Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008793.1 Hibiscus syriacus cultivar Beakdansim tig00111937_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 720278
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:2793 original size:17 final size:19
Alignment explanation
Indices: 2773--2807 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2763 CCTGAAAAAG
2773 AAGT-AAAC-AAAAACAAT
1 AAGTAAAACTAAAAACAAT
2790 AAGTAAAACTAAAAACAA
1 AAGTAAAACTAAAAACAA
2808 AAACTAACTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 4 0.25
19 8 0.50
ACGTcount: A:0.71, C:0.11, G:0.06, T:0.11
Consensus pattern (19 bp):
AAGTAAAACTAAAAACAAT
Found at i:6574 original size:10 final size:10
Alignment explanation
Indices: 6559--6616 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
6549 ATTTTTTTCT
6559 CAAAAAAAAA
1 CAAAAAAAAA
**
6569 CAAAAAAAGG
1 CAAAAAAAAA
*
6579 CAAAAAAAAG
1 CAAAAAAAAA
6589 CAAAAAAACAA
1 CAAAAAAA-AA
6600 -AAAAAAAAA
1 CAAAAAAAAA
6609 CCAAAAAA
1 -CAAAAAA
6617 GCCAAAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
9 2 0.05
10 32 0.78
11 7 0.17
ACGTcount: A:0.83, C:0.12, G:0.05, T:0.00
Consensus pattern (10 bp):
CAAAAAAAAA
Found at i:6584 original size:20 final size:20
Alignment explanation
Indices: 6559--6624 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 20
6549 ATTTTTTTCT
*
6559 CAAAAAAAAACAAAAAAAGG
1 CAAAAAAAAACAAAAAAAGA
* *
6579 CAAAAAAAAGCAAAAAAACA
1 CAAAAAAAAACAAAAAAAGA
* * *
6599 AAAAAAAAAACCAAAAAAGC
1 CAAAAAAAAACAAAAAAAGA
6619 CAAAAA
1 CAAAAA
6625 TTCAAAAAAT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.80, C:0.14, G:0.06, T:0.00
Consensus pattern (20 bp):
CAAAAAAAAACAAAAAAAGA
Found at i:6596 original size:13 final size:12
Alignment explanation
Indices: 6560--6616 Score: 53
Period size: 12 Copynumber: 4.3 Consensus size: 12
6550 TTTTTTTCTC
6560 AAAAAAAAACAA
1 AAAAAAAAACAA
6572 AAAAAGGCAAAA-AA
1 AAAAA---AAAACAA
6586 AAGCAAAAAAACAA
1 AA--AAAAAAACAA
6600 AAAAAAAAACCAA
1 AAAAAAAAA-CAA
6613 AAAA
1 AAAA
6617 GCCAAAAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
12 12 0.32
13 11 0.29
14 8 0.21
15 4 0.11
16 3 0.08
ACGTcount: A:0.84, C:0.11, G:0.05, T:0.00
Consensus pattern (12 bp):
AAAAAAAAACAA
Found at i:6843 original size:15 final size:15
Alignment explanation
Indices: 6823--6856 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6813 AATTTCATGG
*
6823 TGAAAATTTCCATAT
1 TGAAAATTTACATAT
*
6838 TGAAAATTTATATAT
1 TGAAAATTTACATAT
6853 TGAA
1 TGAA
6857 GATCATTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (15 bp):
TGAAAATTTACATAT
Found at i:21079 original size:13 final size:12
Alignment explanation
Indices: 21052--21086 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
21042 TCAAAGAAGA
21052 TTAAAAAGAAAT
1 TTAAAAAGAAAT
21064 TTAAAAAGAAAGT
1 TTAAAAAGAAA-T
21077 TT-AAAAGAAA
1 TTAAAAAGAAA
21087 AATCAATATG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 19 0.86
13 3 0.14
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (12 bp):
TTAAAAAGAAAT
Found at i:21628 original size:16 final size:16
Alignment explanation
Indices: 21607--21637 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21597 CGGCTTGAAA
*
21607 GAAAATTAAAGAAAAT
1 GAAAATAAAAGAAAAT
21623 GAAAATAAAAGAAAA
1 GAAAATAAAAGAAAA
21638 AGAATTTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (16 bp):
GAAAATAAAAGAAAAT
Found at i:21764 original size:20 final size:20
Alignment explanation
Indices: 21739--21776 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21729 CAAAGAAAAT
21739 ATAATTCCTAAAAATAATAG
1 ATAATTCCTAAAAATAATAG
* *
21759 ATAATTTCTAAAGATAAT
1 ATAATTCCTAAAAATAAT
21777 TCTTAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (20 bp):
ATAATTCCTAAAAATAATAG
Found at i:23793 original size:35 final size:34
Alignment explanation
Indices: 23703--23782 Score: 124
Period size: 34 Copynumber: 2.4 Consensus size: 34
23693 TTTTTTTCTC
* * *
23703 TTACTGTTCGAACCAAAATTGTACTACTATTTTT
1 TTACTGTTCGAAACAAAACTATACTACTATTTTT
*
23737 TTACTGTTCGAAACAAAACTATACTGCTATTTTT
1 TTACTGTTCGAAACAAAACTATACTACTATTTTT
23771 TTACTGTTCGAA
1 TTACTGTTCGAA
23783 TAGTGAACTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.42
Consensus pattern (34 bp):
TTACTGTTCGAAACAAAACTATACTACTATTTTT
Found at i:24217 original size:12 final size:12
Alignment explanation
Indices: 24202--24286 Score: 53
Period size: 12 Copynumber: 6.7 Consensus size: 12
24192 AAAATCAAAG
24202 AAAAATAAAAAC
1 AAAAATAAAAAC
* *
24214 AAAAATAAATCAG
1 AAAAATAAA-AAC
**
24227 AAAAATAAAATT
1 AAAAATAAAAAC
* *
24239 GAAAATAAAAAT
1 AAAAATAAAAAC
24251 AAAAATTGAACAAAC
1 AAAAA-T-AA-AAAC
* *
24266 AGAAAACAAAAAA
1 A-AAAATAAAAAC
24279 AAAAATAA
1 AAAAATAA
24287 TGAGTTGTCT
Statistics
Matches: 56, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
12 29 0.52
13 15 0.27
14 4 0.07
15 4 0.07
16 4 0.07
ACGTcount: A:0.76, C:0.06, G:0.05, T:0.13
Consensus pattern (12 bp):
AAAAATAAAAAC
Found at i:24236 original size:6 final size:6
Alignment explanation
Indices: 24202--24256 Score: 56
Period size: 6 Copynumber: 9.0 Consensus size: 6
24192 AAAATCAAAG
* * * * *
24202 AAAAAT AAAAAC AAAAAT AAATCAG AAAAAT AAAATT GAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAA-AAT AAAAAT AAAAAT AAAAAT AAAAAT
24251 AAAAAT
1 AAAAAT
24257 TGAACAAACA
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
6 34 0.89
7 4 0.11
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:24706 original size:12 final size:13
Alignment explanation
Indices: 24691--24721 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
24681 TCAAACAAGA
24691 TTAAAAAGAAA-T
1 TTAAAAAGAAAGT
24703 TTAAAAAGAAAGT
1 TTAAAAAGAAAGT
24716 TTAAAA
1 TTAAAA
24722 GAATATTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.26
Consensus pattern (13 bp):
TTAAAAAGAAAGT
Found at i:29116 original size:48 final size:48
Alignment explanation
Indices: 29045--29142 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
29035 ACATTACCCT
29045 AAAGGTTAAGACATAATCTCTATTTGTAGAGTCAAATACTTGGTCACC
1 AAAGGTTAAGACATAATCTCTATTTGTAGAGTCAAATACTTGGTCACC
29093 AAAGGTTAAGACATAATCTCTATTTGTAGAGTCAAATACTTGGTCACC
1 AAAGGTTAAGACATAATCTCTATTTGTAGAGTCAAATACTTGGTCACC
29141 AA
1 AA
29143 GAATTCTTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (48 bp):
AAAGGTTAAGACATAATCTCTATTTGTAGAGTCAAATACTTGGTCACC
Found at i:30002 original size:13 final size:14
Alignment explanation
Indices: 29981--30043 Score: 60
Period size: 13 Copynumber: 4.5 Consensus size: 14
29971 CAAATGTTAG
*
29981 ATAATAAATAAAT-
1 ATAAAAAATAAATA
*
29994 ATAAAAAATAATAGA
1 ATAAAAAATAA-ATA
30009 ATAATAAAAT-AATGA
1 ATAA-AAAATAAAT-A
30024 AT-AAAAATAAATA
1 ATAAAAAATAAATA
30037 ATAAAAA
1 ATAAAAA
30044 TGATAGTGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
13 18 0.44
14 10 0.24
15 8 0.20
16 5 0.12
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (14 bp):
ATAAAAAATAAATA
Found at i:30025 original size:15 final size:15
Alignment explanation
Indices: 29994--30043 Score: 61
Period size: 13 Copynumber: 3.5 Consensus size: 15
29984 ATAAATAAAT
29994 ATAAAAAATAATAGA
1 ATAAAAAATAATAGA
30009 ATAATAAAATAAT-GA
1 ATAA-AAAATAATAGA
*
30024 AT-AAAAATAA-ATA
1 ATAAAAAATAATAGA
30037 ATAAAAA
1 ATAAAAA
30044 TGATAGTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 10 0.32
14 5 0.16
15 8 0.26
16 8 0.26
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (15 bp):
ATAAAAAATAATAGA
Found at i:30166 original size:14 final size:14
Alignment explanation
Indices: 30121--30206 Score: 63
Period size: 14 Copynumber: 6.1 Consensus size: 14
30111 TAATGATAAT
30121 AATA-AAAATAAAAA
1 AATAGAAAAT-AAAA
*
30135 TAATAAGAGAATAAAA
1 -AAT-AGAAAATAAAA
* *
30151 AATATAAAATAGAA
1 AATAGAAAATAAAA
*
30165 AATAGAAAA-AATGA
1 AATAGAAAATAA-AA
30179 AATAGAAAA-AAAA
1 AATAGAAAATAAAA
*
30192 AAT-TAAAATAAAA
1 AATAGAAAATAAAA
30205 AA
1 AA
30207 GGTTAACTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
12 4 0.07
13 11 0.19
14 28 0.48
15 6 0.10
16 5 0.09
17 4 0.07
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (14 bp):
AATAGAAAATAAAA
Found at i:30191 original size:40 final size:37
Alignment explanation
Indices: 30072--30205 Score: 105
Period size: 39 Copynumber: 3.5 Consensus size: 37
30062 TCAGAGAGGG
* * * **
30072 AAAAAAAGATTAAATAAATA-AAAAAT-ATAAGTCAA
1 AAAAAAATATAAAATAAAAATAAAAATAATAAGAGAA
*
30107 AAAATAATGATAATAATAAAAATAAAAATAATAAGAGAA
1 AAAAAAAT-ATAA-AATAAAAATAAAAATAATAAGAGAA
* *
30146 TAAAAAATATAAAATAGAAAATAGAAAA-AATGAAATAGAA
1 AAAAAAATATAAAATA-AAAATA-AAAATAAT--AAGAGAA
30186 AAAAAAA-ATTAAAATAAAAA
1 AAAAAAATA-TAAAATAAAAA
30206 AGGTTAACTT
Statistics
Matches: 80, Mismatches: 10, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
35 6 0.08
36 3 0.04
37 11 0.14
38 19 0.24
39 22 0.28
40 19 0.24
ACGTcount: A:0.74, C:0.01, G:0.07, T:0.19
Consensus pattern (37 bp):
AAAAAAATATAAAATAAAAATAAAAATAATAAGAGAA
Found at i:30205 original size:6 final size:6
Alignment explanation
Indices: 30106--30205 Score: 51
Period size: 6 Copynumber: 15.8 Consensus size: 6
30096 ATATAAGTCA
** * * * *
30106 AAAAAT AATGAT AATAAT AAAAAT AAAAAT AATAA- GAGAAT AAAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT -AAAAAT
* *
30154 ATAAAAT AGAAAAT AGAAAA- AATGAAAT AGAAAAA AAAAAT TAAAAT
1 A-AAAAT A-AAAAT A-AAAAT AA--AAAT A-AAAAT AAAAAT AAAAAT
30201 AAAAA
1 AAAAA
30206 AGGTTAACTT
Statistics
Matches: 73, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
5 4 0.05
6 39 0.53
7 28 0.38
8 1 0.01
9 1 0.01
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:31387 original size:13 final size:13
Alignment explanation
Indices: 31369--31393 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31359 ATAACAATAA
31369 AAATAAAATAAAT
1 AAATAAAATAAAT
31382 AAATAAAATAAA
1 AAATAAAATAAA
31394 AAAAATGTCA
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATAAAATAAAT
Found at i:31474 original size:15 final size:16
Alignment explanation
Indices: 31434--31475 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
31424 AAACCTATAT
31434 AATATATATTTTTAAAA
1 AATATATA-TTTTAAAA
*
31451 AATAAATATTTT-AAA
1 AATATATATTTTAAAA
*
31466 ATTATATATT
1 AATATATATT
31476 ATATATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 11 0.50
16 4 0.18
17 7 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATATATATTTTAAAA
Found at i:31520 original size:29 final size:29
Alignment explanation
Indices: 31473--31538 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
31463 AAAATTATAT
* **
31473 ATTATATATTTTTTTAAAATGTTTTCAAA
1 ATTATATAGTTTTCAAAAATGTTTTCAAA
*
31502 ATTATATAGTTTTCAAAAATGTTTTTAAA
1 ATTATATAGTTTTCAAAAATGTTTTCAAA
*
31531 ACTATATA
1 ATTATATA
31539 TTATAAGTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.50
Consensus pattern (29 bp):
ATTATATAGTTTTCAAAAATGTTTTCAAA
Found at i:31578 original size:39 final size:37
Alignment explanation
Indices: 31504--31798 Score: 225
Period size: 39 Copynumber: 8.2 Consensus size: 37
31494 TTTTCAAAAT
31504 TATAT-AGTTTTCAAAAATGTTTTTAAAAC--TAT-ATA
1 TATATAAGTTTT-AAAAATG-TTTTAAAACTATATAATA
*
31539 T-TATAAGTTTTAAAAATGATTTCAAAACTATATAATA
1 TATATAAGTTTTAAAAATG-TTTTAAAACTATATAATA
* *
31576 TATATATGTTTTTTAAAATGTTTT-----TA-A-AA-A
1 TATATAAG-TTTTAAAAATGTTTTAAAACTATATAATA
* *
31606 CTATAT-A-TTTTCAAAATGTTTAAAAACTATATAATA
1 -TATATAAGTTTTAAAAATGTTTTAAAACTATATAATA
*
31642 TATAT-A-TTTTCAAAAATGTTTTAAAAACTATATATTA
1 TATATAAGTTTT-AAAAATGTTTT-AAAACTATATAATA
* *
31679 TAT-TTA-TTTTCAAAATGTTTTAAAAACTATATAATA
1 TATATAAGTTTTAAAAATGTTTT-AAAACTATATAATA
* *
31715 TATA-AATGTTTTCAAACATGTTTTCAAAACTATATATTA
1 TATATAA-GTTTT-AAAAATGTTTT-AAAACTATATAATA
* *
31754 TATATATGTTTTAAAAATGTTTTTAAACTATAATATATA
1 TATATAAGTTTTAAAAATGTTTTAAAACTAT-ATA-ATA
31793 TATATA
1 TATATA
31799 TATATATATA
Statistics
Matches: 213, Mismatches: 22, Indels: 46
0.76 0.08 0.16
Matches are distributed among these distances:
28 13 0.06
30 1 0.00
31 7 0.03
32 1 0.00
33 4 0.02
34 19 0.09
35 19 0.09
36 42 0.20
37 32 0.15
38 25 0.12
39 49 0.23
40 1 0.00
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.46
Consensus pattern (37 bp):
TATATAAGTTTTAAAAATGTTTTAAAACTATATAATA
Found at i:31648 original size:37 final size:38
Alignment explanation
Indices: 31607--31801 Score: 240
Period size: 39 Copynumber: 5.2 Consensus size: 38
31597 TTTTAAAAAC
31607 TATATATTTTCAAAATG-TTTAAAAACTATAT-A-ATA
1 TATATATTTTCAAAATGTTTTAAAAACTATATAATATA
31642 TATATATTTTCAAAAATGTTTTAAAAACTATAT-AT-TA
1 TATATATTTTC-AAAATGTTTTAAAAACTATATAATATA
*
31679 TATTTATTTTCAAAATGTTTTAAAAACTATATAATATA
1 TATATATTTTCAAAATGTTTTAAAAACTATATAATATA
* * * *
31717 TAAATGTTTTCAAACATGTTTTCAAAACTATATATTATA
1 TATATATTTTCAAA-ATGTTTTAAAAACTATATAATATA
* * *
31756 TATATGTTTTAAAAATGTTTT-TAAACTATAATATATATA
1 TATATATTTTCAAAATGTTTTAAAAACTAT-ATA-ATATA
31795 TATATAT
1 TATATAT
31802 ATATATATAT
Statistics
Matches: 141, Mismatches: 11, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
35 11 0.08
36 27 0.19
37 36 0.26
38 23 0.16
39 44 0.31
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.46
Consensus pattern (38 bp):
TATATATTTTCAAAATGTTTTAAAAACTATATAATATA
Found at i:31711 original size:139 final size:137
Alignment explanation
Indices: 31504--31752 Score: 369
Period size: 139 Copynumber: 1.8 Consensus size: 137
31494 TTTTCAAAAT
* *
31504 TATATAGTTTTCAAAAATGTTTTTAAAACTATATATTATAAGTTTTAAAAATGATTTCAAAACTA
1 TATATAGTTTTCAAAAATGTTTTAAAAACTATATATTATAAGTTTTAAAAATGATTTAAAAACTA
* *
31569 TATAATATATATATGTTTTTTAAA-ATGTTTTTAAAAACTATATATTTTCAAAATGTTTAAAAAC
66 TATAATATATAAATG-TTTTCAAACATG-TTTTAAAAACTATATATTTTCAAAATGTTTAAAAAC
31633 TATATAATA
129 TATATAATA
* *
31642 TATATA-TTTTCAAAAATGTTTTAAAAACTATATATTATATTTA-TTTTCAAAATGTTTTAAAAA
1 TATATAGTTTTCAAAAATGTTTTAAAAACTATATATTATA---AGTTTTAAAAATGATTTAAAAA
*
31705 CTATATAATATATAAATGTTTTCAAACATGTTTTCAAAACTATATATT
63 CTATATAATATATAAATGTTTTCAAACATGTTTTAAAAACTATATATT
31753 ATATATATGT
Statistics
Matches: 100, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
137 32 0.32
138 30 0.30
139 37 0.37
140 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.45
Consensus pattern (137 bp):
TATATAGTTTTCAAAAATGTTTTAAAAACTATATATTATAAGTTTTAAAAATGATTTAAAAACTA
TATAATATATAAATGTTTTCAAACATGTTTTAAAAACTATATATTTTCAAAATGTTTAAAAACTA
TATAATA
Found at i:31793 original size:2 final size:2
Alignment explanation
Indices: 31782--31816 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
31772 GTTTTTAAAC
31782 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31817 ATGGGACGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:32608 original size:84 final size:84
Alignment explanation
Indices: 32344--33593 Score: 1352
Period size: 84 Copynumber: 15.0 Consensus size: 84
32334 ATTTATTGAT
* * * * * * * * *
32344 AGATAGCCCTTCTTGCCTTGAGTTATGCTGTAAATTTGATTTGCCTTTGAGCTGAGTGTAATCGA
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAA--TGATGTGCCTTGGAGCTGAGCGTAGTCGA
*
32409 ACTCGAAGGTCTTTTGG-TGAC
64 ACTCGAAGGTC-TTTGGTTGGC
* * * * * * * * *
32430 AGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAA
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAA
* *
32495 CTTGAGGGTCTTTGG-T---
65 CTCGAAGGTCTTTGGTTGGC
* * * * *
32511 AAATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGCGCCTTGAAGTTGAGCGTAGTCGAAC
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* *
32576 TCGAAGGTCCTTGGTTGAC
66 TCGAAGGTCTTTGGTTGGC
* * * * *
32595 AAATAACCATTCTCGACTTAAGTTATGCTGTAAATGATATG-CTTGGGAGCTTAGCGTAGTCGAA
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTT-GGAGCTGAGCGTAGTCGAA
*
32659 CTCGAAGGTCTTTTGGTT-AC
65 CTCGAAGGTC-TTTGGTTGGC
* * * * ** * * * * * *
32679 AGATAACCCTTCTAGCCTTGATTTATGCTATAAATGATGCGCCCTCGAAGCTGAGTGTAATCAAA
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAA
32744 CTCG-AGGATC--T--TTGGC
65 CTCGAAGG-TCTTTGGTTGGC
*
32760 AGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* *
32825 TCGAAGGTCTTTAG-TGGT
66 TCGAAGGTCTTTGGTTGGC
* * * * * *
32843 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTAGAGTTGAGCGTAGTCGAAC
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
*
32908 TCGAAGGTCTTTTGGTT-AC
66 TCGAAGGTC-TTTGGTTGGC
* * * * * * * * ** *
32927 AGATAACCCTTATAGCCTTGAGTTATGTTGTAAATAATGTGCCTTCGAAGCTGATTGTAATCGAA
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTT-GGAGCTGAGCGTAGTCGAA
*
32992 CTC-AAGGGTC--T--TTAGC
65 CTCGAA-GGTCTTTGGTTGGC
* * * *
33008 AGATAGCCCTTCTCGACTTAAGCTACGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
*
33073 TCGAAGGTCTTTGGTTGGA
66 TCGAAGGTCTTTGGTTGGC
* * * *
33092 AGATAACCCTTCTCGACTTAACTTATGCTACAAATGATATGCCTTGGAGCTGAGCGTAGTCGATC
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
*
33157 TCGAAGGTCTTTAGTTGGC
66 TCGAAGGTCTTTGGTTGGC
* * * *
33176 AGATAGCCATTCTCGACTTAAGATATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAAC
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
*
33241 TCAAAGGTCTTTGGTTGGC
66 TCGAAGGTCTTTGGTTGGC
* * * * *
33260 AGATAGCCCTTCTCGACTTAAGTTATGATGCAAAAGATGTGCCTTGGAGCTTAGTGTAGTCGAAC
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
33325 TCGAAGGTCTTT-GTTGGC
66 TCGAAGGTCTTTGGTTGGC
* * * * * *
33343 AGATAACCCTTCTTGACTTAAGTTATGCTACAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAA
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAA
33408 CTCGAAGGTCTTTGGTTGGC
65 CTCGAAGGTCTTTGGTTGGC
* * *
33428 AGATAACCCTTATCGACTTAAGATATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTTGAAC
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
33493 TCGAAGGTCTTTGGTTGGC
66 TCGAAGGTCTTTGGTTGGC
* *
33512 AGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAAC
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
*
33577 TCGAAGGTCTTTTGTTG
66 TCGAAGGTCTTTGGTTG
33594 TAAAATATCC
Statistics
Matches: 984, Mismatches: 152, Indels: 58
0.82 0.13 0.05
Matches are distributed among these distances:
80 81 0.08
81 108 0.11
82 4 0.00
83 115 0.12
84 525 0.53
85 118 0.12
86 33 0.03
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (84 bp):
AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
TCGAAGGTCTTTGGTTGGC
Found at i:33397 original size:252 final size:247
Alignment explanation
Indices: 32392--33593 Score: 1343
Period size: 249 Copynumber: 4.8 Consensus size: 247
32382 ATTTGCCTTT
* * * * * * *
32392 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTTACAGATAACCCTTATAGACTTAAGATATG
* * * * * ** * * * *
32457 TTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTTGAGGGTCTTTGGTAAATAACCCTT
66 CTGCAAATGATGTG-CCTTGAAGCTGAGCGTAATCAAACTCAAAGGTCTTTGGCAGATAGCCCTT
* * * *
32522 CTCGACTTAAGCTATGCTGCAAATGATGCGCCTTGAAGTTGAGCGTAGTCGAACTCGAAGGTCCT
130 CTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT-CT
* * * * ** * *
32587 TGGTTGACAAATAACCATTCTCGACTTAAGTTATGCTGTAAATGATATGCTTGG
194 TTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATATGCCTAG
* * * * **
32641 GAGCTTAGCGTAGTCGAACTCGAAGGTCTTTTGGTTACAGATAACCCTTCTAGCCTTGATTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTTACAGATAACCCTTATAGACTTAAGATATG
** * * * *
32706 CTATAAATGATGCGCCCTCGAAGCTGAGTGTAATCAAACTC-GAGGATCTTTGGCAGATAGCCCT
66 CTGCAAATGATGTG-CCTTGAAGCTGAGCGTAATCAAACTCAAAGG-TCTTTGGCAGATAGCCCT
32770 TCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCT
129 TCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCT
* * * * *
32835 TTAG-TGGTAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTA-
194 TT-GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATATGCC-TAG
* * * *
32889 GAGTTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTTACAGATAACCCTTATAGCCTTGAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTTACAGATAACCCTTATAGACTTAAGATATG
* * * ** * * *
32954 TTGTAAATAATGTGCCTTCGAAGCTGATTGTAATCGAACTCAAGGGTCTTTAGCAGATAGCCCTT
66 CTGCAAATGATGTGCCTT-GAAGCTGAGCGTAATCAAACTCAAAGGTCTTTGGCAGATAGCCCTT
* * *
33019 CTCGACTTAAGCTACGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
130 CTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
* * *
33084 TGGTTGGAAGATAACCCTTCTCGACTTAACTTATGCTACAAATGATATGCCTTG
195 T-GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATATGCCTAG
* * * * * * *
33138 GAGCTGAGCGTAGTCGATCTCGAAGGTC-TTTAGTTGGCAGATAGCCATTCTCGACTTAAGATAT
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTT-ACAGATAACCCTTATAGACTTAAGATAT
* *
33202 GCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCAAAGGTCTTTGGTTGGCAGATAGC
65 GCTGCAAATGATGTGCCTTGAAGCTGAGCGTAATCAAACTCAAAGGTC--T--TTGGCAGATAGC
* * * *
33267 CCTTCTCGACTTAAGTTATGATGCAAAAGATGTGCCTTGGAGCTTAGTGTAGTCGAACTCGAAGG
126 CCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGG
* * *
33332 TCTTTGTTGGCAGATAACCCTTCTTGACTTAAGTTATGCTACAAATGATGTGCCCTCG
191 TCTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATATG-CCTAG
* * * * *
33390 AAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTATCGACTTAAGATAT
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTT-ACAGATAACCCTTATAGACTTAAGATAT
* * ** * *
33454 GCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTTGAACTCGAAGGTCTTTGGTTGGCAGATAAC
65 GCTGCAAATGATGTGCCTTGAAGCTGAGCGTAATCAAACTCAAAGGTC--T--TTGGCAGATAGC
* *
33519 CCTTCTCGACTTAAGTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGG
126 CCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGG
33584 TCTTTTGTTG
191 TC-TTTGTTG
33594 TAAAATATCC
Statistics
Matches: 833, Mismatches: 106, Indels: 24
0.87 0.11 0.02
Matches are distributed among these distances:
247 3 0.00
248 246 0.30
249 277 0.33
250 1 0.00
251 43 0.05
252 256 0.31
253 7 0.01
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (247 bp):
GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTTACAGATAACCCTTATAGACTTAAGATATG
CTGCAAATGATGTGCCTTGAAGCTGAGCGTAATCAAACTCAAAGGTCTTTGGCAGATAGCCCTTC
TCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT
GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATATGCCTAG
Found at i:37461 original size:15 final size:16
Alignment explanation
Indices: 37430--37464 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
37420 ATAAATAAAT
37430 ATAA-AAAATAATAGA
1 ATAATAAAATAATAGA
37445 ATAATAAAATAAT-GA
1 ATAATAAAATAATAGA
37460 ATAAT
1 ATAAT
37465 GAATAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (16 bp):
ATAATAAAATAATAGA
Found at i:37478 original size:15 final size:16
Alignment explanation
Indices: 37423--37463 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
37413 TTAGATAATA
37423 AATA-AATATAAAAAAT
1 AATAGAATA-AAAAAAT
*
37439 AATAGAATAATAAAAT
1 AATAGAATAAAAAAAT
37455 AAT-GAATAA
1 AATAGAATAA
37464 TGAATAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 6 0.26
16 13 0.57
17 4 0.17
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (16 bp):
AATAGAATAAAAAAAT
Found at i:37481 original size:12 final size:12
Alignment explanation
Indices: 37422--37492 Score: 54
Period size: 12 Copynumber: 5.6 Consensus size: 12
37412 GTTAGATAAT
37422 AAATAAATATAAA
1 AAATAAATA-AAA
*
37435 AAAT-AATAGAA
1 AAATAAATAAAA
*
37446 TAATAAAATAATGAA
1 AAAT-AAATAA--AA
* *
37461 TAATGAATAAAA
1 AAATAAATAAAA
37473 AAATAAATAAAA
1 AAATAAATAAAA
37485 ACAATAAA
1 A-AATAAA
37493 AATGATAGTG
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
11 5 0.11
12 17 0.36
13 14 0.30
14 5 0.11
15 6 0.13
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.21
Consensus pattern (12 bp):
AAATAAATAAAA
Found at i:37599 original size:14 final size:14
Alignment explanation
Indices: 37582--37631 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
37572 AAAATAACAG
37582 AATAAAAAATATAA
1 AATAAAAAATATAA
*
37596 AATATAAAAA-ATGA
1 AATA-AAAAATATAA
* *
37610 AATAGAAAGT-TAA
1 AATAAAAAATATAA
37623 AATAAAAAA
1 AATAAAAAA
37632 GGTTAACTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
13 12 0.43
14 11 0.39
15 5 0.18
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (14 bp):
AATAAAAAATATAA
Found at i:39026 original size:4 final size:4
Alignment explanation
Indices: 39017--39085 Score: 117
Period size: 4 Copynumber: 18.0 Consensus size: 4
39007 AATAACAATA
39017 AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AA- AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
39063 AAAT AAAT AAAT AAA- AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT
39086 GACAATAATA
Statistics
Matches: 62, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
3 7 0.11
4 55 0.89
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:39052 original size:30 final size:31
Alignment explanation
Indices: 39016--39085 Score: 133
Period size: 30 Copynumber: 2.3 Consensus size: 31
39006 CAATAACAAT
39016 AAAATAAATAAATAAATAAATAAATAAAT-A
1 AAAATAAATAAATAAATAAATAAATAAATAA
39046 AAAATAAATAAATAAATAAATAAATAAATAA
1 AAAATAAATAAATAAATAAATAAATAAATAA
39077 AAAATAAAT
1 AAAATAAAT
39086 GACAATAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
30 29 0.74
31 10 0.26
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (31 bp):
AAAATAAATAAATAAATAAATAAATAAATAA
Found at i:39101 original size:30 final size:31
Alignment explanation
Indices: 39018--39085 Score: 109
Period size: 34 Copynumber: 2.1 Consensus size: 31
39008 ATAACAATAA
39018 AATAAATAAATAAATAAATAAATAAATAAAAATA
1 AATAAATAAATAAATAAATAAAT--A-AAAAATA
39052 AATAAATAAATAAATAAATAAATAAAAAATA
1 AATAAATAAATAAATAAATAAATAAAAAATA
39083 AAT
1 AAT
39086 GACAATAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
31 10 0.29
32 1 0.03
34 23 0.68
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (31 bp):
AATAAATAAATAAATAAATAAATAAAAAATA
Found at i:39156 original size:15 final size:14
Alignment explanation
Indices: 39120--39224 Score: 55
Period size: 14 Copynumber: 7.7 Consensus size: 14
39110 AAACCTATAT
39120 AATATATATTTTTAA
1 AATATATA-TTTTAA
*
39135 AAAATATATTTTAA
1 AATATATATTTTAA
*
39149 AAT-TATATATT--
1 AATATATATTTTAA
*
39160 -ATATATTTTTTAA
1 AATATATATTTTAA
* *
39173 AA-ATGT-TTTCAA
1 AATATATATTTTAA
39185 AATTATATAGTTTTCAA
1 AA-TATATA-TTTT-AA
*
39202 AA-ATGT-TTTTAA
1 AATATATATTTTAA
39214 AACTATATATT
1 AA-TATATATT
39225 ATAAGTTTTC
Statistics
Matches: 67, Mismatches: 11, Indels: 24
0.66 0.11 0.24
Matches are distributed among these distances:
10 2 0.03
11 6 0.09
12 11 0.16
13 14 0.21
14 15 0.22
15 12 0.18
16 3 0.04
17 4 0.06
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (14 bp):
AATATATATTTTAA
Found at i:39165 original size:37 final size:36
Alignment explanation
Indices: 39095--39193 Score: 117
Period size: 37 Copynumber: 2.6 Consensus size: 36
39085 TGACAATAAT
*
39095 AAAAATATTTTCCAAAAACCTATATAATATATATTTTTA
1 AAAAATATTTT-C-AAAA-TTATATAATATATATTTTTA
* * *
39134 AAAAATATATTTTAAAATTATATATTATATATTTTTT
1 AAAAATAT-TTTCAAAATTATATAATATATATTTTTA
*
39171 AAAAATGTTTTCAAAATTATATA
1 AAAAATATTTTCAAAATTATATA
39194 GTTTTCAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
36 14 0.26
37 24 0.45
38 4 0.08
39 8 0.15
40 3 0.06
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.45
Consensus pattern (36 bp):
AAAAATATTTTCAAAATTATATAATATATATTTTTA
Found at i:39203 original size:29 final size:29
Alignment explanation
Indices: 39157--39256 Score: 103
Period size: 29 Copynumber: 3.3 Consensus size: 29
39147 AAAATTATAT
* *
39157 ATTATATATTTTTTAAAAATGTTTTCAAA
1 ATTATATAGTTTTCAAAAATGTTTTCAAA
*
39186 ATTATATAGTTTTCAAAAATGTTTTTAAAA
1 ATTATATAGTTTTCAAAAATG-TTTTCAAA
*
39216 CTATATATTATAAGTTTTC-AAAATGATTTCAAA
1 --AT-TA-TAT-AGTTTTCAAAAATGTTTTCAAA
39249 ATTATATA
1 ATTATATA
39257 TTGTATATAT
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
28 1 0.02
29 22 0.37
30 9 0.15
31 2 0.03
32 2 0.03
33 8 0.13
34 9 0.15
35 7 0.12
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (29 bp):
ATTATATAGTTTTCAAAAATGTTTTCAAA
Found at i:39225 original size:65 final size:64
Alignment explanation
Indices: 39122--39256 Score: 182
Period size: 63 Copynumber: 2.1 Consensus size: 64
39112 ACCTATATAA
* * * *
39122 TATATATTTTTAAAAAATATATTTTAAAATTATATATTATATATTTTTTAAAAATGTTTTCAAAA
1 TATATAGTTTTAAAAAATATATTTTAAAACTATATATTATA-A-GTTTTAAAAATGATTTCAAAA
39187 T
64 T
* * *
39188 TATATAGTTTTCAAAAATGT-TTTTAAAACTATATATTATAAGTTTTCAAAATGATTTCAAAAT
1 TATATAGTTTTAAAAAATATATTTTAAAACTATATATTATAAGTTTTAAAAATGATTTCAAAAT
39251 TATATA
1 TATATA
39257 TTGTATATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
63 25 0.40
64 1 0.02
65 19 0.31
66 17 0.27
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (64 bp):
TATATAGTTTTAAAAAATATATTTTAAAACTATATATTATAAGTTTTAAAAATGATTTCAAAAT
Found at i:39257 original size:65 final size:67
Alignment explanation
Indices: 39121--39257 Score: 174
Period size: 65 Copynumber: 2.1 Consensus size: 67
39111 AACCTATATA
* * * *
39121 ATATATATTTTTAAAAAATATATTTTAAAATTATATATTATATATTTTTTAAAAATGTTTTCAAA
1 ATATATAGTTTTAAAAAATATATTTTAAAACTATATATTATATATGTTTTAAAAATGATTTCAAA
39186 AT
66 AT
* * *
39188 -TATATAGTTTTCAAAAATGT-TTTTAAAACTATATATTATA-A-GTTTTCAAAATGATTTCAAA
1 ATATATAGTTTTAAAAAATATATTTTAAAACTATATATTATATATGTTTTAAAAATGATTTCAAA
39249 ATT
66 A-T
39252 ATATAT
1 ATATAT
39258 TGTATATATG
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
63 18 0.30
64 2 0.03
65 24 0.39
66 17 0.28
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.48
Consensus pattern (67 bp):
ATATATAGTTTTAAAAAATATATTTTAAAACTATATATTATATATGTTTTAAAAATGATTTCAAA
AT
Found at i:39277 original size:138 final size:135
Alignment explanation
Indices: 39108--39476 Score: 316
Period size: 138 Copynumber: 2.6 Consensus size: 135
39098 AATATTTTCC
* *
39108 AAAAACCTATATAATATATAT-T-TTTAAAAAATATATTTTAAAATTATATATTATATATTTTTT
1 AAAAA-CTATACAATATATATATGTTTTAAAAAT-T-TTTTAAAATTATATATTATATATTTTTT
*
39171 AAAAATGTTTTCAAAAT-TATATAGTTTTCAAAAATGTTTTTAAAACTATATATTATA-AGTTTT
63 AAAAATGTTTT-AAAATATATATA-TTTTCAAAAATGTTTTAAAAACTATATATTATATA-TTTT
39234 CAAAATGATTT
125 CAAAATGATTT
* * * * * * * * * **
39245 CAAAATTATATATTGTATATATGTTTTTAAAATGTTTTTAAAAATTATATATTTTCAAAATGATT
1 AAAAACTATACAATATATATATGTTTTAAAAAT-TTTTT-AAAATTATATATTAT-ATATTTTTT
* * *
39310 AAAAACT-ATATAATATATATATATTTTCAAAAATGTTTTAAAAACTATATATTATATTTATTTT
63 AAAAA-TGTTTTAAAATATATATATTTTCAAAAATGTTTTAAAAACTATATATTATA--TATTTT
*
39374 CAAAATGTTTT
125 CAAAATGATTT
* * * * * *
39385 AAAAACTATACAATATATAAATGTTTTCAAACATGGTTTCAAAACTATATTTTATATATATGTTT
1 AAAAACTATACAATATATATATGTTTT-AAAAAT-TTTTTAAAATTATATATTATATAT-T-TTT
*
39450 TAAAAATGTTTTTAAACTATAATATAT
62 TAAAAATG-TTTTAAAATAT-ATATAT
39477 ATATATATAT
Statistics
Matches: 179, Mismatches: 38, Indels: 24
0.74 0.16 0.10
Matches are distributed among these distances:
136 12 0.07
137 9 0.05
138 59 0.33
139 20 0.11
140 50 0.28
141 16 0.09
142 7 0.04
143 6 0.03
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.46
Consensus pattern (135 bp):
AAAAACTATACAATATATATATGTTTTAAAAATTTTTTAAAATTATATATTATATATTTTTTAAA
AATGTTTTAAAATATATATATTTTCAAAAATGTTTTAAAAACTATATATTATATATTTTCAAAAT
GATTT
Found at i:39331 original size:37 final size:37
Alignment explanation
Indices: 39290--39486 Score: 209
Period size: 39 Copynumber: 5.2 Consensus size: 37
39280 TTTTAAAAAT
*
39290 TATATATTTTCAAAATGATTAAAAACTATATAATATA
1 TATATATTTTCAAAATGTTTAAAAACTATATAATATA
39327 TATATATTTTCAAAAATGTTTTAAAAACTATAT-AT-TA
1 TATATATTTTC-AAAATG-TTTAAAAACTATATAATATA
* *
39364 TATTTATTTTCAAAATGTTTTAAAAACTATACAATATA
1 TATATATTTTCAAAATG-TTTAAAAACTATATAATATA
* * * **
39402 TAAATGTTTTCAAACATGGTTTCAAAACTATATTTTATA
1 TATATATTTTCAAA-AT-GTTTAAAAACTATATAATATA
* * **
39441 TATATGTTTTAAAAATGTTTTTAAACTATAATATATATA
1 TATATATTTTCAAAATGTTTAAAAACTAT-ATA-ATATA
39480 TATATAT
1 TATATAT
39487 ATATATAAAT
Statistics
Matches: 135, Mismatches: 17, Indels: 14
0.81 0.10 0.08
Matches are distributed among these distances:
36 20 0.15
37 36 0.27
38 25 0.19
39 53 0.39
40 1 0.01
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (37 bp):
TATATATTTTCAAAATGTTTAAAAACTATATAATATA
Found at i:39359 original size:65 final size:67
Alignment explanation
Indices: 39188--39415 Score: 199
Period size: 75 Copynumber: 3.2 Consensus size: 67
39178 TTTTCAAAAT
* *
39188 TATATAGTTTTCAAAAATGTTTTTAAAACTATATATTATAAGTTTTCAAAATGATTTCAAAATTA
1 TATATA-TTTTCAAAAATGTTTTTAAAA--A-ATA-TAT-A-TTTTCAAAATGATTTAAAAACTA
* *
39253 TATATTGTA
59 TATAATATA
* * *
39262 TATATGTTTT-TAAAATGTTTTTAAAAATTATATATTTTCAAAATGA-TTAAAAACTATATAATA
1 TATATATTTTCAAAAATGTTTTTAAAAAATATATATTTTCAAAATGATTTAAAAACTATATAATA
39325 TA
66 TA
* *
39327 TATATATTTTCAAAAATGTTTTAAAAACTATATATTATATTTATTTTCAAAATGTTTTAAAAACT
1 TATATATTTTCAAAAATGTTTT-TAAA--A-A-A-TATA--TATTTTCAAAATGATTTAAAAACT
*
39392 ATACAATATA
58 ATATAATATA
* *
39402 TAAATGTTTTCAAA
1 TATATATTTTCAAA
39416 CATGGTTTCA
Statistics
Matches: 129, Mismatches: 15, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
65 24 0.19
66 22 0.17
67 4 0.03
68 3 0.02
69 3 0.02
70 2 0.02
72 19 0.15
73 4 0.03
74 18 0.14
75 30 0.23
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (67 bp):
TATATATTTTCAAAAATGTTTTTAAAAAATATATATTTTCAAAATGATTTAAAAACTATATAATA
TA
Found at i:45297 original size:30 final size:30
Alignment explanation
Indices: 45261--45326 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
45251 AGAGAACTGA
* *
45261 CGGTTCACACTGATTTTGCCGATTTTCAGC
1 CGGTTCACACTGATTTTGCCGATTCTCAAC
* * *
45291 CGGTTCACTCTGGTTTTGCCGGTTCTCAAC
1 CGGTTCACACTGATTTTGCCGATTCTCAAC
45321 CGGTTC
1 CGGTTC
45327 TTCATCGGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.12, C:0.29, G:0.23, T:0.36
Consensus pattern (30 bp):
CGGTTCACACTGATTTTGCCGATTCTCAAC
Found at i:48088 original size:32 final size:32
Alignment explanation
Indices: 48047--48110 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
48037 CAACAGGTTT
48047 GGTCAATGGGTTGCCTCATCCTGAGTTGACTC
1 GGTCAATGGGTTGCCTCATCCTGAGTTGACTC
48079 GGTCAATGGGTTGCCTCATCCTGAGTTGACTC
1 GGTCAATGGGTTGCCTCATCCTGAGTTGACTC
48111 AATCAACTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.16, C:0.25, G:0.28, T:0.31
Consensus pattern (32 bp):
GGTCAATGGGTTGCCTCATCCTGAGTTGACTC
Found at i:52230 original size:22 final size:21
Alignment explanation
Indices: 52205--52246 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
52195 TTAATTTTTT
52205 GGTCAAAATCAACAATCAATGC
1 GGTCAAAATCAA-AATCAATGC
* *
52227 GGTCAAAGTCAAAGTCAATG
1 GGTCAAAATCAAAATCAATG
52247 GGTTTGGTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (21 bp):
GGTCAAAATCAAAATCAATGC
Found at i:53075 original size:34 final size:34
Alignment explanation
Indices: 53034--53103 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
53024 TTTAAAATCC
*
53034 TATATGATATCTAACAAAATTATTTTAAAATGGA
1 TATATGATATCTAACAAAATTATTTTAAAAGGGA
53068 TATATGATATCTAACAAAATTATTTTAAAAGGGA
1 TATATGATATCTAACAAAATTATTTTAAAAGGGA
53102 TA
1 TA
53104 CTGACACAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (34 bp):
TATATGATATCTAACAAAATTATTTTAAAAGGGA
Found at i:54837 original size:53 final size:55
Alignment explanation
Indices: 54779--54907 Score: 172
Period size: 57 Copynumber: 2.3 Consensus size: 55
54769 AAAGCAGAGT
* *
54779 TAAATATGTCATA-AAG-ACAAAGTTATTAAAATATAAACGAAACAAAGGAAAAA
1 TAAATATATCATATAAGAACAAAGTTATTAAAAAATAAACGAAACAAAGGAAAAA
* * *
54832 TAAATATATGATATAAGAAAACAGAGTTATTAAAAAATAAACGAAACAAAGGGAAAA
1 TAAATATATCATATAAG--AACAAAGTTATTAAAAAATAAACGAAACAAAGGAAAAA
*
54889 TAAATATATGATATAAGAA
1 TAAATATATCATATAAGAA
54908 AATAGATGAA
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
53 11 0.16
54 3 0.04
55 2 0.03
57 51 0.76
ACGTcount: A:0.60, C:0.05, G:0.12, T:0.22
Consensus pattern (55 bp):
TAAATATATCATATAAGAACAAAGTTATTAAAAAATAAACGAAACAAAGGAAAAA
Found at i:54863 original size:57 final size:57
Alignment explanation
Indices: 54799--54909 Score: 204
Period size: 57 Copynumber: 1.9 Consensus size: 57
54789 ATAAAGACAA
*
54799 AGTTATTAAAATATAAACGAAACAAAGGAAAAATAAATATATGATATAAGAAAACAG
1 AGTTATTAAAAAATAAACGAAACAAAGGAAAAATAAATATATGATATAAGAAAACAG
*
54856 AGTTATTAAAAAATAAACGAAACAAAGGGAAAATAAATATATGATATAAGAAAA
1 AGTTATTAAAAAATAAACGAAACAAAGGAAAAATAAATATATGATATAAGAAAA
54910 TAGATGAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.62, C:0.05, G:0.13, T:0.21
Consensus pattern (57 bp):
AGTTATTAAAAAATAAACGAAACAAAGGAAAAATAAATATATGATATAAGAAAACAG
Found at i:55457 original size:65 final size:65
Alignment explanation
Indices: 55349--55489 Score: 198
Period size: 65 Copynumber: 2.2 Consensus size: 65
55339 ATACACACCC
* *
55349 AACATCAAATGCATTATGTGTACCAATGCACAAACAATGCATCGATACACT-CTATG-TTTTATT
1 AACATCAAATGCATTATATGTACCAATGCACAAACAATACATCGATACACTCCTA-GCTTTT-TT
55412 GA
64 GA
* *
55414 AACATCGAATGCACTT-TATGTACCAATGCACAGACAATACATCGATACACTCCTAGCTTTTTTG
1 AACATCAAATGCA-TTATATGTACCAATGCACAAACAATACATCGATACACTCCTAGCTTTTTTG
55478 A
65 A
55479 AACATCAAATG
1 AACATCAAATG
55490 TAATTAGTGT
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
65 59 0.87
66 9 0.13
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (65 bp):
AACATCAAATGCATTATATGTACCAATGCACAAACAATACATCGATACACTCCTAGCTTTTTTGA
Found at i:61356 original size:21 final size:21
Alignment explanation
Indices: 61311--61408 Score: 85
Period size: 21 Copynumber: 4.6 Consensus size: 21
61301 TTGATACCTA
*
61311 TGTATCGATACACTCTCGCTA-
1 TGTATCGATACACTCT-GATAG
*
61332 TGTATCGATACACTATGATAG
1 TGTATCGATACACTCTGATAG
** *
61353 TGTATCGATGTATTCCTTGA-ATG
1 TGTATCGATACACT-C-TGATA-G
61376 TGTATCGATACACTCTG-TAG
1 TGTATCGATACACTCTGATAG
*
61396 TGTACCGATACAC
1 TGTATCGATACAC
61409 CCGTCGAGTT
Statistics
Matches: 62, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
20 16 0.26
21 29 0.47
22 2 0.03
23 15 0.24
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (21 bp):
TGTATCGATACACTCTGATAG
Found at i:61914 original size:12 final size:13
Alignment explanation
Indices: 61885--61917 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
61875 GTATTATAAT
*
61885 TTTTCAAACATTG
1 TTTTCAAACATAG
61898 TTTTCAAA-ATAG
1 TTTTCAAACATAG
61910 TTTTCAAA
1 TTTTCAAA
61918 GTTTGCTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (13 bp):
TTTTCAAACATAG
Found at i:64079 original size:65 final size:65
Alignment explanation
Indices: 63967--64089 Score: 167
Period size: 65 Copynumber: 1.9 Consensus size: 65
63957 ATGCATTATG
* * *
63967 TGTACCGATGCACAGACAATGCATCGATCCACTCGAGGTTTTATTGAAACATCAAATGCACTTTA
1 TGTACCGATGCACAGACAATGCATCGATACACTCCAGGTCTTATTGAAACATCAAATGCACTTTA
* * * *
64032 TGTACTGATGCACAGACGATGCATCGATACACTCCTGGCTCTT-TTGAAACATCGAATG
1 TGTACCGATGCACAGACAATGCATCGATACACTCCAGG-TCTTATTGAAACATCAAATG
64090 TAATTAGTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
65 47 0.94
66 3 0.06
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (65 bp):
TGTACCGATGCACAGACAATGCATCGATACACTCCAGGTCTTATTGAAACATCAAATGCACTTTA
Found at i:66873 original size:34 final size:34
Alignment explanation
Indices: 66826--66910 Score: 143
Period size: 34 Copynumber: 2.5 Consensus size: 34
66816 CCCGAACCCA
* *
66826 AAAATATTTTATATATAATTAATATAAAATATAT
1 AAAATATTATATATATAATTAATATAAAAAATAT
*
66860 AAAATATGATATATATAATTAATATAAAAAATAT
1 AAAATATTATATATATAATTAATATAAAAAATAT
66894 AAAATATTATATATATA
1 AAAATATTATATATATA
66911 TATAATCGGG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (34 bp):
AAAATATTATATATATAATTAATATAAAAAATAT
Found at i:70798 original size:156 final size:155
Alignment explanation
Indices: 70638--71019 Score: 378
Period size: 156 Copynumber: 2.4 Consensus size: 155
70628 AATAATTATT
* * * * * *
70638 AAAGTTACATATGTATTCTATTGTAGTATATAAGTATGTGGT-TCAAATTTGGTAAAAA-TGACT
1 AAAG-TACACATGTATTCTACTATAGTATAGAAGCATGT-GTCTCAAATTTGGTAAAAACGGACT
* * * *
70701 TAAAATAAATCACAAATTGAAGGAATAAGAAGATTATGAAAAATTGAAGGACTAAATTGAAATAT
64 TAAAATAAATCACAAATTGAAGAAATAAGAAGATAATGAAAAATTAAAGGACTAAATTGAAAAAT
70766 AAAAAAATTTAAAAAAAAAGAGGAATTA
129 -AAAAAATTTAAAAAAAAAGAGGAATTA
* * * *
70794 AAAGTACACATGTATTCTACTATGGTTTGGGAGCATGTGTCTCAAATTTGGTAAAAACGGACTTA
1 AAAGTACACATGTATTCTACTATAGTATAGAAGCATGTGTCTCAAATTTGGTAAAAACGGACTTA
* ** * * *
70859 AAATAAATGATGAATTGAAGAAATTAGAATATAATGAAAAATTAAAGGATTAAATTGAAAAATAA
66 AAATAAATCACAAATTGAAGAAATAAGAAGATAATGAAAAATTAAAGGACTAAATTGAAAAATAA
** *
70924 AAAATTTATTATCAAAAAGAGG-ATGTG
131 AAAATTTA--AAAAAAAAGAGGAAT-TA
* * * * * * **
70951 AAAGTA-TCATGTATTCTACTATGGGTTTAGAAGCATTTG-CTTTATATTTGGTAAAAATTGACT
1 AAAGTACACATGTATTCTACTAT-AGTATAGAAGCATGTGTC-TCAAATTTGGTAAAAACGGACT
71014 TAAAAT
64 TAAAAT
71020 GGAGGAGGAA
Statistics
Matches: 188, Mismatches: 31, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
154 2 0.01
155 51 0.27
156 81 0.43
157 54 0.29
ACGTcount: A:0.46, C:0.06, G:0.16, T:0.31
Consensus pattern (155 bp):
AAAGTACACATGTATTCTACTATAGTATAGAAGCATGTGTCTCAAATTTGGTAAAAACGGACTTA
AAATAAATCACAAATTGAAGAAATAAGAAGATAATGAAAAATTAAAGGACTAAATTGAAAAATAA
AAAATTTAAAAAAAAAGAGGAATTA
Found at i:71031 original size:157 final size:155
Alignment explanation
Indices: 70680--71041 Score: 417
Period size: 156 Copynumber: 2.3 Consensus size: 155
70670 AGTATGTGGT
* * * *
70680 TCAAATTTGGTAAAAATGACTTAAAATAAATCACAAATTGAAGGAATAAGAAGATTATGAAAAAT
1 TCAAATTTGGTAAAAATGACTTAAAATAAATGACGAATTGAAGAAATAAGAAGATAATGAAAAAT
* *
70745 TGAAGGACTAAATTGAAATATAAAAAAATTTAAAAAAAAAGAGGAATTAAAAGTACACATGTATT
66 TAAAGGACTAAATTGAAAAATAAAAAAATTTAAAAAAAAAGAGGAATTAAAAGTACACATGTATT
* *
70810 CTACTATGGTTTGGGAGCATGTGTC
131 CTACTATGGTTTAGAAGCATGTGTC
* * * *
70835 TCAAATTTGGTAAAAACGGACTTAAAATAAATGATGAATTGAAGAAATTAGAATATAATGAAAAA
1 TCAAATTTGGTAAAAA-TGACTTAAAATAAATGACGAATTGAAGAAATAAGAAGATAATGAAAAA
* ** * *
70900 TTAAAGGATTAAATTGAAAAAT-AAAAAATTTATTATCAAAAAGAGG-ATGTGAAAGTA-TCATG
65 TTAAAGGACTAAATTGAAAAATAAAAAAATTTA--AAAAAAAAGAGGAAT-TAAAAGTACACATG
*
70962 TATTCTACTATGGGTTTAGAAGCATTTG-C
127 TATTCTACTAT-GGTTTAGAAGCATGTGTC
* * ** * *
70991 TTTATATTTGGTAAAAATTGACTTAAAATGGAGGAGGAATTGAAGAAATAA
1 -TCAAATTTGGTAAAAA-TGACTTAAAATAAATGACGAATTGAAGAAATAA
71042 TGAAATCATA
Statistics
Matches: 174, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
155 26 0.15
156 77 0.44
157 71 0.41
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.29
Consensus pattern (155 bp):
TCAAATTTGGTAAAAATGACTTAAAATAAATGACGAATTGAAGAAATAAGAAGATAATGAAAAAT
TAAAGGACTAAATTGAAAAATAAAAAAATTTAAAAAAAAAGAGGAATTAAAAGTACACATGTATT
CTACTATGGTTTAGAAGCATGTGTC
Found at i:75419 original size:23 final size:23
Alignment explanation
Indices: 75393--75437 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
75383 TAGAACACCG
*
75393 CATAGAATTGTCCCGAAGGACCA
1 CATAAAATTGTCCCGAAGGACCA
* *
75416 CATAAAATTGTCTCGAATGACC
1 CATAAAATTGTCCCGAAGGACC
75438 GTTTAAAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (23 bp):
CATAAAATTGTCCCGAAGGACCA
Found at i:82138 original size:24 final size:24
Alignment explanation
Indices: 82106--82190 Score: 70
Period size: 24 Copynumber: 3.6 Consensus size: 24
82096 CAATCGAAAT
*
82106 TGCCGCGTAGAATTTACACCGAAG
1 TGCCACGTAGAATTTACACCGAAG
* *
82130 TGCCACGTAGAATATGA-ACTGAAG
1 TGCCACGTAGAAT-TTACACCGAAG
*
82154 TGCCACATAG-ATTTATC-CCGAA-
1 TGCCACGTAGAATTTA-CACCGAAG
*
82176 TGACCGCGTAGAATT
1 TG-CCACGTAGAATT
82191 GTCCCAAAGG
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
22 4 0.08
23 12 0.25
24 30 0.62
25 2 0.04
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (24 bp):
TGCCACGTAGAATTTACACCGAAG
Found at i:82187 original size:23 final size:23
Alignment explanation
Indices: 82161--82205 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
82151 AAGTGCCACA
* * *
82161 TAGATTTATCCCGAATGACCGCG
1 TAGAATTATCCCAAAGGACCGCG
*
82184 TAGAATTGTCCCAAAGGACCGC
1 TAGAATTATCCCAAAGGACCGC
82206 ATAAAACCCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (23 bp):
TAGAATTATCCCAAAGGACCGCG
Found at i:85114 original size:37 final size:36
Alignment explanation
Indices: 85021--85128 Score: 117
Period size: 37 Copynumber: 2.9 Consensus size: 36
85011 ACACATTTTC
* *
85021 GTTCTACTAGGATTCAAACTCCTAAAAATAGAATATA
1 GTTCTACTA-GATTCAAACTCCTAAAAATAGGATAGA
* * * *
85058 ATTTTGCTAGAATTCAAACTCTTAAAAATAGGATAGA
1 GTTCTACTAG-ATTCAAACTCCTAAAAATAGGATAGA
* *
85095 GTTCTACTATGATTTAAACTCCTAAAGATAGGAT
1 GTTCTACTA-GATTCAAACTCCTAAAAATAGGAT
85129 CCACAAGCAC
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
36 1 0.02
37 55 0.96
38 1 0.02
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (36 bp):
GTTCTACTAGATTCAAACTCCTAAAAATAGGATAGA
Found at i:89410 original size:46 final size:44
Alignment explanation
Indices: 89345--89458 Score: 169
Period size: 44 Copynumber: 2.6 Consensus size: 44
89335 GAAGATCCAA
*
89345 CAAGAAC-AAAAGTAAAGAAGCAAAAAACAAATAAAAAAGAGAAT
1 CAAGAACAAAAAGAAAAGAAGCAAAAAACAAAT-AAAAAGAGAAT
*
89389 CAAGAACAAAAAAGCAAAGAAGC-AAAAACAAATAAAAAGAGAAT
1 CAAGAAC-AAAAAGAAAAGAAGCAAAAAACAAATAAAAAGAGAAT
*
89433 CAAGAACAACAAGAAAAGAAGCAAAA
1 CAAGAACAAAAAGAAAAGAAGCAAAA
89459 TCAAAAGAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
43 13 0.20
44 28 0.44
45 10 0.16
46 13 0.20
ACGTcount: A:0.70, C:0.11, G:0.14, T:0.04
Consensus pattern (44 bp):
CAAGAACAAAAAGAAAAGAAGCAAAAAACAAATAAAAAGAGAAT
Found at i:89443 original size:25 final size:25
Alignment explanation
Indices: 89370--89444 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 25
89360 AGAAGCAAAA
89370 AACAAATAAAAAAGAGAATCAAGAAC
1 AACAAAT-AAAAAGAGAATCAAGAAC
** *
89396 AA-AAA-AGCAA-AGAAGC-A-AA-
1 AACAAATAAAAAGAGAATCAAGAAC
89415 AACAAATAAAAAGAGAATCAAGAAC
1 AACAAATAAAAAGAGAATCAAGAAC
89440 AACAA
1 AACAA
89445 GAAAAGAAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 13
0.66 0.11 0.23
Matches are distributed among these distances:
19 2 0.05
20 5 0.14
21 4 0.11
22 10 0.27
23 4 0.11
24 2 0.05
25 8 0.22
26 2 0.05
ACGTcount: A:0.71, C:0.12, G:0.12, T:0.05
Consensus pattern (25 bp):
AACAAATAAAAAGAGAATCAAGAAC
Found at i:90099 original size:22 final size:22
Alignment explanation
Indices: 90074--90137 Score: 103
Period size: 21 Copynumber: 3.0 Consensus size: 22
90064 ATCAAATCGT
90074 TGAGCATCAAATGCCAAACCTA
1 TGAGCATCAAATGCCAAACCTA
* *
90096 TGAGCATCAAATG-CAAACTTT
1 TGAGCATCAAATGCCAAACCTA
90117 TGAGCATCAAATGCCAAACCT
1 TGAGCATCAAATGCCAAACCT
90138 TTGACCAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 19 0.50
22 19 0.50
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.22
Consensus pattern (22 bp):
TGAGCATCAAATGCCAAACCTA
Found at i:90140 original size:22 final size:22
Alignment explanation
Indices: 90073--90141 Score: 113
Period size: 22 Copynumber: 3.2 Consensus size: 22
90063 CATCAAATCG
90073 TTGAGCATCAAATGCCAAACCT
1 TTGAGCATCAAATGCCAAACCT
* *
90095 ATGAGCATCAAATG-CAAACTT
1 TTGAGCATCAAATGCCAAACCT
90116 TTGAGCATCAAATGCCAAACCT
1 TTGAGCATCAAATGCCAAACCT
90138 TTGA
1 TTGA
90142 CCAAACATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.45
22 23 0.55
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (22 bp):
TTGAGCATCAAATGCCAAACCT
Found at i:91064 original size:106 final size:106
Alignment explanation
Indices: 90874--92125 Score: 1932
Period size: 106 Copynumber: 11.9 Consensus size: 106
90864 TCGAGAGTAG
* * * *
90874 AGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAATAAACAAATTCCTAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
*
90939 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
* *
90980 AGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
* *
91045 TTCAACTTCACAACAAAGGATATTGGACTCCAGAAAACGCA
66 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
* *
91086 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
* * *
91151 TTCAACTTCACAGCGTAGGATATTGGACTCAAGACAACGCA
66 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
* *
91192 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCTAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
* *
91257 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACTCA
66 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
*
91298 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
*
91363 TTCAACTTCACAACGAAGGATATTGGACTCCAGAAAACGCA
66 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
* *
91404 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
*
91469 TTCAACTTCACAACGAAGGATATTGGACTCAAGACAACGCA
66 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
*
91510 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
*
91575 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
* *
91616 AGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
*
91681 TTCAACTTCACAACGAAGGATATTGGAATCCAGACAACGCA
66 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
* *
91722 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTTCCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
*
91787 TTCAACTTCACAACGAAGGATATTGGACTCAAGACAACGCA
66 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
*
91828 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTC-A-ATA-AACTTCCCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
* * * * *
91890 TTCAACTTCTCAGCGAAGGATCTTAGAC-CCAAGACAACACA
66 TTCAACTTCACAACGAAGGATATTGGACTCC-AGACAACGCA
* * * * *
91931 AGCTCAACTTCACGACGAAAGGG-CGGCTGATTGTCAA-AAA-AA-TT-TC-A-TTCAGAGTCAA
1 AGTTCAACTTCACGACG-AAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAA
* * *
91989 TTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACA
65 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
* * * ** *
92031 AGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
* *
92096 TTCAACTTCACGACGGAGGATATTGGACTC
66 TTCAACTTCACAACGAAGGATATTGGACTC
92126 GGAACAATGC
Statistics
Matches: 1056, Mismatches: 79, Indels: 22
0.91 0.07 0.02
Matches are distributed among these distances:
99 5 0.00
100 74 0.07
101 5 0.00
102 4 0.00
103 84 0.08
104 13 0.01
105 1 0.00
106 870 0.82
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
Found at i:92291 original size:21 final size:21
Alignment explanation
Indices: 92265--92311 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
92255 ATCTTTAGAT
92265 TGGATTTCAACTTCACGATGA
1 TGGATTTCAACTTCACGATGA
92286 TGGATTTCAACTTCACGATGA
1 TGGATTTCAACTTCACGATGA
*
92307 AGGAT
1 TGGAT
92312 ATCCAACTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (21 bp):
TGGATTTCAACTTCACGATGA
Found at i:92963 original size:37 final size:37
Alignment explanation
Indices: 92873--92977 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
92863 CCTTTTCGTC
** *
92873 CTACTAGGATTCAAACTCCTAAAAATATAATATAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
92910 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
92947 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
92978 CCACAAGCAC
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:95521 original size:39 final size:37
Alignment explanation
Indices: 95478--95697 Score: 144
Period size: 41 Copynumber: 5.6 Consensus size: 37
95468 GTTTTTTTAA
*
95478 ATATAATATATAGTTTTAAGAAAACAGTTTTTTGAAAGT
1 ATATAATATATAGTTTT--GAAAACAGTTTTTTGAAAAT
* * *
95517 ATATAATATAT--TTTTAAAAAAAAATCGGTTTTTGAAAAT
1 ATATAATATATAGTTTT--GAAAACA--GTTTTTTGAAAAT
* * *
95556 ATATATATTATATAATTTTGAAAACAATTTTTTTTAAAAT
1 ATATA-A-TATATAGTTTTGAAAAC-AGTTTTTTGAAAAT
* *
95596 ATTATATATTATATAGTTTTGAAAA-TGATTTTTGAAAAT
1 A-TATA-A-TATATAGTTTTGAAAACAGTTTTTTGAAAAT
* *
95635 ATAT-ATATTATAGTTTTGAAAA-TGATTTTTGAATATATAT
1 ATATAATA-TATAGTTTTGAAAACAGTTTTTTG-A-A-A-AT
95675 ATATAATATATAGTTTTTGAAAA
1 ATATAATATATAG-TTTTGAAAA
95698 TATATATATA
Statistics
Matches: 152, Mismatches: 14, Indels: 28
0.78 0.07 0.14
Matches are distributed among these distances:
35 2 0.01
36 24 0.16
37 12 0.08
38 4 0.03
39 39 0.26
40 23 0.15
41 43 0.28
42 1 0.01
43 4 0.03
ACGTcount: A:0.44, C:0.01, G:0.09, T:0.46
Consensus pattern (37 bp):
ATATAATATATAGTTTTGAAAACAGTTTTTTGAAAAT
Found at i:95526 original size:37 final size:36
Alignment explanation
Indices: 95468--95538 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 36
95458 TTTTTAAAAT
* *
95468 GTTTTTTTAAATATAATATATAGTTTTAAGAAAACA
1 GTTTTTTGAAATATAATATATAGTTTTAAAAAAACA
*
95504 GTTTTTTGAAAGTAT-ATAATATATTTTTAAAAAAA
1 GTTTTTTGAAA-TATAAT-ATATAGTTTTAAAAAAA
95539 AATCGGTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
36 12 0.40
37 18 0.60
ACGTcount: A:0.45, C:0.01, G:0.08, T:0.45
Consensus pattern (36 bp):
GTTTTTTGAAATATAATATATAGTTTTAAAAAAACA
Found at i:95558 original size:37 final size:35
Alignment explanation
Indices: 95476--95564 Score: 90
Period size: 39 Copynumber: 2.4 Consensus size: 35
95466 ATGTTTTTTT
* * *
95476 AAATATAATATATAGTTTTAAGAAAACAGTTTTTTGA
1 AAATATAATATAT--TTTTAAAAAAAAAGGTTTTTGA
95513 AAGTATATAATATATTTTTAAAAAAAAATCGGTTTTTGA
1 AA--ATATAATATATTTTTAAAAAAAAA--GGTTTTTGA
95552 AAATAT-ATATATT
1 AAATATAATATATT
95565 ATATAATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
36 7 0.16
37 17 0.38
39 21 0.47
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (35 bp):
AAATATAATATATTTTTAAAAAAAAAGGTTTTTGA
Found at i:95590 original size:41 final size:38
Alignment explanation
Indices: 95545--95698 Score: 177
Period size: 41 Copynumber: 3.9 Consensus size: 38
95535 AAAAAATCGG
**
95545 TTTTTGAAAATATATATATTATATAATTTTGAAAACAA
1 TTTTTGAAAATATATATATTATATAATTTTGAAAATGA
* *
95583 TTTTTTTTAAAATATTATATATTATATAGTTTTGAAAATGA
1 --TTTTTGAAAATA-TATATATTATATAATTTTGAAAATGA
*
95624 TTTTTGAAAATATATATA-T-TATAGTTTTGAAAATGA
1 TTTTTGAAAATATATATATTATATAATTTTGAAAATGA
* *
95660 TTTTTGAATATATATATATAATATATAGTTTTTGAAAAT
1 TTTTTGAA-A-ATATATATATTATATA-ATTTTGAAAAT
95699 ATATATATAA
Statistics
Matches: 102, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
36 25 0.25
37 2 0.02
38 15 0.15
39 12 0.12
40 15 0.15
41 33 0.32
ACGTcount: A:0.42, C:0.01, G:0.08, T:0.49
Consensus pattern (38 bp):
TTTTTGAAAATATATATATTATATAATTTTGAAAATGA
Found at i:95638 original size:36 final size:35
Alignment explanation
Indices: 95598--95775 Score: 140
Period size: 36 Copynumber: 5.2 Consensus size: 35
95588 TTTAAAATAT
95598 TATATATTATATAGTTTTGAAAATGATTTTTGAAAA
1 TATATA-TATATAGTTTTGAAAATGATTTTTGAAAA
95634 TATATATATTATAGTTTTGAAAATGATTTTTG--AA
1 TATATATA-TATAGTTTTGAAAATGATTTTTGAAAA
* * * * ** *
95668 TATATATATATA-ATAT--ATA-GTTTTTGAAAATA
1 TATATATATATAGTTTTGAAAATGATTTT-TGAAAA
* *
95700 TATATATAATATA-TTTTGAAAA-CATTTTTAAAAA
1 TATATAT-ATATAGTTTTGAAAATGATTTTTGAAAA
* *
95734 TATATATATATTAGTTTTTGAAAACG-TTTTGGAAAA
1 TATATATATA-TAG-TTTTGAAAATGATTTTTGAAAA
95770 TATATA
1 TATATA
95776 AATTGAAAAT
Statistics
Matches: 114, Mismatches: 17, Indels: 22
0.75 0.11 0.14
Matches are distributed among these distances:
29 5 0.04
30 2 0.02
32 10 0.09
33 14 0.12
34 23 0.20
35 8 0.07
36 52 0.46
ACGTcount: A:0.43, C:0.01, G:0.09, T:0.47
Consensus pattern (35 bp):
TATATATATATAGTTTTGAAAATGATTTTTGAAAA
Found at i:95691 original size:28 final size:28
Alignment explanation
Indices: 95660--95713 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
95650 TTGAAAATGA
*
95660 TTTTTGAATATATATATATAATATATAG
1 TTTTTGAAAATATATATATAATATATAG
95688 TTTTTGAAAATATATATATAATATAT
1 TTTTTGAAAATATATATATAATATAT
95714 TTTGAAAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (28 bp):
TTTTTGAAAATATATATATAATATATAG
Found at i:95698 original size:64 final size:59
Alignment explanation
Indices: 95624--95757 Score: 180
Period size: 64 Copynumber: 2.2 Consensus size: 59
95614 TTGAAAATGA
* *
95624 TTTTTGAAAATATATATAT-TATAGTTTTGAAAATGATTTTTGAATATATATATATAATATATAG
1 TTTTTGAAAATATATATATATATA-TTTTGAAAA-CATTTTT-AA-AAATATATAT-ATAT-TAG
95688 TTTTTGAAAATATATATATAATATATTTTGAAAACATTTTTAAAAATATATATATATTAG
1 TTTTTGAAAATATATATAT-ATATATTTTGAAAACATTTTTAAAAATATATATATATTAG
95748 TTTTTGAAAA
1 TTTTTGAAAA
95758 CGTTTTGGAA
Statistics
Matches: 66, Mismatches: 2, Indels: 8
0.87 0.03 0.11
Matches are distributed among these distances:
60 13 0.20
61 4 0.06
62 9 0.14
63 2 0.03
64 25 0.38
65 9 0.14
66 4 0.06
ACGTcount: A:0.44, C:0.01, G:0.07, T:0.48
Consensus pattern (59 bp):
TTTTTGAAAATATATATATATATATTTTGAAAACATTTTTAAAAATATATATATATTAG
Found at i:95700 original size:24 final size:24
Alignment explanation
Indices: 95661--95721 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 24
95651 TGAAAATGAT
*
95661 TTTTGAATATATATATATAATATATA
1 TTTTGAAAATATATATAT-A-ATATA
95687 GTTTTTGAAAATATATATATAATATA
1 --TTTTGAAAATATATATATAATATA
95713 TTTTGAAAA
1 TTTTGAAAA
95722 CATTTTTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 9 0.28
26 5 0.16
27 1 0.03
28 17 0.53
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.48
Consensus pattern (24 bp):
TTTTGAAAATATATATATAATATA
Found at i:95737 original size:34 final size:35
Alignment explanation
Indices: 95545--95775 Score: 131
Period size: 36 Copynumber: 6.5 Consensus size: 35
95535 AAAAAATCGG
* *
95545 TTTTTGAAAATATATATATTATATAATTTTGAAAACAA
1 TTTTTAAAAATATATATA-TAT-TAGTTTTGAAAAC-A
* *
95583 TTTTTTTTAAAATATTATATATTATATAGTTTTGAAAATGA
1 --TTTTTAAAAATA-TATATA-TAT-TAGTTTTGAAAA-CA
* *
95624 TTTTTGAAAATATATATAT-TATAGTTTTGAAAATGA
1 TTTTTAAAAATATATATATAT-TAGTTTTGAAAA-CA
* * * * *
95660 TTTTT--GAATATATATATA-TA-ATAT--ATA-G
1 TTTTTAAAAATATATATATATTAGTTTTGAAAACA
95688 TTTTTGAAAATATATATATA-ATATA-TTTTGAAAACA
1 TTTTT-AAAA-ATATATATATAT-TAGTTTTGAAAACA
*
95724 TTTTTAAAAATATATATATATTAGTTTTTGAAAACG
1 TTTTTAAAAATATATATATATTAG-TTTTGAAAACA
**
95760 TTTTGGAAAATATATA
1 TTTTTAAAAATATATA
95776 AATTGAAAAT
Statistics
Matches: 159, Mismatches: 17, Indels: 34
0.76 0.08 0.16
Matches are distributed among these distances:
28 5 0.03
30 2 0.01
31 2 0.01
32 11 0.07
33 6 0.04
34 22 0.14
35 8 0.05
36 51 0.32
37 1 0.01
38 6 0.04
39 11 0.07
40 11 0.07
41 23 0.14
ACGTcount: A:0.43, C:0.01, G:0.08, T:0.48
Consensus pattern (35 bp):
TTTTTAAAAATATATATATATTAGTTTTGAAAACA
Found at i:95773 original size:100 final size:103
Alignment explanation
Indices: 95585--95775 Score: 266
Period size: 100 Copynumber: 1.9 Consensus size: 103
95575 GAAAACAATT
* * * *
95585 TTTTTTAAAATATTATATATTATATAGTTTTGAAAATGATTTTTGAAAATATATATATTATAGTT
1 TTTTTGAAAATATTATATATAATATAGTTTTGAAAATCATTTTTAAAAATATATATATTATAGTT
* * *
95650 TTGAAAATGATTTTTGAATATATATATATAATATATAG
66 TTGAAAACGATTTTGGAAAATATATATATAATATATAG
95688 TTTTTGAAAATA-TATATATAATATA-TTTTGAAAA-CATTTTTAAAAATATATATA-TATTAGT
1 TTTTTGAAAATATTATATATAATATAGTTTTGAAAATCATTTTTAAAAATATATATATTA-TAG-
95749 TTTTGAAAACG-TTTTGGAAAATATATA
64 TTTTGAAAACGATTTTGGAAAATATATA
95776 AATTGAAAAT
Statistics
Matches: 79, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
99 2 0.03
100 35 0.44
101 19 0.24
102 12 0.15
103 11 0.14
ACGTcount: A:0.43, C:0.01, G:0.08, T:0.48
Consensus pattern (103 bp):
TTTTTGAAAATATTATATATAATATAGTTTTGAAAATCATTTTTAAAAATATATATATTATAGTT
TTGAAAACGATTTTGGAAAATATATATATAATATATAG
Found at i:95792 original size:100 final size:102
Alignment explanation
Indices: 95584--95803 Score: 265
Period size: 100 Copynumber: 2.2 Consensus size: 102
95574 TGAAAACAAT
* * * *
95584 TTTTTTTAAAATATTATATATTATATAGTTTTGAAAATGATTTTTGAAAATATATATATTATAGT
1 TTTTTTGAAAATA-TATATATAATATAGTTTTGAAAATCATTTTTAAAAATATATATATTATAGT
* * * *
95649 TTTGAAAATGATTTTTGAATATATATATATAATATATA
65 TTTGAAAACGATTTTGGAAAATATATAAATAATATATA
*
95687 GTTTTTGAAAATATATATATAATATA-TTTTGAAAA-CATTTTTAAAAATATATATA-TATTAGT
1 TTTTTTGAAAATATATATATAATATAGTTTTGAAAATCATTTTTAAAAATATATATATTA-TAG-
95749 TTTTGAAAACG-TTTTGGAAAATATATAAATTGAA-A-ATA
64 TTTTGAAAACGATTTTGGAAAATATATAAA-T-AATATATA
95787 TTTTTTGAAAAT-TATAT
1 TTTTTTGAAAATATATAT
95804 TAGTTTTTTA
Statistics
Matches: 103, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
99 7 0.07
100 50 0.49
101 21 0.20
102 14 0.14
103 11 0.11
ACGTcount: A:0.43, C:0.01, G:0.08, T:0.48
Consensus pattern (102 bp):
TTTTTTGAAAATATATATATAATATAGTTTTGAAAATCATTTTTAAAAATATATATATTATAGTT
TTGAAAACGATTTTGGAAAATATATAAATAATATATA
Found at i:96264 original size:23 final size:23
Alignment explanation
Indices: 96230--96289 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
96220 GATACACGCC
* *
96230 AAACGGAAACATCTCGGTACCCA
1 AAACAGAAACATATCGGTACCCA
*
96253 AAACAGACACATATCGGTACCCA
1 AAACAGAAACATATCGGTACCCA
96276 AAACAGAAACATAT
1 AAACAGAAACATAT
96290 TGGAACAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.47, C:0.27, G:0.13, T:0.13
Consensus pattern (23 bp):
AAACAGAAACATATCGGTACCCA
Found at i:96691 original size:64 final size:64
Alignment explanation
Indices: 96575--96780 Score: 206
Period size: 64 Copynumber: 3.2 Consensus size: 64
96565 ATTCAAGGTG
* * * *
96575 ATGCACCGATGCATCAAAC-CATGCATCGATGCACCTATGAT-TTAATT-GAACATCGAATGCAT
1 ATGCATCGATGCA-C-AACTCATGCATCGATGCACC-AGGATATT-TTTCAAACATCGAATGCAT
96637 TTC
62 TTC
* * * *
96640 ATGCACCGATGCAC-TCTCCATGCATCGATGCACTAGGA-ATATTTTCAAACATCCAATGCATTT
1 ATGCATCGATGCACAACT-CATGCATCGATGCACCAGGATAT-TTTTCAAACATCGAATGCATTT
*
96703 G
64 C
* * * *
96704 ATGCATCGATGCACAAGTCATGCATCGATGCACCATGCTATTTTTCAAACATCGAATGCATTTT
1 ATGCATCGATGCACAACTCATGCATCGATGCACCAGGATATTTTTCAAACATCGAATGCATTTC
96768 ATGCATCGATGCA
1 ATGCATCGATGCA
96781 TCCTTAGTGC
Statistics
Matches: 119, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
62 1 0.01
63 6 0.05
64 96 0.81
65 16 0.13
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.29
Consensus pattern (64 bp):
ATGCATCGATGCACAACTCATGCATCGATGCACCAGGATATTTTTCAAACATCGAATGCATTTC
Found at i:103875 original size:64 final size:63
Alignment explanation
Indices: 103676--103873 Score: 238
Period size: 64 Copynumber: 3.1 Consensus size: 63
103666 ATTCAAGGTG
* *
103676 ATGCACCGATGCATCAAACCATGCATCGATGCACCTATG-ATTTAATT-GAACATCGAATGCATT
1 ATGCACCGATGCA-CAAACCATGCATCGATGCACC-AGGAATTT--TTCAAACATCGAATGCATT
103739 TC
62 TC
*** * *
103741 ATGCACCGATGCACTCTCCATGCATCGATGCACTAGGAATATTTTCAAACATCGAATGCATTTG
1 ATGCACCGATGCACAAACCATGCATCGATGCACCAGGAAT-TTTTCAAACATCGAATGCATTTC
* * *
103805 ATGCATCGATGCACAAGCCATGCATCGATGCACCAGGCAATTTTTCAAACATCGAATGCATTTT
1 ATGCACCGATGCACAAACCATGCATCGATGCACCAGG-AATTTTTCAAACATCGAATGCATTTC
103869 ATGCA
1 ATGCA
103874 TCCTTAGTGC
Statistics
Matches: 116, Mismatches: 13, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
63 4 0.03
64 94 0.81
65 18 0.16
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (63 bp):
ATGCACCGATGCACAAACCATGCATCGATGCACCAGGAATTTTTCAAACATCGAATGCATTTC
Found at i:103945 original size:8 final size:8
Alignment explanation
Indices: 103932--103990 Score: 54
Period size: 8 Copynumber: 7.9 Consensus size: 8
103922 ATTTTACACT
103932 GATGCATC
1 GATGCATC
103940 GATGCATC
1 GATGCATC
**
103948 CTTG-ATC
1 GATGCATC
103955 -ATGCATC
1 GATGCATC
103962 GATGCATC
1 GATGCATC
**
103970 CTTG-ATC
1 GATGCATC
103977 -ATGCATC
1 GATGCATC
103984 GATGCAT
1 GATGCAT
103991 GAGACGCTCC
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
6 4 0.10
7 12 0.29
8 25 0.61
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (8 bp):
GATGCATC
Found at i:103958 original size:22 final size:22
Alignment explanation
Indices: 103933--103990 Score: 116
Period size: 22 Copynumber: 2.6 Consensus size: 22
103923 TTTTACACTG
103933 ATGCATCGATGCATCCTTGATC
1 ATGCATCGATGCATCCTTGATC
103955 ATGCATCGATGCATCCTTGATC
1 ATGCATCGATGCATCCTTGATC
103977 ATGCATCGATGCAT
1 ATGCATCGATGCAT
103991 GAGACGCTCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (22 bp):
ATGCATCGATGCATCCTTGATC
Found at i:105584 original size:14 final size:14
Alignment explanation
Indices: 105565--105597 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
105555 TATTCTTAAT
105565 TTTATTTATATTTA
1 TTTATTTATATTTA
*
105579 TTTATTTATTTTTA
1 TTTATTTATATTTA
105593 TTTAT
1 TTTAT
105598 ATATTTCACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTATTTATATTTA
Found at i:105586 original size:18 final size:18
Alignment explanation
Indices: 105565--105603 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
105555 TATTCTTAAT
*
105565 TTTATTTATATTTATTTA
1 TTTATTTATATTTATATA
*
105583 TTTATTTTTATTTATATA
1 TTTATTTATATTTATATA
105601 TTT
1 TTT
105604 CACTATTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTTATATTTATATA
Found at i:105602 original size:14 final size:14
Alignment explanation
Indices: 105542--105603 Score: 54
Period size: 14 Copynumber: 4.3 Consensus size: 14
105532 TTGTTATTTC
105542 ATTTTTATTT-TAAT
1 ATTTTTATTTAT-AT
* *
105556 ATTCTTAATTTTATTT
1 ATT-TTTA-TTTATAT
* *
105572 ATATTTATTTATTT
1 ATTTTTATTTATAT
105586 ATTTTTATTTATAT
1 ATTTTTATTTATAT
105600 ATTT
1 ATTT
105604 CACTATTTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
14 26 0.67
15 6 0.15
16 6 0.15
17 1 0.03
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (14 bp):
ATTTTTATTTATAT
Found at i:106380 original size:3 final size:3
Alignment explanation
Indices: 106370--106422 Score: 83
Period size: 3 Copynumber: 18.0 Consensus size: 3
106360 AAAAAATTAT
106370 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
106416 TAGA TAA
1 TA-A TAA
106423 CAAAGATAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.09
3 40 0.85
4 3 0.06
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:107624 original size:11 final size:11
Alignment explanation
Indices: 107605--107638 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
107595 ACGTGGTTGA
107605 GATAATGGTGG
1 GATAATGGTGG
* *
107616 GATAGTGGTGA
1 GATAATGGTGG
107627 GATAATGGTGG
1 GATAATGGTGG
107638 G
1 G
107639 TTGTTGGATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.47, T:0.26
Consensus pattern (11 bp):
GATAATGGTGG
Found at i:107725 original size:15 final size:16
Alignment explanation
Indices: 107702--107745 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
107692 TGAGACATGC
*
107702 AAAAGTAATAATAA-A
1 AAAATTAATAATAATA
107717 AAAATTAATAATAATA
1 AAAATTAATAATAATA
* *
107733 ATAATAAATAATA
1 AAAATTAATAATA
107746 TTTTTTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (16 bp):
AAAATTAATAATAATA
Found at i:113189 original size:3 final size:3
Alignment explanation
Indices: 113183--113232 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
113173 TGTCCTTTTT
* * *
113183 TTA TTA TTA TTA TTA GTA TTA TTA TCA TTA TTA TT- TAA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
113229 TTA T
1 TTA T
113233 CACTTTATAG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 3 0.08
3 36 0.92
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:114860 original size:5 final size:5
Alignment explanation
Indices: 114819--114869 Score: 57
Period size: 5 Copynumber: 9.8 Consensus size: 5
114809 GTTTTACTTC
* * *
114819 TTTTCA TTTTCA TTTTA TTTTG TTTTG TTTTA TTTTA GTTTA TTTTA TTTT
1 TTTT-A TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
114870 TGTGGAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
5 31 0.76
6 10 0.24
ACGTcount: A:0.14, C:0.04, G:0.06, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:115538 original size:214 final size:214
Alignment explanation
Indices: 115169--115600 Score: 828
Period size: 214 Copynumber: 2.0 Consensus size: 214
115159 ACCCTTCCTC
115169 ACACGTAATCGACTCCGGAACTCTTAAAAATGAATTTTTGGTAAAACTTAGATCATTTTTTTAGG
1 ACACGTAATCGACTCCGGAACTCTTAAAAATGAATTTTTGGTAAAACTTAGATCATTTTTTTAGG
115234 TTTCCGACCTACCTAACTTAAAGGTTGGTAACGACTCCAAAATCAAATTGTTTTCAAAATTATAT
66 TTTCCGACCTACCTAACTTAAAGGTTGGTAACGACTCCAAAATCAAATTGTTTTCAAAATTATAT
115299 TTCATTGTCTTACCCGAATTAATTTTTTTAAGTCTAACGAATCCCCGAGGGAGACGTTATGACCA
131 TTCATTGTCTTACCCGAATTAATTTTTTTAAGTCTAACGAATCCCCGAGGGAGACGTTATGACCA
*
115364 TGAGTGAGAGTCCTTGTTT
196 TAAGTGAGAGTCCTTGTTT
*
115383 ACACGTAATCGATTCCGGAACTCTTAAAAATGAATTTTTGGTAAAACTTAGATCATTTTTTTAGG
1 ACACGTAATCGACTCCGGAACTCTTAAAAATGAATTTTTGGTAAAACTTAGATCATTTTTTTAGG
* *
115448 TTTTCGATCTACCTAACTTAAAGGTTGGTAACGACTCCAAAATCAAATTGTTTTCAAAATTATAT
66 TTTCCGACCTACCTAACTTAAAGGTTGGTAACGACTCCAAAATCAAATTGTTTTCAAAATTATAT
115513 TTCATTGTCTTACCCGAATTAATTTTTTTAAGTCTAACGAATCCCCGAGGGAGACGTTATGACCA
131 TTCATTGTCTTACCCGAATTAATTTTTTTAAGTCTAACGAATCCCCGAGGGAGACGTTATGACCA
115578 TAAGTGAGAGTCCTTGTTT
196 TAAGTGAGAGTCCTTGTTT
115597 ACAC
1 ACAC
115601 TAAAAGTATG
Statistics
Matches: 214, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
214 214 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (214 bp):
ACACGTAATCGACTCCGGAACTCTTAAAAATGAATTTTTGGTAAAACTTAGATCATTTTTTTAGG
TTTCCGACCTACCTAACTTAAAGGTTGGTAACGACTCCAAAATCAAATTGTTTTCAAAATTATAT
TTCATTGTCTTACCCGAATTAATTTTTTTAAGTCTAACGAATCCCCGAGGGAGACGTTATGACCA
TAAGTGAGAGTCCTTGTTT
Found at i:122211 original size:11 final size:11
Alignment explanation
Indices: 122195--122220 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
122185 TAAATTATAT
122195 ATTATTTTTAA
1 ATTATTTTTAA
122206 ATTATTTTTAA
1 ATTATTTTTAA
122217 ATTA
1 ATTA
122221 AAAATAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
ATTATTTTTAA
Found at i:122668 original size:2 final size:2
Alignment explanation
Indices: 122659--122754 Score: 57
Period size: 2 Copynumber: 52.5 Consensus size: 2
122649 TATTAAAAAA
*
122659 AT AT -T AT AT AT AT AT AT AT AT AT AT A- AT AT -T A- AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
122697 TT A- AT TT AA AT -T A- AA AT AT AT AT AT A- AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
122735 TT A- AT TT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
122755 CCCGGCCCGA
Statistics
Matches: 70, Mismatches: 15, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
1 9 0.13
2 61 0.87
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:122945 original size:2 final size:2
Alignment explanation
Indices: 122938--122987 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
122928 TTGCCATCCC
122938 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
122980 TA TA TA TA
1 TA TA TA TA
122988 ATAATATGTG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:123826 original size:15 final size:16
Alignment explanation
Indices: 123808--123837 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
123798 ATCTTTTAAT
123808 TTTAAATAAT-TTATA
1 TTTAAATAATCTTATA
123823 TTTAAATAATCTTAT
1 TTTAAATAATCTTAT
123838 TCCGAAGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTAAATAATCTTATA
Found at i:124796 original size:22 final size:21
Alignment explanation
Indices: 124771--124812 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
124761 TCTTTACTTC
124771 AAAATGAAACATTAATAATAAAA
1 AAAAT-AAACATTAA-AATAAAA
*
124794 AAAATAAAGATTAAAATAA
1 AAAATAAACATTAAAATAA
124813 TTATTTAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 8 0.44
23 5 0.28
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.21
Consensus pattern (21 bp):
AAAATAAACATTAAAATAAAA
Found at i:129183 original size:21 final size:21
Alignment explanation
Indices: 129157--129204 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
129147 TTCATAGCTC
129157 ATATCACTCAAACACTTCACG
1 ATATCACTCAAACACTTCACG
129178 ATATCACTCAAACACTTCACG
1 ATATCACTCAAACACTTCACG
*
129199 ACATCA
1 ATATCA
129205 TGCATTTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.40, C:0.33, G:0.04, T:0.23
Consensus pattern (21 bp):
ATATCACTCAAACACTTCACG
Found at i:131995 original size:16 final size:16
Alignment explanation
Indices: 131970--132002 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
131960 CATAGATTAA
131970 ATTGATAATATA-GAT
1 ATTGATAATATATGAT
131985 ATTGAATAATATATGAT
1 ATTG-ATAATATATGAT
132002 A
1 A
132003 ATTACATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 8 0.50
17 4 0.25
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.39
Consensus pattern (16 bp):
ATTGATAATATATGAT
Found at i:134929 original size:15 final size:15
Alignment explanation
Indices: 134889--134969 Score: 58
Period size: 15 Copynumber: 5.5 Consensus size: 15
134879 AATTTTAATT
*
134889 TATTTAAACAATTTA
1 TATTTAAATAATTTA
* **
134904 TGTTTGCATAATTTA
1 TATTTAAATAATTTA
**
134919 TATTTAAATAATACA
1 TATTTAAATAATTTA
* *
134934 TATTTTAATAATTGA
1 TATTTAAATAATTTA
*
134949 TA-ATAAATTAATTTA
1 TATTTAAA-TAATTTA
134964 T-TTTAA
1 TATTTAA
134970 TAAGATACTT
Statistics
Matches: 48, Mismatches: 16, Indels: 4
0.71 0.24 0.06
Matches are distributed among these distances:
14 3 0.06
15 45 0.94
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (15 bp):
TATTTAAATAATTTA
Found at i:135706 original size:19 final size:20
Alignment explanation
Indices: 135672--135713 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
135662 TATTAATAAA
135672 AAAATACAAGAAAAAAATAT
1 AAAATACAAGAAAAAAATAT
* *
135692 AAAATATAA-AAAAAATTAT
1 AAAATACAAGAAAAAAATAT
135711 AAA
1 AAA
135714 TTTCTGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.19
Consensus pattern (20 bp):
AAAATACAAGAAAAAAATAT
Found at i:139660 original size:61 final size:62
Alignment explanation
Indices: 139480--139722 Score: 279
Period size: 61 Copynumber: 4.0 Consensus size: 62
139470 AGAGTGAACA
* * *
139480 AGTACAGATTACTATGACTCATGTACCTTTGTGGTGCATGGGGTGGAGTGATAATTGAATAC
1 AGTACAGATCACTATGACTCATGTACCTTTGTAGTGCATGAGGTGGAGTGATAATTGAATAC
* * * * *
139542 A-TAATAGATCA-TATGA-TCATGTATCTTT-TAGTACATGGGGTAGAGTGATAATTGAATAC
1 AGT-ACAGATCACTATGACTCATGTACCTTTGTAGTGCATGAGGTGGAGTGATAATTGAATAC
*
139601 AGTACAGATCACTCATGACTCATATACCTTTGT-G-GCATGAGGTGGAGTGATAATTGAATAC
1 AGTACAGATCACT-ATGACTCATGTACCTTTGTAGTGCATGAGGTGGAGTGATAATTGAATAC
* * *
139662 ATTACATATATCACTATGACTCATGTAAC-TT-T-GTGCATGAGGTGGAGTGATAATTGAATAC
1 AGTAC--AGATCACTATGACTCATGTACCTTTGTAGTGCATGAGGTGGAGTGATAATTGAATAC
139723 TGCAAAGATC
Statistics
Matches: 156, Mismatches: 16, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
59 36 0.23
60 15 0.10
61 67 0.43
62 30 0.19
63 8 0.05
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.33
Consensus pattern (62 bp):
AGTACAGATCACTATGACTCATGTACCTTTGTAGTGCATGAGGTGGAGTGATAATTGAATAC
Found at i:139713 original size:122 final size:122
Alignment explanation
Indices: 139480--139744 Score: 351
Period size: 122 Copynumber: 2.2 Consensus size: 122
139470 AGAGTGAACA
* * *
139480 AGTACAGATTACT-ATGACTCATGTACCTTTGTGGTGCATGGGGTGGAGTGATAATTGAATACAT
1 AGTACAGATCACTCATGACTCATATACCTTTGTGGTGCATGAGGTGGAGTGATAATTGAATACAT
* *
139544 AATAGATCATATGATCATGTATCTTTTAGTACATGGGGTAGAGTGATAATTGAATAC
66 AATAGATCATATGATCATGTAACTTTTAGTACATGAGGTAGAGTGATAATTGAATAC
139601 AGTACAGATCACTCATGACTCATATACCTTTGT-G-GCATGAGGTGGAGTGATAATTGAATACAT
1 AGTACAGATCACTCATGACTCATATACCTTTGTGGTGCATGAGGTGGAGTGATAATTGAATACA-
* * *
139664 TACATATATCACTATGACTCATGTAAC-TTT-GTGCATGAGGTGGAGTGATAATTGAATAC
65 TA-ATAGATCA-TATGA-TCATGTAACTTTTAGTACATGAGGTAGAGTGATAATTGAATAC
* * *
139723 TGCAAAGATCACTCAATGACTC
1 AGTACAGATCACTC-ATGACTC
139745 GAGTATCATA
Statistics
Matches: 127, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
120 27 0.21
121 15 0.12
122 62 0.49
123 15 0.12
124 8 0.06
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (122 bp):
AGTACAGATCACTCATGACTCATATACCTTTGTGGTGCATGAGGTGGAGTGATAATTGAATACAT
AATAGATCATATGATCATGTAACTTTTAGTACATGAGGTAGAGTGATAATTGAATAC
Found at i:145941 original size:105 final size:105
Alignment explanation
Indices: 145759--146030 Score: 352
Period size: 105 Copynumber: 2.6 Consensus size: 105
145749 AGAGTTAAGT
* * *
145759 AAGTTCTTCTCATTATGAACTTCCTCCTTTAAGGA-TAATTCTTCTCATTATGAACTCTTATGGA
1 AAGTTCTTCTCATTATGAACTTTCTCCTTTAA-GACGAGTTCTTCTCATTATGAACTCTTATGGA
* *
145823 AATATTGGTTCACCTCCTTATACGATGGATTTGA-AAGGAAC
65 AATATTGATTCACCTCCCTATACGATGGATTT-ACAAGGAAC
*
145864 AAGTTCATT-TCATTATGAACTTTCTCCTTTAAGACGAGTTCTTCTCATTATGAACTCTTCTGGA
1 AAGTTC-TTCTCATTATGAACTTTCTCCTTTAAGACGAGTTCTTCTCATTATGAACTCTTATGGA
* * ** *
145928 AATGTTGATTCACCTCCCTCTGGGGTGGATTTACAAGGAAC
65 AATATTGATTCACCTCCCTATACGATGGATTTACAAGGAAC
* * * *
145969 ATGTTCTTCTCATTACGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTAAGAACTTCTTAT
1 AAGTTCTTCTCATTATGAACTTTCTCCTTTAAGACGAGTTCTTCTCATTATGAAC-TCTTAT
146031 CTCTTATCAG
Statistics
Matches: 146, Mismatches: 16, Indels: 9
0.85 0.09 0.05
Matches are distributed among these distances:
104 5 0.03
105 134 0.92
106 7 0.05
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.39
Consensus pattern (105 bp):
AAGTTCTTCTCATTATGAACTTTCTCCTTTAAGACGAGTTCTTCTCATTATGAACTCTTATGGAA
ATATTGATTCACCTCCCTATACGATGGATTTACAAGGAAC
Found at i:146049 original size:22 final size:21
Alignment explanation
Indices: 146024--146097 Score: 52
Period size: 20 Copynumber: 3.6 Consensus size: 21
146014 CATTAAGAAC
146024 TTCTTATCTCTTATCAGATGAG
1 TTCTT-TCTCTTATCAGATGAG
* *
146046 TTC-TTCTAATTA--AGA--AC
1 TTCTTTCT-CTTATCAGATGAG
146063 TTCTTCTCTCTTATCAGATGAG
1 TTCTT-TCTCTTATCAGATGAG
146085 TTC-TTCTCATTAT
1 TTCTTTCTC-TTAT
146098 GAACTCTCCA
Statistics
Matches: 40, Mismatches: 4, Indels: 17
0.66 0.07 0.28
Matches are distributed among these distances:
17 4 0.10
18 4 0.10
19 6 0.15
20 10 0.25
21 9 0.22
22 7 0.17
ACGTcount: A:0.23, C:0.20, G:0.09, T:0.47
Consensus pattern (21 bp):
TTCTTTCTCTTATCAGATGAG
Found at i:146058 original size:39 final size:39
Alignment explanation
Indices: 146004--146102 Score: 171
Period size: 39 Copynumber: 2.5 Consensus size: 39
145994 CCTTTAGGAC
146004 GAGTTCTTCTCATTAAGAACTTCTTATCTCTTATCAGAT
1 GAGTTCTTCTCATTAAGAACTTCTTATCTCTTATCAGAT
* *
146043 GAGTTCTTCTAATTAAGAACTTCTTCTCTCTTATCAGAT
1 GAGTTCTTCTCATTAAGAACTTCTTATCTCTTATCAGAT
*
146082 GAGTTCTTCTCATTATGAACT
1 GAGTTCTTCTCATTAAGAACT
146103 CTCCATTGGA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.43
Consensus pattern (39 bp):
GAGTTCTTCTCATTAAGAACTTCTTATCTCTTATCAGAT
Found at i:148151 original size:20 final size:20
Alignment explanation
Indices: 148122--148164 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
148112 ATTTCACCAC
*
148122 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
148142 ATGCATCTATATGATCCTAA
1 ATGCAACTATATGATCCTAA
148162 ATG
1 ATG
148165 GGCTTTTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:154762 original size:20 final size:20
Alignment explanation
Indices: 154703--154763 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
154693 AAAATAAGGA
*
154703 AAAT-AAAAAGTAAAATTATT
1 AAATAAAAAAGTAAAA-TAAT
* *
154723 TAA-AAAAAA-TTAAATAAAT
1 AAATAAAAAAGTAAAAT-AAT
154742 AAATAAAAAAGTAAAATAAT
1 AAATAAAAAAGTAAAATAAT
154762 AA
1 AA
154764 TGCTATGACA
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
18 1 0.03
19 8 0.25
20 18 0.56
21 5 0.16
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (20 bp):
AAATAAAAAAGTAAAATAAT
Found at i:157248 original size:53 final size:52
Alignment explanation
Indices: 157085--157319 Score: 231
Period size: 52 Copynumber: 4.4 Consensus size: 52
157075 GGAACCCTTA
* *
157085 AAAATTAGGCTTAGTTTCCTTTTAAAAACTCA-TTGAAAATAATTATCAAGAAACCCCT
1 AAAATTAGGCTTAGTTT-C-TTT-AAAATTCATTTGAAAA-CA-TA--AAGAAACCCCT
* * * * *
157143 AAAAATCAGGCTTAGTTTC-TAAAAATTCATTTGAAAACATCAATAAATCCCT
1 -AAAATTAGGCTTAGTTTCTTTAAAATTCATTTGAAAACATAAAGAAACCCCT
* * * *
157195 AAAACTTAGGCTTAATTTCTTTGAAATTCATTTCAAAACATTAAGAAACCCCT
1 AAAA-TTAGGCTTAGTTTCTTTAAAATTCATTTGAAAACATAAAGAAACCCCT
* *
157248 AAAATTAGGCTTAGCTTCTTTCAAATTCATTTGAAAACATAAAGAAACCCCT
1 AAAATTAGGCTTAGTTTCTTTAAAATTCATTTGAAAACATAAAGAAACCCCT
* *
157300 GAAAATCAGACTTAGTTTCT
1 -AAAATTAGGCTTAGTTTCT
157320 AAAAATCTTT
Statistics
Matches: 149, Mismatches: 23, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
51 4 0.03
52 64 0.43
53 47 0.32
54 1 0.01
55 8 0.05
56 8 0.05
58 1 0.01
59 16 0.11
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (52 bp):
AAAATTAGGCTTAGTTTCTTTAAAATTCATTTGAAAACATAAAGAAACCCCT
Found at i:157390 original size:39 final size:35
Alignment explanation
Indices: 157347--157429 Score: 94
Period size: 36 Copynumber: 2.2 Consensus size: 35
157337 AGCGAAACTA
*
157347 TCTCAAGCGAGATAAAATATTCTGTTTCAAGGGAAACCG
1 TCTCAAG-GAGA-AAAA-ATT-TGTTTCAAGGGAAAACG
* *
157386 TCTCAATGGAGACAAAATTTGTTTCAAGGGAAAATG
1 TCTCAA-GGAGAAAAAATTTGTTTCAAGGGAAAACG
157422 TCTCAAGG
1 TCTCAAGG
157430 GAGACTGTCT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
35 2 0.05
36 21 0.52
37 3 0.08
38 3 0.08
39 10 0.25
40 1 0.03
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.27
Consensus pattern (35 bp):
TCTCAAGGAGAAAAAATTTGTTTCAAGGGAAAACG
Found at i:157441 original size:51 final size:51
Alignment explanation
Indices: 157373--157479 Score: 178
Period size: 51 Copynumber: 2.1 Consensus size: 51
157363 ATATTCTGTT
*
157373 TCAAGGGAAACCGTCTCAATGGAGACAAAATTTGTTTCAAGGGAAAATGTC
1 TCAAGGGAAACCGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAAATGTC
* * *
157424 TCAAGGGAGACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAATTGTC
1 TCAAGGGAAACCGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAAATGTC
157475 TCAAG
1 TCAAG
157480 AAAGACAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (51 bp):
TCAAGGGAAACCGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAAATGTC
Found at i:157447 original size:15 final size:15
Alignment explanation
Indices: 157409--157449 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
157399 AAAATTTGTT
* *
157409 TCAAGGGAAAATGTC
1 TCAAGGGAGACTGTC
157424 TCAAGGGAGACTGTC
1 TCAAGGGAGACTGTC
157439 TCAAGGGAGAC
1 TCAAGGGAGAC
157450 AAAATTTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.34, C:0.17, G:0.32, T:0.17
Consensus pattern (15 bp):
TCAAGGGAGACTGTC
Found at i:157478 original size:15 final size:15
Alignment explanation
Indices: 157404--157479 Score: 53
Period size: 15 Copynumber: 4.7 Consensus size: 15
157394 GAGACAAAAT
*
157404 TTGTTTCAAGGGAAA
1 TTGTCTCAAGGGAAA
* *
157419 ATGTCTCAAGGGAGA
1 TTGTCTCAAGGGAAA
*
157434 CTGTCTCAAGGGAGACAAAA
1 TTGTCTCAA-GG-G---AAA
*
157454 TTTGTTTCAAGGGAAA
1 -TTGTCTCAAGGGAAA
157470 TTGTCTCAAG
1 TTGTCTCAAG
157480 AAAGACAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
15 29 0.62
16 5 0.11
17 1 0.02
19 1 0.02
20 4 0.09
21 7 0.15
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (15 bp):
TTGTCTCAAGGGAAA
Found at i:157504 original size:37 final size:36
Alignment explanation
Indices: 157424--157516 Score: 141
Period size: 36 Copynumber: 2.6 Consensus size: 36
157414 GGAAAATGTC
* **
157424 TCAAGGGAGACTGTCTCAAGGGAGACAAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGAAAGACAAAATTTGTT
*
157460 TCAAGGGAAATTGTCTCAAGAAAGACAAAACTTTGTT
1 TCAAGGGAAACTGTCTCAAGAAAGACAAAA-TTTGTT
157497 TCAAGGGAAACTGTCTCAAG
1 TCAAGGGAAACTGTCTCAAG
157517 GGAGACTGTC
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
36 26 0.51
37 25 0.49
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.25
Consensus pattern (36 bp):
TCAAGGGAAACTGTCTCAAGAAAGACAAAATTTGTT
Found at i:157535 original size:15 final size:15
Alignment explanation
Indices: 157497--157535 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
157487 AAACTTTGTT
*
157497 TCAAGGGAAACTGTC
1 TCAAGGGAGACTGTC
157512 TCAAGGGAGACTGTC
1 TCAAGGGAGACTGTC
*
157527 TTAAGGGAG
1 TCAAGGGAG
157536 TCAAAATTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.31, C:0.15, G:0.33, T:0.21
Consensus pattern (15 bp):
TCAAGGGAGACTGTC
Found at i:157561 original size:36 final size:36
Alignment explanation
Indices: 157512--157621 Score: 159
Period size: 36 Copynumber: 3.0 Consensus size: 36
157502 GGAAACTGTC
* *
157512 TCAAGGGAGACTGTCTTAAGGGAGTCAAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGGGAGTCAAAATTTGTT
157548 TCAAGGGAAACTGTCTCAAGGGAGAT-AAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGGGAG-TCAAAATTTGTT
* *
157584 TCAAGGGAAACTGTCTCAAGAGAGACAAAACTTTGTT
1 TCAAGGGAAACTGTCTCAAGGGAGTCAAAA-TTTGTT
157621 T
1 T
157622 TGAGAAGAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
36 59 0.88
37 8 0.12
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.28
Consensus pattern (36 bp):
TCAAGGGAAACTGTCTCAAGGGAGTCAAAATTTGTT
Found at i:157849 original size:101 final size:103
Alignment explanation
Indices: 157724--158096 Score: 459
Period size: 101 Copynumber: 3.7 Consensus size: 103
157714 TGGGAGAATG
** * * * *
157724 TCTCAAGTGAGACGATGTTTGTTTTGAGAG-AAATTGTCTCACGCGAGACAAAATTTG-GTTCAA
1 TCTCAAGTGAGACGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTTGTGTTCAA
*
157787 GTAAAAGAACTTTGAAATTTGTGTTCTGAAGGAAAATA
66 GTAAAACAACTTTGAAATTTGTGTTCTGAAGGAAAATA
* * * *
157825 TCTCAAGTGAGATGAAATTTGTTTTAAAAGAAAAATGTCTCAAGTGAGACAAAATTTGTTTTTAA
1 TCTCAAGTGAGACGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTTGTGTTCAA
*
157890 GAAAAACAACTTTGAAATTTGTGTT-TCGAAGGAAAATA
66 GTAAAACAACTTTGAAATTTGTGTTCT-GAAGGAAAATA
* *
157928 TCTCAAGTGAGACGAAATTTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTTGTTTTTA
1 TCTCAAGTGAGACGAAA-TTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTTGTGTTCA
* ***** * * *
157993 A--CAATTTTTTTTGAAATTTATGTTCCGAAGGAAAATG
65 AGTAAAACAACTTTGAAATTTGTGTTCTGAAGGAAAATA
* * *
158030 TCTCAAGTGAGACAAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGATAAAATTTGTTTTCAA
1 TCTCAAGTGAGACGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTTGTGTTCAA
158095 GT
66 GT
158097 TTGTTTCGAG
Statistics
Matches: 239, Mismatches: 26, Indels: 12
0.86 0.09 0.04
Matches are distributed among these distances:
101 71 0.30
102 67 0.28
103 54 0.23
104 47 0.20
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (103 bp):
TCTCAAGTGAGACGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTTGTGTTCAA
GTAAAACAACTTTGAAATTTGTGTTCTGAAGGAAAATA
Found at i:157866 original size:37 final size:37
Alignment explanation
Indices: 157819--157990 Score: 146
Period size: 37 Copynumber: 4.8 Consensus size: 37
157809 GTTCTGAAGG
*
157819 AAAATATCTCAAGTGAGATGAAATTTGTTTTAAAAGA
1 AAAATATCTCAAGTGAGACGAAATTTGTTTTAAAAGA
* * *
157856 AAAATGTCTCAAGTGAGACAAAATTTGTTTT-TAAG-
1 AAAATATCTCAAGTGAGACGAAATTTGTTTTAAAAGA
* ** ** *
157891 AAAA-A---CAACT---TTGAAATTTGTGTTTCGAAGG
1 AAAATATCTCAAGTGAGACGAAATTTGT-TTTAAAAGA
*
157922 AAAATATCTCAAGTGAGACGAAATTTTGTTTTAAGAGA
1 AAAATATCTCAAGTGAGACGAAA-TTTGTTTTAAAAGA
* *
157960 AAAATGTCTCAAGTGAGACAAAATTTGTTTT
1 AAAATATCTCAAGTGAGACGAAATTTGTTTT
157991 TAACAATTTT
Statistics
Matches: 105, Mismatches: 19, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
28 8 0.08
29 3 0.03
30 3 0.03
31 8 0.08
32 1 0.01
35 8 0.08
36 3 0.03
37 36 0.34
38 30 0.29
39 5 0.05
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.33
Consensus pattern (37 bp):
AAAATATCTCAAGTGAGACGAAATTTGTTTTAAAAGA
Found at i:157946 original size:66 final size:67
Alignment explanation
Indices: 157837--157963 Score: 177
Period size: 66 Copynumber: 1.9 Consensus size: 67
157827 TCAAGTGAGA
* *
157837 TGAAATTTGTTTTAAAAGAAAAATGTCTCAAGTGAGACAAAA-TTTGTTTTTA-AGAAAAACAAC
1 TGAAATTTGTTTTAAAAGAAAAATATCTCAAGTGAGACAAAATTTTGTTTTAAGAGAAAAACAAC
157900 TT
66 TT
** * *
157902 TGAAATTTGTGTTTCGAAGGAAAATATCTCAAGTGAGACGAAATTTTGTTTTAAGAGAAAAA
1 TGAAATTTGT-TTTAAAAGAAAAATATCTCAAGTGAGACAAAATTTTGTTTTAAGAGAAAAA
157964 TGTCTCAAGT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
65 10 0.19
66 27 0.51
67 9 0.17
68 7 0.13
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (67 bp):
TGAAATTTGTTTTAAAAGAAAAATATCTCAAGTGAGACAAAATTTTGTTTTAAGAGAAAAACAAC
TT
Found at i:158078 original size:18 final size:19
Alignment explanation
Indices: 158024--158084 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
158014 GTTCCGAAGG
158024 AAAATGTCTCAAGTGAGAC
1 AAAATGTCTCAAGTGAGAC
* *
158043 AAAATTTGTTTTAA--GAGA-
1 AAAA--TGTCTCAAGTGAGAC
*
158061 AAAATGTCTCAAGTGAGAT
1 AAAATGTCTCAAGTGAGAC
158080 AAAAT
1 AAAAT
158085 TTGTTTTCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
16 6 0.18
18 8 0.24
19 13 0.39
21 6 0.18
ACGTcount: A:0.46, C:0.08, G:0.18, T:0.28
Consensus pattern (19 bp):
AAAATGTCTCAAGTGAGAC
Found at i:171277 original size:6 final size:6
Alignment explanation
Indices: 171266--171290 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
171256 ACGGCTCGGC
171266 TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG T
171291 TTAATCCTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.36
Consensus pattern (6 bp):
TCGTGG
Done.