Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 39 of 182
Found at i:14799062 original size:11 final size:11
Alignment explanation
Indices: 14798993--14799078 Score: 66
Period size: 11 Copynumber: 7.5 Consensus size: 11
14798983 TTAATTTTAT
14798993 TTTAAATTTAAA
1 TTTAAA-TTAAA
*
14799005 TTTAAAGTAAA
1 TTTAAATTAAA
14799016 TTTAAATTATTAAA
1 TTT-AA--ATTAAA
*
14799030 TTTAAATTTAA
1 TTTAAATTAAA
**
14799041 GATAAATTAAAA
1 TTTAAATT-AAA
14799053 TTTAAA-TAAA
1 TTTAAATTAAA
* *
14799063 TTTAAAATCAA
1 TTTAAATTAAA
14799074 TTTAA
1 TTTAA
14799079 CTCCAAATTA
Statistics
Matches: 60, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
10 9 0.15
11 27 0.45
12 14 0.23
13 2 0.03
14 8 0.13
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.43
Consensus pattern (11 bp):
TTTAAATTAAA
Found at i:14799070 original size:17 final size:16
Alignment explanation
Indices: 14798995--14799068 Score: 98
Period size: 17 Copynumber: 4.6 Consensus size: 16
14798985 AATTTTATTT
14798995 TAAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
*
14799011 GTAAATTTAAA-TT-AT
1 -TAAATTTAAATTTAAA
14799026 TAAATTTAAATTTAAGA
1 TAAATTTAAATTTAA-A
*
14799043 TAAATTAAAATTTAAA
1 TAAATTTAAATTTAAA
14799059 TAAATTTAAA
1 TAAATTTAAA
14799069 ATCAATTTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
14 10 0.20
15 3 0.06
16 13 0.26
17 24 0.48
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
TAAATTTAAATTTAAA
Found at i:14800408 original size:19 final size:20
Alignment explanation
Indices: 14800360--14800447 Score: 92
Period size: 19 Copynumber: 4.3 Consensus size: 20
14800350 AAAATTTTAT
14800360 ATTTTTAAAAATGTAAATTTTGGA
1 ATTTTTAAAAAT-T--ATTTT-GA
*
14800384 ATTTTTTATAAA-TATTTTGA
1 A-TTTTTAAAAATTATTTTGA
14800404 A-TTTTAAAAATTATTTT-A
1 ATTTTTAAAAATTATTTTGA
*
14800422 AATTTTAAAAATTATTTTGA
1 ATTTTTAAAAATTATTTTGA
14800442 ATTTTT
1 ATTTTT
14800448 TTAATTTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
18 10 0.18
19 22 0.39
20 9 0.16
21 5 0.09
23 1 0.02
24 1 0.02
25 9 0.16
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.55
Consensus pattern (20 bp):
ATTTTTAAAAATTATTTTGA
Found at i:14800453 original size:19 final size:19
Alignment explanation
Indices: 14800387--14800446 Score: 95
Period size: 19 Copynumber: 3.2 Consensus size: 19
14800377 TTTTGGAATT
*
14800387 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTTGAA
*
14800405 TTTTAAAAATTATTTTAAA
1 TTTTAAAAATTATTTTGAA
14800424 TTTTAAAAATTATTTTGAA
1 TTTTAAAAATTATTTTGAA
14800443 TTTT
1 TTTT
14800447 TTTAATTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
18 8 0.21
19 30 0.79
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
TTTTAAAAATTATTTTGAA
Found at i:14812962 original size:6 final size:6
Alignment explanation
Indices: 14812951--14812975 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
14812941 TGATTCGTAC
14812951 AAAGAA AAAGAA AAAGAA AAAGAA A
1 AAAGAA AAAGAA AAAGAA AAAGAA A
14812976 TTGAAGGGGA
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:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:14823341 original size:21 final size:21
Alignment explanation
Indices: 14823284--14823341 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
14823274 TCCTTAGCCT
14823284 TTCTTCTTC-CTGTCTCCGAGC
1 TTCTTCTTCTCT-TCTCCGAGC
* **
14823305 TTCCTCTTGCTC-TCTCCTTGC
1 TTCTTCTT-CTCTTCTCCGAGC
14823326 TTCTTCTTCTCTTCTC
1 TTCTTCTTCTCTTCTC
14823342 TTCTTTATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 3 0.10
21 25 0.83
22 1 0.03
23 1 0.03
ACGTcount: A:0.02, C:0.40, G:0.09, T:0.50
Consensus pattern (21 bp):
TTCTTCTTCTCTTCTCCGAGC
Found at i:14823465 original size:24 final size:24
Alignment explanation
Indices: 14823438--14823501 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
14823428 CCTCCGAGCA
*
14823438 TCCTCTTCCTCTCTCCTTC-TGGCT
1 TCCTCTTCCTCT-TCCTTCTTAGCT
*
14823462 TCCTCTTCCTCTTCCCTCTTAGCT
1 TCCTCTTCCTCTTCCTTCTTAGCT
*
14823486 TCTTCTTCCTCTTCCT
1 TCCTCTTCCTCTTCCT
14823502 CTCTCCTCCT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 5 0.14
24 30 0.86
ACGTcount: A:0.02, C:0.45, G:0.05, T:0.48
Consensus pattern (24 bp):
TCCTCTTCCTCTTCCTTCTTAGCT
Found at i:14823474 original size:30 final size:30
Alignment explanation
Indices: 14823460--14823637 Score: 196
Period size: 30 Copynumber: 6.2 Consensus size: 30
14823450 CTCCTTCTGG
*
14823460 CTTCCTCTTCCTCT-TCCCTCTTAGCTTCTT
1 CTTCCTCTTCCTCTCT-CCTCCTAGCTTCTT
*
14823490 CTTCCTCTTCCTCTCTCCTCCTAGCTGCTT
1 CTTCCTCTTCCTCTCTCCTCCTAGCTTCTT
14823520 CTTCCTCTTCCTCTCTCCTCCTAGCTTCTT
1 CTTCCTCTTCCTCTCTCCTCCTAGCTTCTT
* *
14823550 CTTCCTCTTCCTCTCTCCTCCTGGC--CTC
1 CTTCCTCTTCCTCTCTCCTCCTAGCTTCTT
* *
14823578 CTT-TTCTT-CTCT-T-CTCTTAGCTTCTT
1 CTTCCTCTTCCTCTCTCCTCCTAGCTTCTT
* *
14823604 C--CTTC-TCCTCTCTCCTCTTAGCTTCTT
1 CTTCCTCTTCCTCTCTCCTCCTAGCTTCTT
*
14823631 CCTCCTC
1 CTTCCTC
14823638 CTCTCTCCTC
Statistics
Matches: 129, Mismatches: 10, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
24 7 0.05
25 8 0.06
26 8 0.06
27 18 0.14
28 5 0.04
29 3 0.02
30 79 0.61
31 1 0.01
ACGTcount: A:0.03, C:0.46, G:0.04, T:0.47
Consensus pattern (30 bp):
CTTCCTCTTCCTCTCTCCTCCTAGCTTCTT
Found at i:14823479 original size:7 final size:6
Alignment explanation
Indices: 14823460--14823569 Score: 59
Period size: 6 Copynumber: 18.2 Consensus size: 6
14823450 CTCCTTCTGG
** *
14823460 CTTCCT CTTCCT CTTCCCT CTT-AG CTTCTT CTTCCT CTTCCT C-T-CT
1 CTTCCT CTTCCT CTT-CCT CTTCCT CTTCCT CTTCCT CTTCCT CTTCCT
* * * * *
14823506 CCTCCT AGCTGCTT CTTCCT CTTCCT C-T-CT CCTCCT AGCTTCTT CTTCCT
1 CTTCCT --CTTCCT CTTCCT CTTCCT CTTCCT CTTCCT --CTTCCT CTTCCT
14823556 CTTCCT CTCTCCT C
1 CTTCCT CT-TCCT C
14823570 CTGGCCTCCT
Statistics
Matches: 80, Mismatches: 13, Indels: 21
0.70 0.11 0.18
Matches are distributed among these distances:
4 6 0.08
5 7 0.09
6 49 0.61
7 11 0.14
8 7 0.09
ACGTcount: A:0.03, C:0.47, G:0.04, T:0.46
Consensus pattern (6 bp):
CTTCCT
Found at i:14823500 original size:54 final size:54
Alignment explanation
Indices: 14823438--14823619 Score: 187
Period size: 60 Copynumber: 3.3 Consensus size: 54
14823428 CCTCCGAGCA
14823438 TCCTCTTCCTCTCTCCTTCTGGCTTCCTCTTCCTCTTCCCTCTTAGCTTCTTCT
1 TCCTCTTCCTCTCTCCTTCTGGCTTCCTCTTCCTCTTCCCTCTTAGCTTCTTCT
* *
14823492 TCCTCTTCCTCTCTCCTCCTAGCTGCTTCTTCCTCTTCCTC-TCTCCTCCTAGCTTCTTCT
1 TCCTCTTCCTCTCTCCT--T--CTG--GCTTCCTCTTCCTCTTC-CCTCTTAGCTTCTTCT
* * *
14823552 TCCTCTTCCTCTCTCCTCCTGGCCTCCTTTTCTTCTCTT--CTCTTAGCTTCTTC-
1 TCCTCTTCCTCTCTCCTTCTGGCTTCCTCTTC--CTCTTCCCTCTTAGCTTCTTCT
*
14823605 -CTTC-TCCTCTCTCCT
1 TCCTCTTCCTCTCTCCT
14823620 CTTAGCTTCT
Statistics
Matches: 110, Mismatches: 8, Indels: 23
0.78 0.06 0.16
Matches are distributed among these distances:
51 11 0.10
52 3 0.03
54 38 0.35
56 7 0.06
57 1 0.01
58 3 0.03
59 2 0.02
60 45 0.41
ACGTcount: A:0.02, C:0.46, G:0.05, T:0.47
Consensus pattern (54 bp):
TCCTCTTCCTCTCTCCTTCTGGCTTCCTCTTCCTCTTCCCTCTTAGCTTCTTCT
Found at i:14823579 original size:24 final size:26
Alignment explanation
Indices: 14823438--14823647 Score: 144
Period size: 30 Copynumber: 7.7 Consensus size: 26
14823428 CCTCCGAGCA
* *
14823438 TCCTCTTCCTCTCTCCTTCT-G-GCT
1 TCCTCTTCCTCTCTCCTCCTAGCTCT
*
14823462 TCCTCTTCCTCT-TCCCTCTTAGCTTCTTCT
1 TCCTCTTCCTCTCT-CCTCCTAG---C-TCT
14823492 TCCTCTTCCTCTCTCCTCCTAGCTGCTTCT
1 TCCTCTTCCTCTCTCCTCCTA---GC-TCT
14823522 TCCTCTTCCTCTCTCCTCCTAGCTTCTTCT
1 TCCTCTTCCTCTCTCCTCCTAG---C-TCT
*
14823552 TCCTCTTCCTCTCTCCTCCTGGC-C-
1 TCCTCTTCCTCTCTCCTCCTAGCTCT
* * * *
14823576 TCCTTTTCTTCTCTTCTCTTAGCTTCT
1 TCCTCTTCCTCTCTCCTCCTAGC-TCT
*
14823603 TCCT-TCTCCTCTCTCCTCTTAGCTTCT
1 TCCTCT-TCCTCTCTCCTCCTAGC-TCT
*
14823630 TCCTCCTCCTCTCTCCTC
1 TCCTCTTCCTCTCTCCTC
14823648 TTTCTGGCCT
Statistics
Matches: 154, Mismatches: 13, Indels: 35
0.76 0.06 0.17
Matches are distributed among these distances:
23 1 0.01
24 34 0.22
25 2 0.01
26 2 0.01
27 41 0.27
30 72 0.47
31 1 0.01
33 1 0.01
ACGTcount: A:0.02, C:0.46, G:0.05, T:0.47
Consensus pattern (26 bp):
TCCTCTTCCTCTCTCCTCCTAGCTCT
Found at i:14823606 original size:27 final size:27
Alignment explanation
Indices: 14823460--14823649 Score: 140
Period size: 27 Copynumber: 6.8 Consensus size: 27
14823450 CTCCTTCTGG
14823460 CTTCC-TCTTCCTCT-TCCCTCTTAGCTT
1 CTTCCTTC-TCCTCTCT-CCTCTTAGCTT
* *
14823487 CTTCTTCCTCTTCCTCTCTCCTCCTAGCTGCTT
1 CTTC--CTTC-TCCTCTCTCCTCTTA---GCTT
*
14823520 CTTCC-TCTTCCTCTCTCCTCCTAGCTT
1 CTTCCTTC-TCCTCTCTCCTCTTAGCTT
* * *
14823547 CTTCTTCCTCTTCCTCTCTCCTCCTGGC--
1 CTTC--CTTC-TCCTCTCTCCTCTTAGCTT
* * *
14823575 C-TCCTTTTCTTCTCTTCTCTTAGCTT
1 CTTCCTTCTCCTCTCTCCTCTTAGCTT
14823601 CTTCCTTCTCCTCTCTCCTCTTAGCTT
1 CTTCCTTCTCCTCTCTCCTCTTAGCTT
*
14823628 CTTCCTCCTCCTCTCTCCTCTT
1 CTTCCTTCTCCTCTCTCCTCTT
14823650 TCTGGCCTCC
Statistics
Matches: 138, Mismatches: 12, Indels: 26
0.78 0.07 0.15
Matches are distributed among these distances:
24 13 0.09
25 2 0.01
26 1 0.01
27 57 0.41
28 1 0.01
29 2 0.01
30 52 0.38
31 2 0.01
33 8 0.06
ACGTcount: A:0.03, C:0.46, G:0.04, T:0.47
Consensus pattern (27 bp):
CTTCCTTCTCCTCTCTCCTCTTAGCTT
Found at i:14823649 original size:54 final size:56
Alignment explanation
Indices: 14823438--14823696 Score: 218
Period size: 54 Copynumber: 4.7 Consensus size: 56
14823428 CCTCCGAGCA
* *
14823438 TCCTCTTCCTCTCTCCTTCT-G--GCTTCCTCTTCCTCT-TCCCTCTTAGCTTCTTC
1 TCCTCTTCCTCTCTCCTCCTAGCTTCTTCCTCTTCCTCTCT-CCTCTTAGCTTCTTC
*
14823491 TTCCTCTTCCTCTCTCCTCCTAGCTGCTTCTTCCTCTTCCTCTCTCCTCCTAGCTTCTTC
1 -TCCTCTTCCTCTCTCCTCCTA---GCTTCTTCCTCTTCCTCTCTCCTCTTAGCTTCTTC
* * * *
14823551 TTCCTCTTCCTCTCTCCTCCTGGC--C-TCCTTTTCTTCTCTTCTCTTAGCTTCTTC
1 -TCCTCTTCCTCTCTCCTCCTAGCTTCTTCCTCTTCCTCTCTCCTCTTAGCTTCTTC
* * * * *
14823605 -CTTC-TCCTCTCTCCTCTTAGCTTCTTCCTCCTCCTCTCTCCTCTT-TCTGGC--C
1 TCCTCTTCCTCTCTCCTCCTAGCTTCTTCCTCTTCCTCTCTCCTCTTAGCT-TCTTC
* *
14823657 TCCTCTTCCTCCTTTTTCCTCCTGGCTTCTTCCTCTTCCT
1 TCCTCTTCCT-C--TCTCCTCCTAGCTTCTTCCTCTTCCT
14823697 TCCTTTCCCT
Statistics
Matches: 167, Mismatches: 22, Indels: 29
0.77 0.10 0.13
Matches are distributed among these distances:
51 15 0.09
52 4 0.02
53 6 0.04
54 65 0.39
55 2 0.01
57 24 0.14
58 1 0.01
60 49 0.29
61 1 0.01
ACGTcount: A:0.02, C:0.46, G:0.05, T:0.47
Consensus pattern (56 bp):
TCCTCTTCCTCTCTCCTCCTAGCTTCTTCCTCTTCCTCTCTCCTCTTAGCTTCTTC
Found at i:14823660 original size:27 final size:27
Alignment explanation
Indices: 14823492--14823667 Score: 99
Period size: 27 Copynumber: 6.4 Consensus size: 27
14823482 AGCTTCTTCT
* *
14823492 TCCTCTTCCTCTCTCCTCCTAGCTGCTTC
1 TCCTCCTCCTCTCTCCTCTTAGCTGC--C
* * *
14823521 TTCCTCTTCCTCTCTCCTCCTAGCTTCTTC
1 -TCCTCCTCCTCTCTCCTCTTAGCTGC--C
* *
14823551 TTCCTCTTCCTCTCTCCTCCT-G--GCC
1 -TCCTCCTCCTCTCTCCTCTTAGCTGCC
** * * * *
14823576 TCCTTTTCTTCTCTTCTCTTAGCTTCT
1 TCCTCCTCCTCTCTCCTCTTAGCTGCC
* * *
14823603 TCCTTCTCCTCTCTCCTCTTAGCTTCT
1 TCCTCCTCCTCTCTCCTCTTAGCTGCC
*
14823630 TCCTCCTCCTCTCTCCTCTT-TCTGGCC
1 TCCTCCTCCTCTCTCCTCTTAGCT-GCC
*
14823657 TCCTCTTCCTC
1 TCCTCCTCCTC
14823668 CTTTTTCCTC
Statistics
Matches: 126, Mismatches: 16, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
24 16 0.13
25 2 0.02
26 2 0.02
27 56 0.44
29 1 0.01
30 49 0.39
ACGTcount: A:0.02, C:0.47, G:0.05, T:0.46
Consensus pattern (27 bp):
TCCTCCTCCTCTCTCCTCTTAGCTGCC
Found at i:14830257 original size:3 final size:3
Alignment explanation
Indices: 14830249--14830275 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
14830239 GAACAAATTT
14830249 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
14830276 AGAAAGACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:14833585 original size:111 final size:113
Alignment explanation
Indices: 14833386--14833785 Score: 587
Period size: 111 Copynumber: 3.6 Consensus size: 113
14833376 AACTATGCAA
* *
14833386 TTCCACTGCAGTTCACTTACACGTGGCGCTAACAACATCTAAATGTAATTAGAATCGAT-GCAAA
1 TTCCACTGCAGTCCACATACACGTGGCGC-AACAACATCTAAATGTAATTAGAATCGATCGCAAA
14833450 TTGATTCGG-TGATGAGTCCTTTAACCGTCAACTATGCTATTAACAAAGG
65 TTGATT-GGATGATGAGTCCTTTAACCGTCAACTATGCTATTAACAAAGG
*
14833499 TTCCACTGCAGTCCACATACACGTGGCGC-A-AACATCTAAATGTAATTAGAATCAATCGCAAAT
1 TTCCACTGCAGTCCACATACACGTGGCGCAACAACATCTAAATGTAATTAGAATCGATCGCAAAT
*
14833562 TGATTGGATGATGAGTCCCTTAACCGTCAACTATGCTATTAACAAAGG
66 TGATTGGATGATGAGTCCTTTAACCGTCAACTATGCTATTAACAAAGG
* * * *
14833610 CTCCGCTGCAGTCCACATACACGTGGCGC--TAACATCTAAATGTAATTAGAATTGATCGCAAAT
1 TTCCACTGCAGTCCACATACACGTGGCGCAACAACATCTAAATGTAATTAGAATCGATCGCAAAT
* *
14833673 CGATTGGATGATGAGTCCTTTAACCGTCAACTATGCTATTAACAAAGA
66 TGATTGGATGATGAGTCCTTTAACCGTCAACTATGCTATTAACAAAGG
* * * * * *
14833721 TTCAACAGCAGTCCACATACACGCGGTGCTAACAACATCTAAATGTAATTACAATCGATCTCAAA
1 TTCCACTGCAGTCCACATACACGTGGCGC-AACAACATCTAAATGTAATTAGAATCGATCGCAAA
14833786 ATCTTTTAAT
Statistics
Matches: 260, Mismatches: 21, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
110 27 0.10
111 177 0.68
113 27 0.10
114 29 0.11
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.27
Consensus pattern (113 bp):
TTCCACTGCAGTCCACATACACGTGGCGCAACAACATCTAAATGTAATTAGAATCGATCGCAAAT
TGATTGGATGATGAGTCCTTTAACCGTCAACTATGCTATTAACAAAGG
Found at i:14836090 original size:47 final size:48
Alignment explanation
Indices: 14836023--14836143 Score: 201
Period size: 47 Copynumber: 2.6 Consensus size: 48
14836013 GGAGCTGCCC
14836023 GGTGGGTTAAGTGTAATGTTGATGCGGA-GATGGCTGCCCGTCGTTTG
1 GGTGGGTTAAGTGTAATGTTGATGCGGACGATGGCTGCCCGTCGTTTG
*
14836070 GGTGGGTTAAGTGTAATGTTGATG-TGACGATGGCTGCCCGTCGTTTG
1 GGTGGGTTAAGTGTAATGTTGATGCGGACGATGGCTGCCCGTCGTTTG
* *
14836117 GGTGGATTAAGTGTAATGTTCATGCGG
1 GGTGGGTTAAGTGTAATGTTGATGCGG
14836144 CGGTATTTCA
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
46 2 0.03
47 65 0.96
48 1 0.01
ACGTcount: A:0.17, C:0.12, G:0.39, T:0.33
Consensus pattern (48 bp):
GGTGGGTTAAGTGTAATGTTGATGCGGACGATGGCTGCCCGTCGTTTG
Found at i:14841135 original size:20 final size:19
Alignment explanation
Indices: 14841112--14841150 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
14841102 TTTAAAAAAA
14841112 TTAAAAACGATCAAAATTAT
1 TTAAAAACGAT-AAAATTAT
*
14841132 TTAAAAACTATAAAATTAT
1 TTAAAAACGATAAAATTAT
14841151 AAAGATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (19 bp):
TTAAAAACGATAAAATTAT
Found at i:14842067 original size:8 final size:8
Alignment explanation
Indices: 14842054--14842098 Score: 72
Period size: 8 Copynumber: 5.6 Consensus size: 8
14842044 AATAACCTAT
*
14842054 AAATTTTG
1 AAATTTTA
*
14842062 AAATTTTG
1 AAATTTTA
14842070 AAATTTTA
1 AAATTTTA
14842078 AAATTTTA
1 AAATTTTA
14842086 AAATTTTA
1 AAATTTTA
14842094 AAATT
1 AAATT
14842099 GCCACACATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (8 bp):
AAATTTTA
Found at i:14843995 original size:69 final size:67
Alignment explanation
Indices: 14843880--14844083 Score: 214
Period size: 69 Copynumber: 3.0 Consensus size: 67
14843870 TATTTAGTTT
* * * *
14843880 AAACATAATC-ATACACGAATTGAAATAGTTATTCCTTAAGCAATCATATATCATTGATAATCAT
1 AAACATAATCAAT-CACGAATTAAAATAATCATTCC-TAAGCAATCATAT-TCATCGATAATCAT
14843944 GAGTAC-
63 G-G-ACA
* * ** * * *
14843950 CAACGTGGTCAATCACGACTTAACATAATCATTCCTAAGCAATCATATTCCATCGATAATCACGG
1 AAACATAATCAATCACGAATTAAAATAATCATTCCTAAGCAATCATATT-CATCGATAATCATGG
14844015 ACA
65 ACA
*
14844018 TAAACATAATCAATCACGAATTAAAATAATTATTCCTAAGCAATCATATTCTATCGATAATCATG
1 -AAACATAATCAATCACGAATTAAAATAATCATTCCTAAGCAATCATATTC-ATCGATAATCATG
14844083 G
64 G
14844084 TATCATTCAC
Statistics
Matches: 110, Mismatches: 19, Indels: 11
0.79 0.14 0.08
Matches are distributed among these distances:
67 2 0.02
68 3 0.03
69 80 0.73
70 23 0.21
71 2 0.02
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (67 bp):
AAACATAATCAATCACGAATTAAAATAATCATTCCTAAGCAATCATATTCATCGATAATCATGGA
CA
Found at i:14848448 original size:15 final size:17
Alignment explanation
Indices: 14848415--14848448 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14848405 CTATTTTTTA
14848415 TATAAAAGATATAAATT
1 TATAAAAGATATAAATT
14848432 TATAAAA-ATAT-AATT
1 TATAAAAGATATAAATT
14848447 TA
1 TA
14848449 CTTTATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 4 0.24
17 7 0.41
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TATAAAAGATATAAATT
Found at i:14854611 original size:41 final size:41
Alignment explanation
Indices: 14854566--14854678 Score: 138
Period size: 41 Copynumber: 2.8 Consensus size: 41
14854556 CACTTTCACA
*
14854566 TGGAAGCACTTTTCCTTGAATGAGACAAAAATGACTCAACG
1 TGGAAGCACTTTTCCTTGAATGAGACAAAAAGGACTCAACG
* * *
14854607 TGGAAGCACTTTTCATTGAATGAGACAAAAAGGCCTCCACG
1 TGGAAGCACTTTTCCTTGAATGAGACAAAAAGGACTCAACG
* ** *
14854648 TAGG-TGCGTTTTTCCTTGACTGAGACAAAAA
1 T-GGAAGCACTTTTCCTTGAATGAGACAAAAA
14854679 CACGCTAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 60 0.97
42 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (41 bp):
TGGAAGCACTTTTCCTTGAATGAGACAAAAAGGACTCAACG
Found at i:14854986 original size:3 final size:3
Alignment explanation
Indices: 14854978--14855017 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
14854968 AGATGTGTGA
14854978 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
14855018 TAAGAGCATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:14873105 original size:30 final size:30
Alignment explanation
Indices: 14873071--14873134 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
14873061 GTTTCGGGGG
14873071 AAGGAATGGTGGTCGTGGCCAGTGGGGCAT
1 AAGGAATGGTGGTCGTGGCCAGTGGGGCAT
14873101 AAGGAATGGTGGTCGTGGCCAGTGGGGCAT
1 AAGGAATGGTGGTCGTGGCCAGTGGGGCAT
14873131 AAGG
1 AAGG
14873135 TCAGTTAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.22, C:0.12, G:0.47, T:0.19
Consensus pattern (30 bp):
AAGGAATGGTGGTCGTGGCCAGTGGGGCAT
Found at i:14877402 original size:2 final size:2
Alignment explanation
Indices: 14877395--14877435 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
14877385 ATTTTTAGAA
* *
14877395 AG AG AG AG AG GG AG AG AG AG GG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
14877436 TGTCAAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14882026 original size:21 final size:20
Alignment explanation
Indices: 14881997--14882038 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
14881987 CTTTCCTTGC
*
14881997 TTTGCAATTTTTAATCTTTTT
1 TTTGCAATTTTT-ATATTTTT
*
14882018 TTTGTAATTTTTATATTTTT
1 TTTGCAATTTTTATATTTTT
14882038 T
1 T
14882039 AGAGTATTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.71
Consensus pattern (20 bp):
TTTGCAATTTTTATATTTTT
Found at i:14884348 original size:21 final size:23
Alignment explanation
Indices: 14884318--14884363 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
14884308 TTCGATTCGA
14884318 AAATAATTCAA-AT-TTTGAATT
1 AAATAATTCAAGATATTTGAATT
* *
14884339 AAATAGTTCAAGTTATTTGAATT
1 AAATAATTCAAGATATTTGAATT
14884362 AA
1 AA
14884364 TCAAGTTGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 1 0.05
23 10 0.48
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (23 bp):
AAATAATTCAAGATATTTGAATT
Found at i:14885497 original size:30 final size:29
Alignment explanation
Indices: 14885452--14885614 Score: 154
Period size: 30 Copynumber: 5.6 Consensus size: 29
14885442 GGTAAAAGTG
*
14885452 TAATTTTAG-AAAGTTTTAGGGTCAAAATA
1 TAATTTTGGAAAAG-TTTAGGGTCAAAATA
* *
14885481 TAATTTCGGAAAAGTTTAGGGGTTAAAA-A
1 TAATTTTGGAAAAGTTTA-GGGTCAAAATA
* *
14885510 GTAATTTTAG-AAAGTTTTAGGGTTAAAATA
1 -TAATTTTGGAAAAG-TTTAGGGTCAAAATA
*
14885540 TAATTTTGGAAAAGTTCAGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTA-GGGTCAAAATA
*** *
14885570 TAATTTACAAAAAGTTTAGAGGTC-AAATG
1 TAATTTTGGAAAAGTTTAG-GGTCAAAATA
14885599 TAATTTTGGAAAAGTT
1 TAATTTTGGAAAAGTT
14885615 CAAGGACCTT
Statistics
Matches: 110, Mismatches: 16, Indels: 16
0.77 0.11 0.11
Matches are distributed among these distances:
29 54 0.49
30 56 0.51
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (29 bp):
TAATTTTGGAAAAGTTTAGGGTCAAAATA
Found at i:14885522 original size:59 final size:60
Alignment explanation
Indices: 14885409--14885616 Score: 223
Period size: 59 Copynumber: 3.5 Consensus size: 60
14885399 TTTAGTAAAA
* ** * * *
14885409 TTAGGGTAAAAATGGAATTATGGAAAACTT-GGGGGT-AAAAGT-GTAATTTTAGAAAGTT
1 TTAGGGTCAAAATATAATTTTGGAAAAGTTCAGGGGTCAAAA-TAGTAATTTTAGAAAGTT
* * *
14885467 TTAGGGTCAAAATATAATTTCGGAAAAGTTTAGGGGTTAAAA-AGTAATTTTAGAAAGTT
1 TTAGGGTCAAAATATAATTTTGGAAAAGTTCAGGGGTCAAAATAGTAATTTTAGAAAGTT
* * *
14885526 TTAGGGTTAAAATATAATTTTGGAAAAGTTCAGGGGTCAAAATA-TAATTTACAAAAAG-T
1 TTAGGGTCAAAATATAATTTTGGAAAAGTTCAGGGGTCAAAATAGTAATTT-TAGAAAGTT
*
14885585 TTAGAGGTC-AAATGTAATTTTGGAAAAGTTCA
1 TTAG-GGTCAAAATATAATTTTGGAAAAGTTCA
14885617 AGGACCTTTA
Statistics
Matches: 129, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
58 24 0.19
59 92 0.71
60 13 0.10
ACGTcount: A:0.41, C:0.04, G:0.23, T:0.33
Consensus pattern (60 bp):
TTAGGGTCAAAATATAATTTTGGAAAAGTTCAGGGGTCAAAATAGTAATTTTAGAAAGTT
Found at i:14888067 original size:206 final size:206
Alignment explanation
Indices: 14887744--14888293 Score: 836
Period size: 206 Copynumber: 2.7 Consensus size: 206
14887734 TTTTGATCCA
* * * * *
14887744 CTTCTCTGTGTTTCATCAGGAAGACGGATTTGATTCACTTCTCTGTGTCTCATCAGGAAGCTGAC
1 CTTCTCTGTGTCTCATCAGGAAGACGAATTTGGTTCACTTCTCTGTGTCTCATCAGAAAGCTAAC
* * * *
14887809 CACTTTATTGCTTCGACCTGCTTCTCAGTATCTTATTAGTAAGCTGGGGTTCGAAGATTTGCTCG
66 CACTTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGAAAGCTGGGGTTCGAAGATTTGCTCG
*
14887874 CATTGAGCTTGGGTTTGATTTGGTCTTCTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTT
131 CATTGAGCTTGGGTTTGATTTGGTCTTCTTCTCAGTGTCTCATCAAGAAGATGACCGCATCACTT
*
14887939 GTTTCAATTCG
196 ATTTCAATTCG
* *
14887950 TTTCTCTGTGTCTCATCAGGAAGACGAATTTGGTTCACTTCTCTGTATCTCATCAGAAAGCTAAC
1 CTTCTCTGTGTCTCATCAGGAAGACGAATTTGGTTCACTTCTCTGTGTCTCATCAGAAAGCTAAC
* * * *
14888015 CACTTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTAGGGTTCGAAAATTTGCCCG
66 CACTTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGAAAGCTGGGGTTCGAAGATTTGCTCG
*
14888080 CATTGAGCTTGGGTTTGATTTGGTCTTCTTCTCAGTGTCTCATCAAGAAGATGACTGCATCACTT
131 CATTGAGCTTGGGTTTGATTTGGTCTTCTTCTCAGTGTCTCATCAAGAAGATGACCGCATCACTT
*
14888145 ATTTTAATTCG
196 ATTTCAATTCG
* *
14888156 CTTCTCTG-GATCTCCTCAGGAAGACGAATTTGGTCCACTTCT-TAGTGTCTCATCA-AGAAGCT
1 CTTCTCTGTG-TCTCATCAGGAAGACGAATTTGGTTCACTTCTCT-GTGTCTCATCAGA-AAGCT
* *
14888218 AACCATTTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGAAAGTTGGGGTTCGAAGATTTGC
63 AACCACTTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGAAAGCTGGGGTTCGAAGATTTGC
*
14888283 TCACATTGAGC
128 TCGCATTGAGC
14888294 GTTGAGTTGG
Statistics
Matches: 312, Mismatches: 29, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
205 3 0.01
206 309 0.99
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (206 bp):
CTTCTCTGTGTCTCATCAGGAAGACGAATTTGGTTCACTTCTCTGTGTCTCATCAGAAAGCTAAC
CACTTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGAAAGCTGGGGTTCGAAGATTTGCTCG
CATTGAGCTTGGGTTTGATTTGGTCTTCTTCTCAGTGTCTCATCAAGAAGATGACCGCATCACTT
ATTTCAATTCG
Found at i:14888788 original size:92 final size:92
Alignment explanation
Indices: 14888630--14888805 Score: 262
Period size: 92 Copynumber: 1.9 Consensus size: 92
14888620 TTTATTTTTA
* * * * *
14888630 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCATGCTCTAACT
1 ATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATCTTTAAAGCTTCATCATACTATAACT
*
14888695 ACAACTTCAGAGATATAAAGACTTGCT
66 ACAACTTCAGAGAGATAAAGACTTGCT
* * * *
14888722 ATCCATCTTTACTACAACTTCAAGAGGATAGGAATTGATCTTTAAAGCTTTATCTTACTATTACT
1 ATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATCTTTAAAGCTTCATCATACTATAACT
14888787 ACAACTTCAGAGAGATAAA
66 ACAACTTCAGAGAGATAAA
14888806 ATTTTTTCCC
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
92 74 1.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (92 bp):
ATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATCTTTAAAGCTTCATCATACTATAACT
ACAACTTCAGAGAGATAAAGACTTGCT
Found at i:14888938 original size:101 final size:101
Alignment explanation
Indices: 14888810--14889777 Score: 1102
Period size: 101 Copynumber: 9.6 Consensus size: 101
14888800 GATAAAATTT
* * * * * * *
14888810 TTTCCCTTTTGTCTTTTTACGGTACTGGATCTACCGTTGTGGTATTAGATCTTTCCCGTCGTGTC
1 TTTCCCTTTTGTGTTTTTGCGGTACTGGATCTGCCATTGCGGTCTTAGATCTTTCCCGTCATGTC
* * *
14888875 TTTTGAGGTACATGGTCCGCCGTTGCGACTTAAACC
66 TTCTGAGGTACACGGTCCGCCGTTGCGACTTAGACC
* * * * * * *
14888911 TTTTCTTTTTTTGTTTTTGCGATACTGGATCTGCCATTGCTGTCTTAGATCTTTACCTTCTATG-
1 TTTCCCTTTTGTGTTTTTGCGGTACTGGATCTGCCATTGCGGTCTTAGATCTTTCCCGTC-ATGT
* ** *
14888975 CTTTTGAGGTACAATGTCCGCCGTTACGACTTAGACC
65 CTTCTGAGGTACACGGTCCGCCGTTGCGACTTAGACC
* * * * * *
14889012 TTTCCCTTTTATGTTTTTGCAGTACTGAATCTGCCATTGCGGTCTTAGATCTTTTCCTTCCAT-A
1 TTTCCCTTTTGTGTTTTTGCGGTACTGGATCTGCCATTGCGGTCTTAGATCTTTCCCGT-CATGT
* * * * *
14889076 CTGCTAAGGTACACGATCCGCTGTTGCAACTTAGACC
65 CTTCTGAGGTACACGGTCCGCCGTTGCGACTTAGACC
* * * * * *
14889113 TTTCTCTTTTGTGTTTTTACGGTATTGGATCTACCGTTGCGGTCTTAGATCTTTCCCGTCGTGTC
1 TTTCCCTTTTGTGTTTTTGCGGTACTGGATCTGCCATTGCGGTCTTAGATCTTTCCCGTCATGTC
* * *
14889178 TTTTGAGGTACACGGTCCGCCGTTGCAACTTAAACC
66 TTCTGAGGTACACGGTCCGCCGTTGCGACTTAGACC
* * *
14889214 TTTCCCTTTTCTGTTTTTACGGTACTGGATCTGCCATTGCGGTCTTAGATCTTTCCCTTCCATG-
1 TTTCCCTTTTGTGTTTTTGCGGTACTGGATCTGCCATTGCGGTCTTAGATCTTTCCCGT-CATGT
* *
14889278 CTTCTGAAGTACACGGTCCGCCATTGCGACTTAGACC
65 CTTCTGAGGTACACGGTCCGCCGTTGCGACTTAGACC
* *
14889315 TTTCCCTTTTGTGTTTTTGCGGTACTGGATTTGCCATTGCGGTCTTAGATCTTTCCCTTCCATG-
1 TTTCCCTTTTGTGTTTTTGCGGTACTGGATCTGCCATTGCGGTCTTAGATCTTTCCCGT-CATGT
* *
14889379 CTTCTGAGGTACACGGTCCGTCGTTGCGACTTAAACC
65 CTTCTGAGGTACACGGTCCGCCGTTGCGACTTAGACC
* * * *
14889416 TTTCCCTTTTGTGTTTTTGCGGTACTGGATCTACCGTTGCGATCTTATATCTTTCCCGTCATGTC
1 TTTCCCTTTTGTGTTTTTGCGGTACTGGATCTGCCATTGCGGTCTTAGATCTTTCCCGTCATGTC
* *
14889481 TTTTGAGGTACACGGTCCGCCGTTGTGACTTAGACC
66 TTCTGAGGTACACGGTCCGCCGTTGCGACTTAGACC
* * * ** *
14889517 TTTCCCTTTTCTATCTTTGCGGTACTGGATCCACCATTGCGGTCTTAGATCTTTCCCGTCGTGT-
1 TTTCCCTTTTGTGTTTTTGCGGTACTGGATCTGCCATTGCGGTCTTAGATCTTTCCCGTCATGTC
* * *
14889581 TTCTGAGGTACACGGTCCACCGTTACGACTTAAACC
66 TTCTGAGGTACACGGTCCGCCGTTGCGACTTAGACC
* * * * * * * * * * ** *
14889617 TTTCTCTTTAGTATCTCTGCGGTACTGGATCCGTCATTGTGGTTTTAAATCTTTTTCGTCGTGT-
1 TTTCCCTTTTGTGTTTTTGCGGTACTGGATCTGCCATTGCGGTCTTAGATCTTTCCCGTCATGTC
14889681 TTCTGAGGTACACGGTCCGCCGTTGCGACTTAGACC
66 TTCTGAGGTACACGGTCCGCCGTTGCGACTTAGACC
* * * * * *
14889717 TTTCCCTTTAGTATCTTTGCGGTACTGGATCCGTCATTGCGATCTTAGATCTTTCCCGTCA
1 TTTCCCTTTTGTGTTTTTGCGGTACTGGATCTGCCATTGCGGTCTTAGATCTTTCCCGTCA
14889778 AAACTGTAAA
Statistics
Matches: 743, Mismatches: 118, Indels: 13
0.85 0.14 0.01
Matches are distributed among these distances:
100 175 0.24
101 562 0.76
102 6 0.01
ACGTcount: A:0.15, C:0.25, G:0.20, T:0.40
Consensus pattern (101 bp):
TTTCCCTTTTGTGTTTTTGCGGTACTGGATCTGCCATTGCGGTCTTAGATCTTTCCCGTCATGTC
TTCTGAGGTACACGGTCCGCCGTTGCGACTTAGACC
Found at i:14889167 original size:51 final size:50
Alignment explanation
Indices: 14888814--14889471 Score: 146
Period size: 50 Copynumber: 13.0 Consensus size: 50
14888804 AAATTTTTTC
* * * * * *
14888814 CCTTTTGTCTTTTTACGGTACTGGATCTACCGTTGTGGTATTAGATCTTT
1 CCTTTTGTGTTTTTACGGTAATGGATCTGCCGTTGCGGTCTTAGACCTTT
** * * * *
14888864 CCCGTCGTGTCTTTTGA-GGTACATGG-TCCGCCGTTGC-GACTTAAACCTTTT
1 CCTTTTGTGT-TTTT-ACGGTA-ATGGATCTGCCGTTGCGGTCTTAGACC-TTT
* * * * * * * *
14888915 CTTTTTTTGTTTTTGCGATACTGGATCTGCCATTGCTGTCTTAGATCTTT
1 CCTTTTGTGTTTTTACGGTAATGGATCTGCCGTTGCGGTCTTAGACCTTT
* * * * * *
14888965 ACCTTCTATGCTTTTGA-GGTACAAT-G-TCCGCCGTTAC-GACTTAGACCTTT
1 -CCTTTTGTG-TTTTTACGGT--AATGGATCTGCCGTTGCGGTCTTAGACCTTT
* * * * * * *
14889015 CCCTTTTATGTTTTTGCAGTACTGAATCTGCCATTGCGGTCTTAGATCTTTT
1 -CCTTTTGTGTTTTTACGGTAATGGATCTGCCGTTGCGGTCTTAGA-CCTTT
*** ** ** * * * * **
14889067 CCTTCCATACTGCTAAGGTACA-CGATCCGCTGTTGC-AACTTAGACCTTT
1 CCTTTTGTGTTTTTACGGTA-ATGGATCTGCCGTTGCGGTCTTAGACCTTT
* * *
14889116 CTCTTTTGTGTTTTTACGGTATTGGATCTACCGTTGCGGTCTTAGATCTTT
1 C-CTTTTGTGTTTTTACGGTAATGGATCTGCCGTTGCGGTCTTAGACCTTT
** * * * ** *
14889167 CCCGTCGTGTCTTTTGA-GGTACACGG-TCCGCCGTTGC-AACTTAAACCTTT
1 CCTTTTGTGT-TTTT-ACGGTA-ATGGATCTGCCGTTGCGGTCTTAGACCTTT
* * * *
14889217 CCCTTTTCTGTTTTTACGGTACTGGATCTGCCATTGCGGTCTTAGATCTTT
1 -CCTTTTGTGTTTTTACGGTAATGGATCTGCCGTTGCGGTCTTAGACCTTT
*** * * * * * * *
14889268 CCCTTCCATGCTTCTGA-AGTACACGG-TCCGCCATTGC-GACTTAGACCTTT
1 -CCTTTTGTG-TTTTTACGGTA-ATGGATCTGCCGTTGCGGTCTTAGACCTTT
* * * * *
14889318 CCCTTTTGTGTTTTTGCGGTACTGGATTTGCCATTGCGGTCTTAGATCTTT
1 -CCTTTTGTGTTTTTACGGTAATGGATCTGCCGTTGCGGTCTTAGACCTTT
*** * * * * * * *
14889369 CCCTTCCATGCTTCTGA-GGTACACGG-TCCGTCGTTGC-GACTTAAACCTTT
1 -CCTTTTGTG-TTTTTACGGTA-ATGGATCTGCCGTTGCGGTCTTAGACCTTT
* * * * * *
14889419 CCCTTTTGTGTTTTTGCGGTACTGGATCTACCGTTGCGATCTTATATCTTT
1 -CCTTTTGTGTTTTTACGGTAATGGATCTGCCGTTGCGGTCTTAGACCTTT
14889470 CC
1 CC
14889472 CGTCATGTCT
Statistics
Matches: 411, Mismatches: 160, Indels: 74
0.64 0.25 0.11
Matches are distributed among these distances:
48 2 0.00
49 25 0.06
50 180 0.44
51 175 0.43
52 27 0.07
53 2 0.00
ACGTcount: A:0.15, C:0.25, G:0.20, T:0.41
Consensus pattern (50 bp):
CCTTTTGTGTTTTTACGGTAATGGATCTGCCGTTGCGGTCTTAGACCTTT
Found at i:14889362 original size:303 final size:303
Alignment explanation
Indices: 14888810--14889776 Score: 1265
Period size: 303 Copynumber: 3.2 Consensus size: 303
14888800 GATAAAATTT
* * * *
14888810 TTTCCCTTTTGTCTTTTTACGGTACTGGATCTACCGTTGTGGTATTAGATCTTTCCCGTCGTGTC
1 TTTCCCTTTTGTGTTTTTACGGTACTGGATCTACCGTTGCGATCTTAGATCTTTCCCGTCGTGTC
* * * * *
14888875 TTTTGAGGTACATGGTCCGCCGTTGCGACTTAAACCTTTTCTTTTTTTGTTTTTGCGATACTGGA
66 TTTTGAGGTACACGGTCCGCCGTTGCGACTTAAACCTTTCCCTTTTCTGTTTTTGCGGTACTGGA
* * * * **
14888940 TCTGCCATTGCTGTCTTAGATCTTTACCTTCTATGCTTTTGAGGTACAATGTCCGCCGTTACGAC
131 TCTGCCATTGCGGTCTTAGATCTTTCCCTTCCATGCTTCTGAGGTACACGGTCCGCCGTTACGAC
* * *
14889005 TTAGACCTTTCCCTTTTATGTTTTTGCAGTACTGAATCTGCCATTGCGGTCTTAGATCTTTTCCT
196 TTAGACCTTTCCCTTTTGTGTTTTTGCGGTACTGGATCTGCCATTGCGGTCTTAGATCTTTTCCT
* * * * *
14889070 TCCATACTGCTAAGGTACACGATCCGCTGTTGCAACTTAGACC
261 TCCATGCTTCTGAGGTACACGGTCCGCTGTTGCGACTTAGACC
* * *
14889113 TTTCTCTTTTGTGTTTTTACGGTATTGGATCTACCGTTGCGGTCTTAGATCTTTCCCGTCGTGTC
1 TTTCCCTTTTGTGTTTTTACGGTACTGGATCTACCGTTGCGATCTTAGATCTTTCCCGTCGTGTC
* *
14889178 TTTTGAGGTACACGGTCCGCCGTTGCAACTTAAACCTTTCCCTTTTCTGTTTTTACGGTACTGGA
66 TTTTGAGGTACACGGTCCGCCGTTGCGACTTAAACCTTTCCCTTTTCTGTTTTTGCGGTACTGGA
* * *
14889243 TCTGCCATTGCGGTCTTAGATCTTTCCCTTCCATGCTTCTGAAGTACACGGTCCGCCATTGCGAC
131 TCTGCCATTGCGGTCTTAGATCTTTCCCTTCCATGCTTCTGAGGTACACGGTCCGCCGTTACGAC
* *
14889308 TTAGACCTTTCCCTTTTGTGTTTTTGCGGTACTGGATTTGCCATTGCGGTCTTAGATCTTTCCCT
196 TTAGACCTTTCCCTTTTGTGTTTTTGCGGTACTGGATCTGCCATTGCGGTCTTAGATCTTTTCCT
*
14889373 TCCATGCTTCTGAGGTACACGGTCCG-TCGTTGCGACTTAAACC
261 TCCATGCTTCTGAGGTACACGGTCCGCT-GTTGCGACTTAGACC
* * *
14889416 TTTCCCTTTTGTGTTTTTGCGGTACTGGATCTACCGTTGCGATCTTATATCTTTCCCGTCATGTC
1 TTTCCCTTTTGTGTTTTTACGGTACTGGATCTACCGTTGCGATCTTAGATCTTTCCCGTCGTGTC
* * * *
14889481 TTTTGAGGTACACGGTCCGCCGTTGTGACTTAGACCTTTCCCTTTTCTATCTTTGCGGTACTGGA
66 TTTTGAGGTACACGGTCCGCCGTTGCGACTTAAACCTTTCCCTTTTCTGTTTTTGCGGTACTGGA
** * * * *
14889546 TCCACCATTGCGGTCTTAGATCTTTCCCGT-CGTGTTTCTGAGGTACACGGTCCACCGTTACGAC
131 TCTGCCATTGCGGTCTTAGATCTTTCCCTTCCATGCTTCTGAGGTACACGGTCCGCCGTTACGAC
* * * * * * * * * * * * *
14889610 TTAAACCTTTCTCTTTAGTATCTCTGCGGTACTGGATCCGTCATTGTGGTTTTAAATCTTTTTCG
196 TTAGACCTTTCCCTTTTGTGTTTTTGCGGTACTGGATCTGCCATTGCGGTCTTAGATCTTTTCCT
* * *
14889675 T-CGTGTTTCTGAGGTACACGGTCCGCCGTTGCGACTTAGACC
261 TCCATGCTTCTGAGGTACACGGTCCGCTGTTGCGACTTAGACC
* * * * *** *
14889717 TTTCCCTTTAGTATCTTTGCGGTACTGGATCCGTCATTGCGATCTTAGATCTTTCCCGTC
1 TTTCCCTTTTGTGTTTTTACGGTACTGGATCTACCGTTGCGATCTTAGATCTTTCCCGTC
14889777 AAAACTGTAA
Statistics
Matches: 582, Mismatches: 80, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
301 88 0.15
302 80 0.14
303 414 0.71
ACGTcount: A:0.15, C:0.25, G:0.20, T:0.40
Consensus pattern (303 bp):
TTTCCCTTTTGTGTTTTTACGGTACTGGATCTACCGTTGCGATCTTAGATCTTTCCCGTCGTGTC
TTTTGAGGTACACGGTCCGCCGTTGCGACTTAAACCTTTCCCTTTTCTGTTTTTGCGGTACTGGA
TCTGCCATTGCGGTCTTAGATCTTTCCCTTCCATGCTTCTGAGGTACACGGTCCGCCGTTACGAC
TTAGACCTTTCCCTTTTGTGTTTTTGCGGTACTGGATCTGCCATTGCGGTCTTAGATCTTTTCCT
TCCATGCTTCTGAGGTACACGGTCCGCTGTTGCGACTTAGACC
Found at i:14896211 original size:30 final size:30
Alignment explanation
Indices: 14896174--14896348 Score: 191
Period size: 30 Copynumber: 5.9 Consensus size: 30
14896164 AAAACTTGGT
* * **
14896174 GGGTAAAAATGTAATTT-TAGAAATTTTTA
1 GGGTTAAAATATAATTTATAGAAAAGTTTA
*
14896203 GGGTTAAAATATAATTT-TGGAAAAGTTTA
1 GGGTTAAAATATAATTTATAGAAAAGTTTA
*
14896232 GAGGTTAAAATGTAATTTATA-AAAAGTTTTA
1 G-GGTTAAAATATAATTTATAGAAAAG-TTTA
14896263 GGGTTAAAATATAATTTATA-AAAAGTTTA
1 GGGTTAAAATATAATTTATAGAAAAGTTTA
*
14896292 GGGGTTAAAATATAATTTACA-AAAAGTTTA
1 -GGGTTAAAATATAATTTATAGAAAAGTTTA
* * *
14896322 GGGGTCAAATATAATTT-TGGAAAAGTT
1 GGGTTAAAATATAATTTATAGAAAAGTT
14896349 CAAGAACCTT
Statistics
Matches: 128, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
29 51 0.40
30 71 0.55
31 6 0.05
ACGTcount: A:0.43, C:0.01, G:0.18, T:0.37
Consensus pattern (30 bp):
GGGTTAAAATATAATTTATAGAAAAGTTTA
Found at i:14898016 original size:17 final size:17
Alignment explanation
Indices: 14897994--14898048 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
14897984 GTAAATGGAC
*
14897994 TTTAATTTTGTATTAAA
1 TTTAATTTTATATTAAA
* *
14898011 TTTAATATTATTTTAAA
1 TTTAATTTTATATTAAA
**
14898028 TTTAATTAAAT-TTAAA
1 TTTAATTTTATATTAAA
14898044 TTTAA
1 TTTAA
14898049 GGTAAATTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
16 10 0.31
17 22 0.69
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TTTAATTTTATATTAAA
Found at i:14898031 original size:6 final size:6
Alignment explanation
Indices: 14898022--14898066 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
14898012 TTAATATTAT
**
14898022 TTTAAA TTT-AA -TTAAA TTTAAA TTT-AA GGTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
14898067 ATAAATGTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
4 2 0.06
5 7 0.22
6 23 0.72
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (6 bp):
TTTAAA
Found at i:14898071 original size:17 final size:17
Alignment explanation
Indices: 14898006--14898077 Score: 74
Period size: 17 Copynumber: 4.3 Consensus size: 17
14897996 TAATTTTGTA
* * *
14898006 TTAAATTTAATATTATT
1 TTAAATTTAAAATAAAT
*
14898023 TTAAATTT-AATTAAAT
1 TTAAATTTAAAATAAAT
**
14898039 TTAAATTTAAGGTAAAT
1 TTAAATTTAAAATAAAT
14898056 TTAAATTTAAAATAAAT
1 TTAAATTTAAAATAAAT
*
14898073 GTAAA
1 TTAAA
14898078 AATCAATTTA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
16 12 0.27
17 33 0.73
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (17 bp):
TTAAATTTAAAATAAAT
Found at i:14898494 original size:82 final size:82
Alignment explanation
Indices: 14898357--14898521 Score: 312
Period size: 82 Copynumber: 2.0 Consensus size: 82
14898347 ATATTGTACT
* *
14898357 TCGTCTATTAGTTAAACAATTGGTCCATGTAAACGCAACATTGGGTATAAATAATAGGATTCGTT
1 TCGTCTATTAGTTAAACAATCGGTCAATGTAAACGCAACATTGGGTATAAATAATAGGATTCGTT
14898422 AACTCGATTCAAAAAAA
66 AACTCGATTCAAAAAAA
14898439 TCGTCTATTAGTTAAACAATCGGTCAATGTAAACGCAACATTGGGTATAAATAATAGGATTCGTT
1 TCGTCTATTAGTTAAACAATCGGTCAATGTAAACGCAACATTGGGTATAAATAATAGGATTCGTT
14898504 AACTCGATTCAAAAAAA
66 AACTCGATTCAAAAAAA
14898521 T
1 T
14898522 TTAAATTGAG
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (82 bp):
TCGTCTATTAGTTAAACAATCGGTCAATGTAAACGCAACATTGGGTATAAATAATAGGATTCGTT
AACTCGATTCAAAAAAA
Found at i:14898962 original size:11 final size:11
Alignment explanation
Indices: 14898946--14898983 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
14898936 AATAAAAAAT
14898946 AAAAAATTAGA
1 AAAAAATTAGA
14898957 AAAAAATTAGA
1 AAAAAATTAGA
*
14898968 AAAAAATTATA
1 AAAAAATTAGA
14898979 AAAAA
1 AAAAA
14898984 TTGTAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (11 bp):
AAAAAATTAGA
Found at i:14898981 original size:20 final size:20
Alignment explanation
Indices: 14898958--14899021 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
14898948 AAAATTAGAA
14898958 AAAAATTAGAAAAAAATTAT
1 AAAAATTAGAAAAAAATTAT
* **
14898978 AAAAAATT-GTAAAATTTTAT
1 -AAAAATTAGAAAAAAATTAT
* * *
14898998 AAAAATCATAAAAAAAATAT
1 AAAAATTAGAAAAAAATTAT
14899018 AAAA
1 AAAA
14899022 TGCATCTAAA
Statistics
Matches: 33, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
19 6 0.18
20 20 0.61
21 7 0.21
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.27
Consensus pattern (20 bp):
AAAAATTAGAAAAAAATTAT
Found at i:14898991 original size:9 final size:10
Alignment explanation
Indices: 14898944--14899012 Score: 59
Period size: 10 Copynumber: 6.8 Consensus size: 10
14898934 TTAATAAAAA
14898944 ATAAAAAATT
1 ATAAAAAATT
*
14898954 AGAAAAAAATT
1 A-TAAAAAATT
*
14898965 AGAAAAAAATT
1 A-TAAAAAATT
14898976 ATAAAAAATT
1 ATAAAAAATT
* **
14898986 GTAAAATTTT
1 ATAAAAAATT
*
14898996 AT-AAAAATC
1 ATAAAAAATT
14899005 ATAAAAAA
1 ATAAAAAA
14899013 AATATAAAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
9 6 0.12
10 22 0.46
11 20 0.42
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.26
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:14899335 original size:17 final size:19
Alignment explanation
Indices: 14899298--14899335 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
14899288 TTTTTGAAAA
*
14899298 ATTTTGAAGAGCTTTATAT
1 ATTTTGAAGAGCTTTAAAT
14899317 ATTTTGAA-AG-TTTAAAT
1 ATTTTGAAGAGCTTTAAAT
14899334 AT
1 AT
14899336 AAAAAAACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 8 0.44
18 2 0.11
19 8 0.44
ACGTcount: A:0.37, C:0.03, G:0.13, T:0.47
Consensus pattern (19 bp):
ATTTTGAAGAGCTTTAAAT
Found at i:14911311 original size:19 final size:18
Alignment explanation
Indices: 14911284--14911330 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
14911274 TTTATTTTAT
14911284 TTTTATAATTTTA-AAATTA
1 TTTT-TAATTTTATAAA-TA
*
14911303 TCTTTTAATATTATAAATA
1 T-TTTTAATTTTATAAATA
14911322 TTTTTAATT
1 TTTTTAATT
14911331 GAAATTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 7 0.29
19 11 0.46
20 6 0.25
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTTAATTTTATAAATA
Found at i:14911868 original size:17 final size:17
Alignment explanation
Indices: 14911842--14911876 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
14911832 TAAAAAAGGT
*
14911842 ATAATATAAAATTGAAA
1 ATAATATAAAATGGAAA
*
14911859 ATAATTTAAAATGGAAA
1 ATAATATAAAATGGAAA
14911876 A
1 A
14911877 AAATCAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (17 bp):
ATAATATAAAATGGAAA
Found at i:14919889 original size:25 final size:26
Alignment explanation
Indices: 14919861--14919915 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
14919851 GAAACAATTG
*
14919861 ATAAATAA-TAAAATAAAATTTAAAA
1 ATAAATAATTAAAATAAAATGTAAAA
* *
14919886 AT-AATAATTAAAATAATATGTAATA
1 ATAAATAATTAAAATAAAATGTAAAA
14919911 ATAAA
1 ATAAA
14919916 ATTTTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 5 0.20
25 18 0.72
26 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (26 bp):
ATAAATAATTAAAATAAAATGTAAAA
Found at i:14919938 original size:13 final size:13
Alignment explanation
Indices: 14919868--14919949 Score: 62
Period size: 13 Copynumber: 6.3 Consensus size: 13
14919858 TTGATAAATA
*
14919868 ATAAAATAAAATT
1 ATAAAATAATATT
*
14919881 -TAAAAATAATAAT
1 AT-AAAATAATATT
14919894 -TAAAATAATATGT
1 ATAAAATAATAT-T
* *
14919907 A-ATAATAAAATT
1 ATAAAATAATATT
*
14919919 TTAAAATAATATT
1 ATAAAATAATATT
*
14919932 ATAAAATACTTATT
1 ATAAAATA-ATATT
14919946 ATAA
1 ATAA
14919950 TTACCAAATT
Statistics
Matches: 54, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
12 11 0.20
13 35 0.65
14 8 0.15
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (13 bp):
ATAAAATAATATT
Found at i:14920067 original size:14 final size:14
Alignment explanation
Indices: 14920048--14920086 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
14920038 AAGATATACT
* *
14920048 ATTATATATAGATA
1 ATTATAAATAAATA
14920062 ATTATAAATAAATA
1 ATTATAAATAAATA
*
14920076 ATCATAAATAA
1 ATTATAAATAA
14920087 TAAAAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (14 bp):
ATTATAAATAAATA
Found at i:14920219 original size:20 final size:20
Alignment explanation
Indices: 14920194--14920232 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
14920184 AATCAAAATG
*
14920194 TAATAA-AATTAACAACAATT
1 TAATAACAA-TAAAAACAATT
14920214 TAATAACAATAAAAACAAT
1 TAATAACAATAAAAACAAT
14920233 ATTAGAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.26
Consensus pattern (20 bp):
TAATAACAATAAAAACAATT
Found at i:14925536 original size:17 final size:17
Alignment explanation
Indices: 14925514--14925548 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
14925504 TATAGACTCG
*
14925514 TTTAGATATACTTAGTA
1 TTTAGATATAATTAGTA
14925531 TTTAGATATAATTAGTA
1 TTTAGATATAATTAGTA
14925548 T
1 T
14925549 AATATACGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.49
Consensus pattern (17 bp):
TTTAGATATAATTAGTA
Found at i:14925622 original size:10 final size:11
Alignment explanation
Indices: 14925607--14925635 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
14925597 TCAAATTGAT
14925607 TTTAAATTTA-
1 TTTAAATTTAC
14925617 TTTAAATTTAC
1 TTTAAATTTAC
14925628 TTTAAATT
1 TTTAAATT
14925636 AAAATTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTAAATTTAC
Found at i:14925648 original size:12 final size:12
Alignment explanation
Indices: 14925631--14925672 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 12
14925621 AATTTACTTT
14925631 AAATTAAAATTA
1 AAATTAAAATTA
14925643 AAATTAAAATTA
1 AAATTAAAATTA
14925655 AAATACTAAACATTA
1 AAAT--TAAA-ATTA
14925670 AAA
1 AAA
14925673 AGTCAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 16 0.59
14 4 0.15
15 7 0.26
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (12 bp):
AAATTAAAATTA
Found at i:14925654 original size:18 final size:20
Alignment explanation
Indices: 14925631--14925672 Score: 61
Period size: 18 Copynumber: 2.1 Consensus size: 20
14925621 AATTTACTTT
14925631 AAATTAAAAT-TAAA-ATTA
1 AAATTAAAATATAAACATTA
14925649 AAATTAAAATACTAAACATTA
1 AAATTAAAATA-TAAACATTA
14925670 AAA
1 AAA
14925673 AGTCAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.48
20 4 0.19
21 7 0.33
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (20 bp):
AAATTAAAATATAAACATTA
Found at i:14925673 original size:28 final size:26
Alignment explanation
Indices: 14925635--14925687 Score: 61
Period size: 28 Copynumber: 2.0 Consensus size: 26
14925625 TACTTTAAAT
*
14925635 TAAAATTAAAATTAAAATTAAAATAC
1 TAAAATTAAAAGTAAAATTAAAATAC
* *
14925661 TAAACATTAAAAAGTCAAATTATAATA
1 TAAA-ATT-AAAAGTAAAATTAAAATA
14925688 AAAGCCCAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 4 0.18
27 3 0.14
28 15 0.68
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (26 bp):
TAAAATTAAAAGTAAAATTAAAATAC
Found at i:14927479 original size:60 final size:60
Alignment explanation
Indices: 14927413--14927559 Score: 224
Period size: 60 Copynumber: 2.5 Consensus size: 60
14927403 AAATTGTCCA
* * *
14927413 AAAATTACATTTTGACCCTAAAACTTTTTGGAAATTACATTTCAACCCCAAAACTTTTCC
1 AAAATTATATTTTGACCCTAAAACTTTTTAGAAATTACATTTCAACCCAAAAACTTTTCC
* * *
14927473 AAAATTATATTTTAACCCTAAAACTTTCTAGAAATTACATTTTAACCCAAAAACTTTTCC
1 AAAATTATATTTTGACCCTAAAACTTTTTAGAAATTACATTTCAACCCAAAAACTTTTCC
*
14927533 AAAATCATATTTTGACCCTAAAA-TTTT
1 AAAATTATATTTTGACCCTAAAACTTTT
14927560 CAAAAAAATT
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
59 3 0.04
60 75 0.96
ACGTcount: A:0.39, C:0.20, G:0.03, T:0.37
Consensus pattern (60 bp):
AAAATTATATTTTGACCCTAAAACTTTTTAGAAATTACATTTCAACCCAAAAACTTTTCC
Found at i:14927576 original size:31 final size:30
Alignment explanation
Indices: 14927411--14927619 Score: 192
Period size: 30 Copynumber: 6.9 Consensus size: 30
14927401 CTAAATTGTC
*
14927411 CAAAAATTACATTTTGACCCTAAAACTTTT
1 CAAAAATTACATTTTAACCCTAAAACTTTT
*** * *
14927441 TGGAAATTACATTTCAACCCCAAAACTTTT
1 CAAAAATTACATTTTAACCCTAAAACTTTT
* *
14927471 CCAAAATTATATTTTAACCCTAAAAC-TTT
1 CAAAAATTACATTTTAACCCTAAAACTTTT
* *
14927500 CTAGAAATTACATTTTAACCCAAAAACTTTT
1 C-AAAAATTACATTTTAACCCTAAAACTTTT
* * * *
14927531 CCAAAATCATATTTTGACCCTAAAA-TTTT
1 CAAAAATTACATTTTAACCCTAAAACTTTT
* *
14927560 CAAAAAAATTACATTTTTACCCTGAAAC-TTT
1 C--AAAAATTACATTTTAACCCTAAAACTTTT
*
14927591 CAAAAATTACCATTTCT-ACCCTTAAACTT
1 CAAAAATTA-CATTT-TAACCCTAAAACTT
14927620 CCCTAAATCC
Statistics
Matches: 143, Mismatches: 28, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
29 17 0.12
30 97 0.68
31 29 0.20
ACGTcount: A:0.40, C:0.22, G:0.03, T:0.36
Consensus pattern (30 bp):
CAAAAATTACATTTTAACCCTAAAACTTTT
Found at i:14927598 original size:90 final size:89
Alignment explanation
Indices: 14927411--14927605 Score: 212
Period size: 90 Copynumber: 2.2 Consensus size: 89
14927401 CTAAATTGTC
* * *** * *
14927411 CAAAAATTACATTTTGACCCTAAAACTTTTTGGAAATTACATTTCAACCCCAAAACTTTTCCAAA
1 CAAAAATTACATTTTAACCCAAAAACTTTTCCAAAATCACATTTCAACCCCAAAACTTTTCAAAA
*
14927476 ATTATATTTTAACCCTAAAACTTT
66 ATTACATTTTAACCCTAAAACTTT
* * ** *
14927500 CTAGAAATTACATTTTAACCCAAAAACTTTTCCAAAATCATATTTTGACCCTAAAA-TTTTCAAA
1 C-AAAAATTACATTTTAACCCAAAAACTTTTCCAAAATCACATTTCAACCCCAAAACTTTTC--A
* *
14927564 AAAATTACATTTTTACCCTGAAACTTT
63 AAAATTACATTTTAACCCTAAAACTTT
14927591 CAAAAATTACCATTT
1 CAAAAATTA-CATTT
14927606 CTACCCTTAA
Statistics
Matches: 86, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
89 6 0.07
90 50 0.58
91 30 0.35
ACGTcount: A:0.41, C:0.21, G:0.03, T:0.36
Consensus pattern (89 bp):
CAAAAATTACATTTTAACCCAAAAACTTTTCCAAAATCACATTTCAACCCCAAAACTTTTCAAAA
ATTACATTTTAACCCTAAAACTTT
Found at i:14927677 original size:58 final size:58
Alignment explanation
Indices: 14927593--14927724 Score: 201
Period size: 58 Copynumber: 2.2 Consensus size: 58
14927583 GAAACTTTCA
*
14927593 AAAATTACCATTTCTACCCTTAAACTTCCCTAAATCCCATTTTAAACCCCAATTTCACT
1 AAAATTACCATTT-TACCCTTAAACTTCCCTAAATCCCATTTTAAACCCCAATTTCACC
* * * *
14927652 AAAATTACCATTTTACCCTTAAACTTCCCTAAATCCCATTTTTAACCTCGATTTTACC
1 AAAATTACCATTTTACCCTTAAACTTCCCTAAATCCCATTTTAAACCCCAATTTCACC
14927710 AAAATTTACCATTTT
1 AAAA-TTACCATTTT
14927725 GCCCCCGGGT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
58 44 0.66
59 23 0.34
ACGTcount: A:0.33, C:0.29, G:0.01, T:0.37
Consensus pattern (58 bp):
AAAATTACCATTTTACCCTTAAACTTCCCTAAATCCCATTTTAAACCCCAATTTCACC
Found at i:14927684 original size:30 final size:30
Alignment explanation
Indices: 14927564--14927684 Score: 101
Period size: 30 Copynumber: 4.1 Consensus size: 30
14927554 AATTTTCAAA
* * *
14927564 AAAATTA-CATTTTTACCCTGAAACTT-TCA
1 AAAATTACCA-TTTTACCCTTAAACTTCCCT
14927593 AAAATTACCATTTCTACCCTTAAACTTCCCT
1 AAAATTACCATTT-TACCCTTAAACTTCCCT
* * * *
14927624 -AAA-TCCCATTTTAAACCC--CAATTTCACT
1 AAAATTACCATTTT--ACCCTTAAACTTCCCT
14927652 AAAATTACCATTTTACCCTTAAACTTCCCT
1 AAAATTACCATTTTACCCTTAAACTTCCCT
14927682 AAA
1 AAA
14927685 TCCCATTTTT
Statistics
Matches: 72, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
28 12 0.17
29 20 0.28
30 39 0.54
31 1 0.01
ACGTcount: A:0.36, C:0.28, G:0.01, T:0.35
Consensus pattern (30 bp):
AAAATTACCATTTTACCCTTAAACTTCCCT
Found at i:14927691 original size:28 final size:28
Alignment explanation
Indices: 14927600--14927693 Score: 93
Period size: 28 Copynumber: 3.2 Consensus size: 28
14927590 TCAAAAATTA
14927600 CCATTTCTACCCTTAAACTTCCCTAAATC
1 CCATTT-TACCCTTAAACTTCCCTAAATC
* * * *
14927629 CCATTTTAAACCC--CAATTTCACTAAAATTA
1 CCATTTT--ACCCTTAAACTTCCCT-AAA-TC
14927659 CCATTTTACCCTTAAACTTCCCTAAATC
1 CCATTTTACCCTTAAACTTCCCTAAATC
14927687 CCATTTT
1 CCATTTT
14927694 TAACCTCGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
28 20 0.39
29 12 0.24
30 19 0.37
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.36
Consensus pattern (28 bp):
CCATTTTACCCTTAAACTTCCCTAAATC
Found at i:14939554 original size:68 final size:68
Alignment explanation
Indices: 14939440--14940576 Score: 1822
Period size: 68 Copynumber: 16.6 Consensus size: 68
14939430 TTTCTGTCCG
*
14939440 CTTGAAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTGAGAGCAACGTCA
1 CTTG-AAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCA
14939505 TCCT
65 TCCT
*
14939509 CTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
14939574 -CT
66 CCT
*
14939576 GCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTTTCTCTGAAATTGAAGTAAGAGCAACGTCA
1 -CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCA
14939641 TCC-
65 TCCT
14939644 CTATGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTC
1 CT-TGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTC
14939709 ATCCT
64 ATCCT
* * *
14939714 CTTGAAATTGAAGTAGAGTGGATAACTCGTCTTTTTCTTTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
14939779 CCT
66 CCT
* *
14939782 TTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
14939847 -CT
66 CCT
* *
14939849 GCTTGAAATTAAAGTAGAGTGGATAACACGTCTTTTTCTCTGAAATTGAAGTAAGAGCAACGTCA
1 -CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCA
*
14939914 TCCC
65 TCCT
*
14939918 CTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAAAGCAACGTCA
1 CTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCA
14939983 T-CT
65 TCCT
*
14939986 GCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTC
1 -CTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTC
14940051 AT-CT
64 ATCCT
*
14940055 GCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTTTCTCTGAAATTGAAGTAAGAGCAACGTCA
1 -CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCA
*
14940120 TCCC
65 TCCT
14940124 CTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCA
1 CTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCA
14940189 T-CT
65 TCCT
* *
14940192 GCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACATC
1 -CTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTC
14940257 ATCCT
64 ATCCT
*
14940262 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTTTCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
14940327 CCT
66 CCT
* *
14940330 CTTGAAATTAAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
14940395 -CT
66 CCT
* *
14940397 GCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCCGAAATTGAAGTAAGAGCAACGTC
1 -CTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTC
*
14940462 ATCCG
64 ATCCT
*
14940467 CTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCA
1 CTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCA
14940532 TCCT
65 TCCT
* **
14940536 CTTGAAATTGAAGT-GAAGTGGGATAGCAAATCTTTATCTCT
1 CTTGAAATTGAAGTAG-AGT-GGATAACACGTCTTTATCTCT
14940577 CTAAAGAGCA
Statistics
Matches: 1002, Mismatches: 48, Indels: 36
0.92 0.04 0.03
Matches are distributed among these distances:
67 8 0.01
68 516 0.51
69 473 0.47
70 5 0.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (68 bp):
CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
CCT
Found at i:14939718 original size:137 final size:135
Alignment explanation
Indices: 14939439--14940576 Score: 1807
Period size: 137 Copynumber: 8.3 Consensus size: 135
14939429 TTTTCTGTCC
*
14939439 GCTTGAAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTGAGAGCAACGTC
1 GCTTG-AAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTC
*
14939504 ATCCTCTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
65 ATCC-CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
14939569 GTCATCT
129 GTCATCT
*
14939576 GCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTTTCTCTGAAATTGAAGTAAGAGCAACGTCA
1 GCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCA
14939641 TCCCTATGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
66 TCCCT-TGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
14939706 GTCATCCT
129 GTCAT-CT
* * *
14939714 -CTTGAAATTGAAGTAGAGTGGATAACTCGTCTTTTTCTTTGAAATTGAAGTAAGAGCAACGTCA
1 GCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCA
* *
14939778 TCCTTTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGCAACG
66 TCC-CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACG
14939843 TCATCT
130 TCATCT
* *
14939849 GCTTGAAATTAAAGTAGAGTGGATAACACGTCTTTTTCTCTGAAATTGAAGTAAGAGCAACGTCA
1 GCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCA
*
14939914 TCCCCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAAAGCAAC
66 T-CCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
14939979 GTCATCT
129 GTCATCT
*
14939986 GCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTC
1 GCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTC
* *
14940051 ATCTGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTTTCTCTGAAATTGAAGTAAGAGCAAC
65 ATC-CCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
*
14940116 GTCATCC
129 GTCATCT
*
14940123 CCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTC
1 GCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTC
* *
14940188 ATCTGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
65 ATC-CCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
*
14940253 CATCATCCT
128 CGTCAT-CT
*
14940262 -CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTTTCTCTGAAATTGAAGTAAGAGCAACGTCA
1 GCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCA
* *
14940326 TCCTCTTGAAATTAAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGCAACG
66 TCC-CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACG
14940391 TCATCT
130 TCATCT
* *
14940397 GCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCCGAAATTGAAGTAAGAGCAACGTC
1 GCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTC
*
14940462 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
65 ATCC-CTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
14940527 CGTCATCCT
128 CGTCAT-CT
* **
14940536 -CTTGAAATTGAAGT-GAAGTGGGATAGCAAATCTTTATCTCT
1 GCTTGAAATTGAAGTAG-AGT-GGATAACACGTCTTTATCTCT
14940577 CTAAAGAGCA
Statistics
Matches: 939, Mismatches: 44, Indels: 35
0.92 0.04 0.03
Matches are distributed among these distances:
135 6 0.01
136 264 0.28
137 461 0.49
138 205 0.22
139 3 0.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (135 bp):
GCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCA
TCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGT
CATCT
Found at i:14942407 original size:30 final size:29
Alignment explanation
Indices: 14942370--14942607 Score: 210
Period size: 30 Copynumber: 8.0 Consensus size: 29
14942360 CTAAATTATC
14942370 CAAAAATTACATTTTGACCCCAAAACTTT
1 CAAAAATTACATTTTGACCCCAAAACTTT
*
14942399 CAAGAAATTACATTTTGACCCTAAAACTTTT
1 CAA-AAATTACATTTTGACCCCAAAAC-TTT
* * *
14942430 CCAAAATTATATTTTAACCCCAAAGA-TTT
1 CAAAAATTACATTTTGACCCCAAA-ACTTT
* * *
14942459 TAGAAATTACATTTTGACCCTAAAACTTTT
1 CAAAAATTACATTTTGACCCCAAAAC-TTT
* * *
14942489 CCAAAATTATATTTTAACCCCAAAACTTTT
1 CAAAAATTACATTTTGACCCCAAAAC-TTT
* * * *
14942519 CCAAAATCATATTTTGACCCTAAAA-TTT
1 CAAAAATTACATTTTGACCCCAAAACTTT
* * *
14942547 CCAAAAAAATTACATTTTTACCTCGAAACTTT
1 -C--AAAAATTACATTTTGACCCCAAAACTTT
* *
14942579 CAAAAATTACCATTTTTACCCCTAAACTT
1 CAAAAATTA-CATTTTGACCCCAAAACTT
14942608 CCTTAAATCC
Statistics
Matches: 170, Mismatches: 29, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
28 4 0.02
29 33 0.19
30 106 0.62
31 24 0.14
32 3 0.02
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.35
Consensus pattern (29 bp):
CAAAAATTACATTTTGACCCCAAAACTTT
Found at i:14942471 original size:59 final size:59
Alignment explanation
Indices: 14942372--14942552 Score: 253
Period size: 59 Copynumber: 3.1 Consensus size: 59
14942362 AAATTATCCA
* * *
14942372 AAAATTACATTTTGACCCCAAAACTTTCAAGAAATTACATTTTGACCCTAAAACTTTTCC
1 AAAATTATATTTTAACCCCAAAACTTT-TAGAAATTACATTTTGACCCTAAAACTTTTCC
14942432 AAAATTATATTTTAACCCCAAAGA-TTTTAGAAATTACATTTTGACCCTAAAACTTTTCC
1 AAAATTATATTTTAACCCCAAA-ACTTTTAGAAATTACATTTTGACCCTAAAACTTTTCC
* *
14942491 AAAATTATATTTTAACCCCAAAACTTTTCCA-AAATCATATTTTGACCCTAAAA--TTTCC
1 AAAATTATATTTTAACCCCAAAACTTTT--AGAAATTACATTTTGACCCTAAAACTTTTCC
14942549 AAAA
1 AAAA
14942553 AAATTACATT
Statistics
Matches: 112, Mismatches: 5, Indels: 10
0.88 0.04 0.08
Matches are distributed among these distances:
58 10 0.09
59 57 0.51
60 43 0.38
61 2 0.02
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.35
Consensus pattern (59 bp):
AAAATTATATTTTAACCCCAAAACTTTTAGAAATTACATTTTGACCCTAAAACTTTTCC
Found at i:14942524 original size:89 final size:88
Alignment explanation
Indices: 14942373--14942607 Score: 267
Period size: 89 Copynumber: 2.6 Consensus size: 88
14942363 AATTATCCAA
* * *
14942373 AAATTACATTTTGACCCCAAAACTTTCAAGAAATTACATTTTGACCCTAAAACTTTTCCAAAATT
1 AAATTACATTTTGACCCCAAAACTTTCAAGAAATTACATTTTAACCCCAAAACTTTTCCAAAATC
14942438 ATATTTTAACCCCAAAGATTTTAG
66 ATATTTTAACCCCAAA-ATTTTAG
* * *
14942462 AAATTACATTTTGACCCTAAAACTTTTCCA-AAATTATATTTTAACCCCAAAACTTTTCCAAAAT
1 AAATTACATTTTGACCCCAAAAC-TTTCAAGAAATTACATTTTAACCCCAAAACTTTTCCAAAAT
* * * *
14942526 CATATTTTGACCCTAAAATTTCCAAAA
65 CATATTTTAACCCCAAAATTT---TAG
* * * * *
14942553 AAATTACATTTTTACCTCGAAACTTTCAA-AAATTACCATTTTTACCCCTAAACTT
1 AAATTACATTTTGACCCCAAAACTTTCAAGAAATTA-CATTTTAACCCCAAAACTT
14942608 CCTTAAATCC
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
88 4 0.03
89 67 0.54
90 16 0.13
91 36 0.29
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.36
Consensus pattern (88 bp):
AAATTACATTTTGACCCCAAAACTTTCAAGAAATTACATTTTAACCCCAAAACTTTTCCAAAATC
ATATTTTAACCCCAAAATTTTAG
Found at i:14942686 original size:57 final size:58
Alignment explanation
Indices: 14942581--14942716 Score: 186
Period size: 57 Copynumber: 2.3 Consensus size: 58
14942571 GAAACTTTCA
**
14942581 AAAATTACCATTTTTACCCCTAAACTTCCTTAAATCCCATTTTAAACCCCGATTTCATT
1 AAAATTACCA-TTTTACCCCTAAACTTCCTTAAATCCCATTTTAAACCCCGATTTCACC
* *
14942640 AAAATTACCATTTTA-CCCTCAAACTTCCTT-AATCCCATTTTTAACCCCGATTTTACC
1 AAAATTACCATTTTACCCCT-AAACTTCCTTAAATCCCATTTTAAACCCCGATTTCACC
*
14942697 AAAATTTACCATTTTGCCCC
1 AAAA-TTACCATTTTACCCC
14942717 CGGGTATCCT
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
57 31 0.45
58 25 0.36
59 13 0.19
ACGTcount: A:0.31, C:0.30, G:0.02, T:0.37
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCTAAACTTCCTTAAATCCCATTTTAAACCCCGATTTCACC
Found at i:14948917 original size:20 final size:20
Alignment explanation
Indices: 14948880--14948918 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
14948870 AAGACCTGAC
*
14948880 CCAAAGCAAGAATGAAGAAT
1 CCAAAGCAAGAATCAAGAAT
14948900 CCAAAGGCAAGAA-CAAGAA
1 CCAAA-GCAAGAATCAAGAA
14948919 CAAGGTTGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.56, C:0.18, G:0.21, T:0.05
Consensus pattern (20 bp):
CCAAAGCAAGAATCAAGAAT
Found at i:14949764 original size:17 final size:17
Alignment explanation
Indices: 14949744--14949820 Score: 73
Period size: 17 Copynumber: 4.4 Consensus size: 17
14949734 TTTAAATAAG
14949744 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* * *
14949761 TTTAAATTCATTTTTTGAG
1 TTTAAATT--TATTTTAAA
* *
14949780 TTTGAATTTACTTTAAA
1 TTTAAATTTATTTTAAA
*
14949797 TTTAAATTTATTTTCAA
1 TTTAAATTTATTTTAAA
*
14949814 TTAAAAT
1 TTTAAAT
14949821 AAAATTAAAA
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
17 33 0.72
19 13 0.28
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:14949788 original size:36 final size:36
Alignment explanation
Indices: 14949742--14949810 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
14949732 ATTTTAAATA
*
14949742 AGTTTAAATTTATTTTAAATTTAAATTCATTTTTTG
1 AGTTTAAATTTACTTTAAATTTAAATTCATTTTTTG
* *
14949778 AGTTTGAATTTACTTTAAATTTAAATTTATTTT
1 AGTTTAAATTTACTTTAAATTTAAATTCATTTT
14949811 CAATTAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (36 bp):
AGTTTAAATTTACTTTAAATTTAAATTCATTTTTTG
Found at i:14951281 original size:3 final size:3
Alignment explanation
Indices: 14951273--14951301 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
14951263 TTTAAACCCT
14951273 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
14951302 TCATTCCCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:14955889 original size:6 final size:6
Alignment explanation
Indices: 14955878--14955906 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
14955868 CAAAAGGAAA
14955878 GAAGAT GAAGAT GAAGAT GAAGAT GAAGA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGA
14955907 AAAGAGGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.34, T:0.14
Consensus pattern (6 bp):
GAAGAT
Found at i:14965097 original size:20 final size:20
Alignment explanation
Indices: 14965052--14965099 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
14965042 AATAATTTTC
*
14965052 ATTTTTTTGAATTTTTATTA
1 ATTTTTTTGAATTTTAATTA
* *
14965072 ACTTTTTAT-AATTTTAATTT
1 A-TTTTTTTGAATTTTAATTA
14965092 ATTTTTTT
1 ATTTTTTT
14965100 AAAATATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 6 0.26
20 11 0.48
21 6 0.26
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (20 bp):
ATTTTTTTGAATTTTAATTA
Found at i:14965257 original size:19 final size:18
Alignment explanation
Indices: 14965233--14965274 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
14965223 AATGTTTTTT
14965233 ATTAATATTTCTATTAAAA-
1 ATTAAT-TTT-TATTAAAAG
*
14965252 ATTAATTTTTTTTAAAAG
1 ATTAATTTTTATTAAAAG
14965270 ATTAA
1 ATTAA
14965275 CAGCTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 7 0.33
18 8 0.38
19 6 0.29
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (18 bp):
ATTAATTTTTATTAAAAG
Found at i:14965847 original size:59 final size:60
Alignment explanation
Indices: 14965730--14965848 Score: 136
Period size: 59 Copynumber: 2.0 Consensus size: 60
14965720 AACATGAATA
* * *
14965730 AAAAAAGTTCAAGTCCTAATGTGAAAACATTTGTCAAATTTAAGGTTAACTTTGAAAAAG
1 AAAAAAGTTCAAGTCCTAATGTGAAAACAATTGTCAAATTTAAGCTTAACTTTAAAAAAG
* * *
14965790 AAAAAA-TTCAAG-CTCTAATGT-ATGAACAATTGTCAAGTTTAAAGCTTAACTTAAAAAAA
1 AAAAAAGTTCAAGTC-CTAATGTGA-AAACAATTGTCAAATTT-AAGCTTAACTTTAAAAAA
14965849 ATTCAGACTT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
58 2 0.04
59 27 0.54
60 21 0.42
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (60 bp):
AAAAAAGTTCAAGTCCTAATGTGAAAACAATTGTCAAATTTAAGCTTAACTTTAAAAAAG
Found at i:14973346 original size:19 final size:19
Alignment explanation
Indices: 14973322--14973359 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
14973312 GATGGTTTTT
14973322 GTTAATTAAA-TATAATTAA
1 GTTAATTAAACT-TAATTAA
14973341 GTTAATTAAACTTAATTAA
1 GTTAATTAAACTTAATTAA
14973360 CTAATCCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (19 bp):
GTTAATTAAACTTAATTAA
Found at i:14977986 original size:34 final size:33
Alignment explanation
Indices: 14977937--14978000 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 33
14977927 GGCTTAATTT
14977937 AGACTACATAATGAAACATTTGAGTGGAAAAAAA
1 AGACTACATAATGAAACATTTGAGT-GAAAAAAA
*
14977971 AGACTACA-AAGTGAAACATTTTAGTGAAAA
1 AGACTACATAA-TGAAACATTTGAGTGAAAA
14978001 TCTAAATATC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 7 0.25
34 21 0.75
ACGTcount: A:0.52, C:0.09, G:0.17, T:0.22
Consensus pattern (33 bp):
AGACTACATAATGAAACATTTGAGTGAAAAAAA
Found at i:14982252 original size:41 final size:40
Alignment explanation
Indices: 14982207--14982283 Score: 91
Period size: 40 Copynumber: 1.9 Consensus size: 40
14982197 CCTTTAGCGA
14982207 CGTTTGGAAAGAAAACGCCGCAAAAGGTAAAGCAATAACGG
1 CGTTTGGAAA-AAAACGCCGCAAAAGGTAAAGCAATAACGG
**** * *
14982248 CGTTTTTCCATAAACGCCGTAAAAGGTAAAGCAATA
1 CGTTTGGAAAAAAACGCCGCAAAAGGTAAAGCAATA
14982284 GCAACGTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
40 24 0.80
41 6 0.20
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (40 bp):
CGTTTGGAAAAAAACGCCGCAAAAGGTAAAGCAATAACGG
Found at i:14982395 original size:41 final size:40
Alignment explanation
Indices: 14982341--14982680 Score: 306
Period size: 41 Copynumber: 8.3 Consensus size: 40
14982331 GTTTATGTCA
* *
14982341 AAGCGCAGCTAAAGGTCAGGACATTAGCAACGCTTTCCCAT
1 AAGCGCCGCTAAAGGTCAGG-CATTAGCGACGCTTTCCCAT
* * **
14982382 AAGCACCGTTAAAGGTCAGGTCATTAGCGACGCTTTCTTAT
1 AAGCGCCGCTAAAGGTCAGG-CATTAGCGACGCTTTCCCAT
* * *
14982423 AAACGCCGCTAAAGGTCAGGTCACTAGCGGCGCTTTCCCAT
1 AAGCGCCGCTAAAGGTCAGG-CATTAGCGACGCTTTCCCAT
* *
14982464 AAGCGCCGCTAAAGGTCAAGGTATTAGTGACGC-TTCCTCAT
1 AAGCGCCGCTAAAGGTC-AGGCATTAGCGACGCTTTCC-CAT
* ** * * * *
14982505 AAGCACAACTAAAGGTCAAGGCATTAGCGGCACTTTCTCAA
1 AAGCGCCGCTAAAGGTC-AGGCATTAGCGACGCTTTCCCAT
* ** *
14982546 AAGCGTCGCTAAAGGTCAAATCATTAGCGGCGCTTTCCCAT
1 AAGCGCCGCTAAAGGTC-AGGCATTAGCGACGCTTTCCCAT
* * * * *
14982587 AAGCGCTGCTAAAGGTCAAGGGATTAGTGACAC-TTCCTGAT
1 AAGCGCCGCTAAAGGTC-AGGCATTAGCGACGCTTTCC-CAT
* * *
14982628 AATCGCCGCTAAAGGTTAGGTCATTAGCGACGTTTTCCCAT
1 AAGCGCCGCTAAAGGTCAGG-CATTAGCGACGCTTTCCCAT
14982669 AAGCGCCGCTAA
1 AAGCGCCGCTAA
14982681 TTTATTTAAA
Statistics
Matches: 238, Mismatches: 55, Indels: 12
0.78 0.18 0.04
Matches are distributed among these distances:
40 11 0.05
41 217 0.91
42 10 0.04
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (40 bp):
AAGCGCCGCTAAAGGTCAGGCATTAGCGACGCTTTCCCAT
Found at i:14982434 original size:82 final size:82
Alignment explanation
Indices: 14982341--14982680 Score: 339
Period size: 82 Copynumber: 4.1 Consensus size: 82
14982331 GTTTATGTCA
* * * * *
14982341 AAGCGCAGCTAAAGGTC-AGGACATTAGCAACGCTTTCCCATAAGCACCGTTAAAGGTCAGGTCA
1 AAGCGCCGCTAAAGGTCAAGG-CATTAGCGACACTTTCCCATAAGCGCCGCTAAAGGTCAGGTCA
**
14982405 TTAGCGACGCTTTCTTAT
65 TTAGCGACGCTTTCCCAT
* * * *
14982423 AAACGCCGCTAAAGGTC-AGGTCACTAGCGGCGCTTTCCCATAAGCGCCGCTAAAGGTCAAGGT-
1 AAGCGCCGCTAAAGGTCAAGG-CATTAGCGACACTTTCCCATAAGCGCCGCTAAAGGTC-AGGTC
*
14982486 ATTAGTGACGC-TTCCTCAT
64 ATTAGCGACGCTTTCC-CAT
* ** * * * * **
14982505 AAGCACAACTAAAGGTCAAGGCATTAGCGGCACTTTCTCAAAAGCGTCGCTAAAGGTCAAATCAT
1 AAGCGCCGCTAAAGGTCAAGGCATTAGCGACACTTTCCCATAAGCGCCGCTAAAGGTCAGGTCAT
*
14982570 TAGCGGCGCTTTCCCAT
66 TAGCGACGCTTTCCCAT
* * * * * *
14982587 AAGCGCTGCTAAAGGTCAAGGGATTAGTGACAC-TTCCTGATAATCGCCGCTAAAGGTTAGGTCA
1 AAGCGCCGCTAAAGGTCAAGGCATTAGCGACACTTTCC-CATAAGCGCCGCTAAAGGTCAGGTCA
*
14982651 TTAGCGACGTTTTCCCAT
65 TTAGCGACGCTTTCCCAT
14982669 AAGCGCCGCTAA
1 AAGCGCCGCTAA
14982681 TTTATTTAAA
Statistics
Matches: 211, Mismatches: 41, Indels: 12
0.80 0.16 0.05
Matches are distributed among these distances:
81 8 0.04
82 192 0.91
83 11 0.05
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (82 bp):
AAGCGCCGCTAAAGGTCAAGGCATTAGCGACACTTTCCCATAAGCGCCGCTAAAGGTCAGGTCAT
TAGCGACGCTTTCCCAT
Found at i:14982468 original size:123 final size:123
Alignment explanation
Indices: 14982341--14982680 Score: 400
Period size: 123 Copynumber: 2.8 Consensus size: 123
14982331 GTTTATGTCA
** *
14982341 AAGCGCAGCTAAAGGTC-AGGACATTAGCAACGCTTTCC-CATAAGCACCGTTAAAGGTCAGGTC
1 AAGCGCAGCTAAAGGTCAAGG-CATTAGTGACGC-TTCCTCATAAGCACCGCTAAAGGTCAGGTC
* **
14982404 ATTAGCGACGCTTTCTTATAAACGCCGCTAAAGGTCAGGTCACTAGCGGCGCTTTCCCAT
64 ATTAGCGACGCTTTCTCATAAACGCCGCTAAAGGTCAAATCACTAGCGGCGCTTTCCCAT
* * **
14982464 AAGCGCCGCTAAAGGTCAAGGTATTAGTGACGCTTCCTCATAAGCACAACTAAAGGTCAAGG-CA
1 AAGCGCAGCTAAAGGTCAAGGCATTAGTGACGCTTCCTCATAAGCACCGCTAAAGGTC-AGGTCA
* * * *
14982528 TTAGCGGCACTTTCTCA-AAAGCGTCGCTAAAGGTCAAATCATTAGCGGCGCTTTCCCAT
65 TTAGCGACGCTTTCTCATAAA-CGCCGCTAAAGGTCAAATCACTAGCGGCGCTTTCCCAT
* * * * * * *
14982587 AAGCGCTGCTAAAGGTCAAGGGATTAGTGACACTTCCTGATAATCGCCGCTAAAGGTTAGGTCAT
1 AAGCGCAGCTAAAGGTCAAGGCATTAGTGACGCTTCCTCATAAGCACCGCTAAAGGTCAGGTCAT
* * *
14982652 TAGCGACGTTTTCCCATAAGCGCCGCTAA
66 TAGCGACGCTTTCTCATAAACGCCGCTAA
14982681 TTTATTTAAA
Statistics
Matches: 182, Mismatches: 29, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
122 10 0.05
123 164 0.90
124 8 0.04
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (123 bp):
AAGCGCAGCTAAAGGTCAAGGCATTAGTGACGCTTCCTCATAAGCACCGCTAAAGGTCAGGTCAT
TAGCGACGCTTTCTCATAAACGCCGCTAAAGGTCAAATCACTAGCGGCGCTTTCCCAT
Found at i:14983457 original size:19 final size:20
Alignment explanation
Indices: 14983429--14983469 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
14983419 TAAATTTTAT
*
14983429 AATATAATTTT-ATTTATTA
1 AATATAATTTTCATTTAATA
*
14983448 AATATTATTTTCATTTAATA
1 AATATAATTTTCATTTAATA
14983468 AA
1 AA
14983470 ATATCATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
AATATAATTTTCATTTAATA
Found at i:14985207 original size:21 final size:21
Alignment explanation
Indices: 14985178--14985217 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
14985168 CTTCGACTTA
*
14985178 AAGCAGAGGTAGCAGCGAGGG
1 AAGCAGAGGCAGCAGCGAGGG
* *
14985199 AAGCGGAGGCAGTAGCGAG
1 AAGCAGAGGCAGCAGCGAG
14985218 AGTTACGAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.15, G:0.47, T:0.05
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGGG
Found at i:14985623 original size:15 final size:15
Alignment explanation
Indices: 14985603--14985633 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
14985593 TTTGTGGGTA
*
14985603 AAAGCGCCGCTAAAG
1 AAAGCGACGCTAAAG
14985618 AAAGCGACGCTAAAG
1 AAAGCGACGCTAAAG
14985633 A
1 A
14985634 TCATGTTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.23, G:0.26, T:0.06
Consensus pattern (15 bp):
AAAGCGACGCTAAAG
Found at i:14985696 original size:43 final size:42
Alignment explanation
Indices: 14985618--14985880 Score: 233
Period size: 43 Copynumber: 6.0 Consensus size: 42
14985608 GCCGCTAAAG
* *
14985618 AAAGCGACGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGCA
1 AAAGCGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGG-A
* * * *
14985661 AAAGTGCCGTTAAAAACCATGTTCTTTAGCGGCGTTGCGGCGTTTGTAGGT
1 AAAGCGCCGCTAAAGACCATGTTCTTTA--------GCGGCGTTTGT-GGA
* * *
14985712 AAAGCGCCACTAAAAACCTTGTAT-TTTAGCGGCGTTTGTGGTA
1 AAAGCGCCGCTAAAGACCATGT-TCTTTAGCGGCGTTTGTGG-A
*
14985755 GAAGCGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGGTA
1 AAAGCGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGG-A
* * * * *
14985798 GAAGCGCTGC-AAAGACCATGTTATTTAGCGGCATTTGTGTGG
1 AAAGCGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTGTG-GA
* *
14985840 AAAGTGCCGCTAAAGACCATGTTCTTTAGCGGCGTCTGTGG
1 AAAGCGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGG
14985881 GGAAGATGTG
Statistics
Matches: 181, Mismatches: 25, Indels: 29
0.77 0.11 0.12
Matches are distributed among these distances:
42 38 0.21
43 107 0.59
51 33 0.18
52 3 0.02
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (42 bp):
AAAGCGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGGA
Found at i:14985851 original size:85 final size:85
Alignment explanation
Indices: 14985697--14985880 Score: 239
Period size: 85 Copynumber: 2.2 Consensus size: 85
14985687 TAGCGGCGTT
* * *
14985697 GCGGCGTTTGTAGGTAAAGCGCCACTAAAAACCTTGTATTTTAGCGGCGTTTGTGGTAGAAGCGC
1 GCGGCGTTTGT-GGTAAAGCGCCACTAAAAACCATGTATTTTAGCGGCATTTGTGGGAGAAGCGC
14985762 CGCTAAAGACCATGTTCTTTA
65 CGCTAAAGACCATGTTCTTTA
** * *
14985783 GCGGCGTTTGTGGTAGAAGCGCTGC-AAAGACCATGT-TATTTAGCGGCATTTGTGTGGA-AAGT
1 GCGGCGTTTGTGGTA-AAGCGCCACTAAAAACCATGTAT-TTTAGCGGCATTTGTG-GGAGAAGC
14985845 GCCGCTAAAGACCATGTTCTTTA
63 GCCGCTAAAGACCATGTTCTTTA
*
14985868 GCGGCGTCTGTGG
1 GCGGCGTTTGTGG
14985881 GGAAGATGTG
Statistics
Matches: 87, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
84 1 0.01
85 66 0.76
86 20 0.23
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (85 bp):
GCGGCGTTTGTGGTAAAGCGCCACTAAAAACCATGTATTTTAGCGGCATTTGTGGGAGAAGCGCC
GCTAAAGACCATGTTCTTTA
Found at i:14988430 original size:21 final size:20
Alignment explanation
Indices: 14988402--14988440 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
14988392 ATTTAATATT
14988402 CATTAATTTTAATACAATAA
1 CATTAATTTTAATACAATAA
*
14988422 CATTAAATTTTAATTCAAT
1 CATT-AATTTTAATACAAT
14988441 TTAATACATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (20 bp):
CATTAATTTTAATACAATAA
Found at i:14988900 original size:19 final size:21
Alignment explanation
Indices: 14988859--14988929 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
14988849 AAAAATTCAG
* *
14988859 AAAAATATAAAAATTATTTTT
1 AAAAATATAAAAATCATTATT
14988880 AAAAAT-TAAAAATCA-TATT
1 AAAAATATAAAAATCATTATT
* *
14988899 AAAACATATAAAATATAAAATATT
1 AAAA-ATATAAAA-AT-CATTATT
14988923 AAAAATA
1 AAAAATA
14988930 ATTAATTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
19 7 0.17
20 10 0.24
21 11 0.26
22 2 0.05
23 4 0.10
24 8 0.19
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAAATATAAAAATCATTATT
Found at i:14989590 original size:3 final size:3
Alignment explanation
Indices: 14989582--14989615 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
14989572 TACCTTGCTC
14989582 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
14989616 AAATTTCCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:14994921 original size:30 final size:30
Alignment explanation
Indices: 14994885--14994956 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 30
14994875 TGTATACATG
* *
14994885 AACTTTAATTTGATGCAATTATACACGTGA
1 AACTTTAATTTGATCCAAATATACACGTGA
* * *
14994915 AACTTTAATTGTGTTCCAAATATATACTTGA
1 AACTTTAATT-TGATCCAAATATACACGTGA
*
14994946 AATTTTAATTT
1 AACTTTAATTT
14994957 TTGATTTACT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 11 0.31
31 24 0.69
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.43
Consensus pattern (30 bp):
AACTTTAATTTGATCCAAATATACACGTGA
Found at i:14997918 original size:27 final size:27
Alignment explanation
Indices: 14997888--14997967 Score: 79
Period size: 27 Copynumber: 3.0 Consensus size: 27
14997878 GTGATCGGCA
14997888 GACTATCTTGCAAACAAGTGACTAGCG
1 GACTATCTTGCAAACAAGTGACTAGCG
* *** * * *
14997915 GACTGTCTTATGAACAAGGGATTGGCG
1 GACTATCTTGCAAACAAGTGACTAGCG
* *
14997942 GACTATCTCGCAAACAGGTGACTAGC
1 GACTATCTTGCAAACAAGTGACTAGC
14997968 AAACTACTTG
Statistics
Matches: 37, Mismatches: 16, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (27 bp):
GACTATCTTGCAAACAAGTGACTAGCG
Found at i:15021579 original size:2 final size:2
Alignment explanation
Indices: 15021572--15021606 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
15021562 AGGAAAAGCC
15021572 AT AT AT AT AT AT AT -T AT AT AT AT AT -T AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15021607 ATAACCTGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:15021591 original size:11 final size:11
Alignment explanation
Indices: 15021575--15021606 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
15021565 AAAAGCCATA
15021575 TATATATATAT
1 TATATATATAT
15021586 TATATATATAT
1 TATATATATAT
15021597 TATATATATA
1 TATATATATA
15021607 ATAACCTGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TATATATATAT
Found at i:15022771 original size:2 final size:2
Alignment explanation
Indices: 15022764--15022800 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
15022754 AGGCACCCTC
15022764 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
15022801 GGACATAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:15041907 original size:15 final size:15
Alignment explanation
Indices: 15041887--15041915 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15041877 GCAGCTCTCC
15041887 CTCTGTTTTGATACT
1 CTCTGTTTTGATACT
15041902 CTCTGTTTTGATAC
1 CTCTGTTTTGATAC
15041916 CTGTTTTGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.52
Consensus pattern (15 bp):
CTCTGTTTTGATACT
Found at i:15043295 original size:23 final size:23
Alignment explanation
Indices: 15043258--15043317 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 23
15043248 AAAAAATAGG
15043258 TTATATATTAT--TTTTCTA-TAA
1 TTATATATTATAATTTT-TACTAA
15043279 TTATATATTATAATTTTTACTAA
1 TTATATATTATAATTTTTACTAA
*
15043302 TTCATATTTTAATAAT
1 TT-ATATATT-ATAAT
15043318 AATTATATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 11 0.33
22 2 0.06
23 9 0.27
24 6 0.18
25 5 0.15
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (23 bp):
TTATATATTATAATTTTTACTAA
Found at i:15043378 original size:58 final size:58
Alignment explanation
Indices: 15043309--15043436 Score: 172
Period size: 58 Copynumber: 2.2 Consensus size: 58
15043299 TAATTCATAT
* *
15043309 TTTAATAATAATTATATTAAAA-AT-ATT-ATTAAATTACATATTATTTTATTAAATTGCA
1 TTTAATAATAATTATATTAAAATATAATTAAATAAATTA-ATA-T-TTTTATTAAATTACA
* *
15043367 TTTAATAATAATTATGTTAAAATATAATTAAATAAATTAATATTTTTATTAAATTATA
1 TTTAATAATAATTATATTAAAATATAATTAAATAAATTAATATTTTTATTAAATTACA
15043425 TTTAATAATAAT
1 TTTAATAATAAT
15043437 CATTAAAATT
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
58 46 0.73
59 3 0.05
60 6 0.10
61 8 0.13
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (58 bp):
TTTAATAATAATTATATTAAAATATAATTAAATAAATTAATATTTTTATTAAATTACA
Found at i:15043603 original size:39 final size:39
Alignment explanation
Indices: 15043521--15043603 Score: 91
Period size: 39 Copynumber: 2.1 Consensus size: 39
15043511 TTCTTATGCT
* *
15043521 ATTACAGCATCATTCCATTCAATCAAACACAAGAATATT
1 ATTACAGCATCATTCCATTCAATCAAACACAACAATATA
*
15043560 ATTACAGC-TCTATTCCATTTCAATCAACCA-AACAAT-TGA
1 ATTACAGCATC-ATTCCA-TTCAATCAAACACAACAATAT-A
15043599 ATTAC
1 ATTAC
15043604 TGATTACAGC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
38 3 0.08
39 24 0.63
40 11 0.29
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.30
Consensus pattern (39 bp):
ATTACAGCATCATTCCATTCAATCAAACACAACAATATA
Found at i:15043627 original size:16 final size:16
Alignment explanation
Indices: 15043606--15043661 Score: 85
Period size: 16 Copynumber: 3.5 Consensus size: 16
15043596 TGAATTACTG
*
15043606 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
15043622 ATTACAACTCTATTCC
1 ATTACAGCTCTATTCC
*
15043638 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
15043654 ATTACAGC
1 ATTACAGC
15043662 GAACCAAAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.30, C:0.27, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:15047213 original size:28 final size:28
Alignment explanation
Indices: 15047181--15047237 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
15047171 TAATTAAGGT
*
15047181 ATAATGACTAAATTGTGAAAGTGGTAAA
1 ATAATGACTAAATTGTGAAAATGGTAAA
15047209 ATAATGACTAAATTGTGAAAATGGTAAA
1 ATAATGACTAAATTGTGAAAATGGTAAA
15047237 A
1 A
15047238 GTTAATCACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.49, C:0.04, G:0.19, T:0.28
Consensus pattern (28 bp):
ATAATGACTAAATTGTGAAAATGGTAAA
Found at i:15047653 original size:24 final size:25
Alignment explanation
Indices: 15047621--15047672 Score: 97
Period size: 24 Copynumber: 2.1 Consensus size: 25
15047611 TAGCTTTGTC
15047621 TCTGTCTTTTGACACGTTTTTT-TT
1 TCTGTCTTTTGACACGTTTTTTCTT
15047645 TCTGTCTTTTGACACGTTTTTTCTT
1 TCTGTCTTTTGACACGTTTTTTCTT
15047670 TCT
1 TCT
15047673 TGGAATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 22 0.81
25 5 0.19
ACGTcount: A:0.08, C:0.19, G:0.12, T:0.62
Consensus pattern (25 bp):
TCTGTCTTTTGACACGTTTTTTCTT
Found at i:15054119 original size:16 final size:16
Alignment explanation
Indices: 15054081--15054113 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
15054071 AAGATACTTG
*
15054081 AGTATGATAAATTTGA
1 AGTATTATAAATTTGA
15054097 AGTATTATAAATTTGA
1 AGTATTATAAATTTGA
15054113 A
1 A
15054114 TAATTAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.39
Consensus pattern (16 bp):
AGTATTATAAATTTGA
Found at i:15054213 original size:21 final size:21
Alignment explanation
Indices: 15054189--15054232 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
15054179 ATTTTTATAA
*
15054189 TTTTTTA-AAAACTTTT-AAT
1 TTTTTTATAAAAATTTTGAAT
*
15054208 TTTTTTATAAATATTTTGAAT
1 TTTTTTATAAAAATTTTGAAT
15054229 TTTT
1 TTTT
15054233 GAAAATTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 7 0.33
20 7 0.33
21 7 0.33
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTTTATAAAAATTTTGAAT
Found at i:15054257 original size:19 final size:18
Alignment explanation
Indices: 15054169--15054258 Score: 67
Period size: 20 Copynumber: 4.7 Consensus size: 18
15054159 AAAAAATTAT
15054169 ATTTTTTAGAATT-TTTATA
1 ATTTTTTA-AATTATTT-TA
*
15054188 ATTTTTTAAA-AACTTTTA
1 ATTTTTTAAATTA-TTTTA
*
15054206 ATTTTTTTATAAATATTTTGA
1 A-TTTTTTA-AATTATTTT-A
*
15054227 ATTTTTGAAAATTATTTTCA
1 ATTTTT-TAAATTATTTT-A
15054247 ATTTTTTAAATT
1 ATTTTTTAAATT
15054259 TTTATTGAGA
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
18 5 0.09
19 23 0.40
20 26 0.45
21 4 0.07
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.60
Consensus pattern (18 bp):
ATTTTTTAAATTATTTTA
Found at i:15054349 original size:42 final size:42
Alignment explanation
Indices: 15054302--15054384 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
15054292 AGTTGACAGG
15054302 GACCAAAAGGGTATTTACATCAATTTGTTATTCGAATTATTT
1 GACCAAAAGGGTATTTACATCAATTTGTTATTCGAATTATTT
15054344 GACCAAAAGGGTATTTACATCAATTTGTTATTCGAATTATT
1 GACCAAAAGGGTATTTACATCAATTTGTTATTCGAATTATT
15054385 CGAGTTATTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (42 bp):
GACCAAAAGGGTATTTACATCAATTTGTTATTCGAATTATTT
Found at i:15057150 original size:6 final size:6
Alignment explanation
Indices: 15057139--15057166 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
15057129 AGTTTCTTCT
15057139 CCCACC CCCACC CCCACC CCCACC CCCA
1 CCCACC CCCACC CCCACC CCCACC CCCA
15057167 TCTTCAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.82, G:0.00, T:0.00
Consensus pattern (6 bp):
CCCACC
Found at i:15061732 original size:21 final size:22
Alignment explanation
Indices: 15061707--15061752 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
15061697 CTCTAACAAA
15061707 ATATTTATAC-AGAAATGGAAT
1 ATATTTATACAAGAAATGGAAT
*
15061728 ATATTTATACAAAGAAATGTAAT
1 ATATTTATAC-AAGAAATGGAAT
15061751 AT
1 AT
15061753 TATATTACCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.45
23 12 0.55
ACGTcount: A:0.50, C:0.04, G:0.11, T:0.35
Consensus pattern (22 bp):
ATATTTATACAAGAAATGGAAT
Found at i:15067271 original size:23 final size:23
Alignment explanation
Indices: 15067212--15067281 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
15067202 TCATTAACAT
* *
15067212 TGTTCGTGAACATATTCAATTATA
1 TGTTCGTGAACATGTTCGATTA-A
* * *
15067236 TATTCATGAACATGTTCGTTTAA
1 TGTTCGTGAACATGTTCGATTAA
15067259 TGTTCGTGAACATGTTCGATTAA
1 TGTTCGTGAACATGTTCGATTAA
15067282 GTTAAATGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 21 0.55
24 17 0.45
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (23 bp):
TGTTCGTGAACATGTTCGATTAA
Found at i:15067291 original size:23 final size:23
Alignment explanation
Indices: 15067218--15067291 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 23
15067208 ACATTGTTCG
* * * *
15067218 TGAACATATTCAATTATATATTCA
1 TGAACATGTTCGATTA-ATGTTAA
* **
15067242 TGAACATGTTCGTTTAATGTTCG
1 TGAACATGTTCGATTAATGTTAA
15067265 TGAACATGTTCGATTAA-GTTAAA
1 TGAACATGTTCGATTAATGTT-AA
15067288 TGAA
1 TGAA
15067292 AATGCTCGTG
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
22 3 0.07
23 25 0.61
24 13 0.32
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (23 bp):
TGAACATGTTCGATTAATGTTAA
Found at i:15075136 original size:30 final size:28
Alignment explanation
Indices: 15075071--15075140 Score: 81
Period size: 30 Copynumber: 2.5 Consensus size: 28
15075061 TTAAAAATTA
*
15075071 AAAATATTAAAAATATTTTATGATTTTT
1 AAAATTTTAAAAATATTTTATGATTTTT
*
15075099 -AATTTTTAAAAATAGTTTTTTAT-ATTTTT
1 AAAATTTTAAAAATA---TTTTATGATTTTT
15075128 AAAATTTTAAAAA
1 AAAATTTTAAAAA
15075141 ATTAATTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
27 12 0.34
29 6 0.17
30 17 0.49
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AAAATTTTAAAAATATTTTATGATTTTT
Found at i:15079235 original size:159 final size:159
Alignment explanation
Indices: 15078640--15079195 Score: 1058
Period size: 159 Copynumber: 3.5 Consensus size: 159
15078630 AAGTAGGGTG
* *
15078640 GTTGATGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAAC
1 GTTGATGACCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGC
15078705 TGAGCTAATAGGCCTTAATGTTAGATAATATTTTATTACATTAATGACGGTGCTGCAAGGTTTCG
66 TGAGCTAATAGGCCTTAATGTTAGATAATATTTTATTACATTAATGACGGTGCTGCAAGGTTTCG
15078770 TAAAACTCATTTCAAATCTTAAAATAACC
131 TAAAACTCATTTCAAATCTTAAAATAACC
*
15078799 GTTGATGACCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTGTTAGCACGACGCTCTAACCAGC
1 GTTGATGACCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGC
15078864 TGAGCTAATAGGCCTTAATGTTAGATAATATTTTATTACATTAATGACGGTGCTGCAAGGTTTCG
66 TGAGCTAATAGGCCTTAATGTTAGATAATATTTTATTACATTAATGACGGTGCTGCAAGGTTTCG
15078929 TAAAACTCATTTCAAATCTTAAAATAACC
131 TAAAACTCATTTCAAATCTTAAAATAACC
*
15078958 GTTGATGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGC
1 GTTGATGACCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGC
15079023 TGAGCTAATAGGCCTTAATGTTAGATAATATTTTATTACATTAATGACGGTGCTGCAAGGTTTCG
66 TGAGCTAATAGGCCTTAATGTTAGATAATATTTTATTACATTAATGACGGTGCTGCAAGGTTTCG
15079088 TAAAACTCATTTCAAATCTTAAAATAACC
131 TAAAACTCATTTCAAATCTTAAAATAACC
15079117 GTTGATGACCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGC
1 GTTGATGACCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGC
* *
15079182 TGAACTAATTGGCC
66 TGAGCTAATAGGCC
15079196 CCAATTTCAA
Statistics
Matches: 389, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
159 389 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (159 bp):
GTTGATGACCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGC
TGAGCTAATAGGCCTTAATGTTAGATAATATTTTATTACATTAATGACGGTGCTGCAAGGTTTCG
TAAAACTCATTTCAAATCTTAAAATAACC
Found at i:15089418 original size:20 final size:22
Alignment explanation
Indices: 15089393--15089442 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
15089383 AAAAAAAATT
15089393 ATAAAATATA-ATACAATAA-A
1 ATAAAATATACATACAATAATA
* * *
15089413 ATAAAAAATACATATACTAATA
1 ATAAAATATACATACAATAATA
15089435 ATAAAATA
1 ATAAAATA
15089443 AAAGACTGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 9 0.38
21 7 0.29
22 8 0.33
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (22 bp):
ATAAAATATACATACAATAATA
Found at i:15091953 original size:13 final size:13
Alignment explanation
Indices: 15091914--15091956 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
15091904 AGAGGTATTT
15091914 TTATTTTATTTAA
1 TTATTTTATTTAA
* *
15091927 -TA-TTAATATAA
1 TTATTTTATTTAA
15091938 TTATTTTATTTAA
1 TTATTTTATTTAA
15091951 TTATTT
1 TTATTT
15091957 AATGAGGTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 7 0.29
12 4 0.17
13 13 0.54
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTATTTTATTTAA
Found at i:15093181 original size:22 final size:24
Alignment explanation
Indices: 15093156--15093199 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
15093146 ATAAATTTTG
15093156 AAATT-TGAAAAATAAA-ATAACA
1 AAATTCTGAAAAATAAAGATAACA
*
15093178 AAATTCTTAAAAATAAAGATAA
1 AAATTCTGAAAAATAAAGATAA
15093200 AAAGACTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 10 0.53
24 4 0.21
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.25
Consensus pattern (24 bp):
AAATTCTGAAAAATAAAGATAACA
Found at i:15104544 original size:12 final size:12
Alignment explanation
Indices: 15104525--15104554 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15104515 TACATCTTTT
15104525 TATGTGTCTGTG
1 TATGTGTCTGTG
*
15104537 TCTGTGTCTGTG
1 TATGTGTCTGTG
15104549 TATGTG
1 TATGTG
15104555 CATTTATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.10, G:0.33, T:0.50
Consensus pattern (12 bp):
TATGTGTCTGTG
Found at i:15125150 original size:18 final size:18
Alignment explanation
Indices: 15125127--15125163 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15125117 ACAATTCATA
*
15125127 TCACTTTCAATTTTAATT
1 TCACTTTCAATTTCAATT
*
15125145 TCACTTTCACTTTCAATT
1 TCACTTTCAATTTCAATT
15125163 T
1 T
15125164 TGATCACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.54
Consensus pattern (18 bp):
TCACTTTCAATTTCAATT
Found at i:15125838 original size:12 final size:12
Alignment explanation
Indices: 15125821--15125846 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15125811 TACATTTAAT
15125821 AATATTTAATTA
1 AATATTTAATTA
15125833 AATATTTAATTA
1 AATATTTAATTA
15125845 AA
1 AA
15125847 CTCTTAACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
AATATTTAATTA
Found at i:15131155 original size:19 final size:19
Alignment explanation
Indices: 15131131--15131178 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
15131121 TTCATTGGGT
15131131 TTAGGGTTTAGGTTTAAGG
1 TTAGGGTTTAGGTTTAAGG
*
15131150 TTAGGGTTTGGGTTTAAGG
1 TTAGGGTTTAGGTTTAAGG
*
15131169 TTAAGGTTTA
1 TTAGGGTTTA
15131179 TAAGAAAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.21, C:0.00, G:0.35, T:0.44
Consensus pattern (19 bp):
TTAGGGTTTAGGTTTAAGG
Found at i:15132453 original size:15 final size:17
Alignment explanation
Indices: 15132419--15132453 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
15132409 ATTTAAAATT
15132419 GATTAAAATAATTGAAA
1 GATTAAAATAATTGAAA
15132436 GATTAAAA-AATT-AAA
1 GATTAAAATAATTGAAA
15132451 GAT
1 GAT
15132454 CGAAAACTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 4 0.22
17 8 0.44
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (17 bp):
GATTAAAATAATTGAAA
Found at i:15134318 original size:61 final size:58
Alignment explanation
Indices: 15134252--15134428 Score: 203
Period size: 61 Copynumber: 2.9 Consensus size: 58
15134242 TTTTTATAAT
** *
15134252 ATACCAAATTGAATCTAAAAAAGTTTAGGTACCAAATTGGGAAAGAAAATATCAAGTTCAG
1 ATACCAAATTGGGTC-AAAAAAGTTTAGGTACCAAATT-GGAAA-AAAGTATCAAGTTCAG
* *
15134313 ATACCAAATTGGGTCAAAAAAGGTTTAGGTATCAAATTAGG-AAAAAGTGTCAAGTTCAG
1 ATACCAAATTGGGTCAAAAAA-GTTTAGGTACCAAATT-GGAAAAAAGTATCAAGTTCAG
* * * *
15134372 GTACCAAATTGGGTCAAAAAAAAGTTTAAGCACCAAATTAGAAAAAAGTATCAAGTT
1 ATACCAAATTGGGTC--AAAAAAGTTTAGGTACCAAATTGGAAAAAAGTATCAAGTT
15134429 TAAGTACCAA
Statistics
Matches: 100, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
59 29 0.29
60 35 0.35
61 36 0.36
ACGTcount: A:0.46, C:0.11, G:0.18, T:0.24
Consensus pattern (58 bp):
ATACCAAATTGGGTCAAAAAAGTTTAGGTACCAAATTGGAAAAAAGTATCAAGTTCAG
Found at i:15134426 original size:60 final size:59
Alignment explanation
Indices: 15134253--15134440 Score: 223
Period size: 60 Copynumber: 3.1 Consensus size: 59
15134243 TTTTATAATA
** * * * *
15134253 TACCAAATTGAATCTAAAAAAGTTTAGGTACCAAATTGGGAAAGAAAATATCAAGTTCAGA
1 TACCAAATTGGGTCAAAAAAAGTTTAGGTACCAAATT-AGAAA-AAAGTATCAAGTTCAGG
* * * *
15134314 TACCAAATTGGGTCAAAAAAGGTTTAGGTATCAAATTAGGAAAAAGTGTCAAGTTCAGG
1 TACCAAATTGGGTCAAAAAAAGTTTAGGTACCAAATTAGAAAAAAGTATCAAGTTCAGG
* * * *
15134373 TACCAAATTGGGTCAAAAAAAAGTTTAAGCACCAAATTAGAAAAAAGTATCAAGTTTAAG
1 TACCAAATTGGGTC-AAAAAAAGTTTAGGTACCAAATTAGAAAAAAGTATCAAGTTCAGG
15134433 TACCAAAT
1 TACCAAAT
15134441 GTTATATTAA
Statistics
Matches: 108, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
59 28 0.26
60 48 0.44
61 32 0.30
ACGTcount: A:0.46, C:0.12, G:0.18, T:0.24
Consensus pattern (59 bp):
TACCAAATTGGGTCAAAAAAAGTTTAGGTACCAAATTAGAAAAAAGTATCAAGTTCAGG
Done.