Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 91 of 189
Found at i:25227725 original size:11 final size:11
Alignment explanation
Indices: 25227709--25227748 Score: 53
Period size: 11 Copynumber: 3.4 Consensus size: 11
25227699 ATCAATCATC
25227709 ATATTTTAAAA
1 ATATTTTAAAA
25227720 ATATTTTAAAAA
1 ATATTTT-AAAA
25227732 TATGATTTTAAAA
1 -AT-ATTTTAAAA
25227745 ATAT
1 ATAT
25227749 GATAATTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 9 0.35
12 6 0.23
13 6 0.23
14 5 0.19
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (11 bp):
ATATTTTAAAA
Found at i:25227741 original size:14 final size:14
Alignment explanation
Indices: 25227711--25227751 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
25227701 CAATCATCAT
25227711 ATTTT-AAAA-AT-
1 ATTTTAAAAATATG
25227722 ATTTTAAAAATATG
1 ATTTTAAAAATATG
25227736 ATTTTAAAAATATG
1 ATTTTAAAAATATG
25227750 AT
1 AT
25227752 AATTGAAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 5 0.19
12 4 0.15
13 2 0.07
14 16 0.59
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (14 bp):
ATTTTAAAAATATG
Found at i:25237804 original size:17 final size:16
Alignment explanation
Indices: 25237755--25237806 Score: 63
Period size: 14 Copynumber: 3.3 Consensus size: 16
25237745 ATCTTTGGTT
25237755 TATTTTTTATATTT--
1 TATTTTTTATATTTAC
25237769 TATTTTTTATATTTAC
1 TATTTTTTATATTTAC
* *
25237785 TATTTTTCTATTTTTTC
1 TATTTTT-TATATTTAC
25237802 TATTT
1 TATTT
25237807 ATTTTTTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
14 14 0.42
16 7 0.21
17 12 0.36
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (16 bp):
TATTTTTTATATTTAC
Found at i:25237814 original size:7 final size:7
Alignment explanation
Indices: 25237753--25237824 Score: 56
Period size: 7 Copynumber: 9.7 Consensus size: 7
25237743 GCATCTTTGG
25237753 TTTATTT
1 TTTATTT
*
25237760 TTTATAT
1 TTTATTT
25237767 TTTATTT
1 TTTATTT
25237774 TTTATATT
1 TTTAT-TT
*
25237782 TACTATTT
1 T-TTATTT
25237790 TTCTATTT
1 TT-TATTT
* *
25237798 TTT-CTA
1 TTTATTT
25237804 TTTATTT
1 TTTATTT
25237811 TTTAATTT
1 TTT-ATTT
25237819 ATTTAT
1 -TTTAT
25237825 GTTATTCTTC
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
6 4 0.08
7 22 0.43
8 19 0.37
9 6 0.12
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTATTT
Found at i:25238063 original size:6 final size:6
Alignment explanation
Indices: 25238038--25238090 Score: 52
Period size: 6 Copynumber: 8.0 Consensus size: 6
25238028 TGTTTACTCA
*
25238038 TTATTT TTAGTTT GTATTT TTATTT TTATTAGT ATTATTT TTATTT ATTATTT
1 TTATTT TTA-TTT TTATTT TTATTT TTATT--T -TTATTT TTATTT -TTATTT
25238091 ACGTATTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
6 22 0.55
7 12 0.30
8 1 0.03
9 5 0.12
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (6 bp):
TTATTT
Found at i:25238077 original size:15 final size:13
Alignment explanation
Indices: 25238038--25238090 Score: 56
Period size: 13 Copynumber: 4.0 Consensus size: 13
25238028 TGTTTACTCA
25238038 TTATTT-TTAGTTT
1 TTATTTATTA-TTT
*
25238051 GTATTT-TTATTT
1 TTATTTATTATTT
25238063 TTATTAGTATTATTT
1 TTATT--TATTATTT
25238078 TTATTTATTATTT
1 TTATTTATTATTT
25238091 ACGTATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
12 7 0.20
13 16 0.46
14 1 0.03
15 11 0.31
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (13 bp):
TTATTTATTATTT
Found at i:25238084 original size:19 final size:20
Alignment explanation
Indices: 25238038--25238087 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
25238028 TGTTTACTCA
*
25238038 TTATTT-TTAGTTTGTATTT
1 TTATTTATTAGTATGTATTT
25238057 TTATTTTTATTAGTAT-TATTT
1 TTA--TTTATTAGTATGTATTT
25238078 TTATTTATTA
1 TTATTTATTA
25238088 TTTACGTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 10 0.37
21 11 0.41
22 6 0.22
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (20 bp):
TTATTTATTAGTATGTATTT
Found at i:25238119 original size:16 final size:16
Alignment explanation
Indices: 25238082--25238127 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
25238072 TTATTTTTAT
25238082 TTATTATTTACGTATT-
1 TTATTA-TTACGTATTA
25238098 TTATTATTAC-TATTA
1 TTATTATTACGTATTA
25238113 TTGATTATT-CGTATT
1 TT-ATTATTACGTATT
25238128 TCTTTTGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 4 0.15
15 7 0.26
16 16 0.59
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.61
Consensus pattern (16 bp):
TTATTATTACGTATTA
Found at i:25243333 original size:27 final size:27
Alignment explanation
Indices: 25243303--25243358 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
25243293 AAACTAATAT
25243303 AATTGCACATATACTGCACAAGTTTTG
1 AATTGCACATATACTGCACAAGTTTTG
25243330 AATTGCACATATACTGCACAAGTTTTG
1 AATTGCACATATACTGCACAAGTTTTG
25243357 AA
1 AA
25243359 CTTCAATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (27 bp):
AATTGCACATATACTGCACAAGTTTTG
Found at i:25247242 original size:68 final size:68
Alignment explanation
Indices: 25247109--25247244 Score: 211
Period size: 68 Copynumber: 2.0 Consensus size: 68
25247099 TGTTTTCACG
* *
25247109 TCAAGCACATTTCTCTTTATGAGATAATCCAAATTTATAAGGAAGTGACAGTTATTGATAACGAC
1 TCAAGCACATTTCTCTTTATGAGATAATCCAAATTTATAAGGAAGCGACAGTTATCGATAACGAC
25247174 CCA
66 CCA
* **
25247177 TCAAGCACATTTCTCTTTATGAGGTAATCCAAATTTATAAGGAAGCGAC-GATTATCGATGTCGA
1 TCAAGCACATTTCTCTTTATGAGATAATCCAAATTTATAAGGAAGCGACAG-TTATCGATAACGA
25247241 CCCA
65 CCCA
25247245 AACAAATAGA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
67 1 0.02
68 61 0.98
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (68 bp):
TCAAGCACATTTCTCTTTATGAGATAATCCAAATTTATAAGGAAGCGACAGTTATCGATAACGAC
CCA
Found at i:25249652 original size:40 final size:40
Alignment explanation
Indices: 25249570--25249654 Score: 125
Period size: 40 Copynumber: 2.1 Consensus size: 40
25249560 TACCTTAATT
* * *
25249570 CCCCTGTAAACAGTTCGGTGTCCCTATTTGCACAACTGTG
1 CCCCTGTAAACACTTCGGTGTCCCTAATTGCACAACTATG
**
25249610 CCCCTGTAAACACTTCGGTGTCCCTAATTGCACATTTATG
1 CCCCTGTAAACACTTCGGTGTCCCTAATTGCACAACTATG
25249650 CCCCT
1 CCCCT
25249655 AAATGCACTC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.20, C:0.33, G:0.16, T:0.31
Consensus pattern (40 bp):
CCCCTGTAAACACTTCGGTGTCCCTAATTGCACAACTATG
Found at i:25249710 original size:20 final size:20
Alignment explanation
Indices: 25249648--25249722 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
25249638 TGCACATTTA
*
25249648 TGCCCCTAAATGCACTCTAG
1 TGCCCCTGAATGCACTCTAG
* *
25249668 TCCCCCTGACA-GCACAT-TCG
1 TGCCCCTGA-ATGCAC-TCTAG
*
25249688 TGCCCTTGAATGCACTCTAG
1 TGCCCCTGAATGCACTCTAG
*
25249708 TGCCCCTGATTGCAC
1 TGCCCCTGAATGCAC
25249723 ACCCGTGCTC
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
19 2 0.05
20 39 0.91
21 2 0.05
ACGTcount: A:0.20, C:0.37, G:0.17, T:0.25
Consensus pattern (20 bp):
TGCCCCTGAATGCACTCTAG
Found at i:25249723 original size:40 final size:40
Alignment explanation
Indices: 25249631--25249723 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 40
25249621 ACTTCGGTGT
* *
25249631 CCCTAATTGCACATTTATGCCCCTAAATGCACTCTAGTCC
1 CCCTGATTGCACATTCATGCCCCTAAATGCACTCTAGTCC
** * * * *
25249671 CCCTGACAGCACATTCGTGCCCTTGAATGCACTCTAGTGC
1 CCCTGATTGCACATTCATGCCCCTAAATGCACTCTAGTCC
25249711 CCCTGATTGCACA
1 CCCTGATTGCACA
25249724 CCCGTGCTCC
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.23, C:0.35, G:0.15, T:0.27
Consensus pattern (40 bp):
CCCTGATTGCACATTCATGCCCCTAAATGCACTCTAGTCC
Found at i:25259423 original size:4 final size:4
Alignment explanation
Indices: 25259414--25259452 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
25259404 CTAAAGGAAA
25259414 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
25259453 AGTGTGTGCG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:25262540 original size:22 final size:22
Alignment explanation
Indices: 25262521--25262564 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
25262511 TTTCTTTTGT
25262521 TTCTTT-TTCTAATTCATTTTTC
1 TTCTTTCTTC-AATTCATTTTTC
25262543 TTCTTTCTTCAATTTC-TTTTTC
1 TTCTTTCTTCAA-TTCATTTTTC
25262565 ACTCTCAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.11, C:0.20, G:0.00, T:0.68
Consensus pattern (22 bp):
TTCTTTCTTCAATTCATTTTTC
Found at i:25265147 original size:30 final size:30
Alignment explanation
Indices: 25265111--25265214 Score: 79
Period size: 28 Copynumber: 3.4 Consensus size: 30
25265101 AGTAGGTTCC
*
25265111 TTTGTGGCTATCTGATATTATGTGGACGCT
1 TTTGTGGCTATCTGATATTATATGGACGCT
* *
25265141 TTTGTGGCCATCT-A-ACTATATGGACGAC-
1 TTTGTGGCTATCTGATATTATATGGACG-CT
* * * *
25265169 TCTATGGCTATCTTGTATATGTGTTTGGACGCT
1 TTTGTGGCTATC-TG-ATAT-TATATGGACGCT
*
25265202 CTTGTGGCTATCT
1 TTTGTGGCTATCT
25265215 ATGTCAAAGA
Statistics
Matches: 55, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
28 19 0.35
29 3 0.05
30 12 0.22
31 1 0.02
32 3 0.05
33 17 0.31
ACGTcount: A:0.17, C:0.17, G:0.24, T:0.41
Consensus pattern (30 bp):
TTTGTGGCTATCTGATATTATATGGACGCT
Found at i:25268676 original size:38 final size:40
Alignment explanation
Indices: 25268617--25268694 Score: 124
Period size: 39 Copynumber: 2.0 Consensus size: 40
25268607 TTGTTTAGTA
*
25268617 AAAATATTTTTTTTATTTTTTTAATTTTAAAAT-ATTTTT
1 AAAATACTTTTTTTATTTTTTTAATTTTAAAATAATTTTT
*
25268656 AAAATACTTTTTTTA-TTTTTTATTTTTAAAATAATTTTT
1 AAAATACTTTTTTTATTTTTTTAATTTTAAAATAATTTTT
25268695 GGTTTTTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 16 0.44
39 20 0.56
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (40 bp):
AAAATACTTTTTTTATTTTTTTAATTTTAAAATAATTTTT
Found at i:25268693 original size:25 final size:26
Alignment explanation
Indices: 25268649--25268704 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
25268639 AATTTTAAAA
* *
25268649 TATTTTTAAAATACTTTTTTTATTTTT
1 TATTTTTAAAATAC-ATTTTTAGTTTT
*
25268676 TATTTTTAAAATA-ATTTTTGGTTTT
1 TATTTTTAAAATACATTTTTAGTTTT
25268701 TATT
1 TATT
25268705 AAAAAATGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 13 0.50
27 13 0.50
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.68
Consensus pattern (26 bp):
TATTTTTAAAATACATTTTTAGTTTT
Found at i:25268700 original size:26 final size:27
Alignment explanation
Indices: 25268649--25268701 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
25268639 AATTTTAAAA
* *
25268649 TATTTTTAAAATACTTTTTTTATTTTT
1 TATTTTTAAAATACATTTTTGATTTTT
*
25268676 TATTTTTAAAATA-ATTTTTGGTTTTT
1 TATTTTTAAAATACATTTTTGATTTTT
25268702 ATTAAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (27 bp):
TATTTTTAAAATACATTTTTGATTTTT
Found at i:25269224 original size:20 final size:20
Alignment explanation
Indices: 25269196--25269234 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
25269186 CTAAAAATTA
25269196 TTTAGATATATA-TAATATTG
1 TTTAGATATA-ACTAATATTG
*
25269216 TTTATATATAACTAATATT
1 TTTAGATATAACTAATATT
25269235 ATTTTGTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (20 bp):
TTTAGATATAACTAATATTG
Found at i:25272973 original size:4 final size:4
Alignment explanation
Indices: 25272964--25272993 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
25272954 AATAATAATA
25272964 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
25272994 TAGGCTAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:25274576 original size:44 final size:44
Alignment explanation
Indices: 25274528--25274824 Score: 117
Period size: 44 Copynumber: 6.6 Consensus size: 44
25274518 TATTTTAATC
* *
25274528 TGCTCCACTGCAACGTCAGAGAGATAGGATTAGTAGCTTCAATA
1 TGCTCCACTGCAACGTCAGAGAGATAAGATTAGTAGCTTCAACA
** * * * * *
25274572 TGCTCCACTGCAATTTTAGGGAGATAAGATTGGTATCTTCAACC
1 TGCTCCACTGCAACGTCAGAGAGATAAGATTAGTAGCTTCAACA
* * * * * *
25274616 TGCTCCATTGCAACTTCA-AGGAGATAAGGTT--T-GATATGATC-
1 TGCTCCACTGCAACGTCAGA-GAGATAAGATTAGTAGCT-TCAACA
* *
25274657 TGCTCTACTGCAACTTCAGAGAGATAATATCTGCAATTTA-TAGCTTCAATC-
1 TGCTCCACTGCAACGTCAGAGAGAT-A-A---G--A-TTAGTAGCTTCAA-CA
* * * * * * * *
25274708 TGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTC-
1 TGCTCCACTGCAACGTCAGAGAGATAAGATTAG-TAGCTTCA-ACA
* * * *
25274753 TGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTAACTTCAACC
1 TGCTCCACTGCAACGTCAGAGAGATAAGA-TTAGTAGCTTCAACA
* * *
25274797 TGCTCCACTGAAACTTCAGGGAGATAAG
1 TGCTCCACTGCAACGTCAGAGAGATAAG
25274825 GTTTAATATG
Statistics
Matches: 196, Mismatches: 38, Indels: 38
0.72 0.14 0.14
Matches are distributed among these distances:
41 22 0.11
42 6 0.03
43 4 0.02
44 95 0.48
45 35 0.18
46 4 0.02
49 3 0.02
50 4 0.02
51 23 0.12
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (44 bp):
TGCTCCACTGCAACGTCAGAGAGATAAGATTAGTAGCTTCAACA
Found at i:25281463 original size:19 final size:19
Alignment explanation
Indices: 25281435--25281479 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
25281425 TACAAGATTC
25281435 TTTTTT-TTTGTCTTCTTG
1 TTTTTTGTTTGTCTTCTTG
* *
25281453 TTTTTTGTTTGTTTTTTTG
1 TTTTTTGTTTGTCTTCTTG
*
25281472 TTTGTTGT
1 TTTTTTGT
25281480 CCCCTTTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.00, C:0.04, G:0.16, T:0.80
Consensus pattern (19 bp):
TTTTTTGTTTGTCTTCTTG
Found at i:25281470 original size:12 final size:12
Alignment explanation
Indices: 25281453--25281477 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25281443 TGTCTTCTTG
25281453 TTTTTTGTTTGT
1 TTTTTTGTTTGT
25281465 TTTTTTGTTTGT
1 TTTTTTGTTTGT
25281477 T
1 T
25281478 GTCCCCTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (12 bp):
TTTTTTGTTTGT
Found at i:25285401 original size:41 final size:41
Alignment explanation
Indices: 25285344--25285444 Score: 159
Period size: 41 Copynumber: 2.5 Consensus size: 41
25285334 ATTTATTGTT
* *
25285344 TGATACAGGTATTTACTTAAGCTTTGTCTTCAAGGCGAGCA
1 TGATACAGGTATTTACTTAAGCTTTGTCTTCAAGGCAAACA
25285385 TGATACAGGTATTTACTTAAGCTTTGTCTTCAAGGCAAACA
1 TGATACAGGTATTTACTTAAGCTTTGTCTTCAAGGCAAACA
*
25285426 TGATA-TGGATATTTACTTA
1 TGATACAGG-TATTTACTTA
25285445 GATTTCAAGG
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
40 2 0.04
41 54 0.96
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.37
Consensus pattern (41 bp):
TGATACAGGTATTTACTTAAGCTTTGTCTTCAAGGCAAACA
Found at i:25286835 original size:37 final size:37
Alignment explanation
Indices: 25286723--25286842 Score: 107
Period size: 37 Copynumber: 3.2 Consensus size: 37
25286713 TTTTAGTTTG
* * * *
25286723 ATTTGATAAACTAATATAAATTAGTATCCAAATATTA
1 ATTTGGTAAACTAATATAAAGTAGTATCTATATATTA
** * ** * * * *
25286760 ATTTGGTAAAAAAACATTTAGTAATGTTTTTAGT-TTA
1 ATTTGGTAAACTAATATAAAGTAGTATCTATA-TATTA
25286797 ATTTGGTAAACTAATATAAAGTAGTATCTATATATTA
1 ATTTGGTAAACTAATATAAAGTAGTATCTATATATTA
25286834 ATTTGGTAA
1 ATTTGGTAA
25286843 GAAAATAATG
Statistics
Matches: 59, Mismatches: 22, Indels: 4
0.69 0.26 0.05
Matches are distributed among these distances:
36 1 0.02
37 57 0.97
38 1 0.02
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (37 bp):
ATTTGGTAAACTAATATAAAGTAGTATCTATATATTA
Found at i:25293635 original size:13 final size:13
Alignment explanation
Indices: 25293613--25293642 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
25293603 CATTTAATAA
25293613 CATAGCACGTAAT
1 CATAGCACGTAAT
*
25293626 CATAGTACGTAAT
1 CATAGCACGTAAT
25293639 CATA
1 CATA
25293643 TAATGGATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (13 bp):
CATAGCACGTAAT
Found at i:25299618 original size:18 final size:17
Alignment explanation
Indices: 25299595--25299630 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
25299585 GTTGTGTTAT
25299595 ATGATAAATTGATGATTG
1 ATGATAAATTGA-GATTG
25299613 ATGATAAATTGAGATTG
1 ATGATAAATTGAGATTG
25299630 A
1 A
25299631 AAGAATGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.42, C:0.00, G:0.22, T:0.36
Consensus pattern (17 bp):
ATGATAAATTGAGATTG
Found at i:25303298 original size:19 final size:20
Alignment explanation
Indices: 25303260--25303298 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
25303250 ATACTTAAAT
25303260 AAGTGAATTCGTAAATAGGAG
1 AAGTGAATTCGT-AATAGGAG
*
25303281 AAGTGAATTGGT-ATAGGA
1 AAGTGAATTCGTAATAGGA
25303299 CCAATTAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
21 11 0.65
ACGTcount: A:0.41, C:0.03, G:0.31, T:0.26
Consensus pattern (20 bp):
AAGTGAATTCGTAATAGGAG
Found at i:25306522 original size:13 final size:13
Alignment explanation
Indices: 25306504--25306529 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25306494 TAATTTACCG
25306504 AAATTATTATAAT
1 AAATTATTATAAT
25306517 AAATTATTATAAT
1 AAATTATTATAAT
25306530 TATGATTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTATTATAAT
Found at i:25309542 original size:61 final size:60
Alignment explanation
Indices: 25309457--25309609 Score: 204
Period size: 61 Copynumber: 2.5 Consensus size: 60
25309447 TAGTAGTCAC
* *
25309457 CTATGTTTTTTTTTCTTTTTTGGTCACCCAATTATGAAAAGTTACAAA-ATGGTCACCCAA
1 CTATGTTTTTTTTTCTTTTTTGGTCACCCAACTATGAAAAGTTA-AAATATGGTCAACCAA
*
25309517 CTATGTTTTCTTTTTCTTTTTTGGTCACTCAACTATGAAAAGTTAAAATATGGTCAACCAA
1 CTATGTTTT-TTTTTCTTTTTTGGTCACCCAACTATGAAAAGTTAAAATATGGTCAACCAA
* * *
25309578 CTAT-TTAATTTTGTCTTTCTTGGTCA-CCAACT
1 CTATGTT-TTTTTTTCTTTTTTGGTCACCCAACT
25309610 GACTAACGTA
Statistics
Matches: 83, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
59 5 0.06
60 29 0.35
61 49 0.59
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.44
Consensus pattern (60 bp):
CTATGTTTTTTTTTCTTTTTTGGTCACCCAACTATGAAAAGTTAAAATATGGTCAACCAA
Found at i:25310070 original size:17 final size:18
Alignment explanation
Indices: 25310043--25310089 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
25310033 TTTTTTTATA
25310043 AATTTTATAAAATTAT-AT
1 AATTTT-TAAAATTATAAT
* * *
25310061 GATTTTTAAATTTCTAAT
1 AATTTTTAAAATTATAAT
25310079 AATTTTTAAAA
1 AATTTTTAAAA
25310090 ACTTTTAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (18 bp):
AATTTTTAAAATTATAAT
Found at i:25318463 original size:39 final size:39
Alignment explanation
Indices: 25318408--25318502 Score: 156
Period size: 38 Copynumber: 2.4 Consensus size: 39
25318398 AATATATTTA
*
25318408 TTTTTTAAATTTTTTAAATTTTAAAATATTTTTAAAATAC
1 TTTTTTTAA-TTTTTAAATTTTAAAATATTTTTAAAATAC
*
25318448 TTTTTTTTATTTTT-AATTTTAAAATATTTTTAAAATAC
1 TTTTTTTAATTTTTAAATTTTAAAATATTTTTAAAATAC
25318486 TTTTTTTAATTTTTAAA
1 TTTTTTTAATTTTTAAA
25318503 ATAAATTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
38 37 0.73
39 7 0.14
40 7 0.14
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (39 bp):
TTTTTTTAATTTTTAAATTTTAAAATATTTTTAAAATAC
Found at i:25318511 original size:21 final size:21
Alignment explanation
Indices: 25318473--25318512 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
25318463 ATTTTAAAAT
**
25318473 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
25318494 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
25318513 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:25318519 original size:22 final size:21
Alignment explanation
Indices: 25318472--25318530 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
25318462 AATTTTAAAA
* *
25318472 TATTTTTAAAAT-ACTTTTTT
1 TATTTTTAAAATAAATTTTTG
25318492 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAATAAATTTTT-G
25318515 TATTTATTAAAA-AAAT
1 TATTT-TTAAAATAAAT
25318531 GGGCCCGGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.03
21 11 0.33
22 14 0.42
23 7 0.21
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:25320070 original size:28 final size:28
Alignment explanation
Indices: 25320030--25320086 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
25320020 TGCCATTACA
*
25320030 AAAGCAACTACTCAGTGCTCGTCCAATG
1 AAAGCAACTACTCAGTGCTCATCCAATG
*
25320058 AAAGCAACTACTCAGTGCTCATCGAATG
1 AAAGCAACTACTCAGTGCTCATCCAATG
25320086 A
1 A
25320087 TATTGTCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (28 bp):
AAAGCAACTACTCAGTGCTCATCCAATG
Found at i:25331613 original size:21 final size:21
Alignment explanation
Indices: 25331589--25331740 Score: 58
Period size: 20 Copynumber: 7.6 Consensus size: 21
25331579 ATGTATTTAT
25331589 TTAATCTCTTAACAAAATTAC
1 TTAATCTCTTAACAAAATTAC
*
25331610 TTAATTTCTT-AC-AAATT--
1 TTAATCTCTTAACAAAATTAC
* *
25331627 TTGAA-CT-TCATACAAAAATAC
1 TT-AATCTCTTA-ACAAAATTAC
* * * *
25331648 TTAATTTC-TAATAGAGTTAC
1 TTAATCTCTTAACAAAATTAC
*
25331668 TAAATCTCTTAA-ACAAATTAC
1 TTAATCTCTTAACA-AAATTAC
* *
25331689 -GATATCTCTTAA-ACAATTAC
1 TTA-ATCTCTTAACAAAATTAC
* *
25331709 TGAAT-TCCTT-ACAAGATTAC
1 TTAATCT-CTTAACAAAATTAC
*
25331729 TGAATCTCTTAA
1 TTAATCTCTTAA
25331741 AAATTATTGA
Statistics
Matches: 97, Mismatches: 18, Indels: 32
0.66 0.12 0.22
Matches are distributed among these distances:
16 1 0.01
17 3 0.03
18 4 0.04
19 11 0.11
20 43 0.44
21 35 0.36
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (21 bp):
TTAATCTCTTAACAAAATTAC
Found at i:25331719 original size:20 final size:20
Alignment explanation
Indices: 25331672--25331758 Score: 76
Period size: 20 Copynumber: 4.3 Consensus size: 20
25331662 AGTTACTAAA
25331672 TCTCTTAAACAAATTAC-G-AT
1 TCTCTT-AA-AAATTACTGAAT
25331692 ATCTCTTAAACAATTACTGAAT
1 -TCTCTTAAA-AATTACTGAAT
*
25331714 TC-CTTACAAGATTACTGAA-
1 TCTCTTA-AAAATTACTGAAT
*
25331733 TCTCTTAAAAATTATTGAAT
1 TCTCTTAAAAATTACTGAAT
25331753 T-TCTTA
1 TCTCTTA
25331759 GACTTTGTCG
Statistics
Matches: 57, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
19 18 0.32
20 26 0.46
21 11 0.19
22 2 0.04
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.39
Consensus pattern (20 bp):
TCTCTTAAAAATTACTGAAT
Found at i:25331728 original size:40 final size:38
Alignment explanation
Indices: 25331680--25331758 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 38
25331670 AATCTCTTAA
25331680 ACAAATTAC-GATATCTCTTAAACAATTACTGAATTCCTT
1 ACAAATTACTGA-ATCTCTTAAA-AATTACTGAATTCCTT
* *
25331719 ACAAGATTACTGAATCTCTTAAAAATTATTGAATTTCTT
1 ACAA-ATTACTGAATCTCTTAAAAATTACTGAATTCCTT
25331758 A
1 A
25331759 GACTTTGTCG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
39 19 0.53
40 15 0.42
41 2 0.06
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.38
Consensus pattern (38 bp):
ACAAATTACTGAATCTCTTAAAAATTACTGAATTCCTT
Found at i:25333435 original size:20 final size:20
Alignment explanation
Indices: 25333407--25333444 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
25333397 CTCTTATAAA
25333407 TTCTAAATTTCTTACAAAAG
1 TTCTAAATTTCTTACAAAAG
*
25333427 TTCTTAATTTCTTACAAA
1 TTCTAAATTTCTTACAAA
25333445 CCTACTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.16, G:0.03, T:0.45
Consensus pattern (20 bp):
TTCTAAATTTCTTACAAAAG
Found at i:25333466 original size:78 final size:79
Alignment explanation
Indices: 25333372--25333519 Score: 185
Period size: 78 Copynumber: 1.9 Consensus size: 79
25333362 ATTATTGAAT
* *** * *
25333372 TAAATCTTTTACACAATTATTGAATCTCTTATAA-ATT-C-TAAATTTCTTACAAAAGTTCTTAA
1 TAAATCTCTTACACAATTACACAATCTCTTA-AACATTACGT-AATTTCTTACAAAAGTACTAAA
25333434 TTTCTTACAAACCTAC
64 TTTCTTACAAACCTAC
* *
25333450 TAAATCTCTTAGACAATTACACAATCTCTTAAACATTACGTAATTTCTTGCAAAAGTACTAAATT
1 TAAATCTCTTACACAATTACACAATCTCTTAAACATTACGTAATTTCTTACAAAAGTACTAAATT
25333515 TCTTA
66 TCTTA
25333520 AACTATTATC
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
77 2 0.03
78 29 0.49
79 27 0.46
80 1 0.02
ACGTcount: A:0.38, C:0.18, G:0.04, T:0.40
Consensus pattern (79 bp):
TAAATCTCTTACACAATTACACAATCTCTTAAACATTACGTAATTTCTTACAAAAGTACTAAATT
TCTTACAAACCTAC
Found at i:25333718 original size:35 final size:36
Alignment explanation
Indices: 25333679--25333760 Score: 89
Period size: 35 Copynumber: 2.3 Consensus size: 36
25333669 ACTAAATATA
*
25333679 TTACAAGATTATTAAATTTAAG-A-TTATTGAATCTC
1 TTACAAGATTACT-AATTTAAGAATTTATTGAATCTC
* * *
25333714 TTACAA-ATTACTATTTTTAGAATTTTTTGAATCTC
1 TTACAAGATTACTAATTTAAGAATTTATTGAATCTC
*
25333749 TTAAAAGATTAC
1 TTACAAGATTAC
25333761 CAAATATCTC
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
33 6 0.15
34 6 0.15
35 22 0.56
36 5 0.13
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (36 bp):
TTACAAGATTACTAATTTAAGAATTTATTGAATCTC
Found at i:25340809 original size:2 final size:2
Alignment explanation
Indices: 25340797--25340838 Score: 54
Period size: 2 Copynumber: 22.0 Consensus size: 2
25340787 ACACTTGTAG
25340797 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT -T AT -T AT AT -T AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25340837 AT
1 AT
25340839 TAGCATTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
1 3 0.08
2 31 0.86
3 2 0.06
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:25347153 original size:25 final size:25
Alignment explanation
Indices: 25347124--25347172 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
25347114 GCTTTAAACC
*
25347124 ATACAAATTTTTCATCTTTTCGGAT
1 ATACAAATTTCTCATCTTTTCGGAT
25347149 ATACAAATTTCTCATCTTTTCGGA
1 ATACAAATTTCTCATCTTTTCGGA
25347173 AAAGTAGAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (25 bp):
ATACAAATTTCTCATCTTTTCGGAT
Found at i:25350029 original size:111 final size:111
Alignment explanation
Indices: 25349859--25350198 Score: 427
Period size: 111 Copynumber: 3.1 Consensus size: 111
25349849 TTGTCGTTAT
* * * * * * *
25349859 GTTTCAAGTAATGACAGTTT-GCTGGACTTTTCCTCATGTTTCAAGTTATGACAGCCCGCTGAAC
1 GTTTCAAGTTATGACA-TTTCGTTGGACTTGTCCTCACGTTTCAAGTTATGGCAGTCCGCTGGAC
* *
25349923 TTGTCCT-AT-CGTATCAAGTTATGACATTCCGCTAGAATTTTCCTCAC
65 TTATCCTCATGC-T-TCAAGTTATGACAATCCGCTAGAATTTTCCTCAC
25349970 GTTTCAAGTTATGACATTTCGTTGGACTTGTCCTCACGTTTCAAGTTATGGCTA-TCCGCTGGAC
1 GTTTCAAGTTATGACATTTCGTTGGACTTGTCCTCACGTTTCAAGTTATGGC-AGTCCGCTGGAC
* *
25350034 TTATCGTCATGCTTCAAGTTATGACAATCCGCTAGACTTTTCCTCAC
65 TTATCCTCATGCTTCAAGTTATGACAATCCGCTAGAATTTTCCTCAC
* * *
25350081 GTTTCAAGTTATGACATTTCGTTGGACTTGTTCTCACATTTCAAGTTATAGCAGTCCGCTGGACT
1 GTTTCAAGTTATGACATTTCGTTGGACTTGTCCTCACGTTTCAAGTTATGGCAGTCCGCTGGACT
** * * * * *
25350146 TATTGTCATGCTTCAAGTTATGACAATTCGCTGGACTTGTCCTCAT
66 TATCCTCATGCTTCAAGTTATGACAATCCGCTAGAATTTTCCTCAC
25350192 GTTTCAA
1 GTTTCAA
25350199 TATATGATAG
Statistics
Matches: 205, Mismatches: 19, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
110 4 0.02
111 196 0.96
112 4 0.02
113 1 0.00
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (111 bp):
GTTTCAAGTTATGACATTTCGTTGGACTTGTCCTCACGTTTCAAGTTATGGCAGTCCGCTGGACT
TATCCTCATGCTTCAAGTTATGACAATCCGCTAGAATTTTCCTCAC
Found at i:25350205 original size:37 final size:37
Alignment explanation
Indices: 25349846--25350198 Score: 307
Period size: 37 Copynumber: 9.5 Consensus size: 37
25349836 TAGTCTGCTA
* * * * *
25349846 GACTTGTCGTTATGTTTCAAGTAATGACAGTTTGCTG
1 GACTTGTCCTCATGTTTCAAGTTATGACAATTCGCTG
* ***
25349883 GACTTTTCCTCATGTTTCAAGTTATGACAGCCCGCTG
1 GACTTGTCCTCATGTTTCAAGTTATGACAATTCGCTG
* * *
25349920 AACTTGTCCT-ATCGTATCAAGTTATGAC-ATTCCGCTA
1 GACTTGTCCTCAT-GTTTCAAGTTATGACAATT-CGCTG
* * * * *
25349957 GAATTTTCCTCACGTTTCAAGTTATGACATTTCGTTG
1 GACTTGTCCTCATGTTTCAAGTTATGACAATTCGCTG
* * * *
25349994 GACTTGTCCTCACGTTTCAAGTTATGGCTATCCGCTG
1 GACTTGTCCTCATGTTTCAAGTTATGACAATTCGCTG
* * * * *
25350031 GACTTATCGTCATGCTTCAAGTTATGACAATCCGCTA
1 GACTTGTCCTCATGTTTCAAGTTATGACAATTCGCTG
* * * *
25350068 GACTTTTCCTCACGTTTCAAGTTATGACATTTCGTTG
1 GACTTGTCCTCATGTTTCAAGTTATGACAATTCGCTG
* ** * *
25350105 GACTTGTTCTCACATTTCAAGTTAT-AGCAGTCCGCTG
1 GACTTGTCCTCATGTTTCAAGTTATGA-CAATTCGCTG
* ** *
25350142 GACTTATTGTCATGCTTCAAGTTATGACAATTCGCTG
1 GACTTGTCCTCATGTTTCAAGTTATGACAATTCGCTG
25350179 GACTTGTCCTCATGTTTCAA
1 GACTTGTCCTCATGTTTCAA
25350199 TATATGATAG
Statistics
Matches: 249, Mismatches: 61, Indels: 12
0.77 0.19 0.04
Matches are distributed among these distances:
36 3 0.01
37 242 0.97
38 4 0.02
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (37 bp):
GACTTGTCCTCATGTTTCAAGTTATGACAATTCGCTG
Found at i:25350211 original size:74 final size:74
Alignment explanation
Indices: 25349830--25350211 Score: 340
Period size: 74 Copynumber: 5.2 Consensus size: 74
25349820 ATTACGCAAT
* * * * * * * * *
25349830 TTATGATAGTCTGCTAGACTTGTCGTTATGTTTCAAGTAATGACAGTTTGCTGGACTTTTCCTCA
1 TTATGACAGTCCGCTGGACTTGTCCTCATGTTTCAAGTTATGACAATTCGCTGGACTTGTCCTCA
25349895 TGTTTCAAG
66 TGTTTCAAG
* * * * * *
25349904 TTATGACAGCCCGCTGAACTTGTCCT-ATCGTATCAAGTTATGAC-ATTCCGCTAGAATTTTCCT
1 TTATGACAGTCCGCTGGACTTGTCCTCAT-GTTTCAAGTTATGACAATT-CGCTGGACTTGTCCT
*
25349967 CACGTTTCAAG
64 CATGTTTCAAG
* * * * * * * * *
25349978 TTATGACATTTCGTTGGACTTGTCCTCACGTTTCAAGTTATGGCTATCCGCTGGACTTATCGTCA
1 TTATGACAGTCCGCTGGACTTGTCCTCATGTTTCAAGTTATGACAATTCGCTGGACTTGTCCTCA
*
25350043 TGCTTCAAG
66 TGTTTCAAG
* * * * * * *
25350052 TTATGACAATCCGCTAGACTTTTCCTCACGTTTCAAGTTATGACATTTCGTTGGACTTGTTCTCA
1 TTATGACAGTCCGCTGGACTTGTCCTCATGTTTCAAGTTATGACAATTCGCTGGACTTGTCCTCA
**
25350117 CATTTCAAG
66 TGTTTCAAG
* ** *
25350126 TTAT-AGCAGTCCGCTGGACTTATTGTCATGCTTCAAGTTATGACAATTCGCTGGACTTGTCCTC
1 TTATGA-CAGTCCGCTGGACTTGTCCTCATGTTTCAAGTTATGACAATTCGCTGGACTTGTCCTC
25350190 ATGTTTCAA-
65 ATGTTTCAAG
*
25350199 TATATGATAGTCC
1 T-TATGACAGTCC
25350212 ATTGAATGTG
Statistics
Matches: 244, Mismatches: 57, Indels: 14
0.77 0.18 0.04
Matches are distributed among these distances:
73 6 0.02
74 234 0.96
75 4 0.02
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (74 bp):
TTATGACAGTCCGCTGGACTTGTCCTCATGTTTCAAGTTATGACAATTCGCTGGACTTGTCCTCA
TGTTTCAAG
Found at i:25350424 original size:21 final size:22
Alignment explanation
Indices: 25350379--25350439 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
25350369 GGAAATTTTG
* *
25350379 AAATTTTAGTGTGGAAAGTTAA
1 AAATTTAAGTGTTGAAAGTTAA
25350401 AAATTTAAGTGTTGAAAGTT-A
1 AAATTTAAGTGTTGAAAGTTAA
25350422 AAATTGTAAGTGTTGAAA
1 AAATT-TAAGTGTTGAAA
25350440 TGCAGAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.17
22 30 0.83
ACGTcount: A:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (22 bp):
AAATTTAAGTGTTGAAAGTTAA
Found at i:25351668 original size:9 final size:9
Alignment explanation
Indices: 25351640--25351673 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
25351630 ATACAATAAG
25351640 AATTTCAAA
1 AATTTCAAA
*
25351649 AATTTTTAAA
1 AA-TTTCAAA
25351659 AATTTCAAA
1 AATTTCAAA
25351668 AATTTC
1 AATTTC
25351674 TTTGAGTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (9 bp):
AATTTCAAA
Found at i:25359156 original size:49 final size:49
Alignment explanation
Indices: 25359079--25359198 Score: 168
Period size: 49 Copynumber: 2.4 Consensus size: 49
25359069 CTCAGCCAAA
* * * * * *
25359079 GTAGAATATGAAAATAGTAAAAAGCATCATTGTTGGGCCACCTGGGATG
1 GTAGAATATGAAAATAGTGAAAACCATCAATGTCGAGCCACCTGAGATG
*
25359128 GTAGAATATGCAAATAGTGAAAACCATCAATGTCGAGCCACCTGAGATG
1 GTAGAATATGAAAATAGTGAAAACCATCAATGTCGAGCCACCTGAGATG
*
25359177 GTAGAATATGTAAATAGTGAAA
1 GTAGAATATGAAAATAGTGAAA
25359199 GTCATCGTTA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 63 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.23
Consensus pattern (49 bp):
GTAGAATATGAAAATAGTGAAAACCATCAATGTCGAGCCACCTGAGATG
Found at i:25362107 original size:13 final size:14
Alignment explanation
Indices: 25362072--25362101 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25362062 AAAATTTGTA
*
25362072 AAAAAAATTCTCTG
1 AAAAAAATTCTCAG
25362086 AAAAAAATTCTCAG
1 AAAAAAATTCTCAG
25362100 AA
1 AA
25362102 GAAATTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.13, G:0.07, T:0.23
Consensus pattern (14 bp):
AAAAAAATTCTCAG
Found at i:25367428 original size:41 final size:41
Alignment explanation
Indices: 25367366--25367560 Score: 286
Period size: 41 Copynumber: 4.8 Consensus size: 41
25367356 AGATTTTATA
*
25367366 ATTAGCGGCGC-TTTTCTAAAAACGCCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTTTTC-AAAAACGCCGCTAAAGCCCAGAGC
* *
25367407 ATTAGTGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCAGAGC
* **
25367448 ATTAGCAGCGCTTTTTCAAAAACGCCGCTAAAGGACAGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCAGAGC
25367489 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCTA-AGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCC-AGAGC
**
25367530 ATTAGCGGCAATTTTTCAAAAACGCCGCTAA
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAA
25367561 GTACCCCAAA
Statistics
Matches: 139, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
41 133 0.96
42 6 0.04
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.22
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCAGAGC
Found at i:25367650 original size:39 final size:39
Alignment explanation
Indices: 25367601--25367753 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 39
25367591 TGGGCTTAGG
* * * *
25367601 TTTTTTGCGGCGCTTTTTGGAAAA-CGCTGCGAATGCTTA
1 TTTTTAGCGGCG-TTTTTGCAAAAGCGCCGCTAATGCTTA
* *
25367640 TTTTTAGCGGCG-TTTTCCAAAATGCGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTTGCAAAA-GCGCCGCTAATGCT-TA
* *
25367680 TCTTTAGCGGCGTTTTTGTAAAAGCGCCGCTAATGCTTTA
1 TTTTTAGCGGCGTTTTTGCAAAAGCGCCGCTAATGC-TTA
* *
25367720 TTTTTAGTGGCGTTTTTTGTCCAAA-CGCCGCTAA
1 TTTTTAGCGGCG-TTTTTG-CAAAAGCGCCGCTAA
25367754 AAATGCCGCT
Statistics
Matches: 93, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
37 8 0.09
39 22 0.24
40 36 0.39
41 24 0.26
42 3 0.03
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTTGCAAAAGCGCCGCTAATGCTTA
Found at i:25373642 original size:46 final size:45
Alignment explanation
Indices: 25373535--25373732 Score: 249
Period size: 46 Copynumber: 4.6 Consensus size: 45
25373525 TACGTATGAT
* *
25373535 CACTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGCTAC
*
25373578 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-AAGCTAC
25373624 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--T-AG----
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGCTAC
25373660 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-AAGCTAC
*
25373706 CACTTATCA-TTTTATCTCTTGATCAGA
1 CACTTATCACTTTT-TCACTTGATCAGA
25373733 AGTACTCAAA
Statistics
Matches: 138, Mismatches: 3, Indels: 25
0.83 0.02 0.15
Matches are distributed among these distances:
36 30 0.22
38 3 0.02
40 3 0.02
42 3 0.02
43 10 0.07
44 8 0.06
45 25 0.18
46 56 0.41
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.36
Consensus pattern (45 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGCTAC
Found at i:25373665 original size:36 final size:36
Alignment explanation
Indices: 25373624--25373696 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
25373614 CTAAAGCTAC
25373624 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
*
25373660 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
25373696 C
1 C
25373697 TAAAGCTACC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:25373685 original size:82 final size:82
Alignment explanation
Indices: 25373578--25373732 Score: 276
Period size: 82 Copynumber: 1.9 Consensus size: 82
25373568 GCTAGGCTAC
25373578 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTT-TCAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCA-TTTTATCAC
25373642 TTGATCAGATAAGTATAG
65 TTGATCAGATAAGTATAG
* *
25373660 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCATTTTATCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCATTTTATCACT
25373725 TGATCAGA
66 TGATCAGA
25373733 AGTACTCAAA
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
81 4 0.06
82 66 0.94
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (82 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCATTTTATCACT
TGATCAGATAAGTATAG
Found at i:25375776 original size:21 final size:21
Alignment explanation
Indices: 25375752--25375793 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
25375742 CTTTTTGTTC
25375752 AATTAATT-ATCGAAACTTTAA
1 AATTAATTGA-CGAAACTTTAA
**
25375773 AATTTCTTGACGAAACTTTAA
1 AATTAATTGACGAAACTTTAA
25375794 TACTAACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (21 bp):
AATTAATTGACGAAACTTTAA
Found at i:25381098 original size:21 final size:21
Alignment explanation
Indices: 25381066--25381137 Score: 135
Period size: 21 Copynumber: 3.4 Consensus size: 21
25381056 AAAACAACCA
25381066 TTTCTCCCCTCGTTCTTGCTGG
1 TTTCT-CCCTCGTTCTTGCTGG
25381088 TTTCTCCCTCGTTCTTGCTGG
1 TTTCTCCCTCGTTCTTGCTGG
25381109 TTTCTCCCTCGTTCTTGCTGG
1 TTTCTCCCTCGTTCTTGCTGG
25381130 TTTCTCCC
1 TTTCTCCC
25381138 ATCTTTTTTG
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
21 45 0.90
22 5 0.10
ACGTcount: A:0.00, C:0.36, G:0.17, T:0.47
Consensus pattern (21 bp):
TTTCTCCCTCGTTCTTGCTGG
Found at i:25382170 original size:31 final size:31
Alignment explanation
Indices: 25382132--25382193 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
25382122 AGGCAAATTA
25382132 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
25382163 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
25382194 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:25388364 original size:31 final size:31
Alignment explanation
Indices: 25388326--25388387 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
25388316 AGGCAAATTA
25388326 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
25388357 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
25388388 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:25389804 original size:22 final size:23
Alignment explanation
Indices: 25389755--25389805 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
25389745 TAATTTTTTT
*
25389755 TCAATAACCCAACAAAAAAAAAA
1 TCAAAAACCCAACAAAAAAAAAA
*
25389778 CCAAAAACCCAAC-AAAAAAAAA
1 TCAAAAACCCAACAAAAAAAAAA
25389800 TCAAAA
1 TCAAAA
25389806 TGCCTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.71, C:0.24, G:0.00, T:0.06
Consensus pattern (23 bp):
TCAAAAACCCAACAAAAAAAAAA
Found at i:25393260 original size:21 final size:21
Alignment explanation
Indices: 25393207--25393261 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
25393197 ACCATTGTTT
** *
25393207 CTAATCTCACTACTACAGTAT
1 CTAATCTCACCGCTACAGTAA
*
25393228 CCAATCTCACCGCTACAGTAA
1 CTAATCTCACCGCTACAGTAA
25393249 CTAATCTCACCGC
1 CTAATCTCACCGC
25393262 CACCGCTGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.31, C:0.36, G:0.07, T:0.25
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAA
Found at i:25401213 original size:21 final size:22
Alignment explanation
Indices: 25401189--25401230 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
25401179 ATTGTTTTAT
*
25401189 TATTG-TTTGCTGCCATTTTGA
1 TATTGTTTTGCTACCATTTTGA
25401210 TATTGTTTTGCTACCATTTTG
1 TATTGTTTTGCTACCATTTTG
25401231 CAATTATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.14, C:0.14, G:0.17, T:0.55
Consensus pattern (22 bp):
TATTGTTTTGCTACCATTTTGA
Found at i:25404172 original size:50 final size:53
Alignment explanation
Indices: 25404096--25404215 Score: 122
Period size: 50 Copynumber: 2.3 Consensus size: 53
25404086 ATTTTTGGGT
* * * * *
25404096 TGTTGGGACACTAAT-GACTAGCACCCTTGTACTAGA-TT-AAAAAAAATTGG
1 TGTTGGGACACTAATGGTCTAGCACCCTTATACCAAATTTAAAAAAAAAATGG
* *
25404146 TGTTGGGACACTAATGGTC-GGTACCCTTATACCAAATTTAAAAAAAAAATGG
1 TGTTGGGACACTAATGGTCTAGCACCCTTATACCAAATTTAAAAAAAAAATGG
* **
25404198 TGCTAAGACACTAATGGT
1 TGTTGGGACACTAATGGT
25404216 TGACACCCTT
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
50 27 0.47
51 4 0.07
52 26 0.46
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.28
Consensus pattern (53 bp):
TGTTGGGACACTAATGGTCTAGCACCCTTATACCAAATTTAAAAAAAAAATGG
Found at i:25406047 original size:54 final size:54
Alignment explanation
Indices: 25405967--25406124 Score: 205
Period size: 54 Copynumber: 2.9 Consensus size: 54
25405957 TCCTAGCATC
* *
25405967 ATTTTTTTTTAAATTTGGTACTAGGGTGCCAGCCATCAGTGTCCCAACACCCCAA
1 ATTTTTTTTT-AATTTGGTACAAGGGTGCCAGCCATCAGTGTCCCAGCACCCCAA
* * * *
25406022 A-TTTTTTTTAAGTCTGGTACAAGGGTGCTAGCCATCAATGTCCCAGCA-CTCAA
1 ATTTTTTTTTAA-TTTGGTACAAGGGTGCCAGCCATCAGTGTCCCAGCACCCCAA
*
25406075 ATTTTTTTTTAATTTGGTACAATGGTGCC-GACCATCAGTGTCCCAGCACC
1 ATTTTTTTTTAATTTGGTACAAGGGTGCCAG-CCATCAGTGTCCCAGCACC
25406125 TAAATAACTA
Statistics
Matches: 89, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
52 1 0.01
53 37 0.42
54 50 0.56
55 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.34
Consensus pattern (54 bp):
ATTTTTTTTTAATTTGGTACAAGGGTGCCAGCCATCAGTGTCCCAGCACCCCAA
Found at i:25406080 original size:53 final size:51
Alignment explanation
Indices: 25405939--25406123 Score: 194
Period size: 54 Copynumber: 3.5 Consensus size: 51
25405929 TATATTGAAG
* * * *
25405939 GGGTGCCGACCATCAGTGTCCTAGCA-TC-ATTTTTTTTTAAATTTGGTACTA
1 GGGTGCAG-CCATCAGTGTCCCAGCACTCAAATTTTTTTT-AATTTGGTACAA
* * *
25405990 GGGTGCCAGCCATCAGTGTCCCAACACCCCAAATTTTTTTTAAGTCTGGTACAA
1 GGGTG-CAGCCATCAGTGTCCCAGCA-CTCAAATTTTTTTTAA-TTTGGTACAA
*
25406044 GGGTGCTAGCCATCAATGTCCCAGCACTCAAATTTTTTTTTAATTTGGTACAA
1 GGGTGC-AGCCATCAGTGTCCCAGCACTCAAA-TTTTTTTTAATTTGGTACAA
* *
25406097 TGGTGCCGACCATCAGTGTCCCAGCAC
1 GGGTGCAG-CCATCAGTGTCCCAGCAC
25406124 CTAAATAACT
Statistics
Matches: 112, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
51 20 0.18
52 3 0.03
53 40 0.36
54 49 0.44
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (51 bp):
GGGTGCAGCCATCAGTGTCCCAGCACTCAAATTTTTTTTAATTTGGTACAA
Found at i:25408683 original size:22 final size:22
Alignment explanation
Indices: 25408658--25408700 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
25408648 TTAAACTCTT
25408658 TAATTGTAGTGTTTGGTGAATC
1 TAATTGTAGTGTTTGGTGAATC
25408680 TAATTGTAGTGTTTGGTGAAT
1 TAATTGTAGTGTTTGGTGAAT
25408701 AGAGGTTTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.02, G:0.28, T:0.47
Consensus pattern (22 bp):
TAATTGTAGTGTTTGGTGAATC
Found at i:25412339 original size:16 final size:16
Alignment explanation
Indices: 25412302--25412343 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
25412292 TTAATCATAT
*
25412302 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
25412318 TT-AAATATATTATAA
1 TTAAAATATATTATAA
25412333 TTAAAATATAT
1 TTAAAATATAT
25412344 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:25412350 original size:14 final size:15
Alignment explanation
Indices: 25412311--25412352 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
25412301 TTTAAACATA
*
25412311 ATTATTATTAAATAT
1 ATTATAATTAAATAT
25412326 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
25412340 A-TATAATTTAATA
1 ATTATAATTAAATA
25412353 AAATACTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:25412449 original size:15 final size:15
Alignment explanation
Indices: 25412417--25412472 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
25412407 TACTATAAAC
25412417 TATAATTTAACATA-AT
1 TATAA-TTAA-ATATAT
*
25412433 TATTATTAAATATAT
1 TATAATTAAATATAT
25412448 TATAATTAAATATA-
1 TATAATTAAATATAT
25412462 TATAATATAAA
1 TATAAT-TAAA
25412473 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
14 9 0.25
15 23 0.64
16 4 0.11
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
TATAATTAAATATAT
Found at i:25412583 original size:18 final size:17
Alignment explanation
Indices: 25412562--25412596 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25412552 TTATTATTAA
*
25412562 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
25412580 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
25412597 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:25412716 original size:59 final size:58
Alignment explanation
Indices: 25412398--25412706 Score: 197
Period size: 66 Copynumber: 5.2 Consensus size: 58
25412388 CTCAAACCAT
* * *
25412398 AATATATGATACTATAAACTATAATTTAACATAATTATTATTAAATATATTATAATT-A
1 AATATATGATACTATAAAATATAATTTAA-ATAATTAATATTAAATATATTTTAATTAA
* * * ** *
25412456 AATATAT-ATAATAT-AAA-A-AATTCTTAATAACTAATATTCTTATATGAATTTACTCAAATCA
1 AATATATGATACTATAAAATATAATT-TAAATAATTAATATT-AAATAT--ATTT--T--AATTA
*
25412517 T
58 A
* *
25412518 AATATATGATACTATAAAAGATAATTTAACATAATTATTATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTTAA-ATAATTAATATTAAATATATTTTAATTAA
* * * * ** *
25412577 AATATAT-A-A-T-T-TAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCA
1 AATATATGATACTATAAAATATAATT-TAAATAATTAATATT-AAATAT--ATTT--T--AATTA
*
25412637 T
58 A
25412638 AATATATGATACTATAAAATATAATTTGAAATAATTAATATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTT-AAATAATTAATATTAAATATATTTTAATTAA
25412697 AATATATGAT
1 AATATATGAT
25412707 TTAATAAAAT
Statistics
Matches: 187, Mismatches: 36, Indels: 55
0.67 0.13 0.20
Matches are distributed among these distances:
54 31 0.17
55 14 0.07
56 3 0.02
57 14 0.07
58 8 0.04
59 27 0.14
61 16 0.09
62 8 0.04
63 15 0.08
64 4 0.02
65 13 0.07
66 34 0.18
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.42
Consensus pattern (58 bp):
AATATATGATACTATAAAATATAATTTAAATAATTAATATTAAATATATTTTAATTAA
Found at i:25412726 original size:120 final size:120
Alignment explanation
Indices: 25412300--25412717 Score: 689
Period size: 120 Copynumber: 3.5 Consensus size: 120
25412290 ATTTAATCAT
*
25412300 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATACTTAATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
25412365 ATCAATATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAACTATA
65 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
*
25412421 ATTTAACATAATTATTATTAAATATATTATAATTAAATATATATAATATAA-AAAATTCTTAATA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAA-ATATATAATTTAATAAAATTCTTAATA
*
25412485 A-CTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
65 ATC-AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
*
25412541 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
25412606 TCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
* * *
25412661 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
25412718 TAAAATAATT
Statistics
Matches: 281, Mismatches: 11, Indels: 11
0.93 0.04 0.04
Matches are distributed among these distances:
119 13 0.05
120 249 0.89
121 19 0.07
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
Found at i:25412815 original size:25 final size:24
Alignment explanation
Indices: 25412768--25412815 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
25412758 TATAATTTAA
* *
25412768 AATAATTATTATTTCATATAATTT
1 AATAATTATAATTTCATAAAATTT
25412792 AATAATATATAATTTCATAAAATT
1 AATAAT-TATAATTTCATAAAATT
25412816 CTTGATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
AATAATTATAATTTCATAAAATTT
Found at i:25412929 original size:91 final size:91
Alignment explanation
Indices: 25412733--25413119 Score: 690
Period size: 91 Copynumber: 4.3 Consensus size: 91
25412723 TAATTATAAC
* * **
25412733 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTTCATATAATTTAAT-A-
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
25412796 -ATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
25412821 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
25412886 GATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
25412912 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
25412977 GATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
25413003 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
25413068 GATATATAATTTCATAAAATTCTTAA
66 GATATATAATTTCATAAAATTCTTGA
*
25413094 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAATTTTCTTATATGAATTTA
25413120 CTAAACTCAT
Statistics
Matches: 289, Mismatches: 6, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
88 58 0.20
89 1 0.00
91 210 0.73
92 20 0.07
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
GATATATAATTTCATAAAATTCTTGA
Found at i:25416282 original size:16 final size:16
Alignment explanation
Indices: 25416261--25416291 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
25416251 TACCAAATAC
25416261 TTGTTTTTTAATCAAG
1 TTGTTTTTTAATCAAG
25416277 TTGTTTTTTAATCAA
1 TTGTTTTTTAATCAA
25416292 TCATAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.10, T:0.58
Consensus pattern (16 bp):
TTGTTTTTTAATCAAG
Found at i:25416380 original size:62 final size:65
Alignment explanation
Indices: 25416295--25416422 Score: 217
Period size: 62 Copynumber: 2.0 Consensus size: 65
25416285 TAATCAATCA
*
25416295 TAATAATAATGAATATTTGTTTTTTAATCAAGTTGTTTACTTGATTATATCTAATGATCCAATTT
1 TAATAATAATGAATATTTGTTTTTTAATCAAGTTGTTTACTTGATTATATCTAATGATCAAATTT
*
25416360 TAAT-ATATTGAATA-TT-TTTTTTAATCAAGTTGTTTACTTGATTATATCTAATGATCAAATTT
1 TAATAATAATGAATATTTGTTTTTTAATCAAGTTGTTTACTTGATTATATCTAATGATCAAATTT
25416422 T
1 T
25416423 TATTTTATTT
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
62 46 0.75
63 2 0.03
64 9 0.15
65 4 0.07
ACGTcount: A:0.34, C:0.07, G:0.09, T:0.51
Consensus pattern (65 bp):
TAATAATAATGAATATTTGTTTTTTAATCAAGTTGTTTACTTGATTATATCTAATGATCAAATTT
Found at i:25416417 original size:30 final size:30
Alignment explanation
Indices: 25416321--25416417 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
25416311 TTGTTTTTTA
25416321 ATCAAGTTGTTTACTTGATTATATCTAATG
1 ATCAAGTTGTTTACTTGATTATATCTAATG
* * * * ** *
25416351 ATCCAA-TT-TTAATATATTGAATATTTTTTTTA
1 AT-CAAGTTGTT--TA-CTTGATTATATCTAATG
25416383 ATCAAGTTGTTTACTTGATTATATCTAATG
1 ATCAAGTTGTTTACTTGATTATATCTAATG
25416413 ATCAA
1 ATCAA
25416418 ATTTTTATTT
Statistics
Matches: 47, Mismatches: 14, Indels: 12
0.64 0.19 0.16
Matches are distributed among these distances:
29 2 0.04
30 19 0.40
31 10 0.21
32 14 0.30
33 2 0.04
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.48
Consensus pattern (30 bp):
ATCAAGTTGTTTACTTGATTATATCTAATG
Found at i:25416542 original size:24 final size:26
Alignment explanation
Indices: 25416490--25416539 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
25416480 TATATGTAAT
25416490 ATTATTAAAATAATATTTTTAATTTTA
1 ATTATTAAAATAATATTTTTAA-TTTA
*
25416517 ATTATTTAAA-AATATTTTTAATT
1 ATTATTAAAATAATATTTTTAATT
25416540 AATGCGTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 11 0.50
27 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
ATTATTAAAATAATATTTTTAATTTA
Found at i:25434294 original size:29 final size:31
Alignment explanation
Indices: 25434233--25434302 Score: 92
Period size: 29 Copynumber: 2.3 Consensus size: 31
25434223 TGTTAATGGT
25434233 TGACTGATTTGTCACTTTTTAATAACGTTAG
1 TGACTGATTTGTCACTTTTTAATAACGTTAG
* *
25434264 TGATTGATTTGTTA-TTTTTAA-AA-GTTGAG
1 TGACTGATTTGTCACTTTTTAATAACGTT-AG
25434293 TGACTGATTT
1 TGACTGATTT
25434303 TAAAGTTGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 3 0.09
29 13 0.37
30 7 0.20
31 12 0.34
ACGTcount: A:0.26, C:0.07, G:0.19, T:0.49
Consensus pattern (31 bp):
TGACTGATTTGTCACTTTTTAATAACGTTAG
Found at i:25436759 original size:20 final size:22
Alignment explanation
Indices: 25436734--25436773 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
25436724 TACAGCAAGT
*
25436734 ACAT-GGACTTAATT-AAATGA
1 ACATGGGACTAAATTGAAATGA
25436754 ACATGGGACTAAATTGAAAT
1 ACATGGGACTAAATTGAAAT
25436774 TGTGAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.28
Consensus pattern (22 bp):
ACATGGGACTAAATTGAAATGA
Found at i:25438583 original size:44 final size:44
Alignment explanation
Indices: 25438490--25438607 Score: 132
Period size: 44 Copynumber: 2.7 Consensus size: 44
25438480 TTCAATCTAT
* * * *
25438490 TCTACTACAACTTCAGGGATATGAGATTTTTAGTTTCATTCGAA
1 TCTACTACAACTTCAGGGGTATAAGATTTGTAGCTTCATTCGAA
* * *
25438534 ACTACTACAACTTCAGGGGTATAAGATTTGTAGCTTCATCTTG-C
1 TCTACTACAACTTCAGGGGTATAAGATTTGTAGCTTCAT-TCGAA
*
25438578 TCTACTACAACTTCAAGGAG-ATAAGATTTG
1 TCTACTACAACTTC-AGGGGTATAAGATTTG
25438608 CTATGGTAGC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
44 57 0.90
45 6 0.10
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.35
Consensus pattern (44 bp):
TCTACTACAACTTCAGGGGTATAAGATTTGTAGCTTCATTCGAA
Found at i:25438666 original size:94 final size:94
Alignment explanation
Indices: 25438544--25438791 Score: 300
Period size: 94 Copynumber: 2.6 Consensus size: 94
25438534 ACTACTACAA
* * *
25438544 CTTCAGGGGTATAAGATTTGTAGCTTCATCTTGCTCTACTACAACTTCAAGGAGATAAGATTTGC
1 CTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTCTACTACAACTTCAAGGAGATAAGATTTGA
* * *
25438609 TATGGTAGCTTCAATTCGATCCACTGCAT
66 TATGATAACTTCAATCCGATCCACTGCAT
* * ** * *
25438638 CTTCAGAGATATAGGATTTGTAGCTTCATCTTGCT-TCATTGTATCTTCAAGGAGATCAGATTTG
1 CTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTCT-ACTACAACTTCAAGGAGATAAGATTTG
* **
25438702 ATATTATAACTTTGATCCGATCCACTGCAT
65 ATATGATAACTTCAATCCGATCCACTGCAT
* * * * *
25438732 ATTTAGGGATATAGGATTTATAGCTTCATCTTGCTCTACTACAACTTCAAAGATATAAGA
1 CTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTCTACTACAACTTCAAGGAGATAAGA
25438792 CTTGTAGCTT
Statistics
Matches: 126, Mismatches: 26, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
93 1 0.01
94 124 0.98
95 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (94 bp):
CTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTCTACTACAACTTCAAGGAGATAAGATTTGA
TATGATAACTTCAATCCGATCCACTGCAT
Found at i:25438837 original size:138 final size:138
Alignment explanation
Indices: 25438638--25438918 Score: 355
Period size: 138 Copynumber: 2.0 Consensus size: 138
25438628 TCCACTGCAT
* * * * * * * * * * *
25438638 CTTCAGAGATATAGGATTTGTAGCTTCATCTTGCTTCATTGTATCTTCAAGGAGATCAGATTTGA
1 CTTCAAAGATATAAGACTTGTAGCTTCATCTTACTCCACTGCAGCCTCAAGGAGATAAGATTCGA
* * * * *
25438703 TATTATAACTTTGATCCGATCCACTGCATATTTAGGGATATAGGATTTATAGCTTCATCTTGCTC
66 CATTATAACTTTGATCCGATCCACTACATATTCAAGGATATAGAATTTATAGCTTCATCTTGCTC
25438768 TACTACAA
131 TACTACAA
* *
25438776 CTTCAAAGATATAAGACTTGTAGCTTCATCTTACTCCACTGCAGCCTCAGGGAGATAAGATTCGC
1 CTTCAAAGATATAAGACTTGTAGCTTCATCTTACTCCACTGCAGCCTCAAGGAGATAAGATTCGA
* * * *
25438841 CATTGTAACTTTGATCTGATCCATTACATATTCAAGGATATAGAATTTGTAGCTTCATCTTGCTC
66 CATTATAACTTTGATCCGATCCACTACATATTCAAGGATATAGAATTTATAGCTTCATCTTGCTC
*
25438906 TACTGCAA
131 TACTACAA
25438914 CTTCA
1 CTTCA
25438919 GGGGAGATAA
Statistics
Matches: 120, Mismatches: 23, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
138 120 1.00
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (138 bp):
CTTCAAAGATATAAGACTTGTAGCTTCATCTTACTCCACTGCAGCCTCAAGGAGATAAGATTCGA
CATTATAACTTTGATCCGATCCACTACATATTCAAGGATATAGAATTTATAGCTTCATCTTGCTC
TACTACAA
Found at i:25439006 original size:44 final size:44
Alignment explanation
Indices: 25438958--25439066 Score: 148
Period size: 44 Copynumber: 2.5 Consensus size: 44
25438948 GATCTGATCT
* * * *
25438958 ACTGCATCTTTAGGGATA-AATGATTTATAGTTTTATCTTGCTAC
1 ACTGCAACTTTAGGGAGATAA-GATTTATAGTTTCATCTTACTAC
* *
25439002 ACTGCAACTTTAGGGAGATAAGATTTGTAGTTTCATCTTACTCC
1 ACTGCAACTTTAGGGAGATAAGATTTATAGTTTCATCTTACTAC
25439046 ACTGCAACTTTAGGGAGATAA
1 ACTGCAACTTTAGGGAGATAA
25439067 AATTCGCCAT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 56 0.97
45 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (44 bp):
ACTGCAACTTTAGGGAGATAAGATTTATAGTTTCATCTTACTAC
Found at i:25439118 original size:50 final size:50
Alignment explanation
Indices: 25439043--25439158 Score: 196
Period size: 50 Copynumber: 2.3 Consensus size: 50
25439033 TTCATCTTAC
* *
25439043 TCCACTGCAACTTTAGGGAGATAAAATTCGCCATTATAACTTTGATCCGA
1 TCCACTGCATCTTCAGGGAGATAAAATTCGCCATTATAACTTTGATCCGA
**
25439093 TCCACTGCATCTTCAGGGAGATAAAATTTTCCATTATAACTTTGATCCGA
1 TCCACTGCATCTTCAGGGAGATAAAATTCGCCATTATAACTTTGATCCGA
25439143 TCCACTGCATCTTCAG
1 TCCACTGCATCTTCAG
25439159 CGATATGGGA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 62 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (50 bp):
TCCACTGCATCTTCAGGGAGATAAAATTCGCCATTATAACTTTGATCCGA
Found at i:25443831 original size:29 final size:29
Alignment explanation
Indices: 25443789--25443848 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
25443779 TTGGCACCTC
25443789 CTCTGAATTTTGAATGATCAAACCCACGT
1 CTCTGAATTTTGAATGATCAAACCCACGT
25443818 CTCTGAATTTTGAATGATCAAACCCACGT
1 CTCTGAATTTTGAATGATCAAACCCACGT
25443847 CT
1 CT
25443849 ATCATTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (29 bp):
CTCTGAATTTTGAATGATCAAACCCACGT
Found at i:25443857 original size:29 final size:29
Alignment explanation
Indices: 25443794--25443857 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
25443784 ACCTCCTCTG
* *
25443794 AATTTTGAATGATCAAACCCACGTCTCTG
1 AATTTTGAATGATCAAACCCACGTCTATC
25443823 AATTTTGAATGATCAAACCCACGTCTATC
1 AATTTTGAATGATCAAACCCACGTCTATC
*
25443852 ATTTTT
1 AATTTT
25443858 TGCCAAACCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (29 bp):
AATTTTGAATGATCAAACCCACGTCTATC
Found at i:25448611 original size:23 final size:23
Alignment explanation
Indices: 25448584--25448628 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
25448574 TAATGAGTAC
*
25448584 AATAAAAAGTGATGAAATAAAAT
1 AATAAAAAATGATGAAATAAAAT
25448607 AATAAAAAATGATGAAATAAAA
1 AATAAAAAATGATGAAATAAAA
25448629 AAATTCAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.11, T:0.20
Consensus pattern (23 bp):
AATAAAAAATGATGAAATAAAAT
Found at i:25450940 original size:23 final size:23
Alignment explanation
Indices: 25450911--25450973 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
25450901 GGCCCGGCCC
*
25450911 ATTTTTAATTAAAATTAAAATTA
1 ATTTTTAATTAAAATTAAAACTA
* *
25450934 TTTTTTAAATAAAATTAAAACTA
1 ATTTTTAATTAAAATTAAAACTA
*
25450957 ATTGTT-ATTAAAATTAA
1 ATTTTTAATTAAAATTAA
25450974 TTGTTAGTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
22 10 0.29
23 24 0.71
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
ATTTTTAATTAAAATTAAAACTA
Found at i:25450986 original size:16 final size:16
Alignment explanation
Indices: 25450949--25450988 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
25450939 TAAATAAAAT
* *
25450949 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
25450965 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
25450981 TAAAATTA
1 TAAAATTA
25450989 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:25451074 original size:60 final size:61
Alignment explanation
Indices: 25450993--25451178 Score: 270
Period size: 68 Copynumber: 3.0 Consensus size: 61
25450983 AAATTATCAA
*
25450993 ATTATTAATTG--TTAATTGTATTAATTCTTGTAATAAAATCTAACATTTGATTAGTAAAT
1 ATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAAT
25451052 -TTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTAT
1 ATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGT-AA---AT
*
25451116 CAAATTATTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAA
1 ---ATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAA
25451179 ACAAACTTGA
Statistics
Matches: 115, Mismatches: 2, Indels: 15
0.87 0.02 0.11
Matches are distributed among these distances:
58 10 0.09
60 43 0.37
61 2 0.02
64 3 0.03
67 2 0.02
68 55 0.48
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.47
Consensus pattern (61 bp):
ATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAAT
Found at i:25451086 original size:9 final size:9
Alignment explanation
Indices: 25451049--25451080 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
25451039 TTGATTAGTA
25451049 AATT-TATT
1 AATTGTATT
25451057 AATTGTATT
1 AATTGTATT
25451066 AATTGTATT
1 AATTGTATT
25451075 AATTGT
1 AATTGT
25451081 TGTAATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.17
9 19 0.83
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.56
Consensus pattern (9 bp):
AATTGTATT
Found at i:25451133 original size:9 final size:9
Alignment explanation
Indices: 25451121--25451148 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
25451111 TTTATCAAAT
25451121 TATTAATTG
1 TATTAATTG
25451130 TATTAATTG
1 TATTAATTG
25451139 TATTAATTG
1 TATTAATTG
25451148 T
1 T
25451149 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:25452607 original size:19 final size:19
Alignment explanation
Indices: 25452571--25452609 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
25452561 TATTATTAAT
**
25452571 ATATTTATAATTGTAATAA
1 ATATTTATAATTAAAATAA
*
25452590 ATATTTATCATTAAAATAA
1 ATATTTATAATTAAAATAA
25452609 A
1 A
25452610 ACTGAAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:25452910 original size:18 final size:20
Alignment explanation
Indices: 25452863--25452910 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 20
25452853 CTCCAACTTA
25452863 ATTTAAATT-TAATTGAATT
1 ATTTAAATTATAATTGAATT
*
25452882 ACTTAAA--ATAATT-AATT
1 ATTTAAATTATAATTGAATT
25452899 -TTTAAATTATAA
1 ATTTAAATTATAA
25452911 ACAAATATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 7
0.73 0.06 0.21
Matches are distributed among these distances:
16 5 0.21
17 4 0.17
18 9 0.38
19 6 0.25
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (20 bp):
ATTTAAATTATAATTGAATT
Found at i:25453465 original size:17 final size:17
Alignment explanation
Indices: 25453443--25453476 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
25453433 CCAAAAAATA
*
25453443 TTGAAAATCATTTTATT
1 TTGAAAATCATGTTATT
*
25453460 TTGAAATTCATGTTATT
1 TTGAAAATCATGTTATT
25453477 ATATGTGAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.53
Consensus pattern (17 bp):
TTGAAAATCATGTTATT
Found at i:25453646 original size:29 final size:29
Alignment explanation
Indices: 25453604--25453662 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
25453594 GTCAGCTTTC
25453604 AGCTAAAGAGAACTCAAGGGATGATTTTA
1 AGCTAAAGAGAACTCAAGGGATGATTTTA
25453633 AGCTAAAGAGAACTCAAGGGATGATTTTA
1 AGCTAAAGAGAACTCAAGGGATGATTTTA
25453662 A
1 A
25453663 TCTATAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.42, C:0.10, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCTAAAGAGAACTCAAGGGATGATTTTA
Found at i:25455606 original size:6 final size:6
Alignment explanation
Indices: 25455597--25455633 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
25455587 AACGAAAACT
* *
25455597 AATAAA AATAAA AATAAA ACTAAA ACTAAA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA A
25455634 TAATATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:25460155 original size:13 final size:13
Alignment explanation
Indices: 25460137--25460161 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25460127 ATGCATTGTC
25460137 TCTTTTTTTTTTT
1 TCTTTTTTTTTTT
25460150 TCTTTTTTTTTT
1 TCTTTTTTTTTT
25460162 CATTTATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TCTTTTTTTTTTT
Found at i:25470002 original size:4 final size:4
Alignment explanation
Indices: 25469995--25470025 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
25469985 AAATTAATTA
25469995 ATTC ATTC ATTC ATTC ATTC ATTC ATTC ATT
1 ATTC ATTC ATTC ATTC ATTC ATTC ATTC ATT
25470026 AATGCAACAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.52
Consensus pattern (4 bp):
ATTC
Found at i:25471273 original size:14 final size:15
Alignment explanation
Indices: 25471246--25471279 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
25471236 AGAATATCAA
25471246 ATAAATGAAAAAAAT
1 ATAAATGAAAAAAAT
*
25471261 ATAAATGAAAAAAAC
1 ATAAATGAAAAAAAT
25471276 ATAA
1 ATAA
25471280 GTCAATAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.18
Consensus pattern (15 bp):
ATAAATGAAAAAAAT
Found at i:25471485 original size:18 final size:18
Alignment explanation
Indices: 25471459--25471502 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
25471449 AACATAATAT
* *
25471459 ATATACATATATAGATAA
1 ATATTCATATATAGAAAA
25471477 ATATTCATATATAGAAAA
1 ATATTCATATATAGAAAA
25471495 ATATTCAT
1 ATATTCAT
25471503 TAAAAAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (18 bp):
ATATTCATATATAGAAAA
Found at i:25473104 original size:44 final size:44
Alignment explanation
Indices: 25473052--25473750 Score: 306
Period size: 44 Copynumber: 16.2 Consensus size: 44
25473042 AATTTGCTCT
*
25473052 CTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCAGCTCCA
1 CTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCTGCTCCA
* * * *
25473096 CTGCAACTTCAGGGAGATAGGATCATCGT--CTTTAATCTGCTCTA
1 CTGCAACTTCAGAGAGATAAGATC-T-GTGATTTTAATCTGCTCCA
* ** * *
25473140 CTGCAACTTCAGGGAGAT----TC-GCCATCTTCAGTCTGC-CTCA
1 CTGCAACTTCAGAGAGATAAGATCTGTGAT-TTTAATCTGCTC-CA
* * * * *
25473180 CTGTAACTTCAG-GAGGATAAGACCTGCTTA-CTTAGTCTGCTCCA
1 CTGCAACTTCAGAGA-GATAAGATCTG-TGATTTTAATCTGCTCCA
* * *** *
25473224 CTGCAACTTCAGGGAGATAAGA-CT-AGA-TGCGATCTGCT-CT
1 CTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCTGCTCCA
*** *
25473264 CTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCGCTCCA
1 CTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCTGCTCCA
* * * * * * *
25473308 CTACAACTTTAGGGAGATAGGAT-TATCGACTTTAACCTGCTCCA
1 CTGCAACTTCAGAGAGATAAGATCTGT-GATTTTAATCTGCTCCA
* * * ** * * *
25473352 CTGCAACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCA
1 CTGCAACTTCAGAGAGATAAGATCTGTGAT-TTTAATCTGCTCCA
* * * *
25473397 CTACAACTTCA-AGAGGATAAGATCTGCTTA-CTTAGTCTGCTCCA
1 CTGCAACTTCAGAGA-GATAAGATCTG-TGATTTTAATCTGCTCCA
* * * *
25473441 CTGCAACTTCAG-GAAGATAAGA-CT-AGA-TGTGATCTGCT-CT
1 CTGCAACTTCAGAG-AGATAAGATCTGTGATTTTAATCTGCTCCA
* *** *
25473481 CTGTAACTTCAGAGAGATAAGATCCAAGATTTTAATCCGCTCCA
1 CTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCTGCTCCA
* * * * * ** *
25473525 CTACAACTTTAGGGAGATAGGAT-TATCGGCTTTAACCTGCTCCA
1 CTGCAACTTCAGAGAGATAAGATCTGT-GATTTTAATCTGCTCCA
* * * * * * * *
25473569 CTGTAACTTCAGGGAGATAAGGTTTGTCATCTTCAGTCTGCCCCA
1 CTGCAACTTCAGAGAGATAAGATCTGTGAT-TTTAATCTGCTCCA
* * *
25473614 CTGCAACTTCA-AGAGGATAAGGT-T-TGCTTACTTAGTCTGCTCCA
1 CTGCAACTTCAGAGA-GATAAGATCTGTGATT--TTAATCTGCTCCA
* ** *
25473658 CTGCAACTTCAGAGAGATAAGA-CT-AGA-TGCAATCTGCT-CT
1 CTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCTGCTCCA
*** **
25473698 CTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCACTCCA
1 CTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCTGCTCCA
*
25473742 CTACAACTT
1 CTGCAACTT
25473751 TTGGGAGATA
Statistics
Matches: 492, Mismatches: 120, Indels: 86
0.70 0.17 0.12
Matches are distributed among these distances:
37 1 0.00
39 3 0.01
40 90 0.18
41 26 0.05
42 10 0.02
43 31 0.06
44 258 0.52
45 69 0.14
46 4 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (44 bp):
CTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCTGCTCCA
Found at i:25473466 original size:217 final size:217
Alignment explanation
Indices: 25473008--25473771 Score: 1189
Period size: 217 Copynumber: 3.5 Consensus size: 217
25472998 TTCGATCCAT
** * *
25473008 TCCACTGCAACACCAGGGAGATAAGACTAGATGCAATTTGCTCTCTGCAACTTCAGAGAGATAAG
1 TCCACTGCAACTTCAGGAAGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAGAGATAAG
*** * * * * * *
25473073 ATCTGTGATTTTAATCAGCTCCACTGCAACTTCAGGGAGATAGGATCATCGTCTTTAATCTGCTC
66 ATCCAAGATTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTATCGACTTTAACCTGCTC
* * * * *
25473138 TACTGCAACTTCAGGGAG---A--TTCGCCATCTTCAGTCTGCCTCACTGTAACTTCAGGAGGAT
131 CACTGCAACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAAGAGGAT
*
25473198 AAGACCTGCTTACTTAGTCTGC
196 AAGATCTGCTTACTTAGTCTGC
* *
25473220 TCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
1 TCCACTGCAACTTCAGGAAGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAGAGATAAG
25473285 ATCCAAGATTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTATCGACTTTAACCTGCTC
66 ATCCAAGATTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTATCGACTTTAACCTGCTC
*
25473350 CACTGCAACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTACAACTTCAAGAGGAT
131 CACTGCAACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAAGAGGAT
25473415 AAGATCTGCTTACTTAGTCTGC
196 AAGATCTGCTTACTTAGTCTGC
** *
25473437 TCCACTGCAACTTCAGGAAGATAAGACTAGATGTGATCTGCTCTCTGTAACTTCAGAGAGATAAG
1 TCCACTGCAACTTCAGGAAGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAGAGATAAG
*
25473502 ATCCAAGATTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTATCGGCTTTAACCTGCTC
66 ATCCAAGATTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTATCGACTTTAACCTGCTC
* *
25473567 CACTGTAACTTCAGGGAGATAAGGTTTGTCATCTTCAGTCTGCCCCACTGCAACTTCAAGAGGAT
131 CACTGCAACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAAGAGGAT
* *
25473632 AAGGTTTGCTTACTTAGTCTGC
196 AAGATCTGCTTACTTAGTCTGC
25473654 TCCACTGCAACTTCA-GAGAGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAGAGATAA
1 TCCACTGCAACTTCAGGA-AGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAGAGATAA
* *
25473718 GATCCAAGATTTTAATCCACTCCACTACAACTTTTGGGAGATAGGATTATCGAC
65 GATCCAAGATTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTATCGAC
25473772 CACCGATCCG
Statistics
Matches: 511, Mismatches: 35, Indels: 7
0.92 0.06 0.01
Matches are distributed among these distances:
212 134 0.26
215 1 0.00
216 2 0.00
217 374 0.73
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (217 bp):
TCCACTGCAACTTCAGGAAGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAGAGATAAG
ATCCAAGATTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTATCGACTTTAACCTGCTC
CACTGCAACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAAGAGGAT
AAGATCTGCTTACTTAGTCTGC
Found at i:25477415 original size:36 final size:36
Alignment explanation
Indices: 25477368--25477449 Score: 155
Period size: 36 Copynumber: 2.3 Consensus size: 36
25477358 TTCAGAATAT
*
25477368 TTGACCTCCTGTAAAAACCCAGTATCAAACTTTTTC
1 TTGACCTCCTGTAAAAACCCAGCATCAAACTTTTTC
25477404 TTGACCTCCTGTAAAAACCCAGCATCAAACTTTTTC
1 TTGACCTCCTGTAAAAACCCAGCATCAAACTTTTTC
25477440 TTGACCTCCT
1 TTGACCTCCT
25477450 CTTTTATTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (36 bp):
TTGACCTCCTGTAAAAACCCAGCATCAAACTTTTTC
Found at i:25485390 original size:18 final size:18
Alignment explanation
Indices: 25485364--25485407 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
25485354 AACATAATAT
* *
25485364 ATATACATATATAGATAA
1 ATATTCATATATAGAAAA
25485382 ATATTCATATATAGAAAA
1 ATATTCATATATAGAAAA
25485400 ATATTCAT
1 ATATTCAT
25485408 TAAAAAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (18 bp):
ATATTCATATATAGAAAA
Found at i:25487181 original size:4 final size:4
Alignment explanation
Indices: 25487174--25487208 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
25487164 AAATTAATTA
*
25487174 ATTC ATTC ATTC ATTC ATTC ATTC ATAC ATTC ATT
1 ATTC ATTC ATTC ATTC ATTC ATTC ATTC ATTC ATT
25487209 AATGCAACAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.29, C:0.23, G:0.00, T:0.49
Consensus pattern (4 bp):
ATTC
Found at i:25488455 original size:13 final size:15
Alignment explanation
Indices: 25488429--25488462 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
25488419 AGAATATCAA
25488429 ATAAATGAACAAAAT
1 ATAAATGAACAAAAT
* *
25488444 ATAAATGAAAAAAAC
1 ATAAATGAACAAAAT
25488459 ATAA
1 ATAA
25488463 GTCAATAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.18
Consensus pattern (15 bp):
ATAAATGAACAAAAT
Found at i:25488796 original size:23 final size:23
Alignment explanation
Indices: 25488739--25488788 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
25488729 TTAAAAAAAC
25488739 AAAATATATATACATATATAGATAA
1 AAAATA-AT-TACATATATAGATAA
*
25488764 AAAATAATTACATATATATATAA
1 AAAATAATTACATATATAGATAA
25488787 AA
1 AA
25488789 TTACATTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 16 0.67
24 2 0.08
25 6 0.25
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (23 bp):
AAAATAATTACATATATAGATAA
Found at i:25489268 original size:9 final size:10
Alignment explanation
Indices: 25489245--25489269 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
25489235 CCCCTTTTTA
25489245 AAAAACTTCC
1 AAAAACTTCC
25489255 AAAAACTTCC
1 AAAAACTTCC
25489265 AAAAA
1 AAAAA
25489270 AAGCTCTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.24, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAACTTCC
Found at i:25491765 original size:25 final size:24
Alignment explanation
Indices: 25491725--25491828 Score: 86
Period size: 25 Copynumber: 4.2 Consensus size: 24
25491715 CCCGTTATAG
*
25491725 GGCTCTTTGTGAGCTTCCTGATTAAT
1 GGCTCTCTG-GAGCTTCCTGA-TAAT
*
25491751 GGCTCTCTGGAGCTTCCCGAT-AT
1 GGCTCTCTGGAGCTTCCTGATAAT
* * *
25491774 GGCTCGCTTGAGCTTCTTGATATAT
1 GGCTCTCTGGAGCTTCCTGATA-AT
* * *
25491799 GGCTATCCGGAGCTT-CTCGTTAAT
1 GGCTCTCTGGAGCTTCCT-GATAAT
25491823 GGCTCT
1 GGCTCT
25491829 TCAGAGCTAC
Statistics
Matches: 62, Mismatches: 13, Indels: 8
0.75 0.16 0.10
Matches are distributed among these distances:
23 19 0.31
24 9 0.15
25 26 0.42
26 8 0.13
ACGTcount: A:0.14, C:0.24, G:0.25, T:0.37
Consensus pattern (24 bp):
GGCTCTCTGGAGCTTCCTGATAAT
Found at i:25491769 original size:51 final size:50
Alignment explanation
Indices: 25491709--25491829 Score: 124
Period size: 48 Copynumber: 2.5 Consensus size: 50
25491699 CAGCTCTTAT
* * * *
25491709 GAGCGTCCCGTTATAGGGCTCTTTGTGAGCTTCCTGAT-TAATGGCTCTCTG
1 GAGCTTCCCGTTATATGGCTCTTT-TGAGCTTCCTGATAT-ATGGCTATCCG
** *
25491760 GAGCTTCCCG--ATATGGCTCGCTTGAGCTTCTTGATATATGGCTATCCG
1 GAGCTTCCCGTTATATGGCTCTTTTGAGCTTCCTGATATATGGCTATCCG
*
25491808 GAGCTTCTCGTTA-ATGGCTCTT
1 GAGCTTCCCGTTATATGGCTCTT
25491830 CAGAGCTACC
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
48 30 0.53
49 17 0.30
50 1 0.02
51 9 0.16
ACGTcount: A:0.15, C:0.24, G:0.26, T:0.36
Consensus pattern (50 bp):
GAGCTTCCCGTTATATGGCTCTTTTGAGCTTCCTGATATATGGCTATCCG
Found at i:25491795 original size:23 final size:23
Alignment explanation
Indices: 25491734--25491796 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
25491724 GGGCTCTTTG
*
25491734 TGAGCTTCCTGATTAATGGCTCTCT
1 TGAGCTTCCTGA-T-ATGGCTCGCT
* *
25491759 GGAGCTTCCCGATATGGCTCGCT
1 TGAGCTTCCTGATATGGCTCGCT
*
25491782 TGAGCTTCTTGATAT
1 TGAGCTTCCTGATAT
25491797 ATGGCTATCC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 21 0.66
24 1 0.03
25 10 0.31
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.37
Consensus pattern (23 bp):
TGAGCTTCCTGATATGGCTCGCT
Found at i:25491875 original size:24 final size:24
Alignment explanation
Indices: 25491842--25491893 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
25491832 GAGCTACCCG
*
25491842 TTATTGGCTCGCATGAGCTTTCTAA
1 TTATTGGCTCGCATGAGCTTCCT-A
**
25491867 TTATT-GCTCTTATGAGCTTCCTA
1 TTATTGGCTCGCATGAGCTTCCTA
25491890 TTAT
1 TTAT
25491894 ACAGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.21
24 14 0.58
25 5 0.21
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.46
Consensus pattern (24 bp):
TTATTGGCTCGCATGAGCTTCCTA
Found at i:25496655 original size:34 final size:34
Alignment explanation
Indices: 25496612--25496679 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
25496602 TTTAATTACT
25496612 TAGAAAATATTTTCTAGAAAATTTTATAAAAAGC
1 TAGAAAATATTTTCTAGAAAATTTTATAAAAAGC
*
25496646 TAGAAAATATTTTTTAGAAAATTTTATAAAAAGC
1 TAGAAAATATTTTCTAGAAAATTTTATAAAAAGC
25496680 AATTCACAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.50, C:0.04, G:0.09, T:0.37
Consensus pattern (34 bp):
TAGAAAATATTTTCTAGAAAATTTTATAAAAAGC
Found at i:25500868 original size:18 final size:18
Alignment explanation
Indices: 25500847--25500946 Score: 64
Period size: 18 Copynumber: 5.6 Consensus size: 18
25500837 AGTTTGGCAA
*
25500847 ATTAACATAGTTCGCCAT
1 ATTAACATAGTTCACCAT
*
25500865 ATTAATACA-AG-TCACCAA
1 ATT-A-ACATAGTTCACCAT
* *
25500883 ATTAACACAGTTCGCCAT
1 ATTAACATAGTTCACCAT
* * *
25500901 AATAATATAATTCACCA-
1 ATTAACATAGTTCACCAT
* *
25500918 AGTTAACATGGTTCACAAT
1 A-TTAACATAGTTCACCAT
25500937 A-TAACATAGT
1 ATTAACATAGT
25500947 ACACAAATAT
Statistics
Matches: 61, Mismatches: 15, Indels: 13
0.69 0.17 0.15
Matches are distributed among these distances:
16 3 0.05
17 12 0.20
18 39 0.64
19 4 0.07
20 3 0.05
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (18 bp):
ATTAACATAGTTCACCAT
Found at i:25500885 original size:36 final size:36
Alignment explanation
Indices: 25500844--25500931 Score: 122
Period size: 36 Copynumber: 2.4 Consensus size: 36
25500834 CACAGTTTGG
*
25500844 CAAATTAACATAGTTCGCCATATTAATACAAGTCAC
1 CAAATTAACATAGTTCGCCATAATAATACAAGTCAC
* * *
25500880 CAAATTAACACAGTTCGCCATAATAATATAATTCAC
1 CAAATTAACATAGTTCGCCATAATAATACAAGTCAC
* *
25500916 CAAGTTAACATGGTTC
1 CAAATTAACATAGTTC
25500932 ACAATATAAC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (36 bp):
CAAATTAACATAGTTCGCCATAATAATACAAGTCAC
Found at i:25500943 original size:17 final size:18
Alignment explanation
Indices: 25500921--25500958 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
25500911 TTCACCAAGT
* *
25500921 TAACATGGTTCAC-AATA
1 TAACATAGTACACAAATA
25500938 TAACATAGTACACAAATA
1 TAACATAGTACACAAATA
25500956 TAA
1 TAA
25500959 TTGACTTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.50, C:0.16, G:0.08, T:0.26
Consensus pattern (18 bp):
TAACATAGTACACAAATA
Found at i:25501210 original size:29 final size:28
Alignment explanation
Indices: 25501177--25501277 Score: 105
Period size: 29 Copynumber: 3.5 Consensus size: 28
25501167 ATATACGAAT
*
25501177 ATATATAATATATACAACAAAGCCCATGC
1 ATATATAATATATATAACAAAGCCCAT-C
25501206 ATATATAATATATATAACAAAGCCACA-C
1 ATATATAATATATATAACAAAGCC-CATC
* * *
25501234 CTATATTATATATATAACAAAACCCCTATAC
1 ATATATAATATATATAAC-AAAGCCC-AT-C
*
25501265 ATATATATTATAT
1 ATATATAATATAT
25501278 GAAACAATAC
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
28 18 0.30
29 29 0.48
30 2 0.03
31 11 0.18
ACGTcount: A:0.49, C:0.18, G:0.03, T:0.31
Consensus pattern (28 bp):
ATATATAATATATATAACAAAGCCCATC
Done.