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 74 of 189
Found at i:20636549 original size:11 final size:11
Alignment explanation
Indices: 20636533--20636648 Score: 89
Period size: 11 Copynumber: 10.2 Consensus size: 11
20636523 TTTTAATTTA
20636533 AAAATATTTTT
1 AAAATATTTTT
20636544 AAAATACTTTTT
1 AAAATA-TTTTT
20636556 ---A-A-TTTT
1 AAAATATTTTT
20636562 AAAATATTTTT
1 AAAATATTTTT
20636573 AAAATATTTTT
1 AAAATATTTTT
20636584 AAAATACTTTTTT
1 AAAATA--TTTTT
*
20636597 AAAAAAATTTAATTTT
1 ---AAAA--TATTTTT
*
20636613 AAAATATTTTA
1 AAAATATTTTT
20636624 AAAATACTTTTT
1 AAAATA-TTTTT
*
20636636 AAAATTTTTTT
1 AAAATATTTTT
20636647 AA
1 AA
20636649 TTTTTAAAAT
Statistics
Matches: 86, Mismatches: 5, Indels: 28
0.72 0.04 0.24
Matches are distributed among these distances:
6 4 0.05
8 1 0.01
9 2 0.02
10 1 0.01
11 45 0.52
12 14 0.16
13 9 0.10
16 8 0.09
18 2 0.02
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.52
Consensus pattern (11 bp):
AAAATATTTTT
Found at i:20636565 original size:29 final size:28
Alignment explanation
Indices: 20636510--20636637 Score: 135
Period size: 29 Copynumber: 4.7 Consensus size: 28
20636500 ATAAATTATT
*
20636510 TATTTTTAAAAT-TTTTTAATTTAAAAA
1 TATTTTTAAAATATTTTTAATTTTAAAA
20636537 TATTTTTAAAATACTTTTTAATTTTAAAA
1 TATTTTTAAAATA-TTTTTAATTTTAAAA
*
20636566 TATTTTTAAAATATTTTTAA----AATAC
1 TATTTTTAAAATATTTTTAATTTTAA-AA
**
20636591 T-TTTTTAAAA-AAATTTAATTTTAAAA
1 TATTTTTAAAATATTTTTAATTTTAAAA
*
20636617 TATTTTAAAAATACTTTTTAA
1 TATTTTTAAAATA-TTTTTAA
20636638 AATTTTTTTA
Statistics
Matches: 83, Mismatches: 8, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
23 6 0.07
24 11 0.13
25 2 0.02
26 2 0.02
27 22 0.27
28 8 0.10
29 32 0.39
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (28 bp):
TATTTTTAAAATATTTTTAATTTTAAAA
Found at i:20636573 original size:17 final size:18
Alignment explanation
Indices: 20636540--20636574 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
20636530 TTAAAAATAT
20636540 TTTTAAAATACTTTTTAA
1 TTTTAAAATACTTTTTAA
20636558 TTTTAAAATA-TTTTTAA
1 TTTTAAAATACTTTTTAA
20636575 AATATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTAAAATACTTTTTAA
Found at i:20636612 original size:51 final size:50
Alignment explanation
Indices: 20636553--20636648 Score: 158
Period size: 51 Copynumber: 1.9 Consensus size: 50
20636543 TAAAATACTT
*
20636553 TTTAATTTTAAAATATTTTTAAAATA-TTTTTAAAATACTTTTTTAAAAAAA
1 TTTAATTTTAAAATATTTTAAAAATACTTTTTAAAAT--TTTTTTAAAAAAA
20636604 TTTAATTTTAAAATATTTTAAAAATACTTTTTAAAATTTTTTTAA
1 TTTAATTTTAAAATATTTTAAAAATACTTTTTAAAATTTTTTTAA
20636649 TTTTTAAAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
50 8 0.19
51 25 0.58
52 10 0.23
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (50 bp):
TTTAATTTTAAAATATTTTAAAAATACTTTTTAAAATTTTTTTAAAAAAA
Found at i:20636648 original size:40 final size:39
Alignment explanation
Indices: 20636512--20636659 Score: 165
Period size: 40 Copynumber: 3.7 Consensus size: 39
20636502 AAATTATTTA
*
20636512 TTTTTAAAATTTTTTAATTTAAAAATATTTTTAAAATAC
1 TTTTTAAAATTTTTTAATTTTAAAATATTTTTAAAATAC
* *
20636551 TTTTT--AATTTTAAAATATTTTTAAAATATTTTTAAAATAC
1 TTTTTAAAATTTT---TTAATTTTAAAATATTTTTAAAATAC
*** *
20636591 TTTTTTAAAAAAATTTAATTTTAAAATATTTTAAAAATAC
1 -TTTTTAAAATTTTTTAATTTTAAAATATTTTTAAAATAC
20636631 TTTTTAAAATTTTTTTAATTTTTAAAATA
1 TTTTTAAAA-TTTTTTAA-TTTTAAAATA
20636660 AATTTTTGGT
Statistics
Matches: 89, Mismatches: 12, Indels: 14
0.77 0.10 0.12
Matches are distributed among these distances:
37 6 0.07
39 14 0.16
40 51 0.57
41 15 0.17
43 3 0.03
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (39 bp):
TTTTTAAAATTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:20636985 original size:19 final size:19
Alignment explanation
Indices: 20636956--20637006 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 19
20636946 TTAATTCAAC
20636956 TTTTGGAATTTTTATAAA-TA
1 TTTT-GAATTTTTA-AAATTA
20636976 TTTTGAA-TTTTAAAATTTA
1 TTTTGAATTTTTAAAA-TTA
20636995 TTTTGAATTTTT
1 TTTTGAATTTTT
20637007 TGTTGAGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 3 0.11
18 5 0.18
19 12 0.43
20 8 0.29
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (19 bp):
TTTTGAATTTTTAAAATTA
Found at i:20637493 original size:30 final size:30
Alignment explanation
Indices: 20637457--20637516 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
20637447 CCTAAGATCA
20637457 GTATCGGATGTAAAAGCTAATTAAGGCATT
1 GTATCGGATGTAAAAGCTAATTAAGGCATT
20637487 GTATCGGATGTAAAAGCTAATTAAGGCATT
1 GTATCGGATGTAAAAGCTAATTAAGGCATT
20637517 AACAGCCTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (30 bp):
GTATCGGATGTAAAAGCTAATTAAGGCATT
Found at i:20638679 original size:20 final size:20
Alignment explanation
Indices: 20638639--20638727 Score: 92
Period size: 20 Copynumber: 4.3 Consensus size: 20
20638629 AATTTTAAAT
20638639 TTTTTTAAAATATAAATTTTGAA
1 TTTTTTAAAAT-T--ATTTTGAA
20638662 TTTTTTATAAA-TATTTTGAA
1 TTTTTTA-AAATTATTTTGAA
*
20638682 -TTTTAAAAATTATTTTGAA
1 TTTTTTAAAATTATTTTGAA
* *
20638701 TTTTTGAAAATTATTTTAAA
1 TTTTTTAAAATTATTTTGAA
20638721 TTATTTT
1 TT-TTTT
20638728 TGTAATTTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
18 3 0.05
19 14 0.24
20 27 0.47
21 3 0.05
22 1 0.02
23 7 0.12
24 3 0.05
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (20 bp):
TTTTTTAAAATTATTTTGAA
Found at i:20642035 original size:27 final size:27
Alignment explanation
Indices: 20641981--20642096 Score: 126
Period size: 27 Copynumber: 4.3 Consensus size: 27
20641971 AATAACGATC
* * *
20641981 ATTTTACCCTTC-GGGGTATTTCGATA
1 ATTTTACCCATCAAGGGTATTTCGGTA
* ** *
20642007 ATTTTACTCATTTAGAGTATTTCGGTA
1 ATTTTACCCATCAAGGGTATTTCGGTA
* *
20642034 ATTTTTCCCATCAAGGGTATTTCAGTA
1 ATTTTACCCATCAAGGGTATTTCGGTA
* *
20642061 ATTTTACCCATCGAGGGTATTTCGGTC
1 ATTTTACCCATCAAGGGTATTTCGGTA
20642088 ATTTTACCC
1 ATTTTACCC
20642097 TAAAGGGGTC
Statistics
Matches: 73, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
26 9 0.12
27 64 0.88
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.42
Consensus pattern (27 bp):
ATTTTACCCATCAAGGGTATTTCGGTA
Found at i:20642105 original size:27 final size:27
Alignment explanation
Indices: 20642023--20642105 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 27
20642013 CTCATTTAGA
* *
20642023 GTATTTCGGTAATTTTTCCCATCAA-GG
1 GTATTTCGGTAATTTTACCC-TAAAGGG
* **
20642050 GTATTTCAGTAATTTTACCC-ATCGAGG
1 GTATTTCGGTAATTTTACCCTAAAG-GG
*
20642077 GTATTTCGGTCATTTTACCCTAAAGGG
1 GTATTTCGGTAATTTTACCCTAAAGGG
20642104 GT
1 GT
20642106 CTCGGTGCAA
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
27 42 0.95
28 2 0.05
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (27 bp):
GTATTTCGGTAATTTTACCCTAAAGGG
Found at i:20646756 original size:20 final size:20
Alignment explanation
Indices: 20646731--20646775 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
20646721 CCCTAATGTT
20646731 TTTTTGGTCAATTTGGTCTA
1 TTTTTGGTCAATTTGGTCTA
20646751 TTTTTGGTCAATTTGGTCTA
1 TTTTTGGTCAATTTGGTCTA
20646771 TTTTT
1 TTTTT
20646776 TTATTCCACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.13, C:0.09, G:0.18, T:0.60
Consensus pattern (20 bp):
TTTTTGGTCAATTTGGTCTA
Found at i:20646886 original size:2 final size:2
Alignment explanation
Indices: 20646879--20646903 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
20646869 TCAGTTAATC
20646879 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
20646904 TAGACAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:20647122 original size:14 final size:14
Alignment explanation
Indices: 20647069--20647122 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
20647059 TGTTTAGGGT
20647069 TTTTGAGTTTGGGGA
1 TTTTGA-TTTGGGGA
* * *
20647084 TTTAGGATTTTGGGT
1 TTT-TGATTTGGGGA
20647099 TTTTGAATTTGGGGA
1 TTTTG-ATTTGGGGA
20647114 TTTTGATTT
1 TTTTGATTT
20647123 AAGGTTGTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
14 5 0.16
15 24 0.77
16 2 0.06
ACGTcount: A:0.15, C:0.00, G:0.31, T:0.54
Consensus pattern (14 bp):
TTTTGATTTGGGGA
Found at i:20647122 original size:29 final size:30
Alignment explanation
Indices: 20647082--20647145 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
20647072 TGAGTTTGGG
*
20647082 GATTTAGGATTTTGGGTTTTTGAATTTGGG
1 GATTTAGGATTTAGGGTTTTTGAATTTGGG
* * * *
20647112 GATTT-TGATTTAAGGTTGTCGAATTTGGG
1 GATTTAGGATTTAGGGTTTTTGAATTTGGG
20647141 GATTT
1 GATTT
20647146 GGGCTAGGGG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 24 0.83
30 5 0.17
ACGTcount: A:0.19, C:0.02, G:0.31, T:0.48
Consensus pattern (30 bp):
GATTTAGGATTTAGGGTTTTTGAATTTGGG
Found at i:20647223 original size:30 final size:29
Alignment explanation
Indices: 20647175--20647231 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
20647165 TGGGGATTTG
* ** *
20647175 TTTAGGGTTTTTTGATTTTAGGGATTTTCA
1 TTTAAGGTTTTTAAATTTT-GGAATTTTCA
20647205 TTTAAGGTTTTTAAATTTTGGAATTTT
1 TTTAAGGTTTTTAAATTTTGGAATTTT
20647232 TGTTTATTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 7 0.30
30 16 0.70
ACGTcount: A:0.21, C:0.02, G:0.19, T:0.58
Consensus pattern (29 bp):
TTTAAGGTTTTTAAATTTTGGAATTTTCA
Found at i:20655269 original size:5 final size:5
Alignment explanation
Indices: 20655261--20655288 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
20655251 TAACTTTTCT
20655261 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
20655289 ATCAAATTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:20656097 original size:160 final size:160
Alignment explanation
Indices: 20655814--20656130 Score: 424
Period size: 160 Copynumber: 2.0 Consensus size: 160
20655804 GGTGAGGGTC
* * *
20655814 ACAATAGAAGATCATGCATTCAACCTAACACAACTGGATCACAAATATATCATTAACACTTTTTC
1 ACAACAGAAGATCATGCAATCAACCTAACACAACTGGATCACAAATATATCATAAACACTTTTTC
* * * * *
20655879 ACTATCAAGTTCTTAAATATTTAAGTCTAATTTGGGGTTTTACAATTTTTTTTCTCAGTCTGGTA
66 ACTATCAAGTTCTAAAATATTTAAATCTAATTTAGGGTTGTACAATTTTTTTTCTCAGTCTAGTA
20655944 CGAGTACAAGAACTAAAAGCCAAAAAAAGA
131 CGAGTACAAGAACTAAAAGCCAAAAAAAGA
* **
20655974 ACAACAGAAGATCATGCAATCAACCTACCACAACTGGATCACAGGTATAT-AGTAAACACTTTTT
1 ACAACAGAAGATCATGCAATCAACCTAACACAACTGGATCACAAATATATCA-TAAACACTTTTT
* * * *
20656038 TACTGTCAAGTT-TCAAAATATTTAAATCTAATTTAGGGTTGT-GATTTTTTTTGTCTCAGTCTA
65 CACTATCAAGTTCT-AAAATATTTAAATCTAATTTAGGGTTGTACAATTTTTTT-TCTCAGTCTA
* * *
20656101 GTATGAGTGCAAGAACTAGAAGCCAAAAAA
128 GTACGAGTACAAGAACTAAAAGCCAAAAAA
20656131 GGATGGTATA
Statistics
Matches: 136, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
159 10 0.07
160 126 0.93
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.32
Consensus pattern (160 bp):
ACAACAGAAGATCATGCAATCAACCTAACACAACTGGATCACAAATATATCATAAACACTTTTTC
ACTATCAAGTTCTAAAATATTTAAATCTAATTTAGGGTTGTACAATTTTTTTTCTCAGTCTAGTA
CGAGTACAAGAACTAAAAGCCAAAAAAAGA
Found at i:20658221 original size:17 final size:17
Alignment explanation
Indices: 20658182--20658223 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
20658172 TAAAAGCAAA
*
20658182 TTTTATTAAATTGTTTT
1 TTTTATAAAATTGTTTT
*
20658199 TGTTATAAAATT-TTTGT
1 TTTTATAAAATTGTTT-T
20658216 TTTTATAA
1 TTTTATAA
20658224 TTTCAACATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (17 bp):
TTTTATAAAATTGTTTT
Found at i:20665858 original size:41 final size:42
Alignment explanation
Indices: 20665782--20665877 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
20665772 ATACACCGGT
* * *
20665782 TTAAGCCTGCTAGACTTATAGTCCGAATTTATTTCACCGGCA
1 TTAAGCCTGCTAGACGTAAAGTCCGAATTGATTTCACCGGCA
* * *
20665824 TTAAGCCTGCTAGACGTAAAGTCTGAA-TGGTTTCACTGGCA
1 TTAAGCCTGCTAGACGTAAAGTCCGAATTGATTTCACCGGCA
**
20665865 ACAAGCCTGCTAG
1 TTAAGCCTGCTAG
20665878 GTACTGAGCC
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
41 22 0.48
42 24 0.52
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (42 bp):
TTAAGCCTGCTAGACGTAAAGTCCGAATTGATTTCACCGGCA
Found at i:20670547 original size:24 final size:24
Alignment explanation
Indices: 20670520--20670571 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
20670510 TTAGTAAGTC
*
20670520 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
20670544 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
20670568 AAAT
1 AAAT
20670572 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:20676987 original size:30 final size:30
Alignment explanation
Indices: 20676953--20677021 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
20676943 AGTTTCATTT
** *
20676953 CAGTCACTCAAC-TTTCGAAAAGTTACAAAA
1 CAGTCACT-AACGTTTAAAAAAGTGACAAAA
20676983 CAGTCACTAACGTTTTAAAAAAGTGACAAAA
1 CAGTCACTAACG-TTTAAAAAAGTGACAAAA
*
20677014 TAGTCACT
1 CAGTCACT
20677022 GATTAACAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 3 0.09
30 8 0.24
31 22 0.67
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.25
Consensus pattern (30 bp):
CAGTCACTAACGTTTAAAAAAGTGACAAAA
Found at i:20677081 original size:21 final size:20
Alignment explanation
Indices: 20677053--20677094 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
20677043 TGTTAACGGG
20677053 ACCACTGACGTGGCAAGTTA
1 ACCACTGACGTGGCAAGTTA
*
20677073 ACCAGCTGATGTGGCAAGTTA
1 ACCA-CTGACGTGGCAAGTTA
20677094 A
1 A
20677095 TTTGCCACGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.21
Consensus pattern (20 bp):
ACCACTGACGTGGCAAGTTA
Found at i:20677577 original size:12 final size:12
Alignment explanation
Indices: 20677560--20677624 Score: 64
Period size: 12 Copynumber: 5.6 Consensus size: 12
20677550 ATTTAGAGTT
20677560 ATTTTGATTTCG
1 ATTTTGATTTCG
20677572 ATTTTGA-TTCTG
1 ATTTTGATTTC-G
20677584 A-TTT-ATTTCG
1 ATTTTGATTTCG
** *
20677594 ATTTCAATTTAG
1 ATTTTGATTTCG
*
20677606 ATTTTGATTTCA
1 ATTTTGATTTCG
20677618 ATTTTGA
1 ATTTTGA
20677625 AACACTCACT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
10 3 0.07
11 11 0.26
12 29 0.67
ACGTcount: A:0.23, C:0.08, G:0.12, T:0.57
Consensus pattern (12 bp):
ATTTTGATTTCG
Found at i:20677598 original size:28 final size:28
Alignment explanation
Indices: 20677558--20677615 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
20677548 TTATTTAGAG
* * *
20677558 TTATTTTGATTTCGATTTTGATTCTGAT
1 TTATTTCGATTTCAATTTAGATTCTGAT
*
20677586 TTATTTCGATTTCAATTTAGATTTTGAT
1 TTATTTCGATTTCAATTTAGATTCTGAT
20677614 TT
1 TT
20677616 CAATTTTGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.21, C:0.07, G:0.12, T:0.60
Consensus pattern (28 bp):
TTATTTCGATTTCAATTTAGATTCTGAT
Found at i:20677662 original size:12 final size:12
Alignment explanation
Indices: 20677641--20677675 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
20677631 CACTGGTTCT
*
20677641 GATTTTGATTTC
1 GATTTAGATTTC
*
20677653 GATTTCGATTTC
1 GATTTAGATTTC
20677665 GATTTAGATTT
1 GATTTAGATTT
20677676 TGGTTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.20, C:0.09, G:0.17, T:0.54
Consensus pattern (12 bp):
GATTTAGATTTC
Found at i:20677668 original size:18 final size:18
Alignment explanation
Indices: 20677641--20677675 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20677631 CACTGGTTCT
* *
20677641 GATTTTGATTTCGATTTC
1 GATTTCGATTTAGATTTC
20677659 GATTTCGATTTAGATTT
1 GATTTCGATTTAGATTT
20677676 TGGTTTTATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.09, G:0.17, T:0.54
Consensus pattern (18 bp):
GATTTCGATTTAGATTTC
Found at i:20677939 original size:20 final size:22
Alignment explanation
Indices: 20677899--20677939 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
20677889 TTACCTTCTA
20677899 TATTGTACTAGTTATTATCTGT
1 TATTGTACTAGTTATTATCTGT
*
20677921 TATTGT-CTA-TTATTGTCTG
1 TATTGTACTAGTTATTATCTG
20677940 CCATGTGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 3 0.17
22 6 0.33
ACGTcount: A:0.20, C:0.10, G:0.15, T:0.56
Consensus pattern (22 bp):
TATTGTACTAGTTATTATCTGT
Found at i:20679911 original size:28 final size:28
Alignment explanation
Indices: 20679874--20679928 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
20679864 AAGTGTTTTT
*
20679874 TAATATGCATGCAGTGAGTATTTTTTAA
1 TAATATGCATGCAGTGACTATTTTTTAA
* *
20679902 TAATATGCATGTAGTGACTTTTTTTTA
1 TAATATGCATGCAGTGACTATTTTTTA
20679929 GGTGTGTGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.29, C:0.07, G:0.16, T:0.47
Consensus pattern (28 bp):
TAATATGCATGCAGTGACTATTTTTTAA
Found at i:20680632 original size:21 final size:21
Alignment explanation
Indices: 20680606--20680657 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
20680596 CAAGTGGTTG
* *
20680606 CCCCAACTCAGCAA-CAGGCTA
1 CCCCAACTCAGCAAGAAAG-TA
*
20680627 CCCCAAATCAGCAAGAAAGTA
1 CCCCAACTCAGCAAGAAAGTA
20680648 CCCCAACTCA
1 CCCCAACTCA
20680658 ACAGGCTGCC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.38, C:0.40, G:0.12, T:0.10
Consensus pattern (21 bp):
CCCCAACTCAGCAAGAAAGTA
Found at i:20681146 original size:22 final size:23
Alignment explanation
Indices: 20681095--20681139 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
20681085 CTTCTCTTCT
*
20681095 AACATATGAGAATTGAAAAAATA
1 AACATGTGAGAATTGAAAAAATA
*
20681118 AACATGTGAGAATT-AAGAAATA
1 AACATGTGAGAATTGAAAAAATA
20681140 CAAATGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.58, C:0.04, G:0.16, T:0.22
Consensus pattern (23 bp):
AACATGTGAGAATTGAAAAAATA
Found at i:20682276 original size:347 final size:348
Alignment explanation
Indices: 20681641--20682338 Score: 1371
Period size: 347 Copynumber: 2.0 Consensus size: 348
20681631 GCCAAATTTC
20681641 TTACACCCAAAAAACCTCCTACTTGGGTTGTCATTGGACCAAGACGTGTTTAATTTGGCTGGGTT
1 TTACACCCAAAAAACCTCCTACTTGGGTTGTCATTGGACCAAGACGTGTTTAATTTGGCTGGGTT
20681706 TCCAAAATAGCACACCGAAATCACTTCAGGCATCTCCATTTACAAATATTTAATATTTTTATTTA
66 TCCAAAATAGCACACCGAAATCACTTCAGGCATCTCCATTTACAAATATTTAATATTTTTATTTA
20681771 CCTTGAATAAATTAAGATTGATCGTATTTATGATCTTGAATTTCATGAATATTGATTATAAATAT
131 CCTTGAATAAATTAAGATTGATCGTATTTATGATCTTGAATTTCATGAATATTGATTATAAATAT
20681836 TTAATATTTTTATTTACAAATTGTTGTTGTTAGTGTGAATTTTGTGTTTGTGTTAATCGTGCATT
196 TTAATATTTTTATTTACAAATTGTTGTTGTTAGTGTGAATTTTGTGTTTGTGTTAATCGTGCATT
20681901 TGACATATTACATTGATCTTGAAACACCAAAATATGTGGTTTTTACTTTTGC-AAAAAACTAATA
261 TGACATATTACATTGATCTTGAAACACCAAAATATGTGGTTTTTACTTTTGCAAAAAAACTAATA
20681965 ATCTTTTAATACAATGTCTAGAA
326 ATCTTTTAATACAATGTCTAGAA
20681988 TTACACCCAAAAAACCTCCTACTTGGGTTGTCATTGGACCAAGACGTGTTTAATTTGGCTGGGTT
1 TTACACCCAAAAAACCTCCTACTTGGGTTGTCATTGGACCAAGACGTGTTTAATTTGGCTGGGTT
*
20682053 TCCACAATAGCACACCGAAATCACTTCAGGCATCTCCATTTACAAATATTTAATATTTTTATTTA
66 TCCAAAATAGCACACCGAAATCACTTCAGGCATCTCCATTTACAAATATTTAATATTTTTATTTA
20682118 CCTTGAATAAATTAAGATTGATCGTATTTATGATCTTGAATTTCATGAATATTGATTATAAATAT
131 CCTTGAATAAATTAAGATTGATCGTATTTATGATCTTGAATTTCATGAATATTGATTATAAATAT
20682183 TTAATATTTTTATTTACAAATTGTTGTTGTTAGTGTGAATTTTGTGTTTGTGTTAATCGTGCATT
196 TTAATATTTTTATTTACAAATTGTTGTTGTTAGTGTGAATTTTGTGTTTGTGTTAATCGTGCATT
*
20682248 TGACATATTACATTGATCTTGCAACACCAAAATATGTGGTTTTTACTTTTGCAAAAAAACTAATA
261 TGACATATTACATTGATCTTGAAACACCAAAATATGTGGTTTTTACTTTTGCAAAAAAACTAATA
20682313 ATCTTTTAATACAATGTCTAGAA
326 ATCTTTTAATACAATGTCTAGAA
20682336 TTA
1 TTA
20682339 TCTGTAATCC
Statistics
Matches: 348, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
347 310 0.89
348 38 0.11
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.40
Consensus pattern (348 bp):
TTACACCCAAAAAACCTCCTACTTGGGTTGTCATTGGACCAAGACGTGTTTAATTTGGCTGGGTT
TCCAAAATAGCACACCGAAATCACTTCAGGCATCTCCATTTACAAATATTTAATATTTTTATTTA
CCTTGAATAAATTAAGATTGATCGTATTTATGATCTTGAATTTCATGAATATTGATTATAAATAT
TTAATATTTTTATTTACAAATTGTTGTTGTTAGTGTGAATTTTGTGTTTGTGTTAATCGTGCATT
TGACATATTACATTGATCTTGAAACACCAAAATATGTGGTTTTTACTTTTGCAAAAAAACTAATA
ATCTTTTAATACAATGTCTAGAA
Found at i:20695053 original size:19 final size:18
Alignment explanation
Indices: 20695023--20695061 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
20695013 TACTGCTTTC
20695023 TTGTTGTTTTTTATTGTT
1 TTGTTGTTTTTTATTGTT
*
20695041 TTGTTGATTTTTTGTTGTT
1 TTGTTG-TTTTTTATTGTT
20695060 TT
1 TT
20695062 TTCACTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.05, C:0.00, G:0.18, T:0.77
Consensus pattern (18 bp):
TTGTTGTTTTTTATTGTT
Found at i:20695055 original size:11 final size:10
Alignment explanation
Indices: 20695023--20695063 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
20695013 TACTGCTTTC
20695023 TTGTTGTTTT
1 TTGTTGTTTT
*
20695033 TTATTG--TT
1 TTGTTGTTTT
20695041 TTGTTGATTTT
1 TTGTTG-TTTT
20695052 TTGTTGTTTT
1 TTGTTGTTTT
20695062 TT
1 TT
20695064 CACTATTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
8 7 0.27
10 11 0.42
11 8 0.31
ACGTcount: A:0.05, C:0.00, G:0.17, T:0.78
Consensus pattern (10 bp):
TTGTTGTTTT
Found at i:20699071 original size:42 final size:42
Alignment explanation
Indices: 20699012--20699098 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
20699002 ATTAAATTTG
20699012 AATAGTAAAATGAGCTTTTTAAGTTGAATGGGATGACTAGAA
1 AATAGTAAAATGAGCTTTTTAAGTTGAATGGGATGACTAGAA
20699054 AATAGTAAAATGAGCTTTTTAAGTTGAATGGGATGACTAGAA
1 AATAGTAAAATGAGCTTTTTAAGTTGAATGGGATGACTAGAA
20699096 AAT
1 AAT
20699099 GAACTCAGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (42 bp):
AATAGTAAAATGAGCTTTTTAAGTTGAATGGGATGACTAGAA
Found at i:20702305 original size:19 final size:20
Alignment explanation
Indices: 20702263--20702305 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
20702253 TCATGCTTTC
*
20702263 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
20702283 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
20702301 TATTC
1 TATTC
20702306 CACAATCACG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:20702540 original size:23 final size:23
Alignment explanation
Indices: 20702496--20702548 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
20702486 GTGTCTGAAA
* *
20702496 CGACACACGAGGTGCCTTAAATAT
1 CGACACACAAGGTGCCTGAAAT-T
*
20702520 -GACACACAAGGTGTCTGAAATT
1 CGACACACAAGGTGCCTGAAATT
20702542 CGACACA
1 CGACACA
20702549 TAAACTGCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 1 0.04
23 24 0.96
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.19
Consensus pattern (23 bp):
CGACACACAAGGTGCCTGAAATT
Found at i:20702590 original size:23 final size:23
Alignment explanation
Indices: 20702562--20702638 Score: 91
Period size: 23 Copynumber: 3.3 Consensus size: 23
20702552 ACTGCCTGAT
*
20702562 TAAAGTGCATAAAATACAACACA
1 TAAAGTGCATGAAATACAACACA
* * *
20702585 TAAAGTGCCTGATATGCAACACA
1 TAAAGTGCATGAAATACAACACA
* * *
20702608 TAAAGTGCTTGAAATACGACAGA
1 TAAAGTGCATGAAATACAACACA
20702631 TAAAGTGC
1 TAAAGTGC
20702639 CTGAGCGGCA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.21
Consensus pattern (23 bp):
TAAAGTGCATGAAATACAACACA
Found at i:20706376 original size:21 final size:21
Alignment explanation
Indices: 20706350--20706391 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
20706340 AATTTTTCCA
* *
20706350 AGATGTGTATTGGATTGAATT
1 AGATGTGAATTGGATTAAATT
*
20706371 AGATGTGAATTGTATTAAATT
1 AGATGTGAATTGGATTAAATT
20706392 GAGCTAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.43
Consensus pattern (21 bp):
AGATGTGAATTGGATTAAATT
Found at i:20706868 original size:46 final size:48
Alignment explanation
Indices: 20706764--20706868 Score: 112
Period size: 46 Copynumber: 2.2 Consensus size: 48
20706754 TTCCCGTTAT
*
20706764 TATTGGCTCTCACGAGCCTTCCATAATTGGCTCTCATGAGCTTCCCAA
1 TATTGGCTCTCACGAGCCTTCCATAATTGGCTCGCATGAGCTTCCCAA
* * *
20706812 TAATGACTCTC-CGAG-CTTCTCGAT-A-TGGCTCGCATGAGCTTCTCGAA
1 TATTGGCTCTCACGAGCCTTC-C-ATAATTGGCTCGCATGAGCTTC-CCAA
20706859 T-TTGGCTCTC
1 TATTGGCTCTC
20706869 TTAAGCTTTC
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
46 27 0.56
47 10 0.21
48 11 0.23
ACGTcount: A:0.19, C:0.30, G:0.19, T:0.32
Consensus pattern (48 bp):
TATTGGCTCTCACGAGCCTTCCATAATTGGCTCGCATGAGCTTCCCAA
Found at i:20706875 original size:24 final size:23
Alignment explanation
Indices: 20706825--20706876 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
20706815 TGACTCTCCG
*
20706825 AGCTTCTCGATATGGCTCGCATG
1 AGCTTCTCGATATGGCTCGCATA
* * *
20706848 AGCTTCTCGAATTTGGCTCTCTTA
1 AGCTTCTCG-ATATGGCTCGCATA
20706872 AGCTT
1 AGCTT
20706877 TCTGTTTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (23 bp):
AGCTTCTCGATATGGCTCGCATA
Found at i:20706940 original size:25 final size:25
Alignment explanation
Indices: 20706895--20706993 Score: 76
Period size: 25 Copynumber: 4.0 Consensus size: 25
20706885 TAACTCGTAT
*
20706895 GAGCTTCCCAATA-ATTGGCTCGCAA
1 GAGCTTCCCATTACA-TGGCTCGCAA
* ** *
20706920 GAGCTTCCCATTACATCGCTCATAT
1 GAGCTTCCCATTACATGGCTCGCAA
* * * * *
20706945 GAGCTTCTCGTTATATGGTTCGAAA
1 GAGCTTCCCATTACATGGCTCGCAA
20706970 GAGCTTCCCGATTACAT-GCTCGCA
1 GAGCTTCCC-ATTACATGGCTCGCA
20706994 TGGGCATACC
Statistics
Matches: 54, Mismatches: 18, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
25 48 0.89
26 6 0.11
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (25 bp):
GAGCTTCCCATTACATGGCTCGCAA
Found at i:20709537 original size:18 final size:17
Alignment explanation
Indices: 20709514--20709548 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
20709504 TACTGCTTTC
*
20709514 TTGTTGTTTTTTATTGTT
1 TTGTTGATTTTT-TTGTT
20709532 TTGTTGATTTTTTTGTT
1 TTGTTGATTTTTTTGTT
20709549 GTTTTTTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.06, C:0.00, G:0.17, T:0.77
Consensus pattern (17 bp):
TTGTTGATTTTTTTGTT
Found at i:20713562 original size:42 final size:42
Alignment explanation
Indices: 20713503--20713589 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
20713493 ATTAAATTTG
20713503 AATAGTAAAATGAGCTTTTTAAGTTGAATGGGATGACTAGAA
1 AATAGTAAAATGAGCTTTTTAAGTTGAATGGGATGACTAGAA
20713545 AATAGTAAAATGAGCTTTTTAAGTTGAATGGGATGACTAGAA
1 AATAGTAAAATGAGCTTTTTAAGTTGAATGGGATGACTAGAA
20713587 AAT
1 AAT
20713590 GAACTCAGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (42 bp):
AATAGTAAAATGAGCTTTTTAAGTTGAATGGGATGACTAGAA
Found at i:20716795 original size:19 final size:20
Alignment explanation
Indices: 20716753--20716795 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
20716743 TCATGCTTTC
*
20716753 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
20716773 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
20716791 TATTC
1 TATTC
20716796 CACAATCACG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:20717030 original size:23 final size:23
Alignment explanation
Indices: 20716986--20717038 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
20716976 GTGTCTGAAA
* *
20716986 CGACACACGAGGTGCCTTAAATAT
1 CGACACACAAGGTGCCTGAAAT-T
*
20717010 -GACACACAAGGTGTCTGAAATT
1 CGACACACAAGGTGCCTGAAATT
20717032 CGACACA
1 CGACACA
20717039 TAAACTGCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 1 0.04
23 24 0.96
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.19
Consensus pattern (23 bp):
CGACACACAAGGTGCCTGAAATT
Found at i:20717080 original size:23 final size:23
Alignment explanation
Indices: 20717052--20717128 Score: 91
Period size: 23 Copynumber: 3.3 Consensus size: 23
20717042 ACTGCCTGAT
*
20717052 TAAAGTGCATAAAATACAACACA
1 TAAAGTGCATGAAATACAACACA
* * *
20717075 TAAAGTGCCTGATATGCAACACA
1 TAAAGTGCATGAAATACAACACA
* * *
20717098 TAAAGTGCTTGAAATACGACAGA
1 TAAAGTGCATGAAATACAACACA
20717121 TAAAGTGC
1 TAAAGTGC
20717129 CTGAGCGGCA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.21
Consensus pattern (23 bp):
TAAAGTGCATGAAATACAACACA
Found at i:20720869 original size:21 final size:21
Alignment explanation
Indices: 20720843--20720884 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
20720833 ATTTTTCCAA
* *
20720843 AGATGTGTATTGGATTGAATT
1 AGATGTGAATTGGATTAAATT
*
20720864 AGATGTGAATTGTATTAAATT
1 AGATGTGAATTGGATTAAATT
20720885 GAGCTAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.43
Consensus pattern (21 bp):
AGATGTGAATTGGATTAAATT
Found at i:20721314 original size:25 final size:25
Alignment explanation
Indices: 20721218--20721324 Score: 83
Period size: 25 Copynumber: 4.3 Consensus size: 25
20721208 TAGCTCTTAT
* * * *
20721218 GAGCATCCCAATAATGGGCTCTCAC
1 GAGCTTCCCATTAATTGACTCTCAC
* * * *
20721243 GAGTTTCCCGTTATTTGGCTCTCAC
1 GAGCTTCCCATTAATTGACTCTCAC
* * *
20721268 GAGCTTTCCATTAATTGGCTCTCAT
1 GAGCTTCCCATTAATTGACTCTCAC
20721293 GAGCTTCCCAATTAA-TGACTCTC-C
1 GAGCTTCCC-ATTAATTGACTCTCAC
20721317 GGAGCTTC
1 -GAGCTTC
20721325 TCGATATTGG
Statistics
Matches: 66, Mismatches: 14, Indels: 4
0.79 0.17 0.05
Matches are distributed among these distances:
25 61 0.92
26 5 0.08
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.32
Consensus pattern (25 bp):
GAGCTTCCCATTAATTGACTCTCAC
Found at i:20721370 original size:24 final size:24
Alignment explanation
Indices: 20721319--20721371 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
20721309 GACTCTCCGG
*
20721319 AGCTTCTCGATATTGGCTCGCATG
1 AGCTTCTCGATATTGGCTCGCATA
* *
20721343 AGCTTCTCGA-ATTTGGCTCTCTTA
1 AGCTTCTCGATA-TTGGCTCGCATA
20721367 AGCTT
1 AGCTT
20721372 TCTGTTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.38
Consensus pattern (24 bp):
AGCTTCTCGATATTGGCTCGCATA
Found at i:20721435 original size:25 final size:24
Alignment explanation
Indices: 20721407--20721488 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 24
20721397 CCGATAATTG
20721407 GCTCGCAAGAGCTTCCCATTACAT
1 GCTCGCAAGAGCTTCCCATTACAT
** * * *
20721431 CGCTCATATGAGCTTCCCGTTATAT
1 -GCTCGCAAGAGCTTCCCATTACAT
* *
20721456 GGTTCGAAAGAGCTTCCCGATTACAT
1 -GCTCGCAAGAGCTTCCC-ATTACAT
20721482 GCTCGCA
1 GCTCGCA
20721489 TGGGCATACC
Statistics
Matches: 42, Mismatches: 14, Indels: 2
0.72 0.24 0.03
Matches are distributed among these distances:
25 37 0.88
26 5 0.12
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (24 bp):
GCTCGCAAGAGCTTCCCATTACAT
Found at i:20721448 original size:50 final size:50
Alignment explanation
Indices: 20721387--20721485 Score: 139
Period size: 50 Copynumber: 2.0 Consensus size: 50
20721377 TTATAACTCG
*
20721387 TATGAGCTTCCCGATAAT-TGGCTCGCAAGAGCTTCCC-ATTACATCGCTCA
1 TATGAGCTTCCCG-TAATATGGCTCGAAAGAGCTTCCCGATTACAT-GCTCA
* *
20721437 TATGAGCTTCCCGTTATATGGTTCGAAAGAGCTTCCCGATTACATGCTC
1 TATGAGCTTCCCGTAATATGGCTCGAAAGAGCTTCCCGATTACATGCTC
20721486 GCATGGGCAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
49 3 0.07
50 34 0.77
51 7 0.16
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.30
Consensus pattern (50 bp):
TATGAGCTTCCCGTAATATGGCTCGAAAGAGCTTCCCGATTACATGCTCA
Found at i:20725112 original size:5 final size:5
Alignment explanation
Indices: 20725102--20725139 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
20725092 TTTTTATGTT
*
20725102 TATAA TATAA TATAA TATAA TATAA TGTAA TATAA TAT
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAT
20725140 TTTATTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:20729949 original size:5 final size:5
Alignment explanation
Indices: 20729939--20729970 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
20729929 CTCAATCTTT
20729939 ATATA ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA AT
20729971 CTCTATTCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:20730845 original size:17 final size:17
Alignment explanation
Indices: 20730823--20730857 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
20730813 CTCATTTTCT
20730823 GTTGCTTAGTCTAGTGA
1 GTTGCTTAGTCTAGTGA
20730840 GTTGCTTAGTCTAGTGA
1 GTTGCTTAGTCTAGTGA
20730857 G
1 G
20730858 GTTAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.11, G:0.31, T:0.40
Consensus pattern (17 bp):
GTTGCTTAGTCTAGTGA
Found at i:20731176 original size:23 final size:23
Alignment explanation
Indices: 20731150--20731195 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
20731140 ATGAGAATTT
**
20731150 TTAAAATTTTTAAATCAAAATAA
1 TTAAAATTTAAAAATCAAAATAA
*
20731173 TTAAAATTTAAAAATTAAAATAA
1 TTAAAATTTAAAAATCAAAATAA
20731196 ATAATCTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
TTAAAATTTAAAAATCAAAATAA
Found at i:20732501 original size:14 final size:15
Alignment explanation
Indices: 20732479--20732523 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 15
20732469 AATAAGCAAA
20732479 AAATAAAA-TAAAAT
1 AAATAAAATTAAAAT
*
20732493 AAATGAAATT-AAA-
1 AAATAAAATTAAAAT
*
20732506 AATTAAAATTAAAAT
1 AAATAAAATTAAAAT
20732521 AAA
1 AAA
20732524 AGAAGCACGT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
13 8 0.33
14 13 0.54
15 3 0.12
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (15 bp):
AAATAAAATTAAAAT
Found at i:20734171 original size:44 final size:45
Alignment explanation
Indices: 20734121--20734411 Score: 155
Period size: 44 Copynumber: 6.6 Consensus size: 45
20734111 TCATTCTAAC
* * *
20734121 CCACTGCAACTTTAGAGGTAGA-GGATTTGTCA-CTTTAATCTATT
1 CCACTGCAACTTTAGAGGAAGATAGATTTGT-AGCTTTAATCTACT
* *
20734165 CCACTGCAAC-TT-CAGGAAGATTAGATTTGTAGCTTTAATCTGCT
1 CCACTGCAACTTTAGAGGAAGA-TAGATTTGTAGCTTTAATCTACT
* * * * *
20734209 CCACTGCAACTTTAG-GG-AGATGAGACTCGAATCTTCAATCTACT
1 CCACTGCAACTTTAGAGGAAGAT-AGATTTGTAGCTTTAATCTACT
* * * * *
20734253 CCACTACAACTTCA-A-GAAGATGAGAATTGTAACTTTAATCTGCT
1 CCACTGCAACTTTAGAGGAAGAT-AGATTTGTAGCTTTAATCTACT
* * * * * *
20734297 CCACTACAACTTCAG-GG-AGATAAGACTTGTAACTTCT-ATTTGCT
1 CCACTGCAACTTTAGAGGAAGAT-AGATTTGTAGCTT-TAATCTACT
* * *
20734341 CCACTGCAACTTCT---GGAAGATAAGACTCGTAGCTTTAATCTGCT
1 CCACTGCAACTT-TAGAGGAAGAT-AGATTTGTAGCTTTAATCTACT
* *
20734385 CCATTACAACTTTAG-GG-AGATAAGATT
1 CCACTGCAACTTTAGAGGAAGAT-AGATT
20734412 CGCTATCTTC
Statistics
Matches: 200, Mismatches: 31, Indels: 32
0.76 0.12 0.12
Matches are distributed among these distances:
42 6 0.03
43 9 0.05
44 177 0.88
45 8 0.04
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (45 bp):
CCACTGCAACTTTAGAGGAAGATAGATTTGTAGCTTTAATCTACT
Found at i:20734272 original size:88 final size:89
Alignment explanation
Indices: 20734157--20734454 Score: 348
Period size: 88 Copynumber: 3.4 Consensus size: 89
20734147 TTGTCACTTT
* * * *
20734157 AATCTATTCCACTGCAACTTCAGGAAGATTAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTT
1 AATCTACTCCACTGCAACTTCAGGAAGATAAGAATTGTAGCTTTAATCTGCTCCACTACAACTTT
*
20734222 AGGGAGATGAGACTCG-AATCTTC
66 AGGGAGATAAGACTCGCAATCTTC
* * * * *
20734245 AATCTACTCCACTACAACTTCAAGAAGATGAGAATTGTAACTTTAATCTGCTCCACTACAACTTC
1 AATCTACTCCACTGCAACTTCAGGAAGATAAGAATTGTAGCTTTAATCTGCTCCACTACAACTTT
* *
20734310 AGGGAGATAAGACTTGTAA-CTTC
66 AGGGAGATAAGACTCGCAATCTTC
* * * * * * *
20734333 TATTTGCTCCACTGCAACTTCTGGAAGATAAGACTCGTAGCTTTAATCTGCTCCATTACAACTTT
1 AATCTACTCCACTGCAACTTCAGGAAGATAAGAATTGTAGCTTTAATCTGCTCCACTACAACTTT
* *
20734398 AGGGAGATAAGATTCGCTATCTTC
66 AGGGAGATAAGACTCGCAATCTTC
* * * * *
20734422 AATTTGCTCTACTGCAAATTCAGGGAGATAAGA
1 AATCTACTCCACTGCAACTTCAGGAAGATAAGA
20734455 TTTGCCACGA
Statistics
Matches: 177, Mismatches: 31, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
88 143 0.81
89 34 0.19
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (89 bp):
AATCTACTCCACTGCAACTTCAGGAAGATAAGAATTGTAGCTTTAATCTGCTCCACTACAACTTT
AGGGAGATAAGACTCGCAATCTTC
Found at i:20734346 original size:132 final size:131
Alignment explanation
Indices: 20734147--20734454 Score: 332
Period size: 132 Copynumber: 2.3 Consensus size: 131
20734137 GGTAGAGGAT
* ** * * * *
20734147 TTGTCACTTTAATCTATTCCACTGCAACTTCAGGAAGATTAGATTTGTAGCTTTAATCTGCTCCA
1 TTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCTGCTCCA
* * * *
20734212 CTGCAACTT-TAGGGAGATGAGACTCGAATCTTCAATCTACTCCACTACAACTTCAAGAAGATGA
66 CTGCAACTTCT-GGAAGATAAGACTCGAAGCTTCAATCTACTCCACTACAACTTCAAGAAGATAA
20734276 GAA
130 G-A
* *
20734279 TTGTAACTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTCT-ATTTGCTCC
1 TTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTT-TAATCTGCTCC
* * * * * * *
20734343 ACTGCAACTTCTGGAAGATAAGACTCGTAGCTTTAATCTGCTCCATTACAACTTTAGGGAGATAA
65 ACTGCAACTTCTGGAAGATAAGACTCGAAGCTTCAATCTACTCCACTACAACTTCAAGAAGATAA
20734408 GA
130 GA
* * * * *
20734410 TTCGCTATCTTCAATTTGCTCTACTGCAAATTCAGGGAGATAAGA
1 TT-G-TAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
20734455 TTTGCCACGA
Statistics
Matches: 146, Mismatches: 26, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
131 3 0.02
132 107 0.73
133 36 0.25
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (131 bp):
TTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCTGCTCCA
CTGCAACTTCTGGAAGATAAGACTCGAAGCTTCAATCTACTCCACTACAACTTCAAGAAGATAAG
A
Found at i:20734447 original size:45 final size:44
Alignment explanation
Indices: 20734164--20734456 Score: 241
Period size: 44 Copynumber: 6.6 Consensus size: 44
20734154 TTTAATCTAT
* * * * * * *
20734164 TCCACTGCAACTTCAGGAAGATTAGATTTGTAGCTTTAATCTGC
1 TCCACTACAACTTCAGGGAGATAAGATTCGTAACTTCAATTTGC
* * * * * *
20734208 TCCACTGCAACTTTAGGGAGATGAGACTCG-AATCTTCAATCTAC
1 TCCACTACAACTTCAGGGAGATAAGATTCGTAA-CTTCAATTTGC
* * * * *
20734252 TCCACTACAACTTCAAGAAGATGAGAATT-GTAACTTTAATCTGC
1 TCCACTACAACTTCAGGGAGATAAG-ATTCGTAACTTCAATTTGC
*
20734296 TCCACTACAACTTCAGGGAGATAAGACTT-GTAACTTCTATTTGC
1 TCCACTACAACTTCAGGGAGATAAGA-TTCGTAACTTCAATTTGC
* * * * * * *
20734340 TCCACTGCAACTTCTGGAAGATAAGACTCGTAGCTTTAATCTGC
1 TCCACTACAACTTCAGGGAGATAAGATTCGTAACTTCAATTTGC
* * *
20734384 TCCATTACAACTTTAGGGAGATAAGATTCGCTATCTTCAATTTGC
1 TCCACTACAACTTCAGGGAGATAAGATTCG-TAACTTCAATTTGC
* * *
20734429 TCTACTGCAAATTCAGGGAGATAAGATT
1 TCCACTACAACTTCAGGGAGATAAGATT
20734457 TGCCACGATG
Statistics
Matches: 200, Mismatches: 43, Indels: 11
0.79 0.17 0.04
Matches are distributed among these distances:
43 3 0.01
44 159 0.80
45 38 0.19
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (44 bp):
TCCACTACAACTTCAGGGAGATAAGATTCGTAACTTCAATTTGC
Found at i:20742522 original size:19 final size:21
Alignment explanation
Indices: 20742500--20742546 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 21
20742490 TTGTGAAACT
*
20742500 TAATGCAT-ATG-ATGAAATA
1 TAATGCATGATGAATGAAAAA
20742519 TAATGC-TGATGAATGAAAAA
1 TAATGCATGATGAATGAAAAA
20742539 TGAATGCA
1 T-AATGCA
20742547 AAGAAAGGCG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 9 0.39
20 8 0.35
21 5 0.22
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (21 bp):
TAATGCATGATGAATGAAAAA
Found at i:20747554 original size:669 final size:671
Alignment explanation
Indices: 20746577--20747817 Score: 2315
Period size: 669 Copynumber: 1.8 Consensus size: 671
20746567 GAGATTCAGC
*
20746577 TGTAACACCCCTTACCCGTATTCCTTAACGGAACAGAGTATGAGGTATTACTAATTTTTTTTAAA
1 TGTAACACCCCTTACCCGTATTCCTTAACAGAACAGAGTATGAGGTATTACTAATTTTTTTT--A
20746642 AAAAATTCGACAGCATTTCTGCTTATTTTTACGTACAACCCCCTGCAAGTTTTCAATCACACTTT
64 AAAAATTCGACAGCATTTCTGCTTATTTTTACGTACAACCCCCTGCAAGTTTTCAATCACACTTT
20746707 CAAACAATTCCAATAATCCAACCAAAAACAGTTGTATGATCATACTCAATTTGTCTAATAATAAA
129 CAAACAATTCCAATAATCCAACCAAAAACAGTTGTATGATCATACTCAATTTGTCTAATAATAAA
20746772 CATCAACATTTTAAACCGAAACATACTATATATTTGTTTACGCCATAATACATAAAGTCGTCTAT
194 CATCAACATTTTAAACCGAAACATACTATATATTTGTTTACGCCATAATACATAAAGTCGTCTAT
* *
20746837 ACATGCCATGTTTCCAAAATATGAGTTGCAAAATACCCAAGCGTTGATGATAGTGTAGATGATTA
259 ACATCCCATGTTTCCAAAATATGAGTTGCAAAATACCCAAGCGTTGATGATAGTATAGATGATTA
20746902 TCTGACTCCGCCCAAGTTCCGAGTTGATTGATGTCACTCGGTGCAAAATATCGTAACTTTTCAAT
324 TCTGACTCCGCCCAAGTTCCGAGTTGATTGATGTCACTCGGTGCAAAATATCGTAACTTTTCAAT
*
20746967 TTACTCCACTACTTTCTCTTTTCCCCGTTTGAGGTATTCTTCTCGTCTTTCTTGATTATGGAGCT
389 TTACTCCACTACTTTCTCTTTTCCCCGTTTGAGGTATTCTTCTCGTCTTTCTTGATTATAGAGCT
* *
20747032 TGGAAGCTTGAAACCCCTAACTATGGCTTCCCCCTTGCTGATTTCGTTCACCATGAAGAAGATGA
454 TGGAAGCTTGAAAACCCTAACTATGGCTTCCCCCTTGCTGATTTCGTTCACCATAAAGAAGATGA
20747097 GCATATTTTTCCATCTTTTTCCCACTTAATTCTATTTAATTACCAAATGACTTTCACACTATCAC
519 GCATATTTTTCCATCTTTTTCCCACTTAATTCTATTTAATTACCAAATGACTTTCACACTATCAC
20747162 AATATATTTATGGCATGTATAGACTGACTTTCACACATATTTTATTTGTCCGAGAACCGACTAAA
584 AATATATTTATGGCATGTATAGACTGACTTTCACACATATTTTATTTGTCCGAGAACCGACTAAA
20747227 CCGTAACTCTGATACCACTAAAA
649 CCGTAACTCTGATACCACTAAAA
*
20747250 TGTAACACCCCTTACCCGTATTCCTTAACAGAACAGAGTATGAGGTATTACT-ATTTTTTTT-TA
1 TGTAACACCCCTTACCCGTATTCCTTAACAGAACAGAGTATGAGGTATTACTAATTTTTTTTAAA
*
20747313 AATTTCGACAGCATTTCTGCTTATTTTTACGTACAACCCCCTGCAAGTTTTCAATCACACTTTCA
66 AAATTCGACAGCATTTCTGCTTATTTTTACGTACAACCCCCTGCAAGTTTTCAATCACACTTTCA
20747378 AACAATTCCAATAATCCAACCAAAAACAGTTGTATGATCATACTCAATTTGTCTAATAATAAACA
131 AACAATTCCAATAATCCAACCAAAAACAGTTGTATGATCATACTCAATTTGTCTAATAATAAACA
*
20747443 TCAACATTTTAAACCGAAACATACTATATATTTGTTTATGCCATAATACATAAAGTCGTCTATAC
196 TCAACATTTTAAACCGAAACATACTATATATTTGTTTACGCCATAATACATAAAGTCGTCTATAC
20747508 ATCCCATGTTTCCAAAATATGAGTTGCAAAATACCCAAGCGTTGATGATAGTATAGATGATTATC
261 ATCCCATGTTTCCAAAATATGAGTTGCAAAATACCCAAGCGTTGATGATAGTATAGATGATTATC
* *
20747573 TGACTCCGCCCAAGTTTCGAGTTGATTGATGTCACTCGGTGCAAAATATCGTAATTTTTCAATTT
326 TGACTCCGCCCAAGTTCCGAGTTGATTGATGTCACTCGGTGCAAAATATCGTAACTTTTCAATTT
*
20747638 ACTCCACTACTTTCTCTTTTCCCTGTTTGAGGTATTCTTCTCGTCTTTCTTGATTATAGAGCTTG
391 ACTCCACTACTTTCTCTTTTCCCCGTTTGAGGTATTCTTCTCGTCTTTCTTGATTATAGAGCTTG
* *
20747703 GAAGCTTGAAAACCCTAACTATGGTTTCCTCCTTGCTGATTTCGTTCACCATAAAGAAGATGAGC
456 GAAGCTTGAAAACCCTAACTATGGCTTCCCCCTTGCTGATTTCGTTCACCATAAAGAAGATGAGC
*
20747768 ATATTTTTCCATCTTTTTCCCATTTAATTCTATTTAATTACCAAATGACT
521 ATATTTTTCCATCTTTTTCCCACTTAATTCTATTTAATTACCAAATGACT
20747818 AAAATGCCCT
Statistics
Matches: 553, Mismatches: 15, Indels: 4
0.97 0.03 0.01
Matches are distributed among these distances:
669 493 0.89
672 9 0.02
673 51 0.09
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.35
Consensus pattern (671 bp):
TGTAACACCCCTTACCCGTATTCCTTAACAGAACAGAGTATGAGGTATTACTAATTTTTTTTAAA
AAATTCGACAGCATTTCTGCTTATTTTTACGTACAACCCCCTGCAAGTTTTCAATCACACTTTCA
AACAATTCCAATAATCCAACCAAAAACAGTTGTATGATCATACTCAATTTGTCTAATAATAAACA
TCAACATTTTAAACCGAAACATACTATATATTTGTTTACGCCATAATACATAAAGTCGTCTATAC
ATCCCATGTTTCCAAAATATGAGTTGCAAAATACCCAAGCGTTGATGATAGTATAGATGATTATC
TGACTCCGCCCAAGTTCCGAGTTGATTGATGTCACTCGGTGCAAAATATCGTAACTTTTCAATTT
ACTCCACTACTTTCTCTTTTCCCCGTTTGAGGTATTCTTCTCGTCTTTCTTGATTATAGAGCTTG
GAAGCTTGAAAACCCTAACTATGGCTTCCCCCTTGCTGATTTCGTTCACCATAAAGAAGATGAGC
ATATTTTTCCATCTTTTTCCCACTTAATTCTATTTAATTACCAAATGACTTTCACACTATCACAA
TATATTTATGGCATGTATAGACTGACTTTCACACATATTTTATTTGTCCGAGAACCGACTAAACC
GTAACTCTGATACCACTAAAA
Found at i:20754717 original size:21 final size:21
Alignment explanation
Indices: 20754671--20754718 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
20754661 TGTTATGGAC
*
20754671 TTTTGATTTTTGGTTTTATTT
1 TTTTTATTTTTGGTTTTATTT
* *
20754692 ATTTTATTTTTGGTTTGTTTTT
1 TTTTTATTTTTGGTTT-TATTT
20754714 TTTTT
1 TTTTT
20754719 CGGGCCCAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.08, C:0.00, G:0.12, T:0.79
Consensus pattern (21 bp):
TTTTTATTTTTGGTTTTATTT
Found at i:20754947 original size:6 final size:6
Alignment explanation
Indices: 20754938--20754980 Score: 59
Period size: 6 Copynumber: 6.7 Consensus size: 6
20754928 AAAAAATTTG
20754938 AATTCC AATTCC TTAAATTCC AATTCC AATTCC AATTCC AATT
1 AATTCC AATTCC ---AATTCC AATTCC AATTCC AATTCC AATT
20754981 TTTATTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 28 0.82
9 6 0.18
ACGTcount: A:0.35, C:0.28, G:0.00, T:0.37
Consensus pattern (6 bp):
AATTCC
Found at i:20760975 original size:21 final size:22
Alignment explanation
Indices: 20760951--20761002 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
20760941 CTCGTATATA
* *
20760951 GGTCAAAATGGGTT-AAATACT
1 GGTCAAAATGGATTAAAATACG
*
20760972 GGTCAAAATGGATTAAAATAGG
1 GGTCAAAATGGATTAAAATACG
20760994 GGTCAAAAT
1 GGTCAAAAT
20761003 ATGAAAATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 13 0.48
22 14 0.52
ACGTcount: A:0.42, C:0.08, G:0.25, T:0.25
Consensus pattern (22 bp):
GGTCAAAATGGATTAAAATACG
Found at i:20761408 original size:64 final size:65
Alignment explanation
Indices: 20761297--20761421 Score: 166
Period size: 64 Copynumber: 1.9 Consensus size: 65
20761287 AGAAAATGAA
* *
20761297 GAAGGTGAAAAAGAAAAGAAAAAGTTAGCAGAAAAGATAAAAGAGAAAGAAA-GTAGAAGGAGAA
1 GAAGGTAAAAAAGAAAAGAAAAAGTTAACAGAAAAGATAAAAGAGAAAGAAATG-AGAAGGAGAA
20761361 G
65 G
* * *
20761362 GAAGGTAAAAAAGAAAA-AAACAA-TTAATAGAGAAGGTAAAAGAGAAAGAAATGAGAAGGA
1 GAAGGTAAAAAAGAAAAGAAA-AAGTTAACAGAAAAGATAAAAGAGAAAGAAATGAGAAGGA
20761422 AAAAAAAGAA
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
64 34 0.64
65 19 0.36
ACGTcount: A:0.62, C:0.02, G:0.27, T:0.09
Consensus pattern (65 bp):
GAAGGTAAAAAAGAAAAGAAAAAGTTAACAGAAAAGATAAAAGAGAAAGAAATGAGAAGGAGAAG
Found at i:20761417 original size:23 final size:20
Alignment explanation
Indices: 20761391--20761431 Score: 55
Period size: 23 Copynumber: 1.9 Consensus size: 20
20761381 ACAATTAATA
20761391 GAGAAGGTAAAAGAGAAAGAAAT
1 GAGAAGG-AAAA-A-AAAGAAAT
20761414 GAGAAGGAAAAAAAAGAA
1 GAGAAGGAAAAAAAAGAA
20761432 GAAGAAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 1 0.06
22 4 0.22
23 7 0.39
ACGTcount: A:0.66, C:0.00, G:0.29, T:0.05
Consensus pattern (20 bp):
GAGAAGGAAAAAAAAGAAAT
Found at i:20762495 original size:44 final size:44
Alignment explanation
Indices: 20762420--20762531 Score: 161
Period size: 44 Copynumber: 2.5 Consensus size: 44
20762410 ATACATGCAA
* *
20762420 AAATTAGATGCATTGGAAGAAATTTGAAACAAACTTCGTAATTT
1 AAATTAGATGCATTGGAACAAACTTGAAACAAACTTCGTAATTT
* * * * *
20762464 AAATGAGATGCATTGCACCAAACTTGGAACAAACTTTGTAATTT
1 AAATTAGATGCATTGGAACAAACTTGAAACAAACTTCGTAATTT
20762508 AAATTAGATGCATTGGAACAAACT
1 AAATTAGATGCATTGGAACAAACT
20762532 CTGTAAAATA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 58 1.00
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.29
Consensus pattern (44 bp):
AAATTAGATGCATTGGAACAAACTTGAAACAAACTTCGTAATTT
Found at i:20767613 original size:19 final size:19
Alignment explanation
Indices: 20767589--20767628 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
20767579 TCTGGTTTCG
20767589 TTCTCCCGTTCGTTCTCCC
1 TTCTCCCGTTCGTTCTCCC
*
20767608 TTCTCCCTTTCGTTCTCCC
1 TTCTCCCGTTCGTTCTCCC
20767627 TT
1 TT
20767629 GATTTGGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.00, C:0.45, G:0.07, T:0.47
Consensus pattern (19 bp):
TTCTCCCGTTCGTTCTCCC
Found at i:20769331 original size:18 final size:18
Alignment explanation
Indices: 20769304--20769342 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
20769294 TTTACCAACT
20769304 TTATGGATAATAATTTAA
1 TTATGGATAATAATTTAA
*
20769322 TTATGTATAATAATTTAA
1 TTATGGATAATAATTTAA
20769340 TTA
1 TTA
20769343 AAGATACAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.49
Consensus pattern (18 bp):
TTATGGATAATAATTTAA
Found at i:20769993 original size:20 final size:20
Alignment explanation
Indices: 20769968--20770007 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
20769958 AATATTTTCC
*
20769968 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
20769988 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
20770008 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:20770013 original size:34 final size:35
Alignment explanation
Indices: 20769956--20770022 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
20769946 CAAACACTAG
*
20769956 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
20769991 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
20770023 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:20770014 original size:14 final size:14
Alignment explanation
Indices: 20769991--20770030 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
20769981 ACAGAAAAGT
*
20769991 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
20770005 AAATCATTTTACGG
1 AAAACATTTTACAG
20770019 AAAACATTTTAC
1 AAAACATTTTAC
20770031 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:20777955 original size:3 final size:3
Alignment explanation
Indices: 20777947--20778019 Score: 78
Period size: 3 Copynumber: 25.0 Consensus size: 3
20777937 TATATATAGG
* **
20777947 AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AA- AAG GCT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
20777993 AAA AAT AAT AAT GAT AAT AAA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
20778020 GGGGCTATTA
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
2 4 0.07
3 53 0.93
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:20782795 original size:18 final size:18
Alignment explanation
Indices: 20782772--20782816 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
20782762 GTTTTGAAAA
**
20782772 TGGTCAAAATTATGTTTC
1 TGGTCAAAATTATAATTC
20782790 TGGTCAAAATTATAATTC
1 TGGTCAAAATTATAATTC
*
20782808 TAGTCAAAA
1 TGGTCAAAA
20782817 GTGGCTTGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (18 bp):
TGGTCAAAATTATAATTC
Found at i:20783065 original size:21 final size:20
Alignment explanation
Indices: 20783039--20783086 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
20783029 ATGATGGGAT
20783039 TGGTGGTACTGTTGGGCCGAA
1 TGGTGGTA-TGTTGGGCCGAA
20783060 TGGTGG--TGTTGGGCCGAA
1 TGGTGGTATGTTGGGCCGAA
20783078 -GGATGGTAT
1 TGG-TGGTAT
20783087 TAGGCCTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
17 2 0.08
18 15 0.62
20 1 0.04
21 6 0.25
ACGTcount: A:0.15, C:0.10, G:0.46, T:0.29
Consensus pattern (20 bp):
TGGTGGTATGTTGGGCCGAA
Found at i:20788915 original size:17 final size:16
Alignment explanation
Indices: 20788874--20788915 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
20788864 AATTCAATTT
*
20788874 TAATATAAATATTCAA
1 TAATATAAAAATTCAA
20788890 T-ATACTAAACAATTCAA
1 TAATA-TAAA-AATTCAA
20788907 TAATATAAA
1 TAATATAAA
20788916 TAATATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
15 3 0.14
16 5 0.23
17 11 0.50
18 3 0.14
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (16 bp):
TAATATAAAAATTCAA
Found at i:20789381 original size:9 final size:9
Alignment explanation
Indices: 20789367--20789403 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
20789357 TATAGTTTGA
20789367 TATTCGAAT
1 TATTCGAAT
20789376 TATTCGAAT
1 TATTCGAAT
*
20789385 TATTCGAGT
1 TATTCGAAT
*
20789394 TATTTGAAT
1 TATTCGAAT
20789403 T
1 T
20789404 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:20791132 original size:104 final size:104
Alignment explanation
Indices: 20790952--20791150 Score: 326
Period size: 104 Copynumber: 1.9 Consensus size: 104
20790942 TTGCTTTCAT
* * * * * * *
20790952 TTTATCTTTTGATTCATTTTGAGCACGATAAAGTGGATGTTATCATAAATTTATATGGTTTCTAA
1 TTTATCTTTTGACTCATTTTAAGCACAATAAAGTGGATGTTATCATAAATTCATATAGCTTATAA
*
20791017 TCTAGCATTCATCAATATACAATGTCTTCTCTTAAAGAA
66 TCTAGCATTCATCAATATACAAGGTCTTCTCTTAAAGAA
20791056 TTTATCTTTTGACTCATTTTAAGCACAATAAAGTGGATGTTATCATAAATTCATATAGCTTATAA
1 TTTATCTTTTGACTCATTTTAAGCACAATAAAGTGGATGTTATCATAAATTCATATAGCTTATAA
20791121 TCTAGCATTCATCAATATACAAGGTCTTCT
66 TCTAGCATTCATCAATATACAAGGTCTTCT
20791151 TCCAAAAAAT
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
104 87 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.41
Consensus pattern (104 bp):
TTTATCTTTTGACTCATTTTAAGCACAATAAAGTGGATGTTATCATAAATTCATATAGCTTATAA
TCTAGCATTCATCAATATACAAGGTCTTCTCTTAAAGAA
Found at i:20804669 original size:14 final size:14
Alignment explanation
Indices: 20804647--20804685 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
20804637 CTAAAAAAAT
*
20804647 AAATTATTTTTCAA
1 AAATCATTTTTCAA
*
20804661 AAATCATTTTCCAA
1 AAATCATTTTTCAA
20804675 AAATCATTTTT
1 AAATCATTTTT
20804686 AGTAAACCTT
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:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (14 bp):
AAATCATTTTTCAA
Found at i:20805020 original size:22 final size:23
Alignment explanation
Indices: 20804958--20805022 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 23
20804948 ATTTAAATTA
* *
20804958 TAAAATTATTTGATATAT-TATT
1 TAAAATTATTTGATAAATATAAT
* *
20804980 TAAAATTAATT-ACAGAATATAAT
1 TAAAATTATTTGATA-AATATAAT
20805003 T-AAATTATTTGATAAATATA
1 TAAAATTATTTGATAAATATA
20805023 GATTTTAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 2 0.06
22 26 0.76
23 6 0.18
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.45
Consensus pattern (23 bp):
TAAAATTATTTGATAAATATAAT
Found at i:20806552 original size:36 final size:36
Alignment explanation
Indices: 20806512--20806583 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
20806502 ACATAATTGT
20806512 TAACAAATCATCAAAGTGGTGTTCATTGATAATGGG
1 TAACAAATCATCAAAGTGGTGTTCATTGATAATGGG
20806548 TAACAAATCATCAAAGTGGTGTTCATTGATAATGGG
1 TAACAAATCATCAAAGTGGTGTTCATTGATAATGGG
20806584 ATGCTCATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (36 bp):
TAACAAATCATCAAAGTGGTGTTCATTGATAATGGG
Found at i:20812283 original size:32 final size:33
Alignment explanation
Indices: 20812241--20812306 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
20812231 TGTAAATCAA
20812241 TACAACCTCATGCTGAAATAGAAAGTTTT-TTT
1 TACAACCTCATGCTGAAATAGAAAGTTTTATTT
*
20812273 TACAATCTCATGCTGAAATAGAAAGTTTTATTT
1 TACAACCTCATGCTGAAATAGAAAGTTTTATTT
20812306 T
1 T
20812307 CTCATAAGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 28 0.88
33 4 0.12
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (33 bp):
TACAACCTCATGCTGAAATAGAAAGTTTTATTT
Found at i:20814883 original size:26 final size:25
Alignment explanation
Indices: 20814837--20814887 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
20814827 ACAAACAAAT
* *
20814837 AATCAACCTAGTTATTATAATATAAG
1 AATCAACATAGTTAATATAAT-TAAG
20814863 AATCAACATCAGTTAAT-TAATTAAG
1 AATCAACAT-AGTTAATATAATTAAG
20814888 CCTAGTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 4 0.18
26 12 0.55
27 6 0.27
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.33
Consensus pattern (25 bp):
AATCAACATAGTTAATATAATTAAG
Found at i:20819016 original size:17 final size:18
Alignment explanation
Indices: 20818979--20819016 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
20818969 GATTGAGAGT
* *
20818979 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
20818997 GAAAAGAAAT-TGAAAAA
1 GAAAAGAAATGTGAAAAA
20819014 GAA
1 GAA
20819017 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.63, C:0.03, G:0.24, T:0.11
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:20819029 original size:13 final size:12
Alignment explanation
Indices: 20818998--20819052 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
20818988 TGTGAAACAG
*
20818998 AAAAGAAATTGA
1 AAAAGAAGTTGA
20819010 AAAAGAAGTTGA
1 AAAAGAAGTTGA
*
20819022 AGAAAGAAG-AGA
1 A-AAAGAAGTTGA
*
20819034 AAATGAA-TTAGA
1 AAAAGAAGTT-GA
20819046 AAAAGAA
1 AAAAGAA
20819053 ACAAAAGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
11 5 0.14
12 23 0.66
13 7 0.20
ACGTcount: A:0.65, C:0.00, G:0.22, T:0.13
Consensus pattern (12 bp):
AAAAGAAGTTGA
Found at i:20823384 original size:15 final size:15
Alignment explanation
Indices: 20823349--20823400 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
20823339 TTAAGAATTT
*
20823349 TATTAAATTAT-ATA
1 TATTTAATTATAATA
20823363 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
20823377 TATTTAATAATAAT-
1 TATTTAATTATAATA
20823391 TATGTTAATT
1 TAT-TTAATT
20823401 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:20823496 original size:18 final size:17
Alignment explanation
Indices: 20823465--20823499 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
20823455 ATTATTAAGA
20823465 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
20823482 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
20823500 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:20823612 original size:18 final size:17
Alignment explanation
Indices: 20823584--20823618 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
20823574 ATTATTAAGA
*
20823584 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
20823601 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
20823619 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:20823618 original size:119 final size:120
Alignment explanation
Indices: 20823294--20823635 Score: 632
Period size: 120 Copynumber: 2.9 Consensus size: 120
20823284 AGCAATAACA
20823294 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
*
20823359 TATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
66 TATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGT
20823414 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
* *
20823479 TATATTTTAATTATATTATATTTAATAATAATTATGTTATTTTATA-TTTACAGT
66 TATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGT
*
20823533 ATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
*
20823598 TATATTTTAATTAAAATATATTTAATAATAATTATGTT
66 TATATTTTAATTATAATATATTTAATAATAATTATGTT
20823636 TAAATATGAT
Statistics
Matches: 216, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
119 107 0.50
120 109 0.50
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (120 bp):
ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
TATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGT
Found at i:20823728 original size:147 final size:149
Alignment explanation
Indices: 20823572--20823846 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
20823562 ATAAGAATAT
*
20823572 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
20823637 AAATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
20823700 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
20823719 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
20823784 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
20823847 CAATAATCAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 91 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:20823759 original size:18 final size:17
Alignment explanation
Indices: 20823731--20823765 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
20823721 ATTATTAAGA
*
20823731 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
20823748 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
20823766 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:20824023 original size:16 final size:16
Alignment explanation
Indices: 20824002--20824035 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
20823992 GATTTGCTAT
20824002 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
20824018 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
20824034 TA
1 TA
20824036 GAGCGAACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:20831389 original size:46 final size:45
Alignment explanation
Indices: 20831282--20831607 Score: 352
Period size: 46 Copynumber: 7.6 Consensus size: 45
20831272 TACGTATGAT
*
20831282 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTA
20831324 GCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTA
1 -CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTA
*
20831370 TCACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 -CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT-A
*
20831417 CACTTATCACTTTGTCACTTAATCAGATAA--GTA--T-A-G---
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTA
* *
20831453 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTA
* *
20831498 CCACTTATCACTTTGTCTCTTGATCAAATAA--GT-G-T-A-G---
1 -CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTA
* * *
20831535 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGTTA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTA
* *
20831580 CCACTTATCACTTTATCTCTTGATCAGA
1 -CACTTATCACTTTGTCACTTGATCAGA
20831608 AGTACTCAAA
Statistics
Matches: 244, Mismatches: 15, Indels: 45
0.80 0.05 0.15
Matches are distributed among these distances:
36 55 0.23
38 5 0.02
39 1 0.00
40 4 0.02
41 4 0.02
42 4 0.02
43 11 0.05
44 10 0.04
45 20 0.08
46 129 0.53
47 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.35
Consensus pattern (45 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTA
Found at i:20831458 original size:36 final size:36
Alignment explanation
Indices: 20831417--20831571 Score: 157
Period size: 36 Copynumber: 4.0 Consensus size: 36
20831407 CTAAGGCTAA
*
20831417 CACTTATCACTTTGTCACTTAATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
20831453 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--AG
* * *
20831495 CTACCACTTATCACTTTGTCTCTTGATCAAATAAGTGTAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
20831535 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
20831571 C
1 C
20831572 TAAAGTTACC
Statistics
Matches: 100, Mismatches: 9, Indels: 20
0.78 0.07 0.16
Matches are distributed among these distances:
36 62 0.62
38 3 0.03
40 3 0.03
42 3 0.03
44 2 0.02
46 27 0.27
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:20831508 original size:82 final size:82
Alignment explanation
Indices: 20831371--20831607 Score: 393
Period size: 82 Copynumber: 2.9 Consensus size: 82
20831361 CTAAGGCTAT
* * * *
20831371 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
*
20831436 TAATCAGATAAGTATAG
66 TGATCAGATAAGTATAG
20831453 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
* *
20831518 TGATCAAATAAGTGTAG
66 TGATCAGATAAGTATAG
* *
20831535 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGTTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
20831600 TGATCAGA
66 TGATCAGA
20831608 AGTACTCAAA
Statistics
Matches: 145, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 145 1.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
TGATCAGATAAGTATAG
Found at i:20831585 original size:128 final size:126
Alignment explanation
Indices: 20831282--20831607 Score: 374
Period size: 128 Copynumber: 2.6 Consensus size: 126
20831272 TACGTATGAT
* * * * *
20831282 CACTTATCACTTGTC-CCTGATCAGATAAGTGTAGCTAGGCTAGCACTTATCACTTTGTCACTTG
1 CACTTATCACTTATCACTTGATCAGATAAGTGTAGCTAAGTTAGCACTTATCACTTTATCACTTG
* * *
20831346 ATCAGATAAGTGTAGCTAAGGCTATCACTTATCACTTTCTCACTTGATCAGATAAGTGTAG
66 ATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATCAAATAAGTGTAG
* ** * * *
20831407 CTAAGGC-TAACACTTATCACTTTG-TCACTTAA-T-CAGATAAGTATAGCACTTATCACTTTTT
1 C--A--CTTATCACTTATCAC-TTGATCAGATAAGTGTAGCTAAGT-TAGCACTTATCACTTTAT
* *
20831468 CACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGATCAAATAAGTGT
60 CACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATCAAATAAGTGT
20831533 AG
125 AG
* * *
20831535 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGTTACCACTTATCACTTTATCTCT
1 CACTTATCAC-TTATCACTTGATCAGATAAGTGTAGCT-AAGTTAGCACTTATCACTTTATCACT
20831600 TGATCAGA
64 TGATCAGA
20831608 AGTACTCAAA
Statistics
Matches: 164, Mismatches: 24, Indels: 23
0.78 0.11 0.11
Matches are distributed among these distances:
124 1 0.01
125 9 0.05
126 13 0.08
127 7 0.04
128 120 0.73
129 12 0.07
130 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.35
Consensus pattern (126 bp):
CACTTATCACTTATCACTTGATCAGATAAGTGTAGCTAAGTTAGCACTTATCACTTTATCACTTG
ATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATCAAATAAGTGTAG
Found at i:20834525 original size:20 final size:21
Alignment explanation
Indices: 20834497--20834547 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
20834487 ATAAAATTTA
20834497 ATTAGAATATATAAACTAT-ATT
1 ATTA-AATATATAAA-TATAATT
*
20834519 -TTAAATATTTAAATATAATT
1 ATTAAATATATAAATATAATT
20834539 ATTAAATAT
1 ATTAAATAT
20834548 TTGTAATTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 3 0.12
20 12 0.46
21 11 0.42
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
ATTAAATATATAAATATAATT
Found at i:20834545 original size:21 final size:21
Alignment explanation
Indices: 20834497--20834549 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
20834487 ATAAAATTTA
*
20834497 ATTAGAATATATAAACTATATT
1 ATTA-AATATTTAAACTATATT
20834519 -TTAAATATTTAAA-TATAATT
1 ATTAAATATTTAAACTAT-ATT
20834539 ATTAAATATTT
1 ATTAAATATTT
20834550 GTAATTAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 3 0.11
20 12 0.43
21 13 0.46
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
ATTAAATATTTAAACTATATT
Found at i:20843846 original size:179 final size:179
Alignment explanation
Indices: 20843496--20843949 Score: 770
Period size: 179 Copynumber: 2.5 Consensus size: 179
20843486 CTGACATTGT
20843496 ATAACTAAAAACAACAATTTTGTATTGAATTATATCATGTTCGGGATTCAAATGCCTTTCTTCTT
1 ATAACTAAAAACAACAATTTTGTATTGAATTATATCATGTTCGGGATTCAAATGCCTTTCTTCTT
*
20843561 TGAATATGTATCAGAATTTGTCATTTCGTTCTAATAGTCTTCTGTTTTTTTCTAGTGGAAAAGTA
66 TGAATATGTATCAGAA-TTGTCATTTCGTTCTAATAGTCTTCTGTTTTTTTCAAGTGGAAAAGTA
* *
20843626 GAGAGCCGTGACATCTAAAAATTAGTGGTGTCCCGCCCAATATGATGTTGA
130 GAGAGCAGTGACATCTAAAAATTAGTGGTGTCCCCCCCAATATGAT-TTGA
* *
20843677 ATAACTAAAAACAACAATTTTGTATTGAATTATATCATTTTCGGGATTCAAATGCCTTTCTTTTT
1 ATAACTAAAAACAACAATTTTGTATTGAATTATATCATGTTCGGGATTCAAATGCCTTTCTTCTT
20843742 TGAATATGTATCAGAA-TGTCATTTCGTTCTAATAGTCTTCTGTTTTTTTCAAGTGGAAAAGTAG
66 TGAATATGTATCAGAATTGTCATTTCGTTCTAATAGTCTTCTGTTTTTTTCAAGTGGAAAAGTAG
*
20843806 AGAGCAGTGACATCTAAAAATTAGTGGTGTCCCCCCCAATATGATTTGT
131 AGAGCAGTGACATCTAAAAATTAGTGGTGTCCCCCCCAATATGATTTGA
* * *
20843855 ATAACTAAAAACAACAATTTTGTGTTGAATTGT-T-ATGTTCGGGATTCAAATGCCCTTCTTCTT
1 ATAACTAAAAACAACAATTTTGTATTGAATTATATCATGTTCGGGATTCAAATGCCTTTCTTCTT
*
20843918 TGAATATGCATCAGAATTTGTCATTTCGTTCT
66 TGAATATGTATCAGAA-TTGTCATTTCGTTCT
20843950 CTGCTCCTCG
Statistics
Matches: 259, Mismatches: 12, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
176 41 0.16
177 1 0.00
178 48 0.19
179 90 0.35
181 79 0.31
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (179 bp):
ATAACTAAAAACAACAATTTTGTATTGAATTATATCATGTTCGGGATTCAAATGCCTTTCTTCTT
TGAATATGTATCAGAATTGTCATTTCGTTCTAATAGTCTTCTGTTTTTTTCAAGTGGAAAAGTAG
AGAGCAGTGACATCTAAAAATTAGTGGTGTCCCCCCCAATATGATTTGA
Found at i:20846332 original size:6 final size:6
Alignment explanation
Indices: 20846321--20846346 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
20846311 AATTATATTA
20846321 TATTTT TATTTT TATTTT TATTTT TA
1 TATTTT TATTTT TATTTT TATTTT TA
20846347 AAAAACATCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:20849352 original size:37 final size:37
Alignment explanation
Indices: 20849302--20849411 Score: 170
Period size: 37 Copynumber: 3.0 Consensus size: 37
20849292 TAATAGCTTC
*
20849302 GGCTATACTTATCTGATCAAGAAACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
*
20849339 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
**
20849376 GGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
20849411 G
1 G
20849412 ATCATACGTA
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 53 0.78
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.25
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
Found at i:20851087 original size:3 final size:3
Alignment explanation
Indices: 20851079--20851109 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
20851069 TTATAATATT
20851079 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
20851110 CAAAATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:20851369 original size:19 final size:21
Alignment explanation
Indices: 20851331--20851369 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
20851321 CTTTTTTTAA
*
20851331 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
20851352 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
20851370 AAGAAAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:20851594 original size:21 final size:21
Alignment explanation
Indices: 20851568--20851624 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
20851558 AATCATATCT
*
20851568 TCTAAGATTGTATATATCATA
1 TCTAAGATTGCATATATCATA
20851589 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
20851610 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
20851625 CCTCGAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:20855693 original size:22 final size:22
Alignment explanation
Indices: 20855668--20855709 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
20855658 GTTTTGTATG
20855668 TAAATATATATTTTTTTCTTCA
1 TAAATATATATTTTTTTCTTCA
* * *
20855690 TAAATTTTTCTTTTTTTCTT
1 TAAATATATATTTTTTTCTT
20855710 ATTCCTTTCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.67
Consensus pattern (22 bp):
TAAATATATATTTTTTTCTTCA
Found at i:20855804 original size:4 final size:4
Alignment explanation
Indices: 20855790--20855833 Score: 61
Period size: 4 Copynumber: 10.5 Consensus size: 4
20855780 TTTTTTGTTA
*
20855790 TTAT CTTAT TTAT TTAT TTAT TTAT TTAT TTAT TCAT ATTAT TT
1 TTAT -TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT -TTAT TT
20855834 CTATGAAATC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
4 29 0.81
5 7 0.19
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (4 bp):
TTAT
Found at i:20859639 original size:24 final size:24
Alignment explanation
Indices: 20859612--20859657 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
20859602 AAAAGAATCC
* *
20859612 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGCAAATGAAGGAGCAGCTT
*
20859636 CAAAAGCAAATGAATGAGCAGC
1 CAAAAGCAAATGAAGGAGCAGC
20859658 AAAAGATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGCAGCTT
Found at i:20868033 original size:84 final size:85
Alignment explanation
Indices: 20867901--20868060 Score: 202
Period size: 84 Copynumber: 1.9 Consensus size: 85
20867891 AAGTCGACAA
* * * *
20867901 TCTTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTAT-CTCTCTAAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAGCACAGATCTTATCCTC-CTAAAGTTGC
20867965 AGAGA-GCAGATCGCATCTAG
65 AGAGAGGCAGATCGCATCTAG
* *
20867985 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGGAGGCA-AG-TCTTATCCTCCTAAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA--AAGCACAGATCTTATCCTCCTAAAGTTG
*
20868048 CAGTGAGGCAGAT
64 CAGAGAGGCAGAT
20868061 TGAAGATGGA
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
84 51 0.78
85 11 0.17
86 3 0.05
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29
Consensus pattern (85 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAGCACAGATCTTATCCTCCTAAAGTTGCA
GAGAGGCAGATCGCATCTAG
Found at i:20868037 original size:217 final size:216
Alignment explanation
Indices: 20867550--20868264 Score: 1041
Period size: 217 Copynumber: 3.3 Consensus size: 216
20867540 TAACAGATCG
* * *
20867550 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAGGCAAGTCTTATCCTCCTGAAGTTA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGGAGGCAAGTCTTATCCTCCTGAAGTTG
* * *
20867615 CGGTGAAGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
66 CAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCG
* *
20867680 AGTAATCCTATCTCGCTGAAGTTGCAGT-GAGCGGATTAAAACCTTAGATATTATCTCTCTGAAG
131 A-TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAG
20867744 TTGCAGAGAGCAGATCGCATCT
195 TTGCAGAGAGCAGATCGCATCT
* * *
20867766 ACTCTTATCTCCCTAAAGTTACAGTGGAGCAGACTAAGTG-GGCAAGTCTTATCCTCCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-GAGGCAAGTCTTATCCTCCTGAAGTT
* *
20867830 GCAGTGAGGCAGACTAAAGATGGCAAATCTTTTCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT
65 GCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-
* * * * ** *
20867895 CGACAATCTTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTAAA
129 CGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAA
20867960 GTTGCAGAGAGCAGATCGCATCT
194 GTTGCAGAGAGCAGATCGCATCT
* *
20867983 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGGAGGCAAGTCTTATCCTCCTAAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGGAGGCAAGTCTTATCCTCCTGAAGTTG
* * *
20868048 CAGTGAGGCAGATTGAAGATGGAAAATCTTATCTCCCCGAAGTTGCAGTGGAGCAGATTAAAGCT
66 CAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC-
20868113 GATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAG
130 GATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAG
*
20868178 TTGCAGAGAACAGATCGCATCT
195 TTGCAGAGAGCAGATCGCATCT
* **
20868200 AGTC--ATC-CTCCTGAAGTTGCAGT-GAGACAGATCGAA-GATACAAGTCTTAT-CTCTCTGAA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAG-CAGA-CTAAGGAGGCAAGTCTTATCCTC-CTGAA
20868259 GTTGCA
62 GTTGCA
20868265 ATGGAGTAGA
Statistics
Matches: 448, Mismatches: 42, Indels: 19
0.88 0.08 0.04
Matches are distributed among these distances:
214 7 0.02
215 42 0.09
216 145 0.32
217 254 0.57
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (216 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGGAGGCAAGTCTTATCCTCCTGAAGTTG
CAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCG
ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGT
TGCAGAGAGCAGATCGCATCT
Found at i:20868137 original size:173 final size:173
Alignment explanation
Indices: 20867810--20868139 Score: 411
Period size: 173 Copynumber: 1.9 Consensus size: 173
20867800 TAAGTGGGCA
* *
20867810 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAATCTTTTCTCCCTGAAGTT
1 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAATCTTTCCTCCCTAAAGTT
* * * *
20867875 GCAGTGGAGCAGATTAAAGTCGACAATCTTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAATC
66 GCAGTGGAGCAGATTAAAGTCGAAAATCTTATCTCCCCGAAGTTGCAGTGGAGCAGATTAAAATC
* *
20867940 ACAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCT
131 ACAGATCCTATCTCCCTAAAGTTGCAGAGAGCAGATCGCATCT
* * *
20867983 AGTCTTAT-CTCCCTGAAGTTGTAGTG-GAGCAGACTAAGGA-GGCAAGTCTTATCCT-CCTAAA
1 AGTCTTATCCT-CCTGAAGTTGCAGTGAG-GCAGACTAAAGATGGCAAATCTT-TCCTCCCTAAA
* *
20868044 GTTGCAGT-GAGGCAGATTGAAGATGGAAAATCTTATCTCCCCGAAGTTGCAGTGGAGCAGATTA
63 GTTGCAGTGGA-GCAGATTAAAG-TCGAAAATCTTATCTCCCCGAAGTTGCAGTGGAGCAGATTA
* * * *
20868108 AAGCTGATA-ATCCTATCTCCCTGAAGTTGCAG
126 AA-ATCACAGATCCTATCTCCCTAAAGTTGCAG
20868140 TGGAGCGGAT
Statistics
Matches: 134, Mismatches: 17, Indels: 12
0.82 0.10 0.07
Matches are distributed among these distances:
171 2 0.01
172 35 0.26
173 94 0.70
174 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (173 bp):
AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAATCTTTCCTCCCTAAAGTT
GCAGTGGAGCAGATTAAAGTCGAAAATCTTATCTCCCCGAAGTTGCAGTGGAGCAGATTAAAATC
ACAGATCCTATCTCCCTAAAGTTGCAGAGAGCAGATCGCATCT
Found at i:20868151 original size:44 final size:44
Alignment explanation
Indices: 20867552--20868183 Score: 334
Period size: 44 Copynumber: 14.5 Consensus size: 44
20867542 ACAGATCGAG
* * **
20867552 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGACT-AAG-TAGGCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT-GATAA
* * * * * *
20867595 GTCTTATC-CTCCTGAAGTTACGGTGAAGCAGACTGAAGATGGCA-AA
1 -TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGATTAAAGCT-G-ATAA
*
20867641 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC-CAGTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGA-TAA
* * * *
20867685 TCCTATCTCGCTGAAGTTGCAGT-GAGCGGATTAAAACCT--TAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCTGATA-A
* * * * * *
20867728 TATTATCTCTCTGAAGTTGCAG-AGAGCAGA-T--CGCAT-CTAC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC-TGATAA
* * * **
20867768 TCTTATCTCCCTAAAGTTACAGTGGAGCAGACT-AAG-TGGGCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT-GATAA
* *
20867811 GTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTAAAGATGGCA-AA
1 -TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAGCT-G-ATAA
* *
20867857 TCTTTTCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TCGACAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT-GATAA
* * * * *
20867901 TCTTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAA-ATCACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGATA-A
* * * * * *
20867945 TCTTATCTCTCTAAAGTTGCAG-AGAGCAGA-T--CGCAT-CTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC-TGATAA
* * * ** *
20867985 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGGAGGCA-AG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTG-ATAA
* * * *
20868029 TCTTATC-CTCCTAAAGTTGCAGT-GAGGCAGATTGAAGATGGAAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAGCT-GATAA
*
20868074 TCTTATCTCCCCGAAGTTGCAGTGGAGCAGATTAAAGCTGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGATAA
* * *
20868118 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCT--TAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCTGATA-A
*
20868162 TCTTATCTCTCTGAAGTTGCAG
1 TCTTATCTCCCTGAAGTTGCAG
20868184 AGAACAGATC
Statistics
Matches: 466, Mismatches: 77, Indels: 90
0.74 0.12 0.14
Matches are distributed among these distances:
39 1 0.00
40 38 0.08
41 18 0.04
42 8 0.02
43 55 0.12
44 227 0.49
45 103 0.22
46 16 0.03
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGATAA
Found at i:20870066 original size:21 final size:22
Alignment explanation
Indices: 20870042--20870082 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
20870032 GTTTTGTATG
20870042 TAAATATAT-TTTTTTTCTTCA
1 TAAATATATCTTTTTTTCTTCA
* *
20870063 TAAATTTTTCTTTTTTTCTT
1 TAAATATATCTTTTTTTCTT
20870083 ATTCCTTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.68
Consensus pattern (22 bp):
TAAATATATCTTTTTTTCTTCA
Found at i:20870177 original size:4 final size:4
Alignment explanation
Indices: 20870163--20870202 Score: 53
Period size: 4 Copynumber: 9.5 Consensus size: 4
20870153 TTTTTTGTTA
*
20870163 TTAT CTTAT TTAT TTAT TTAT TTAT TTAT TCAT ATTAT TT
1 TTAT -TTAT TTAT TTAT TTAT TTAT TTAT TTAT -TTAT TT
20870203 CTACGAAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
4 25 0.78
5 7 0.22
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (4 bp):
TTAT
Found at i:20871216 original size:42 final size:43
Alignment explanation
Indices: 20871129--20871222 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 43
20871119 TTTAGACTCT
* * * * * *
20871129 TTTTTTTTTCTAATTTAGATCTAAGGATTCAAATAGGTTGGAA
1 TTTTATTTTCTAATTTAGATATAAGGATTCAAAAAAGATAGAA
* *
20871172 TTTTATTTTCTAATTTA-ATATTAGGATTCAAAAAAGATATAA
1 TTTTATTTTCTAATTTAGATATAAGGATTCAAAAAAGATAGAA
20871214 TTTTATTTT
1 TTTTATTTT
20871223 ATTTTTTTCT
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 27 0.63
43 16 0.37
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (43 bp):
TTTTATTTTCTAATTTAGATATAAGGATTCAAAAAAGATAGAA
Found at i:20871292 original size:33 final size:33
Alignment explanation
Indices: 20871226--20871293 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
20871216 TTATTTTATT
* *
20871226 TTTTTCTAATTTAGATCTTAGGATTTAGATAGG
1 TTTTTCTAATTTAGAACTTAGGATTCAGATAGG
*
20871259 TTTTTCTCATTTAGAACTTAGGATTCA-ATTAGG
1 TTTTTCTAATTTAGAACTTAGGATTCAGA-TAGG
20871292 TT
1 TT
20871294 AAAATTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 1 0.03
33 30 0.97
ACGTcount: A:0.26, C:0.09, G:0.16, T:0.49
Consensus pattern (33 bp):
TTTTTCTAATTTAGAACTTAGGATTCAGATAGG
Found at i:20871307 original size:42 final size:43
Alignment explanation
Indices: 20871260--20871348 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 43
20871250 TTAGATAGGT
* ** * *
20871260 TTTTCTCATTTAGAACTTAGGATTCAATTAGGTTA-AAATTTA
1 TTTTCTAATTTAGAACTTAACATTCAAATAGGCTAGAAATTTA
*
20871302 TTTTCTAATTTAGATCTTAACATTCAAATAGGCTAGAAATTTA
1 TTTTCTAATTTAGAACTTAACATTCAAATAGGCTAGAAATTTA
20871345 TTTT
1 TTTT
20871349 ATTTTAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 29 0.73
43 11 0.28
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (43 bp):
TTTTCTAATTTAGAACTTAACATTCAAATAGGCTAGAAATTTA
Found at i:20876694 original size:18 final size:17
Alignment explanation
Indices: 20876671--20876714 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
20876661 AATTTATAAA
20876671 AAAATATTAA-AAATTATG
1 AAAATATTAATAAA--ATG
20876689 AAAATATATAATAAAATG
1 AAAATAT-TAATAAAATG
20876707 AAAATATT
1 AAAATATT
20876715 TAGATGTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 1 0.04
18 17 0.71
19 3 0.12
20 3 0.12
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (17 bp):
AAAATATTAATAAAATG
Found at i:20879244 original size:18 final size:18
Alignment explanation
Indices: 20879221--20879266 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
20879211 TGTCAGATGC
20879221 TATTGCGGTCACTGCGGG
1 TATTGCGGTCACTGCGGG
20879239 TATTGCGGTCACTGCGGG
1 TATTGCGGTCACTGCGGG
*
20879257 TATCGCGGTC
1 TATTGCGGTC
20879267 GTGAATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.11, C:0.24, G:0.37, T:0.28
Consensus pattern (18 bp):
TATTGCGGTCACTGCGGG
Found at i:20883344 original size:21 final size:20
Alignment explanation
Indices: 20883318--20883356 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20883308 TTATTTTTAT
20883318 TTATATATAAGAAATATAAAA
1 TTATAT-TAAGAAATATAAAA
*
20883339 TTATATTTAGAAATATAA
1 TTATATTAAGAAATATAA
20883357 GCAACTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
TTATATTAAGAAATATAAAA
Done.