Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold237
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: 136383
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:1420 original size:15 final size:15
Alignment explanation
Indices: 1381--1444 Score: 53
Period size: 15 Copynumber: 4.4 Consensus size: 15
1371 AAATCCTAAC
1381 TTTTCTTATTTTTCTT
1 TTTTCTT-TTTTTCTT
* *
1397 TTTGC-TTTTCT-TT
1 TTTTCTTTTTTTCTT
1410 TTTTC-TTTTTTCTT
1 TTTTCTTTTTTTCTT
* *
1424 CTTTCTTTCTTTCTT
1 TTTTCTTTTTTTCTT
*
1439 CTTTCT
1 TTTTCT
1445 ATCATGCACA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
13 11 0.28
14 10 0.25
15 15 0.38
16 4 0.10
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.78
Consensus pattern (15 bp):
TTTTCTTTTTTTCTT
Found at i:1425 original size:18 final size:18
Alignment explanation
Indices: 1383--1441 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
1373 ATCCTAACTT
*
1383 TTCTTATTTTTCTTTTTGCTT
1 TTCTT-TTTTTCTTTTT--TC
1404 TTCTTTTTTTCTTTTTTC
1 TTCTTTTTTTCTTTTTTC
* *
1422 TTCTTTCTTTCTTTCTTC
1 TTCTTTTTTTCTTTTTTC
1440 TT
1 TT
1442 TCTATCATGC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
18 19 0.54
20 11 0.31
21 5 0.14
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.78
Consensus pattern (18 bp):
TTCTTTTTTTCTTTTTTC
Found at i:1428 original size:22 final size:21
Alignment explanation
Indices: 1381--1444 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 21
1371 AAATCCTAAC
*
1381 TTTTCTTATTTTTCTTTTTGC-
1 TTTTCTT-TTTTTCTTTTTTCT
1402 TTTTCTTTTTTTCTTTTTTCT
1 TTTTCTTTTTTTCTTTTTTCT
* *
1423 TCTTTCTTTCTTTCTTCTTTCT
1 T-TTTCTTTTTTTCTTTTTTCT
1445 ATCATGCACA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 12 0.32
21 8 0.21
22 18 0.47
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.78
Consensus pattern (21 bp):
TTTTCTTTTTTTCTTTTTTCT
Found at i:1431 original size:4 final size:4
Alignment explanation
Indices: 1403--1444 Score: 54
Period size: 4 Copynumber: 11.2 Consensus size: 4
1393 TCTTTTTGCT
*
1403 TTTC TTTT TTTC TTT- TTTC -TTC TTTC TTTC TTTC -TTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1445 ATCATGCACA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 9 0.27
4 24 0.73
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (4 bp):
TTTC
Found at i:1440 original size:7 final size:7
Alignment explanation
Indices: 1411--1444 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
1401 CTTTTCTTTT
*
1411 TTTCTTT
1 TTTCTTC
1418 TTTCTTC
1 TTTCTTC
1425 TTTCTTTC
1 TTTC-TTC
1433 TTTCTTC
1 TTTCTTC
1440 TTTCT
1 TTTCT
1445 ATCATGCACA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTCTTC
Found at i:1517 original size:2 final size:2
Alignment explanation
Indices: 1510--1558 Score: 57
Period size: 2 Copynumber: 25.0 Consensus size: 2
1500 GTCGCCTCCC
**
1510 CT CT CT CT CT CT CT CT CT CT CT CT CT CT AA CT -T CT CT C- CAT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C-T
1551 CT CT CT CT
1 CT CT CT CT
1559 AGCCCAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
1 2 0.05
2 37 0.93
3 1 0.03
ACGTcount: A:0.06, C:0.47, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:6872 original size:15 final size:16
Alignment explanation
Indices: 6852--6889 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
6842 GCTGCTAGGG
*
6852 TTATTTTT-GTTTAAA
1 TTATTTTTAATTTAAA
*
6867 TTATTTTTAATTTAAG
1 TTATTTTTAATTTAAA
6883 TTATTTT
1 TTATTTT
6890 ATATTCAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (16 bp):
TTATTTTTAATTTAAA
Found at i:6880 original size:16 final size:15
Alignment explanation
Indices: 6852--6894 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
6842 GCTGCTAGGG
*
6852 TTATTTTTGTTTAAA
1 TTATTTTTATTTAAA
*
6867 TTATTTTTAATTTAAG
1 TTATTTTT-ATTTAAA
6883 TTATTTTATATT
1 TTATTTT-TATT
6895 CAAGTAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 8 0.33
16 15 0.62
17 1 0.04
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (15 bp):
TTATTTTTATTTAAA
Found at i:7839 original size:23 final size:23
Alignment explanation
Indices: 7813--7865 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
7803 AACATAACAT
*
7813 ATAT-AAAAAAAATCTAAAACACA
1 ATATGAAAAAAAATAT-AAACACA
* *
7836 ATATGAAAAATAATATGAACACA
1 ATATGAAAAAAAATATAAACACA
7859 ATATGAA
1 ATATGAA
7866 TACATAAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 17 0.65
24 9 0.35
ACGTcount: A:0.64, C:0.09, G:0.06, T:0.21
Consensus pattern (23 bp):
ATATGAAAAAAAATATAAACACA
Found at i:10413 original size:10 final size:10
Alignment explanation
Indices: 10400--10441 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
10390 TTAATTTCCA
10400 TTAACAACCT
1 TTAACAACCT
* *
10410 TTAACCACCC
1 TTAACAACCT
*
10420 TTAACAACCA
1 TTAACAACCT
10430 TTAACAACCT
1 TTAACAACCT
10440 TT
1 TT
10442 TGTGAAAGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.38, C:0.33, G:0.00, T:0.29
Consensus pattern (10 bp):
TTAACAACCT
Found at i:11587 original size:33 final size:32
Alignment explanation
Indices: 11544--11606 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
11534 TACAAGCCAA
* * *
11544 TGTATTGATACATTTTTGGGTGTATCGATACTT
1 TGTATCGATACA-TATTGGGTGTATCAATACTT
*
11577 TGTATCGATACATATTGTGTGTATCAATAC
1 TGTATCGATACATATTGGGTGTATCAATAC
11607 AAATTTGGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 15 0.58
33 11 0.42
ACGTcount: A:0.25, C:0.11, G:0.19, T:0.44
Consensus pattern (32 bp):
TGTATCGATACATATTGGGTGTATCAATACTT
Found at i:11666 original size:20 final size:20
Alignment explanation
Indices: 11641--11691 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
11631 CCAATGACCT
**
11641 GTATCGATACATTTTTTCAA
1 GTATCGATACATTTAGTCAA
*
11661 GTATCGATACATTTAGTCAT
1 GTATCGATACATTTAGTCAA
11681 GTATCGATACA
1 GTATCGATACA
11692 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (20 bp):
GTATCGATACATTTAGTCAA
Found at i:11697 original size:13 final size:13
Alignment explanation
Indices: 11679--11703 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11669 ACATTTAGTC
11679 ATGTATCGATACA
1 ATGTATCGATACA
11692 ATGTATCGATAC
1 ATGTATCGATAC
11704 TGTGCAATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:12506 original size:16 final size:15
Alignment explanation
Indices: 12485--12533 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 15
12475 AGATTAAATG
12485 TCAAAGTACAATACAA
1 TCAAAGTA-AATACAA
12501 TCAAAGATAAATACCAA
1 TCAAAG-TAAATA-CAA
12518 GTC-AAGTAAATACAA
1 -TCAAAGTAAATACAA
12533 T
1 T
12534 AAATCCTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
14 1 0.03
15 3 0.10
16 16 0.53
17 8 0.27
18 2 0.07
ACGTcount: A:0.55, C:0.16, G:0.08, T:0.20
Consensus pattern (15 bp):
TCAAAGTAAATACAA
Found at i:14180 original size:13 final size:13
Alignment explanation
Indices: 14162--14199 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
14152 ATAAACCCCT
*
14162 TGTATCGATACAC
1 TGTATCGATACAA
*
14175 TGTATCAATACAA
1 TGTATCGATACAA
14188 TGTATCGATACA
1 TGTATCGATACA
14200 GAGAATACTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:14483 original size:20 final size:20
Alignment explanation
Indices: 14458--14522 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
14448 TATTTTATTC
14458 TTTTTAACCAAAAGATGTCA
1 TTTTTAACCAAAAGATGTCA
**
14478 TTTTTATGCAATTAAG--G-C-
1 TTTTTAACCAA--AAGATGTCA
14496 TATTTTAACCAAAAGATGTCA
1 T-TTTTAACCAAAAGATGTCA
14517 TTTTTA
1 TTTTTA
14523 TGCAATTAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
17 3 0.09
18 1 0.03
19 10 0.29
20 16 0.47
21 1 0.03
22 3 0.09
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (20 bp):
TTTTTAACCAAAAGATGTCA
Found at i:14502 original size:39 final size:39
Alignment explanation
Indices: 14459--14538 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
14449 ATTTTATTCT
14459 TTTTAACCAAAAGATGTCATTTTTATGCAATTAAGGCTA
1 TTTTAACCAAAAGATGTCATTTTTATGCAATTAAGGCTA
14498 TTTTAACCAAAAGATGTCATTTTTATGCAATTAAGGCTA
1 TTTTAACCAAAAGATGTCATTTTTATGCAATTAAGGCTA
14537 TT
1 TT
14539 AATCAAGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (39 bp):
TTTTAACCAAAAGATGTCATTTTTATGCAATTAAGGCTA
Found at i:20455 original size:32 final size:33
Alignment explanation
Indices: 20395--20457 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
20385 TAAAAGCCAA
*
20395 TGTATCGATACATTTTTGGGTGTATCGATACTT
1 TGTATCGATACATTATTGGGTGTATCGATACTT
*
20428 TGTATCGATACA-TATTGTGTGTATCGATAC
1 TGTATCGATACATTATTGGGTGTATCGATAC
20458 AAATTTGGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATTATTGGGTGTATCGATACTT
Found at i:21634 original size:14 final size:13
Alignment explanation
Indices: 21610--21645 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
21600 CTCCTTTCTT
21610 TCTTTTTTTTTTC
1 TCTTTTTTTTTTC
21623 TCTTTTTGTTTTTC
1 TCTTTTT-TTTTTC
21637 T-TTTTTTTT
1 TCTTTTTTTT
21646 CATTTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 3 0.14
13 12 0.55
14 7 0.32
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (13 bp):
TCTTTTTTTTTTC
Found at i:24561 original size:23 final size:22
Alignment explanation
Indices: 24530--24573 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
24520 TAAATATTAA
24530 TAAAAAAATTACAAA-AAAAAATT
1 TAAAAAAA-TA-AAATAAAAAATT
*
24553 TAAACAAATAAAATAAAAAAT
1 TAAAAAAATAAAATAAAAAAT
24574 AACTAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 3 0.16
22 9 0.47
23 7 0.37
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (22 bp):
TAAAAAAATAAAATAAAAAATT
Found at i:24951 original size:24 final size:23
Alignment explanation
Indices: 24924--24976 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
24914 AAATATATTG
24924 TAGACATAGA-TTATATATTATAAA
1 TAGACATA-ATTTATATA-TATAAA
*
24948 TAGATATAATTTATATCATATAAA
1 TAGACATAATTTATAT-ATATAAA
24972 T-GACA
1 TAGACA
24977 AATACAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 4 0.16
24 20 0.80
25 1 0.04
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.38
Consensus pattern (23 bp):
TAGACATAATTTATATATATAAA
Found at i:25242 original size:21 final size:21
Alignment explanation
Indices: 25218--25259 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
25208 AAATTAATAT
25218 TTAAAAAAAAG-TATTTTAAAA
1 TTAAAAAAAAGCT-TTTTAAAA
**
25239 TTAATTAAAAGCTTTTTAAAA
1 TTAAAAAAAAGCTTTTTAAAA
25260 GCAAATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (21 bp):
TTAAAAAAAAGCTTTTTAAAA
Found at i:26144 original size:39 final size:39
Alignment explanation
Indices: 26101--26182 Score: 94
Period size: 39 Copynumber: 2.1 Consensus size: 39
26091 AATATGATTG
* * * * *
26101 AAATA-CCCTCAAAAACTCTATTTTTACCTAAAGTCACCA
1 AAATAGCCCT-AAAAACCCAATTTTGACATAAAATCACCA
*
26140 AAATAGCCCTAAAAACCCAATTTTGACATAAAATTACCA
1 AAATAGCCCTAAAAACCCAATTTTGACATAAAATCACCA
26179 AAAT
1 AAAT
26183 TCTCTTAGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
39 32 0.89
40 4 0.11
ACGTcount: A:0.46, C:0.24, G:0.04, T:0.26
Consensus pattern (39 bp):
AAATAGCCCTAAAAACCCAATTTTGACATAAAATCACCA
Found at i:26278 original size:39 final size:38
Alignment explanation
Indices: 26194--26327 Score: 157
Period size: 38 Copynumber: 3.5 Consensus size: 38
26184 CTCTTAGAAG
* *
26194 TTTGACT-AAAATTACCAAAATAACCTTAAAAC-CTGGT
1 TTTGACTCAAAATTACTAAAATAACCTTAAAACTC-GAT
26231 TTTGACTCAAAATTACTAAAATAACCTCTAAAACTCGAT
1 TTTGACTCAAAATTACTAAAATAACCT-TAAAACTCGAT
* * * *
26270 TATAACTCAAAATTACTAAAATTACTTTTAAAA-TCGAT
1 TTTGACTCAAAATTACTAAAATAAC-CTTAAAACTCGAT
*
26308 TTTGACTCAAAATTATTAAA
1 TTTGACTCAAAATTACTAAA
26328 TGACCCTTAA
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
37 7 0.08
38 40 0.48
39 35 0.42
40 2 0.02
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (38 bp):
TTTGACTCAAAATTACTAAAATAACCTTAAAACTCGAT
Found at i:28245 original size:13 final size:13
Alignment explanation
Indices: 28227--28251 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28217 CAATTCTTCA
28227 TGTATCGATACAT
1 TGTATCGATACAT
28240 TGTATCGATACA
1 TGTATCGATACA
28252 ATGTGCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:28262 original size:33 final size:32
Alignment explanation
Indices: 28207--28271 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
28197 TTTGGGACAA
28207 TGTATCGATACAATTCTTCATGTATCGATACAT
1 TGTATCGATACAATTC-TCATGTATCGATACAT
*
28240 TGTATCGATACAATGTGC-CATGTATTGATACA
1 TGTATCGATACAAT-T-CTCATGTATCGATACA
28272 AACAATGGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAATTCTCATGTATCGATACAT
Found at i:28345 original size:19 final size:19
Alignment explanation
Indices: 28301--28385 Score: 92
Period size: 19 Copynumber: 4.7 Consensus size: 19
28291 CTACCAATTT
* **
28301 CATGTATCGATATAATTGTG
1 CATGTATCGATACAA-TGAA
28321 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
28340 CATGTATCGATAC-AT---
1 CATGTATCGATACAATGAA
28355 --TGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
28372 CATGTATCGATACA
1 CATGTATCGATACA
28386 TTGTATCGGT
Statistics
Matches: 56, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
13 11 0.20
14 2 0.04
18 2 0.04
19 27 0.48
20 14 0.25
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:28360 original size:13 final size:12
Alignment explanation
Indices: 28321--28398 Score: 59
Period size: 13 Copynumber: 7.2 Consensus size: 12
28311 TATAATTGTG
28321 CATGTATCGATA
1 CATGTATCGATA
28333 CA---AT-GA-A
1 CATGTATCGATA
28340 CATGTATCGATA
1 CATGTATCGATA
28352 CATTGTATCGATA
1 CA-TGTATCGATA
28365 CA---AT-GA-A
1 CATGTATCGATA
28372 CATGTATCGATA
1 CATGTATCGATA
*
28384 CATTGTATCGGTA
1 CA-TGTATCGATA
28397 CA
1 CA
28399 AAGCATAATG
Statistics
Matches: 53, Mismatches: 1, Indels: 23
0.69 0.01 0.30
Matches are distributed among these distances:
7 6 0.11
8 4 0.08
9 4 0.08
10 4 0.08
11 4 0.08
12 8 0.15
13 23 0.43
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (12 bp):
CATGTATCGATA
Found at i:28364 original size:32 final size:32
Alignment explanation
Indices: 28323--28416 Score: 145
Period size: 32 Copynumber: 2.9 Consensus size: 32
28313 TAATTGTGCA
28323 TGTATCGATACAATGAACATGTATCGATACAT
1 TGTATCGATACAATGAACATGTATCGATACAT
28355 TGTATCGATACAATGAACATGTATCGATACAT
1 TGTATCGATACAATGAACATGTATCGATACAT
* *
28387 TGTATCGGTACAAAGCATA-ATGTATCGATA
1 TGTATCGATACAATG-A-ACATGTATCGATA
28417 ATCTGGATAT
Statistics
Matches: 58, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 45 0.78
33 12 0.21
34 1 0.02
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (32 bp):
TGTATCGATACAATGAACATGTATCGATACAT
Found at i:34710 original size:150 final size:149
Alignment explanation
Indices: 34540--34911 Score: 426
Period size: 151 Copynumber: 2.5 Consensus size: 149
34530 TCTTATTTTC
* * * *
34540 AAAATACGGAGTTTTTTACTCCATAAATTTTTCAATAGAATTTTTCTAACTTTATAATTTTTAAA
1 AAAATACGGAGTTTTCTACTCCGTAAATTTTTCAATGGAATTTTTCTAAGTTTATAATTTTTAAA
* * * *
34605 ATTCTTCAAATATTATTTTTTAATTTATATTAAATCAGTTTCAAGA-ATTCAATTTATTTTATGA
66 ATT-TTCAAAAATTA-TTTTTAATTCAGATTAAATCAGTTTCAAAAGATTCAATTTATTTTATGA
*
34669 GA-TTTAAAATTTTTTGTTATT-
129 -ATTTTAAAATTTTTT-CTATTA
* * ** * *
34690 AAAATACAGAGTTTTCTACTCCGTAAATTTCTCTGGTGGCATTTTTCTAAGTTTATAATTTTCAA
1 AAAATACGGAGTTTTCTACTCCGTAAATTTTTC-AATGGAATTTTTCTAAGTTTATAATTTT-TA
* * *
34755 AAATTTTCAAAAATTATTTTTAATTCAGGTTAAATTAGTTTTAAAAGATTCAATTTATTTTATGA
64 AAATTTTCAAAAATTATTTTTAATTCAGATTAAATCAGTTTCAAAAGATTCAATTTATTTTATGA
*
34820 ATTTTGAAATTTTTTCTATTAA
129 ATTTTAAAATTTTTTCTATT-A
* * * * * *
34842 AAAATACGGAGTTTCCTACTCCGTAAATTTTTTTAATGGGATTTTTTTGAGTTTATGATTTTTAA
1 AAAATACGGAGTTTTCTACTCCGTAAA-TTTTTCAATGGAATTTTTCTAAGTTTATAATTTTTAA
34907 AATTT
65 AATTT
34912 ATTAAATATT
Statistics
Matches: 185, Mismatches: 30, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
150 58 0.31
151 70 0.38
152 53 0.29
153 4 0.02
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.49
Consensus pattern (149 bp):
AAAATACGGAGTTTTCTACTCCGTAAATTTTTCAATGGAATTTTTCTAAGTTTATAATTTTTAAA
ATTTTCAAAAATTATTTTTAATTCAGATTAAATCAGTTTCAAAAGATTCAATTTATTTTATGAAT
TTTAAAATTTTTTCTATTA
Found at i:36452 original size:79 final size:79
Alignment explanation
Indices: 36352--36996 Score: 520
Period size: 79 Copynumber: 8.2 Consensus size: 79
36342 AAATTTAATA
* * * * * **
36352 TTTTAGAGATAAAATCGGGGTTGGAGTATCCCCTCGAAAGTAACGGGGTTAGAATATCCTTGATG
1 TTTTAGAAATAAAATCGGGGTTGAAGTATCCCCTCGAAAATAACAGGGTTAGAGTATCCCCGATG
*
36417 GTTAAAAATTAGTG
66 GTGAAAAATTAGTG
* * * * * *
36431 TTTTAGAAATAAAA-CTAGGGTTGAAGTATCTCTTTGAAAATAACGGGGTTGGAGTAT-CCCGAT
1 TTTTAGAAATAAAATC-GGGGTTGAAGTATCCCCTCGAAAATAACAGGGTTAGAGTATCCCCGAT
* *
36494 AGTGAAAAATTAATG
65 GGTGAAAAATTAGTG
* * ** * * *
36509 TGTTAGAAATAAAATC-AGGTT-AGAGTATTTCCTTGGAAATAACAGGGTTGGAGTATCCCCGAT
1 TTTTAGAAATAAAATCGGGGTTGA-AGTATCCCCTCGAAAATAACAGGGTTAGAGTATCCCCGAT
*
36572 GGTGAAAAATTGGTG
65 GGTGAAAAATTAGTG
* ** ** * ** * *
36587 TTTTAGAAATAAAACCTAGGTT-AGAGTATCTTCTCGGAAATAACAATGTTGGAGTATCCCTGAT
1 TTTTAGAAATAAAATCGGGGTTGA-AGTATCCCCTCGAAAATAACAGGGTTAGAGTATCCCCGAT
* *
36651 AGTGAAAAATCAGTG
65 GGTGAAAAATTAGTG
* * * * * * **
36666 TTCTAGAAATAAAATCGGGGTTGAAGTGTCTCCTCAAAAATAATAGGGTTGGAGTATCCTTGATG
1 TTTTAGAAATAAAATCGGGGTTGAAGTATCCCCTCGAAAATAACAGGGTTAGAGTATCCCCGATG
* * *
36731 GGGGAAAATCAGTG
66 GTGAAAAATTAGTG
* * * * * * *
36745 TTTTAAAAATAAAACTGGGGGTTG-AGTGTCCACTCGGAAATTAC-GGGATTAGAGTATCCTCGA
1 TTTTAGAAATAAAA-TCGGGGTTGAAGTATCCCCTCGAAAATAACAGGG-TTAGAGTATCCCCGA
* *
36808 TGGTAAAAAAAATTGGTG
64 TGGT--GAAAAATTAGTG
* * * * *
36826 TTTTAGAAATAAAATCGAGTTTGAACTGTCCCCTCAAAAATAAC-GAGGTTAGAGTAT-CCCGAT
1 TTTTAGAAATAAAATCGGGGTTGAAGTATCCCCTCGAAAATAACAG-GGTTAGAGTATCCCCGAT
* *
36889 GGTGGAAAA-TCGATG
65 GGTGAAAAATTAG-TG
* *
36904 TTTTAGAAATAAAATCGGGGTTGAAGTGTCCCCT-TAAATATAACAGGGTTAGAGTATCCCCGAT
1 TTTTAGAAATAAAATCGGGGTTGAAGTATCCCCTCGAAA-ATAACAGGGTTAGAGTATCCCCGAT
*
36968 GGTGAAAAATCAGTG
65 GGTGAAAAATTAGTG
*
36983 CTTTAGAAATAAAA
1 TTTTAGAAATAAAA
36997 CATTAATAAA
Statistics
Matches: 463, Mismatches: 86, Indels: 34
0.79 0.15 0.06
Matches are distributed among these distances:
76 1 0.00
77 38 0.08
78 118 0.25
79 234 0.51
80 24 0.05
81 46 0.10
82 2 0.00
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (79 bp):
TTTTAGAAATAAAATCGGGGTTGAAGTATCCCCTCGAAAATAACAGGGTTAGAGTATCCCCGATG
GTGAAAAATTAGTG
Found at i:36932 original size:159 final size:160
Alignment explanation
Indices: 36663--36976 Score: 390
Period size: 159 Copynumber: 2.0 Consensus size: 160
36653 TGAAAAATCA
* * * * * *
36663 GTGTTCTAGAAATAAAATCGGGGTTGAAGTGTCTCCTCAAAAATAATAGGGTTGGAGTATCCTTG
1 GTGTTCTAGAAATAAAATCGAGGTTGAACTGTCCCCTCAAAAATAAGAGGGTTAGAGTATCCTCG
*
36728 ATGGGGGAAAATCAGTGTTTTAAAAATAAAACTGGGGGTTGAGTGTCCACTCGGAAAT-T-AC-G
66 ATGGGGGAAAATCAGTGTTTTAAAAATAAAACTCGGGGTTGAGTGTCC-C-CGGAAATATAACAG
*
36790 GGATTAGAGTATCCTCGATGGTAAAAAAAATTG
129 GG-TTAGAGTATCCCCGATGGTAAAAAAAATTG
* *
36823 GTGTTTTAGAAATAAAATCGAGTTTGAACTGTCCCCTCAAAAATAACGA-GGTTAGAGTATCC-C
1 GTGTTCTAGAAATAAAATCGAGGTTGAACTGTCCCCTCAAAAATAA-GAGGGTTAGAGTATCCTC
* * **
36886 GATGGTGGAAAATC-GATGTTTTAGAAATAAAA-TCGGGGTTGAAGTGTCCCCTTAAATATAACA
65 GATGGGGGAAAATCAG-TGTTTTAAAAATAAAACTCGGGGTTG-AGTGTCCCCGGAAATATAACA
*
36949 GGGTTAGAGTATCCCCGATGGTGAAAAA
128 GGGTTAGAGTATCCCCGATGGTAAAAAA
36977 TCAGTGCTTT
Statistics
Matches: 133, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
157 5 0.04
158 11 0.08
159 60 0.45
160 56 0.42
161 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (160 bp):
GTGTTCTAGAAATAAAATCGAGGTTGAACTGTCCCCTCAAAAATAAGAGGGTTAGAGTATCCTCG
ATGGGGGAAAATCAGTGTTTTAAAAATAAAACTCGGGGTTGAGTGTCCCCGGAAATATAACAGGG
TTAGAGTATCCCCGATGGTAAAAAAAATTG
Found at i:37806 original size:20 final size:21
Alignment explanation
Indices: 37781--37837 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
37771 GTTGGGCTTA
37781 ATGTATCGATACAATGC-ACT
1 ATGTATCGATACAATGCAACT
* * *
37801 ATGTATCAATACAATTCAAGT
1 ATGTATCGATACAATGCAACT
*
37822 ATGTATTGATACAATG
1 ATGTATCGATACAATG
37838 TATTAATATT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACAATGCAACT
Found at i:38827 original size:53 final size:53
Alignment explanation
Indices: 38756--38864 Score: 173
Period size: 53 Copynumber: 2.1 Consensus size: 53
38746 TGTAAAAAAC
* * * *
38756 TTCTGCCCGTATAACAATACTTCTCCCACAAAATCTCCTCTAAACAAATTTAT
1 TTCTCCCCCTATAACAATACTTCTCCCACAAAATCTCCCCTAAACAAATTCAT
*
38809 TTCTCCCCCTATAACAATACTTCTGCCACAAAATCTCCCCTAAACAAATTCAT
1 TTCTCCCCCTATAACAATACTTCTCCCACAAAATCTCCCCTAAACAAATTCAT
38862 TTC
1 TTC
38865 AAATATTTCT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.31
Consensus pattern (53 bp):
TTCTCCCCCTATAACAATACTTCTCCCACAAAATCTCCCCTAAACAAATTCAT
Found at i:43413 original size:51 final size:51
Alignment explanation
Indices: 43356--43484 Score: 206
Period size: 51 Copynumber: 2.5 Consensus size: 51
43346 AACTAGATGC
*
43356 ATCGATACATTGAAAAATATATCGATACATCCGGGTAAAAAGACAGAATGT
1 ATCGATACATTGAAAAATGTATCGATACATCCGGGTAAAAAGACAGAATGT
* *
43407 ATCGATACATTGAAGAATGTATCGATACATCTGGGTAAAAAGACAGAATGT
1 ATCGATACATTGAAAAATGTATCGATACATCCGGGTAAAAAGACAGAATGT
*
43458 ATCGATATATT-AAAGAATGTATCGATA
1 ATCGATACATTGAAA-AATGTATCGATA
43485 TATTCATACA
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 2 0.03
51 70 0.97
ACGTcount: A:0.43, C:0.12, G:0.19, T:0.26
Consensus pattern (51 bp):
ATCGATACATTGAAAAATGTATCGATACATCCGGGTAAAAAGACAGAATGT
Found at i:43425 original size:20 final size:20
Alignment explanation
Indices: 43400--43527 Score: 96
Period size: 20 Copynumber: 5.8 Consensus size: 20
43390 GTAAAAAGAC
43400 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
43420 AGAATGTATCGATACATCTGGGTAAAAAGA
1 AGAATGTATCGATACA--T---T-----GA
* *
43450 CAGAATGTATCGATATATTAA
1 -AGAATGTATCGATACATTGA
* *
43471 AGAATGTATCGATATATTCA
1 AGAATGTATCGATACATTGA
*
43491 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
43511 AGAATGTATCGATACAT
1 AGAATGTATCGATACAT
43528 CTGGGTACTT
Statistics
Matches: 88, Mismatches: 7, Indels: 26
0.73 0.06 0.21
Matches are distributed among these distances:
19 1 0.01
20 64 0.73
21 2 0.02
22 1 0.01
25 1 0.01
26 1 0.01
29 1 0.01
30 2 0.02
31 15 0.17
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:45369 original size:33 final size:33
Alignment explanation
Indices: 45332--45398 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
45322 TTCAACGATT
45332 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
45365 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
45398 T
1 T
45399 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:45370 original size:13 final size:13
Alignment explanation
Indices: 45352--45376 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45342 CATAAAATGT
45352 TGTATCGATACAA
1 TGTATCGATACAA
45365 TGTATCGATACA
1 TGTATCGATACA
45377 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:45458 original size:13 final size:13
Alignment explanation
Indices: 45440--45464 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45430 ATTACTCAAA
45440 TGTATCGATACAT
1 TGTATCGATACAT
45453 TGTATCGATACA
1 TGTATCGATACA
45465 CCGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:45529 original size:52 final size:52
Alignment explanation
Indices: 45473--45593 Score: 206
Period size: 52 Copynumber: 2.3 Consensus size: 52
45463 CACCGATCTT
*
45473 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * *
45525 TGTATCGATACATACAAGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
45577 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
45594 ATAAATTTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:59531 original size:51 final size:51
Alignment explanation
Indices: 59474--59612 Score: 224
Period size: 51 Copynumber: 2.7 Consensus size: 51
59464 AACTAGATGC
* * *
59474 ATCGATACATTGAAAAATATATCGATACATCCGGGTAAAAAGACAGAATGT
1 ATCGATACATTGAAGAATGTATCGATACATCTGGGTAAAAAGACAGAATGT
* *
59525 ATCGATACATTGAAGAATGTATCGATACATCTGGGTAAAAATATAGAATGT
1 ATCGATACATTGAAGAATGTATCGATACATCTGGGTAAAAAGACAGAATGT
*
59576 ATCGATACATTGAGGAATGTATCGATACATCTGGGTA
1 ATCGATACATTGAAGAATGTATCGATACATCTGGGTA
59613 CTTTTCTATA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 82 1.00
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.27
Consensus pattern (51 bp):
ATCGATACATTGAAGAATGTATCGATACATCTGGGTAAAAAGACAGAATGT
Found at i:60210 original size:11 final size:10
Alignment explanation
Indices: 60182--60212 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
60172 TGGGGGTCGG
60182 TCGGTTGTGA
1 TCGGTTGTGA
60192 TCGGTTGTGA
1 TCGGTTGTGA
60202 TCTGGTTGTGA
1 TC-GGTTGTGA
60213 CCGAGCAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.60
11 8 0.40
ACGTcount: A:0.10, C:0.10, G:0.39, T:0.42
Consensus pattern (10 bp):
TCGGTTGTGA
Found at i:60516 original size:20 final size:20
Alignment explanation
Indices: 60491--60528 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
60481 TTGTTGAAGA
60491 TTTTGATG-GAAAACAGATAG
1 TTTTGATGTGAAAA-AGATAG
60511 TTTTGATGTGAAAAAGAT
1 TTTTGATGTGAAAAAGAT
60529 GAAATTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (20 bp):
TTTTGATGTGAAAAAGATAG
Found at i:63373 original size:270 final size:272
Alignment explanation
Indices: 62836--63380 Score: 909
Period size: 270 Copynumber: 2.0 Consensus size: 272
62826 TTTCTGCATC
* *
62836 AATGTCATCAAACGATACCTTCATCGTGGAAGAGTTAGATTCATCAAAAATAACATGGATTGATT
1 AATGTCATCAAACGATACCTTCATCGCGAAAGAGTTAGATTCATCAAAAATAACATGGATTGATT
62901 CTTCAACAACCAAGGTTCTTTTATTAAACACTCGATAAGTATTAGAATTTGGTGAATAACCAAGA
66 CTTCAACAACCAAGGTTCTTTTATTAAACACTCGATAAGTATTAGAATTTGGTGAATAACCAAGA
62966 AAAATTACTTCAGCACTTTTGGCATCAAATTTACCAAGGTTTTCTTTTCCATTATTTAATACAAA
131 AAAATTACTTCAGCACTTTTGGCATCAAATTTACCAAGGTTTTCTTTTCCATTATTTAATACAAA
* * *
63031 ACATTTACATCTGAATGGATGAAATAACATATGTTAGGCCTTTTTCCTTTAAAAAGTTCGTATGG
196 ACATTTACATCTGAATGGATGAAATAACATATGTTAGGCCTTTTTCCTATAAAAAGTTCATACGG
63096 AGTTTTCTTTAA
261 AGTTTTCTTTAA
* *
63108 AATGTCATCAAATGATACCTTCCTCGCGAAAGAGTTAGATTCATCAAAAATAACATGGATTGATT
1 AATGTCATCAAACGATACCTTCATCGCGAAAGAGTTAGATTCATCAAAAATAACATGGATTGATT
* *
63173 CTTCAACAACCAAGGTTCTTTTATTCAA-ACTCGATAAGCT-TTAGAATTTGTTGAATAACCAAG
66 CTTCAACAACCAAGGTTCTTTTATTAAACACTCGATAAG-TATTAGAATTTGGTGAATAACCAAG
* * * *
63236 AAAAAGTT-TTTCATCACTTTTGGCATCAAATTTACCAAGGTTTT-TTTTTCATTATTTAATACT
130 AAAAA-TTACTTCAGCACTTTTGGCATCAAATTTACCAAGGTTTTCTTTTCCATTATTTAATACA
* *
63299 AAACATTTACATCTGAATGGATGAAATAACTTATGTTAGGCCTTTTTCCTATAAAAAGTTCATGC
194 AAACATTTACATCTGAATGGATGAAATAACATATGTTAGGCCTTTTTCCTATAAAAAGTTCATAC
63364 GGAGTTTTCTTTAA
259 GGAGTTTTCTTTAA
63378 AAT
1 AAT
63381 TAGCCTAATT
Statistics
Matches: 256, Mismatches: 15, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
270 94 0.37
271 71 0.28
272 91 0.36
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (272 bp):
AATGTCATCAAACGATACCTTCATCGCGAAAGAGTTAGATTCATCAAAAATAACATGGATTGATT
CTTCAACAACCAAGGTTCTTTTATTAAACACTCGATAAGTATTAGAATTTGGTGAATAACCAAGA
AAAATTACTTCAGCACTTTTGGCATCAAATTTACCAAGGTTTTCTTTTCCATTATTTAATACAAA
ACATTTACATCTGAATGGATGAAATAACATATGTTAGGCCTTTTTCCTATAAAAAGTTCATACGG
AGTTTTCTTTAA
Found at i:67824 original size:13 final size:13
Alignment explanation
Indices: 67806--67830 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67796 ACATTTGGTC
67806 ATGTATCGATACA
1 ATGTATCGATACA
67819 ATGTATCGATAC
1 ATGTATCGATAC
67831 TGTGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:69820 original size:21 final size:21
Alignment explanation
Indices: 69791--69830 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
69781 CTGTGAGGTG
*
69791 GGGGCTGCCCGGTTGCGACCCA
1 GGGGCTG-CCGGTCGCGACCCA
69813 GGGG-TGCCGGTCGCGACC
1 GGGGCTGCCGGTCGCGACC
69831 TGGTGAGTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.07, C:0.35, G:0.45, T:0.12
Consensus pattern (21 bp):
GGGGCTGCCGGTCGCGACCCA
Found at i:70298 original size:13 final size:13
Alignment explanation
Indices: 70275--70338 Score: 74
Period size: 13 Copynumber: 4.9 Consensus size: 13
70265 ATAAACCCTT
*
70275 TGTATCGATACAC
1 TGTATCAATACAC
* *
70288 TATATCAATACAA
1 TGTATCAATACAC
*
70301 TGTATCGATACAC
1 TGTATCAATACAC
*
70314 TGTATCAATACAA
1 TGTATCAATACAC
*
70327 TGTATCGATACA
1 TGTATCAATACA
70339 GAGAATGCTG
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (13 bp):
TGTATCAATACAC
Found at i:70304 original size:26 final size:26
Alignment explanation
Indices: 70275--70338 Score: 119
Period size: 26 Copynumber: 2.5 Consensus size: 26
70265 ATAAACCCTT
70275 TGTATCGATACACTATATCAATACAA
1 TGTATCGATACACTATATCAATACAA
*
70301 TGTATCGATACACTGTATCAATACAA
1 TGTATCGATACACTATATCAATACAA
70327 TGTATCGATACA
1 TGTATCGATACA
70339 GAGAATGCTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (26 bp):
TGTATCGATACACTATATCAATACAA
Found at i:70684 original size:13 final size:13
Alignment explanation
Indices: 70666--70690 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70656 CATAAAGTGT
70666 TGTATCGATACAA
1 TGTATCGATACAA
70679 TGTATCGATACA
1 TGTATCGATACA
70691 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:70688 original size:33 final size:33
Alignment explanation
Indices: 70646--70712 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
70636 TTCAACGATT
70646 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
70679 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
70712 T
1 T
70713 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:70771 original size:13 final size:13
Alignment explanation
Indices: 70753--70777 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70743 ATCACTTAAG
70753 TGTATCGATACAT
1 TGTATCGATACAT
70766 TGTATCGATACA
1 TGTATCGATACA
70778 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:70842 original size:52 final size:52
Alignment explanation
Indices: 70786--70914 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
70776 CACTGATCTT
*
70786 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
70838 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
70890 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
70915 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:84741 original size:1 final size:1
Alignment explanation
Indices: 84735--84832 Score: 88
Period size: 1 Copynumber: 98.0 Consensus size: 1
84725 CGTCCTCCAC
* * * * * * * *
84735 AAAAAAAAACAAAACAAAAAAAAAACAAAACAAAAAAAAAACAAAACAAAAAAAAACAAAACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
84800 AAAACAAAACAAAACAAAAAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
84833 GGGGTCCGGA
Statistics
Matches: 73, Mismatches: 24, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 73 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:84748 original size:5 final size:5
Alignment explanation
Indices: 84733--84832 Score: 116
Period size: 5 Copynumber: 20.2 Consensus size: 5
84723 GGCGTCCTCC
* * *
84733 ACAAA AAAAA ACAAA ACAAAA AAAAA ACAAA ACAAAA AAAAA ACAAA ACAAA
1 ACAAA ACAAA ACAAA AC-AAA ACAAA ACAAA AC-AAA ACAAA ACAAA ACAAA
* *
84785 AAAAA ACAAA AC-AA A-AAA ACAAA ACAAA ACAAA AAAAA ACAAA A-AAA
1 ACAAA ACAAA ACAAA ACAAA ACAAA ACAAA ACAAA ACAAA ACAAA ACAAA
84832 A
1 A
84833 GGGGTCCGGA
Statistics
Matches: 81, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
4 10 0.12
5 63 0.78
6 8 0.10
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (5 bp):
ACAAA
Found at i:84754 original size:16 final size:16
Alignment explanation
Indices: 84735--84832 Score: 157
Period size: 16 Copynumber: 6.2 Consensus size: 16
84725 CGTCCTCCAC
84735 AAAAAAAAACAAAACA
1 AAAAAAAAACAAAACA
84751 AAAAAAAAACAAAACA
1 AAAAAAAAACAAAACA
84767 AAAAAAAAACAAAAC-
1 AAAAAAAAACAAAACA
84782 AAAAAAAAACAAAACAA
1 AAAAAAAAACAAAAC-A
84799 AAAAACAAAACAAAAC-
1 AAAAA-AAAACAAAACA
84815 AAAAAAAAACAAAA-A
1 AAAAAAAAACAAAACA
84830 AAA
1 AAA
84833 GGGGTCCGGA
Statistics
Matches: 78, Mismatches: 0, Indels: 9
0.90 0.00 0.10
Matches are distributed among these distances:
15 27 0.35
16 36 0.46
17 5 0.06
18 10 0.13
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAAAACAAAACA
Found at i:85976 original size:12 final size:12
Alignment explanation
Indices: 85959--85988 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
85949 AAGAAGCCTA
85959 TTATCAGGAACT
1 TTATCAGGAACT
85971 TTATCAGGAACT
1 TTATCAGGAACT
*
85983 TCATCA
1 TTATCA
85989 AAGACTTGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (12 bp):
TTATCAGGAACT
Found at i:86277 original size:32 final size:30
Alignment explanation
Indices: 86203--86494 Score: 181
Period size: 29 Copynumber: 9.7 Consensus size: 30
86193 TTCCTCACCC
*
86203 TTCAAAAGTCCACAAGTCAGTGGCATCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
*
86233 TTC-AAAGCCCACAAGTCAGTGGCATTTTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCA--TCTTT
*
86264 TTCAAAAGCCCACAAGTCAGTGGCAAC---
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
* * *
86291 TTC-AAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
** *
86320 TTCCGAAGCCCACAAGTCGGTGGCATC-TT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
* * * * *
86349 TTCCAAAGTCCACAACTCCGTGG-AACTTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
** * * *
86378 TTCTTTTGTAAGCTCACAACTCTA-TAGCACTCTTT
1 TTC----AAAAGCCCACAAGTC-AGTGGCA-TCTTT
** * * *
86413 TTCTTTTTAAGCCCACAAGTTAGTGGCACCCTT
1 TTC---AAAAGCCCACAAGTCAGTGGCATCTTT
* *
86446 TTCAAAAGCCCACAAGTCAGTGGCAAC-CT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
86475 TT-AAAAGCCCACAAGTCAGT
1 TTCAAAAGCCCACAAGTCAGT
86495 AGCAACCTTC
Statistics
Matches: 212, Mismatches: 34, Indels: 34
0.76 0.12 0.12
Matches are distributed among these distances:
26 21 0.10
27 3 0.01
28 20 0.09
29 52 0.25
30 42 0.20
31 7 0.03
32 21 0.10
33 20 0.09
34 19 0.09
35 7 0.03
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (30 bp):
TTCAAAAGCCCACAAGTCAGTGGCATCTTT
Found at i:86343 original size:56 final size:57
Alignment explanation
Indices: 86203--86344 Score: 160
Period size: 61 Copynumber: 2.4 Consensus size: 57
86193 TTCCTCACCC
* * * ***
86203 TTCAAAAGTCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCATTTTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAAC---TTCAAAGCCCACAAATCAGTGGCA-TCCCTT
86264 TTCAAAAGCCCACAAGTCAGTGGCAACTTCAAAGCCCACAAATCAGTGGCA-CCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACTTCAAAGCCCACAAATCAGTGGCATCCCTT
** *
86320 TTCCGAAGCCCACAAGTCGGTGGCA
1 TTCAAAAGCCCACAAGTCAGTGGCA
86345 TCTTTTCCAA
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
56 24 0.33
58 23 0.32
61 25 0.35
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (57 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACTTCAAAGCCCACAAATCAGTGGCATCCCTT
Found at i:86447 original size:34 final size:35
Alignment explanation
Indices: 86374--86447 Score: 89
Period size: 34 Copynumber: 2.1 Consensus size: 35
86364 CTCCGTGGAA
* *
86374 CTTTTTCTTTTGTAAGCTCACAACTCTATAGCACT
1 CTTTTTCTTTTGTAAGCCCACAACTCTATAGCACC
* *
86409 CTTTTTCTTTT-TAAGCCCACAAGT-TAGTGGCACC
1 CTTTTTCTTTTGTAAGCCCACAACTCTA-TAGCACC
86443 CTTTT
1 CTTTT
86448 CAAAAGCCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
33 2 0.06
34 21 0.62
35 11 0.32
ACGTcount: A:0.20, C:0.26, G:0.11, T:0.43
Consensus pattern (35 bp):
CTTTTTCTTTTGTAAGCCCACAACTCTATAGCACC
Found at i:86455 original size:30 final size:29
Alignment explanation
Indices: 86421--86544 Score: 139
Period size: 28 Copynumber: 4.3 Consensus size: 29
86411 TTTTCTTTTT
* *
86421 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACC-TTTCAA
86451 AAGCCCACAAGTCAGTGGCAACCTTT-AA
1 AAGCCCACAAGTCAGTGGCAACCTTTCAA
*
86479 AAGCCCACAAGTCAGTAGCAACC-TTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTCAA
* * *
86507 AAGCACACAAGT-TGAT-GCAAACCTCTCAA
1 AAGCCCACAAGTCAG-TGGC-AACCTTTCAA
86536 AAGCCCACA
1 AAGCCCACA
86545 CAAGTTGGTG
Statistics
Matches: 83, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
27 5 0.06
28 42 0.51
29 15 0.18
30 21 0.25
ACGTcount: A:0.37, C:0.31, G:0.15, T:0.17
Consensus pattern (29 bp):
AAGCCCACAAGTCAGTGGCAACCTTTCAA
Found at i:86638 original size:48 final size:47
Alignment explanation
Indices: 86562--86842 Score: 309
Period size: 48 Copynumber: 5.9 Consensus size: 47
86552 GTGGCGTCTC
* * *
86562 CTTTGAAGCCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTT
1 CTTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT
*
86609 GCTTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT
1 -CTTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT
* * *
86657 GCCTTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTT
1 -CTTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * *
86705 CATATTTAAGTCCAATGTAGCTGACCTTGAATCGGCACATTGGCA---T
1 C-T-TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT
*
86751 C-TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTTT
1 CTTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT
* * *
86799 CCATCTTTAAGATTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 -C-T-TTTAAG-TCCAATATAGCTGGCCTTGAATCAGCATATTG
86843 ACATCCTTTT
Statistics
Matches: 199, Mismatches: 22, Indels: 19
0.83 0.09 0.08
Matches are distributed among these distances:
43 36 0.18
46 2 0.01
47 1 0.01
48 90 0.45
49 36 0.18
52 6 0.03
53 28 0.14
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (47 bp):
CTTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT
Found at i:86785 original size:92 final size:95
Alignment explanation
Indices: 86659--86847 Score: 276
Period size: 92 Copynumber: 2.0 Consensus size: 95
86649 GGCACCTTGC
* *
86659 CTTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACC-TT-CATATTTAAG-TCCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTAAATCAGCATATTAGCACCTTTCCATATTTAAGATCCAAT
* *
86721 GTAGCTGACCTTGAATCGGCACATTGGCAT
66 GTAGCTGACCTTGAATCAGCACATTGACAT
* * *
86751 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTTTCCATCTTTAAGATTCAA
1 CTTTAAGTCCAATATAGCTGGCCTTAAATCAGCATATTAGCACC-TTTCCATATTTAAGATCCAA
*
86816 TGTAGCTGGCCTTGAATCAGCACATTGACAT
65 TGTAGCTGACCTTGAATCAGCACATTGACAT
86847 C
1 C
86848 CTTTTTCTCA
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
92 41 0.48
94 2 0.02
95 9 0.11
96 33 0.39
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (95 bp):
CTTTAAGTCCAATATAGCTGGCCTTAAATCAGCATATTAGCACCTTTCCATATTTAAGATCCAAT
GTAGCTGACCTTGAATCAGCACATTGACAT
Found at i:86827 original size:53 final size:55
Alignment explanation
Indices: 86748--86972 Score: 181
Period size: 67 Copynumber: 3.9 Consensus size: 55
86738 GGCACATTGG
*
86748 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-AGCA-CC-TTTTC-
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGA-CATCCTTTTTCT
* *
86800 CATCTTTAAGATTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCT
1 CATCTTTAAG-TCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCT
* * * * * *
86856 CATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATC
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATT-G-A-C---ATC-C-TTT-T--TC
86921 TT
55 -T
* * *
86923 CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTT
86973 ATCTTTGAGC
Statistics
Matches: 138, Mismatches: 18, Indels: 28
0.75 0.10 0.15
Matches are distributed among these distances:
52 10 0.07
53 30 0.22
54 3 0.02
55 28 0.20
56 11 0.08
57 1 0.01
58 4 0.03
59 1 0.01
60 1 0.01
61 4 0.03
62 1 0.01
63 3 0.02
64 2 0.01
66 3 0.02
67 36 0.26
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.36
Consensus pattern (55 bp):
CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCT
Found at i:86889 original size:55 final size:52
Alignment explanation
Indices: 86748--86889 Score: 169
Period size: 53 Copynumber: 2.7 Consensus size: 52
86738 GGCACATTGG
*
86748 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTTTC
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTAGCACCTTTTC
* *
86800 CATCTTTAAGATTCAATGTAGCTGGCCTTGAATCAGCACATT-GACATCCTTTTTC
1 CATCTTTAAG-TCCAATATAGCTGGCCTTGAATCAGCACATTAG-CA-CC-TTTTC
* * * *
86855 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCA
1 -CATCTTTAAGTCCAATATAGCTGGCCTTGAATCA
86890 ACATATTGGC
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
52 11 0.14
53 30 0.39
54 2 0.03
55 23 0.30
56 10 0.13
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.35
Consensus pattern (52 bp):
CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTAGCACCTTTTC
Found at i:87703 original size:33 final size:33
Alignment explanation
Indices: 87666--87732 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
87656 TTCAACGATT
87666 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
87699 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
87732 T
1 T
87733 TCAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:87704 original size:13 final size:13
Alignment explanation
Indices: 87686--87710 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87676 CATAAAATGT
87686 TGTATCGATACAA
1 TGTATCGATACAA
87699 TGTATCGATACA
1 TGTATCGATACA
87711 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:87791 original size:13 final size:13
Alignment explanation
Indices: 87773--87797 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87763 ATCACTTAAA
87773 TGTATCGATACAT
1 TGTATCGATACAT
87786 TGTATCGATACA
1 TGTATCGATACA
87798 CTATGCAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:91488 original size:21 final size:20
Alignment explanation
Indices: 91442--91488 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
91432 TTTCTTTGTG
*
91442 TTTTTTGTATTTTTTATCTC
1 TTTTTTGTATTTTTTATCTA
91462 TTTTTTGTATTTTATTAT-TA
1 TTTTTTGTATTTT-TTATCTA
91482 TTATTTT
1 TT-TTTT
91489 TTAAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.77
Consensus pattern (20 bp):
TTTTTTGTATTTTTTATCTA
Found at i:91857 original size:54 final size:54
Alignment explanation
Indices: 91706--91863 Score: 178
Period size: 52 Copynumber: 3.0 Consensus size: 54
91696 GATTCAAGGC
* * * *
91706 TTGGACTTAAAGAAAGGGGATGAGTGCCAATGTGTTGATTCAAGGCCAACCATA
1 TTGGACTTAAAGAAAGAGGATGAGTGCCAATGTCTTGATTCAAGGCCAGCGATA
* * * * *
91760 TTAGACTTAAAG-ATGAGGA-AAGTGCCAACGTAC-TGATTCAAGGCCAGCGATG
1 TTGGACTTAAAGAAAGAGGATGAGTGCCAATGT-CTTGATTCAAGGCCAGCGATA
* * *
91812 TTGGACTTTAAGAAAGAGGATGAGTGCTAATGTCTTGATTTAAGGCCAGCGA
1 TTGGACTTAAAGAAAGAGGATGAGTGCCAATGTCTTGATTCAAGGCCAGCGA
91864 CATTAGATTG
Statistics
Matches: 84, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
52 36 0.43
53 12 0.14
54 36 0.43
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.25
Consensus pattern (54 bp):
TTGGACTTAAAGAAAGAGGATGAGTGCCAATGTCTTGATTCAAGGCCAGCGATA
Found at i:92138 original size:28 final size:28
Alignment explanation
Indices: 92045--92228 Score: 210
Period size: 28 Copynumber: 6.5 Consensus size: 28
92035 CACCGACTTG
* * *
92045 TGTGGGCTTTGAAAAGGTTCTCACTGACT
1 TGTGGGCTTTGAAATGATGC-CACTGACT
* * * *
92074 TATGGGCTTTTCAAA-GAATGTCACCGACT
1 TGTGGGC-TTTGAAATG-ATGCCACTGACT
92103 TGTGGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
*
92131 TGTAGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
* *
92159 TATGGGCTTTGAAATGGTGCCA-TGGACT
1 TGTGGGCTTTGAAATGATGCCACT-GACT
*
92187 TGTGAGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
*
92215 TGTGGGCATTGAAA
1 TGTGGGCTTTGAAA
92229 GGTGTCGCAA
Statistics
Matches: 131, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
27 1 0.01
28 101 0.77
29 22 0.17
30 7 0.05
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (28 bp):
TGTGGGCTTTGAAATGATGCCACTGACT
Found at i:95521 original size:20 final size:20
Alignment explanation
Indices: 95474--95548 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
95464 AAAAAGACAT
*
95474 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
95493 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
95514 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
95534 AATGTATCGATACAT
1 AATGTATCGATACAT
95549 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:95542 original size:40 final size:39
Alignment explanation
Indices: 95471--95548 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
95461 GGTAAAAAGA
* *
95471 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
95510 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
95549 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:96125 original size:32 final size:32
Alignment explanation
Indices: 96076--97247 Score: 1450
Period size: 32 Copynumber: 38.2 Consensus size: 32
96066 AATATGGTGA
* * **
96076 TTTGAAAAGGGTTGCCACTGACTTGCATGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
96108 TTTTAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
96140 TTTGAAATGAGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
96172 TTTGGAATGGGTTGCCACCGACTTGTGTGGG-
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
96203 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
96235 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
96267 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
96299 TTTG-AATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
96330 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
96362 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
96394 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
96426 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
96458 TTTG-AATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
96489 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
96521 TTTGAAAT-GGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
96552 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
96584 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
96616 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
96648 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
96680 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
96712 TTTGGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTT-GAAATGGGTTGCCACCGACTTGTGTGGGC
*
96745 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
96777 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
96809 TTTGAAATGGGTTGCCACCGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
96839 TCTGAAA-GGG-TGCCA-CTAATT-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * * * *
96867 TCTGAAAAGAG-TGCCACTGGC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
96896 TTTGAAA-GGAG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGG-GTTGCCACCGACTTGTGTGGGC
* ** *
96925 TTTGAAA--GGATGCCAATGA-GT-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
96953 TTTGAAA-GGG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
96981 TTTGAAAAGAG-TGCCACTGA-TT-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
97010 TTTGAAA-GGAG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGG-GTTGCCACCGACTTGTGTGGGC
*
97039 TTTGAAA-GGAG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGG-GTTGCCACCGACTTGTGTGGGC
* * * *
97068 TTTAAAAAGAG-TGCCACTGA-TT-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * ** *
97097 TTTGAAAAGAG-TGCCACTAAC-T-TGTAGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
97126 TTTGAAA-GGAG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGG-GTTGCCACCGACTTGTGTGGGC
*
97155 TTTGAAA-GGG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
97183 TTTGAAAAGAG-TGCCACTGA-TT-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
97212 TTTGAAA-GGAG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGG-GTTGCCACCGACTTGTGTGGGC
97241 TTTGAAA
1 TTTGAAA
97248 GGGATGAACA
Statistics
Matches: 1074, Mismatches: 41, Indels: 53
0.92 0.04 0.05
Matches are distributed among these distances:
27 3 0.00
28 97 0.09
29 257 0.24
30 14 0.01
31 124 0.12
32 548 0.51
33 31 0.03
ACGTcount: A:0.17, C:0.18, G:0.34, T:0.30
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:96563 original size:254 final size:254
Alignment explanation
Indices: 96076--97247 Score: 1451
Period size: 254 Copynumber: 4.8 Consensus size: 254
96066 AATATGGTGA
* * ** *
96076 TTTGAAAAGGGTTGCCACTGACTTGCATGGGCTTTTAAATGGGTTGCCACCGACTTGTGTGGGCT
1 TTTGGAAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
*
96141 TTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGG-TT
66 TTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCTT
96205 TGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTT
131 TGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTT
96270 GAAATGGGTTGCCACCGACTTGTGTGGGCTTTG-AATGGGTTGCCACCGACTTGTGTGGGC
196 GAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGAC-T-TGTGGGC
*
96330 TTTGGAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
1 TTTGGAAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
96395 TTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCTT
66 TTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCTT
96460 TG-AATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTT
131 TGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTT
96524 GAAAT-GGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
196 GAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGAC-T-TGTGGGC
* *
96584 TTTGGAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCT
1 TTTGGAAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
*
96649 TTGGAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCTT
66 TTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCTT
*
96714 TGGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCTT
131 T-GAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTT
*
96779 TGGAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGGGC
195 TGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGGGC
* * * * * * * *
96839 TCT-GAAAGGG-TGCCA-CTAATT-TGTGGGCTCTGAAAAGAG-TGCCACTGGC-T-TGTGGGCT
1 TTTGGAAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
* * * ** *
96897 TTGAAA-GGAG-TGCCACTGAC-T-TGTGGGCTTT-GAA-AGGATGCCAATGA-GT-TGTGGGCT
66 TTGAAATGG-GTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCT
* * * *
96954 TTGAAA-GGG-TGCCACTGAC-T-TGTGGGCTTTGAAAAGAG-TGCCACTGA-TT-TGTGGGCTT
130 TTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTT
* *
97012 TGAAA-GGAG-TGCCACTGAC-T-TGTGGGCTTTGAAA-GGAG-TGCCACTGACTTGTGGGC
195 TGAAATGG-GTTGCCACCGACTTGTGTGGGCTTTGAAATGG-GTTGCCACCGACTTGTGGGC
** * * * * ** *
97068 TTTAAAAAGAG-TGCCACTGA-TT-TGTGGGCTTTGAAAAGAG-TGCCACTAAC-T-TGTAGGCT
1 TTTGGAAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
* * *
97127 TTGAAA-GGAG-TGCCACTGAC-T-TGTGGGCTTT-GAAAGGG-TGCCACTGAC-T-TGTGGGCT
66 TTGAAATGG-GTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCT
* * * *
97184 TTGAAAAGAG-TGCCACTGA-TT-TGTGGGCTTTGAAA-GGAG-TGCCACTGAC-T-TGTGGGCT
130 TTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGG-GTTGCCACCGACTTGTGTGGGCT
97242 TTGAAA
194 TTGAAA
97248 GGGATGAACA
Statistics
Matches: 853, Mismatches: 49, Indels: 55
0.89 0.05 0.06
Matches are distributed among these distances:
229 21 0.02
230 118 0.14
231 55 0.06
232 11 0.01
233 14 0.02
234 2 0.00
235 8 0.01
236 15 0.02
237 1 0.00
238 9 0.01
239 3 0.00
240 4 0.00
241 10 0.01
242 1 0.00
243 9 0.01
244 3 0.00
245 10 0.01
246 1 0.00
247 11 0.01
248 14 0.02
249 1 0.00
250 8 0.01
251 14 0.02
252 4 0.00
253 32 0.04
254 349 0.41
255 14 0.02
256 66 0.08
257 45 0.05
ACGTcount: A:0.17, C:0.18, G:0.34, T:0.30
Consensus pattern (254 bp):
TTTGGAAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
TTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCTT
TGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTT
GAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGGGC
Found at i:96921 original size:86 final size:86
Alignment explanation
Indices: 96076--97249 Score: 879
Period size: 95 Copynumber: 12.8 Consensus size: 86
96066 AATATGGTGA
* *
96076 TTTGAAAAGGGTTGCCACTGACTTGCATGGGCTTTTAAATGG-GTTGCCACCGACTTGTGTGGGC
1 TTTG-AAAGGG-TGCCACTGACTTG--TGGGCTTTGAAA-GGAG-TGCCACTGAC-T-TGTGGGC
* *
96140 TTTGAAATGAGTTGCCACCGACTTGTGTGGGC
58 TTTGAAAGGAG-TGCCACTGAC-T-TGTGGGC
* * * *
96172 TTTGGAATGGGTTGCCACCGACTTGTGTGGGTTTGAAATGG-GTTGCCACCGACTTGTGTGGGCT
1 TTT-GAAAGGG-TGCCACTGACTTGTG-GGCTTTGAAA-GGAG-TGCCACTGAC-T-TGTGGGCT
*
96236 TTGAAATGG-GTTGCCACCGACTTGTGTGGGC
59 TTGAAA-GGAG-TGCCACTGAC-T-TGTGGGC
* * *
96267 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAATGG-GTTGCCACCGACTTGTGTGGGCT
1 TTTGAAA-GGG-TGCCACTGAC-T-TGTGGGCTTTGAAAGGAG-TGCCACTGAC-T-TGTGGGCT
* *
96331 TTGGAATGG-GTTGCCACCGACTTGTGTGGGC
59 TT-GAAAGGAG-TGCCACTGAC-T-TGTGGGC
* *
96362 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGG-GTTGCCACCGACTTGTGTGGGC
1 TTTGAAA-GGG-TGCCACTGAC-T-TGTGGGCTTTGAAA-GGAG-TGCCACTGAC-T-TGTGGGC
* *
96426 TTTGGAATGG-GTTGCCACCGACTTGTGTGGGC
58 TTT-GAAAGGAG-TGCCACTGAC-T-TGTGGGC
* * *
96458 TTTGAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGG-GTTGCCACCGACTTGTGTGGGCT
1 TTTGAAAGGG-TGCCACTGAC-T-TGTGGGCTTTGAAA-GGAG-TGCCACTGAC-T-TGTGGGCT
* *
96522 TTGAAATGG-TTGCCACCGACTTGTGTGGGC
59 TTGAAA-GGAGTGCCACTGAC-T-TGTGGGC
* * *
96552 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGG-GTTGCCACCGACTTGTGTGGGC
1 TTTGAAA-GGG-TGCCACTGAC-T-TGTGGGCTTT-GAAAGGAG-TGCCACTGAC-T-TGTGGGC
* *
96616 TTTGGAATGG-GTTGCCACCGACTTGTGTGGGC
58 TTT-GAAAGGAG-TGCCACTGAC-T-TGTGGGC
* * * *
96648 TTTGGAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGG-GTTGCCACCGACTTGTGTGGGC
1 TTT-GAAAGGG-TGCCACTGAC-T-TGTGGGCTTT-GAAAGGAG-TGCCACTGAC-T-TGTGGGC
*
96712 TTTGGAAATGG-GTTGCCACCGACTTGTGTGGGC
58 TTT-GAAA-GGAG-TGCCACTGAC-T-TGTGGGC
* * * *
96745 TTTGGAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGG-GTTGCCACCGACTTGTGTGGGC
1 TTT-GAAAGGG-TGCCACTGAC-T-TGTGGGCTTT-GAAAGGAG-TGCCACTGAC-T-TGTGGGC
*
96809 TTTGAAATGG-GTTGCCACCGACTTGTGGGC
58 TTTGAAA-GGAG-TGCCACTGACTTGTGGGC
* * * * * *
96839 TCTGAAAGGGTGCCACTAATTTGTGGGCTCTGAAAAGAGTGCCACTGGCTTGTGGGCTTTGAAAG
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAG
96904 GAGTGCCACTGACTTGTGGGC
66 GAGTGCCACTGACTTGTGGGC
* * * *
96925 TTTGAAAGGATGCCAATGAGTTGTGGGCTTTGAAAGG-GTGCCACTGACTTGTGGGCTTTGAAAA
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAG
*
96989 GAGTGCCACTGATTTGTGGGC
66 GAGTGCCACTGACTTGTGGGC
*
97010 TTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTAAAA
1 TTTGAAAGG-GTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAA
* *
97075 AGAGTGCCACTGATTTGTGGGC
65 GGAGTGCCACTGACTTGTGGGC
* * *
97097 TTTGAAAAGAGTGCCACTAACTTGTAGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAA
1 TTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAA
97162 GG-GTGCCACTGACTTGTGGGC
65 GGAGTGCCACTGACTTGTGGGC
* *
97183 TTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAA
1 TTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAA
97248 GG
65 GG
97250 GATGAACATT
Statistics
Matches: 1005, Mismatches: 53, Indels: 50
0.91 0.05 0.05
Matches are distributed among these distances:
85 54 0.05
86 156 0.16
87 119 0.12
88 5 0.00
89 12 0.01
90 10 0.01
91 1 0.00
92 7 0.01
93 6 0.01
94 43 0.04
95 286 0.28
96 207 0.21
97 99 0.10
ACGTcount: A:0.17, C:0.18, G:0.34, T:0.30
Consensus pattern (86 bp):
TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAG
GAGTGCCACTGACTTGTGGGC
Found at i:98496 original size:13 final size:13
Alignment explanation
Indices: 98470--98515 Score: 65
Period size: 13 Copynumber: 3.4 Consensus size: 13
98460 GACCCTTCTA
98470 TTTTTTGCTATTTTT
1 TTTTTTG-T-TTTTT
98485 TTTTTTGTTTTTT
1 TTTTTTGTTTTTT
*
98498 TGTTTTGTTTTTT
1 TTTTTTGTTTTTT
98511 TTTTT
1 TTTTT
98516 GGGTGTAACG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 21 0.72
14 1 0.03
15 7 0.24
ACGTcount: A:0.02, C:0.02, G:0.09, T:0.87
Consensus pattern (13 bp):
TTTTTTGTTTTTT
Found at i:106025 original size:20 final size:20
Alignment explanation
Indices: 105978--106052 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
105968 AAAAAGACAT
*
105978 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
105997 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
106018 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
106038 AATGTATCGATACAT
1 AATGTATCGATACAT
106053 CAGGGTGTGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:106046 original size:40 final size:39
Alignment explanation
Indices: 105975--106052 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
105965 GGTAAAAAGA
* *
105975 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
106014 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
106053 CAGGGTGTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:111085 original size:20 final size:20
Alignment explanation
Indices: 111062--111125 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
111052 TAAAAATATA
111062 TTTGATTTTGTAAAGAATAC
1 TTTGATTTTGTAAAGAATAC
***** *
111082 TTTGAAAAACATAAA--ATAA
1 TTTG-ATTTTGTAAAGAATAC
111101 TTTGATTTTGTAAAGAATAC
1 TTTGATTTTGTAAAGAATAC
111121 TTTGA
1 TTTGA
111126 AAAACATAAA
Statistics
Matches: 29, Mismatches: 12, Indels: 6
0.62 0.26 0.13
Matches are distributed among these distances:
18 5 0.17
19 7 0.24
20 12 0.41
21 5 0.17
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.41
Consensus pattern (20 bp):
TTTGATTTTGTAAAGAATAC
Found at i:111110 original size:39 final size:39
Alignment explanation
Indices: 111054--111139 Score: 163
Period size: 39 Copynumber: 2.2 Consensus size: 39
111044 CAATTAACTA
111054 AAAATATATTTGATTTTGTAAAGAATACTTTGAAAAACAT
1 AAAATA-ATTTGATTTTGTAAAGAATACTTTGAAAAACAT
111094 AAAATAATTTGATTTTGTAAAGAATACTTTGAAAAACAT
1 AAAATAATTTGATTTTGTAAAGAATACTTTGAAAAACAT
111133 AAAATAA
1 AAAATAA
111140 GTTTTCATGT
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 40 0.87
40 6 0.13
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (39 bp):
AAAATAATTTGATTTTGTAAAGAATACTTTGAAAAACAT
Found at i:111398 original size:13 final size:13
Alignment explanation
Indices: 111380--111404 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
111370 ATTTTGCTTA
111380 GTATCGATACATT
1 GTATCGATACATT
111393 GTATCGATACAT
1 GTATCGATACAT
111405 AAACTGGCAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:111447 original size:10 final size:10
Alignment explanation
Indices: 111432--111462 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
111422 ATCTCATTTT
111432 TCACTGTTCA
1 TCACTGTTCA
111442 TCACTGTTCA
1 TCACTGTTCA
*
111452 TTACTGTTCA
1 TCACTGTTCA
111462 T
1 T
111463 GTATCGATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.19, C:0.26, G:0.10, T:0.45
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:114796 original size:79 final size:78
Alignment explanation
Indices: 114692--114876 Score: 203
Period size: 79 Copynumber: 2.3 Consensus size: 78
114682 ATCCCTCGAT
* * * * * * *
114692 GAAAACTTTAATACTTTGGAGATAAAAACGGGATTGGAGTATCCCC-TCGAAAATAACGGGGTTG
1 GAAAA-TTTAATATTTTGAAAATAAAAACAGGATTAGAGTA-CCCCGTCAAAAATAACAGGGTTG
* *
114756 TAGTATCCCTGAGAC
64 GAGTATCCCCGAGAC
* *
114771 GAAAATTTTAATATTTTGAAAATAAAAATAGGATTAGAGTACCCCGTCAAAAATAATAGGGTTGG
1 GAAAA-TTTAATATTTTGAAAATAAAAACAGGATTAGAGTACCCCGTCAAAAATAACAGGGTTGG
114836 AGTATCCCCGAGAC
65 AGTATCCCCGAGAC
*
114850 GAGAAATTTAATATCTT-AGAAATAAAA
1 GA-AAATTTAATATTTTGA-AAATAAAA
114877 CCAAGGGGAT
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
78 5 0.06
79 82 0.91
80 3 0.03
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (78 bp):
GAAAATTTAATATTTTGAAAATAAAAACAGGATTAGAGTACCCCGTCAAAAATAACAGGGTTGGA
GTATCCCCGAGAC
Found at i:115012 original size:79 final size:78
Alignment explanation
Indices: 114881--115369 Score: 366
Period size: 79 Copynumber: 6.2 Consensus size: 78
114871 ATAAAACCAA
* * * * *
114881 GGGGATACTCCAATCCCGTTGTTTCCGAGGTAGTACTCCATCCTCGTTTTTATTT-TCAAAATAT
1 GGGGATACTCCAATCCCGTTATTTCTGAGGGA-TACTCCAACCTCATTTTTATTTCT-AAAATAT
114945 AGATTTTTCACCATC
64 AGATTTTTCACCATC
* * * *
114960 GGGGATACTCCAATCCCGTTATTTTTGAGGAGATACTCCAACCTTATTTTTATTTCCAAAATATC
1 GGGGATACTCCAATCCCGTTATTTCTGAGG-GATACTCCAACCTCATTTTTATTTCTAAAATATA
**
115025 GATTTTTTTCCATC
65 GATTTTTCACCATC
* * **
115039 AGGGATACTCCAA-CCTTGTTACTTTCAAAGGGATACTCCAACCTCATTTTTATTTCTAAAATAT
1 GGGGATACTCCAATCC-CGTTA-TTTCTGAGGGATACTCCAACCTCATTTTTATTTCTAAAATAT
*
115103 CA-ATTTTTTTCATCATC
64 -AGA--TTTTTCACCATC
* * * * * *
115120 AGGGATAGTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCCAGTTTTATTT-TCAAAATAT
1 GGGGATACTCCAATCCCGTTATTTCTG-AGGGATACTCCAACCTCATTTTTATTTCT-AAAATAT
115184 CA-ATTTTTCACCATC
64 -AGATTTTTCACCATC
* * * * * * * *
115199 GAGGATGCACCAATCCTGTTATTTTTTAGGGAATACTCTAACCTTGA-TTTTATTTCTAAAATAT
1 GGGGATACTCCAATCCCGTTATTTCTGAGGG-ATACTCCAACC-TCATTTTTATTTCTAAAATA-
* ** **
115263 TAAATTCCTCGTC-TC
63 TAGATTTTTCACCATC
* * * * *
115278 GAGGATACTCCAA-CCTCGTTATTTTTGAGGGGGTACTCTAATCTCATTTTTATTTCTAAAATAT
1 GGGGATACTCCAATCC-CGTTATTTCTGA-GGGATACTCCAACCTCATTTTTATTTCTAAAATAT
* * *
115342 TGAAATTTTCATC-TC
64 AG-ATTTTTCACCATC
*
115357 GGAGATACTCCAA
1 GGGGATACTCCAA
115370 CCCCATTTTT
Statistics
Matches: 330, Mismatches: 61, Indels: 38
0.77 0.14 0.09
Matches are distributed among these distances:
78 11 0.03
79 233 0.71
80 24 0.07
81 60 0.18
82 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (78 bp):
GGGGATACTCCAATCCCGTTATTTCTGAGGGATACTCCAACCTCATTTTTATTTCTAAAATATAG
ATTTTTCACCATC
Found at i:115252 original size:160 final size:160
Alignment explanation
Indices: 114914--115262 Score: 374
Period size: 160 Copynumber: 2.2 Consensus size: 160
114904 TCCGAGGTAG
* * * *
114914 TACTCCATCCTCGTTTTTATTT-TCAAAATAT-AGA--TTTTTCACCATCGGGGATACTCCAATC
1 TACTCCAACCTCATTTTTATTTCT-AAAATATCA-ATTTTTTTCACCATCAGGGATACTCCAACC
** ** * * **
114975 CCGTTATTTTTGAGGAGATACTCCAACCTTATTTTTATTTCCAAAATATCGATTTTTTTCCATCA
64 CCGTTATTTCCGAGGAGATACTCCAACCCCAGTTTTATTTCCAAAATATCAATTTTTCACCATCA
*
115040 GGGATACTCCAACCTTGTTACTTTCAAAGGGA
129 GGGATACACCAACCTTGTTACTTTCAAAGGGA
* *
115072 TACTCCAACCTCATTTTTATTTCTAAAATATCAATTTTTTTCATCATCAGGGATAGTCCAACCCC
1 TACTCCAACCTCATTTTTATTTCTAAAATATCAATTTTTTTCACCATCAGGGATACTCCAACCCC
*
115137 GTTATTTCCGAAGG-GATACTCCAACCCCAGTTTTATTTTCAAAATATCAATTTTTCACCATC-G
66 GTTATTTCCG-AGGAGATACTCCAACCCCAGTTTTATTTCCAAAATATCAATTTTTCACCATCAG
* ***
115200 AGGATGCACCAATCC-TGTTA-TTTTTTAGGGAA
130 -GGATACACCAA-CCTTGTTACTTTCAAAGGG-A
* *
115232 TACTCTAACCTTGA-TTTTATTTCTAAAATAT
1 TACTCCAACC-TCATTTTTATTTCTAAAATAT
115263 TAAATTCCTC
Statistics
Matches: 160, Mismatches: 22, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
158 28 0.17
159 10 0.06
160 115 0.72
161 7 0.04
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (160 bp):
TACTCCAACCTCATTTTTATTTCTAAAATATCAATTTTTTTCACCATCAGGGATACTCCAACCCC
GTTATTTCCGAGGAGATACTCCAACCCCAGTTTTATTTCCAAAATATCAATTTTTCACCATCAGG
GATACACCAACCTTGTTACTTTCAAAGGGA
Found at i:115326 original size:239 final size:239
Alignment explanation
Indices: 114882--115373 Score: 558
Period size: 239 Copynumber: 2.1 Consensus size: 239
114872 TAAAACCAAG
* * * * *
114882 GGGATACTCCAATCCCGTTGTTTCCGAGGTAGTACTCCATCCTCGTTTTTATTTTCAAAATATAG
1 GGGATACTCCAACCCCGTTATTTCCGAGGGAGTACTCCAACCCCGTTTTTATTTTCAAAATATAG
* *
114947 ATTTTTCACCATCGGGGATACTCCAATCCCGTTATTTTTGAGGAGATACTCCAACCTTATTTTTA
66 ATTTTTCACCATCGAGGATACACCAATCCCGTTATTTTTGAGGAGATACTCCAACCTTATTTTTA
** * ** *
115012 TTTCCAAAATATCGATTTTTTTCCATCAGGGATACTCCAACCTTGTTACTTTCAAAGGGATACTC
131 TTTCCAAAATATAAATTCTCGTCCATCAGGGATACTCCAACCTCGTTACTTTCAAAGGGATACTC
115077 CAACCTCATTTTTATTTCTAAAATATCAATTTTTTTCATCATCA
196 CAACCTCATTTTTATTTCTAAAATATCAATTTTTTTCATCATCA
*
115121 GGGATAGTCCAACCCCGTTATTTCCGAAGGGA-TACTCCAACCCCAG-TTTTATTTTCAAAATAT
1 GGGATACTCCAACCCCGTTATTTCCG-AGGGAGTACTCCAACCCC-GTTTTTATTTTCAAAATAT
* * * *
115184 CA-ATTTTTCACCATCGAGGATGCACCAATCCTGTTATTTTTTAGG-GAATACTCTAACCTTGA-
64 -AGATTTTTCACCATCGAGGATACACCAATCCCGTTATTTTTGAGGAG-ATACTCCAACCTT-AT
* * ** *
115246 TTTTATTTCTAAAATATTAAATTCCTCGT-C-TC-GAGGATACTCCAACCTCGTTATTTTTGAGG
126 TTTTATTTCCAAAATA-TAAATT-CTCGTCCATCAG-GGATACTCCAACCTCGTTACTTTCAAAG
* * * * *
115308 GGGTACTCTAATCTCATTTTTATTTCTAAAATATTGAA--ATTTTCATC-TC-
188 GGATACTCCAACCTCATTTTTATTTCTAAAATA-TCAATTTTTTTCATCATCA
115357 GGAGATACTCCAACCCC
1 GG-GATACTCCAACCCC
115374 ATTTTTATCT
Statistics
Matches: 214, Mismatches: 29, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
236 2 0.01
237 15 0.07
238 10 0.05
239 170 0.79
240 15 0.07
241 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.38
Consensus pattern (239 bp):
GGGATACTCCAACCCCGTTATTTCCGAGGGAGTACTCCAACCCCGTTTTTATTTTCAAAATATAG
ATTTTTCACCATCGAGGATACACCAATCCCGTTATTTTTGAGGAGATACTCCAACCTTATTTTTA
TTTCCAAAATATAAATTCTCGTCCATCAGGGATACTCCAACCTCGTTACTTTCAAAGGGATACTC
CAACCTCATTTTTATTTCTAAAATATCAATTTTTTTCATCATCA
Found at i:117270 original size:19 final size:19
Alignment explanation
Indices: 117230--117281 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
117220 CAGTTTCATT
**
117230 TATCGATACAATTGTCCATG
1 TATCGATACAA-TGAACATG
117250 TATCGATACAATGAACATG
1 TATCGATACAATGAACATG
117269 TATCGATACAATG
1 TATCGATACAATG
117282 TATCGATACA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 19 0.63
20 11 0.37
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (19 bp):
TATCGATACAATGAACATG
Found at i:117284 original size:13 final size:13
Alignment explanation
Indices: 117266--117292 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
117256 TACAATGAAC
117266 ATGTATCGATACA
1 ATGTATCGATACA
117279 ATGTATCGATACA
1 ATGTATCGATACA
117292 A
1 A
117293 AACAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:117307 original size:33 final size:32
Alignment explanation
Indices: 117247--117311 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
117237 ACAATTGTCC
*
117247 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAATAAACATGTATCGATACA
117279 ATGTATCGATACAA-AACAGCATGTATCGATACA
1 ATGTATCGATACAATAA-A-CATGTATCGATACA
117312 TTTGGGTGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 1 0.03
32 15 0.50
33 14 0.47
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (32 bp):
ATGTATCGATACAATAAACATGTATCGATACA
Found at i:119456 original size:20 final size:20
Alignment explanation
Indices: 119401--119507 Score: 96
Period size: 20 Copynumber: 5.4 Consensus size: 20
119391 CCCTTAAGAA
*
119401 AAAAAATTCTCCCCC-TTA-
1 AAAAATTTCTCCCCCTTTAT
** *
119419 AATGATTGTCTCCTCCTTTAT
1 AAAAATT-TCTCCCCCTTTAT
119440 AAAAATTTCTCCCCCTTTAT
1 AAAAATTTCTCCCCCTTTAT
119460 AAAAATTTTCTCCCCC-TTA-
1 AAAAA-TTTCTCCCCCTTTAT
** *
119479 AACGATTATCTCCTCCTTTAT
1 AAAAATT-TCTCCCCCTTTAT
119500 AAAAATTT
1 AAAAATTT
119508 TCTCAAATTT
Statistics
Matches: 70, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
18 6 0.09
19 17 0.24
20 27 0.39
21 20 0.29
ACGTcount: A:0.31, C:0.27, G:0.03, T:0.39
Consensus pattern (20 bp):
AAAAATTTCTCCCCCTTTAT
Found at i:119519 original size:60 final size:60
Alignment explanation
Indices: 119407--119519 Score: 165
Period size: 60 Copynumber: 1.9 Consensus size: 60
119397 AGAAAAAAAA
* * ***
119407 TTCTCCCCCTTAAATGATTGTCTCCTCCTTTATAAAAATTTCTCCCCCTTTATAAAAATT
1 TTCTCCCCCTTAAACGATTATCTCCTCCTTTATAAAAATTTCTCCAAATTTATAAAAATT
119467 TTCTCCCCCTTAAACGATTATCTCCTCCTTTATAAAAATTT-TCTCAAATTTAT
1 TTCTCCCCCTTAAACGATTATCTCCTCCTTTATAAAAATTTCTC-CAAATTTAT
119520 TTTCACATAC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
59 2 0.04
60 45 0.96
ACGTcount: A:0.27, C:0.27, G:0.03, T:0.42
Consensus pattern (60 bp):
TTCTCCCCCTTAAACGATTATCTCCTCCTTTATAAAAATTTCTCCAAATTTATAAAAATT
Found at i:121366 original size:13 final size:13
Alignment explanation
Indices: 121348--121372 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
121338 AAATAGTACC
121348 CAATGTATCGATA
1 CAATGTATCGATA
121361 CAATGTATCGAT
1 CAATGTATCGAT
121373 TCATGTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:127517 original size:13 final size:13
Alignment explanation
Indices: 127499--127529 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
127489 ACATTTCTTT
127499 ATGTATCGATACA
1 ATGTATCGATACA
127512 ATGTATCGATACA
1 ATGTATCGATACA
*
127525 TTGTA
1 ATGTA
127530 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:127618 original size:19 final size:19
Alignment explanation
Indices: 127574--127678 Score: 105
Period size: 19 Copynumber: 5.7 Consensus size: 19
127564 CTGCTAGTTT
* **
127574 CATGTATCGATACAATTGTT
1 CATGTATCGATACAA-AGAA
127594 CATGTATCGATACAAAGAA
1 CATGTATCGATACAAAGAA
*
127613 CATGTATCGATACAATGAA
1 CATGTATCGATACAAAGAA
127632 CATGTATCGATAC-----A
1 CATGTATCGATACAAAGAA
*
127646 -ATGTATCGATACAAAGCAG
1 CATGTATCGATACAAAG-AA
127665 CATGTATCGATACA
1 CATGTATCGATACA
127679 TCTGGGTGTG
Statistics
Matches: 73, Mismatches: 5, Indels: 14
0.79 0.05 0.15
Matches are distributed among these distances:
13 12 0.16
14 1 0.01
19 32 0.44
20 28 0.38
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (19 bp):
CATGTATCGATACAAAGAA
Found at i:127651 original size:13 final size:13
Alignment explanation
Indices: 127633--127659 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
127623 TACAATGAAC
127633 ATGTATCGATACA
1 ATGTATCGATACA
127646 ATGTATCGATACA
1 ATGTATCGATACA
127659 A
1 A
127660 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:127674 original size:33 final size:32
Alignment explanation
Indices: 127614--127678 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
127604 TACAAAGAAC
*
127614 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATGTATCGATACA
*
127646 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAG-AACATGTATCGATACA
127679 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCGATACA
Found at i:133730 original size:23 final size:24
Alignment explanation
Indices: 133689--133737 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
133679 TTAGATTAAA
133689 TTTATTTAAGATTTGAATTATTTAT
1 TTTATTTAAGATTTGAATTA-TTAT
*
133714 TTTA-TTAA-ATTTTAATTATTAT
1 TTTATTTAAGATTTGAATTATTAT
133736 TT
1 TT
133738 AATAATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 6 0.26
23 9 0.39
24 4 0.17
25 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (24 bp):
TTTATTTAAGATTTGAATTATTAT
Found at i:134075 original size:12 final size:12
Alignment explanation
Indices: 134056--134085 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
134046 GATGGTTCAA
134056 AATCATTTTTTT
1 AATCATTTTTTT
*
134068 AGTCATTTTTTT
1 AATCATTTTTTT
134080 AATCAT
1 AATCAT
134086 CAATTTCATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.27, C:0.10, G:0.03, T:0.60
Consensus pattern (12 bp):
AATCATTTTTTT
Done.