Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01009860.1 Kokia drynarioides strain JFW-HI SEQ_124593, whole genome shotgun sequence
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: 194328
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Warning! 387 characters in sequence are not A, C, G, or T
Found at i:1600 original size:21 final size:21
Alignment explanation
Indices: 1576--1633 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
1566 ATCTCTAGTA
* *
1576 GTATCATGATACCAAGTATGG
1 GTATCACGATACCAAGCATGG
*
1597 GTATCGCGATACCAAGCATGG
1 GTATCACGATACCAAGCATGG
**
1618 GTATTGCGATACCAAG
1 GTATCACGATACCAAG
1634 ACACCCCAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (21 bp):
GTATCACGATACCAAGCATGG
Found at i:1872 original size:5 final size:5
Alignment explanation
Indices: 1864--1907 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
1854 TTAGTTTAGG
* *
1864 TTTTC TTTTC TTTTC TCTTC TTTTC -TTTC TTTTTC TTGTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC TTTT
1908 TGTTTTTGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
4 4 0.12
5 25 0.76
6 4 0.12
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTTC
Found at i:1907 original size:20 final size:20
Alignment explanation
Indices: 1864--1900 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
1854 TTAGTTTAGG
1864 TTTTCTTTTCTTTTCTCTTC
1 TTTTCTTTTCTTTTCTCTTC
1884 TTTTC-TTTCTTTT-TCTT
1 TTTTCTTTTCTTTTCTCTT
1901 GTCTTTTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 8 0.47
20 5 0.29
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTCTTTTCTTTTCTCTTC
Found at i:2328 original size:30 final size:29
Alignment explanation
Indices: 2285--2358 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 29
2275 TGTGCCGAAT
2285 AGTGAGACTGAGAGGAGATCTATATGCATA
1 AGTGAGAC-GAGAGGAGATCTATATGCATA
* **
2315 GGTGAGATCGAGAGGAGATCTATATGTGTA
1 AGTGAGA-CGAGAGGAGATCTATATGCATA
2345 AGTGAGACCGAGAG
1 AGTGAGA-CGAGAG
2359 AAGAACCTAG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
30 37 0.97
31 1 0.03
ACGTcount: A:0.34, C:0.09, G:0.35, T:0.22
Consensus pattern (29 bp):
AGTGAGACGAGAGGAGATCTATATGCATA
Found at i:6440 original size:24 final size:22
Alignment explanation
Indices: 6393--6464 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 22
6383 GTTGTTTTGA
6393 TGCTGTTTTTTACTATTTTGGT
1 TGCTGTTTTTTACTATTTTGGT
* *
6415 TGCTATTTTTTACTGTTTTGGTGT
1 TGCTGTTTTTTACTATTTT-G-GT
* *
6439 TGTTGTTTTTTTTACTTTTTTGGT
1 TGCTG--TTTTTTACTATTTTGGT
6463 TG
1 TG
6465 TTATTTTGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
22 17 0.41
23 1 0.02
24 9 0.22
25 1 0.02
26 13 0.32
ACGTcount: A:0.07, C:0.07, G:0.19, T:0.67
Consensus pattern (22 bp):
TGCTGTTTTTTACTATTTTGGT
Found at i:6447 original size:22 final size:21
Alignment explanation
Indices: 6385--6447 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
6375 TTTATATTGT
*
6385 TGTTTTGATGCTGTTTTTTAC
1 TGTTTTGGTGCTGTTTTTTAC
* *
6406 TATTTTGGTTGCTATTTTTTAC
1 TGTTTTGG-TGCTGTTTTTTAC
*
6428 TGTTTTGGTGTTGTTGTTTT
1 TGTTTTGGTGCTGTT-TTTT
6448 TTTTACTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
21 11 0.32
22 23 0.68
ACGTcount: A:0.08, C:0.06, G:0.21, T:0.65
Consensus pattern (21 bp):
TGTTTTGGTGCTGTTTTTTAC
Found at i:6465 original size:24 final size:24
Alignment explanation
Indices: 6398--6471 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 24
6388 TTTGATGCTG
* *
6398 TTTTTTACTATTTTGGTTGCTA--
1 TTTTTTACTTTTTTGGTTGTTATT
* *
6420 TTTTTTACTGTTTTGGTGTTGTTGTT
1 TTTTTTACT-TTTTTG-GTTGTTATT
6446 TTTTTTACTTTTTTGGTTGTTATT
1 TTTTTTACTTTTTTGGTTGTTATT
6470 TT
1 TT
6472 GGTGCTATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
22 9 0.21
23 4 0.10
24 15 0.36
25 5 0.12
26 9 0.21
ACGTcount: A:0.08, C:0.05, G:0.16, T:0.70
Consensus pattern (24 bp):
TTTTTTACTTTTTTGGTTGTTATT
Found at i:6514 original size:12 final size:12
Alignment explanation
Indices: 6497--6618 Score: 83
Period size: 12 Copynumber: 10.5 Consensus size: 12
6487 CTGTTTTGAC
6497 GTTGTTATTTTT
1 GTTGTTATTTTT
*
6509 GTTGTTGTTTTT
1 GTTGTTATTTTT
* * *
6521 ATCGCTATTTTT
1 GTTGTTATTTTT
* *
6533 GCTATTATTTTT
1 GTTGTTATTTTT
* *
6545 GTTGCTGTTTTT
1 GTTGTTATTTTT
* *
6557 ATTGCTA-TTTT
1 GTTGTTATTTTT
6568 GTTG---TTTTT
1 GTTGTTATTTTT
6577 GTTGTTATTTTT
1 GTTGTTATTTTT
* *
6589 ATTGCTA-TTTT
1 GTTGTTATTTTT
*
6600 GATTGTTATTTTG
1 G-TTGTTATTTTT
6613 GTTGTT
1 GTTGTT
6619 TGAATGTTAT
Statistics
Matches: 82, Mismatches: 22, Indels: 12
0.71 0.19 0.10
Matches are distributed among these distances:
9 8 0.10
11 11 0.13
12 59 0.72
13 4 0.05
ACGTcount: A:0.10, C:0.05, G:0.17, T:0.68
Consensus pattern (12 bp):
GTTGTTATTTTT
Found at i:6520 original size:36 final size:32
Alignment explanation
Indices: 6438--6619 Score: 96
Period size: 36 Copynumber: 5.3 Consensus size: 32
6428 TGTTTTGGTG
*
6438 TTGTTGTTTTTTTTACTTTTTTGGTTGTTATT
1 TTGTTGTTTTTTTTACTGTTTTGGTTGTTATT
*
6470 TTGGTGCTATTTTTTTACTGTTTTGACGTTGTTATTT
1 TTGTTG-T-TTTTTTTACTGTTTTG--GTTGTTA-TT
* * * * *
6507 TTGTTGTTGTTTTTATCGCTATTTTTGCTATTATTT
1 TTGTTGTT-TTTTT-T-ACTGTTTTGGTTGTTA-TT
* * *
6543 TTGTTGCTGTTTTTATTGCTATTTT-GTTGTTTTT
1 TTGTTG-T-TTTTT-TTACTGTTTTGGTTGTTATT
* * * * *
6577 GTTGTTATTTTTATTGCTATTTTGATTGTTATT
1 -TTGTTGTTTTTTTTACTGTTTTGGTTGTTATT
6610 TTGGTTGTTT
1 TT-GTTGTTT
6620 GAATGTTATT
Statistics
Matches: 120, Mismatches: 16, Indels: 27
0.74 0.10 0.17
Matches are distributed among these distances:
32 17 0.14
33 18 0.15
34 18 0.15
35 10 0.08
36 35 0.29
37 14 0.12
38 8 0.07
ACGTcount: A:0.09, C:0.05, G:0.17, T:0.68
Consensus pattern (32 bp):
TTGTTGTTTTTTTTACTGTTTTGGTTGTTATT
Found at i:6530 original size:60 final size:60
Alignment explanation
Indices: 6405--6544 Score: 144
Period size: 60 Copynumber: 2.4 Consensus size: 60
6395 CTGTTTTTTA
** * * * *
6405 CTATTTTGGTTGCTA-TTTTTTACTGTTTTGGTGTTGTTGTTTTTTTTACTTTTTTGGTTG
1 CTATTTTGG-TGCTATTTTTTTACTGTTTTGACGTTGTTATTTTTGTTACTTTTTTGATCG
* * *
6465 TTATTTTGGTGCTATTTTTTTACTGTTTTGACGTTGTTATTTTTGTT-GTTGTTTTTATCG
1 CTATTTTGGTGCTATTTTTTTACTGTTTTGACGTTGTTATTTTTGTTACTT-TTTTGATCG
6525 CTATTTT--TGCTATTATTTTT
1 CTATTTTGGTGCTATT-TTTTT
6545 GTTGCTGTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
58 7 0.10
59 12 0.18
60 48 0.72
ACGTcount: A:0.09, C:0.07, G:0.17, T:0.66
Consensus pattern (60 bp):
CTATTTTGGTGCTATTTTTTTACTGTTTTGACGTTGTTATTTTTGTTACTTTTTTGATCG
Found at i:6575 original size:20 final size:20
Alignment explanation
Indices: 6550--6619 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 20
6540 TTTTTGTTGC
*
6550 TGTTTTTATTGCTATTTTGT
1 TGTTTTTATTGTTATTTTGT
* *
6570 TGTTTTTGTTGTTATTTTTAT
1 TGTTTTTATTGTTA-TTTTGT
6591 TGCTATTTTGATTGTTATTTTGGT
1 TG-T-TTTT-ATTGTTATTTT-GT
6615 TGTTT
1 TGTTT
6620 GAATGTTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
20 12 0.30
21 7 0.17
22 3 0.08
23 9 0.22
24 9 0.22
ACGTcount: A:0.10, C:0.03, G:0.17, T:0.70
Consensus pattern (20 bp):
TGTTTTTATTGTTATTTTGT
Found at i:6585 original size:44 final size:45
Alignment explanation
Indices: 6528--6619 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 45
6518 TTTATCGCTA
* * *
6528 TTTTTGCTATTATTTTTGTTGCTGTTTTTATTGCTATTTT-GTTG
1 TTTTTGCTATTATTTTTATTGCTATTTTGATTGCTATTTTGGTTG
* * *
6572 TTTTTGTTGTTATTTTTATTGCTATTTTGATTGTTATTTTGGTTG
1 TTTTTGCTATTATTTTTATTGCTATTTTGATTGCTATTTTGGTTG
6617 TTT
1 TTT
6620 GAATGTTATT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
44 34 0.83
45 7 0.17
ACGTcount: A:0.10, C:0.04, G:0.16, T:0.70
Consensus pattern (45 bp):
TTTTTGCTATTATTTTTATTGCTATTTTGATTGCTATTTTGGTTG
Found at i:6627 original size:44 final size:43
Alignment explanation
Indices: 6528--6632 Score: 113
Period size: 44 Copynumber: 2.4 Consensus size: 43
6518 TTTATCGCTA
* * * * *
6528 TTTTTGCTATTATTTTTGTTGCTGTTTTTATTGCTATTTTGTTG
1 TTTTTGATGTTATTTTTATTGCTATTTTGATTGCTATTTTG-TG
* *
6572 TTTTTGTTGTTATTTTTATTGCTATTTTGATTGTTATTTTG-G
1 TTTTTGATGTTATTTTTATTGCTATTTTGATTGCTATTTTGTG
6614 TTGTTTGAATGTTATTTTT
1 TT-TTTG-ATGTTATTTTT
6633 GTCTTTTTTA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 3 0.06
43 4 0.08
44 45 0.87
ACGTcount: A:0.11, C:0.04, G:0.16, T:0.69
Consensus pattern (43 bp):
TTTTTGATGTTATTTTTATTGCTATTTTGATTGCTATTTTGTG
Found at i:13179 original size:18 final size:17
Alignment explanation
Indices: 13137--13181 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
13127 AAATTTACCC
13137 TTTTTTTTAAATTTAAT
1 TTTTTTTTAAATTTAAT
* * *
13154 TTGTTTTTCACTTTAAAT
1 TTTTTTTTAAATTT-AAT
13172 TTTTTTTTAA
1 TTTTTTTTAA
13182 CATGATAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.69
Consensus pattern (17 bp):
TTTTTTTTAAATTTAAT
Found at i:24711 original size:53 final size:53
Alignment explanation
Indices: 24631--24734 Score: 181
Period size: 53 Copynumber: 2.0 Consensus size: 53
24621 TTAGATGGAG
*
24631 AAGTTTTGGAAATATAAGGTTGCATAATGTCGATAAGTCATGTCGCAACAAAT
1 AAGTTTTGGAAATATAAGGTTGCATAATGCCGATAAGTCATGTCGCAACAAAT
* *
24684 AAGTTTTGGAAATATAGGGTTGCATAATGCCGATAAGTCATGTCGTAACAA
1 AAGTTTTGGAAATATAAGGTTGCATAATGCCGATAAGTCATGTCGCAACAA
24735 GAGACTTTGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.30
Consensus pattern (53 bp):
AAGTTTTGGAAATATAAGGTTGCATAATGCCGATAAGTCATGTCGCAACAAAT
Found at i:31334 original size:13 final size:13
Alignment explanation
Indices: 31284--31336 Score: 70
Period size: 13 Copynumber: 4.1 Consensus size: 13
31274 TTTAAATTAA
*
31284 ATTTTTTAAAATT
1 ATTTTTTAAAAAT
* *
31297 ATTTTTTCAAAAC
1 ATTTTTTAAAAAT
*
31310 ACTTTTTAAAAAT
1 ATTTTTTAAAAAT
31323 ATTTTTTAAAAAT
1 ATTTTTTAAAAAT
31336 A
1 A
31337 ATGCTAAATT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (13 bp):
ATTTTTTAAAAAT
Found at i:32274 original size:15 final size:16
Alignment explanation
Indices: 32248--32277 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
32238 AAAAATAGAA
32248 ATTTATAATATTAAAT
1 ATTTATAATATTAAAT
32264 ATTTA-AATATTAAA
1 ATTTATAATATTAAA
32278 AAATATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTTATAATATTAAAT
Found at i:32444 original size:20 final size:21
Alignment explanation
Indices: 32390--32445 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
32380 CATATATAAT
32390 TTTAAATTT-TAAAAATTTAA
1 TTTAAATTTATAAAAATTTAA
** *
32410 AAT-AATATATAAAAATTTAA
1 TTTAAATTTATAAAAATTTAA
32430 TTTAAATTTATAAAAA
1 TTTAAATTTATAAAAA
32446 AGTTATATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 4 0.14
20 13 0.46
21 11 0.39
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TTTAAATTTATAAAAATTTAA
Found at i:32446 original size:23 final size:26
Alignment explanation
Indices: 32415--32474 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 26
32405 TTTAAAATAA
*
32415 TATATAAAAATT-TAATTTA-A-ATT
1 TATAAAAAAATTATAATTTAGATATT
* * *
32438 TATAAAAAAGTTATATTTTAGATTTT
1 TATAAAAAAATTATAATTTAGATATT
32464 TATAAAAAAAT
1 TATAAAAAAAT
32475 ATTTTTAAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 10 0.34
24 6 0.21
25 1 0.03
26 12 0.41
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (26 bp):
TATAAAAAAATTATAATTTAGATATT
Found at i:32457 original size:24 final size:22
Alignment explanation
Indices: 32430--32498 Score: 59
Period size: 26 Copynumber: 3.0 Consensus size: 22
32420 AAAAATTTAA
*
32430 TTTAAATTTATAAAAAAGTTATAT
1 TTTAAATTTATAAAAAA-ATAT-T
*
32454 TTTAGATTTTTATAAAAAAATATT
1 TTTA-A-ATTTATAAAAAAATATT
*
32478 TTTAAACTTT-TAAAAATATAT
1 TTTAAA-TTTATAAAAAAATAT
32499 ATTATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
22 10 0.26
23 4 0.11
24 9 0.24
25 4 0.11
26 11 0.29
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (22 bp):
TTTAAATTTATAAAAAAATATT
Found at i:36160 original size:59 final size:59
Alignment explanation
Indices: 36094--36342 Score: 260
Period size: 59 Copynumber: 4.3 Consensus size: 59
36084 CACACGAGGA
* * *
36094 GTAAAATGGTAATTTTTGGAAAGTTTGGGGTCAAAAATGGAATTTTTAGACATCCAAGG
1 GTAAAATGGTAATTTTTGGAAAGTTCGAGGTTAAAAATGGAATTTTTAGACATCCAAGG
* * * * * * **
36153 GTAAAATGGCAATTTTCT-GAAAGTTCAAGATTAAAAACGGAATTTTTAGATATTCGGGG
1 GTAAAATGGTAATTTT-TGGAAAGTTCGAGGTTAAAAATGGAATTTTTAGACATCCAAGG
* * * **
36212 GTAAAATGGTAA-TTTTGGAAGGATTCGAGGTTAAAAATAGATTTTTTAGACAAT-CGGGG
1 GTAAAATGGTAATTTTTGGAAAG-TTCGAGGTTAAAAATGGAATTTTTAGAC-ATCCAAGG
*
36271 GTAAAATGGTAATTTTTGGAAAGTTCGAGGTTAAAAAT-GAAATTTT--ACATCCGAA-G
1 GTAAAATGGTAATTTTTGGAAAGTTCGAGGTTAAAAATGGAATTTTTAGACATCC-AAGG
36327 GTAAAATGGTAATTTT
1 GTAAAATGGTAATTTT
36343 GAAAGGTTTG
Statistics
Matches: 159, Mismatches: 24, Indels: 17
0.80 0.12 0.09
Matches are distributed among these distances:
55 2 0.01
56 20 0.13
57 1 0.01
58 13 0.08
59 111 0.70
60 12 0.08
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.33
Consensus pattern (59 bp):
GTAAAATGGTAATTTTTGGAAAGTTCGAGGTTAAAAATGGAATTTTTAGACATCCAAGG
Found at i:36225 original size:29 final size:29
Alignment explanation
Indices: 36063--36287 Score: 88
Period size: 30 Copynumber: 7.7 Consensus size: 29
36053 GGATGCCCGA
**
36063 GGGGTAAAATGGTAA-TTTT-GACACACG
1 GGGGTAAAATGGTAATTTTTAGACATTCG
* * * *
36090 AGGAGTAAAATGGTAATTTTTGGAAAGTT-T
1 -GGGGTAAAATGGTAATTTTTAGACA-TTCG
* *
36120 GGGGTCAAAAATGG-AATTTTTAGACATCCA
1 GGGGT--AAAATGGTAATTTTTAGACATTCG
* * * *
36150 AGGGTAAAATGGCAATTTTCT-GAAAGTTCA
1 GGGGTAAAATGGTAATTTT-TAGACA-TTCG
* ** * *
36180 AGATTAAAAACGG-AATTTTTAGATATTCG
1 GGGGT-AAAATGGTAATTTTTAGACATTCG
* *
36209 GGGGTAAAATGGTAA-TTTTGGAAGGATTCG
1 GGGGTAAAATGGTAATTTTTAG-A-CATTCG
* * * * *
36239 AGGTTAAAAATAG-ATTTTTTAGACAATCG
1 GGGGT-AAAATGGTAATTTTTAGACATTCG
36268 GGGGTAAAATGGTAATTTTT
1 GGGGTAAAATGGTAATTTTT
36288 GGAAAGTTCG
Statistics
Matches: 145, Mismatches: 35, Indels: 33
0.68 0.16 0.15
Matches are distributed among these distances:
28 38 0.26
29 40 0.28
30 43 0.30
31 24 0.17
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.32
Consensus pattern (29 bp):
GGGGTAAAATGGTAATTTTTAGACATTCG
Found at i:36306 original size:30 final size:29
Alignment explanation
Indices: 36095--36316 Score: 105
Period size: 30 Copynumber: 7.5 Consensus size: 29
36085 ACACGAGGAG
* * *
36095 TAAAATGGTAATTTTTGGAAAGTTTGGGGT
1 TAAAATGG-AATTTTTAGAAAGTTCGAGGT
* * * * *
36125 CAAAAATGGAATTTTTAGACA-TCCAAGGG
1 -TAAAATGGAATTTTTAGAAAGTTCGAGGT
* *
36154 TAAAATGGCAATTTTCT-GAAAGTTCAAGAT
1 TAAAATGG-AATTTT-TAGAAAGTTCGAGGT
* * * *
36184 TAAAAACGGAATTTTTAGATA-TTCGGGGG
1 T-AAAATGGAATTTTTAGAAAGTTCGAGGT
* *
36213 TAAAATGGTAA-TTTTGGAAGGATTCGAGGT
1 TAAAATGG-AATTTTTAGAAAG-TTCGAGGT
* * * *
36243 TAAAAATAGATTTTTTAGACAA--TCGGGGG
1 T-AAAATGGAATTTTTAGA-AAGTTCGAGGT
*
36272 TAAAATGGTAATTTTTGGAAAGTTCGAGGT
1 TAAAATGG-AATTTTTAGAAAGTTCGAGGT
*
36302 TAAAAATGAAATTTT
1 T-AAAATGGAATTTT
36317 ACATCCGAAG
Statistics
Matches: 139, Mismatches: 37, Indels: 31
0.67 0.18 0.15
Matches are distributed among these distances:
28 27 0.19
29 34 0.24
30 46 0.33
31 31 0.22
32 1 0.01
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.33
Consensus pattern (29 bp):
TAAAATGGAATTTTTAGAAAGTTCGAGGT
Found at i:36363 original size:29 final size:29
Alignment explanation
Indices: 36329--36533 Score: 168
Period size: 29 Copynumber: 7.0 Consensus size: 29
36319 ATCCGAAGGT
* *
36329 AAAATGGTAATTTT-GAAAGGTTT-GGGGTC
1 AAAAT-GTAATTTTGGAAA-ATTTAGGGGTA
* *
36358 AAAATGTATTTTTTGGAAAATTTAGGGCTA
1 AAAATGTA-ATTTTGGAAAATTTAGGGGTA
* * *
36388 AAAATGGAATTTT-TAAAAGTTT-GGAGTCA
1 AAAATGTAATTTTGGAAAA-TTTAGGGGT-A
* * *
36417 AAAATATAATTTTGGAAATTTTAGGGTTA
1 AAAATGTAATTTTGGAAAATTTAGGGGTA
* *
36446 AAAATGGAATTTTAGAAAATTTAGGGGTA
1 AAAATGTAATTTTGGAAAATTTAGGGGTA
36475 AAAATGTAATTTTTGGAAAATTTA-GGGTAA
1 AAAATGTAA-TTTTGGAAAATTTAGGGGT-A
** *
36505 AAAATAAAATTTTGGAAAAGTTCAGGGGT
1 AAAATGTAATTTTGGAAAA-TTTAGGGGT
36534 CAAAGTATGA
Statistics
Matches: 140, Mismatches: 25, Indels: 20
0.76 0.14 0.11
Matches are distributed among these distances:
28 10 0.07
29 81 0.58
30 45 0.32
31 4 0.03
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.35
Consensus pattern (29 bp):
AAAATGTAATTTTGGAAAATTTAGGGGTA
Found at i:36400 original size:58 final size:56
Alignment explanation
Indices: 36329--36507 Score: 207
Period size: 58 Copynumber: 3.1 Consensus size: 56
36319 ATCCGAAGGT
36329 AAAATGGTAATTTTGAAAGGTTTGGGGTCAAAATGTATTTTTTGGAAAATTTAGGGCTA
1 AAAATGG-AATTTTGAAA-GTTTGGGGTCAAAATGTATTTTTTGGAAAATTTAGGG-TA
* * * * *
36388 AAAATGGAATTTTTAAAAGTTTGGAGTCAAAA-ATATAATTTTGGAAATTTTAGGGTTA
1 AAAATGGAA-TTTTGAAAGTTTGGGGTCAAAATGTAT-TTTTTGGAAAATTTAGGG-TA
* * *
36446 AAAATGGAATTTTAGAAAATTTAGGGGTAAAAATGTAATTTTTGGAAAATTTAGGGTA
1 AAAATGGAATTTT-GAAAGTTT-GGGGTCAAAATGTATTTTTTGGAAAATTTAGGGTA
36504 AAAA
1 AAAA
36508 ATAAAATTTT
Statistics
Matches: 101, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
57 7 0.07
58 54 0.53
59 38 0.38
60 2 0.02
ACGTcount: A:0.41, C:0.02, G:0.22, T:0.36
Consensus pattern (56 bp):
AAAATGGAATTTTGAAAGTTTGGGGTCAAAATGTATTTTTTGGAAAATTTAGGGTA
Found at i:40820 original size:28 final size:28
Alignment explanation
Indices: 40788--40879 Score: 71
Period size: 28 Copynumber: 3.1 Consensus size: 28
40778 AAAAAGGAAT
* *
40788 TTTTAGATATCTTGGGGTAAAATGGTAA
1 TTTTAGACATCTAGGGGTAAAATGGTAA
* * *
40816 TTTTAGAAGGAT-TCGGAGTTAAAAATGG-AA
1 TTTTAG-A-CATCTAGG-GGT-AAAATGGTAA
40846 TTTTTAGACATCTAGGGGTAAAATGGTAAA
1 -TTTTAGACATCTAGGGGTAAAATGGT-AA
40876 TTTT
1 TTTT
40880 GGAAAGTTCG
Statistics
Matches: 50, Mismatches: 6, Indels: 15
0.70 0.08 0.21
Matches are distributed among these distances:
28 13 0.26
29 12 0.24
30 12 0.24
31 13 0.26
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (28 bp):
TTTTAGACATCTAGGGGTAAAATGGTAA
Found at i:40878 original size:30 final size:29
Alignment explanation
Indices: 40785--40879 Score: 79
Period size: 29 Copynumber: 3.2 Consensus size: 29
40775 TTAAAAAAGG
* *
40785 AATTTTTAGATATCTTGGGGTAAAATGGT
1 AATTTTTAGACATCTAGGGGTAAAATGGT
* * *
40814 AA-TTTTAGAAGGAT-TCGGAGTTAAAAATGG-
1 AATTTTTAG-A-CATCTAGG-GGT-AAAATGGT
40844 AATTTTTAGACATCTAGGGGTAAAATGGT
1 AATTTTTAGACATCTAGGGGTAAAATGGT
*
40873 AAATTTT
1 AATTTTT
40880 GGAAAGTTCG
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
28 13 0.25
29 16 0.31
30 10 0.19
31 13 0.25
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.37
Consensus pattern (29 bp):
AATTTTTAGACATCTAGGGGTAAAATGGT
Found at i:40890 original size:59 final size:57
Alignment explanation
Indices: 40740--40940 Score: 199
Period size: 59 Copynumber: 3.4 Consensus size: 57
40730 TAAACACTCG
* * *
40740 AGGGGTAAAATGGTATTTTTTTGGAAAGTTC-AAGGTTAAAAAAGGAATTTTTAGATATCT
1 AGGGGTAAAATGGTA--ATTTTGGAAAGTTCGGA-GTT-AAAAAGGAATTTTTAGACATCT
* * *
40800 TGGGGTAAAATGGTAATTTTAGAAGGATTCGGAGTTAAAAATGGAATTTTTAGACATCT
1 AGGGGTAAAATGGTAATTTTGGAAAG-TTCGGAGTTAAAAA-GGAATTTTTAGACATCT
* ** * *
40859 AGGGGTAAAATGGTAAATTTTGGAAAGTTCGGGGTTGGAAACGAAATTTTAGACATC-
1 AGGGGTAAAATGGT-AATTTTGGAAAGTTCGGAGTTAAAAAGGAATTTTTAGACATCT
* *
40916 CGAAGGTAAAATGGTAATTTTGGAA
1 AG-GGGTAAAATGGTAATTTTGGAA
40941 GGTCTGGGGG
Statistics
Matches: 120, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
57 11 0.09
58 38 0.32
59 46 0.38
60 25 0.21
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.32
Consensus pattern (57 bp):
AGGGGTAAAATGGTAATTTTGGAAAGTTCGGAGTTAAAAAGGAATTTTTAGACATCT
Found at i:40892 original size:29 final size:29
Alignment explanation
Indices: 40860--41073 Score: 77
Period size: 29 Copynumber: 7.3 Consensus size: 29
40850 TAGACATCTA
40860 GGGGTAAAATGGTAAATTTTGGAAAGTTC
1 GGGGTAAAATGGTAAATTTTGGAAAGTTC
* * * * *
40889 GGGGTTGGAAA-CG-AAATTTTAGACA-TCC
1 GGGG-T-AAAATGGTAAATTTTGGAAAGTTC
* * *
40917 GAAGGTAAAATGGT-AATTTTGGAAGGTCTG
1 G-GGGTAAAATGGTAAATTTTGGAAAGT-TC
* * *
40947 GGGGTCAAAAT-GTAATTTTTGGAAAATTTA
1 GGGGT-AAAATGGTAAATTTTGG-AAAGTTC
* * ** *
40977 GGGTTAAAATAG--AATTTTATAAAGTTTA
1 GGGGTAAAATGGTAAATTTTGGAAAG-TTC
* * *
41005 GGGGTAAAAAGTGTAATTTTTGGAAAATTC
1 GGGGTAAAATG-GTAAATTTTGGAAAGTTC
* *
41035 GAGGTTAAAAATGG--AATTTTGGAAAGTTTG
1 G-GGGT-AAAATGGTAAATTTTGGAAAG-TTC
41065 GGGGTAAAA
1 GGGGTAAAA
41074 ATATAATTTT
Statistics
Matches: 130, Mismatches: 37, Indels: 37
0.64 0.18 0.18
Matches are distributed among these distances:
27 6 0.05
28 33 0.25
29 41 0.32
30 27 0.21
31 18 0.14
32 5 0.04
ACGTcount: A:0.36, C:0.04, G:0.28, T:0.32
Consensus pattern (29 bp):
GGGGTAAAATGGTAAATTTTGGAAAGTTC
Found at i:41074 original size:29 final size:30
Alignment explanation
Indices: 40923--41089 Score: 128
Period size: 29 Copynumber: 5.6 Consensus size: 30
40913 ATCCGAAGGT
* * *
40923 AAAATGGTAA-TTTTGGAAGGTCTGGGGGTC
1 AAAATGG-AATTTTTGGAAAGTTTGGGGGTA
* * * *
40953 AAAATGTAATTTTTGGAAAATTT-AGGGTT
1 AAAATGGAATTTTTGGAAAGTTTGGGGGTA
* *
40982 AAAATAGAATTTTAT--AAAGTTTAGGGGTA
1 AAAATGGAATTTT-TGGAAAGTTTGGGGGTA
* * * * *
41011 AAAAGTGTAATTTTTGGAAAATTCGAGGTTA
1 AAAA-TGGAATTTTTGGAAAGTTTGGGGGTA
41042 AAAATGGAA-TTTTGGAAAGTTTGGGGGTA
1 AAAATGGAATTTTTGGAAAGTTTGGGGGTA
**
41071 AAAATATAATTTTTGGAAA
1 AAAATGGAATTTTTGGAAA
41090 TTCAAGGTCA
Statistics
Matches: 105, Mismatches: 25, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
28 6 0.06
29 49 0.47
30 37 0.35
31 13 0.12
ACGTcount: A:0.38, C:0.02, G:0.25, T:0.35
Consensus pattern (30 bp):
AAAATGGAATTTTTGGAAAGTTTGGGGGTA
Found at i:41121 original size:59 final size:58
Alignment explanation
Indices: 40945--41117 Score: 204
Period size: 59 Copynumber: 2.9 Consensus size: 58
40935 TTGGAAGGTC
* * * *
40945 TGGGGGTCAAAATGTAATTTTTGGAAAATTTAGGGTTAAAATAGAATTTTATAAAGTT
1 TGGGGGTAAAAATGTAATTTTTGGAAAATTCAAGGTTAAAATAGAATTTTTTAAAGTT
* * * **
41003 TAGGGGTAAAAAGTGTAATTTTTGGAAAATTCGAGGTTAAAAATGGAATTTTGGAAAGTT
1 TGGGGGTAAAAA-TGTAATTTTTGGAAAATTCAAGGTT-AAAATAGAATTTTTTAAAGTT
* * *
41063 TGGGGGTAAAAATATAATTTTTGG-AAATTCAAGGTCAAATATAAAATTTTTTAAA
1 TGGGGGTAAAAATGTAATTTTTGGAAAATTCAAGGTTAAA-ATAGAATTTTTTAAA
41118 AGTTCAAATG
Statistics
Matches: 96, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
57 3 0.03
58 31 0.32
59 33 0.34
60 29 0.30
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.36
Consensus pattern (58 bp):
TGGGGGTAAAAATGTAATTTTTGGAAAATTCAAGGTTAAAATAGAATTTTTTAAAGTT
Found at i:41134 original size:118 final size:119
Alignment explanation
Indices: 40923--41146 Score: 265
Period size: 118 Copynumber: 1.9 Consensus size: 119
40913 ATCCGAAGGT
* * * * * *
40923 AAAATGGTAATTTTGGAAGGTCTGGGGGTCAAAATGTAATTTTTGGAAAATTTAGGGTTAAAATA
1 AAAATGGTAATTTTGGAAAGTCTGGGGGTAAAAATATAATTTTTGGAAAATTCAAGGTCAAAATA
* * ** *
40988 GAATTTTATAAAGTTTAGGGGTAAAAAGTGTAATTTTTGGAAAATTCGAGGTTA
66 AAATTTTATAAAGTTCAAAGGTAAAAAGTATAATTTTTGGAAAATTCGAGGTTA
*
41042 AAAATGG-AATTTTGGAAAGTTTGGGGGTAAAAATATAATTTTTGG-AAATTCAAGGTCAAATAT
1 AAAATGGTAATTTTGGAAAGTCTGGGGGTAAAAATATAATTTTTGGAAAATTCAAGGTCAAA-AT
* * * *
41105 AAAATTTTTTAAAAGTTCAAATGT-CAAAGTATGATTTTTGGA
65 AAAATTTTAT-AAAGTTCAAAGGTAAAAAGTATAATTTTTGGA
41147 CAGTTTAGGG
Statistics
Matches: 87, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
117 12 0.14
118 59 0.68
119 16 0.18
ACGTcount: A:0.39, C:0.03, G:0.22, T:0.36
Consensus pattern (119 bp):
AAAATGGTAATTTTGGAAAGTCTGGGGGTAAAAATATAATTTTTGGAAAATTCAAGGTCAAAATA
AAATTTTATAAAGTTCAAAGGTAAAAAGTATAATTTTTGGAAAATTCGAGGTTA
Found at i:42253 original size:12 final size:12
Alignment explanation
Indices: 42223--42261 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
42213 TAACTTTCCT
*
42223 TTTTTATTTAT-
1 TTTTTATTAATA
42234 TTTATTATTAATA
1 TTT-TTATTAATA
42247 TTTTTATTAATA
1 TTTTTATTAATA
42259 TTT
1 TTT
42262 ATTAATGCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 3 0.12
12 19 0.76
13 3 0.12
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTTTATTAATA
Found at i:43073 original size:17 final size:17
Alignment explanation
Indices: 43041--43101 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
43031 AAATTAAATT
* *
43041 TAAAGTTAAGTTTAAAA
1 TAAATTTAAATTTAAAA
* *
43058 T-CATTTCAAATTTAAAC
1 TAAATTT-AAATTTAAAA
43075 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
43092 TAAATTTAAA
1 TAAATTTAAA
43102 ACCAATTTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
16 3 0.08
17 29 0.81
18 4 0.11
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.39
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:43096 original size:28 final size:27
Alignment explanation
Indices: 43065--43125 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 27
43055 AAATCATTTC
*
43065 AAATTT-AAACTAAATTTAAATTTAAAA
1 AAATTTAAAAC-AAATTTAAACTTAAAA
*
43092 TAAATTTAAAACCAATTTAAACTTAAAA
1 -AAATTTAAAACAAATTTAAACTTAAAA
43120 AAATTT
1 AAATTT
43126 GATCCAAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 6 0.20
28 20 0.67
29 4 0.13
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (27 bp):
AAATTTAAAACAAATTTAAACTTAAAA
Found at i:43357 original size:36 final size:31
Alignment explanation
Indices: 43306--43397 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 31
43296 TTGGTAATAG
*
43306 GCATGACCTTAGGGTCAACAGGGAGTAAAATGA
1 GCATGACCTTTGGGTCAACAGGGAGTAAAA--A
*
43339 GCATCATGACCTTTGGGTCAACAAGG-GT---AA
1 G---CATGACCTTTGGGTCAACAGGGAGTAAAAA
43369 GCATGACCTTTGGGTCAACAGGGAGTAAA
1 GCATGACCTTTGGGTCAACAGGGAGTAAA
43398 TTGGATATCG
Statistics
Matches: 49, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
27 21 0.43
28 2 0.04
30 2 0.04
32 1 0.02
33 1 0.02
35 2 0.04
36 20 0.41
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (31 bp):
GCATGACCTTTGGGTCAACAGGGAGTAAAAA
Found at i:44137 original size:21 final size:21
Alignment explanation
Indices: 44089--44140 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
44079 GGAGTTTTTA
44089 GTATCGGTAGAAGCATGACAT
1 GTATCGGTAGAAGCATGACAT
* * *
44110 GTTTCGGTAGAAATCAT-ACTT
1 GTATCGGTAG-AAGCATGACAT
44131 GTATCGGTAG
1 GTATCGGTAG
44141 TATTGTTTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (21 bp):
GTATCGGTAGAAGCATGACAT
Found at i:44963 original size:24 final size:24
Alignment explanation
Indices: 44921--44967 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
44911 TAATCTCTTA
* * *
44921 AAATAATCTTTGTATTAAATTTAT
1 AAATAATATTTATACTAAATTTAT
44945 AAATAATATTTATACTAAATTTA
1 AAATAATATTTATACTAAATTTA
44968 AAAGTGATCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (24 bp):
AAATAATATTTATACTAAATTTAT
Found at i:48662 original size:19 final size:19
Alignment explanation
Indices: 48640--48677 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
48630 TCAATTTACC
48640 CTTAGTAATTAATC-CCAAT
1 CTTAGTAA-TAATCACCAAT
*
48659 CTTAGTTATAATCACCAAT
1 CTTAGTAATAATCACCAAT
48678 TCAAAATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (19 bp):
CTTAGTAATAATCACCAAT
Found at i:52159 original size:2 final size:2
Alignment explanation
Indices: 52152--52197 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
52142 AAACCTACTC
* * *
52152 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AG AT AT AG
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
52194 AT AT
1 AT AT
52198 TATCCTGCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (2 bp):
AT
Found at i:53541 original size:16 final size:15
Alignment explanation
Indices: 53520--53560 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
53510 GATAAACTTA
*
53520 AAAAAATTATGTGCT
1 AAAAAATTAAGTGCT
*
53535 GAAAAAAATAAGTGCT
1 -AAAAAATTAAGTGCT
53551 AAAAAATTAA
1 AAAAAATTAA
53561 ATGTTGAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.59, C:0.05, G:0.12, T:0.24
Consensus pattern (15 bp):
AAAAAATTAAGTGCT
Found at i:53911 original size:26 final size:26
Alignment explanation
Indices: 53882--53942 Score: 122
Period size: 26 Copynumber: 2.3 Consensus size: 26
53872 TGCCACGAAA
53882 GCATTTCTTACGAAGTTTGCACAAAG
1 GCATTTCTTACGAAGTTTGCACAAAG
53908 GCATTTCTTACGAAGTTTGCACAAAG
1 GCATTTCTTACGAAGTTTGCACAAAG
53934 GCATTTCTT
1 GCATTTCTT
53943 TTATTGACTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (26 bp):
GCATTTCTTACGAAGTTTGCACAAAG
Found at i:56862 original size:12 final size:11
Alignment explanation
Indices: 56835--56869 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
56825 TATATATCTT
56835 TAAAAATAATA
1 TAAAAATAATA
56846 TAAAAATAATA
1 TAAAAATAATA
56857 TAAAAATTAATA
1 TAAAAA-TAATA
56869 T
1 T
56870 GGGCGGGCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 17 0.74
12 6 0.26
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:57686 original size:18 final size:18
Alignment explanation
Indices: 57665--57711 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
57655 TTTCTAGACG
57665 AACCTTATTTTTTGTCCA
1 AACCTTATTTTTTGTCCA
*
57683 AACCTTATTTTTTTTCCA
1 AACCTTATTTTTTGTCCA
*
57701 AAAC-TATTTTT
1 AACCTTATTTTT
57712 CGGGTTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 7 0.26
18 20 0.74
ACGTcount: A:0.26, C:0.19, G:0.02, T:0.53
Consensus pattern (18 bp):
AACCTTATTTTTTGTCCA
Found at i:63921 original size:167 final size:164
Alignment explanation
Indices: 63738--64070 Score: 612
Period size: 167 Copynumber: 2.0 Consensus size: 164
63728 GATAGCAATT
*
63738 TTATATATATCTTTAAATTCATTTTATTACATTTATGAGAAATTTAATGATAGGAATTTTACATT
1 TTATATATATCTTTAAATTCATTTTATTACATTTATGAGAAATTTAATGATAGGAATCTTACATT
63803 AACACCCTTTTAAGGAGAAGAAAAAAATGAAGGAGACTCAATAATGAATATACCAATTACAAAAA
66 AACACCCTTTTAAGGAGAAGAAAAAAAT---GGAGACTCAATAATGAATATACCAATTACAAAAA
63868 TAATTGGACAAAATGGGATCTATGGATGGAGATTTGA
128 TAATTGGACAAAATGGGATCTATGGATGGAGATTTGA
63905 TTATATATATCTTTAAATTCATTTTATTACATTTATGAGAAATTTAATGATAGGAATCTTACATT
1 TTATATATATCTTTAAATTCATTTTATTACATTTATGAGAAATTTAATGATAGGAATCTTACATT
*
63970 AACACCCTTTTAAGGAGAAGAAAAAAATGGAGACTCAATAATGAATATGCCAATTACAAAAATAA
66 AACACCCTTTTAAGGAGAAGAAAAAAATGGAGACTCAATAATGAATATACCAATTACAAAAATAA
*
64035 TTGGACAAAATGGGATTTATGGATGGAGATTTGA
131 TTGGACAAAATGGGATCTATGGATGGAGATTTGA
64069 TT
1 TT
64071 GAACATTAAT
Statistics
Matches: 163, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
164 71 0.44
167 92 0.56
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.34
Consensus pattern (164 bp):
TTATATATATCTTTAAATTCATTTTATTACATTTATGAGAAATTTAATGATAGGAATCTTACATT
AACACCCTTTTAAGGAGAAGAAAAAAATGGAGACTCAATAATGAATATACCAATTACAAAAATAA
TTGGACAAAATGGGATCTATGGATGGAGATTTGA
Found at i:66130 original size:17 final size:17
Alignment explanation
Indices: 66093--66150 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
66083 GGGCGTGGGT
* * *
66093 ATTAAAAATATAATTAT
1 ATTAAAAATTTTATTAA
66110 ATTAAAAATTTTATTAA
1 ATTAAAAATTTTATTAA
*
66127 ATTATATATTATTTTATTAA
1 ATTA-A-A-AATTTTATTAA
66147 ATTA
1 ATTA
66151 TATTTAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
17 18 0.53
18 1 0.03
19 1 0.03
20 14 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTAAAAATTTTATTAA
Found at i:66167 original size:58 final size:59
Alignment explanation
Indices: 66102--66232 Score: 187
Period size: 58 Copynumber: 2.3 Consensus size: 59
66092 TATTAAAAAT
* *
66102 ATAATTATATTAAAAATTTTATTAAATTATATATTA-TTTTATTAAATTATATTTAATA
1 ATAATTATATTAAAAATATAATTAAATTATATATTATTTTTATTAAATTATATTTAATA
* * *
66160 ATAATTATGTT-AAAATATAATTAAATTATTTATTATTTTTATTAAATTATATTTGATA
1 ATAATTATATTAAAAATATAATTAAATTATATATTATTTTTATTAAATTATATTTAATA
66218 ATAATCT-TATTAAAA
1 ATAAT-TATATTAAAA
66233 TTTAATAACA
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
57 21 0.33
58 39 0.61
59 4 0.06
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.52
Consensus pattern (59 bp):
ATAATTATATTAAAAATATAATTAAATTATATATTATTTTTATTAAATTATATTTAATA
Found at i:67346 original size:15 final size:15
Alignment explanation
Indices: 67297--67348 Score: 50
Period size: 17 Copynumber: 3.2 Consensus size: 15
67287 TGTTTGTATT
*
67297 AATATTTTAATAATAA
1 AATATATTAATAAT-A
*
67313 ATATATATTACAATTATA
1 A-ATATATT--AATAATA
67331 AATATATTAATAATA
1 AATATATTAATAATA
67346 AAT
1 AAT
67349 GATTTATGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
15 9 0.30
16 1 0.03
17 13 0.43
18 2 0.07
19 5 0.17
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
AATATATTAATAATA
Found at i:71916 original size:24 final size:24
Alignment explanation
Indices: 71876--71922 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
71866 GTCTTCAAAT
71876 CTTTCTCTAACTTTTTCCTTTCCC
1 CTTTCTCTAACTTTTTCCTTTCCC
*
71900 CTTTCTCTGA-TTCTTTCCTTTCC
1 CTTTCTCTAACTT-TTTCCTTTCC
71923 TTTTCTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.06, C:0.36, G:0.02, T:0.55
Consensus pattern (24 bp):
CTTTCTCTAACTTTTTCCTTTCCC
Found at i:72112 original size:37 final size:38
Alignment explanation
Indices: 72058--72129 Score: 112
Period size: 37 Copynumber: 1.9 Consensus size: 38
72048 TATTTTAAAT
72058 TTTTTAAAATTAAAATTAAATTAA-A-AATATATATAA
1 TTTTTAAAATTAAAATTAAATTAATATAATATATATAA
*
72094 TTTTTAAAATTTATAATTAAATTAATATAATATATA
1 TTTTTAAAA-TTAAAATTAAATTAATATAATATATA
72130 AAAGTTTATG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
36 9 0.28
37 14 0.44
38 1 0.03
39 8 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (38 bp):
TTTTTAAAATTAAAATTAAATTAATATAATATATATAA
Found at i:72118 original size:18 final size:18
Alignment explanation
Indices: 72061--72118 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
72051 TTTAAATTTT
*
72061 TTAAAA-TTAAAATTAAA
1 TTAAAATTTATAATTAAA
*
72078 TTAAAAATATATATAATT--T
1 TT-AAAAT-T-TATAATTAAA
72097 TTAAAATTTATAATTAAA
1 TTAAAATTTATAATTAAA
72115 TTAA
1 TTAA
72119 TATAATATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 11
0.70 0.07 0.24
Matches are distributed among these distances:
16 7 0.22
17 3 0.09
18 13 0.41
19 2 0.06
20 1 0.03
21 6 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TTAAAATTTATAATTAAA
Found at i:72122 original size:30 final size:32
Alignment explanation
Indices: 72067--72138 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 32
72057 TTTTTTAAAA
*
72067 TTAAAA-TTA-AATTAAAAATATATATAATTT
1 TTAAAATTTATAATTAAAAATATATATAATAT
*
72097 TTAAAATTTATAATT-AAATTA-ATATAATAT
1 TTAAAATTTATAATTAAAAATATATATAATAT
*
72127 ATAAAAGTTTAT
1 TTAAAA-TTTAT
72139 GGGTAAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 19 0.53
31 13 0.36
32 4 0.11
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (32 bp):
TTAAAATTTATAATTAAAAATATATATAATAT
Found at i:73344 original size:16 final size:16
Alignment explanation
Indices: 73300--73350 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
73290 AATTTTCTTC
*
73300 TTTTTATTATTAT-ATA
1 TTTTTATTATTTTGA-A
73316 TTTTTATGTATTTTGAA
1 TTTTTAT-TATTTTGAA
73333 TTTTTATTATTTTTGAA
1 TTTTTATTA-TTTTGAA
73350 T
1 T
73351 AGTTAATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
16 9 0.29
17 21 0.68
18 1 0.03
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (16 bp):
TTTTTATTATTTTGAA
Found at i:80580 original size:3 final size:3
Alignment explanation
Indices: 80572--80596 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
80562 TAGCATAAAC
80572 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
80597 TTGGTGAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:83629 original size:28 final size:28
Alignment explanation
Indices: 83598--83658 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
83588 AAAATGAGAC
*
83598 TTTGGA-TACCCGAGGGTAAAATGGTAAT
1 TTTGGACT-CCCGAGGGCAAAATGGTAAT
*
83626 TTTGGACTCTCGAGGGCAAAATGGTAAT
1 TTTGGACTCCCGAGGGCAAAATGGTAAT
83654 TTTGG
1 TTTGG
83659 GAAATTTGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 29 0.97
29 1 0.03
ACGTcount: A:0.28, C:0.11, G:0.30, T:0.31
Consensus pattern (28 bp):
TTTGGACTCCCGAGGGCAAAATGGTAAT
Found at i:83711 original size:28 final size:28
Alignment explanation
Indices: 83609--83716 Score: 105
Period size: 28 Copynumber: 3.8 Consensus size: 28
83599 TTGGATACCC
* *
83609 GAGGGTAAAATGGTAATTTTGGAC-TCTC
1 GAGGGTAAAATGGTAATTTTAGACAT-TT
* * *
83637 GAGGGCAAAATGGTAATTTTGGGAAATTT
1 GAGGGTAAAATGGTAATTTT-AGACATTT
83666 G-GGGTTTAAAATGG-AATTTTAGACATTT
1 GAGGG--TAAAATGGTAATTTTAGACATTT
*
83694 GAGGGTAAAACGGTAATTTTAGA
1 GAGGGTAAAATGGTAATTTTAGA
83717 AAAAATCGAG
Statistics
Matches: 67, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
27 7 0.10
28 38 0.57
29 14 0.21
30 8 0.12
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.32
Consensus pattern (28 bp):
GAGGGTAAAATGGTAATTTTAGACATTT
Found at i:83772 original size:28 final size:28
Alignment explanation
Indices: 83741--83829 Score: 88
Period size: 28 Copynumber: 3.1 Consensus size: 28
83731 AAAACAAAAT
83741 TTTTGGACATTTAGGGGTAAAATGGTGA
1 TTTTGGACATTTAGGGGTAAAATGGTGA
* * * * * *
83769 TTTTTGAGAGTTTCGGGTTAAAATGGAGT
1 TTTTGGACA-TTTAGGGGTAAAATGGTGA
** *
83798 TTTTGGACATTCGGGGGTAAAATGGTAA
1 TTTTGGACATTTAGGGGTAAAATGGTGA
83826 TTTT
1 TTTT
83830 TGAAAGTTTT
Statistics
Matches: 46, Mismatches: 14, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
28 24 0.52
29 22 0.48
ACGTcount: A:0.26, C:0.04, G:0.30, T:0.39
Consensus pattern (28 bp):
TTTTGGACATTTAGGGGTAAAATGGTGA
Found at i:83790 original size:29 final size:30
Alignment explanation
Indices: 83754--83843 Score: 96
Period size: 29 Copynumber: 3.1 Consensus size: 30
83744 TGGACATTTA
83754 GGGGTAAAATGGTGATTTTTGAGAGTTTC-
1 GGGGTAAAATGGTGATTTTTGAGAGTTTCG
* * **
83783 GGGTTAAAATGGAG-TTTTTG-GACATTCG
1 GGGGTAAAATGGTGATTTTTGAGAGTTTCG
* * *
83811 GGGGTAAAATGGTAATTTTTGAAAGTTTTG
1 GGGGTAAAATGGTGATTTTTGAGAGTTTCG
83841 GGG
1 GGG
83844 TCGAAAAAGT
Statistics
Matches: 47, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
27 5 0.11
28 17 0.36
29 18 0.38
30 7 0.15
ACGTcount: A:0.26, C:0.03, G:0.34, T:0.37
Consensus pattern (30 bp):
GGGGTAAAATGGTGATTTTTGAGAGTTTCG
Found at i:83844 original size:29 final size:30
Alignment explanation
Indices: 83754--84164 Score: 218
Period size: 30 Copynumber: 13.9 Consensus size: 30
83744 TGGACATTTA
* *
83754 GGGGT-AAAATGGTGATTTTTGAGAG-TTT
1 GGGGTAAAAATGGTAATTTTTGAAAGTTTT
* * * * **
83782 CGGGTTAAAATGG-AGTTTTTGGACA-TTCG
1 GGGGTAAAAATGGTAATTTTT-GAAAGTTTT
83811 GGGGT-AAAATGGTAATTTTTGAAAGTTTT
1 GGGGTAAAAATGGTAATTTTTGAAAGTTTT
*
83840 GGGGTCGAAAAA--GTAATTTTT-AAAGGTTTG
1 GGGGT--AAAAATGGTAATTTTTGAAA-GTTTT
*
83870 GGGGTAAAAAT-GTAATTTTTGGAAGTTTT
1 GGGGTAAAAATGGTAATTTTTGAAAGTTTT
** *
83899 AAGGTCAAAAATGG-AATTTTTGGAAG-TTT
1 GGGGT-AAAAATGGTAATTTTTGAAAGTTTT
* * *
83928 GAGAGTAAAAAAT-GTAATTTTTAAAAGTTTC
1 G-GGGT-AAAAATGGTAATTTTTGAAAGTTTT
* * *
83959 GAGGTCAAAAACGG-AATTTTT-AGAAG-TTC
1 GGGGT-AAAAATGGTAATTTTTGA-AAGTTTT
* *
83988 GAGGGTAAAAAT-ATAATTTTTGAATGTTTT
1 G-GGGTAAAAATGGTAATTTTTGAAAGTTTT
* **
84018 GGGGTTAAAAATTG-AATTTTT-AGAAGTTCG
1 GGGG-TAAAAATGGTAATTTTTGA-AAGTTTT
*
84048 GGGGTAAAAAT-ATAATTTTTGAAAGTTTT
1 GGGGTAAAAATGGTAATTTTTGAAAGTTTT
* *
84077 AGGGTCAAAAATGG-AATTTTTGGAAGTTTT
1 GGGGT-AAAAATGGTAATTTTTGAAAGTTTT
* * * * *
84107 AGGGAAAAAAT-GTTATTTTCGAATAGTTTA
1 GGGGTAAAAATGGTAATTTTTGAA-AGTTTT
** *
84137 GGGACCAAAAATGG-AATTTTTGGAAGTT
1 GGG-GTAAAAATGGTAATTTTTGAAAGTT
84165 CGAGGGTAAA
Statistics
Matches: 297, Mismatches: 53, Indels: 64
0.72 0.13 0.15
Matches are distributed among these distances:
28 25 0.08
29 110 0.37
30 139 0.47
31 18 0.06
32 5 0.02
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (30 bp):
GGGGTAAAAATGGTAATTTTTGAAAGTTTT
Found at i:83858 original size:30 final size:29
Alignment explanation
Indices: 83811--84194 Score: 239
Period size: 30 Copynumber: 13.0 Consensus size: 29
83801 TGGACATTCG
83811 GGGGT-AAAATGGTAATTTTTGAAAGTTTT
1 GGGGTAAAAAT-GTAATTTTTGAAAGTTTT
*
83840 GGGGTCGAAAAA-GTAATTTTT-AAAGGTTTG
1 GGGGT--AAAAATGTAATTTTTGAAA-GTTTT
*
83870 GGGGTAAAAATGTAATTTTTGGAAGTTTT
1 GGGGTAAAAATGTAATTTTTGAAAGTTTT
** * *
83899 AAGGTCAAAAATGGAATTTTTGGAAG-TTT
1 GGGGT-AAAAATGTAATTTTTGAAAGTTTT
* * *
83928 GAGAGTAAAAAATGTAATTTTTAAAAGTTTC
1 G-GGGT-AAAAATGTAATTTTTGAAAGTTTT
* * * *
83959 GAGGTCAAAAACGGAATTTTT-AGAAG-TTC
1 GGGGT-AAAAATGTAATTTTTGA-AAGTTTT
* *
83988 GAGGGTAAAAATATAATTTTTGAATGTTTT
1 G-GGGTAAAAATGTAATTTTTGAAAGTTTT
**
84018 GGGGTTAAAAAT-TGAATTTTT-AGAAGTTCG
1 GGGG-TAAAAATGT-AATTTTTGA-AAGTTTT
*
84048 GGGGTAAAAATATAATTTTTGAAAGTTTT
1 GGGGTAAAAATGTAATTTTTGAAAGTTTT
* * *
84077 AGGGTCAAAAATGGAATTTTTGGAAGTTTT
1 GGGGT-AAAAATGTAATTTTTGAAAGTTTT
* * * * *
84107 AGGGAAAAAATGTTATTTTCGAATAGTTTA
1 GGGGTAAAAATGTAATTTTTGAA-AGTTTT
** * * *
84137 GGGACCAAAAATGGAATTTTTGGAAG-TTC
1 GGG-GTAAAAATGTAATTTTTGAAAGTTTT
* *
84166 GAGGGT-AAAATATAATTTTCGAACAGTTT
1 G-GGGTAAAAATGTAATTTTTGAA-AGTTT
84195 AGGGACCTTT
Statistics
Matches: 277, Mismatches: 54, Indels: 47
0.73 0.14 0.12
Matches are distributed among these distances:
28 18 0.06
29 93 0.34
30 145 0.52
31 17 0.06
32 4 0.01
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (29 bp):
GGGGTAAAAATGTAATTTTTGAAAGTTTT
Found at i:83885 original size:59 final size:59
Alignment explanation
Indices: 83754--84194 Score: 394
Period size: 59 Copynumber: 7.5 Consensus size: 59
83744 TGGACATTTA
* * * * * *
83754 GGGGT-AAAATGGTGATTTTTGAGAG-TTTCGGGT-TAAAATGGAGTTTTTGGACA-TTCG
1 GGGGTAAAAAT-GTAATTTTTGAAAGTTTTGGGGTCAAAAATGGAATTTTTAGA-AGTTCG
* *
83811 GGGGT-AAAATGGTAATTTTTGAAAGTTTTGGGGTCGAAAAA-GTAATTTTTA-AAGGTTTG
1 GGGGTAAAAAT-GTAATTTTTGAAAGTTTTGGGGTC-AAAAATGGAATTTTTAGAA-GTTCG
* ** * *
83870 GGGGTAAAAATGTAATTTTTGGAAGTTTTAAGGTCAAAAATGGAATTTTTGGAAGTTTG
1 GGGGTAAAAATGTAATTTTTGAAAGTTTTGGGGTCAAAAATGGAATTTTTAGAAGTTCG
* * * * * *
83929 AGAGTAAAAAATGTAATTTTTAAAAGTTTCGAGGTCAAAAACGGAATTTTTAGAAGTTCG
1 GGGGT-AAAAATGTAATTTTTGAAAGTTTTGGGGTCAAAAATGGAATTTTTAGAAGTTCG
* * * * *
83989 AGGGTAAAAATATAATTTTTGAATGTTTTGGGGTTAAAAATTGAATTTTTAGAAGTTCG
1 GGGGTAAAAATGTAATTTTTGAAAGTTTTGGGGTCAAAAATGGAATTTTTAGAAGTTCG
* * * **
84048 GGGGTAAAAATATAATTTTTGAAAGTTTTAGGGTCAAAAATGGAATTTTTGGAAGTTTT
1 GGGGTAAAAATGTAATTTTTGAAAGTTTTGGGGTCAAAAATGGAATTTTTAGAAGTTCG
* * * * * ** *
84107 AGGGAAAAAATGTTATTTTCGAATAGTTTAGGGACCAAAAATGGAATTTTTGGAAGTTCG
1 GGGGTAAAAATGTAATTTTTGAA-AGTTTTGGGGTCAAAAATGGAATTTTTAGAAGTTCG
* * *
84167 AGGGT-AAAATATAATTTTCGAACAGTTT
1 GGGGTAAAAATGTAATTTTTGAA-AGTTT
84195 AGGGACCTTT
Statistics
Matches: 320, Mismatches: 54, Indels: 18
0.82 0.14 0.05
Matches are distributed among these distances:
57 24 0.08
58 13 0.04
59 187 0.58
60 96 0.30
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.36
Consensus pattern (59 bp):
GGGGTAAAAATGTAATTTTTGAAAGTTTTGGGGTCAAAAATGGAATTTTTAGAAGTTCG
Found at i:84019 original size:178 final size:177
Alignment explanation
Indices: 83807--84194 Score: 514
Period size: 178 Copynumber: 2.2 Consensus size: 177
83797 TTTTTGGACA
* * *
83807 TTCGGGGGTAAAATGGTAATTTTTGAAAGTTTTGGGGTCGAAAAAGT-AATTTTTA-AAGGTTTG
1 TTCGAGGGTAAAAT-ATAATTTTTGAAAGTTTTGGGGT-GAAAAAGTGAATTTTTAGAA-GTTCG
* * *
83870 GGGGTAAAAATGTAATTTTTGGAAGTTTTAAGGTCAAAAATGGAATTTTTGGAAGTTTGAGAGTA
63 GGGGTAAAAATATAATTTTTGAAAGTTTTAAGGTCAAAAATGGAATTTTTGGAAGTTTGAG-GGA
* * *
83935 AAAAATGTAATTTT-TAAAAGTTTCGAGG-TCAAAAACGGAATTTTTAGAAG
127 AAAAATGTAATTTTCGAAAAGTTTAG-GGACCAAAAACGGAATTTTTAGAAG
* * *
83985 TTCGAGGGTAAAAATATAATTTTTGAATGTTTTGGGGTTAAAAATTGAATTTTTAGAAGTTCGGG
1 TTCGAGGGT-AAAATATAATTTTTGAAAGTTTTGGGGTGAAAAAGTGAATTTTTAGAAGTTCGGG
* *
84050 GGTAAAAATATAATTTTTGAAAGTTTTAGGGTCAAAAATGGAATTTTTGGAAGTTTTAGGGAAAA
65 GGTAAAAATATAATTTTTGAAAGTTTTAAGGTCAAAAATGGAATTTTTGGAAGTTTGAGGGAAAA
* * * *
84115 AATGTTATTTTCGAATAGTTTAGGGACCAAAAATGGAATTTTTGGAAG
130 AATGTAATTTTCGAAAAGTTTAGGGACCAAAAACGGAATTTTTAGAAG
*
84163 TTCGAGGGTAAAATATAATTTTCGAACAGTTT
1 TTCGAGGGTAAAATATAATTTTTGAA-AGTTT
84195 AGGGACCTTT
Statistics
Matches: 184, Mismatches: 20, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
177 39 0.21
178 138 0.75
179 7 0.04
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (177 bp):
TTCGAGGGTAAAATATAATTTTTGAAAGTTTTGGGGTGAAAAAGTGAATTTTTAGAAGTTCGGGG
GTAAAAATATAATTTTTGAAAGTTTTAAGGTCAAAAATGGAATTTTTGGAAGTTTGAGGGAAAAA
ATGTAATTTTCGAAAAGTTTAGGGACCAAAAACGGAATTTTTAGAAG
Found at i:85289 original size:18 final size:18
Alignment explanation
Indices: 85258--85309 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 18
85248 CTGTCTTTTG
* * *
85258 ATATTCTTTTTTATTATT
1 ATATTATTTATTATCATT
85276 ATATTATTTATTATCATT
1 ATATTATTTATTATCATT
* * *
85294 AGATAACTTATTATCA
1 ATATTATTTATTATCA
85310 CCGTTATTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.58
Consensus pattern (18 bp):
ATATTATTTATTATCATT
Found at i:93127 original size:27 final size:27
Alignment explanation
Indices: 93096--93162 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
93086 AACATCCCTG
* *
93096 AGTGCCGCCACTTGAAGATATTCTTTC
1 AGTGCCACCACTTGAAGATACTCTTTC
*
93123 AGTGCCACCACTTGAAGATCCTCTTTC
1 AGTGCCACCACTTGAAGATACTCTTTC
* *
93150 ACTGCCATCACTT
1 AGTGCCACCACTT
93163 TGTGTCCCTC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.22, C:0.31, G:0.15, T:0.31
Consensus pattern (27 bp):
AGTGCCACCACTTGAAGATACTCTTTC
Found at i:94016 original size:42 final size:43
Alignment explanation
Indices: 93940--94024 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 43
93930 AAATAATTTT
*
93940 ATTTAATTTAAAGTTTTTTTTAAGAAGCGAAAATTGAT-TTTGG
1 ATTTAATTTAAAGTTTTTTGTAAGAAGCGAAAATT-ATATTTGG
*
93983 ATTTAATTTATGAGTTTTTTGTAAGAA-CG-AAATTATATTTGG
1 ATTTAATTTA-AAGTTTTTTGTAAGAAGCGAAAATTATATTTGG
94025 GTAAGATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
41 2 0.05
42 10 0.26
43 12 0.32
44 14 0.37
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.47
Consensus pattern (43 bp):
ATTTAATTTAAAGTTTTTTGTAAGAAGCGAAAATTATATTTGG
Found at i:97536 original size:18 final size:18
Alignment explanation
Indices: 97515--97556 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
97505 AATAATGACG
*
97515 ATAAAATTAT-ATATTATA
1 ATAAAATTATAATA-TAAA
*
97533 ATAATATTATAATATAAA
1 ATAAAATTATAATATAAA
97551 ATAAAA
1 ATAAAA
97557 AATAAACTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAAAATTATAATATAAA
Found at i:101497 original size:55 final size:56
Alignment explanation
Indices: 101426--101531 Score: 135
Period size: 55 Copynumber: 1.9 Consensus size: 56
101416 AATTTCAAAT
* * * *
101426 TTTTTTGGTGTTGGCCATGCA-ATGGCCGACA-TCCTTTTTTGAGAAAAAAATTACA
1 TTTTTGGGTGTAGGCCAT-CACATGGCCGACACCCCCTTTTTGAGAAAAAAATTACA
* *
101481 TTTTTGGGTGTAGGCCATTACATGGTCGACACCCCCTTTTTGAGAAAAAAA
1 TTTTTGGGTGTAGGCCATCACATGGCCGACACCCCCTTTTTGAGAAAAAAA
101532 AGTTTCAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
54 1 0.02
55 25 0.58
56 17 0.40
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (56 bp):
TTTTTGGGTGTAGGCCATCACATGGCCGACACCCCCTTTTTGAGAAAAAAATTACA
Found at i:101588 original size:42 final size:41
Alignment explanation
Indices: 101549--101680 Score: 135
Period size: 42 Copynumber: 3.1 Consensus size: 41
101539 AAATTTTTTT
101549 GTGTCGACCATTGTCCTTTTTAAAAAAAAAATGTATTTTTGG
1 GTGTCGACCATTGT-CTTTTTAAAAAAAAAATGTATTTTTGG
* * *
101591 GTGTCGGCCA-TGTACTTTTTGAGAAAAAAAT-TACATTTTTGG
1 GTGTCGACCATTGT-CTTTTTAAAAAAAAAATGT--ATTTTTGG
* * *
101633 GTGTCGACAATTG-CTTTTTGAGAAAAAAAATTGCATTTTTGG
1 GTGTCGACCATTGTCTTTTT-A-AAAAAAAAATGTATTTTTGG
101675 GTGTCG
1 GTGTCG
101681 GTTATGCATT
Statistics
Matches: 74, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
40 1 0.01
41 24 0.32
42 39 0.53
43 10 0.14
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (41 bp):
GTGTCGACCATTGTCTTTTTAAAAAAAAAATGTATTTTTGG
Found at i:102574 original size:17 final size:16
Alignment explanation
Indices: 102552--102605 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 16
102542 TTAAAAAAAT
102552 AATTAGAATATATAGGA
1 AATTAGAATATA-AGGA
102569 AATTAGAA-A-AA--A
1 AATTAGAATATAAGGA
*
102581 AATTAAAATATACAGGA
1 AATTAGAATATA-AGGA
102598 AATTAGAA
1 AATTAGAA
102606 ATTAAATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
12 8 0.27
13 1 0.03
14 2 0.07
15 2 0.07
16 1 0.03
17 16 0.53
ACGTcount: A:0.61, C:0.02, G:0.13, T:0.24
Consensus pattern (16 bp):
AATTAGAATATAAGGA
Found at i:102590 original size:29 final size:29
Alignment explanation
Indices: 102545--102620 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
102535 ATAAATTTTA
* *
102545 AAAAAATAATTAGAATATATAGGAAATTAG
1 AAAAAA-AATTAAAATATACAGGAAATTAG
102575 AAAAAAAATTAAAATATACAGGAAATTAG
1 AAAAAAAATTAAAATATACAGGAAATTAG
* *
102604 AAATTAAATTTAAAATA
1 AAA-AAAAATTAAAATA
102621 ACAACGAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.59
30 17 0.41
ACGTcount: A:0.63, C:0.01, G:0.09, T:0.26
Consensus pattern (29 bp):
AAAAAAAATTAAAATATACAGGAAATTAG
Found at i:102619 original size:30 final size:30
Alignment explanation
Indices: 102558--102648 Score: 114
Period size: 30 Copynumber: 3.1 Consensus size: 30
102548 AAATAATTAG
* * *
102558 AATATATAGGAAATTAGAAA-AAAAATTAA
1 AATATACAGGAAATTAGAAATTAAATTTAA
102587 AATATACAGGAAATTAGAAATTAAATTTAA
1 AATATACAGGAAATTAGAAATTAAATTTAA
* *
102617 AATA-ACAACGAAATTACAAATTAAATTTAA
1 AATATAC-AGGAAATTAGAAATTAAATTTAA
102647 AA
1 AA
102649 AGTAAACGGA
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
29 21 0.38
30 34 0.62
ACGTcount: A:0.62, C:0.04, G:0.08, T:0.26
Consensus pattern (30 bp):
AATATACAGGAAATTAGAAATTAAATTTAA
Found at i:103142 original size:12 final size:12
Alignment explanation
Indices: 103125--103159 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
103115 TTGGTCTTGA
103125 GGCTCGTAATCG
1 GGCTCGTAATCG
*
103137 GGCTCGTAATTG
1 GGCTCGTAATCG
103149 GGCTCGTAATC
1 GGCTCGTAATC
103160 TGCCTTGTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.17, C:0.23, G:0.31, T:0.29
Consensus pattern (12 bp):
GGCTCGTAATCG
Found at i:106448 original size:57 final size:57
Alignment explanation
Indices: 106247--106904 Score: 510
Period size: 57 Copynumber: 11.2 Consensus size: 57
106237 AGGGGAAGTT
* * ** *
106247 GGTGTCGGCCATTACATGACCAACACCAAAAAAT-TTAATTTTTTAC-CAAATAAAAAGGG
1 GGTGTCGACCATTGCATGACCAACACCAAAAAATGCAAATTTTTTTCTC----AAAAAGGG
* * * * *
106306 GGTGTCGACGATTGCATGACTAACACCAAAAAATTTTG-AATTTTTTTTATCCGAGAACAGGG
1 GGTGTCGACCATTGCATGACCAACACCAAAAAA---TGCAAATTTTTTTCT-C-A-AAAAGGG
* * *
106368 GGTGTCGGCCATTGCATGGCCAACACCTAAAAATGCAAATTTTTTTCTCAAAAAGGG
1 GGTGTCGACCATTGCATGACCAACACCAAAAAATGCAAATTTTTTTCTCAAAAAGGG
* ** *
106425 GGTGTCGGCCATTGCATGACCAACACCAAAAAATTTTAAATTTTTTTTTCAAAAAGGG
1 GGTGTCGACCATTGCATGACCAACACCAAAAAA-TGCAAATTTTTTTCTCAAAAAGGG
* * * * * *
106483 AGTGTCGACCATTGCATGGCTAACACAAAAAAATTTTG-AATTTTTTTTTCTCAAAAGGGG
1 GGTGTCGACCATTGCATGACCAACACCAAAAAA---TGCAA-ATTTTTTTCTCAAAAAGGG
* * *
106543 GGTGTCGATCA-TGCAAT-AGCCAACACCGAAAAATGCAATTTTTTTTCTCAAAAAGGG
1 GGTGTCGACCATTGC-ATGA-CCAACACCAAAAAATGCAAATTTTTTTCTCAAAAAGGG
* * * ** *
106600 GGTGTCGATCATTGTATGGCCAACATAAAAAAATTTTG-AAATTTTTTTTCTCAAAAAGAG
1 GGTGTCGACCATTGCATGACCAACACCAAAAAA---TGCAAA-TTTTTTTCTCAAAAAGGG
* * *
106660 GGTGTCGACCATTGCATGATCAACACCCAAAAATGCAATTTTTTTTCTCAAAAAGGG
1 GGTGTCGACCATTGCATGACCAACACCAAAAAATGCAAATTTTTTTCTCAAAAAGGG
* * * *
106717 GGTGTCGATCA-TGCAATGGCCGACACTC-AAAAATGC-AATTTTTTTCTCAAAAAGAG
1 GGTGTCGACCATTGC-ATGACCAACAC-CAAAAAATGCAAATTTTTTTCTCAAAAAGGG
** * * * * *
106773 AATGTCGGCCATTGCATGGCGAACACAAAAAAATTTTGAAAATTTTTTTTCTCAAAAAGGG
1 GGTGTCGACCATTGCATGACCAACACCAAAAAA---TGCAAA-TTTTTTTCTCAAAAAGGG
* * * * * *
106834 GGTGTCGGCCA-TGCAATGACTAACACCCAAAAATACAATTTTTTTTCTTAAAAAGGG
1 GGTGTCGACCATTGC-ATGACCAACACCAAAAAATGCAAATTTTTTTCTCAAAAAGGG
*
106891 GGTGTCGGCCATTG
1 GGTGTCGACCATTG
106905 AATGGTCAAT
Statistics
Matches: 486, Mismatches: 80, Indels: 67
0.77 0.13 0.11
Matches are distributed among these distances:
56 42 0.09
57 157 0.32
58 62 0.13
59 41 0.08
60 100 0.21
61 41 0.08
62 42 0.09
64 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (57 bp):
GGTGTCGACCATTGCATGACCAACACCAAAAAATGCAAATTTTTTTCTCAAAAAGGG
Found at i:106730 original size:174 final size:172
Alignment explanation
Indices: 106247--106897 Score: 746
Period size: 174 Copynumber: 3.7 Consensus size: 172
106237 AGGGGAAGTT
* * * **
106247 GGTGTCGGCCATTACATGACCAACACCAAAAAA-TTT--AATTTTTTACCAAAT-AAAAAGGGGG
1 GGTGTCGGCCATTGCATGGCCAACACAAAAAAATTTTGAAATTTTTTTTC---TCAAAAAGGGGG
* * *
106308 TGTCGACGATTGCATGACTAACACCAAAAAATTTTGAATTTTTTTTATCCGAGAACAGGGGGTGT
63 TGTCGACCATTGCATGACTAACACCAAAAAA--TTGAATTTTTTTTCT-C-A-AAAAGGGGGTGT
**
106373 CGGCCATTGC-ATGGCCAACACCTAAAAATGCAAATTTTTTTCTCAAAAAGGG
123 CGATCA-TGCAATGGCCAACACC-AAAAATGC-AATTTTTTTCTCAAAAAGGG
* * *
106425 GGTGTCGGCCATTGCATGACCAACACCAAAAAATTTT-AAATTTTTTTT-TCAAAAAGGGAGTGT
1 GGTGTCGGCCATTGCATGGCCAACACAAAAAAATTTTGAAATTTTTTTTCTCAAAAAGGGGGTGT
* * *
106488 CGACCATTGCATGGCTAACACAAAAAAATTTTGAATTTTTTTTTCTCAAAAGGGGGGTGTCGATC
66 CGACCATTGCATGACTAACACCAAAAAA--TTGAA-TTTTTTTTCTCAAAAAGGGGGTGTCGATC
*
106553 ATGCAATAGCCAACACCGAAAAATGCAATTTTTTTTCTCAAAAAGGG
128 ATGCAATGGCCAACACC-AAAAATGCAA-TTTTTTTCTCAAAAAGGG
** * * *
106600 GGTGTCGATCATTGTATGGCCAACATAAAAAAATTTTGAAATTTTTTTTCTCAAAAAGAGGGTGT
1 GGTGTCGGCCATTGCATGGCCAACACAAAAAAATTTTGAAATTTTTTTTCTCAAAAAGGGGGTGT
*
106665 CGACCATTGCATGA-TCAACACCCAAAAA-TGCAATTTTTTTTCTCAAAAAGGGGGTGTCGATCA
66 CGACCATTGCATGACT-AACACCAAAAAATTG-AATTTTTTTTCTCAAAAAGGGGGTGTCGATCA
* *
106728 TGCAATGGCCGACACTCAAAAATGCAATTTTTTTCTCAAAAAGAG
129 TGCAATGGCCAACAC-CAAAAATGCAATTTTTTTCTCAAAAAGGG
** *
106773 AATGTCGGCCATTGCATGGCGAACACAAAAAAATTTTGAAAATTTTTTTTCTCAAAAAGGGGGTG
1 GGTGTCGGCCATTGCATGGCCAACACAAAAAAATTTTG-AAATTTTTTTTCTCAAAAAGGGGGTG
* * ** *
106838 TCGGCCA-TGCAATGACTAACACCCAAAAATACAATTTTTTTTCTTAAAAAGGGGGTGTCG
65 TCGACCATTGC-ATGACTAACACCAAAAAATTGAATTTTTTTTCTCAAAAAGGGGGTGTCG
106898 GCCATTGAAT
Statistics
Matches: 417, Mismatches: 41, Indels: 34
0.85 0.08 0.07
Matches are distributed among these distances:
173 51 0.12
174 133 0.32
175 86 0.21
176 14 0.03
177 81 0.19
178 41 0.10
179 3 0.01
180 8 0.02
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (172 bp):
GGTGTCGGCCATTGCATGGCCAACACAAAAAAATTTTGAAATTTTTTTTCTCAAAAAGGGGGTGT
CGACCATTGCATGACTAACACCAAAAAATTGAATTTTTTTTCTCAAAAAGGGGGTGTCGATCATG
CAATGGCCAACACCAAAAATGCAATTTTTTTCTCAAAAAGGG
Found at i:106921 original size:117 final size:117
Alignment explanation
Indices: 106298--106939 Score: 592
Period size: 117 Copynumber: 5.5 Consensus size: 117
106288 TTTACCAAAT
* * * *
106298 AAAAAGGGGGTGTCGACGATTGCATGACTAACACCAAAAAATTTTG-AATTTTTTTTATCCGAGA
1 AAAAAGGGGGTGTCGACCATTGCATGGCCAACACCAAAAAATTTTGAAATTTTTTTTCT-C-A-A
* * ** * *
106362 ACAGGGGGTGTCGGCCATTGCATGGCCAACACCTAAAAATGCAAATTTTTTTCTC
63 AAAGGGGGTGTCGACCATTGCATGGCCAACACAAAAAAATACAATTTTTTTTCTC
* *
106417 AAAAAGGGGGTGTCGGCCATTGCATGACCAACACCAAAAAATTTT-AAATTTTTTTT-TCAAAAA
1 AAAAAGGGGGTGTCGACCATTGCATGGCCAACACCAAAAAATTTTGAAATTTTTTTTCTCAAAAA
* * **
106480 GGGAGTGTCGACCATTGCATGGCTAACACAAAAAAATTTTGAATTTTTTTTTCTC
66 GGGGGTGTCGACCATTGCATGGCCAACACAAAAAAA--TACAA-TTTTTTTTCTC
* * * * *
106535 AAAAGGGGGGTGTCGATCA-TGCAATAGCCAACACCGAAAAA---TGCAATTTTTTTTCTCAAAA
1 AAAAAGGGGGTGTCGACCATTGC-ATGGCCAACACCAAAAAATTTTGAAATTTTTTTTCTCAAAA
* * *
106596 AGGGGGTGTCGATCATTGTATGGCCAACATAAAAAAATTTTGA-AATTTTTTTTCTC
65 AGGGGGTGTCGACCATTGCATGGCCAACACAAAAAAA---T-ACAATTTTTTTTCTC
* ** * *
106652 AAAAAGAGGGTGTCGACCATTGCATGATCAACACCCAAAAA---TGCAATTTTTTTTCTCAAAAA
1 AAAAAGGGGGTGTCGACCATTGCATGGCCAACACCAAAAAATTTTGAAATTTTTTTTCTCAAAAA
* * ** *
106714 GGGGGTGTCGATCA-TGCAATGGCCGACACTCAAAAATGCAA-TTTTTTTCTC
66 GGGGGTGTCGACCATTGC-ATGGCCAACACAAAAAAATACAATTTTTTTTCTC
* ** * * *
106765 AAAAAGAGAATGTCGGCCATTGCATGGCGAACACAAAAAAATTTTGAAAATTTTTTTTCTCAAAA
1 AAAAAGGGGGTGTCGACCATTGCATGGCCAACACCAAAAAATTTTG-AAATTTTTTTTCTCAAAA
* * * ** *
106830 AGGGGGTGTCGGCCA-TGCAATGACTAACACCCAAAAATACAATTTTTTTTCTT
65 AGGGGGTGTCGACCATTGC-ATGGCCAACACAAAAAAATACAATTTTTTTTCTC
* * * * * *
106883 AAAAAGGGGGTGTCGGCCATTGAATGGTCAATACAAAAAAAATTTGAAATTTTTTTT
1 AAAAAGGGGGTGTCGACCATTGCATGGCCAACACCAAAAAATTTTGAAATTTTTTTT
106940 TTGACAAAAA
Statistics
Matches: 443, Mismatches: 63, Indels: 36
0.82 0.12 0.07
Matches are distributed among these distances:
113 43 0.10
114 3 0.01
115 35 0.08
116 15 0.03
117 198 0.45
118 97 0.22
119 52 0.12
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (117 bp):
AAAAAGGGGGTGTCGACCATTGCATGGCCAACACCAAAAAATTTTGAAATTTTTTTTCTCAAAAA
GGGGGTGTCGACCATTGCATGGCCAACACAAAAAAATACAATTTTTTTTCTC
Found at i:107799 original size:106 final size:106
Alignment explanation
Indices: 107675--107885 Score: 386
Period size: 106 Copynumber: 2.0 Consensus size: 106
107665 CAAACAAATT
* *
107675 AAACTCTAGTAGTACGAACTAGGGACCTCTCGTTTATTTAATAATCTCTCTTCCGCTTTACTAAT
1 AAACTCTAGTAGTACGAACCAGGGACCTCTCGTTTATTTAATAATCTCTCTTCCACTTTACTAAT
*
107740 CACTTCTTTAAAAGAGAAATGACCAATAACTTTTCCAGCAA
66 CACTTCTTTAAAAAAGAAATGACCAATAACTTTTCCAGCAA
*
107781 AAACTCTAGTAGTACGAACCAGGTACCTCTCGTTTATTTAATAATCTCTCTTCCACTTTACTAAT
1 AAACTCTAGTAGTACGAACCAGGGACCTCTCGTTTATTTAATAATCTCTCTTCCACTTTACTAAT
107846 CACTTCTTTAAAAAAGAAATGACCAATAACTTTTCCAGCA
66 CACTTCTTTAAAAAAGAAATGACCAATAACTTTTCCAGCA
107886 CAAAGTAAAC
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 101 1.00
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.33
Consensus pattern (106 bp):
AAACTCTAGTAGTACGAACCAGGGACCTCTCGTTTATTTAATAATCTCTCTTCCACTTTACTAAT
CACTTCTTTAAAAAAGAAATGACCAATAACTTTTCCAGCAA
Found at i:107906 original size:26 final size:27
Alignment explanation
Indices: 107877--107935 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 27
107867 ACCAATAACT
107877 TTTCC-AGCACAAAGTAAACGTGCTTA
1 TTTCCGAGCACAAAGTAAACGTGCTTA
**
107903 TTTCCCGTATTACAAAGTAAACGTGCTTA
1 TTT-CCG-AGCACAAAGTAAACGTGCTTA
107932 TTTC
1 TTTC
107936 TAGTAGTAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 3 0.11
27 2 0.07
28 1 0.04
29 22 0.79
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.34
Consensus pattern (27 bp):
TTTCCGAGCACAAAGTAAACGTGCTTA
Found at i:108322 original size:33 final size:33
Alignment explanation
Indices: 108280--108346 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
108270 CCATAAGTAA
108280 AATTTTTTCATGATATTGCTATTGTAAGAGCAT
1 AATTTTTTCATGATATTGCTATTGTAAGAGCAT
108313 AATTTTTTCATGATATTGCTATTGTAAGAGCAT
1 AATTTTTTCATGATATTGCTATTGTAAGAGCAT
108346 A
1 A
108347 TTTGAATCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (33 bp):
AATTTTTTCATGATATTGCTATTGTAAGAGCAT
Found at i:108357 original size:33 final size:33
Alignment explanation
Indices: 108287--108358 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 33
108277 TAAAATTTTT
**
108287 TCATGATATTGCTATTGTAAGAGCATAATTTTT
1 TCATGATATTGCTATTGTAAGAGCATAATTTAA
108320 TCATGATATTGCTATTGTAAGAGCAT-ATTTGAA
1 TCATGATATTGCTATTGTAAGAGCATAATTT-AA
108353 TCATGA
1 TCATGA
108359 AAAATTGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 4 0.11
33 32 0.89
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.42
Consensus pattern (33 bp):
TCATGATATTGCTATTGTAAGAGCATAATTTAA
Found at i:110306 original size:15 final size:14
Alignment explanation
Indices: 110282--110316 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
110272 TATTTAGATT
110282 TTATAATTTATAAAA
1 TTATAATTTA-AAAA
*
110297 TTATATTTTAAAAA
1 TTATAATTTAAAAA
110311 TTATAA
1 TTATAA
110317 AAATATAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TTATAATTTAAAAA
Found at i:110314 original size:22 final size:22
Alignment explanation
Indices: 110279--110323 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
110269 TCTTATTTAG
* * *
110279 ATTTTATAATTTATAAAATTAT
1 ATTTTAAAAATTATAAAAATAT
110301 ATTTTAAAAATTATAAAAATAT
1 ATTTTAAAAATTATAAAAATAT
110323 A
1 A
110324 AACTATTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATTTTAAAAATTATAAAAATAT
Found at i:118045 original size:2 final size:2
Alignment explanation
Indices: 118038--118071 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
118028 TTAATAATAG
* *
118038 CT CT CT CT CT CT CT CT CT CT CC CT CT CC CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
118072 GTTTGTCTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (2 bp):
CT
Found at i:120778 original size:2 final size:2
Alignment explanation
Indices: 120771--120796 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
120761 TTTTTGCTTC
120771 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
120797 AGAATTTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:136227 original size:21 final size:21
Alignment explanation
Indices: 136202--136242 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
136192 AGGATTTTAA
136202 TTTATTTAATTTTAGTCTTAC
1 TTTATTTAATTTTAGTCTTAC
136223 TTTATTTAATTTTAGTCTTA
1 TTTATTTAATTTTAGTCTTA
136243 GTGTAGAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.07, G:0.05, T:0.63
Consensus pattern (21 bp):
TTTATTTAATTTTAGTCTTAC
Found at i:138557 original size:25 final size:25
Alignment explanation
Indices: 138529--138582 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
138519 TTTTGGAATT
138529 TTTTAT-ATATTTAAAATCA-TTTTTA
1 TTTTATGA-ATTTAAAAT-ATTTTTTA
* *
138554 TTTTTTGAATTTTAAATATTTTTTA
1 TTTTATGAATTTAAAATATTTTTTA
138579 TTTT
1 TTTT
138583 TTCATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 1 0.04
25 23 0.92
26 1 0.04
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTTATGAATTTAAAATATTTTTTA
Found at i:138557 original size:26 final size:25
Alignment explanation
Indices: 138537--138584 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
138527 TTTTTTATAT
138537 ATTTAAAATCA-TTTTTATTTTTTGA
1 ATTTAAAAT-ATTTTTTATTTTTTGA
*
138562 ATTTTAAATATTTTTTATTTTTT
1 ATTTAAAATATTTTTTATTTTTT
138585 CATTATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (25 bp):
ATTTAAAATATTTTTTATTTTTTGA
Found at i:138584 original size:18 final size:18
Alignment explanation
Indices: 138563--138605 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
138553 ATTTTTTGAA
*
138563 TTTTAAATATTTTTTATT
1 TTTTAAATATATTTTATT
* *
138581 TTTTCATTATATTTTATT
1 TTTTAAATATATTTTATT
*
138599 TTGTAAA
1 TTTTAAA
138606 AAAAATATTT
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTAAATATATTTTATT
Found at i:141358 original size:18 final size:18
Alignment explanation
Indices: 141338--141373 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
141328 GTTTACAATA
141338 TTTTAATAATTTTCTATAT
1 TTTTAA-AATTTTCTATAT
*
141357 TTTTAAAATTTTTTATA
1 TTTTAAAATTTTCTATA
141374 ATGTTCGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTAAAATTTTCTATAT
Found at i:141386 original size:28 final size:29
Alignment explanation
Indices: 141319--141388 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 29
141309 TTTTGCACTT
* *
141319 TTCTATATTGTTTACAATATTTTAATAATT
1 TTCTATATT-TTTAAAATATTTTAATAATG
*
141349 TTCTATATTTTTAAAAT-TTTTTATAATG
1 TTCTATATTTTTAAAATATTTTAATAATG
141377 TTCGTA-ATTTTT
1 TTC-TATATTTTT
141389 TTTTTTTTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 18 0.50
29 9 0.25
30 9 0.25
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (29 bp):
TTCTATATTTTTAAAATATTTTAATAATG
Found at i:142154 original size:12 final size:12
Alignment explanation
Indices: 142137--142219 Score: 53
Period size: 12 Copynumber: 6.9 Consensus size: 12
142127 CGTTTGTTTA
142137 ATGTTCATGAAC
1 ATGTTCATGAAC
*
142149 ATGTTCATGTAC
1 ATGTTCATGAAC
** *
142161 AT-TAAACGAAC
1 ATGTTCATGAAC
*
142172 ATGTTCATGAAT
1 ATGTTCATGAAC
* *
142184 AT-ATAATTGAAC
1 ATGTTCA-TGAAC
*
142196 ATGTTCACGAAC
1 ATGTTCATGAAC
*
142208 AATGTTAATGAA
1 -ATGTTCATGAA
142220 TAATAAACAA
Statistics
Matches: 50, Mismatches: 17, Indels: 7
0.68 0.23 0.09
Matches are distributed among these distances:
11 9 0.18
12 30 0.60
13 11 0.22
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (12 bp):
ATGTTCATGAAC
Found at i:142200 original size:24 final size:23
Alignment explanation
Indices: 142143--142208 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 23
142133 TTTAATGTTC
*
142143 ATGAACATGTTCATGTACATTAA
1 ATGAACATGTTCATGAACATTAA
* *
142166 ACGAACATGTTCATGAATATATAA
1 ATGAACATGTTCATGAACAT-TAA
* *
142190 TTGAACATGTTCACGAACA
1 ATGAACATGTTCATGAACA
142209 ATGTTAATGA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
23 17 0.49
24 18 0.51
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (23 bp):
ATGAACATGTTCATGAACATTAA
Found at i:145220 original size:16 final size:18
Alignment explanation
Indices: 145181--145214 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
145171 TAAGTTTATA
145181 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
145198 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
145215 AATTTAGAAC
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:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:149246 original size:20 final size:21
Alignment explanation
Indices: 149223--149265 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
149213 AATTTTATAA
149223 TTTTATAA-TTTTATAATTTT
1 TTTTATAATTTTTATAATTTT
*
149243 TTTTATAATTTTTATGATTTT
1 TTTTATAATTTTTATAATTTT
149264 TT
1 TT
149266 AAAATAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTATAATTTTTATAATTTT
Found at i:149248 original size:12 final size:12
Alignment explanation
Indices: 149231--149255 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
149221 AATTTTATAA
149231 TTTTATAATTTT
1 TTTTATAATTTT
149243 TTTTATAATTTT
1 TTTTATAATTTT
149255 T
1 T
149256 ATGATTTTTT
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:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTATAATTTT
Found at i:149254 original size:8 final size:8
Alignment explanation
Indices: 149213--149242 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
149203 TTTTAATAAA
149213 AATTTTAT
1 AATTTTAT
149221 AATTTTAT
1 AATTTTAT
149229 AATTTTAT
1 AATTTTAT
149237 AATTTT
1 AATTTT
149243 TTTTATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
AATTTTAT
Found at i:149254 original size:9 final size:9
Alignment explanation
Indices: 149215--149264 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 9
149205 TTAATAAAAA
149215 TTTTATAA-
1 TTTTATAAT
149223 TTTTATAA-
1 TTTTATAAT
149231 TTTTATAATTTT
1 TTTTATAA---T
149243 TTTTATAAT
1 TTTTATAAT
*
149252 TTTTATGAT
1 TTTTATAAT
149261 TTTT
1 TTTT
149265 TAAAATAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
8 16 0.43
9 13 0.35
12 8 0.22
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (9 bp):
TTTTATAAT
Found at i:156596 original size:131 final size:131
Alignment explanation
Indices: 156448--156711 Score: 492
Period size: 131 Copynumber: 2.0 Consensus size: 131
156438 ACTAGAATGG
156448 CTTGTTCAAGCTTCTAAGCTGTTAAGTCAACTAAGTCACATCATTAGCCCATCAAATTTAGCTGT
1 CTTGTTCAAGCTTCTAAGCTGTTAAGTCAACTAAGTCACATCATTAGCCCATCAAATTTAGCTGT
*
156513 CATAGCTAATCTTTTCTTAAAAACAACAAAATTACATCTTAACTAAACAAGTCAACATGTTACAA
66 CATAGCTAATCTTTTCTTAAAAACAACAAAATTACAACTTAACTAAACAAGTCAACATGTTACAA
156578 A
131 A
* *
156579 CTTGTTCAAGCTTCTAAGCTGTTAAGTCGACTAAGTCACATCCTTAGCCCATCAAATTTAGCTGT
1 CTTGTTCAAGCTTCTAAGCTGTTAAGTCAACTAAGTCACATCATTAGCCCATCAAATTTAGCTGT
*
156644 CATAGCTGATCTTTTCTTAAAAACAACAAAATTACAACTTAACTAAACAAGTCAACATGTTACAA
66 CATAGCTAATCTTTTCTTAAAAACAACAAAATTACAACTTAACTAAACAAGTCAACATGTTACAA
156709 A
131 A
156710 CT
1 CT
156712 AAATTAACAT
Statistics
Matches: 129, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
131 129 1.00
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (131 bp):
CTTGTTCAAGCTTCTAAGCTGTTAAGTCAACTAAGTCACATCATTAGCCCATCAAATTTAGCTGT
CATAGCTAATCTTTTCTTAAAAACAACAAAATTACAACTTAACTAAACAAGTCAACATGTTACAA
A
Found at i:158459 original size:12 final size:12
Alignment explanation
Indices: 158442--158466 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
158432 TTGTACCTCT
158442 AACAGGTACATC
1 AACAGGTACATC
158454 AACAGGTACATC
1 AACAGGTACATC
158466 A
1 A
158467 TCATAGTCCT
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:0.44, C:0.24, G:0.16, T:0.16
Consensus pattern (12 bp):
AACAGGTACATC
Found at i:164157 original size:2 final size:2
Alignment explanation
Indices: 164145--164176 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
164135 CCTCCCCACA
*
164145 CT CT GT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
164177 TCATTCCTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.47, G:0.03, T:0.50
Consensus pattern (2 bp):
CT
Found at i:173454 original size:19 final size:19
Alignment explanation
Indices: 173430--173469 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
173420 AGTTTAATTG
173430 AAACAATTAAACAGAGTTT
1 AAACAATTAAACAGAGTTT
173449 AAACAATTAAACAGAGTTT
1 AAACAATTAAACAGAGTTT
173468 AA
1 AA
173470 CTGAAAGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.25
Consensus pattern (19 bp):
AAACAATTAAACAGAGTTT
Found at i:175472 original size:24 final size:24
Alignment explanation
Indices: 175411--175473 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
175401 TAGACTAATA
* *
175411 AGAGTTTAACTCAAACAAATAAAT
1 AGAGTTTAACTGAAACAAATAAAC
* * *
175435 AGTGTTTAATTGAAACAAATAGAC
1 AGAGTTTAACTGAAACAAATAAAC
175459 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
175474 GATTATTTCT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.49, C:0.10, G:0.14, T:0.27
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:177318 original size:21 final size:21
Alignment explanation
Indices: 177277--177319 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
177267 TTTTTTTGAA
* *
177277 TCAAGTCGAGTGAAATGAAAT
1 TCAAGTCGAGTCAAATAAAAT
*
177298 TCAAGTCGAGTCAAGTAAAAT
1 TCAAGTCGAGTCAAATAAAAT
177319 T
1 T
177320 GTTTAAGTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.26
Consensus pattern (21 bp):
TCAAGTCGAGTCAAATAAAAT
Found at i:178209 original size:2 final size:2
Alignment explanation
Indices: 178198--178249 Score: 61
Period size: 2 Copynumber: 26.5 Consensus size: 2
178188 TGAGCTTCCC
* * *
178198 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA CA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
178239 TA TA TA CA TA T
1 TA TA TA TA TA T
178250 CAGTATAACT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (2 bp):
TA
Found at i:184957 original size:25 final size:24
Alignment explanation
Indices: 184912--184963 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
184902 TTTTTTCAAC
*
184912 TTTTATATGATATTTAAAAATATAT
1 TTTTATATGAAATTTAAAAAT-TAT
*
184937 TTTTATATGGAAATTT-TAAATTAT
1 TTTTATAT-GAAATTTAAAAATTAT
184961 TTT
1 TTT
184964 CAAGATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.25
25 12 0.50
26 6 0.25
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (24 bp):
TTTTATATGAAATTTAAAAATTAT
Found at i:185021 original size:20 final size:21
Alignment explanation
Indices: 184983--185021 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
184973 AAATAAAAAT
*
184983 ATTTATATTTATATCATAAGA
1 ATTTATATTTAAATCATAAGA
*
185004 ATTTA-ATTTAAATTATAA
1 ATTTATATTTAAATCATAA
185022 ATTAAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (21 bp):
ATTTATATTTAAATCATAAGA
Found at i:188965 original size:9 final size:9
Alignment explanation
Indices: 188951--188978 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
188941 TTAAAGTAAG
188951 GAAAAGAAA
1 GAAAAGAAA
188960 GAAAAGAAA
1 GAAAAGAAA
188969 GAAAAGAAA
1 GAAAAGAAA
188978 G
1 G
188979 TGTTAGTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (9 bp):
GAAAAGAAA
Found at i:194092 original size:9 final size:9
Alignment explanation
Indices: 194070--194106 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
194060 AAAGAAAGAA
194070 AGAAGAA-G
1 AGAAGAAGG
194078 -GAAGAAGG
1 AGAAGAAGG
194086 AGAAGAAGG
1 AGAAGAAGG
*
194095 GGAAGAAGG
1 AGAAGAAGG
194104 AGA
1 AGA
194107 GGAAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
7 6 0.24
8 1 0.04
9 18 0.72
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (9 bp):
AGAAGAAGG
Done.