATCTTAATAT
1 TTAAAATATACAAATTATTATTACAATA-A-AAAAAAACATACACTACCAAAATTATCTTAATAT
*
30998976 TACTTTTAACACAATTCTAATAATTCAAA
64 TACTTTTAACACAAATCTAATAATTCAAA
30999005 AAATTATAAT
Statistics
Matches: 297, Mismatches: 29, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
119 199 0.67
120 78 0.26
121 20 0.07
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.35
Consensus pattern (119 bp):
TTAAAATATACAAATTATTATTACAATAAAAAAAAACATACACTACCAAAATTATCTTAATATTA
CTTTTAACACAAATCTAATAATTCAAACAAAAATATAATGTTGAATGTTATATC
Found at i:30999058 original size:16 final size:16
Alignment explanation
Indices: 30999037--30999113 Score: 50
Period size: 16 Copynumber: 4.5 Consensus size: 16
30999027 CATACCTTAA
30999037 TAATAATAATCTAATC
1 TAATAATAATCTAATC
*
30999053 TAATAATATATCAATAAACCTT
1 TAATAATA-ATC--T-AA--TC
* *
30999075 TAACACA-AATCTAATT
1 TAATA-ATAATCTAATC
30999091 TAATAATAATCTAATC
1 TAATAATAATCTAATC
30999107 TAA-AATA
1 TAATAATA
30999114 TAAATAATAC
Statistics
Matches: 49, Mismatches: 4, Indels: 17
0.70 0.06 0.24
Matches are distributed among these distances:
15 5 0.10
16 25 0.51
17 3 0.06
18 2 0.04
19 2 0.04
20 2 0.04
21 3 0.06
22 6 0.12
23 1 0.02
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (16 bp):
TAATAATAATCTAATC
Found at i:31008052 original size:31 final size:31
Alignment explanation
Indices: 31008017--31008092 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
31008007 CTCCTCGAAT
*
31008017 GCATATAACTGAATATTGATATACATCAAGA
1 GCATATAACCGAATATTGATATACATCAAGA
* *
31008048 GCATATAACCGAGTATTTATATACATCAAGA
1 GCATATAACCGAATATTGATATACATCAAGA
*
31008079 GCATATACCCGAAT
1 GCATATAACCGAAT
31008093 GTATGCATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (31 bp):
GCATATAACCGAATATTGATATACATCAAGA
Found at i:31008608 original size:40 final size:40
Alignment explanation
Indices: 31008495--31008594 Score: 173
Period size: 40 Copynumber: 2.5 Consensus size: 40
31008485 GACTCAGAAT
31008495 ACCGGCATTAAGCCTGCTAGACATTAAGTCTGAAAAACTC
1 ACCGGCATTAAGCCTGCTAGACATTAAGTCTGAAAAACTC
* *
31008535 ACCAGCATTAAGCCTGCTAGACATTAAGTCTGAAAAATTC
1 ACCGGCATTAAGCCTGCTAGACATTAAGTCTGAAAAACTC
*
31008575 ACTGGCATTAAGCCTGCTAG
1 ACCGGCATTAAGCCTGCTAG
31008595 GCACAGAACC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (40 bp):
ACCGGCATTAAGCCTGCTAGACATTAAGTCTGAAAAACTC
Found at i:31024002 original size:28 final size:28
Alignment explanation
Indices: 31023962--31024203 Score: 270
Period size: 28 Copynumber: 8.6 Consensus size: 28
31023952 AGAGTCTGCT
31023962 ACAAAGGCTTATTCTTTCATAGTTCGCC
1 ACAAAGGCTTATTCTTTCATAGTTCGCC
* *
31023990 ACAAAGGCTTATTCTTTCGTAGTTTGCC
1 ACAAAGGCTTATTCTTTCATAGTTCGCC
* * * *
31024018 ACAAAGGCTTAATCTTCCGTAGTTCGTC
1 ACAAAGGCTTATTCTTTCATAGTTCGCC
*
31024046 ACAAAGGCTTATTCTTTCATAGTTCTCC
1 ACAAAGGCTTATTCTTTCATAGTTCGCC
*
31024074 ACAAAGGCTTATTCTTTCATAGTTCGTC
1 ACAAAGGCTTATTCTTTCATAGTTCGCC
* * *
31024102 ACATAA-GCTTATTCTTTTATAGGTCGTC
1 ACA-AAGGCTTATTCTTTCATAGTTCGCC
* ** * *
31024130 ATAAAGGCTTATTCTTTTGTTGTTCACC
1 ACAAAGGCTTATTCTTTCATAGTTCGCC
* * * * *
31024158 ATAAAGGCTTATTCTTTCGTTGTTCACT
1 ACAAAGGCTTATTCTTTCATAGTTCGCC
*
31024186 AGAAAGGCTTATTCTTTC
1 ACAAAGGCTTATTCTTTC
31024204 CTGATGTGTT
Statistics
Matches: 188, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
27 2 0.01
28 184 0.98
29 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (28 bp):
ACAAAGGCTTATTCTTTCATAGTTCGCC
Found at i:31028162 original size:18 final size:17
Alignment explanation
Indices: 31028139--31028172 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
31028129 AAATACATAC
31028139 ATTAATAAATAAATATGA
1 ATTAATAAA-AAATATGA
*
31028157 ATTAATATAAAATATG
1 ATTAATAAAAAATATG
31028173 TATGAAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (17 bp):
ATTAATAAAAAATATGA
Found at i:31030121 original size:16 final size:16
Alignment explanation
Indices: 31030100--31030132 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
31030090 TTCGCTGTAT
31030100 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
31030116 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
31030132 T
1 T
31030133 AGCAAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:31030207 original size:44 final size:45
Alignment explanation
Indices: 31030114--31030208 Score: 131
Period size: 44 Copynumber: 2.1 Consensus size: 45
31030104 ATAGAGGCGT
*
31030114 AATGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAATGT
1 AATGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAATGG
* * *
31030159 AATGGAATAGAGGCGTAATAG-TATTC-TTATGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGCAAATCAAT-TGTTTGGTTGAATGG
31030203 AATGGA
1 AATGGA
31030209 GGTGTGATAG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.51
45 21 0.47
ACGTcount: A:0.34, C:0.05, G:0.28, T:0.33
Consensus pattern (45 bp):
AATGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAATGG
Found at i:31041330 original size:27 final size:27
Alignment explanation
Indices: 31041281--31041369 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
31041271 CCTAGAAGTT
* * *
31041281 TAGGCCTAGAAAG-TAGGTATATGCCAA
1 TAGGCCTAGCAAGCT-GGTGTATGCCAG
*
31041308 TAGGCCTGGCAAGCTGGTGTATGCCAG
1 TAGGCCTAGCAAGCTGGTGTATGCCAG
*
31041335 TAGGCCTAGCTAGCTGGTGTATGCCAG
1 TAGGCCTAGCAAGCTGGTGTATGCCAG
31041362 TAGGCCTA
1 TAGGCCTA
31041370 ATGAGTTAGT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (27 bp):
TAGGCCTAGCAAGCTGGTGTATGCCAG
Found at i:31042437 original size:19 final size:20
Alignment explanation
Indices: 31042395--31042437 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
31042385 TCATGCTTTC
*
31042395 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
31042415 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
31042433 TATTC
1 TATTC
31042438 CACAATCACG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:31045450 original size:26 final size:26
Alignment explanation
Indices: 31045414--31045465 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
31045404 CACCACTGAA
* *
31045414 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
31045440 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
31045466 CTTTTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.21, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:31045542 original size:70 final size:71
Alignment explanation
Indices: 31045426--31045576 Score: 232
Period size: 72 Copynumber: 2.1 Consensus size: 71
31045416 GGGGAATCAT
*
31045426 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTT-CATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
31045490 ATATCG
66 ATATCG
* * ***
31045496 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTTAAAGATATGGTG
1 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATG
31045561 GATATCG
65 GATATCG
31045568 CACTTAGCA
1 CACTTAGCA
31045577 CCACCAATGA
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
70 16 0.22
71 28 0.38
72 29 0.40
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (71 bp):
CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
ATATCG
Found at i:31045619 original size:104 final size:104
Alignment explanation
Indices: 31045495--31045718 Score: 369
Period size: 104 Copynumber: 2.2 Consensus size: 104
31045485 AATGGATATC
*
31045495 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTTAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
31045560 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
31045599 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
31045664 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
31045703 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
31045719 TTTATATACA
Statistics
Matches: 112, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
104 111 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:31046080 original size:29 final size:29
Alignment explanation
Indices: 31046047--31046110 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
31046037 TAATCCACCA
31046047 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
31046076 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
31046106 CCCAA
1 CCCAA
31046111 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:31046084 original size:30 final size:30
Alignment explanation
Indices: 31046054--31046110 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
31046044 CCACCCAACT
31046054 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
31046083 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
31046111 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:31050477 original size:40 final size:38
Alignment explanation
Indices: 31050394--31050494 Score: 123
Period size: 40 Copynumber: 2.6 Consensus size: 38
31050384 GAAATCCTTG
*
31050394 TTATAATTATTGTAATTATAATTTAGGATCAAATATTA
1 TTATAATTATTGTAATTATAATTTAGGATCAAACATTA
* *
31050432 TTATAATTATTGTAATTGTAATTTTTTTGG-TCAAACATTA
1 TTATAATTATTGTAATTATAA---TTTAGGATCAAACATTA
* *
31050472 TTATAATTATGGCAATTATAATT
1 TTATAATTATTGTAATTATAATT
31050495 ATTGTATTCG
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
37 2 0.04
38 20 0.37
40 27 0.50
41 5 0.09
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.50
Consensus pattern (38 bp):
TTATAATTATTGTAATTATAATTTAGGATCAAACATTA
Found at i:31054472 original size:12 final size:12
Alignment explanation
Indices: 31054455--31054481 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
31054445 AGTTTTTCTC
31054455 TCTCTCTCTCTT
1 TCTCTCTCTCTT
31054467 TCTCTCTCTCTT
1 TCTCTCTCTCTT
31054479 TCT
1 TCT
31054482 GAGCATGTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (12 bp):
TCTCTCTCTCTT
Found at i:31055000 original size:124 final size:124
Alignment explanation
Indices: 31054796--31055020 Score: 362
Period size: 124 Copynumber: 1.8 Consensus size: 124
31054786 TGAAGTCTGG
* * *
31054796 ACTTAGCTTTTTCTCCCTGCCTTGCACAATTAGACAGATCGGTGATTATGGAGTTACTTTGGCAA
1 ACTTAGCCTTTTCTCCCTGCCTTGCACAATTAGACAGATCGGTGATTATGGAGTTACCTTAGCAA
*
31054861 AAATCTTTAGCATCCTCCTGGTGATATTTGATTAGCATCAAGTTGGTTTCGAAGTTTTT
66 AAACCTTTAGCATCCTCCTGGTGATATTTGATTAGCATCAAGTTGGTTTCGAAGTTTTT
* * *
31054920 ACTTAGCCTTTTCTCCTTGCCTTGCACAATTAGACATG-TTGGTGATTGTGGAGTTACCTTAGCA
1 ACTTAGCCTTTTCTCCCTGCCTTGCACAATTAGACA-GATCGGTGATTATGGAGTTACCTTAGCA
*
31054984 AAAACCTTTAGCATCCTCTTGGTGATATTTGATTAGC
65 AAAACCTTTAGCATCCTCCTGGTGATATTTGATTAGC
31055021 TACAAGCAAC
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
124 91 0.99
125 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (124 bp):
ACTTAGCCTTTTCTCCCTGCCTTGCACAATTAGACAGATCGGTGATTATGGAGTTACCTTAGCAA
AAACCTTTAGCATCCTCCTGGTGATATTTGATTAGCATCAAGTTGGTTTCGAAGTTTTT
Found at i:31056286 original size:17 final size:18
Alignment explanation
Indices: 31056261--31056306 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
31056251 ATTTATTAAA
*
31056261 TTAAATTAATTAATTTTC
1 TTAACTTAATTAATTTTC
*
31056279 -TAACTTAAATAATTTTC
1 TTAACTTAATTAATTTTC
*
31056296 TTAATTTAATT
1 TTAACTTAATT
31056307 TTAATTCTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (18 bp):
TTAACTTAATTAATTTTC
Found at i:31058598 original size:18 final size:19
Alignment explanation
Indices: 31058571--31058620 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
31058561 AGAGAAATCT
*
31058571 AAAA-ATATATAAT-TATA
1 AAAATATATATAATACATA
31058588 AAAATATATATAAATACATA
1 AAAATATATAT-AATACATA
31058608 AAAATTATATATA
1 AAAA-TATATATA
31058621 TATATTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 3 0.11
20 8 0.29
21 7 0.25
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAATATATATAATACATA
Found at i:31059452 original size:30 final size:30
Alignment explanation
Indices: 31059416--31059475 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
31059406 AAGGGACTGA
31059416 GTTTTTGAAGGTGATTCTTCAAAGTTTTCC
1 GTTTTTGAAGGTGATTCTTCAAAGTTTTCC
31059446 GTTTTTGAAGGTGATTCTTCAAAGTTTTCC
1 GTTTTTGAAGGTGATTCTTCAAAGTTTTCC
31059476 TTTCCTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.20, C:0.13, G:0.20, T:0.47
Consensus pattern (30 bp):
GTTTTTGAAGGTGATTCTTCAAAGTTTTCC
Found at i:31062825 original size:81 final size:85
Alignment explanation
Indices: 31062722--31062889 Score: 263
Period size: 81 Copynumber: 2.0 Consensus size: 85
31062712 GGCATGTTTG
31062722 TGTTTGAGTATTGAGGAAGATGTTGATTTTATAGTCTCTTTAAGTTTCACTTCTATG-TC-TCTT
1 TGTTTGAGTATTGAGGAAGATGTTGATTTTATAGTCTCTTTAAGTTTCACTTCTATGCTCTTCTT
31062785 A-TTCTTTTAGATGATTGCA
66 ATTTCTTTTAGATGATTGCA
* * *
31062804 TGTTTGTGT-TTGAGGAAGATGTTGATTTTATGGTCTTTTTAAGTTTCACTTCTATGTCTCTTCT
1 TGTTTGAGTATTGAGGAAGATGTTGATTTTATAGTCTCTTTAAGTTTCACTTCTATG-CTCTTCT
*
31062868 TATTTTTTTTAGATGATTGCA
65 TATTTCTTTTAGATGATTGCA
31062889 T
1 T
31062890 AAGATATTGA
Statistics
Matches: 78, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
81 45 0.58
82 8 0.10
83 2 0.03
84 5 0.06
85 18 0.23
ACGTcount: A:0.20, C:0.10, G:0.18, T:0.52
Consensus pattern (85 bp):
TGTTTGAGTATTGAGGAAGATGTTGATTTTATAGTCTCTTTAAGTTTCACTTCTATGCTCTTCTT
ATTTCTTTTAGATGATTGCA
Found at i:31065184 original size:53 final size:53
Alignment explanation
Indices: 31065121--31065226 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
31065111 CTCAAACTTC
31065121 ACCATAATAAAAACCAAACTTTGGGATCTTAAAATTCACATTTTATTAGTTGA
1 ACCATAATAAAAACCAAACTTTGGGATCTTAAAATTCACATTTTATTAGTTGA
31065174 ACCATAATAAAAACCAAACTTTGGGATCTTAAAATTCACATTTTATTAGTTGA
1 ACCATAATAAAAACCAAACTTTGGGATCTTAAAATTCACATTTTATTAGTTGA
31065227 GAAGAAACAC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (53 bp):
ACCATAATAAAAACCAAACTTTGGGATCTTAAAATTCACATTTTATTAGTTGA
Found at i:31065835 original size:16 final size:16
Alignment explanation
Indices: 31065814--31065844 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31065804 TTCTCTATTA
*
31065814 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
31065830 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
31065845 GCATGCATAG
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:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:31082699 original size:18 final size:17
Alignment explanation
Indices: 31082678--31082711 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
31082668 CTATTATTAA
*
31082678 ATATATTTTAATTAAAAC
1 ATATAATTTAA-TAAAAC
31082696 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
31082712 TTCTTAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAC
Found at i:31082819 original size:18 final size:17
Alignment explanation
Indices: 31082796--31082832 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
31082786 AATTATTATT
31082796 AAATATA-T-TTTAATTA
1 AAATATATTATTTAA-TA
31082812 AAATATATTATTTAATA
1 AAATATATTATTTAATA
31082829 AAAT
1 AAAT
31082833 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 7 0.37
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AAATATATTATTTAATA
Found at i:31082871 original size:120 final size:119
Alignment explanation
Indices: 31082658--31083076 Score: 714
Period size: 120 Copynumber: 3.5 Consensus size: 119
31082648 TTAATCATAT
* * *
31082658 TTTAACATAACTATTATTAAATATATTTTAATTAAAACATATAATTTAATAAAATTCTTAATAAT
1 TTTAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
* * *
31082723 CAATATTCTTATATGAATTTACTCAAATCCTAATATATGATACTATAAAATATAA
65 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATAGTATAAAATATAA
*
31082778 TTTAAGATAATTATTATTAAATATATTTTAATTAAAATATATTATTTAATAAAATTCTTAATAAT
1 TTTAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
*
31082843 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATAGTATAAAATATAT
65 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATAGTATAAAATATAA
*
31082898 TTTGAAATAATAATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
1 TTT-AAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
*
31082963 CAATATTCTTATATGAATTTACTAAAATCATAATATATTATAGTATAAAATATAA
65 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATAGTATAAAATATAA
31083018 TTTAAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT-TTAA
1 TTTAAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAA
31083077 AAAATTATTA
Statistics
Matches: 285, Mismatches: 13, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
118 4 0.01
119 51 0.18
120 228 0.80
121 2 0.01
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (119 bp):
TTTAAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATC
AATATTCTTATATGAATTTACTAAAATCATAATATATGATAGTATAAAATATAA
Found at i:31083058 original size:18 final size:17
Alignment explanation
Indices: 31083035--31083071 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
31083025 AATTATTATT
31083035 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
31083051 AAATATATGATTTAATA
1 AAATATATGATTTAATA
31083068 AAAT
1 AAAT
31083072 TTTAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:31083071 original size:17 final size:16
Alignment explanation
Indices: 31083015--31083071 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 16
31083005 GTATAAAATA
*
31083015 TAATTTAAATA-ATTAT
1 TAATTAAAATATATT-T
31083031 T-ATT-AAATATATTT
1 TAATTAAAATATATTT
31083045 TAATTAAAATATATGATT
1 TAATTAAAATATAT--TT
31083063 TAA-TAAAAT
1 TAATTAAAAT
31083072 TTTAAAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
14 7 0.19
15 9 0.25
16 9 0.25
17 6 0.17
18 5 0.14
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
TAATTAAAATATATTT
Found at i:31083164 original size:91 final size:91
Alignment explanation
Indices: 31083088--31083476 Score: 706
Period size: 91 Copynumber: 4.3 Consensus size: 91
31083078 AAATTATTAG
* * *
31083088 TAATAAATTTTCTTATATGAATTTGTATAATTTAATATAATTATTATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
31083153 AATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
*
31083179 TAATAAATTTTCTTATATGAACTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
31083244 GATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
31083270 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
31083335 GATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
31083361 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
31083426 GATATATAATTTCATAAAATTCTTAA
66 GATATATAATTTCATAAAATTCTTGA
* *
31083452 TAATAAATATTCATATATGAATTTA
1 TAATAAATTTTCTTATATGAATTTA
31083477 CTAAAATCAT
Statistics
Matches: 289, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 289 1.00
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
GATATATAATTTCATAAAATTCTTGA
Found at i:31083459 original size:47 final size:47
Alignment explanation
Indices: 31083135--31083461 Score: 269
Period size: 47 Copynumber: 7.1 Consensus size: 47
31083125 TAATTATTAT
* *
31083135 TAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAA
1 TAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAA
* ** *
31083182 TAAAT-T--TTCTTAT-ATGAACTTATATAA-TT--TAAAATAATTAATAT
1 TAAATATAATT-TAATAATG-A--TATATAATTTCATAAAATTCTTAATAA
*
31083226 TAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAA
1 TAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAA
* * ** *
31083273 TAAAT-T-TTCTTATATGAAT-TTATATAA-TT--TAAAATAATTAATAT
1 TAAATATAAT-TTA-AT-AATGATATATAATTTCATAAAATTCTTAATAA
*
31083317 TAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAA
1 TAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAA
* * ** *
31083364 TAAAT-T-TTCTTATATGAAT-TTATATAA-TT--TAAAATAATTAATAT
1 TAAATATAAT-TTA-AT-AATGATATATAATTTCATAAAATTCTTAATAA
31083408 TAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAA
1 TAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAA
31083455 TAAATAT
1 TAAATAT
31083462 TCATATATGA
Statistics
Matches: 217, Mismatches: 34, Indels: 58
0.70 0.11 0.19
Matches are distributed among these distances:
43 6 0.03
44 77 0.35
45 21 0.10
46 21 0.10
47 86 0.40
48 6 0.03
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (47 bp):
TAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAA
Found at i:31092285 original size:22 final size:22
Alignment explanation
Indices: 31092271--31092313 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
31092261 AATTAAATTT
31092271 TTAAATT-CAAAAAATATAAAAA
1 TTAAATTCCAAAAAAT-TAAAAA
*
31092293 TTAAATTCCTAAAAATTAAAA
1 TTAAATTCCAAAAAATTAAAA
31092314 TAAGAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (22 bp):
TTAAATTCCAAAAAATTAAAAA
Found at i:31092451 original size:18 final size:19
Alignment explanation
Indices: 31092419--31092455 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
31092409 AGAATCTAGC
31092419 ATGAATCTAACTTTTAAAA
1 ATGAATCTAACTTTTAAAA
*
31092438 ATGAA-CTAATTTTTAAAA
1 ATGAATCTAACTTTTAAAA
31092456 TAGCCACGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (19 bp):
ATGAATCTAACTTTTAAAA
Found at i:31093715 original size:15 final size:15
Alignment explanation
Indices: 31093695--31093733 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
31093685 CCATCTGCAA
31093695 CTATTGATGTTGAAG
1 CTATTGATGTTGAAG
31093710 CTATTGATGTTGAAG
1 CTATTGATGTTGAAG
31093725 CTATTGATG
1 CTATTGATG
31093734 ATGATGTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.41
Consensus pattern (15 bp):
CTATTGATGTTGAAG
Found at i:31093942 original size:120 final size:120
Alignment explanation
Indices: 31093729--31093969 Score: 473
Period size: 120 Copynumber: 2.0 Consensus size: 120
31093719 TTGAAGCTAT
31093729 TGATGATGATGTAATTGAATCTTCCGCTATAGCATTCGCAGCGGTATGCAGTTCTTGTTCAATAG
1 TGATGATGATGTAATTGAATCTTCCGCTATAGCATTCGCAGCGGTATGCAGTTCTTGTTCAATAG
31093794 TATTTTGTTTTCACATTAACTGTACATTAAACTTGTCTTTATGGATTCATTTGCA
66 TATTTTGTTTTCACATTAACTGTACATTAAACTTGTCTTTATGGATTCATTTGCA
*
31093849 TGATGGTGATGTAATTGAATCTTCCGCTATAGCATTCGCAGCGGTATGCAGTTCTTGTTCAATAG
1 TGATGATGATGTAATTGAATCTTCCGCTATAGCATTCGCAGCGGTATGCAGTTCTTGTTCAATAG
31093914 TATTTTGTTTTCACATTAACTGTACATTAAACTTGTCTTTATGGATTCATTTGCA
66 TATTTTGTTTTCACATTAACTGTACATTAAACTTGTCTTTATGGATTCATTTGCA
31093969 T
1 T
31093970 TATGTAGACT
Statistics
Matches: 120, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (120 bp):
TGATGATGATGTAATTGAATCTTCCGCTATAGCATTCGCAGCGGTATGCAGTTCTTGTTCAATAG
TATTTTGTTTTCACATTAACTGTACATTAAACTTGTCTTTATGGATTCATTTGCA
Found at i:31102944 original size:69 final size:69
Alignment explanation
Indices: 31102833--31103371 Score: 639
Period size: 69 Copynumber: 7.8 Consensus size: 69
31102823 ACAACATTTA
* * * * * *
31102833 TGTCATACTAAGGTTCACAGGATAAAAATTGCAGCCTTCAACACAGTTAGTGATAGCAAAGCTCC
1 TGTCATACTAAGGCTCGCAGGATAAAAATCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCC
*
31102898 CAGT
66 CAGC
* * * * *
31102902 TGTCATATTAAGGTTCACAGGATAAAAATCGCAGCCTGCAACACAGTTAGCAAGAGCAAAGCTCC
1 TGTCATACTAAGGCTCGCAGGATAAAAATCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCC
* *
31102967 TACC
66 CAGC
* * ** * *
31102971 TATCATACTAAGGCTCGCAGGATAAAAACCATAGCCTCCAACATAGTTAGCAAGAGCAAAGCTCC
1 TGTCATACTAAGGCTCGCAGGATAAAAATCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCC
31103036 CAGC
66 CAGC
* * * * *
31103040 TATCACACTAAGGCTCGCAGGATAAAAACCGCAGCCTCCAACACAATTAGTGAGAGCAAAGCTCC
1 TGTCATACTAAGGCTCGCAGGATAAAAATCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCC
*
31103105 CAAC
66 CAGC
* * * * * * *
31103109 TGTCACACTAAAGCTCGCAGGATAAAAACCGCAGCCTCCAACATAATTTGTGAGAGCAAAGCTCC
1 TGTCATACTAAGGCTCGCAGGATAAAAATCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCC
* *
31103174 TAGT
66 CAGC
** *
31103178 TGTCATACTAAGGCTCGCAGGATAAAAATCATAGCCTCTAACACAGTTAGCGAGAGCAAAGCTCC
1 TGTCATACTAAGGCTCGCAGGATAAAAATCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCC
*
31103243 CAGT
66 CAGC
* * *
31103247 TGTCATAGTAAGGCTTGCAGGATAAAAAGT-GTAGCCTCCAACACAGTTAGCGAGAGCAAAGCTC
1 TGTCATACTAAGGCTCGCAGGATAAAAA-TCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTC
*
31103311 CTAGC
65 CCAGC
* * * *
31103316 TGTCATACTAAGGCTCGCAGGATAAAGATCGCATCCTCCAACATAGTTAGTGAGAG
1 TGTCATACTAAGGCTCGCAGGATAAAAATCGCAGCCTCCAACACAGTTAGCGAGAG
31103372 TTAAAAACTT
Statistics
Matches: 409, Mismatches: 59, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
68 1 0.00
69 407 1.00
70 1 0.00
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (69 bp):
TGTCATACTAAGGCTCGCAGGATAAAAATCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCC
CAGC
Found at i:31103194 original size:207 final size:207
Alignment explanation
Indices: 31102839--31103371 Score: 715
Period size: 207 Copynumber: 2.6 Consensus size: 207
31102829 TTTATGTCAT
* * * * * *
31102839 ACTAAGGTTCACAGGATAAAAATTGCAGCCTTCAACACAGTTAGTGATAGCAAAGCTCCCAGTTG
1 ACTAAGGCTCGCAGGATAAAAACTGCAGCCTCCAACACAGTTAGTGAGAGCAAAGCTCCCAGCTG
* * * * * **
31102904 TCATATTAAGGTTCACAGGATAAAAATCGCAGCCTGCAACACAGTTAGCAAGAGCAAAGCTCCTA
66 TCATACTAAGGCTCGCAGGATAAAAATCGCAGCCTCCAACATAGTTAGTGAGAGCAAAGCTCCTA
*
31102969 CCTATCATACTAAGGCTCGCAGGATAAAAACCATAGCCTCCAACATAGTTAGCAAGAGCAAAGCT
131 CCTATCATACTAAGGCTCGCAGGATAAAAACCATAGCCTCCAACACAGTTAGCAAGAGCAAAGCT
31103034 CCCAGCTATCAC
196 CCCAGCTATCAC
* * *
31103046 ACTAAGGCTCGCAGGATAAAAACCGCAGCCTCCAACACAATTAGTGAGAGCAAAGCTCCCAACTG
1 ACTAAGGCTCGCAGGATAAAAACTGCAGCCTCCAACACAGTTAGTGAGAGCAAAGCTCCCAGCTG
* * * * *
31103111 TCACACTAAAGCTCGCAGGATAAAAACCGCAGCCTCCAACATAATTTGTGAGAGCAAAGCTCCTA
66 TCATACTAAGGCTCGCAGGATAAAAATCGCAGCCTCCAACATAGTTAGTGAGAGCAAAGCTCCTA
** * * * *
31103176 GTTGTCATACTAAGGCTCGCAGGATAAAAATCATAGCCTCTAACACAGTTAGCGAGAGCAAAGCT
131 CCTATCATACTAAGGCTCGCAGGATAAAAACCATAGCCTCCAACACAGTTAGCAAGAGCAAAGCT
* * *
31103241 CCCAGTTGTCAT
196 CCCAGCTATCAC
* * * * * *
31103253 AGTAAGGCTTGCAGGATAAAAAGTGTAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCTAGCTG
1 ACTAAGGCTCGCAGGATAAAAACTGCAGCCTCCAACACAGTTAGTGAGAGCAAAGCTCCCAGCTG
* *
31103318 TCATACTAAGGCTCGCAGGATAAAGATCGCATCCTCCAACATAGTTAGTGAGAG
66 TCATACTAAGGCTCGCAGGATAAAAATCGCAGCCTCCAACATAGTTAGTGAGAG
31103372 TTAAAAACTT
Statistics
Matches: 279, Mismatches: 47, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
207 279 1.00
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (207 bp):
ACTAAGGCTCGCAGGATAAAAACTGCAGCCTCCAACACAGTTAGTGAGAGCAAAGCTCCCAGCTG
TCATACTAAGGCTCGCAGGATAAAAATCGCAGCCTCCAACATAGTTAGTGAGAGCAAAGCTCCTA
CCTATCATACTAAGGCTCGCAGGATAAAAACCATAGCCTCCAACACAGTTAGCAAGAGCAAAGCT
CCCAGCTATCAC
Found at i:31106759 original size:22 final size:22
Alignment explanation
Indices: 31106734--31106792 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
31106724 TAGAGTTCAC
* *
31106734 AGAGAATGTCAGTACTAGGGAT
1 AGAGAATGTCAATACTAGAGAT
* *
31106756 AGAGAATGTCAATATTAGAGCT
1 AGAGAATGTCAATACTAGAGAT
31106778 AGAGAATGTCAATAC
1 AGAGAATGTCAATAC
31106793 GAAAGGCAGC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.41, C:0.10, G:0.25, T:0.24
Consensus pattern (22 bp):
AGAGAATGTCAATACTAGAGAT
Found at i:31128331 original size:29 final size:29
Alignment explanation
Indices: 31128298--31128388 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 29
31128288 TGAACTTGCT
31128298 AAAGGACAACCTTTGTGGAAAAACTCTAG
1 AAAGGACAACCTTTGTGGAAAAACTCTAG
* ** *
31128327 AAAGGTA-AGCCTTTGTGGTGAATCTGCT--
1 AAAGG-ACAACCTTTGTGGAAAAACT-CTAG
** * *
31128355 AAAGGACAATATTTGTAGCAAAACTCTAG
1 AAAGGACAACCTTTGTGGAAAAACTCTAG
31128384 AAAGG
1 AAAGG
31128389 TAAGACTTTA
Statistics
Matches: 46, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
27 3 0.07
28 16 0.35
29 24 0.52
30 3 0.07
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (29 bp):
AAAGGACAACCTTTGTGGAAAAACTCTAG
Found at i:31128355 original size:57 final size:57
Alignment explanation
Indices: 31128276--31128406 Score: 183
Period size: 57 Copynumber: 2.3 Consensus size: 57
31128266 TAGAAAAGAA
* *
31128276 AAGCCTTTGTGGTGAACTTGCTAAAGGACAACCTTTGTGGAAAAACTCTAGAAAGGT
1 AAGCCTTTGTGGTGAACTTGCTAAAGGACAACATTTGTAGAAAAACTCTAGAAAGGT
* *
31128333 AAGCCTTTGTGGTGAA-TCTGCTAAAGGACAATATTTGTAGCAAAACTCTAGAAAGGT
1 AAGCCTTTGTGGTGAACT-TGCTAAAGGACAACATTTGTAGAAAAACTCTAGAAAGGT
* * *
31128390 AAGACTTTATGGCGAAC
1 AAGCCTTTGTGGTGAAC
31128407 CTTTCAAAGA
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
56 1 0.02
57 64 0.98
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (57 bp):
AAGCCTTTGTGGTGAACTTGCTAAAGGACAACATTTGTAGAAAAACTCTAGAAAGGT
Found at i:31129034 original size:63 final size:63
Alignment explanation
Indices: 31128955--31129080 Score: 243
Period size: 63 Copynumber: 2.0 Consensus size: 63
31128945 GAATTGATAG
*
31128955 TACCTTGAAGTAAGGAAGATCTAAGTGAACTTTGTGTGAAGTAATAGGTGTAGTCTATCTCAC
1 TACCTTGAAGTAAGGAAGATCTAAGTGAACTTTGTGTGAAGTAATAGGTGTAGTCTACCTCAC
31129018 TACCTTGAAGTAAGGAAGATCTAAGTGAACTTTGTGTGAAGTAATAGGTGTAGTCTACCTCAC
1 TACCTTGAAGTAAGGAAGATCTAAGTGAACTTTGTGTGAAGTAATAGGTGTAGTCTACCTCAC
31129081 CCAAAGGTAG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (63 bp):
TACCTTGAAGTAAGGAAGATCTAAGTGAACTTTGTGTGAAGTAATAGGTGTAGTCTACCTCAC
Found at i:31136576 original size:50 final size:50
Alignment explanation
Indices: 31136501--31136642 Score: 176
Period size: 50 Copynumber: 2.8 Consensus size: 50
31136491 TTTTCTGTAC
* * **
31136501 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGG
* * ** * *
31136551 TGCCCATGCCATGTCCCATACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGG
* *
31136601 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCT
31136643 TTACCCAAAT
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 77 1.00
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGG
Found at i:31137207 original size:155 final size:155
Alignment explanation
Indices: 31136925--31137235 Score: 559
Period size: 155 Copynumber: 2.0 Consensus size: 155
31136915 TTTTTGATCT
*
31136925 ATAATAGCAAATTTAGCTTACTTAATACTCACATTCATAAAAACAGTCCTTGACCCAATTTTGGC
1 ATAATAGCAAATTTAGCTTACTTAATACTCACATTCATAAAAACAGTCATTGACCCAATTTTGGC
* *
31136990 AAAATTACAGTTTTGCCCCTAAACTTTTGCATATTTACACCTTTACCCGAAAGCTCAAAAATTAA
66 AAAATTACAGTTTTGCCCCTAAACATTTGCATATTTACACCTTTACCCCAAAGCTCAAAAATTAA
* *
31137055 ACTTTATCTCTTATTATGTTTTATA
131 AATTCATCTCTTATTATGTTTTATA
*
31137080 ATAATAGCAAATTTAGCTTACTTAATACTCACATTCATAAAAACAGTCATTGACTCAATTTTGGC
1 ATAATAGCAAATTTAGCTTACTTAATACTCACATTCATAAAAACAGTCATTGACCCAATTTTGGC
*
31137145 AAATTTACAGTTTTGCCCCTAAACATTTGCATATTTACACCTTTACCCCAAAGCTCAAAAATTAA
66 AAAATTACAGTTTTGCCCCTAAACATTTGCATATTTACACCTTTACCCCAAAGCTCAAAAATTAA
31137210 AATTCATCTCTTATTATGTTTTATA
131 AATTCATCTCTTATTATGTTTTATA
31137235 A
1 A
31137236 CATGCTGAAC
Statistics
Matches: 149, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
155 149 1.00
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.37
Consensus pattern (155 bp):
ATAATAGCAAATTTAGCTTACTTAATACTCACATTCATAAAAACAGTCATTGACCCAATTTTGGC
AAAATTACAGTTTTGCCCCTAAACATTTGCATATTTACACCTTTACCCCAAAGCTCAAAAATTAA
AATTCATCTCTTATTATGTTTTATA
Found at i:31144286 original size:100 final size:100
Alignment explanation
Indices: 31144169--31144402 Score: 292
Period size: 100 Copynumber: 2.3 Consensus size: 100
31144159 TTTTCTATAC
* * * * * *
31144169 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATAT-T-GGTGCCCATGCTATA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGA-A-ATCTCATATGTCGGTGCCAACGCCATA
*
31144232 TCCAAGACATGGTCTTACGGGGGACCTCTCATCTCGG
64 TCCAAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
31144269 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAAATCTCTTATGTCGGTGCCAACGCCATGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAAATCTCATATGTCGGTGCCAACGCCATATC
* * *
31144334 CCAGACATGGTCTTACATGGGACCTCTTATCTCGG
66 CAAGACATGGTCTTACAGGGGACCTCTCATCTCGG
** *
31144369 TGCCAATTTCATGTCCCAGACATTGTCTTACATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
31144403 GGACCTCTTT
Statistics
Matches: 115, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
98 7 0.06
99 2 0.02
100 106 0.92
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (100 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGAAATCTCATATGTCGGTGCCAACGCCATATC
CAAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:31144403 original size:50 final size:50
Alignment explanation
Indices: 31144130--31144411 Score: 262
Period size: 50 Copynumber: 5.7 Consensus size: 50
31144120 CCATGTCTGG
* * * *** *
31144130 ATGTCTCAGACATGGTCTTACATGGGA--TGTTTTCTATACTGCCAATGCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTTATCT-CGGTGCCAACGCC
* * * ** * * * * * *
31144179 ATATCCCAGATATGGTCTTACATGAGAGTTCTCATATTGGTGCCCATGCT
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCC
* * ** *
31144229 ATATCCAAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCC
** * *
31144279 ATGTCCCAGACATGGTCTTACATGAAATCTCTTATGTCGGTGCCAACGCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCC
***
31144329 ATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAATTTC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCC
*
31144379 ATGTCCCAGACATTGTCTTACATGGGACCTCTT
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTT
31144412 TACCCAAATG
Statistics
Matches: 190, Mismatches: 41, Indels: 3
0.81 0.18 0.01
Matches are distributed among these distances:
49 23 0.12
50 163 0.86
51 4 0.02
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (50 bp):
ATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCC
Found at i:31147512 original size:202 final size:202
Alignment explanation
Indices: 31147158--31147548 Score: 575
Period size: 202 Copynumber: 1.9 Consensus size: 202
31147148 TCTTTAATTG
* **
31147158 AGTCATAAGAACTAATATTTATAGTAATATTTTTAAATGAAAAAATTAGCTCAATTATAGGCAGC
1 AGTCATAAGAACTAATACTTATAGTAATATTTTTAAATGAAAAAATTAGCTCAATTATACACAGC
* * * * *
31147223 TAAACATGTTAATTAAGGCAGTGTGGACGAAAAACATCCTTAGCTTATAATTGGGCCATGTCGGA
66 TAAACATGTTAACTAAGGCAGTGTGGACGAAAAACACCCTCAGCTGATAATTGGGCCATGTCAGA
* ** *
31147288 TGAGTTTTGCGACACTCTATAGTTTTGTGTCACGACATTGAACATCAAATACTCTCATTATTGGT
131 CGAGTTTCACGACACCCTATAGTTTTGTGTCACGACATTGAACATCAAATACTCTCATTATTGGT
31147353 TCAGTTC
196 TCAGTTC
* * * *
31147360 AGTCCTAAGAACTAATACTTATAGTAGTATTTTTAAATGACAAAATTAGCTCAATTATACACTGC
1 AGTCATAAGAACTAATACTTATAGTAATATTTTTAAATGAAAAAATTAGCTCAATTATACACAGC
** * * * *
31147425 TAAACATGTTAACTAAGGTTGTGTGGATGAAAAGCACCCTCAGCTGATAATTGGGCCTTGTTAGA
66 TAAACATGTTAACTAAGGCAGTGTGGACGAAAAACACCCTCAGCTGATAATTGGGCCATGTCAGA
*
31147490 CGAGTTTCACGACACCCTATAGTTTTGTGTCGCGACATTGAACATCAAATACTCTCATT
131 CGAGTTTCACGACACCCTATAGTTTTGTGTCACGACATTGAACATCAAATACTCTCATT
31147549 TTTTTGTTCA
Statistics
Matches: 166, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
202 166 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Consensus pattern (202 bp):
AGTCATAAGAACTAATACTTATAGTAATATTTTTAAATGAAAAAATTAGCTCAATTATACACAGC
TAAACATGTTAACTAAGGCAGTGTGGACGAAAAACACCCTCAGCTGATAATTGGGCCATGTCAGA
CGAGTTTCACGACACCCTATAGTTTTGTGTCACGACATTGAACATCAAATACTCTCATTATTGGT
TCAGTTC
Found at i:31156163 original size:20 final size:20
Alignment explanation
Indices: 31156126--31156163 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
31156116 TTTAAAATAA
*
31156126 TATAAAAATTTTGAAAAAGC
1 TATAAAAATTTTAAAAAAGC
*
31156146 TATAATAATTTTAAAAAA
1 TATAAAAATTTTAAAAAA
31156164 AGTATTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (20 bp):
TATAAAAATTTTAAAAAAGC
Found at i:31157075 original size:7 final size:7
Alignment explanation
Indices: 31157063--31157151 Score: 142
Period size: 7 Copynumber: 12.1 Consensus size: 7
31157053 GCTTAGTGTA
31157063 TTAGGGT
1 TTAGGGT
31157070 TTAGGGT
1 TTAGGGT
31157077 TTAGGGTT
1 TTAGGG-T
31157085 TTAGGGTT
1 TTAGGG-T
31157093 TTAGGGT
1 TTAGGGT
31157100 TTAGGGT
1 TTAGGGT
31157107 TTAGGGTT
1 TTAGGG-T
31157115 TTAGGGT
1 TTAGGGT
31157122 TTAGGGTT
1 TTAGGG-T
31157130 TTAGGGT
1 TTAGGGT
31157137 TTAGGGT
1 TTAGGGT
31157144 TTAGGGT
1 TTAGGGT
31157151 T
1 T
31157152 CTTAGGAAAG
Statistics
Matches: 79, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
7 50 0.63
8 29 0.37
ACGTcount: A:0.13, C:0.00, G:0.40, T:0.46
Consensus pattern (7 bp):
TTAGGGT
Found at i:31157087 original size:15 final size:14
Alignment explanation
Indices: 31157063--31157151 Score: 142
Period size: 15 Copynumber: 6.1 Consensus size: 14
31157053 GCTTAGTGTA
31157063 TTAGGGTTTAGGGT
1 TTAGGGTTTAGGGT
31157077 TTAGGGTTTTAGGGTT
1 TTAGGG-TTTAGGG-T
31157093 TTAGGGTTTAGGGT
1 TTAGGGTTTAGGGT
31157107 TTAGGGTTTTAGGGT
1 TTAGGG-TTTAGGGT
31157122 TTAGGGTTTTAGGGT
1 TTAGGG-TTTAGGGT
31157137 TTAGGGTTTAGGGT
1 TTAGGGTTTAGGGT
31157151 T
1 T
31157152 CTTAGGAAAG
Statistics
Matches: 72, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
14 22 0.31
15 43 0.60
16 7 0.10
ACGTcount: A:0.13, C:0.00, G:0.40, T:0.46
Consensus pattern (14 bp):
TTAGGGTTTAGGGT
Found at i:31157088 original size:22 final size:23
Alignment explanation
Indices: 31157063--31157157 Score: 160
Period size: 22 Copynumber: 4.2 Consensus size: 23
31157053 GCTTAGTGTA
31157063 TTAGGG-TTTAGGGTTTAGGGTT
1 TTAGGGTTTTAGGGTTTAGGGTT
31157085 TTAGGGTTTTAGGGTTTAGGG-T
1 TTAGGGTTTTAGGGTTTAGGGTT
31157107 TTAGGGTTTTAGGGTTTAGGGTT
1 TTAGGGTTTTAGGGTTTAGGGTT
31157130 TTAGGG-TTTAGGGTTTAGGGTT
1 TTAGGGTTTTAGGGTTTAGGGTT
31157152 CTTAGG
1 -TTAGG
31157158 AAAGTAATGA
Statistics
Matches: 70, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
22 44 0.63
23 26 0.37
ACGTcount: A:0.14, C:0.01, G:0.40, T:0.45
Consensus pattern (23 bp):
TTAGGGTTTTAGGGTTTAGGGTT
Found at i:31172053 original size:2 final size:2
Alignment explanation
Indices: 31172046--31172074 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
31172036 AAGTCTTGGG
31172046 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
31172075 GAGGGGGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:31172516 original size:15 final size:16
Alignment explanation
Indices: 31172490--31172519 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
31172480 TAATCAAATT
31172490 TTTTTGATTTAATTGA
1 TTTTTGATTTAATTGA
31172506 TTTTTGA-TTAATTG
1 TTTTTGATTTAATTG
31172520 GTTACCTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.63
Consensus pattern (16 bp):
TTTTTGATTTAATTGA
Found at i:31173907 original size:38 final size:38
Alignment explanation
Indices: 31173785--31173913 Score: 102
Period size: 40 Copynumber: 3.3 Consensus size: 38
31173775 CGTTTGAACA
* *
31173785 AAAAACGCCGCTATAGATCGAGAATTAGCGGCGCTTTTTG
1 AAAAATGCCGCTATAGATC-A-CATTAGCGGCGCTTTTTG
* * * * *
31173825 -AAAATCACCGCTATAGATCAAGCATTAGCGGTGGTTTCTA
1 AAAAAT-GCCGCTATAGATC-A-CATTAGCGGCGCTTTTTG
31173865 AAAAATGCCGCTATATG-TGC-CATTAGCGGCGCTTTTTG
1 AAAAATGCCGCTATA-GAT-CACATTAGCGGCGCTTTTTG
*
31173903 AAAAACGCCGC
1 AAAAATGCCGC
31173914 AAAAAAGAAG
Statistics
Matches: 71, Mismatches: 14, Indels: 10
0.75 0.15 0.11
Matches are distributed among these distances:
38 24 0.34
39 4 0.06
40 36 0.51
41 7 0.10
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (38 bp):
AAAAATGCCGCTATAGATCACATTAGCGGCGCTTTTTG
Found at i:31174127 original size:40 final size:40
Alignment explanation
Indices: 31173947--31174180 Score: 188
Period size: 40 Copynumber: 5.8 Consensus size: 40
31173937 AGCTTTAGTG
* *
31173947 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCACTATAGATCAA
*** * * * *
31173987 GCATTAGTATCACTTTCTGAAAAACGCCGCTATAGGTC-A
1 GCATTAGCGGCGCTTTTTGAAAAACGCCACTATAGATCAA
* * * *
31174026 CCATTAGCGGTGCTTTTTGAAAAACGCCATCGT-T-GAACTTTAGTG
1 GCATTAGCGGCGCTTTTTGAAAAACGCCA-C-TATAG-A--TCA--A
*
31174071 GCATTAGCGGCGCTTTTTGAAAAACACCACTATAGATCAA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCACTATAGATCAA
* * * * *
31174111 GCATTAGTGGCACTTTTTGAAAAACGTCGCTATAAGA-CGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCACTAT-AGATCAA
*
31174151 CCATTAGCGGCGCTTTTTGAAAAACGCCAC
1 GCATTAGCGGCGCTTTTTGAAAAACGCCAC
31174181 AAAAATTAAG
Statistics
Matches: 150, Mismatches: 33, Indels: 22
0.73 0.16 0.11
Matches are distributed among these distances:
39 23 0.15
40 89 0.59
41 4 0.03
42 3 0.02
43 1 0.01
44 3 0.02
45 27 0.18
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.27
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTGAAAAACGCCACTATAGATCAA
Found at i:31175340 original size:20 final size:20
Alignment explanation
Indices: 31175315--31175353 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
31175305 GTCACAGTTG
31175315 TCCTTCAATTCTCTATATTT
1 TCCTTCAATTCTCTATATTT
*
31175335 TCCTTCAATTCTCTTTATT
1 TCCTTCAATTCTCTATATT
31175354 CCAACTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.26, G:0.00, T:0.56
Consensus pattern (20 bp):
TCCTTCAATTCTCTATATTT
Found at i:31177952 original size:47 final size:47
Alignment explanation
Indices: 31177899--31178042 Score: 186
Period size: 47 Copynumber: 3.1 Consensus size: 47
31177889 CTTTGGATCT
*
31177899 TAACTTAATAACTTATATATATCATATCATAACATACATAACTCACA
1 TAACTTAATAACTTATATATATTATATCATAACATACATAACTCACA
* **
31177946 TAACTTAGTAACTTATATATATTATATCATAATTTACATAACTCACA
1 TAACTTAATAACTTATATATATTATATCATAACATACATAACTCACA
* *
31177993 TAACTTACATAACTTA-ATA-ACTTATAT-ATATCATATCATAACTTACA
1 TAACTTA-ATAACTTATATATA-TTATATCATAACATA-CATAACTCACA
31178040 TAA
1 TAA
31178043 ATAAATTATA
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
46 6 0.07
47 72 0.85
48 7 0.08
ACGTcount: A:0.45, C:0.17, G:0.01, T:0.38
Consensus pattern (47 bp):
TAACTTAATAACTTATATATATTATATCATAACATACATAACTCACA
Found at i:31177986 original size:56 final size:56
Alignment explanation
Indices: 31177926--31178042 Score: 182
Period size: 56 Copynumber: 2.1 Consensus size: 56
31177916 TATATCATAT
* * *
31177926 CATAACAT-ACATAACTCACATAACTTAGTAACTTATATATATTATATCATAATTTA
1 CATAAC-TCACATAACTCACATAACTTAATAACTTATATATATCATATCATAACTTA
*
31177982 CATAACTCACATAACTTACATAACTTAATAACTTATATATATCATATCATAACTTA
1 CATAACTCACATAACTCACATAACTTAATAACTTATATATATCATATCATAACTTA
31178038 CATAA
1 CATAA
31178043 ATAAATTATA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
55 1 0.02
56 55 0.98
ACGTcount: A:0.45, C:0.18, G:0.01, T:0.36
Consensus pattern (56 bp):
CATAACTCACATAACTCACATAACTTAATAACTTATATATATCATATCATAACTTA
Found at i:31178014 original size:8 final size:9
Alignment explanation
Indices: 31177774--31178042 Score: 134
Period size: 9 Copynumber: 28.6 Consensus size: 9
31177764 AAATATATAT
31177774 CATAACTTA
1 CATAACTTA
31177783 CATAACTTA
1 CATAACTTA
*
31177792 CATAACTTG
1 CATAACTTA
*
31177801 CATAATTTA
1 CATAACTTA
31177810 CATAACTTA
1 CATAACTTA
*
31177819 CATAA-ATA
1 CATAACTTA
* * *
31177827 TATATCATA
1 CATAACTTA
*
31177836 TCAAAACTTA
1 -CATAACTTA
31177846 CATAACTTA
1 CATAACTTA
*
31177855 CATAATTTA
1 CATAACTTA
31177864 CATAACTTTA
1 CATAAC-TTA
* *
31177874 AAGAA-TTAAA
1 CATAACTT--A
* *
31177884 AAAAACTTTGGA
1 CATAAC-TT--A
*
31177896 TCTTAACTTA
1 -CATAACTTA
31177906 -ATAACTTA
1 CATAACTTA
* *
31177914 TATATATCATA
1 CATA-A-CTTA
*
31177925 TCATAACATA
1 -CATAACTTA
*
31177935 CATAACTCA
1 CATAACTTA
31177944 CATAACTTA
1 CATAACTTA
*
31177953 -GTAACTTA
1 CATAACTTA
* *
31177961 TATATATTATA
1 CATA-ACT-TA
*
31177972 TCATAATTTA
1 -CATAACTTA
*
31177982 CATAACTCA
1 CATAACTTA
31177991 CATAACTTA
1 CATAACTTA
31178000 CATAACTTA
1 CATAACTTA
31178009 -ATAACTTA
1 CATAACTTA
* *
31178017 TATATATCATA
1 CATA-A-CTTA
31178028 TCATAACTTA
1 -CATAACTTA
31178038 CATAA
1 CATAA
31178043 ATAAATTATA
Statistics
Matches: 202, Mismatches: 38, Indels: 40
0.72 0.14 0.14
Matches are distributed among these distances:
8 29 0.14
9 113 0.56
10 30 0.15
11 13 0.06
12 14 0.07
13 3 0.01
ACGTcount: A:0.46, C:0.16, G:0.02, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:31183760 original size:43 final size:43
Alignment explanation
Indices: 31183713--31183954 Score: 249
Period size: 43 Copynumber: 5.5 Consensus size: 43
31183703 GAACGGTACT
* * *
31183713 TTTAGCGGCGTTTGTGAAAAAAGCATCGCTAAAGGTCATATTC
1 TTTAGCGGCGTTTGTGATAAAAGCGTCGCTAAAGGTCATGTTC
* *
31183756 TTTAGCGACGTTTGTGA-AAAAGGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGATAAAA-GCGTCGCTAAAGGTCATGTTC
*
31183799 TTTAGCGGTAGTGGCTTTTGTGATAAAAGCGTCGCTAAAGGTCATGTTC
1 TTTAGC------GGCGTTTGTGATAAAAGCGTCGCTAAAGGTCATGTTC
* * * *
31183848 TGTAGCAGCGTTTGTGACAAAAGCGTCGCAAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGTCGCTAAAGGTCATGTTC
** * * *
31183891 TTTAGCGGCGCTTT-TCTTTAAAGC--CGCTAAAGGTCATGATA
1 TTTAGCGGCG-TTTGTGATAAAAGCGTCGCTAAAGGTCATGTTC
31183932 TTTAGCGGCGTTTGTGATAAAAG
1 TTTAGCGGCGTTTGTGATAAAAG
31183955 TACCGTTAAA
Statistics
Matches: 165, Mismatches: 24, Indels: 22
0.78 0.11 0.10
Matches are distributed among these distances:
40 3 0.02
41 30 0.18
42 4 0.02
43 87 0.53
44 3 0.02
49 34 0.21
50 4 0.02
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGATAAAAGCGTCGCTAAAGGTCATGTTC
Found at i:31183836 original size:92 final size:92
Alignment explanation
Indices: 31183723--31183898 Score: 266
Period size: 92 Copynumber: 1.9 Consensus size: 92
31183713 TTTAGCGGCG
* *
31183723 TTTGTGAAAAAAGCATCGCTAAAGGTCATATTCTTTAGC-GACGTTTGTGA-AAAAGGCGCCGCT
1 TTTGTGAAAAAAGCATCGCTAAAGGTCATATTCTGTAGCAG-CGTTTGTGACAAAA-GCGCCGCA
31183786 AAAGGTCATGTTCTTTAGCGGTAGTGGCT
64 AAAGGTCATGTTCTTTAGCGGTAGTGGCT
* * * *
31183815 TTTGTGATAAAAGCGTCGCTAAAGGTCATGTTCTGTAGCAGCGTTTGTGACAAAAGCGTCGCAAA
1 TTTGTGAAAAAAGCATCGCTAAAGGTCATATTCTGTAGCAGCGTTTGTGACAAAAGCGCCGCAAA
31183880 AGGTCATGTTCTTTAGCGG
66 AGGTCATGTTCTTTAGCGG
31183899 CGCTTTTCTT
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
92 71 0.93
93 5 0.07
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (92 bp):
TTTGTGAAAAAAGCATCGCTAAAGGTCATATTCTGTAGCAGCGTTTGTGACAAAAGCGCCGCAAA
AGGTCATGTTCTTTAGCGGTAGTGGCT
Found at i:31185541 original size:92 final size:92
Alignment explanation
Indices: 31185376--31185619 Score: 287
Period size: 92 Copynumber: 2.6 Consensus size: 92
31185366 GCTACATGTT
* * * *
31185376 GTGTAGGTTCAACCCTGACGGGTAACCAGGCACTATTATCTGATTCATGTTGGTTCAA-CTATAA
1 GTGTAGGTTCAACCCTAACGGGT-ACTAGGCACTATTATTTGATTCATGTAGGTTCAACCTATAA
*
31185440 CGAGTGACCA-AGCACTATTATCCGATTC
65 CGAGAGACCAGA-CACTATTATCCGATTC
*
31185468 GTGTGGGTTCAACCCTAACGGGTGACTAGGCACTATTATTTGATTCATGTAGGTTCAACCT-TAA
1 GTGTAGGTTCAACCCTAACGGGT-ACTAGGCACTATTATTTGATTCATGTAGGTTCAACCTATAA
* * *
31185532 CGGGAGACCAGACACTATTATCTGATTT
65 CGAGAGACCAGACACTATTATCCGATTC
* * * * * * *
31185560 GTGTAGGTTTAACCCAAACGGGTAATCAGGAACTATTATTCGATTCGTGTAGGTTTAACC
1 GTGTAGGTTCAACCCTAACGGGTACT-AGGCACTATTATTTGATTCATGTAGGTTCAACC
31185620 CAAATAAGTA
Statistics
Matches: 131, Mismatches: 18, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
91 2 0.02
92 126 0.96
93 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (92 bp):
GTGTAGGTTCAACCCTAACGGGTACTAGGCACTATTATTTGATTCATGTAGGTTCAACCTATAAC
GAGAGACCAGACACTATTATCCGATTC
Found at i:31185580 original size:46 final size:46
Alignment explanation
Indices: 31185376--31185623 Score: 202
Period size: 46 Copynumber: 5.4 Consensus size: 46
31185366 GCTACATGTT
** *
31185376 GTGTAGGTTCAACCCTGACGGGTA-ACCAGGCACTATTATCTGATTC
1 GTGTAGGTTCAACCCAAACGGG-AGACCAGACACTATTATCTGATTC
* * * * * *
31185422 ATGTTGGTTCAA-CTATAACGAGTGACCA-AGCACTATTATCCGATTC
1 GTGTAGGTTCAACCCA-AACGGGAGACCAGA-CACTATTATCTGATTC
* * * * * *
31185468 GTGTGGGTTCAACCCTAACGGGTGACTAGGCACTATTATTTGATTC
1 GTGTAGGTTCAACCCAAACGGGAGACCAGACACTATTATCTGATTC
* ** *
31185514 ATGTAGGTTCAACCTTAACGGGAGACCAGACACTATTATCTGATTT
1 GTGTAGGTTCAACCCAAACGGGAGACCAGACACTATTATCTGATTC
* *
31185560 GTGTAGGTTTAACCCAAACGGGTA-ATCAGGA-ACTATTAT-TCGATTC
1 GTGTAGGTTCAACCCAAACGGG-AGACCA-GACACTATTATCT-GATTC
*
31185606 GTGTAGGTTTAACCCAAA
1 GTGTAGGTTCAACCCAAA
31185624 TAAGTAACTA
Statistics
Matches: 162, Mismatches: 32, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
45 2 0.01
46 156 0.96
47 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (46 bp):
GTGTAGGTTCAACCCAAACGGGAGACCAGACACTATTATCTGATTC
Found at i:31185634 original size:138 final size:138
Alignment explanation
Indices: 31185377--31185643 Score: 304
Period size: 138 Copynumber: 1.9 Consensus size: 138
31185367 CTACATGTTG
* * * *
31185377 TGTAGGTTCAACCCTGACGGGTAACCAGGCACTATTATCTGATTCATGTTGGTTCAACTATAACG
1 TGTAGGTTCAACCCTAACGGGTAACCAGACACTATTATCTGATTCATGTAGGTTCAACCATAACG
* * * * ** * *
31185442 AGTGACCAAGCACTATTATCCGATTCGTGTGGGTTCAACCCTAACGGGTGACTAGGCACTATTAT
66 AGTAACCAAGAACTATTATCCGATTCGTGTAGGTTCAACCCAAACAAGTAACTAGACACTATTAT
31185507 TTGATTCA
131 TTGATTCA
* ** *
31185515 TGTAGGTTCAACCTTAACGGG-AGACCAGACACTATTATCTGATTTGTGTAGGTTTAACCCA-AA
1 TGTAGGTTCAACCCTAACGGGTA-ACCAGACACTATTATCTGATTCATGTAGGTTCAA-CCATAA
* * * * * *
31185578 CGGGTAATCAGGAACTATTATTCGATTCGTGTAGGTTTAACCCAAATAAGTAACTAGACACTATT
64 CGAGTAACCAAGAACTATTATCCGATTCGTGTAGGTTCAACCCAAACAAGTAACTAGACACTATT
31185643 A
129 A
31185644 CTTTCATCTT
Statistics
Matches: 105, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
137 1 0.01
138 102 0.97
139 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (138 bp):
TGTAGGTTCAACCCTAACGGGTAACCAGACACTATTATCTGATTCATGTAGGTTCAACCATAACG
AGTAACCAAGAACTATTATCCGATTCGTGTAGGTTCAACCCAAACAAGTAACTAGACACTATTAT
TTGATTCA
Found at i:31196253 original size:20 final size:20
Alignment explanation
Indices: 31196220--31196259 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
31196210 CCAACCTTCA
*
31196220 AAACTTTTTATTTTCCCCCT
1 AAACTTTTTATTTTCACCCT
31196240 AAAC-TTTTACTTTTCACCCT
1 AAACTTTTTA-TTTTCACCCT
31196260 TTACCCCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (20 bp):
AAACTTTTTATTTTCACCCT
Done.