Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 86 of 211
Found at i:26767637 original size:15 final size:14
Alignment explanation
Indices: 26767601--26767655 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
26767591 TCTATTGAGC
26767601 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
26767615 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
*
26767629 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
*
26767644 GAAAGAAAAGAA
1 GAGA-AAAAGAA
26767656 TGATGAGAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:26767712 original size:23 final size:22
Alignment explanation
Indices: 26767671--26767724 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
26767661 AGAGTGAGAT
*
26767671 AAAAATAAGAGTGACAAAA-GA
1 AAAAACAAGAGTGACAAAATGA
**
26767692 CAAAGAACAAGAGTGTGAAAATGA
1 -AAA-AACAAGAGTGACAAAATGA
26767716 AAAAACAAG
1 AAAAACAAG
26767725 TGTTTTTGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 9 0.33
23 16 0.59
24 2 0.07
ACGTcount: A:0.63, C:0.07, G:0.20, T:0.09
Consensus pattern (22 bp):
AAAAACAAGAGTGACAAAATGA
Found at i:26779560 original size:11 final size:11
Alignment explanation
Indices: 26779544--26779583 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
26779534 TAGTTTCTCG
*
26779544 AAAAAAACTCA
1 AAAAAAATTCA
26779555 AAAAAAATTCA
1 AAAAAAATTCA
26779566 AAAAAAATTCA
1 AAAAAAATTCA
26779577 AAAAAAA
1 AAAAAAA
26779584 ACTAGTTTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.78, C:0.10, G:0.00, T:0.12
Consensus pattern (11 bp):
AAAAAAATTCA
Found at i:26779646 original size:13 final size:13
Alignment explanation
Indices: 26779628--26779674 Score: 78
Period size: 13 Copynumber: 3.6 Consensus size: 13
26779618 CAAGTTGTGA
26779628 AAAAAAAAATTTG
1 AAAAAAAAATTTG
26779641 -AAAAAAAATTGTG
1 AAAAAAAAATT-TG
26779654 AAAAAAAAATTTG
1 AAAAAAAAATTTG
26779667 AAAAAAAA
1 AAAAAAAA
26779675 GAGCTAGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
12 10 0.31
13 12 0.38
14 10 0.31
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (13 bp):
AAAAAAAAATTTG
Found at i:26779657 original size:26 final size:27
Alignment explanation
Indices: 26779622--26779674 Score: 99
Period size: 26 Copynumber: 2.0 Consensus size: 27
26779612 GGATATCAAG
26779622 TTGTGAAAAAAAAAATTTGAAAAAAAA
1 TTGTGAAAAAAAAAATTTGAAAAAAAA
26779649 TTGTG-AAAAAAAAATTTGAAAAAAAA
1 TTGTGAAAAAAAAAATTTGAAAAAAAA
26779675 GAGCTAGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 21 0.81
27 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (27 bp):
TTGTGAAAAAAAAAATTTGAAAAAAAA
Found at i:26787049 original size:259 final size:258
Alignment explanation
Indices: 26786580--26787075 Score: 690
Period size: 259 Copynumber: 1.9 Consensus size: 258
26786570 AGAGGAGGGG
* ** * *
26786580 AATGATGTGAGCTTGCCTACGAACCAAGTAGAGCTCGATCAAGAAGCTATCAAACTACCCATCAG
1 AATGATGTGAGCTTGCCTACGAACCAAATAGAGAACGAACAAGAAGCCATCAAACTACCCATCAG
** * * *
26786645 TCTGATAATGCGAGCTAGAGCTAAACGATTCAAGGATGCTATTTCAGTAATGGTGGAACGAACTT
66 TCCAATAACGCGAGCTAGAGCTAAACGATTCAAAGATGCTATTTCAGCAATGGTGGAACGAACTT
*
26786710 GGGAAAATGATAACAAAGAGTTTAAAAACGAGCTGAACATTTTCAACTTTTTGGAAGCTGAAATT
131 GGGAAAATGATAACAAAGAGTTTAAAAACGAGCTGAACATATTCAACTTTTTGGAAGCTGAAATT
*
26786775 CGTTCCAAATAATTAATTTGCTGCTGGAATTTTTGGACCATTTGATGTGAGCTTGCCTACGAAC
196 CGTTCCAAATAATTAATTTGCTGCTGGAA-TTTTAGACCATTTGATGTGAGCTTGCCTACGAAC
* * * * * **
26786839 AATGATGTGAGCTTGCCTACGAGCCAAATGGAGAACGAACAAGAAGCCATTAAGCTGCCCATTGG
1 AATGATGTGAGCTTGCCTACGAACCAAATAGAGAACGAACAAGAAGCCATCAAACTACCCATCAG
* **
26786904 TCCAATAACGCGAGCTAGAGCTAAACGATTCAAAGATGCTATTTTAGCAATGGTGGAACG-GGTT
66 TCCAATAACGCGAGCTAGAGCTAAACGATTCAAAGATGCTATTTCAGCAATGGTGGAACGAACTT
* * *
26786968 GAGGAAAATGATAGCAAGGAGTTTAAAAACGAGCTGAACATATTCAACTTCTTT-GAAGCTGAAT
131 G-GGAAAATGATAACAAAGAGTTTAAAAACGAGCTGAACATATTCAACTT-TTTGGAAGCTGAAA
* * **
26787032 TTTGTTCTAGCTAATTAATTTGCTGCTGGAATTTTAGACCATTT
194 TTCGTTCCAAATAATTAATTTGCTGCTGGAATTTTAGACCATTT
26787076 AAATAAGCAT
Statistics
Matches: 206, Mismatches: 29, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
258 15 0.07
259 188 0.91
260 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (258 bp):
AATGATGTGAGCTTGCCTACGAACCAAATAGAGAACGAACAAGAAGCCATCAAACTACCCATCAG
TCCAATAACGCGAGCTAGAGCTAAACGATTCAAAGATGCTATTTCAGCAATGGTGGAACGAACTT
GGGAAAATGATAACAAAGAGTTTAAAAACGAGCTGAACATATTCAACTTTTTGGAAGCTGAAATT
CGTTCCAAATAATTAATTTGCTGCTGGAATTTTAGACCATTTGATGTGAGCTTGCCTACGAAC
Found at i:26797190 original size:22 final size:22
Alignment explanation
Indices: 26797140--26797190 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
26797130 CCTCGTCTTT
* *
26797140 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTCTCTTTTTCTAAC
26797162 -TCATTTTCTCTCTTTCTTC-AAC
1 TTC-TTTTCTCTCTTT-TTCTAAC
26797184 TTCTTTT
1 TTCTTTT
26797191 TCAATTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
21 2 0.08
22 17 0.71
23 5 0.21
ACGTcount: A:0.10, C:0.24, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTCTCTTTTTCTAAC
Found at i:26799565 original size:4 final size:4
Alignment explanation
Indices: 26799556--26799587 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
26799546 TTAAACTAAG
26799556 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
26799588 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:26800128 original size:20 final size:20
Alignment explanation
Indices: 26800082--26800128 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
26800072 AGCTCGTTTC
*
26800082 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
26800102 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
26800122 CAGCTCA
1 CAGCTCA
26800129 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:26802828 original size:48 final size:47
Alignment explanation
Indices: 26802749--26802854 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 47
26802739 GAGTGTCATG
*
26802749 GAAAAAGAAATTGAGATTGAAAAAGGATGTGA-AAAAGAGAAAGAAATC
1 GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAA-AGAAA-AAATC
* *
26802797 GAAAAAGAAATTGAGATTGAACAAAAG-TGTGAGGAAAAAGAGAAAATT
1 GAAAAAGAAATTGAGATTGAA-AAAAGATGTGA-GAAAAAGAAAAAATC
26802845 GAAAAAGAAA
1 GAAAAAGAAA
26802855 GAAAAGACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.59, C:0.02, G:0.25, T:0.14
Consensus pattern (47 bp):
GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAAAGAAAAAATC
Found at i:26804553 original size:20 final size:20
Alignment explanation
Indices: 26804507--26804553 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
26804497 AGCTCGTTTC
*
26804507 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
26804527 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
26804547 CAGCTCA
1 CAGCTCA
26804554 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:26812605 original size:25 final size:25
Alignment explanation
Indices: 26812534--26812602 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
26812524 CTACTTCTAA
26812534 AGAAAACTCAAGAGAGAATTCTTGG
1 AGAAAACTCAAGAGAGAATTCTTGG
26812559 AGAAAACTCAAGAGAGAATTCTTGG
1 AGAAAACTCAAGAGAGAATTCTTGG
26812584 AGAAAACTCAA-AGAGAATT
1 AGAAAACTCAAGAGAGAATT
26812603 TCTACTCAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
24 8 0.18
25 36 0.82
ACGTcount: A:0.48, C:0.12, G:0.22, T:0.19
Consensus pattern (25 bp):
AGAAAACTCAAGAGAGAATTCTTGG
Found at i:26813780 original size:19 final size:18
Alignment explanation
Indices: 26813758--26813795 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
26813748 ACGATGAAGT
*
26813758 TTCGTTCTTCTTGAGTCAA
1 TTCGTTCTACTTGA-TCAA
26813777 TTCGTTCTACTTGATCAA
1 TTCGTTCTACTTGATCAA
26813795 T
1 T
26813796 GAAGTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.18, C:0.21, G:0.13, T:0.47
Consensus pattern (18 bp):
TTCGTTCTACTTGATCAA
Found at i:26815478 original size:20 final size:20
Alignment explanation
Indices: 26815455--26815501 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
26815445 GGGTTAAGAT
*
26815455 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
26815475 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
26815495 TGAGCTG
1 TGAGCTG
26815502 GAAACGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:26817218 original size:48 final size:48
Alignment explanation
Indices: 26817163--26817268 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
26817153 TTGTCTTTTC
*
26817163 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
26817211 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
26817259 TTTCTTTTTC
1 TTTCTTTTTC
26817269 CATGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:26818304 original size:12 final size:12
Alignment explanation
Indices: 26818287--26818381 Score: 73
Period size: 12 Copynumber: 7.4 Consensus size: 12
26818277 GACTTTTCAC
26818287 TTTTTTTTCTTT
1 TTTTTTTTCTTT
**
26818299 TTTTTTTTGCTCA
1 TTTTTTTT-CTTT
*
26818312 CTTTTTTTCTTT
1 TTTTTTTTCTTT
*
26818324 TTTTTTCTCGATTT
1 TTTTTTTTC--TTT
*
26818338 TTTTTTTTTTTT
1 TTTTTTTTCTTT
26818350 GAATTTTTTTTCTTT
1 ---TTTTTTTTCTTT
**
26818365 TTTTGATTCTTT
1 TTTTTTTTCTTT
26818377 TTTTT
1 TTTTT
26818382 CAATACAATA
Statistics
Matches: 64, Mismatches: 13, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
12 34 0.53
13 9 0.14
14 10 0.16
15 11 0.17
ACGTcount: A:0.05, C:0.09, G:0.04, T:0.81
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:26818305 original size:22 final size:21
Alignment explanation
Indices: 26818280--26818368 Score: 67
Period size: 20 Copynumber: 4.0 Consensus size: 21
26818270 CTCGCAAGAC
26818280 TTTTCACTTTTTTTTCTTTTTTTT
1 TTTTCAC-TTTTTTTC--TTTTTT
26818304 TTTGCTCACTTTTTTTCTTTTTT
1 TTT--TCACTTTTTTTCTTTTTT
26818327 TTTCTCGA--TTTTTT-TTTTTT
1 TTT-TC-ACTTTTTTTCTTTTTT
** *
26818347 TTTGAATTTTTTTTCTTTTTT
1 TTTTCACTTTTTTTCTTTTTT
26818368 T
1 T
26818369 GATTCTTTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 15
0.77 0.03 0.20
Matches are distributed among these distances:
18 1 0.02
20 15 0.26
21 13 0.23
22 3 0.05
23 10 0.18
24 3 0.05
25 8 0.14
26 4 0.07
ACGTcount: A:0.06, C:0.11, G:0.03, T:0.80
Consensus pattern (21 bp):
TTTTCACTTTTTTTCTTTTTT
Found at i:26818341 original size:25 final size:25
Alignment explanation
Indices: 26818287--26818349 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
26818277 GACTTTTCAC
* *
26818287 TTTTTTTTCTTTTTTTTTTTGCTCA
1 TTTTTTTTCTTTTTTTTTTCGATCA
*
26818312 CTTTTTTTCTTTTTTTTTCTCGAT--
1 TTTTTTTTCTTTTTTTTT-TCGATCA
26818336 TTTTTTTT-TTTTTT
1 TTTTTTTTCTTTTTT
26818350 GAATTTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 6 0.18
24 7 0.21
25 17 0.52
26 3 0.09
ACGTcount: A:0.03, C:0.11, G:0.03, T:0.83
Consensus pattern (25 bp):
TTTTTTTTCTTTTTTTTTTCGATCA
Found at i:26818348 original size:19 final size:17
Alignment explanation
Indices: 26818315--26818381 Score: 80
Period size: 19 Copynumber: 3.6 Consensus size: 17
26818305 TTGCTCACTT
26818315 TTTTTCTTTTTTTTTCTCGA
1 TTTTT-TTTTTTTTT-T-GA
26818335 TTTTTTTTTTTTTTTGAA
1 TTTTTTTTTTTTTTTG-A
26818353 TTTTTTTTCTTTTTTTGA
1 TTTTTTTT-TTTTTTTGA
26818371 TTCTTTTTTTT
1 TT-TTTTTTTT
26818382 CAATACAATA
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.02
18 15 0.34
19 23 0.52
20 5 0.11
ACGTcount: A:0.06, C:0.07, G:0.04, T:0.82
Consensus pattern (17 bp):
TTTTTTTTTTTTTTTGA
Found at i:26819836 original size:20 final size:20
Alignment explanation
Indices: 26819813--26819859 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
26819803 GGGTTAAGAT
*
26819813 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
26819833 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
26819853 TGAGCTG
1 TGAGCTG
26819860 GAAACGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:26820309 original size:20 final size:20
Alignment explanation
Indices: 26820265--26820312 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
26820255 GAGGTTAAAA
26820265 TGAGCTGATTGAGCTAAGAG
1 TGAGCTGATTGAGCTAAGAG
*
26820285 GGAGCTCGA-TGAGCTAA-AG
1 TGAGCT-GATTGAGCTAAGAG
26820304 TTGAGCTGA
1 -TGAGCTGA
26820313 ATGAACTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 4 0.17
20 18 0.75
21 2 0.08
ACGTcount: A:0.29, C:0.12, G:0.35, T:0.23
Consensus pattern (20 bp):
TGAGCTGATTGAGCTAAGAG
Found at i:26824353 original size:18 final size:18
Alignment explanation
Indices: 26824329--26824372 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
26824319 TCTTTTTTCG
* *
26824329 CTTTTTCTTTTTCAATTT
1 CTTTTTCATTCTCAATTT
*
26824347 TTTTTTCATTCTCAATTT
1 CTTTTTCATTCTCAATTT
26824365 CTTTTTCA
1 CTTTTTCA
26824373 ATTTTCTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.14, C:0.18, G:0.00, T:0.68
Consensus pattern (18 bp):
CTTTTTCATTCTCAATTT
Found at i:26824368 original size:30 final size:27
Alignment explanation
Indices: 26824332--26824398 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 27
26824322 TTTTTCGCTT
*
26824332 TTTCTTTTTCAATTTTTTTTTCATTCTCAA
1 TTTCTTTTTCAATTTTCTTTTC--T-TCAA
*
26824362 TTTCTTTTTCAATTTTCTTTTCTTCAT
1 TTTCTTTTTCAATTTTCTTTTCTTCAA
26824389 TTTCTTTTTC
1 TTTCTTTTTC
26824399 TCTCACTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
27 13 0.37
28 1 0.03
30 21 0.60
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.70
Consensus pattern (27 bp):
TTTCTTTTTCAATTTTCTTTTCTTCAA
Found at i:26824382 original size:12 final size:12
Alignment explanation
Indices: 26824332--26824431 Score: 59
Period size: 12 Copynumber: 8.6 Consensus size: 12
26824322 TTTTTCGCTT
26824332 TTTCTTTTTCAA
1 TTTCTTTTTCAA
*
26824344 TTTTTTTTTC-A
1 TTTCTTTTTCAA
26824355 -TTC----TCAA
1 TTTCTTTTTCAA
26824362 TTTCTTTTTCAA
1 TTTCTTTTTCAA
*
26824374 TTTTCTTTTCTTCAT
1 -TTTC-TTT-TTCAA
**
26824389 TTTCTTTTTCTC
1 TTTCTTTTTCAA
** *
26824401 TCACTTTTTCGA
1 TTTCTTTTTCAA
26824413 TTTCTTTTTCAA
1 TTTCTTTTTCAA
*
26824425 TCTCTTT
1 TTTCTTT
26824432 CTCCTTTTCT
Statistics
Matches: 66, Mismatches: 13, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
6 2 0.03
7 1 0.02
8 3 0.05
10 2 0.03
11 1 0.02
12 39 0.59
13 7 0.11
14 7 0.11
15 4 0.06
ACGTcount: A:0.12, C:0.20, G:0.01, T:0.67
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:26824440 original size:24 final size:24
Alignment explanation
Indices: 26824355--26824441 Score: 68
Period size: 24 Copynumber: 3.5 Consensus size: 24
26824345 TTTTTTTTCA
* *
26824355 TTCTCAATTTCTTTTTCAATTTTCTT
1 TTCTCATTTTCTTTTTCAA-TCTC-T
** *
26824381 TTCTTCATTTTCTTTTTCTCTCACT
1 TTC-TCATTTTCTTTTTCAATCTCT
*
26824406 TTTTCGA-TTTCTTTTTCAATCTCT
1 TTCTC-ATTTTCTTTTTCAATCTCT
*
26824430 TTCTCCTTTTCT
1 TTCTCATTTTCT
26824442 CGGTCAATGG
Statistics
Matches: 47, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
24 25 0.53
25 4 0.09
26 5 0.11
27 13 0.28
ACGTcount: A:0.10, C:0.24, G:0.01, T:0.64
Consensus pattern (24 bp):
TTCTCATTTTCTTTTTCAATCTCT
Found at i:26825494 original size:11 final size:12
Alignment explanation
Indices: 26825467--26825505 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
26825457 CTTTTTTTTC
* *
26825467 TTTTTTTTCGAT
1 TTTTTTTTTGAA
26825479 TTTTTTTTTGAA
1 TTTTTTTTTGAA
26825491 TTTTTTTTTGAA
1 TTTTTTTTTGAA
26825503 TTT
1 TTT
26825506 CTTCTCTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.13, C:0.03, G:0.08, T:0.77
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:26826297 original size:146 final size:146
Alignment explanation
Indices: 26826096--26826381 Score: 531
Period size: 146 Copynumber: 2.0 Consensus size: 146
26826086 GAGAACGATA
*
26826096 GACGCCATTAGCATGCTAGATAAGTCAGATCGAGACTCGTACGAAATAGGATAGGAGGAAACCTC
1 GACGCCACTAGCATGCTAGATAAGTCAGATCGAGACTCGTACGAAATAGGATAGGAGGAAACCTC
26826161 ACAATCAAGTTTTCAATAATCAAATTCTGTAACCTTTTACAATAAACAAAATAAACTATTTATAG
66 ACAATCAAGTTTTCAATAATCAAATTCTGTAACCTTTTACAATAAACAAAATAAACTATTTATAG
26826226 GCTCTCTAATCGGGTT
131 GCTCTCTAATCGGGTT
26826242 GACGCCACTAGCGA-GCTAGATAAGTCAGAAT-GAGACTCGTACGAAATAGGATAGGAGGAAACC
1 GACGCCACTAGC-ATGCTAGATAAGTCAG-ATCGAGACTCGTACGAAATAGGATAGGAGGAAACC
26826305 TCACAATCAAGTTTTCAATAATCAAATTCTGTAACCTTTTACAATAAACAAAATAAACTATTTAT
64 TCACAATCAAGTTTTCAATAATCAAATTCTGTAACCTTTTACAATAAACAAAATAAACTATTTAT
26826370 AGGCTCTCTAAT
129 AGGCTCTCTAAT
26826382 GCCTATTAAA
Statistics
Matches: 137, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
146 134 0.98
147 3 0.02
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.27
Consensus pattern (146 bp):
GACGCCACTAGCATGCTAGATAAGTCAGATCGAGACTCGTACGAAATAGGATAGGAGGAAACCTC
ACAATCAAGTTTTCAATAATCAAATTCTGTAACCTTTTACAATAAACAAAATAAACTATTTATAG
GCTCTCTAATCGGGTT
Found at i:26827305 original size:20 final size:19
Alignment explanation
Indices: 26827282--26827346 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
26827272 AAGCTCAAAC
26827282 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
26827302 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
26827322 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
26827342 GAGCT
1 GAGCT
26827347 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:26834555 original size:11 final size:11
Alignment explanation
Indices: 26834541--26834595 Score: 56
Period size: 11 Copynumber: 4.8 Consensus size: 11
26834531 AATTTTTTTC
26834541 TTTTTTTCAAT
1 TTTTTTTCAAT
* *
26834552 TTTTTTTGATTTT
1 TTTTTTTCA--AT
*
26834565 TTTTTTTCGAT
1 TTTTTTTCAAT
*
26834576 TTTTTTTCAAA
1 TTTTTTTCAAT
26834587 TTTTTTTCA
1 TTTTTTTCA
26834596 CGAGTCTACT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
11 27 0.77
13 8 0.23
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.75
Consensus pattern (11 bp):
TTTTTTTCAAT
Found at i:26834568 original size:14 final size:14
Alignment explanation
Indices: 26834551--26834582 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
26834541 TTTTTTTCAA
26834551 TTTTTTTT-GATTT
1 TTTTTTTTCGATTT
26834564 TTTTTTTTCGATTT
1 TTTTTTTTCGATTT
26834578 TTTTT
1 TTTTT
26834583 CAAATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.06, C:0.03, G:0.06, T:0.84
Consensus pattern (14 bp):
TTTTTTTTCGATTT
Found at i:26834577 original size:24 final size:25
Alignment explanation
Indices: 26834536--26834582 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
26834526 GTATAAATTT
26834536 TTTTCTTTTTTTCAATTTTTTTTGA
1 TTTTCTTTTTTTCAATTTTTTTTGA
*
26834561 TTTT-TTTTTTTCGATTTTTTTT
1 TTTTCTTTTTTTCAATTTTTTTT
26834583 CAAATTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.09, C:0.06, G:0.04, T:0.81
Consensus pattern (25 bp):
TTTTCTTTTTTTCAATTTTTTTTGA
Found at i:26834590 original size:24 final size:24
Alignment explanation
Indices: 26834541--26834593 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
26834531 AATTTTTTTC
* **
26834541 TTTTTTTCAATTTTTTTTGATTTT
1 TTTTTTTCAATTTTTTTTCAAATT
*
26834565 TTTTTTTCGATTTTTTTTCAAATT
1 TTTTTTTCAATTTTTTTTCAAATT
26834589 TTTTT
1 TTTTT
26834594 CACGAGTCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.13, C:0.06, G:0.04, T:0.77
Consensus pattern (24 bp):
TTTTTTTCAATTTTTTTTCAAATT
Found at i:26844084 original size:20 final size:20
Alignment explanation
Indices: 26844027--26844087 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 20
26844017 TATAAACGCA
*
26844027 ATTGAGCTTAA-AATGAGCTG
1 ATTGAGC-TAAGAGTGAGCTG
*
26844047 ATTGAGCTAAGAGGGAGCTCG
1 ATTGAGCTAAGAGTGAGCT-G
26844068 A-TGAGCTAA-AGTTGAGCTG
1 ATTGAGCTAAGAG-TGAGCTG
26844087 A
1 A
26844088 ATGAACTTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
19 7 0.20
20 26 0.74
21 2 0.06
ACGTcount: A:0.33, C:0.11, G:0.31, T:0.25
Consensus pattern (20 bp):
ATTGAGCTAAGAGTGAGCTG
Found at i:26851460 original size:11 final size:12
Alignment explanation
Indices: 26851443--26851474 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
26851433 TAGCTCTCTC
26851443 TTTTTTTCACAA
1 TTTTTTTCACAA
26851455 TTTTTTTTCACAA
1 -TTTTTTTCACAA
26851468 TTTTTTT
1 TTTTTTT
26851475 TTCACAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTTTTCACAA
Found at i:26851461 original size:13 final size:14
Alignment explanation
Indices: 26851443--26851481 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
26851433 TAGCTCTCTC
26851443 TTTTTTTCACAA-T
1 TTTTTTTCACAATT
26851456 TTTTTTTCACAATT
1 TTTTTTTCACAATT
26851470 TTTTTTTCACAA
1 TTTTTTTCACAA
26851482 CTTGATATCC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTTTTCACAATT
Found at i:26851563 original size:11 final size:11
Alignment explanation
Indices: 26851520--26851563 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
26851510 GGAAACTAGT
*
26851520 TTTTTTTCGAT
1 TTTTTTTCGAG
* *
26851531 TTTTTTTTGAA
1 TTTTTTTCGAG
26851542 TTTTTTTCGAG
1 TTTTTTTCGAG
26851553 TTTTTTTCGAG
1 TTTTTTTCGAG
26851564 AAACTACTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.11, C:0.07, G:0.14, T:0.68
Consensus pattern (11 bp):
TTTTTTTCGAG
Found at i:26854647 original size:19 final size:18
Alignment explanation
Indices: 26854611--26854650 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
26854601 TTTTCACTCG
*
26854611 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
26854629 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
26854648 TTT
1 TTT
26854651 GTTTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:26854782 original size:18 final size:17
Alignment explanation
Indices: 26854723--26854783 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
26854713 GCACTCTTTC
*
26854723 TTTTCTTTCTCCAATCTTT
1 TTTTCTTT-TTCAAT-TTT
*
26854742 TTCTCTTTTTCAATTTT
1 TTTTCTTTTTCAATTTT
*
26854759 TGTTTCTTTTTCAGTTTCT
1 T-TTTCTTTTTCAATTT-T
26854778 TTTTCT
1 TTTTCT
26854784 CTCGTCACTC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 4 0.11
18 23 0.64
19 9 0.25
ACGTcount: A:0.08, C:0.20, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTTCTTTTTCAATTTT
Found at i:26866812 original size:27 final size:27
Alignment explanation
Indices: 26866777--26866831 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
26866767 CTTTAAATAC
26866777 TTAGTTTTCATTTTTAGACTTTATGAA
1 TTAGTTTTCATTTTTAGACTTTATGAA
26866804 TTAGTTTTCATTTTTAGACTTTATGAA
1 TTAGTTTTCATTTTTAGACTTTATGAA
26866831 T
1 T
26866832 AAATTTCTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.07, G:0.11, T:0.56
Consensus pattern (27 bp):
TTAGTTTTCATTTTTAGACTTTATGAA
Found at i:26866838 original size:26 final size:27
Alignment explanation
Indices: 26866782--26866838 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
26866772 AATACTTAGT
**
26866782 TTTCATTTTTAGACTTTATGAATTAGT
1 TTTCATTTTTAGACTTTATGAATTAAA
26866809 TTTCATTTTTAGACTTTATGAA-TAAA
1 TTTCATTTTTAGACTTTATGAATTAAA
26866835 TTTC
1 TTTC
26866839 TATGTAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.54
Consensus pattern (27 bp):
TTTCATTTTTAGACTTTATGAATTAAA
Found at i:26868467 original size:15 final size:14
Alignment explanation
Indices: 26868431--26868485 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
26868421 TCTATTGATC
26868431 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
26868445 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
*
26868459 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
*
26868474 GAAAGAAAAGAA
1 GAGA-AAAAGAA
26868486 TGAGGAGAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:26873155 original size:20 final size:20
Alignment explanation
Indices: 26873130--26873176 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
26873120 AAGCTGACTT
*
26873130 TAGCTCAATTTCAACTCCCA
1 TAGCTCAATTTCAACTCCAA
*
26873150 TAGCTC-ATTTCAGCTCCAA
1 TAGCTCAATTTCAACTCCAA
26873169 TCAGCTCA
1 T-AGCTCA
26873177 CTTGAGCTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.28, C:0.34, G:0.09, T:0.30
Consensus pattern (20 bp):
TAGCTCAATTTCAACTCCAA
Found at i:26882897 original size:10 final size:10
Alignment explanation
Indices: 26882882--26882940 Score: 57
Period size: 10 Copynumber: 5.8 Consensus size: 10
26882872 TTGGGTTAAG
26882882 ATTGAGCTGA
1 ATTGAGCTGA
26882892 ATTGAGCTCGA
1 ATTGAGCT-GA
26882903 A-TGAGCTGA
1 ATTGAGCTGA
* *
26882912 CTTGAGCTCA
1 ATTGAGCTGA
*
26882922 AGTGAGCTGGA
1 ATTGAGCT-GA
*
26882933 AATGAGCT
1 ATTGAGCT
26882941 TAACGGAGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
9 2 0.05
10 27 0.68
11 11 0.28
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (10 bp):
ATTGAGCTGA
Found at i:26882907 original size:20 final size:20
Alignment explanation
Indices: 26882884--26882940 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
26882874 GGGTTAAGAT
26882884 TGAGCTGAATTGAGCTCGAA-
1 TGAGCTGAATTGAGCTC-AAG
*
26882904 TGAGCTGACTTGAGCTCAAG
1 TGAGCTGAATTGAGCTCAAG
*
26882924 TGAGCTGGAAATGAGCT
1 TGAGCT-GAATTGAGCT
26882941 TAACGGAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 2 0.06
20 22 0.69
21 8 0.25
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.25
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCAAG
Found at i:26884833 original size:12 final size:12
Alignment explanation
Indices: 26884800--26884865 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 12
26884790 TTTCCACTCG
26884800 ATTTC-TTTTCA
1 ATTTCTTTTTCA
** *
26884811 AGCTCTCTTTCA
1 ATTTCTTTTTCA
*
26884823 ATTTCTTTTTCC
1 ATTTCTTTTTCA
*
26884835 A---CTCTTTCA
1 ATTTCTTTTTCA
26884844 ATTTCTTTTTCA
1 ATTTCTTTTTCA
*
26884856 ATCTCTTTTT
1 ATTTCTTTTT
26884866 GCTTTTCACT
Statistics
Matches: 40, Mismatches: 11, Indels: 7
0.69 0.19 0.12
Matches are distributed among these distances:
9 7 0.17
11 3 0.08
12 30 0.75
ACGTcount: A:0.15, C:0.24, G:0.02, T:0.59
Consensus pattern (12 bp):
ATTTCTTTTTCA
Found at i:26884841 original size:21 final size:22
Alignment explanation
Indices: 26884800--26884863 Score: 87
Period size: 21 Copynumber: 2.9 Consensus size: 22
26884790 TTTCCACTCG
26884800 ATTTC-TTTTCAAGCTCTCTTTCA
1 ATTTCTTTTTCAA--TCTCTTTCA
*
26884823 ATTTCTTTTTCCA-CTCTTTCA
1 ATTTCTTTTTCAATCTCTTTCA
26884844 ATTTCTTTTTCAATCTCTTT
1 ATTTCTTTTTCAATCTCTTT
26884864 TTGCTTTTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
21 20 0.54
22 6 0.16
23 5 0.14
24 6 0.16
ACGTcount: A:0.16, C:0.25, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTTCTTTTTCAATCTCTTTCA
Found at i:26884918 original size:15 final size:15
Alignment explanation
Indices: 26884895--26884941 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
26884885 TTTTGAAATC
26884895 TCATTTTCATATT-TT
1 TCATTTTCAT-TTCTT
*
26884910 TCTTTTTCATTTCTT
1 TCATTTTCATTTCTT
26884925 TCATTTTCATTTTCTT
1 TCATTTTCA-TTTCTT
26884941 T
1 T
26884942 ATTCTTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 2 0.07
15 19 0.68
16 7 0.25
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (15 bp):
TCATTTTCATTTCTT
Found at i:26885997 original size:20 final size:20
Alignment explanation
Indices: 26885972--26886038 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
26885962 AACTCGCAAG
26885972 ACTTTTCACTTCTTTTTTTT
1 ACTTTTCACTTCTTTTTTTT
***
26885992 ACTTTTTGTTTCTGTTTTTTT
1 ACTTTTCACTTCT-TTTTTTT
26886013 --TTTGCTCACTTCTTTTTTTT
1 ACTTT--TCACTTCTTTTTTTT
*
26886033 TCTTTT
1 ACTTTT
26886039 TTTTTTTGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
19 3 0.08
20 18 0.50
21 12 0.33
22 3 0.08
ACGTcount: A:0.06, C:0.16, G:0.04, T:0.73
Consensus pattern (20 bp):
ACTTTTCACTTCTTTTTTTT
Found at i:26888257 original size:13 final size:13
Alignment explanation
Indices: 26888239--26888274 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
26888229 AGGAAATTTG
26888239 AAAAAAAATTCAA
1 AAAAAAAATTCAA
26888252 AAAAAAAATTCAA
1 AAAAAAAATTCAA
26888265 AAAAAAAATT
1 AAAAAAAATT
26888275 TTGAAGTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAAAAAATTCAA
Found at i:26895802 original size:10 final size:10
Alignment explanation
Indices: 26895787--26895835 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
26895777 TTGGGTTAAG
26895787 ATTGAGCTGA
1 ATTGAGCTGA
26895797 ATTGAGCTCGA
1 ATTGAGCT-GA
26895808 A-TGAGCTGA
1 ATTGAGCTGA
* *
26895817 CTTGAGCTCA
1 ATTGAGCTGA
*
26895827 AGTGAGCTG
1 ATTGAGCTG
26895836 GAAACGAGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 2 0.06
10 27 0.84
11 3 0.09
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.27
Consensus pattern (10 bp):
ATTGAGCTGA
Found at i:26895812 original size:20 final size:20
Alignment explanation
Indices: 26895789--26895835 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
26895779 GGGTTAAGAT
26895789 TGAGCTGAATTGAGCTCGAA-
1 TGAGCTGAATTGAGCTC-AAG
*
26895809 TGAGCTGACTTGAGCTCAAG
1 TGAGCTGAATTGAGCTCAAG
26895829 TGAGCTG
1 TGAGCTG
26895836 GAAACGAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCAAG
Found at i:26897743 original size:12 final size:12
Alignment explanation
Indices: 26897710--26897775 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 12
26897700 TTTCCACTCG
26897710 ATTTC-TTTTCA
1 ATTTCTTTTTCA
** *
26897721 AGCTCTCTTTCA
1 ATTTCTTTTTCA
*
26897733 ATTTCTTTTTCC
1 ATTTCTTTTTCA
*
26897745 A---CTCTTTCA
1 ATTTCTTTTTCA
26897754 ATTTCTTTTTCA
1 ATTTCTTTTTCA
*
26897766 ATCTCTTTTT
1 ATTTCTTTTT
26897776 GCTTTTTACT
Statistics
Matches: 40, Mismatches: 11, Indels: 7
0.69 0.19 0.12
Matches are distributed among these distances:
9 7 0.17
11 3 0.08
12 30 0.75
ACGTcount: A:0.15, C:0.24, G:0.02, T:0.59
Consensus pattern (12 bp):
ATTTCTTTTTCA
Found at i:26897751 original size:21 final size:22
Alignment explanation
Indices: 26897710--26897773 Score: 87
Period size: 21 Copynumber: 2.9 Consensus size: 22
26897700 TTTCCACTCG
26897710 ATTTC-TTTTCAAGCTCTCTTTCA
1 ATTTCTTTTTCAA--TCTCTTTCA
*
26897733 ATTTCTTTTTCCA-CTCTTTCA
1 ATTTCTTTTTCAATCTCTTTCA
26897754 ATTTCTTTTTCAATCTCTTT
1 ATTTCTTTTTCAATCTCTTT
26897774 TTGCTTTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
21 20 0.54
22 6 0.16
23 5 0.14
24 6 0.16
ACGTcount: A:0.16, C:0.25, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTTCTTTTTCAATCTCTTTCA
Found at i:26897828 original size:15 final size:15
Alignment explanation
Indices: 26897805--26897851 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
26897795 TTTTGAAATC
26897805 TCATTTTCATATT-TT
1 TCATTTTCAT-TTCTT
*
26897820 TCTTTTTCATTTCTT
1 TCATTTTCATTTCTT
26897835 TCATTTTCATTTTCTT
1 TCATTTTCA-TTTCTT
26897851 T
1 T
26897852 ATTCTTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 2 0.07
15 19 0.68
16 7 0.25
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (15 bp):
TCATTTTCATTTCTT
Found at i:26898831 original size:13 final size:12
Alignment explanation
Indices: 26898810--26898886 Score: 50
Period size: 12 Copynumber: 6.2 Consensus size: 12
26898800 CTCGCAAGAC
*
26898810 TTTTCACTTCTTT
1 TTTTTACTT-TTT
26898823 TTTTTACTTTTT
1 TTTTTACTTTTT
* *
26898835 TTTCT-GTTTTT
1 TTTTTACTTTTT
26898846 TTTTGCTCACTTCTTT
1 TTTT--T-ACTT-TTT
26898862 TTTTT-CTTTTT
1 TTTTTACTTTTT
* *
26898873 TTTTGAATTTTT
1 TTTTTACTTTTT
26898885 TT
1 TT
26898887 GAATTTTATT
Statistics
Matches: 51, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
11 15 0.29
12 17 0.33
13 9 0.18
14 1 0.02
15 2 0.04
16 7 0.14
ACGTcount: A:0.06, C:0.13, G:0.04, T:0.77
Consensus pattern (12 bp):
TTTTTACTTTTT
Found at i:26898833 original size:20 final size:19
Alignment explanation
Indices: 26898809--26898871 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
26898799 ACTCGCAAGA
26898809 CTTTTCACTTCTTTTTTTT
1 CTTTTCACTTCTTTTTTTT
**
26898828 ACTTTT-TTTTCTGTTTTTTT
1 -CTTTTCACTTCT-TTTTTTT
*
26898848 -TTGCTCACTTCTTTTTTTT
1 CTT-TTCACTTCTTTTTTTT
26898867 CTTTT
1 CTTTT
26898872 TTTTTGAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 9
0.69 0.12 0.19
Matches are distributed among these distances:
18 2 0.06
19 13 0.39
20 18 0.55
ACGTcount: A:0.05, C:0.17, G:0.03, T:0.75
Consensus pattern (19 bp):
CTTTTCACTTCTTTTTTTT
Found at i:26898884 original size:38 final size:39
Alignment explanation
Indices: 26898813--26898887 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
26898803 GCAAGACTTT
*
26898813 TCACTTCTTTTTTTTACTTTTTTTTCTGTTTTTTTTTGC
1 TCACTTCTTTTTTTTACTTTTTTTTCTGATTTTTTTTGC
*
26898852 TCACTTCTTTTTTTT-CTTTTTTTT-TGAATTTTTTTG
1 TCACTTCTTTTTTTTACTTTTTTTTCTGATTTTTTTTG
26898888 AATTTTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 10 0.29
38 9 0.26
39 15 0.44
ACGTcount: A:0.07, C:0.13, G:0.05, T:0.75
Consensus pattern (39 bp):
TCACTTCTTTTTTTTACTTTTTTTTCTGATTTTTTTTGC
Found at i:26902847 original size:10 final size:10
Alignment explanation
Indices: 26902832--26902880 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
26902822 TTGGGTTAAG
26902832 ATTGAGCTGA
1 ATTGAGCTGA
26902842 ATTGAGCTCGA
1 ATTGAGCT-GA
26902853 A-TGAGCTGA
1 ATTGAGCTGA
* *
26902862 CTTGAGCTCA
1 ATTGAGCTGA
*
26902872 AGTGAGCTG
1 ATTGAGCTG
26902881 GAAACGAGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 2 0.06
10 27 0.84
11 3 0.09
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.27
Consensus pattern (10 bp):
ATTGAGCTGA
Found at i:26902857 original size:20 final size:20
Alignment explanation
Indices: 26902834--26902880 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
26902824 GGGTTAAGAT
26902834 TGAGCTGAATTGAGCTCGAA-
1 TGAGCTGAATTGAGCTC-AAG
*
26902854 TGAGCTGACTTGAGCTCAAG
1 TGAGCTGAATTGAGCTCAAG
26902874 TGAGCTG
1 TGAGCTG
26902881 GAAACGAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCAAG
Found at i:26904785 original size:12 final size:12
Alignment explanation
Indices: 26904752--26904817 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 12
26904742 TTTCCACTCG
26904752 ATTTC-TTTTCA
1 ATTTCTTTTTCA
** *
26904763 AGCTCTCTTTCA
1 ATTTCTTTTTCA
*
26904775 ATTTCTTTTTCC
1 ATTTCTTTTTCA
*
26904787 A---CTCTTTCA
1 ATTTCTTTTTCA
26904796 ATTTCTTTTTCA
1 ATTTCTTTTTCA
*
26904808 ATCTCTTTTT
1 ATTTCTTTTT
26904818 GCTTTTCACT
Statistics
Matches: 40, Mismatches: 11, Indels: 7
0.69 0.19 0.12
Matches are distributed among these distances:
9 7 0.17
11 3 0.08
12 30 0.75
ACGTcount: A:0.15, C:0.24, G:0.02, T:0.59
Consensus pattern (12 bp):
ATTTCTTTTTCA
Found at i:26904793 original size:21 final size:22
Alignment explanation
Indices: 26904752--26904815 Score: 87
Period size: 21 Copynumber: 2.9 Consensus size: 22
26904742 TTTCCACTCG
26904752 ATTTC-TTTTCAAGCTCTCTTTCA
1 ATTTCTTTTTCAA--TCTCTTTCA
*
26904775 ATTTCTTTTTCCA-CTCTTTCA
1 ATTTCTTTTTCAATCTCTTTCA
26904796 ATTTCTTTTTCAATCTCTTT
1 ATTTCTTTTTCAATCTCTTT
26904816 TTGCTTTTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
21 20 0.54
22 6 0.16
23 5 0.14
24 6 0.16
ACGTcount: A:0.16, C:0.25, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTTCTTTTTCAATCTCTTTCA
Found at i:26904870 original size:15 final size:15
Alignment explanation
Indices: 26904847--26904893 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
26904837 TTTTGAAATC
26904847 TCATTTTCATATT-TT
1 TCATTTTCAT-TTCTT
*
26904862 TCTTTTTCATTTCTT
1 TCATTTTCATTTCTT
26904877 TCATTTTCATTTTCTT
1 TCATTTTCA-TTTCTT
26904893 T
1 T
26904894 ATTCTTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 2 0.07
15 19 0.68
16 7 0.25
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (15 bp):
TCATTTTCATTTCTT
Found at i:26906003 original size:38 final size:38
Alignment explanation
Indices: 26905931--26906004 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 38
26905921 GCAAGACTTT
**
26905931 TCACTTCTTTTTTTACTTTTTTTCTGTTTTTTTTTTGC
1 TCACTTCTTTTTTTACTTTTTTTCTGTTAATTTTTTGC
*
26905969 TCACTTCTTTTTTTTTCTTTTTTT-T-TTGAATTTTTT
1 TCACTTC-TTTTTTTACTTTTTTTCTGTT-AATTTTTT
26906005 TGAATTTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
37 2 0.06
38 14 0.45
39 15 0.48
ACGTcount: A:0.07, C:0.14, G:0.04, T:0.76
Consensus pattern (38 bp):
TCACTTCTTTTTTTACTTTTTTTCTGTTAATTTTTTGC
Found at i:26909896 original size:10 final size:10
Alignment explanation
Indices: 26909881--26909929 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
26909871 TTGGGTTAAG
26909881 ATTGAGCTGA
1 ATTGAGCTGA
26909891 ATTGAGCTCGA
1 ATTGAGCT-GA
26909902 A-TGAGCTGA
1 ATTGAGCTGA
* *
26909911 CTTGAGCTCA
1 ATTGAGCTGA
*
26909921 AGTGAGCTG
1 ATTGAGCTG
26909930 GAAACGAGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 2 0.06
10 27 0.84
11 3 0.09
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.27
Consensus pattern (10 bp):
ATTGAGCTGA
Found at i:26909906 original size:20 final size:20
Alignment explanation
Indices: 26909883--26909929 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
26909873 GGGTTAAGAT
26909883 TGAGCTGAATTGAGCTCGAA-
1 TGAGCTGAATTGAGCTC-AAG
*
26909903 TGAGCTGACTTGAGCTCAAG
1 TGAGCTGAATTGAGCTCAAG
26909923 TGAGCTG
1 TGAGCTG
26909930 GAAACGAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCAAG
Found at i:26911778 original size:16 final size:15
Alignment explanation
Indices: 26911759--26911807 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
26911749 TGCTTTCTTC
26911759 ACTCGTTTCTTTTGCA
1 ACTCGTTTCTTTT-CA
* *
26911775 ACTCTTTTTCTTTTCC
1 ACTC-GTTTCTTTTCA
26911791 ACTCGATTTCTTTTCA
1 ACTCG-TTTCTTTTCA
26911807 A
1 A
26911808 GCTCTCTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 19 0.70
17 8 0.30
ACGTcount: A:0.14, C:0.27, G:0.06, T:0.53
Consensus pattern (15 bp):
ACTCGTTTCTTTTCA
Found at i:26911829 original size:12 final size:12
Alignment explanation
Indices: 26911796--26911861 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 12
26911786 TTTCCACTCG
26911796 ATTTC-TTTTCA
1 ATTTCTTTTTCA
** *
26911807 AGCTCTCTTTCA
1 ATTTCTTTTTCA
*
26911819 ATTTCTTTTTCC
1 ATTTCTTTTTCA
*
26911831 A---CTCTTTCA
1 ATTTCTTTTTCA
26911840 ATTTCTTTTTCA
1 ATTTCTTTTTCA
*
26911852 ATCTCTTTTT
1 ATTTCTTTTT
26911862 GCTTTTCACT
Statistics
Matches: 40, Mismatches: 11, Indels: 7
0.69 0.19 0.12
Matches are distributed among these distances:
9 7 0.17
11 3 0.08
12 30 0.75
ACGTcount: A:0.15, C:0.24, G:0.02, T:0.59
Consensus pattern (12 bp):
ATTTCTTTTTCA
Found at i:26911837 original size:21 final size:22
Alignment explanation
Indices: 26911796--26911859 Score: 87
Period size: 21 Copynumber: 2.9 Consensus size: 22
26911786 TTTCCACTCG
26911796 ATTTC-TTTTCAAGCTCTCTTTCA
1 ATTTCTTTTTCAA--TCTCTTTCA
*
26911819 ATTTCTTTTTCCA-CTCTTTCA
1 ATTTCTTTTTCAATCTCTTTCA
26911840 ATTTCTTTTTCAATCTCTTT
1 ATTTCTTTTTCAATCTCTTT
26911860 TTGCTTTTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
21 20 0.54
22 6 0.16
23 5 0.14
24 6 0.16
ACGTcount: A:0.16, C:0.25, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTTCTTTTTCAATCTCTTTCA
Found at i:26911914 original size:15 final size:15
Alignment explanation
Indices: 26911891--26911937 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
26911881 TTTTGAAATC
26911891 TCATTTTCATATT-TT
1 TCATTTTCAT-TTCTT
*
26911906 TCTTTTTCATTTCTT
1 TCATTTTCATTTCTT
26911921 TCATTTTCATTTTCTT
1 TCATTTTCA-TTTCTT
26911937 T
1 T
26911938 ATTCTTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 2 0.07
15 19 0.68
16 7 0.25
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (15 bp):
TCATTTTCATTTCTT
Found at i:26914599 original size:20 final size:20
Alignment explanation
Indices: 26914576--26914614 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
26914566 AGGTTAAGAT
26914576 TAAGCTGAATTGAGCTCAAA
1 TAAGCTGAATTGAGCTCAAA
*
26914596 TAAGCTGACTTGAGCTCAA
1 TAAGCTGAATTGAGCTCAA
26914615 GTGAGATGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (20 bp):
TAAGCTGAATTGAGCTCAAA
Found at i:26915250 original size:22 final size:22
Alignment explanation
Indices: 26915215--26915258 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
26915205 CTCAATCTTG
* *
26915215 GTCTGCGCATAACCCCCTATCA
1 GTCTGCACACAACCCCCTATCA
*
26915237 GTCTGCACACAACCCTCTATCA
1 GTCTGCACACAACCCCCTATCA
26915259 TTTGGTATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.25, C:0.41, G:0.11, T:0.23
Consensus pattern (22 bp):
GTCTGCACACAACCCCCTATCA
Found at i:26918821 original size:27 final size:27
Alignment explanation
Indices: 26918788--26918846 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
26918778 AATTTTAATT
* *
26918788 CTTTAAATACTTATTTTCAATTTTAGA
1 CTTTAAAAACTTAGTTTCAATTTTAGA
26918815 CTTTAAAAACTTAGTTTCAATTTTAGA
1 CTTTAAAAACTTAGTTTCAATTTTAGA
26918842 CTTTA
1 CTTTA
26918847 TAAATTAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.05, T:0.49
Consensus pattern (27 bp):
CTTTAAAAACTTAGTTTCAATTTTAGA
Found at i:26921823 original size:23 final size:22
Alignment explanation
Indices: 26921772--26921823 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
26921762 CCTCGTCTTT
*
26921772 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
26921794 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
26921817 TTCTTTT
1 TTCTTTT
26921824 TCAATTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:26921832 original size:12 final size:12
Alignment explanation
Indices: 26921781--26921835 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
26921771 TTTCTTTTGT
26921781 TTCTTTTTCTAAC
1 TTCTTTTTC-AAC
* *
26921794 -TCATTTTC-TC
1 TTCTTTTTCAAC
26921804 TTCTTTCTTCAAC
1 TTCTTT-TTCAAC
*
26921817 TTCTTTTTCAAT
1 TTCTTTTTCAAC
26921829 TTCTTTT
1 TTCTTTT
26921836 CTGTTTCACA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 1 0.03
11 4 0.12
12 22 0.65
13 7 0.21
ACGTcount: A:0.13, C:0.24, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCTTTTTCAAC
Found at i:26921842 original size:17 final size:18
Alignment explanation
Indices: 26921817--26921854 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
26921807 TTTCTTCAAC
* *
26921817 TTCTTTTTCA-ATTTCTT
1 TTCTGTTTCACATTCCTT
26921834 TTCTGTTTCACATTCCTT
1 TTCTGTTTCACATTCCTT
26921852 TTC
1 TTC
26921855 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.11, C:0.24, G:0.03, T:0.63
Consensus pattern (18 bp):
TTCTGTTTCACATTCCTT
Found at i:26926958 original size:20 final size:20
Alignment explanation
Indices: 26926933--26926977 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
26926923 GTCCAAATCG
26926933 AATTAATTAG-GTCTTAG-TTT
1 AATTAATT-GTGTCTT-GTTTT
26926953 AATTAATTGTGTCTTGTTTT
1 AATTAATTGTGTCTTGTTTT
26926973 AATTA
1 AATTA
26926978 TGTGAACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.29, C:0.04, G:0.13, T:0.53
Consensus pattern (20 bp):
AATTAATTGTGTCTTGTTTT
Found at i:26928904 original size:34 final size:35
Alignment explanation
Indices: 26928849--26928915 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
26928839 CAAACACCAG
*
26928849 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
26928884 AAAACATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
26928916 TATTGTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:26938106 original size:11 final size:10
Alignment explanation
Indices: 26938084--26938144 Score: 63
Period size: 10 Copynumber: 6.1 Consensus size: 10
26938074 ACCAATAAAA
26938084 TAAA-TGAGC
1 TAAATTGAGC
26938093 TAAATTGTAGC
1 TAAATTG-AGC
26938104 TAAATTGAGC
1 TAAATTGAGC
**
26938114 TCGATTGAGC
1 TAAATTGAGC
26938124 TGAAA-TGAGC
1 T-AAATTGAGC
*
26938134 TCAATTGAGC
1 TAAATTGAGC
26938144 T
1 T
26938145 GGTCGGAGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
9 6 0.14
10 26 0.60
11 11 0.26
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:26938124 original size:20 final size:20
Alignment explanation
Indices: 26938085--26938145 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
26938075 CCAATAAAAT
*
26938085 AAATGAGCTAAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
26938105 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
26938126 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
26938146 GTCGGAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:26941480 original size:16 final size:16
Alignment explanation
Indices: 26941461--26941503 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
26941451 TTAACTTGAT
26941461 TTTTTTTGCTCTCCTC
1 TTTTTTTGCTCTCCTC
* * * *
26941477 TTTTTTTTCTTTTCTT
1 TTTTTTTGCTCTCCTC
26941493 TTTTTTTGCTC
1 TTTTTTTGCTC
26941504 GATTTTTTTT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.00, C:0.21, G:0.05, T:0.74
Consensus pattern (16 bp):
TTTTTTTGCTCTCCTC
Found at i:26941521 original size:12 final size:12
Alignment explanation
Indices: 26941506--26941574 Score: 61
Period size: 11 Copynumber: 5.6 Consensus size: 12
26941496 TTTTGCTCGA
*
26941506 TTTTTTTTC-AC
1 TTTTTTTTCAAT
*
26941517 TTTTTTTTGAAT
1 TTTTTTTTCAAT
26941529 TTTTTTTTCAAT
1 TTTTTTTTCAAT
26941541 CAATTTTTTTTCGAAT
1 ---TTTTTTTTC-AAT
*
26941557 TTTTTTTT-TAT
1 TTTTTTTTCAAT
26941568 TTTTTTT
1 TTTTTTT
26941575 GTTACTCCAA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
11 17 0.35
12 12 0.24
13 8 0.16
15 9 0.18
16 3 0.06
ACGTcount: A:0.14, C:0.07, G:0.03, T:0.75
Consensus pattern (12 bp):
TTTTTTTTCAAT
Found at i:26941522 original size:38 final size:38
Alignment explanation
Indices: 26941479--26941574 Score: 106
Period size: 38 Copynumber: 2.5 Consensus size: 38
26941469 CTCTCCTCTT
* * *
26941479 TTTTTTCTTTTCTTTTTTTTTGC-TCGATTTTTTTTC-AC
1 TTTTTT-TTTTATTTTTTTTT-CATCAATTTTTTTTCGAA
**
26941517 TTTTTTTTGAATTTTTTTTTCAATCAATTTTTTTTCGAA
1 TTTTTTTTTTATTTTTTTTTC-ATCAATTTTTTTTCGAA
26941556 TTTTTTTTTTATTTTTTTT
1 TTTTTTTTTTATTTTTTTT
26941575 GTTACTCCAA
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
36 1 0.02
37 11 0.23
38 18 0.38
39 18 0.38
ACGTcount: A:0.11, C:0.09, G:0.04, T:0.75
Consensus pattern (38 bp):
TTTTTTTTTTATTTTTTTTTCATCAATTTTTTTTCGAA
Found at i:26942935 original size:11 final size:10
Alignment explanation
Indices: 26942910--26942970 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
26942900 ACCAATAAAA
26942910 TAAA-TGAGC
1 TAAATTGAGC
*
26942919 TGAATTGTAGC
1 TAAATTG-AGC
26942930 TAAATTGAGC
1 TAAATTGAGC
**
26942940 TCGATTGAGC
1 TAAATTGAGC
26942950 TGAAA-TGAGC
1 T-AAATTGAGC
*
26942960 TCAATTGAGC
1 TAAATTGAGC
26942970 T
1 T
26942971 GGTCGGAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:26942971 original size:20 final size:20
Alignment explanation
Indices: 26942911--26942971 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
26942901 CCAATAAAAT
*
26942911 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
26942931 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
26942952 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
26942972 GTCGGAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:26949005 original size:11 final size:11
Alignment explanation
Indices: 26948988--26949016 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
26948978 ACGAAATTCA
26948988 ATTTTTTTT-G
1 ATTTTTTTTCG
26948998 ATTTTTTTTCG
1 ATTTTTTTTCG
26949009 ATTTTTTT
1 ATTTTTTT
26949017 ACAATACTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.10, C:0.03, G:0.07, T:0.79
Consensus pattern (11 bp):
ATTTTTTTTCG
Found at i:26959833 original size:21 final size:22
Alignment explanation
Indices: 26959804--26959854 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
26959794 TCTCTCTCGC
*
26959804 TTTCCTTTTCGCCTTTTTCA-T
1 TTTCATTTTCGCCTTTTTCACT
**
26959825 TTTCATTTTCTTCTTTTTCACT
1 TTTCATTTTCGCCTTTTTCACT
26959847 TTT-ATTTT
1 TTTCATTTT
26959855 TCTCTTCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.08, C:0.22, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTCATTTTCGCCTTTTTCACT
Found at i:26969655 original size:40 final size:40
Alignment explanation
Indices: 26969598--26969827 Score: 336
Period size: 40 Copynumber: 5.8 Consensus size: 40
26969588 ATTTGAATAC
* * * *
26969598 ATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTTT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGA-TAT
26969638 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
26969678 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* *
26969718 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
26969758 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
26969798 ACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
26969828 TTGTGGTTAT
Statistics
Matches: 176, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 173 0.98
41 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
Found at i:26978204 original size:40 final size:40
Alignment explanation
Indices: 26978147--26978336 Score: 247
Period size: 40 Copynumber: 4.8 Consensus size: 40
26978137 ATTTGAATAC
* * * *
26978147 ATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTTT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGATGA-TAT
*
26978187 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGATGATAT
*
26978227 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGATGATAT
* * * *
26978267 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGATGATAT
* * *
26978307 ACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
26978337 TTGTGGTTAT
Statistics
Matches: 136, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 133 0.98
41 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGATGATAT
Found at i:26978280 original size:80 final size:80
Alignment explanation
Indices: 26978147--26978356 Score: 280
Period size: 80 Copynumber: 2.6 Consensus size: 80
26978137 ATTTGAATAC
* * * *
26978147 ATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATT
*
26978212 TGTGCAAGTTGATAT
66 CGTGCAAGTTGATAT
26978227 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATGA-TATATCCGGGCTAAGACCCGAAGGCAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGCAT
* *
26978291 TCGTGCGAGTTGCTAT
65 TCGTGCAAGTTGATAT
* * * ** *
26978307 ACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAA
26978357 ATTCCGAAGA
Statistics
Matches: 115, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
79 8 0.07
80 104 0.90
81 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATT
CGTGCAAGTTGATAT
Found at i:26981409 original size:18 final size:19
Alignment explanation
Indices: 26981386--26981430 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
26981376 TGAAAAAGAA
* *
26981386 GAAAAAGAGAA-AGAAATT
1 GAAAAAGAAAATAGAAATC
26981404 GAAAAA-AAAATAGAAATC
1 GAAAAAGAAAATAGAAATC
26981422 GAAAAAGAA
1 GAAAAAGAA
26981431 TTTGAGAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 3 0.13
18 18 0.78
19 2 0.09
ACGTcount: A:0.71, C:0.02, G:0.18, T:0.09
Consensus pattern (19 bp):
GAAAAAGAAAATAGAAATC
Found at i:26981429 original size:30 final size:30
Alignment explanation
Indices: 26981346--26981442 Score: 94
Period size: 30 Copynumber: 3.3 Consensus size: 30
26981336 AAAAAACAAG
* * *
26981346 TGAAAAAGAAAAAGAACTCAAAAAAGAGAT
1 TGAAAAAGAAAAAGAAATCGAAAAAGAAAT
* *
26981376 TGAAAAAGAAGAA-AAA--GAGAAAGAAAT
1 TGAAAAAGAAAAAGAAATCGAAAAAGAAAT
*
26981403 TGAAAAA-AAAATAGAAATCGAAAAAGAATT
1 TGAAAAAGAAAA-AGAAATCGAAAAAGAAAT
*
26981433 TGAGAAAGAA
1 TGAAAAAGAA
26981443 GATAGTGAGC
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
26 3 0.06
27 16 0.30
28 3 0.06
29 2 0.04
30 27 0.51
31 2 0.04
ACGTcount: A:0.67, C:0.03, G:0.19, T:0.11
Consensus pattern (30 bp):
TGAAAAAGAAAAAGAAATCGAAAAAGAAAT
Found at i:26985587 original size:4 final size:4
Alignment explanation
Indices: 26985578--26985604 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
26985568 AAACTAAGTA
26985578 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
26985605 AATAAAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:26992064 original size:4 final size:4
Alignment explanation
Indices: 26992055--26992081 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
26992045 AAACTAAGTA
26992055 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
26992082 AATAAAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:26995862 original size:19 final size:19
Alignment explanation
Indices: 26995835--26995947 Score: 108
Period size: 19 Copynumber: 6.1 Consensus size: 19
26995825 TGATTTAAGC
*
26995835 AACTAAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
26995854 AACTTAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
* * * * *
26995873 -A-GTAATTTATTCCAG--C
1 AACTTAATTAACT-AAGATG
*
26995889 AACTTATTTAACTAAGATG
1 AACTTAATTAACTAAGATG
26995908 CAACTTAATTAACTAAGATG
1 -AACTTAATTAACTAAGATG
*
26995928 AACTCAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
26995947 A
1 A
26995948 GTAATTTATT
Statistics
Matches: 74, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
17 10 0.14
18 9 0.12
19 37 0.50
20 18 0.24
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.31
Consensus pattern (19 bp):
AACTTAATTAACTAAGATG
Found at i:26995912 original size:20 final size:20
Alignment explanation
Indices: 26995887--26995946 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
26995877 ATTTATTCCA
*
26995887 GCAACTTATTTAACTAAGAT
1 GCAACTTAATTAACTAAGAT
26995907 GCAACTTAATTAACTAAGAT
1 GCAACTTAATTAACTAAGAT
*
26995927 G-AACTCAATTAACTAAGAT
1 GCAACTTAATTAACTAAGAT
26995946 G
1 G
26995947 AGTAATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
19 18 0.47
20 20 0.53
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.30
Consensus pattern (20 bp):
GCAACTTAATTAACTAAGAT
Found at i:26996245 original size:170 final size:170
Alignment explanation
Indices: 26995963--26996295 Score: 612
Period size: 170 Copynumber: 2.0 Consensus size: 170
26995953 TTATTCCAGT
26995963 AACTAAATACTTATTCCAGCAAATTAAAAATGGGTTGAAGTTAAGCTAAATGAGCTTGGGTTGAA
1 AACTAAATACTTATTCCAGCAAATTAAAAATGGGTTGAAGTTAAGCTAAATGAGCTTGGGTTGAA
*
26996028 CTAGACGAGCTTGAAGAAGCTAGAATTGAGCTCATTGAGCTGAAATTAAGCTTCATTTTACACAT
66 CTAGACGAGCTTGAAGAAGCTAGAATTGAGCTCATTGAGATGAAATTAAGCTTCATTTTACACAT
26996093 GGGGCCCTCGAGCTTAGGCCAATTTTGAGGTCATTCCAAC
131 GGGGCCCTCGAGCTTAGGCCAATTTTGAGGTCATTCCAAC
*
26996133 AACTAAATATTTATTCCAGCAAATTAAAAATGGGTTGAAGTTAAGCTAAATGAGCTTGGGTTGAA
1 AACTAAATACTTATTCCAGCAAATTAAAAATGGGTTGAAGTTAAGCTAAATGAGCTTGGGTTGAA
* * * *
26996198 CTAGACGAGCTTTAAGGAGCTAGAATTGAGCTCATTGAGATGAAATTAAGCTTCATTTTGCACTT
66 CTAGACGAGCTTGAAGAAGCTAGAATTGAGCTCATTGAGATGAAATTAAGCTTCATTTTACACAT
26996263 GGGGCCCTCGAGCTTAGGCCAATTTTGAGGTCA
131 GGGGCCCTCGAGCTTAGGCCAATTTTGAGGTCA
26996296 CTGAGTTGTA
Statistics
Matches: 157, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
170 157 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (170 bp):
AACTAAATACTTATTCCAGCAAATTAAAAATGGGTTGAAGTTAAGCTAAATGAGCTTGGGTTGAA
CTAGACGAGCTTGAAGAAGCTAGAATTGAGCTCATTGAGATGAAATTAAGCTTCATTTTACACAT
GGGGCCCTCGAGCTTAGGCCAATTTTGAGGTCATTCCAAC
Found at i:26998505 original size:10 final size:10
Alignment explanation
Indices: 26998488--26998530 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
26998478 TTCAAGCTTG
26998488 ATCTAGCTCA
1 ATCTAGCTCA
*
26998498 ATCAAGCTCA
1 ATCTAGCTCA
*
26998508 ATTTAGCTCA
1 ATCTAGCTCA
26998518 ATTCTAGCTCA
1 A-TCTAGCTCA
26998529 AT
1 AT
26998531 GAGCTCGTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
10 19 0.68
11 9 0.32
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.33
Consensus pattern (10 bp):
ATCTAGCTCA
Found at i:26998528 original size:21 final size:20
Alignment explanation
Indices: 26998491--26998530 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
26998481 AAGCTTGATC
26998491 TAGCTCAATCAAGCTCAATT
1 TAGCTCAATCAAGCTCAATT
*
26998511 TAGCTCAATTCTAGCTCAAT
1 TAGCTCAA-TCAAGCTCAAT
26998531 GAGCTCGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.33
Consensus pattern (20 bp):
TAGCTCAATCAAGCTCAATT
Found at i:26998535 original size:20 final size:20
Alignment explanation
Indices: 26998492--26998536 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
26998482 AGCTTGATCT
*
26998492 AGCTCAATCAAGCTCAATTT
1 AGCTCAATCAAGCTCAATTG
*
26998512 AGCTCAATTCTAGCTCAA-TG
1 AGCTCAA-TCAAGCTCAATTG
26998532 AGCTC
1 AGCTC
26998537 GTTCCTAGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (20 bp):
AGCTCAATCAAGCTCAATTG
Found at i:27004272 original size:10 final size:10
Alignment explanation
Indices: 27004257--27004312 Score: 55
Period size: 10 Copynumber: 5.6 Consensus size: 10
27004247 ACGAGCTCAA
27004257 TGAGCTGAAT
1 TGAGCTGAAT
27004267 TGAGCTCGAA-
1 TGAGCT-GAAT
*
27004277 TGAGCTGACT
1 TGAGCTGAAT
27004287 TGAGCTCGAA-
1 TGAGCT-GAAT
27004297 TGAGCT-AATT
1 TGAGCTGAA-T
27004307 TGAGCT
1 TGAGCT
27004313 CAAATGAACT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
8 2 0.05
9 2 0.05
10 30 0.77
11 5 0.13
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (10 bp):
TGAGCTGAAT
Found at i:27004278 original size:20 final size:20
Alignment explanation
Indices: 27004249--27004319 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
27004239 AGCTAATAAC
27004249 GAGCTC-AATGAGCTGAATT
1 GAGCTCGAATGAGCTGAATT
*
27004268 GAGCTCGAATGAGCTGACTT
1 GAGCTCGAATGAGCTGAATT
27004288 GAGCTCGAATGAGCT-AATTT
1 GAGCTCGAATGAGCTGAA-TT
*
27004308 GAGCTCAAATGA
1 GAGCTCGAATGA
27004320 ACTAACAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.15
20 40 0.85
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (20 bp):
GAGCTCGAATGAGCTGAATT
Found at i:27008811 original size:13 final size:13
Alignment explanation
Indices: 27008793--27008817 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27008783 CCTTCTATCA
27008793 TTTGGTATCAAAT
1 TTTGGTATCAAAT
27008806 TTTGGTATCAAA
1 TTTGGTATCAAA
27008818 ATGCCACACA
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:0.08, G:0.16, T:0.44
Consensus pattern (13 bp):
TTTGGTATCAAAT
Found at i:27011073 original size:19 final size:20
Alignment explanation
Indices: 27011041--27011078 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
27011031 CAAGCTGACT
27011041 TTAGCTCAATTTCAGCTCCC
1 TTAGCTCAATTTCAGCTCCC
27011061 TTAGCTC-ATTTCAGCTCC
1 TTAGCTCAATTTCAGCTCC
27011079 AATCAGCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.18, C:0.34, G:0.11, T:0.37
Consensus pattern (20 bp):
TTAGCTCAATTTCAGCTCCC
Found at i:27011086 original size:20 final size:19
Alignment explanation
Indices: 27011043--27011088 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
27011033 AGCTGACTTT
* *
27011043 AGCTCAATTTCAGCTCCCTT
1 AGCTC-ATTTCAGCTCCATC
27011063 AGCTCATTTCAGCTCCAATC
1 AGCTCATTTCAGCTCC-ATC
27011083 AGCTCA
1 AGCTCA
27011089 CTTGAGCTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.24, C:0.35, G:0.11, T:0.30
Consensus pattern (19 bp):
AGCTCATTTCAGCTCCATC
Found at i:27013325 original size:24 final size:24
Alignment explanation
Indices: 27013301--27013347 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
27013291 AAACTACTTC
27013301 TAAAGAAAACTCAAGAGAGAATTCT
1 TAAAGAAAACTCAA-AGAGAATTCT
**
27013326 TGGAGAAAACTCAAAGAGAATT
1 TAAAGAAAACTCAAAGAGAATT
27013348 TCTACTCAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.51, C:0.11, G:0.19, T:0.19
Consensus pattern (24 bp):
TAAAGAAAACTCAAAGAGAATTCT
Found at i:27016104 original size:28 final size:30
Alignment explanation
Indices: 27016053--27016108 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
27016043 GTGATTAAAT
27016053 AAAATTGACACAAGCAGAATTTAAAAGAAA
1 AAAATTGACACAAGCAGAATTTAAAAGAAA
27016083 AAAATTGACAGCAAG-A-AA-TTAAAAGA
1 AAAATTGACA-CAAGCAGAATTTAAAAGA
27016109 TAAGTCCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 8 0.32
29 2 0.08
30 11 0.44
31 4 0.16
ACGTcount: A:0.61, C:0.09, G:0.14, T:0.16
Consensus pattern (30 bp):
AAAATTGACACAAGCAGAATTTAAAAGAAA
Found at i:27020418 original size:30 final size:28
Alignment explanation
Indices: 27020384--27020439 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 28
27020374 GTGATTAAAT
27020384 AAAATCGACA-CAAGCAGAATTTAAAAGAAA
1 AAAATCGACAGCAAG-A-AA-TTAAAAGAAA
*
27020414 AAAATTGACAGCAAGAAATTAAAAGA
1 AAAATCGACAGCAAGAAATTAAAAGA
27020440 TAAGTCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 8 0.33
29 2 0.08
30 10 0.42
31 4 0.17
ACGTcount: A:0.61, C:0.11, G:0.14, T:0.14
Consensus pattern (28 bp):
AAAATCGACAGCAAGAAATTAAAAGAAA
Found at i:27023249 original size:20 final size:20
Alignment explanation
Indices: 27023226--27023293 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
27023216 AAAGCTCAAT
27023226 GAGCTGAATTGAGCTC-ATGG
1 GAGCTGAATTGAGCTCGA-GG
* * *
27023246 GAGCTGACTTGAGGTCGAGT
1 GAGCTGAATTGAGCTCGAGG
* *
27023266 GAACTGAATTGAGCTCGAGT
1 GAGCTGAATTGAGCTCGAGG
27023286 GAGCTGAA
1 GAGCTGAA
27023294 CCGCATGGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 39 0.98
21 1 0.03
ACGTcount: A:0.26, C:0.15, G:0.35, T:0.24
Consensus pattern (20 bp):
GAGCTGAATTGAGCTCGAGG
Found at i:27025042 original size:18 final size:18
Alignment explanation
Indices: 27025016--27025055 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
27025006 TCTCTTTCAA
* *
27025016 TTTCTTTTTCAATCTCTT
1 TTTCCTTTTCAATCACTT
*
27025034 TTTCCTTTTCACTCACTT
1 TTTCCTTTTCAATCACTT
27025052 TTTC
1 TTTC
27025056 AATTTCCTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.10, C:0.28, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTCCTTTTCAATCACTT
Found at i:27025043 original size:24 final size:24
Alignment explanation
Indices: 27025016--27025109 Score: 80
Period size: 24 Copynumber: 3.9 Consensus size: 24
27025006 TCTCTTTCAA
*
27025016 TTTCTTTTTCAATCTCTTTTTCCT
1 TTTCTTTTTCAATTTCTTTTTCCT
** ** ** **
27025040 TTTCACTCACTTTTTCAATTTCCT
1 TTTCTTTTTCAATTTCTTTTTCCT
* *
27025064 TTTCTTTTGCAATTTCTTTTTCTT
1 TTTCTTTTTCAATTTCTTTTTCCT
*
27025088 TTTCTTTTTCAATGTCTTTTTC
1 TTTCTTTTTCAATTTCTTTTTC
27025110 TTTCATTTCT
Statistics
Matches: 50, Mismatches: 20, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.11, C:0.22, G:0.02, T:0.65
Consensus pattern (24 bp):
TTTCTTTTTCAATTTCTTTTTCCT
Found at i:27025070 original size:18 final size:18
Alignment explanation
Indices: 27025049--27025091 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
27025039 TTTTCACTCA
27025049 CTTTTTCAATTTCCTTTT
1 CTTTTTCAATTTCCTTTT
* *
27025067 CTTTTGCAATTTCTTTTT
1 CTTTTTCAATTTCCTTTT
27025085 CTTTTTC
1 CTTTTTC
27025092 TTTTTCAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.09, C:0.21, G:0.02, T:0.67
Consensus pattern (18 bp):
CTTTTTCAATTTCCTTTT
Found at i:27025079 original size:12 final size:12
Alignment explanation
Indices: 27025064--27025109 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
27025054 TCAATTTCCT
*
27025064 TTTCTTTTGCAA
1 TTTCTTTTTCAA
**
27025076 TTTCTTTTTCTT
1 TTTCTTTTTCAA
27025088 TTTCTTTTTCAA
1 TTTCTTTTTCAA
*
27025100 TGTCTTTTTC
1 TTTCTTTTTC
27025110 TTTCATTTCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.09, C:0.17, G:0.04, T:0.70
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:27025083 original size:30 final size:29
Alignment explanation
Indices: 27025005--27025085 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 29
27024995 TTTCTTTTTC
*
27025005 TTCTCTTTCAATTTCTTTTTCAATCTCTTT
1 TTCT-TTTCAATTTCTTTTTCAATCTCCTT
* ** *
27025035 TTCCTTTTCACTCACTTTTTCAATTTCCTT
1 TT-CTTTTCAATTTCTTTTTCAATCTCCTT
27025065 TTCTTTTGCAATTTCTTTTTC
1 TTCTTTT-CAATTTCTTTTTC
27025086 TTTTTCTTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
29 5 0.12
30 34 0.83
31 2 0.05
ACGTcount: A:0.12, C:0.25, G:0.01, T:0.62
Consensus pattern (29 bp):
TTCTTTTCAATTTCTTTTTCAATCTCCTT
Found at i:27025110 original size:24 final size:24
Alignment explanation
Indices: 27025058--27025112 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
27025048 ACTTTTTCAA
* *
27025058 TTTCCTTTTCTTTTGCAATTTCTT
1 TTTCTTTTTCTTTTGCAATGTCTT
*
27025082 TTTCTTTTTCTTTTTCAATGTCTT
1 TTTCTTTTTCTTTTGCAATGTCTT
27025106 TTTCTTT
1 TTTCTTT
27025113 CATTTCTCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.07, C:0.18, G:0.04, T:0.71
Consensus pattern (24 bp):
TTTCTTTTTCTTTTGCAATGTCTT
Found at i:27025147 original size:37 final size:36
Alignment explanation
Indices: 27025105--27025175 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 36
27025095 TTCAATGTCT
*
27025105 TTTTC-TTTCATTTCTCCAAAGTCACCTTATTTTTCAA
1 TTTTCTTTTCA-TTCT-CAAACTCACCTTATTTTTCAA
* *
27025142 TTTTCTTTTCATTCTCACACTCATCTTATTTTTC
1 TTTTCTTTTCATTCTCAAACTCACCTTATTTTTC
27025176 TTTCATTTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
36 16 0.53
37 9 0.30
38 5 0.17
ACGTcount: A:0.18, C:0.25, G:0.01, T:0.55
Consensus pattern (36 bp):
TTTTCTTTTCATTCTCAAACTCACCTTATTTTTCAA
Found at i:27027344 original size:10 final size:10
Alignment explanation
Indices: 27027331--27027440 Score: 91
Period size: 10 Copynumber: 10.9 Consensus size: 10
27027321 TTATTGTGCA
27027331 AGCTCATTTC
1 AGCTCATTTC
27027341 AGCTCCATTTC
1 AGCT-CATTTC
*
27027352 AGCTCCTTT-
1 AGCTCATTTC
*
27027361 AGCTCGTTTC
1 AGCTCATTTC
***
27027371 AGCTC-CGAC
1 AGCTCATTTC
* *
27027380 GAGCTCAATTG
1 -AGCTCATTTC
27027391 AGCTCATTTC
1 AGCTCATTTC
*
27027401 AGCTCATTTG
1 AGCTCATTTC
27027411 AGCTCAATTT-
1 AGCTC-ATTTC
27027421 AGCTACATTTC
1 AGCT-CATTTC
27027432 AGCTCATTT
1 AGCTCATTT
27027441 ATTTTATTGG
Statistics
Matches: 81, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
9 9 0.11
10 53 0.65
11 19 0.23
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (10 bp):
AGCTCATTTC
Found at i:27027365 original size:30 final size:30
Alignment explanation
Indices: 27027331--27027440 Score: 116
Period size: 30 Copynumber: 3.6 Consensus size: 30
27027321 TTATTGTGCA
*
27027331 AGCTCATTTCAGCTCCATTTCAGCTC-CTTT
1 AGCTCATTTCAGCT-CATTTCAGCTCAATTT
* *** *
27027361 AGCTCGTTTCAGCTC-CGACGAGCTCAATTG
1 AGCTCATTTCAGCTCATTTC-AGCTCAATTT
*
27027391 AGCTCATTTCAGCTCATTTGAGCTCAATTT
1 AGCTCATTTCAGCTCATTTCAGCTCAATTT
27027421 AGCTACATTTCAGCTCATTT
1 AGCT-CATTTCAGCTCATTT
27027441 ATTTTATTGG
Statistics
Matches: 64, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
28 1 0.02
29 6 0.09
30 42 0.66
31 15 0.23
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (30 bp):
AGCTCATTTCAGCTCATTTCAGCTCAATTT
Found at i:27030731 original size:40 final size:40
Alignment explanation
Indices: 27030687--27030777 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 40
27030677 TAACAAGCAC
*
27030687 AATGAGTTGAATTGAGCTCGTGGGAGCT-AACTTGAGCTCG
1 AATGAGTTGAATTGAGCTCGAGGGAGCTGAA-TTGAGCTCG
* * *
27030727 AATGAGTTGACTTGAGGTCGAGTGAGCTGAATTGAGCTCG
1 AATGAGTTGAATTGAGCTCGAGGGAGCTGAATTGAGCTCG
* *
27030767 AGTGACTTGAA
1 AATGAGTTGAA
27030778 CCTCATGGAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 41 0.95
41 2 0.05
ACGTcount: A:0.26, C:0.13, G:0.33, T:0.27
Consensus pattern (40 bp):
AATGAGTTGAATTGAGCTCGAGGGAGCTGAATTGAGCTCG
Found at i:27030768 original size:20 final size:20
Alignment explanation
Indices: 27030689--27030771 Score: 87
Period size: 20 Copynumber: 4.2 Consensus size: 20
27030679 ACAAGCACAA
* *
27030689 TGAGTTGAATTGAGCTCGTG
1 TGAGCTGAATTGAGCTCGAG
* *
27030709 GGAGCT-AACTTGAGCTCGAA
1 TGAGCTGAA-TTGAGCTCGAG
* * *
27030729 TGAGTTGACTTGAGGTCGAG
1 TGAGCTGAATTGAGCTCGAG
27030749 TGAGCTGAATTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
27030769 TGA
1 TGA
27030772 CTTGAACCTC
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
19 2 0.04
20 46 0.94
21 1 0.02
ACGTcount: A:0.24, C:0.13, G:0.35, T:0.28
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:27032237 original size:12 final size:12
Alignment explanation
Indices: 27032220--27032250 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
27032210 CAAAATAAAC
*
27032220 TTTTTTTTTGAA
1 TTTTTTTTTCAA
27032232 TTTTTTTTTCAA
1 TTTTTTTTTCAA
27032244 TTTTTTT
1 TTTTTTT
27032251 CACAATGACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.81
Consensus pattern (12 bp):
TTTTTTTTTCAA
Done.