Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 67 of 130
Found at i:14015387 original size:42 final size:41
Alignment explanation
Indices: 14015292--14015844 Score: 837
Period size: 42 Copynumber: 13.5 Consensus size: 41
14015282 AAAGTTTTGT
*
14015292 TGCCTTTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
* *
14015333 TGCCTCTATTTAGAGGAGCAATTTACTTTCCAAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTC-AAAGTCGTGG
*
14015375 TGCCTCTGTTTAGAGGAGCAATTTAATTTTCAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
14015416 TGCCTCTGTTTAGAGGAGCAATTTATTTTTC--A-TCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
* *
14015454 TGCCTCTGTTTAGAGGAGCAATTTACTTTTTAAAAGTCGTGA
1 TGCCTCTGTTTAGAGGAGCAATTTAC-TTTTCAAAGTCGTGG
14015496 TGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTT-TCAAAGTCGTGG
14015538 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTC-AAAGTCGTGG
* * **
14015580 TGCCTCTGTTTAGAGGAACAATTTATTTTTTGAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
**
14015621 TGCCTCTGTTTAGAGGAGC-ATTTA-TTTTTGAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
* *
14015660 TGCCTCTATTTAGAGGAGCAATTTACTTTCCAAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTC-AAAGTCGTGG
* *
14015702 TACCTCTGTTTAGAGAAGCAATTTACTTTCTCAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTT-TCAAAGTCGTGG
*
14015744 TGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
14015785 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
14015826 AGCCTCTGTTTAGAGGAGC
1 TGCCTCTGTTTAGAGGAGC
14015845 TTTGATAAAA
Statistics
Matches: 470, Mismatches: 31, Indels: 22
0.90 0.06 0.04
Matches are distributed among these distances:
38 31 0.07
39 38 0.08
40 10 0.02
41 173 0.37
42 217 0.46
43 1 0.00
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.37
Consensus pattern (41 bp):
TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
Found at i:14015677 original size:164 final size:163
Alignment explanation
Indices: 14015292--14015844 Score: 862
Period size: 164 Copynumber: 3.4 Consensus size: 163
14015282 AAAGTTTTGT
*
14015292 TGCCTTTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTT
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTT
*
14015357 ACTTTCCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAATTTTCAAAGTCGTGGTGCCTC
66 ACTTTCCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTC
*
14015422 TGTTTAGAGGAGCAATTTATTTTTCA-TCGTGG
131 TGTTTAGAGGAGCAATTTATTTTTAAGTCGTGG
* * *
14015454 TGCCTCTGTTTAGAGGAGCAATTTACTTTTTAAAAGTCGTGATGCCTCTGTTTAGAGGAGCAATT
1 TGCCTCTGTTTAGAGGAGCAATTTAC-TTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATT
14015519 TACTTTCTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTGC
65 TACTTTC-CAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTC-AAAGTCGTGGTGC
*
14015583 CTCTGTTTAGAGGAACAATTTATTTTTTGAAGTCGTGG
128 CTCTGTTTAGAGGAGCAATTTA-TTTTT-AAGTCGTGG
**
14015621 TGCCTCTGTTTAGAGGAGC-ATTTA-TTTTTGAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTT
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTT
* *
14015684 ACTTTCCAAAAGTCGTGGTACCTCTGTTTAGAGAAGCAATTTACTTTCTCAAAGTCGTGGTGCCT
66 ACTTTCCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT-TCAAAGTCGTGGTGCCT
* *
14015749 CTATTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
130 CTGTTTAGAGGAGCAATTTA-TTTT-TAAGTCGTGG
* * *
14015785 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGC
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGC
14015845 TTTGATAAAA
Statistics
Matches: 358, Mismatches: 22, Indels: 18
0.90 0.06 0.05
Matches are distributed among these distances:
162 25 0.07
163 83 0.23
164 178 0.50
165 12 0.03
166 35 0.10
167 25 0.07
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.37
Consensus pattern (163 bp):
TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTT
ACTTTCCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTC
TGTTTAGAGGAGCAATTTATTTTTAAGTCGTGG
Found at i:14015857 original size:1 final size:1
Alignment explanation
Indices: 14015851--14015900 Score: 55
Period size: 1 Copynumber: 50.0 Consensus size: 1
14015841 GAGCTTTGAT
* * * * *
14015851 AAAAAAATAAAAAAACAAAAAAAACAAAAAAAACAAAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
14015901 TTACCTCTGT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.90, C:0.08, G:0.00, T:0.02
Consensus pattern (1 bp):
A
Found at i:14015872 original size:10 final size:9
Alignment explanation
Indices: 14015859--14015900 Score: 75
Period size: 9 Copynumber: 4.6 Consensus size: 9
14015849 ATAAAAAAAT
14015859 AAAAAAACA
1 AAAAAAACA
14015868 AAAAAAACA
1 AAAAAAACA
14015877 AAAAAAACAA
1 AAAAAAAC-A
14015887 AAAAAAACA
1 AAAAAAACA
14015896 AAAAA
1 AAAAA
14015901 TTACCTCTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 23 0.72
10 9 0.28
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAACA
Found at i:14015874 original size:18 final size:17
Alignment explanation
Indices: 14015851--14015900 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 17
14015841 GAGCTTTGAT
*
14015851 AAAAAAATAAAAAAACA
1 AAAAAAAAAAAAAAACA
14015868 AAAAAAACAAAAAAAACA
1 AAAAAAA-AAAAAAAACA
14015886 AAAAAAAACAAAAAA
1 AAAAAAAA-AAAAAA
14015901 TTACCTCTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 8 0.27
18 22 0.73
ACGTcount: A:0.90, C:0.08, G:0.00, T:0.02
Consensus pattern (17 bp):
AAAAAAAAAAAAAAACA
Found at i:14016318 original size:20 final size:20
Alignment explanation
Indices: 14016260--14016318 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
14016250 ATTGTTATTC
*
14016260 ATTTGTATTTTA-GATTTTT
1 ATTTTTATTTTATGATTTTT
*
14016279 -TTATTTCATATTTATCATTTTT
1 ATT-TTT-AT-TTTATGATTTTT
14016301 ATTTTTATTTTATGATTT
1 ATTTTTATTTTATGATTT
14016319 ATTTTCTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
18 2 0.06
19 2 0.06
20 11 0.34
21 6 0.19
22 9 0.28
23 2 0.06
ACGTcount: A:0.22, C:0.03, G:0.05, T:0.69
Consensus pattern (20 bp):
ATTTTTATTTTATGATTTTT
Found at i:14016332 original size:27 final size:26
Alignment explanation
Indices: 14016274--14016334 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
14016264 GTATTTTAGA
14016274 TTTTTTTATTTCATATTTATCATTTT
1 TTTTTTTATTTCATATTTATCATTTT
* * **
14016300 TATTTTTATTTTATGATTTATTTTCTTT
1 TTTTTTTATTTCAT-ATTTATCAT-TTT
14016328 TTTTTTT
1 TTTTTTT
14016335 CTTTTGATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 12 0.43
27 7 0.25
28 9 0.32
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (26 bp):
TTTTTTTATTTCATATTTATCATTTT
Found at i:14018902 original size:58 final size:58
Alignment explanation
Indices: 14018779--14019046 Score: 326
Period size: 58 Copynumber: 4.5 Consensus size: 58
14018769 AAATATTCTC
* * * **
14018779 GAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTCCAAAAAAATAAATTTTTTTTT
1 GAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTTC--AAAAA-AAA---GGTTTT
*
14018844 GAGGAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAAGGTTTT
1 GAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAAGGTTTT
* *
14018902 GAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAA-ATATTCT
1 GAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAAGGT-TT-T
*
14018961 CGAGGAAAAGTTGAAAGTATCAA-TTTTCGTTAAAAATAAA-TTTAAAAAAAAAGGTTTTT
1 -GAGGAAAAGTTGAAAGTATCAATTTTTC-TTAAAAATAAATTTTCAAAAAAAAGG-TTTT
14019020 GAGGAAAAGTTGAAAGTATCAATTTTT
1 GAGGAAAAGTTGAAAGTATCAATTTTT
14019047 TTCGAAATTA
Statistics
Matches: 184, Mismatches: 12, Indels: 20
0.85 0.06 0.09
Matches are distributed among these distances:
57 1 0.01
58 78 0.42
59 21 0.11
60 35 0.19
61 4 0.02
62 5 0.03
64 4 0.02
65 36 0.20
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.34
Consensus pattern (58 bp):
GAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAAGGTTTT
Found at i:14019020 original size:118 final size:122
Alignment explanation
Indices: 14018779--14019070 Score: 409
Period size: 118 Copynumber: 2.4 Consensus size: 122
14018769 AAATATTCTC
* * * *
14018779 GAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTCCAAAAAAATAAATTTTTTTTT
1 GAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTCCAAAAAAATAAA-TTATTCTC
*
14018844 GAGGAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAAGGTTTT
65 GAGGAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAATTTTAAAAAAAAAGGTTTT
*
14018902 GAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTTC-AAAAAA-AAA-TATTCTCG
1 GAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTCCAAAAAAATAAATTATTCTCG
*
14018963 AGGAAAAGTTGAAAGTATCAA-TTTTCGTTAAAAATAAA-TTTAAAAAAAAAGGTTTTT
66 AGGAAAAGTTAAAAGTATCAATTTTTC-TTAAAAATAAATTTTAAAAAAAAAGG-TTTT
* * *
14019020 GAGGAAAAGTTGAAAGTATCAATTTT-TTTCGAAATTAAAGTTTCCAAAAAA
1 GAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAAGTTTCCAAAAAA
14019071 TATTTTTCCC
Statistics
Matches: 153, Mismatches: 11, Indels: 13
0.86 0.06 0.07
Matches are distributed among these distances:
117 20 0.13
118 73 0.48
119 4 0.03
120 8 0.05
121 6 0.04
122 4 0.03
123 38 0.25
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.34
Consensus pattern (122 bp):
GAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTCCAAAAAAATAAATTATTCTCG
AGGAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAATTTTAAAAAAAAAGGTTTT
Found at i:14019077 original size:58 final size:58
Alignment explanation
Indices: 14018766--14019077 Score: 315
Period size: 58 Copynumber: 5.2 Consensus size: 58
14018756 ATAATTTGAA
* * *
14018766 AAAAAATA-TTCTCGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTCC
1 AAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTCC
* * *
14018824 AAAAAAATAAATTTTTTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAATTTTC
1 -AAAAAAT--A---TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCC
* ** *
14018888 AAAAAAAAGGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCA
1 AAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTCC
* * * * *
14018947 AAAAAAAATATTCTCGAGGAAAAGTTGAAAGTATCAATTTTCGTTAAAAATAAATTT-A
1 AAAAAATAT-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCC
* * * * *
14019005 AAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTT-TTTCGAAATTAAAGTTTCC
1 AAAAAATA-TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAA-TTTCC
14019065 AAAAAATATTTTT
1 AAAAAATATTTTT
14019078 CCCTACACAT
Statistics
Matches: 214, Mismatches: 27, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
57 2 0.01
58 86 0.40
59 28 0.13
60 47 0.22
61 2 0.01
63 6 0.03
64 4 0.02
65 39 0.18
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (58 bp):
AAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCC
Found at i:14024488 original size:74 final size:74
Alignment explanation
Indices: 14024367--14024506 Score: 271
Period size: 74 Copynumber: 1.9 Consensus size: 74
14024357 ATGCTCGAAG
*
14024367 GTCTTAAAAATCTTTGAATGCTCCCCGTATCAGAGGCATTGAAACTTTAAAAATTTAAAATTTTT
1 GTCTTAAAAATCTTTGAATGCTCCCCGTATAAGAGGCATTGAAACTTTAAAAATTTAAAATTTTT
14024432 TGCCCAGAA
66 TGCCCAGAA
14024441 GTCTTAAAAATCTTTGAATGCTCCCCGTATAAGAGGCATTGAAACTTTAAAAATTTAAAATTTTT
1 GTCTTAAAAATCTTTGAATGCTCCCCGTATAAGAGGCATTGAAACTTTAAAAATTTAAAATTTTT
14024506 T
66 T
14024507 ACCTAGAGGT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
74 65 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (74 bp):
GTCTTAAAAATCTTTGAATGCTCCCCGTATAAGAGGCATTGAAACTTTAAAAATTTAAAATTTTT
TGCCCAGAA
Found at i:14024745 original size:22 final size:22
Alignment explanation
Indices: 14024707--14024760 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
14024697 ACTTTAAAAA
* * *
14024707 TTTAAAATATTTTGCCCAGAGGT
1 TTTAAAA-ATTGTGCCCAAAAGT
*
14024730 TTTGAAAATTGTGCCCAAAAGT
1 TTTAAAAATTGTGCCCAAAAGT
14024752 TTTAAAAAT
1 TTTAAAAAT
14024761 CTTTGAAGGC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (22 bp):
TTTAAAAATTGTGCCCAAAAGT
Found at i:14024834 original size:96 final size:96
Alignment explanation
Indices: 14024561--14024834 Score: 350
Period size: 96 Copynumber: 2.9 Consensus size: 96
14024551 ATATTTGGTC
* * * ** *
14024561 TTAAAAATCTTTGAATGATCCTCGTATTAGAGGTGTTAAAACTTTAAAAATTTAAAATATTTTGC
1 TTAAAAATCTTTGAATGCTCCCCATATTAGAGGCATTGAAACTTTAAAAATTTAAAATATTTTGC
* * *** *
14024626 CCAAAGGTCTTAGAAATTATGCCTGGAGGTT
66 CCAGAGGTCTTAAAAATTATGCCCAAAAGTT
* *
14024657 ATAAAAATCTTTGAATGCTCCCTATATTAGAGGCATTGAAACTTTAAAAATTTAAAATATTTTGC
1 TTAAAAATCTTTGAATGCTCCCCATATTAGAGGCATTGAAACTTTAAAAATTTAAAATATTTTGC
* * *
14024722 CCAGAGGTTTTGAAAATTGTGCCCAAAAGTT
66 CCAGAGGTCTTAAAAATTATGCCCAAAAGTT
* * *
14024753 TTAAAAATCTTTGAAGGCTCCCCATATTAGAGGCATTGAAGCTTTAAAAATTTAAAATGTTTTGC
1 TTAAAAATCTTTGAATGCTCCCCATATTAGAGGCATTGAAACTTTAAAAATTTAAAATATTTTGC
* *
14024818 TCGGAGGTCTTAAAAAT
66 CCAGAGGTCTTAAAAAT
14024835 CTTTGAATGC
Statistics
Matches: 152, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
96 152 1.00
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (96 bp):
TTAAAAATCTTTGAATGCTCCCCATATTAGAGGCATTGAAACTTTAAAAATTTAAAATATTTTGC
CCAGAGGTCTTAAAAATTATGCCCAAAAGTT
Found at i:14024874 original size:74 final size:74
Alignment explanation
Indices: 14024753--14024908 Score: 233
Period size: 74 Copynumber: 2.1 Consensus size: 74
14024743 CCCAAAAGTT
* * *
14024753 TTAAAAATCTTTGAAGGCTCCCCATATTAGAGGCATTGAAGCTTTAAAAATTTAAAATGTTTTG-
1 TTAAAAATCTTTGAAGGCTCCACATATCAGAGGCATTGAAACTTTAAAAATTTAAAATGTTTTGC
14024817 CTCGGAGGTC
66 CTC-GAGGTC
* **
14024827 TTAAAAATCTTTGAATGCTCCATGTATCAGAGGCATTGAAACTTTAAAAATTTAAAATGTTTTGC
1 TTAAAAATCTTTGAAGGCTCCACATATCAGAGGCATTGAAACTTTAAAAATTTAAAATGTTTTGC
*
14024892 CTCGAGGTT
66 CTCGAGGTC
14024901 TTAAAAAT
1 TTAAAAAT
14024909 TATCTAGGTG
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
74 71 0.96
75 3 0.04
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (74 bp):
TTAAAAATCTTTGAAGGCTCCACATATCAGAGGCATTGAAACTTTAAAAATTTAAAATGTTTTGC
CTCGAGGTC
Found at i:14025517 original size:41 final size:41
Alignment explanation
Indices: 14025441--14025526 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 41
14025431 CAAGTGAAGT
* *
14025441 AAATACGAATGTCTTTCTTATGACGCGGATGCAAGTAATAC
1 AAATACGAATGTCTTTCTTATGACGCAGATCCAAGTAATAC
* * * *
14025482 AAATACGAATGTCTTT-TTCATGATGTAGATCCAAGTGATGC
1 AAATACGAATGTCTTTCTT-ATGACGCAGATCCAAGTAATAC
14025523 AAAT
1 AAAT
14025527 GCAAATGGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 2 0.05
41 36 0.95
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (41 bp):
AAATACGAATGTCTTTCTTATGACGCAGATCCAAGTAATAC
Found at i:14025614 original size:44 final size:42
Alignment explanation
Indices: 14025543--14025938 Score: 277
Period size: 44 Copynumber: 9.3 Consensus size: 42
14025533 GGTTTTTCCT
* *
14025543 TGATGCAAATGCAAATTTCTTTCTTCTTGTGACACATATGCAAG
1 TGATGCAAATGCAAATATCTTTTTTCTTGTGACA-A-ATGCAAG
* * ** *
14025587 TGACGCAAATGCAAATATCTTTTTTCTTGTGATGTAGGTGCTAG
1 TGATGCAAATGCAAATATCTTTTTTCTTGTGA--CAAATGCAAG
* * * **
14025631 TGATGCAAATGCAAATGTCTTTTTT-ATGATG-TAGTTGCAAG
1 TGATGCAAATGCAAATATCTTTTTTCTTG-TGACAAATGCAAG
* * * *
14025672 TGATGCAAATGCGAATATCTTTTTT-ATGTTACAAATGTAAG
1 TGATGCAAATGCAAATATCTTTTTTCTTGTGACAAATGCAAG
* * *
14025713 TGATGTAAATGCAAATGTCTTTTTTCTTAATG-CAAATGCAAG
1 TGATGCAAATGCAAATATCTTTTTTCTT-GTGACAAATGCAAG
* * * *
14025755 TAATGCAAATGCAAATATCTTTTTTCTTGTAATACAGATGCAAA
1 TGATGCAAATGCAAATATCTTTTTTCTTGT--GACAAATGCAAG
* * *
14025799 TGATGCAAATGAAAATATC-TTTTTCATGATG-CAAATGTAAG
1 TGATGCAAATGCAAATATCTTTTTTCTTG-TGACAAATGCAAG
* * * *
14025840 CGATGTAAATGCAAATGTCTTTTTTCTTGTGATGCAGATGCAAG
1 TGATGCAAATGCAAATATCTTTTTTCTTGTGA--CAAATGCAAG
* ** * * * *
14025884 CGATATAAATGCAAATGT-TTCTTTCATGATG-CAAAAGCAAG
1 TGATGCAAATGCAAATATCTTTTTTCTTG-TGACAAATGCAAG
* *
14025925 CGATGCAAAAGCAA
1 TGATGCAAATGCAA
14025939 GCGATGCAAA
Statistics
Matches: 282, Mismatches: 55, Indels: 33
0.76 0.15 0.09
Matches are distributed among these distances:
40 1 0.00
41 106 0.38
42 43 0.15
43 19 0.07
44 112 0.40
46 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.35
Consensus pattern (42 bp):
TGATGCAAATGCAAATATCTTTTTTCTTGTGACAAATGCAAG
Found at i:14025674 original size:41 final size:41
Alignment explanation
Indices: 14025543--14025938 Score: 267
Period size: 41 Copynumber: 9.3 Consensus size: 41
14025533 GGTTTTTCCT
*
14025543 TGATGCAAATGCAAATTTCTTTCTTCT-TG-TGACACATATGCAAG
1 TGATGCAAATGCAAATATCTTT-TT-TATGATG-CA-A-ATGCAAG
* * * ** *
14025587 TGACGCAAATGCAAATATCTTTTTTCTTGTGATGTAGGTGCTAG
1 TGATGCAAATGCAAATATC--TTTT-TTATGATGCAAATGCAAG
* * **
14025631 TGATGCAAATGCAAATGTCTTTTTTATGATGTAGTTGCAAG
1 TGATGCAAATGCAAATATCTTTTTTATGATGCAAATGCAAG
* * * *
14025672 TGATGCAAATGCGAATATCTTTTTTATGTTACAAATGTAAG
1 TGATGCAAATGCAAATATCTTTTTTATGATGCAAATGCAAG
* * * *
14025713 TGATGTAAATGCAAATGTCTTTTTTCTTAATGCAAATGCAAG
1 TGATGCAAATGCAAATATCTTTTTT-ATGATGCAAATGCAAG
* * * * *
14025755 TAATGCAAATGCAAATATCTTTTTTCTTGTAATACAGATGCAAA
1 TGATGCAAATGCAAATATCTTTTTT-ATG--ATGCAAATGCAAG
* * *
14025799 TGATGCAAATGAAAATATCTTTTTCATGATGCAAATGTAAG
1 TGATGCAAATGCAAATATCTTTTTTATGATGCAAATGCAAG
* * * * *
14025840 CGATGTAAATGCAAATGTCTTTTTTCTTGTGATGCAGATGCAAG
1 TGATGCAAATGCAAATATC--TTTT-TTATGATGCAAATGCAAG
* ** * * *
14025884 CGATATAAATGCAAATGT-TTCTTTCATGATGCAAAAGCAAG
1 TGATGCAAATGCAAATATCTT-TTTTATGATGCAAATGCAAG
* *
14025925 CGATGCAAAAGCAA
1 TGATGCAAATGCAA
14025939 GCGATGCAAA
Statistics
Matches: 282, Mismatches: 58, Indels: 27
0.77 0.16 0.07
Matches are distributed among these distances:
41 121 0.43
42 42 0.15
43 6 0.02
44 102 0.36
45 2 0.01
46 7 0.02
47 2 0.01
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.35
Consensus pattern (41 bp):
TGATGCAAATGCAAATATCTTTTTTATGATGCAAATGCAAG
Found at i:14025689 original size:85 final size:85
Alignment explanation
Indices: 14025543--14025938 Score: 397
Period size: 85 Copynumber: 4.6 Consensus size: 85
14025533 GGTTTTTCCT
* * *
14025543 TGATGCAAATGCAAATTTCTTTCTTCTTG-TGACACATATGCAAGTGACGCAAATGCAAATATCT
1 TGATGCAAATGCAAATGTCTTT-TTCATGATG-CA-A-ATGCAAGTGATGCAAATGCAAATATCT
** * *
14025607 TTTTTCTTGTGATGTAGGTGCTAG
62 TTTTTCTTGTGATACAGATGCAAG
* * ** *
14025631 TGATGCAAATGCAAATGTCTTTTTTATGATGTAGTTGCAAGTGATGCAAATGCGAATATCTTTTT
1 TGATGCAAATGCAAATGTCTTTTTCATGATGCAAATGCAAGTGATGCAAATGCAAATATCTTTTT
* * *
14025696 T-ATGT--TACAAATGTAAG
66 TCTTGTGATACAGATGCAAG
* * * *
14025713 TGATGTAAATGCAAATGTCTTTTTTCTTAATGCAAATGCAAGTAATGCAAATGCAAATATCTTTT
1 TGATGCAAATGCAAATGTC-TTTTTCATGATGCAAATGCAAGTGATGCAAATGCAAATATCTTTT
* *
14025778 TTCTTGTAATACAGATGCAAA
65 TTCTTGTGATACAGATGCAAG
* * * * * *
14025799 TGATGCAAATGAAAATATCTTTTTCATGATGCAAATGTAAGCGATGTAAATGCAAATGTCTTTTT
1 TGATGCAAATGCAAATGTCTTTTTCATGATGCAAATGCAAGTGATGCAAATGCAAATATCTTTTT
*
14025864 TCTTGTGATGCAGATGCAAG
66 TCTTGTGATACAGATGCAAG
* ** * * *
14025884 CGATATAAATGCAAATGT-TTCTTTCATGATGCAAAAGCAAGCGATGCAAAAGCAA
1 TGATGCAAATGCAAATGTCTT-TTTCATGATGCAAATGCAAGTGATGCAAATGCAA
14025939 GCGATGCAAA
Statistics
Matches: 252, Mismatches: 50, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
82 24 0.10
83 39 0.15
84 8 0.03
85 128 0.51
86 25 0.10
87 5 0.02
88 23 0.09
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.35
Consensus pattern (85 bp):
TGATGCAAATGCAAATGTCTTTTTCATGATGCAAATGCAAGTGATGCAAATGCAAATATCTTTTT
TCTTGTGATACAGATGCAAG
Found at i:14025758 original size:15 final size:15
Alignment explanation
Indices: 14025740--14025768 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
14025730 TCTTTTTTCT
14025740 TAATGCAAATGCAAG
1 TAATGCAAATGCAAG
14025755 TAATGCAAATGCAA
1 TAATGCAAATGCAA
14025769 ATATCTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (15 bp):
TAATGCAAATGCAAG
Found at i:14025863 original size:168 final size:170
Alignment explanation
Indices: 14025543--14025864 Score: 407
Period size: 168 Copynumber: 1.9 Consensus size: 170
14025533 GGTTTTTCCT
* * *
14025543 TGATGCAAATGCAAATTTCTTTCTTCTTGTGACACATATGCAAGTGACGCAAATGCAAATATCTT
1 TGATGCAAATGCAAATGTCTTTCTTCTTATGACACATATGCAAGTAACGCAAATGCAAATATCTT
* ** * * * * * * * ** *
14025608 TTTTCTTGTGATGTAGGTGCTAGTGATGCAAATGCAAATGTCTTTTTTATGATGTAGTTGCAAGT
66 TTTTCTTGTAATACAGATGCAAATGATGCAAATGAAAATATCTTTTTCATGATGCAAATGCAAGC
*
14025673 GATGCAAATGCGAATATCTTTTTTATGTTACAAATGTAAG
131 GATGCAAATGCAAATATCTTTTTTATGTTACAAATGTAAG
* * *
14025713 TGATGTAAATGCAAATGTCTTTTTTCTTAATG-CA-A-ATGCAAGTAATGCAAATGCAAATATCT
1 TGATGCAAATGCAAATGTCTTTCTTCTT-ATGACACATATGCAAGTAACGCAAATGCAAATATCT
*
14025775 TTTTTCTTGTAATACAGATGCAAATGATGCAAATGAAAATATCTTTTTCATGATGCAAATGTAAG
65 TTTTTCTTGTAATACAGATGCAAATGATGCAAATGAAAATATCTTTTTCATGATGCAAATGCAAG
* *
14025840 CGATGTAAATGCAAATGTCTTTTTT
130 CGATGCAAATGCAAATATCTTTTTT
14025865 CTTGTGATGC
Statistics
Matches: 128, Mismatches: 23, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
168 98 0.77
169 1 0.01
170 27 0.21
171 2 0.02
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (170 bp):
TGATGCAAATGCAAATGTCTTTCTTCTTATGACACATATGCAAGTAACGCAAATGCAAATATCTT
TTTTCTTGTAATACAGATGCAAATGATGCAAATGAAAATATCTTTTTCATGATGCAAATGCAAGC
GATGCAAATGCAAATATCTTTTTTATGTTACAAATGTAAG
Found at i:14025930 original size:100 final size:99
Alignment explanation
Indices: 14025826--14026018 Score: 264
Period size: 100 Copynumber: 1.9 Consensus size: 99
14025816 TCTTTTTCAT
* * * * *
14025826 GATGCAAATGTAAGCGATGTAAATGCAAATGTCTTTTTTCTTGTGATGC-AGATGCAAGCGATAT
1 GATGCAAAAGCAAGCGATGCAAATGCAAATGTCCTTTTTCTTGTAATGCAAG-TGCAAGCGATAT
14025890 AAATGCAAATGTTTCTTTC-ATGATGCAAAAGCAAGC
65 AAATGCAAATG--TCTTTCTATGATGCAAAAGCAAGC
* * *
14025926 GATGCAAAAGCAAGCGATGCAAATGCAAATGTCCTTTTTCTTGTAATGCAAGTGCTAGTGATGTA
1 GATGCAAAAGCAAGCGATGCAAATGCAAATGTCCTTTTTCTTGTAATGCAAGTGCAAGCGATATA
14025991 AATGCAAATGTCTTTCTTATGATGCAAA
66 AATGCAAATGTCTTTC-TATGATGCAAA
14026019 TGTCTTTCTT
Statistics
Matches: 82, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
98 6 0.07
100 74 0.90
101 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.31
Consensus pattern (99 bp):
GATGCAAAAGCAAGCGATGCAAATGCAAATGTCCTTTTTCTTGTAATGCAAGTGCAAGCGATATA
AATGCAAATGTCTTTCTATGATGCAAAAGCAAGC
Found at i:14025931 original size:15 final size:15
Alignment explanation
Indices: 14025911--14025953 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
14025901 TTTCTTTCAT
14025911 GATGCAAAAGCAAGC
1 GATGCAAAAGCAAGC
14025926 GATGCAAAAGCAAGC
1 GATGCAAAAGCAAGC
*
14025941 GATGCAAATGCAA
1 GATGCAAAAGCAA
14025954 ATGTCCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.47, C:0.19, G:0.26, T:0.09
Consensus pattern (15 bp):
GATGCAAAAGCAAGC
Found at i:14026017 original size:20 final size:20
Alignment explanation
Indices: 14025992--14026041 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
14025982 AGTGATGTAA
14025992 ATGCAAATGTCTTTCTTATG
1 ATGCAAATGTCTTTCTTATG
14026012 ATGCAAATGTCTTTCTTATG
1 ATGCAAATGTCTTTCTTATG
14026032 ATGCAAATGT
1 ATGCAAATGT
14026042 AAGTAATGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (20 bp):
ATGCAAATGTCTTTCTTATG
Found at i:14026069 original size:14 final size:15
Alignment explanation
Indices: 14026032--14026069 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
14026022 CTTTCTTATG
*
14026032 ATGCAAATGTAAGTA
1 ATGCAAATGTAAGCA
*
14026047 ATGCAAATGTAAGCG
1 ATGCAAATGTAAGCA
14026062 AT-CAAATG
1 ATGCAAATG
14026070 GAAATGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.24
Consensus pattern (15 bp):
ATGCAAATGTAAGCA
Found at i:14026105 original size:119 final size:122
Alignment explanation
Indices: 14025892--14026141 Score: 339
Period size: 119 Copynumber: 2.1 Consensus size: 122
14025882 AGCGATATAA
*
14025892 ATGCAAATG--TTTCTTTCATGATGCAAAAGCAAGCGATGCAAAAGCAAGCGATGCAAATGCAAA
1 ATGCAAATGTCTTTCTTTCATGATGCAAAAGCAAGCAATGCAAAAGCAAGCGATGCAAATGCAAA
* * * *
14025955 TGTCCTTTTTCTTGTAATGCAAGTGCTAGTGATGTAAATGCAAATGTCTTTCTTATG
66 TGTCCTTTTTCTTATAATACAAGTGCTAGTGATGCAAATGCAAATATCTTTCTTATG
* * * * * *
14026012 ATGCAAATGTCTTTC-TT-ATGATGCAAATGTAAGTAATGCAAATGTAAGCGAT-CAAATGGAAA
1 ATGCAAATGTCTTTCTTTCATGATGCAAAAGCAAGCAATGCAAAAGCAAGCGATGCAAATGCAAA
* *
14026074 TGTCTTTTTTCTTATAATACAAGTGCTAGTGATGCAAATGCAAATATCTTTTTTATG
66 TGTCCTTTTTCTTATAATACAAGTGCTAGTGATGCAAATGCAAATATCTTTCTTATG
*
14026131 ATGCACATGTC
1 ATGCAAATGTC
14026142 AATATAGATG
Statistics
Matches: 114, Mismatches: 14, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
119 70 0.61
120 38 0.33
121 2 0.02
122 4 0.04
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.34
Consensus pattern (122 bp):
ATGCAAATGTCTTTCTTTCATGATGCAAAAGCAAGCAATGCAAAAGCAAGCGATGCAAATGCAAA
TGTCCTTTTTCTTATAATACAAGTGCTAGTGATGCAAATGCAAATATCTTTCTTATG
Found at i:14027572 original size:20 final size:19
Alignment explanation
Indices: 14027549--14027594 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
14027539 AGAAAAAATC
*
14027549 AAACAAAAGAAGAATAAGAA
1 AAACAAAACAAGAATAAG-A
* *
14027569 AAACTAAACAAGATTAAGA
1 AAACAAAACAAGAATAAGA
14027588 AAACAAA
1 AAACAAA
14027595 GAAAATAGCA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.72, C:0.09, G:0.11, T:0.09
Consensus pattern (19 bp):
AAACAAAACAAGAATAAGA
Found at i:14029304 original size:18 final size:19
Alignment explanation
Indices: 14029281--14029320 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
14029271 AATCTCAATG
*
14029281 AATGCATGCAAACA-AAAC
1 AATGCATGAAAACAGAAAC
*
14029299 AATGCATGAAAATAGAAAC
1 AATGCATGAAAACAGAAAC
14029318 AAT
1 AAT
14029321 TAATCGAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.57, C:0.15, G:0.12, T:0.15
Consensus pattern (19 bp):
AATGCATGAAAACAGAAAC
Found at i:14031845 original size:269 final size:270
Alignment explanation
Indices: 14031504--14031994 Score: 786
Period size: 269 Copynumber: 1.8 Consensus size: 270
14031494 AAATAATTTT
** * *
14031504 AAAAACTAAATTGATTATGTTTATATTTTTTATTATTAACTTTAAATCACTCTCAGTTCAATTCA
1 AAAAACTAAATTGATTAAATTTATAGTTTTTATTATTAACTTTAAATCACTCTCAATTCAATTCA
* * *
14031569 TATTAAAAGTATTAAAATTTTAAAAATTTCTTAATTTGACAAATTAAATCAATAAATATATAATT
66 TATTAAAAATATTAAAATATTAAAAATTTCATAATTTGACAAATTAAATCAATAAATATATAATT
* * * *
14031634 AATAAATTAGTAAATATTACAATTACAATTATAAAATAATTGATTCTCTAATCAATTATTTGATA
131 AATAAATTAATAAATACTACAATTACAATTATAAAATAATTGATTATCTAATCAATTATTCGATA
*
14031699 CATTTATATTTGATTAAATATGGTATCAGTAATTGATGTATTTTCTATGTAAATATATAAAACGA
196 CATTTATATTTGATTAAATATAGTATCAGTAATTGATGTATTTTCTATGTAAATATATAAAACGA
14031764 ATATAATTCA
261 ATATAATTCA
* * * * *
14031774 AAAAACTAAATTTATTAAATTTAT-GTTTTTATTATTGATTTTAAATCACTCTTAATTTAATTCA
1 AAAAACTAAATTGATTAAATTTATAGTTTTTATTATTAACTTTAAATCACTCTCAATTCAATTCA
*
14031838 TATTAAAAATATTAAAATATTAAAAATTTCATAATTTGACAAATTAAATCAATCAATATATAATT
66 TATTAAAAATATTAAAATATTAAAAATTTCATAATTTGACAAATTAAATCAATAAATATATAATT
* * *
14031903 AATAAATTAATAAATACTACAATTTCAATTATAAAATAGTTGATTATCTAATTAATTATTCGATA
131 AATAAATTAATAAATACTACAATTACAATTATAAAATAATTGATTATCTAATCAATTATTCGATA
14031968 CATTTATATTTGATTAAATATAGTATC
196 CATTTATATTTGATTAAATATAGTATC
14031995 CATTTGAGTA
Statistics
Matches: 200, Mismatches: 21, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
269 179 0.89
270 21 0.10
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.43
Consensus pattern (270 bp):
AAAAACTAAATTGATTAAATTTATAGTTTTTATTATTAACTTTAAATCACTCTCAATTCAATTCA
TATTAAAAATATTAAAATATTAAAAATTTCATAATTTGACAAATTAAATCAATAAATATATAATT
AATAAATTAATAAATACTACAATTACAATTATAAAATAATTGATTATCTAATCAATTATTCGATA
CATTTATATTTGATTAAATATAGTATCAGTAATTGATGTATTTTCTATGTAAATATATAAAACGA
ATATAATTCA
Found at i:14032186 original size:32 final size:32
Alignment explanation
Indices: 14032150--14032228 Score: 115
Period size: 32 Copynumber: 2.5 Consensus size: 32
14032140 TATGATTTCA
* *
14032150 TTTGATTTTATTTGGTAAAATATTAATGCATG
1 TTTGATTTCATTTGATAAAATATTAATGCATG
*
14032182 TTTGATTTCATTTGATAAAATATTAATGCA-C
1 TTTGATTTCATTTGATAAAATATTAATGCATG
*
14032213 TTGGATTTCATTTGAT
1 TTTGATTTCATTTGAT
14032229 TTCATTTGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
31 15 0.35
32 28 0.65
ACGTcount: A:0.30, C:0.06, G:0.14, T:0.49
Consensus pattern (32 bp):
TTTGATTTCATTTGATAAAATATTAATGCATG
Found at i:14034296 original size:12 final size:12
Alignment explanation
Indices: 14034281--14034312 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
14034271 ATGAATTGAA
14034281 ATATATATATGT
1 ATATATATATGT
*
14034293 ATATGTATATGT
1 ATATATATATGT
14034305 ATATATAT
1 ATATATAT
14034313 CTATATATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (12 bp):
ATATATATATGT
Found at i:14034311 original size:10 final size:10
Alignment explanation
Indices: 14034282--14034321 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
14034272 TGAATTGAAA
14034282 TATATATATG
1 TATATATATG
14034292 TATATGTATATG
1 TATA--TATATG
*
14034304 TATATATATC
1 TATATATATG
14034314 TATATATA
1 TATATATA
14034322 CCACAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 17 0.63
12 10 0.37
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (10 bp):
TATATATATG
Found at i:14036449 original size:16 final size:15
Alignment explanation
Indices: 14036428--14036457 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
14036418 ATACGAGTCT
14036428 TTGGTTTTGTGGGTGG
1 TTGGTTTTG-GGGTGG
14036444 TTGGTTTTGGGGTG
1 TTGGTTTTGGGGTG
14036458 TTTTAACAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (15 bp):
TTGGTTTTGGGGTGG
Found at i:14039043 original size:26 final size:26
Alignment explanation
Indices: 14038988--14039052 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 26
14038978 GCATGACTAT
*
14038988 GTTTAATTTAATTTTATATTGACTTT
1 GTTTAATTTAATTTTATATTGACTTG
* * *
14039014 GTTTAATTT-ATTTGTTTATTTAGTTG
1 GTTTAATTTAATTT-TATATTGACTTG
14039040 GTTT-A-TTAATTTT
1 GTTTAATTTAATTTT
14039053 TTTTCTACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
24 3 0.09
25 9 0.27
26 21 0.64
ACGTcount: A:0.23, C:0.02, G:0.11, T:0.65
Consensus pattern (26 bp):
GTTTAATTTAATTTTATATTGACTTG
Found at i:14039411 original size:13 final size:14
Alignment explanation
Indices: 14039386--14039430 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
14039376 TAGTATTAAT
14039386 AATAAATAAATACA
1 AATAAATAAATACA
*
14039400 TATAAA-AAATACA
1 AATAAATAAATACA
*
14039413 AATAATTAAA-A-A
1 AATAAATAAATACA
14039425 AATAAA
1 AATAAA
14039431 ATATATACGA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 6 0.23
13 12 0.46
14 8 0.31
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (14 bp):
AATAAATAAATACA
Found at i:14044442 original size:13 final size:13
Alignment explanation
Indices: 14044411--14044461 Score: 61
Period size: 13 Copynumber: 3.9 Consensus size: 13
14044401 TAATGATACC
14044411 TTTTAATTTATTAA
1 TTTTAATTT-TTAA
*
14044425 TTTTAATTTTTGA
1 TTTTAATTTTTAA
14044438 TTTTAA-TTTTAA
1 TTTTAATTTTTAA
14044450 -TTTAATTATTTA
1 TTTTAATT-TTTA
14044462 TAATAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
11 5 0.15
12 6 0.18
13 13 0.39
14 9 0.27
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (13 bp):
TTTTAATTTTTAA
Found at i:14044461 original size:19 final size:19
Alignment explanation
Indices: 14044412--14044461 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 19
14044402 AATGATACCT
14044412 TTTAATT-TATTAATTTTAA
1 TTTAATTAT-TTAATTTTAA
14044431 TTT--TTGATTTTAATTTTAA
1 TTTAATT-A-TTTAATTTTAA
14044450 TTTAATTATTTA
1 TTTAATTATTTA
14044462 TAATAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
17 2 0.08
19 20 0.77
20 2 0.08
21 2 0.08
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTAATTATTTAATTTTAA
Found at i:14046624 original size:19 final size:19
Alignment explanation
Indices: 14046600--14046648 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
14046590 TTAAAAAATT
* * *
14046600 AAATTATTTAATATTTATA
1 AAATTATTAAATAATTAAA
14046619 AAATTATTAAATAATTAAA
1 AAATTATTAAATAATTAAA
14046638 AAATT-TTAAAT
1 AAATTATTAAAT
14046649 TATTTTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 6 0.22
19 21 0.78
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AAATTATTAAATAATTAAA
Found at i:14047581 original size:16 final size:17
Alignment explanation
Indices: 14047550--14047582 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
14047540 TTTACTTCAA
*
14047550 AATTTTTAATTTAATTT
1 AATTTTTAATTAAATTT
14047567 AATTTTT-ATTAAATTT
1 AATTTTTAATTAAATTT
14047583 TTTAAAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
AATTTTTAATTAAATTT
Found at i:14048159 original size:24 final size:26
Alignment explanation
Indices: 14048132--14048191 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 26
14048122 TTTTTCAAAG
**
14048132 CTTTTGCTTTTTTTGGAA-TTTTTT-
1 CTTTTGCTTTTTTTAAAACTTTTTTA
14048156 CTTTT--TTTTTTTAAAACTTTTTTA
1 CTTTTGCTTTTTTTAAAACTTTTTTA
*
14048180 CTTTTGCCTTTT
1 CTTTTGCTTTTT
14048192 ATTAGATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 9 0.31
23 6 0.21
24 10 0.34
26 4 0.14
ACGTcount: A:0.12, C:0.12, G:0.07, T:0.70
Consensus pattern (26 bp):
CTTTTGCTTTTTTTAAAACTTTTTTA
Found at i:14050881 original size:30 final size:30
Alignment explanation
Indices: 14050811--14050919 Score: 155
Period size: 30 Copynumber: 3.6 Consensus size: 30
14050801 TTCTCAATCC
* * *
14050811 CTCTCTATTCTCTTTTTAGTCTCCTCAATT
1 CTCTCTGTTCTCTTCTTAGTCTCTTCAATT
* *
14050841 CTTTTCTGTTCTCTTCTTAGTCTTTTCAATT
1 C-TCTCTGTTCTCTTCTTAGTCTCTTCAATT
14050872 CTCTCTGTTCTCTTCTTAGTCTCTTCAATT
1 CTCTCTGTTCTCTTCTTAGTCTCTTCAATT
*
14050902 CTTTCTGTTCTCTTCTTA
1 CTCTCTGTTCTCTTCTTA
14050920 ATCTTTAAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
30 45 0.64
31 25 0.36
ACGTcount: A:0.10, C:0.28, G:0.06, T:0.57
Consensus pattern (30 bp):
CTCTCTGTTCTCTTCTTAGTCTCTTCAATT
Found at i:14050883 original size:61 final size:60
Alignment explanation
Indices: 14050811--14050925 Score: 185
Period size: 61 Copynumber: 1.9 Consensus size: 60
14050801 TTCTCAATCC
* *
14050811 CTCTCTATTCTCTTTTTAGTCTCCTCAATTCTTTTCTGTTCTCTTCTTAGTCTTTTCAATT
1 CTCTCTATTCTCTTCTTAGTCTCCTCAATTC-TTTCTGTTCTCTTCTTAATCTTTTCAATT
* *
14050872 CTCTCTGTTCTCTTCTTAGTCTCTTCAATTCTTTCTGTTCTCTTCTTAATCTTT
1 CTCTCTATTCTCTTCTTAGTCTCCTCAATTCTTTCTGTTCTCTTCTTAATCTTT
14050926 AAAACCCTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
60 22 0.44
61 28 0.56
ACGTcount: A:0.10, C:0.27, G:0.05, T:0.57
Consensus pattern (60 bp):
CTCTCTATTCTCTTCTTAGTCTCCTCAATTCTTTCTGTTCTCTTCTTAATCTTTTCAATT
Found at i:14058244 original size:26 final size:26
Alignment explanation
Indices: 14058214--14058266 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
14058204 AATATTTAAA
*
14058214 ATTTTTA-TTTTT-ATATTTTAAAATT
1 ATTTTTACTTTTTGATA-TTAAAAATT
14058239 ATTTTTACTTTTTGATATTAAAAATT
1 ATTTTTACTTTTTGATATTAAAAATT
14058265 AT
1 AT
14058267 GAAACTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 7 0.28
26 15 0.60
27 3 0.12
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (26 bp):
ATTTTTACTTTTTGATATTAAAAATT
Found at i:14058945 original size:21 final size:21
Alignment explanation
Indices: 14058885--14058959 Score: 57
Period size: 22 Copynumber: 3.5 Consensus size: 21
14058875 GCTCACACTT
*
14058885 ATATAAATATTTATATATTTAGTA
1 ATATAAA-ATTT-TAT-TTTAATA
* *
14058909 A-ATATATTTTTA-TTTAATA
1 ATATAAAATTTTATTTTAATA
14058928 ATATAAAATTTTATTTTAGATTA
1 ATATAAAATTTTATTTTA-A-TA
14058951 AT-TAAAATT
1 ATATAAAATT
14058960 AATATATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
19 7 0.17
20 9 0.21
21 6 0.14
22 11 0.26
23 8 0.19
24 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (21 bp):
ATATAAAATTTTATTTTAATA
Found at i:14062650 original size:15 final size:15
Alignment explanation
Indices: 14062630--14062662 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
14062620 AAAGCTGATA
14062630 CAGAATCACAATAAG
1 CAGAATCACAATAAG
*
14062645 CAGAATCACCATAAG
1 CAGAATCACAATAAG
14062660 CAG
1 CAG
14062663 TAGCTAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.24, G:0.15, T:0.12
Consensus pattern (15 bp):
CAGAATCACAATAAG
Found at i:14065771 original size:32 final size:32
Alignment explanation
Indices: 14065735--14065815 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
14065725 TGTGCATGTT
* ** * *
14065735 TTTTACATTGTTTTGTAATTTTTGTTATAATC
1 TTTTACATTGTTATAAAATTTCTGTTACAATC
*
14065767 TTTTACTTTGTTATAAAATTTCTGTTACAATC
1 TTTTACATTGTTATAAAATTTCTGTTACAATC
*
14065799 TTTTACTTTTGTTATAA
1 TTTTAC-ATTGTTATAA
14065816 CCAAAAGTCT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
32 32 0.76
33 10 0.24
ACGTcount: A:0.25, C:0.09, G:0.07, T:0.59
Consensus pattern (32 bp):
TTTTACATTGTTATAAAATTTCTGTTACAATC
Found at i:14065815 original size:33 final size:32
Alignment explanation
Indices: 14065751--14065815 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
14065741 ATTGTTTTGT
* *
14065751 AATTTTTGTTATAATCTTTTACTTTGTTATAA
1 AATTTCTGTTACAATCTTTTACTTTGTTATAA
14065783 AATTTCTGTTACAATCTTTTACTTTTGTTATAA
1 AATTTCTGTTACAATCTTTTAC-TTTGTTATAA
14065816 CCAAAAGTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 20 0.67
33 10 0.33
ACGTcount: A:0.28, C:0.09, G:0.06, T:0.57
Consensus pattern (32 bp):
AATTTCTGTTACAATCTTTTACTTTGTTATAA
Found at i:14066630 original size:114 final size:114
Alignment explanation
Indices: 14066430--14066657 Score: 429
Period size: 114 Copynumber: 2.0 Consensus size: 114
14066420 CAAGAGGGGG
14066430 TGAATTAGATCTCTCCAAATTCTTCCCAAATAATGATTTCAACATAGTTGAATGAAAATTAAGAC
1 TGAATTAGATCTCTCCAAATTCTTCCCAAATAATGATTTCAACATAGTTGAATGAAAATTAAGAC
14066495 AATAAGCCCTTTTAATGAAAATATAATGAAAACAATAACAATTAATGAA
66 AATAAGCCCTTTTAATGAAAATATAATGAAAACAATAACAATTAATGAA
* *
14066544 TGAATTGGATCTCTCCAAATTCTTCCCAAATAATGATTTCAATATAGTTGAATGAAAATTAAGAC
1 TGAATTAGATCTCTCCAAATTCTTCCCAAATAATGATTTCAACATAGTTGAATGAAAATTAAGAC
*
14066609 AATAAGCCCTTTTGATGAAAATATAATGAAAACAATAACAATTAATGAA
66 AATAAGCCCTTTTAATGAAAATATAATGAAAACAATAACAATTAATGAA
14066658 CTTAAAATCA
Statistics
Matches: 111, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 111 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (114 bp):
TGAATTAGATCTCTCCAAATTCTTCCCAAATAATGATTTCAACATAGTTGAATGAAAATTAAGAC
AATAAGCCCTTTTAATGAAAATATAATGAAAACAATAACAATTAATGAA
Found at i:14068233 original size:41 final size:39
Alignment explanation
Indices: 14068179--14068314 Score: 112
Period size: 42 Copynumber: 3.3 Consensus size: 39
14068169 GAATGGTAGA
* *
14068179 AAACCCTAGCTATATATTTGAGTAATTAAAAACAACAATAG
1 AAACCCTAACTATA-ATTTGAGCAATTAAAAACAACAA-AG
* * *
14068220 AAACCCTAACTATAATTTCAACCAATTAAGAACAATAGCAAA-
1 AAACCCTAACTATAATTT-GAGCAATTAAAAAC-A-A-CAAAG
* *
14068262 AAACCTTAACTATAAATTTGAGCAATTAAAAACAATAACAG
1 AAACCCTAACTAT-AATTTGAGCAATTAAAAACAACAA-AG
*
14068303 AAAACCATAACT
1 -AAACCCTAACT
14068315 CAGAATATGC
Statistics
Matches: 76, Mismatches: 11, Indels: 15
0.75 0.11 0.15
Matches are distributed among these distances:
39 2 0.03
40 6 0.08
41 24 0.32
42 34 0.45
43 7 0.09
44 3 0.04
ACGTcount: A:0.52, C:0.18, G:0.07, T:0.24
Consensus pattern (39 bp):
AAACCCTAACTATAATTTGAGCAATTAAAAACAACAAAG
Found at i:14068274 original size:42 final size:42
Alignment explanation
Indices: 14068202--14068314 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 42
14068192 ATATTTGAGT
* * * *
14068202 AATTAAAAACAACAA-TAGAAACCCTAACTAT-AATTTCAACC
1 AATTAAAAACAATAACAAAAAACCATAACTATAAATTT-AACC
* * * * *
14068243 AATTAAGAACAATAGCAAAAAACCTTAACTATAAATTTGAGC
1 AATTAAAAACAATAACAAAAAACCATAACTATAAATTTAACC
*
14068285 AATTAAAAACAATAACAGAAAACCATAACT
1 AATTAAAAACAATAACAAAAAACCATAACT
14068315 CAGAATATGC
Statistics
Matches: 58, Mismatches: 12, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
41 12 0.21
42 41 0.71
43 5 0.09
ACGTcount: A:0.56, C:0.18, G:0.05, T:0.21
Consensus pattern (42 bp):
AATTAAAAACAATAACAAAAAACCATAACTATAAATTTAACC
Found at i:14068400 original size:42 final size:41
Alignment explanation
Indices: 14068298--14068427 Score: 118
Period size: 42 Copynumber: 3.1 Consensus size: 41
14068288 TAAAAACAAT
* * **
14068298 AACAGAAAACCATAACTCAGAATATGCCTAAAAATGAAGAAC
1 AACATAAAACCTTAAC-CAGAATATGCCTAACTATGAAGAAC
* * *
14068340 TATATAAAACCTTAAACCAGAATATGCCTAACTTTGAAGAAC
1 AACATAAAACCTT-AACCAGAATATGCCTAACTATGAAGAAC
* * * *
14068382 AACA-AATAACCCTTAACCACAAAATGGCTAACTATGAAAAAC
1 AACATAA-AA-CCTTAACCAGAATATGCCTAACTATGAAGAAC
14068424 AACA
1 AACA
14068428 GACCTCAAAA
Statistics
Matches: 71, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
41 2 0.03
42 62 0.87
43 7 0.10
ACGTcount: A:0.52, C:0.21, G:0.09, T:0.18
Consensus pattern (41 bp):
AACATAAAACCTTAACCAGAATATGCCTAACTATGAAGAAC
Found at i:14080090 original size:12 final size:12
Alignment explanation
Indices: 14080073--14080097 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14080063 AATAGTCTAA
14080073 TTTGTTATTATT
1 TTTGTTATTATT
14080085 TTTGTTATTATT
1 TTTGTTATTATT
14080097 T
1 T
14080098 AATCTTTCGA
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:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (12 bp):
TTTGTTATTATT
Found at i:14090394 original size:333 final size:333
Alignment explanation
Indices: 14089788--14090397 Score: 814
Period size: 333 Copynumber: 1.8 Consensus size: 333
14089778 AATAATATTA
* * * *
14089788 TTTTCAGGATCAAGCGCTTACCACTACACCAAAAGCTATAGTTAATAGTGAAGGTGCAACTCTAT
1 TTTTCAGGATCAAGCACTTACCACTACACCAAAAGCTATAGCTAATAGTAAAGGTACAACTCTAT
* *
14089853 TTCCTTATTCTATTTTGGTAGCACAGAGCCCCGTACTAAATGACATGTGGACATAAGAAGCTTCA
66 TTCCTTATTCTATTTTGGTAGCACAGAGCCCCGTACTAAACGACAGGTGGACATAAGAAGCTTCA
* * * * *
14089918 CAAAGCCTTTATGGGATACCTCACCCATTGGGCCTCGGCAGGTTGGGTTTCCATACACTAAAATT
131 CAAAGCCTTCATGAGATACCTAACCCATTGGGCCTCGACAGGTTGGGTTGCCATACACTAAAATT
* * * * *
14089983 CGATCCGCCATGGGATACCTTACCCAAATGAATCAATATATCGAGTCTCTAAGAGAGATCATTGG
196 CGATCCACCATAGGATACCTTACCCAAATGAATCAACATATCGAGTCCCTAAGAGAGATCACTGG
*
14090048 ACCCCATAATCCAACAATTTCTCCTCCAGTGGCACCTGAGGGACTCGAACTTGTAACCTTGCTTT
261 ACCCCACAATCCAACAATTTCTCCTCCAGTGGCACCTGAGGGACTCGAACTTGTAACCTTGCTTT
14090113 GATACCAG
326 GATACCAG
* ** *
14090121 TTTTCAGGATTAAGCACTTACCACTACATTAAAAGCTATAGCTGATAGTAAAGGTACAACTCTAT
1 TTTTCAGGATCAAGCACTTACCACTACACCAAAAGCTATAGCTAATAGTAAAGGTACAACTCTAT
* ** * *
14090186 TTCCTTATTCTCTTTTGGTAGCGTAGAGCCCCGTACTAAGCGACAGGTGGACATAA-AGGGCTTC
66 TTCCTTATTCTATTTTGGTAGCACAGAGCCCCGTACTAAACGACAGGTGGACATAAGA-AGCTTC
* * * * *
14090250 ATAAAGCCTTCATGAGATACCTAATCCATTGGGCCTTGATAGGTTGGGTTGCCATACA-TCGAAA
130 ACAAAGCCTTCATGAGATACCTAACCCATTGGGCCTCGACAGGTTGGGTTGCCATACACT-AAAA
* * * * * * *
14090314 TTTGATCTATCATAGGATA-CTTCACCCAGATGAATCGACATATTGAGTCCCTAAGGGAGA-CTA
194 TTCGATCCACCATAGGATACCTT-ACCCAAATGAATCAACATATCGAGTCCCTAAGAGAGATC-A
14090377 CTGGACCCCACAATCCAACAA
257 CTGGACCCCACAATCCAACAA
14090398 AACCTACACC
Statistics
Matches: 235, Mismatches: 38, Indels: 8
0.84 0.14 0.03
Matches are distributed among these distances:
332 6 0.03
333 229 0.97
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (333 bp):
TTTTCAGGATCAAGCACTTACCACTACACCAAAAGCTATAGCTAATAGTAAAGGTACAACTCTAT
TTCCTTATTCTATTTTGGTAGCACAGAGCCCCGTACTAAACGACAGGTGGACATAAGAAGCTTCA
CAAAGCCTTCATGAGATACCTAACCCATTGGGCCTCGACAGGTTGGGTTGCCATACACTAAAATT
CGATCCACCATAGGATACCTTACCCAAATGAATCAACATATCGAGTCCCTAAGAGAGATCACTGG
ACCCCACAATCCAACAATTTCTCCTCCAGTGGCACCTGAGGGACTCGAACTTGTAACCTTGCTTT
GATACCAG
Found at i:14095324 original size:116 final size:116
Alignment explanation
Indices: 14095120--14095352 Score: 295
Period size: 116 Copynumber: 2.0 Consensus size: 116
14095110 ATTTATGTTA
* * * * * ** *
14095120 ATGAACTTGATAATTGTGAAGATTGAGATGACTATACAATGTCCTTTGAATTATTGAAACTGATA
1 ATGAACTTGATAATTGTAAAGATTCAAATGACCATACAATATCCCCTAAATTATTGAAACTGATA
* * * *
14095185 GAGTAAAAAAAAAAGCCAATTGAACCTCATTAAAAATATATAGATATAATG
66 AAGCAAAAAAAAAAGCCAATTGAACCTCATAAAAAAGATATAGATATAATG
* * *
14095236 ATGAACTTGATAATTGTAAAGATTCAAATGACCATACATTATCCCCTAAATTGTTGAAATTGATA
1 ATGAACTTGATAATTGTAAAGATTCAAATGACCATACAATATCCCCTAAATTATTGAAACTGATA
* * * *
14095301 AAGCAAGAAAAGAAGCCGATTGAACCTTATAAAAAAGATATAGATATAATG
66 AAGCAAAAAAAAAAGCCAATTGAACCTCATAAAAAAGATATAGATATAATG
14095352 A
1 A
14095353 ATTTGAAAGA
Statistics
Matches: 98, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
116 98 1.00
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29
Consensus pattern (116 bp):
ATGAACTTGATAATTGTAAAGATTCAAATGACCATACAATATCCCCTAAATTATTGAAACTGATA
AAGCAAAAAAAAAAGCCAATTGAACCTCATAAAAAAGATATAGATATAATG
Found at i:14099514 original size:50 final size:50
Alignment explanation
Indices: 14099404--14099674 Score: 178
Period size: 50 Copynumber: 5.4 Consensus size: 50
14099394 TTTGAAGGGC
** * * *
14099404 AAATGAGATTTTTAAAAGTT-TCACAGCCTCTGTTT-GAGAAGAGCATTTTGA
1 AAATGAGATTTTT-AAAGTTGT-TTAGCCTCTATTTAG-GAAGAGCTTTTTAA
* * * * *
14099455 AGATGAGATTTTTAAAGTTATTTAGCTTTTATTTAGGATGAGCTTTTTAA
1 AAATGAGATTTTTAAAGTTGTTTAGCCTCTATTTAGGAAGAGCTTTTTAA
* * *
14099505 AAATGAGATTTTTAAAGATGTTTAGCC-CTTATTTATGAAGAGCTTTTTCA
1 AAATGAGATTTTTAAAGTTGTTTAGCCTC-TATTTAGGAAGAGCTTTTTAA
* * * * * *
14099555 AGAT-ATGATTTTAAAAGTTGCTTT-GCTTCCATTTAGGAAGAGCATTTTCA
1 AAATGA-GATTTTTAAAGTTG-TTTAGCCTCTATTTAGGAAGAGCTTTTTAA
* * * * * *
14099605 AGATGAGATCTTTAAAGCTGTTTAGCCTCT-TTTAAGATGAGCATTTTCAA
1 AAATGAGATTTTTAAAGTTGTTTAGCCTCTATTTAGGAAGAGC-TTTTTAA
* * *
14099655 AAA-GATATTTTCAAAATTGT
1 AAATGAGATTTTTAAAGTTGT
14099675 GAAGCCCTTG
Statistics
Matches: 171, Mismatches: 40, Indels: 20
0.74 0.17 0.09
Matches are distributed among these distances:
49 26 0.15
50 126 0.74
51 19 0.11
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (50 bp):
AAATGAGATTTTTAAAGTTGTTTAGCCTCTATTTAGGAAGAGCTTTTTAA
Found at i:14099565 original size:100 final size:100
Alignment explanation
Indices: 14099441--14099654 Score: 247
Period size: 100 Copynumber: 2.1 Consensus size: 100
14099431 CTCTGTTTGA
* * ** * *
14099441 GAAGAGCATTTTGAAGATGAGATTTTTAAAGTT-ATTTAGCTTTTATTTAGGATGAGCTTTTTAA
1 GAAGAGCATTTTCAAGATGAGATTTTAAAAGTTGATTT-GCTTCCATTTAGGAAGAGCATTTTAA
*
14099505 AAATGAGATTTTTAAAGATGTTTAGCCCTTATTTAT
65 AAATGAGATCTTTAAAGATGTTTAGCCCTTATTTAT
* * *
14099541 GAAGAGCTTTTTCAAGAT-ATGATTTTAAAAGTTGCTTTGCTTCCATTTAGGAAGAGCATTTTCA
1 GAAGAGCATTTTCAAGATGA-GATTTTAAAAGTTGATTTGCTTCCATTTAGGAAGAGCATTTTAA
* * *
14099605 AGATGAGATCTTTAAAGCTGTTTAG-CCTCT-TTTAA
65 AAATGAGATCTTTAAAGATGTTTAGCCCT-TATTTAT
*
14099640 GATGAGCATTTTCAA
1 GAAGAGCATTTTCAA
14099655 AAAGATATTT
Statistics
Matches: 96, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
99 21 0.22
100 72 0.75
101 3 0.03
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (100 bp):
GAAGAGCATTTTCAAGATGAGATTTTAAAAGTTGATTTGCTTCCATTTAGGAAGAGCATTTTAAA
AATGAGATCTTTAAAGATGTTTAGCCCTTATTTAT
Found at i:14102229 original size:24 final size:24
Alignment explanation
Indices: 14102202--14102247 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
14102192 AATGAAGGAT
*
14102202 AATTTATGATTAAAAA-CTAAAACC
1 AATTTATCA-TAAAAATCTAAAACC
*
14102226 AATTTTTCATAAAAATCTAAAA
1 AATTTATCATAAAAATCTAAAA
14102248 TCTTTATATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.54, C:0.11, G:0.02, T:0.33
Consensus pattern (24 bp):
AATTTATCATAAAAATCTAAAACC
Found at i:14106302 original size:30 final size:30
Alignment explanation
Indices: 14106262--14106322 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
14106252 ACACTCGATG
*
14106262 TACTTTACCTCCTCATCCATCATACTTGAA
1 TACTTCACCTCCTCATCCATCATACTTGAA
* * *
14106292 TACTTCACCTCCTCGTCCTTCCTACTTGAA
1 TACTTCACCTCCTCATCCATCATACTTGAA
14106322 T
1 T
14106323 CTTATATTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.21, C:0.36, G:0.05, T:0.38
Consensus pattern (30 bp):
TACTTCACCTCCTCATCCATCATACTTGAA
Found at i:14109532 original size:140 final size:137
Alignment explanation
Indices: 14109395--14109810 Score: 403
Period size: 140 Copynumber: 3.0 Consensus size: 137
14109385 TATTTTTCTC
* *
14109395 AATTTTAGAAAAAGTTGATATTTTAACTTTTTCT-TAAATATTTTTCAAAAATTTATTCTAAGAA
1 AATTTTAGAAAAAATTGATATTTCAACTTTTTCTCTAAATATTTTTCAAAAATTTATTCTAAG-A
*
14109459 AAAAATTGATATTTCAACTTTTTTTCTTAGCATTTTTCCAAAAAAATATTTATTTTATTTTATTT
65 AAAAATTGATATTTCAAC-TTTTTTCTTAGCA-TTTTCCAAAAAAATATTTTTTTTATTTTATTT
14109524 TCTTTTTTCAAA
128 T-TTTTTTC-AA
** * * * * * *
14109536 AAAATTAGGAAAATTTGATATTTCAA-TTTTTTTCTAAATATTTTTC-AGATTTTATTCTAAGGA
1 AATTTTAGAAAAAATTGATATTTCAACTTTTTCTCTAAATATTTTTCAAAAATTTATTCTAAGAA
* * ** * ** * **
14109599 AAATTTCATATTTCAAAATTTTCCTTAGCATTTTAAAAAAAAAGTTTTTTTTTTCATTTCCTTTT
66 AAAATTGATATTTCAACTTTTTTCTTAGCATTTTCCAAAAAAA-TATTTTTTTT-ATTTTATTTT
* *
14109664 TATTTTAAA
129 TTTTTTCAA
* * * * *
14109673 AGCATTTTGGAAAAAAAATCATATTACAAC-TTTTCTCCAAATA-TTTTCAAAAATTTATTCTAA
1 A--ATTTTAG-AAAAAATTGATATTTCAACTTTTTCTCTAAATATTTTTCAAAAATTTATTCTAA
14109736 GAAAAAATTGATATTTCAACTTTTTTCTGTAGCATTTTCCAAAACAAA-ATTTTTTATTTATTTT
63 GAAAAAATTGATATTTCAACTTTTTTCT-TAGCATTTTCCAAAA-AAATA-TTTTT-TTTATTTT
*
14109800 ATTTTATTTTT
124 ATTTTTTTTTT
14109811 ATTCTCAATA
Statistics
Matches: 216, Mismatches: 47, Indels: 24
0.75 0.16 0.08
Matches are distributed among these distances:
137 14 0.06
138 24 0.11
139 32 0.15
140 77 0.36
141 63 0.29
142 6 0.03
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (137 bp):
AATTTTAGAAAAAATTGATATTTCAACTTTTTCTCTAAATATTTTTCAAAAATTTATTCTAAGAA
AAAATTGATATTTCAACTTTTTTCTTAGCATTTTCCAAAAAAATATTTTTTTTATTTTATTTTTT
TTTTCAA
Found at i:14111105 original size:28 final size:25
Alignment explanation
Indices: 14111052--14111106 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
14111042 AAAGGATAGA
*
14111052 AAGGAAGAAAAGAAAAGAAAAAAGT
1 AAGGAAGAAAAGAAAAAAAAAAAGT
*
14111077 AAGGGAGAAACAGAAAAAATAAATAAGT
1 AAGGAAGAAA-AGAAAAAA-AAA-AAGT
14111105 AA
1 AA
14111107 AAATTTTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 9 0.36
26 7 0.28
27 3 0.12
28 6 0.24
ACGTcount: A:0.69, C:0.02, G:0.22, T:0.07
Consensus pattern (25 bp):
AAGGAAGAAAAGAAAAAAAAAAAGT
Found at i:14117414 original size:24 final size:24
Alignment explanation
Indices: 14117365--14117414 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
14117355 TATATCAAAT
*
14117365 ATCATGTAATAATATCATGCCTAG
1 ATCATGTAATAATATCATGCCAAG
14117389 ATCATGCTAA-AATATTCATG-CAAG
1 ATCATG-TAATAATA-TCATGCCAAG
14117413 AT
1 AT
14117415 TGTCATGCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (24 bp):
ATCATGTAATAATATCATGCCAAG
Found at i:14117442 original size:20 final size:20
Alignment explanation
Indices: 14117417--14117498 Score: 78
Period size: 18 Copynumber: 4.0 Consensus size: 20
14117407 TGCAAGATTG
*
14117417 TCATGCAAATATATTAATTA
1 TCATGCAAATATATTAATAA
*
14117437 TCATGCAATAATAATAGTAATAA
1 TCATGC-A-AAT-ATATTAATAA
** *
14117460 TCATTTAAATATATT-A-GA
1 TCATGCAAATATATTAATAA
14117478 TCATGCAAATATATTAATAA
1 TCATGCAAATATATTAATAA
14117498 T
1 T
14117499 TATGTAATTA
Statistics
Matches: 48, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
18 14 0.29
19 2 0.04
20 12 0.25
21 4 0.08
22 4 0.08
23 12 0.25
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.38
Consensus pattern (20 bp):
TCATGCAAATATATTAATAA
Found at i:14117566 original size:29 final size:29
Alignment explanation
Indices: 14117507--14117568 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
14117497 ATTATGTAAT
* *
14117507 TAAATATAATCATGCAATTATGCATATAA
1 TAAATATAATCATGCAATAATGAATATAA
14117536 TAAATATAAAATCATGCAATAAT-AATA-AA
1 TAAATAT--AATCATGCAATAATGAATATAA
14117565 TAAA
1 TAAA
14117569 GAATCATGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 13 0.45
30 3 0.10
31 13 0.45
ACGTcount: A:0.56, C:0.08, G:0.05, T:0.31
Consensus pattern (29 bp):
TAAATATAATCATGCAATAATGAATATAA
Found at i:14117656 original size:33 final size:32
Alignment explanation
Indices: 14117619--14117680 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
14117609 TAAATAACTT
*
14117619 TGCAAAT-AATAATATAACTCATACAAATAAACA
1 TGCAAATAAAT-ATATAA-TAATACAAATAAACA
*
14117652 TGCAATTAAATATATAATAATACAAATAA
1 TGCAAATAAATATATAATAATACAAATAA
14117681 TAATATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 11 0.42
33 12 0.46
34 3 0.12
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.27
Consensus pattern (32 bp):
TGCAAATAAATATATAATAATACAAATAAACA
Found at i:14117663 original size:53 final size:53
Alignment explanation
Indices: 14117621--14117726 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
14117611 AATAACTTTG
* *
14117621 CAAATAATAATATAACTCATACAAATAAACATGCAATTAAATATATAATAATA
1 CAAATAATAATATAAATCATACAAATAAACATGCAACTAAATATATAATAATA
*
14117674 CAAATAATAATATAAATCATGCAAATAAACATGCAACTAAATATATAATAATA
1 CAAATAATAATATAAATCATACAAATAAACATGCAACTAAATATATAATAATA
14117727 ATCATACAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.27
Consensus pattern (53 bp):
CAAATAATAATATAAATCATACAAATAAACATGCAACTAAATATATAATAATA
Found at i:14117770 original size:20 final size:20
Alignment explanation
Indices: 14117745--14117853 Score: 93
Period size: 20 Copynumber: 5.7 Consensus size: 20
14117735 ATCACACAAA
*
14117745 CAAATAAATTGATAATCATG
1 CAAATAAATTAATAATCATG
14117765 CAAATAAA-T--TAA--ATG
1 CAAATAAATTAATAATCATG
*
14117780 CAGATAAATTAATAATCATG
1 CAAATAAATTAATAATCATG
* * *
14117800 CAAACATATTAATAGTCATG
1 CAAATAAATTAATAATCATG
* **
14117820 CAAATATATTAATAAATCACA
1 CAAATAAATTAAT-AATCATG
*
14117841 CAAATATATTAAT
1 CAAATAAATTAAT
14117854 CATGTAAATA
Statistics
Matches: 74, Mismatches: 9, Indels: 11
0.79 0.10 0.12
Matches are distributed among these distances:
15 10 0.14
16 1 0.01
17 3 0.04
18 3 0.04
19 1 0.01
20 39 0.53
21 17 0.23
ACGTcount: A:0.52, C:0.11, G:0.06, T:0.30
Consensus pattern (20 bp):
CAAATAAATTAATAATCATG
Found at i:14117786 original size:15 final size:15
Alignment explanation
Indices: 14117762--14117791 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14117752 ATTGATAATC
14117762 ATGCAAATAAATTAA
1 ATGCAAATAAATTAA
*
14117777 ATGCAGATAAATTAA
1 ATGCAAATAAATTAA
14117792 TAATCATGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.10, T:0.27
Consensus pattern (15 bp):
ATGCAAATAAATTAA
Found at i:14117821 original size:40 final size:41
Alignment explanation
Indices: 14117777--14117853 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
14117767 AATAAATTAA
* **
14117777 ATGCAGATAAATTAAT-AATCATGCAAACATATTAATAGTC
1 ATGCAAATAAATTAATAAATCACACAAACATATTAATAGTC
* *
14117817 ATGCAAATATATTAATAAATCACACAAATATATTAAT
1 ATGCAAATAAATTAATAAATCACACAAACATATTAAT
14117854 CATGTAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
40 14 0.45
41 17 0.55
ACGTcount: A:0.51, C:0.12, G:0.06, T:0.31
Consensus pattern (41 bp):
ATGCAAATAAATTAATAAATCACACAAACATATTAATAGTC
Found at i:14117888 original size:31 final size:33
Alignment explanation
Indices: 14117841--14117903 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
14117831 ATAAATCACA
* *
14117841 CAAATATATTAATCATGTAAATA-AAAATTAGG
1 CAAATAAATTAATCATGCAAATATAAAATTAGG
*
14117873 CAAATAAATT-ATCATGCAAATATAATATTAG
1 CAAATAAATTAATCATGCAAATATAAAATTAG
14117904 TCATGCAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 11 0.41
32 16 0.59
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (33 bp):
CAAATAAATTAATCATGCAAATATAAAATTAGG
Found at i:14117909 original size:20 final size:18
Alignment explanation
Indices: 14117876--14117913 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
14117866 AATTAGGCAA
14117876 ATAAATTATCATGCAAAT
1 ATAAATTATCATGCAAAT
14117894 ATAATATTAGTCATGCAAAT
1 ATAA-ATTA-TCATGCAAAT
14117914 TCATGCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (18 bp):
ATAAATTATCATGCAAAT
Found at i:14118957 original size:43 final size:44
Alignment explanation
Indices: 14118855--14118957 Score: 129
Period size: 43 Copynumber: 2.4 Consensus size: 44
14118845 TCGTGGAACT
* *
14118855 TTTTGAAAAATAAAATACTCCCCCATAACTGAAGCTTTAAAAAC
1 TTTTGAAAAATAAAATGCTCCCCCATAACTGAAGCTATAAAAAC
* * * * *
14118899 -TTAGAAAAATAAAATGTTCGCCCATAACTGAGGCTAT-GAAAC
1 TTTTGAAAAATAAAATGCTCCCCCATAACTGAAGCTATAAAAAC
14118941 TTTTGAAAAATAAAATG
1 TTTTGAAAAATAAAATG
14118958 AGATCATTCT
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
42 4 0.08
43 46 0.92
ACGTcount: A:0.46, C:0.16, G:0.12, T:0.27
Consensus pattern (44 bp):
TTTTGAAAAATAAAATGCTCCCCCATAACTGAAGCTATAAAAAC
Found at i:14119148 original size:13 final size:13
Alignment explanation
Indices: 14119130--14119154 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14119120 TTCTAAACAT
14119130 ATGCAATGAATGC
1 ATGCAATGAATGC
14119143 ATGCAATGAATG
1 ATGCAATGAATG
14119155 AAAAGATTCT
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:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (13 bp):
ATGCAATGAATGC
Found at i:14120379 original size:15 final size:15
Alignment explanation
Indices: 14120359--14120389 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
14120349 TCCTTCTTTC
14120359 TCATTTTTTCATTTT
1 TCATTTTTTCATTTT
*
14120374 TCATTTTTTTATTTT
1 TCATTTTTTCATTTT
14120389 T
1 T
14120390 TACTTTTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (15 bp):
TCATTTTTTCATTTT
Found at i:14120420 original size:19 final size:17
Alignment explanation
Indices: 14120380--14120428 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
14120370 TTTTTCATTT
*
14120380 TTTTATTTTTTACTTTTC
1 TTTT-TTTTTTGCTTTTC
*
14120398 TTTTGCTTTTTTGCTTTTT
1 TTTT--TTTTTTGCTTTTC
14120417 TTTTTTTTTTGC
1 TTTTTTTTTTGC
14120429 ACATCTCCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 8 0.30
18 4 0.15
19 15 0.56
ACGTcount: A:0.04, C:0.10, G:0.06, T:0.80
Consensus pattern (17 bp):
TTTTTTTTTTGCTTTTC
Found at i:14126241 original size:24 final size:24
Alignment explanation
Indices: 14126208--14126256 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
14126198 CAATCATGCA
*
14126208 ACCATACAATAAATATTAAATCAT
1 ACCATACAATAAATATAAAATCAT
*
14126232 ACCATGCAATAAATATAAAATCAT
1 ACCATACAATAAATATAAAATCAT
14126256 A
1 A
14126257 TTAAATATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.55, C:0.16, G:0.02, T:0.27
Consensus pattern (24 bp):
ACCATACAATAAATATAAAATCAT
Found at i:14126372 original size:18 final size:18
Alignment explanation
Indices: 14126321--14126388 Score: 59
Period size: 18 Copynumber: 3.7 Consensus size: 18
14126311 AATGTCATGT
*
14126321 AAATATATTAATTATCATGC
1 AAATATA-TAA-TATCATAC
*
14126341 -AATA-ATAATAATCATAT
1 AAATATATAAT-ATCATAC
*
14126358 AAATATATAATATCATGC
1 AAATATATAATATCATAC
14126376 AAATATATTAATA
1 AAATATA-TAATA
14126389 ATTATGTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
16 1 0.03
17 8 0.20
18 17 0.43
19 14 0.35
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (18 bp):
AAATATATAATATCATAC
Found at i:14126405 original size:35 final size:33
Alignment explanation
Indices: 14126327--14126405 Score: 79
Period size: 35 Copynumber: 2.3 Consensus size: 33
14126317 ATGTAAATAT
*
14126327 ATTAATTATCATGCAATAATAATAATCATATAA
1 ATTAAATATCATGCAATAATAATAATCATATAA
* *
14126360 ATATATAATATCATGCAAATATATTAATAATTATGT-A
1 AT-TA-AATATCATGC-AATA-A-TAATAATCATATAA
14126397 ATTAAATAT
1 ATTAAATAT
14126406 TATCATCCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
33 2 0.05
34 2 0.05
35 14 0.37
36 6 0.16
37 4 0.11
38 10 0.26
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (33 bp):
ATTAAATATCATGCAATAATAATAATCATATAA
Found at i:14126410 original size:38 final size:35
Alignment explanation
Indices: 14126331--14126416 Score: 91
Period size: 38 Copynumber: 2.4 Consensus size: 35
14126321 AAATATATTA
*
14126331 ATTATCATGCAATAATAATAATCATATAAATATAT
1 ATTATCATGCAATAATAATAATCATATAAATAAAT
* * * *
14126366 AATATCATGCAAATATATTAATAATTATGTAATTAAAT
1 ATTATCATGC-AATA-A-TAATAATCATATAAATAAAT
*
14126404 ATTATCATCCAAT
1 ATTATCATGCAAT
14126417 TATGCACACA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
35 9 0.22
36 4 0.10
37 4 0.10
38 24 0.59
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.38
Consensus pattern (35 bp):
ATTATCATGCAATAATAATAATCATATAAATAAAT
Found at i:14126491 original size:25 final size:25
Alignment explanation
Indices: 14126461--14126575 Score: 97
Period size: 23 Copynumber: 4.9 Consensus size: 25
14126451 ATATATCACG
14126461 TAATAAATATAAAATCATGCAATAA
1 TAATAAATATAAAATCATGCAATAA
* * *
14126486 TAAT-AATA-AATAAACA-ACCAT-A
1 TAATAAATATAA-AATCATGCAATAA
*
14126508 TAGTAAATATAAAATCATGCAATAA
1 TAATAAATATAAAATCATGCAATAA
14126533 TAATAAATA-AAGAA-CTATGC-A-AA
1 TAATAAATATAA-AATC-ATGCAATAA
14126556 TAAT-AATAT-AAATCATGCAA
1 TAATAAATATAAAATCATGCAA
14126576 ATAAACATGT
Statistics
Matches: 72, Mismatches: 8, Indels: 23
0.70 0.08 0.22
Matches are distributed among these distances:
21 6 0.08
22 11 0.15
23 19 0.26
24 17 0.24
25 19 0.26
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.26
Consensus pattern (25 bp):
TAATAAATATAAAATCATGCAATAA
Found at i:14126564 original size:47 final size:47
Alignment explanation
Indices: 14126461--14126575 Score: 146
Period size: 47 Copynumber: 2.5 Consensus size: 47
14126451 ATATATCACG
*
14126461 TAATAAATATAAAATCATGCAATAATAATAATAAATAAACAACCATA
1 TAATAAATATAAAATCATGCAATAATAATAATAAATAAACAACCAAA
* * **
14126508 TAGTAAATATAAAATCATGCAATAATAATAAATAAA-GAACTATGCAAA
1 TAATAAATATAAAATCATGCAATAATAAT-AATAAATAAAC-AACCAAA
14126556 TAAT-AATAT-AAATCATGCAA
1 TAATAAATATAAAATCATGCAA
14126576 ATAAACATGT
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
46 11 0.18
47 36 0.60
48 13 0.22
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.26
Consensus pattern (47 bp):
TAATAAATATAAAATCATGCAATAATAATAATAAATAAACAACCAAA
Found at i:14126594 original size:53 final size:52
Alignment explanation
Indices: 14126533--14126657 Score: 162
Period size: 53 Copynumber: 2.4 Consensus size: 52
14126523 CATGCAATAA
*
14126533 TAATAAATAAAGAACT-ATGCAAATAATAATATAAATCATGCAAATAAACATG
1 TAATAAATAAAGAA-TAATACAAATAATAATATAAATCATGCAAATAAACATG
* *
14126585 TAATAAAATATATAATAATACAAATAATAATATAAATCATGCAAATAAACATG
1 TAAT-AAATAAAGAATAATACAAATAATAATATAAATCATGCAAATAAACATG
* * *
14126638 CAATTAAATAGATAATAATA
1 TAA-TAAATAAAGAATAATA
14126658 ATCATGTAAT
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
52 5 0.08
53 59 0.91
54 1 0.02
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (52 bp):
TAATAAATAAAGAATAATACAAATAATAATATAAATCATGCAAATAAACATG
Found at i:14126611 original size:21 final size:20
Alignment explanation
Indices: 14126586--14126633 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
14126576 ATAAACATGT
14126586 AATAAAATATATAATAATACA
1 AATAAAATATA-AATAATACA
* *
14126607 AATAATAATATAAATCATGCA
1 AATAA-AATATAAATAATACA
14126628 AATAAA
1 AATAAA
14126634 CATGCAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.71
22 6 0.25
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (20 bp):
AATAAAATATAAATAATACA
Found at i:14126702 original size:20 final size:20
Alignment explanation
Indices: 14126677--14126761 Score: 89
Period size: 20 Copynumber: 4.2 Consensus size: 20
14126667 TCACACAAGT
* *
14126677 AAATAAAATGATAATCATGC
1 AAATAAATTAATAATCATGC
* *
14126697 AAATAAATTAATAGTCATGT
1 AAATAAATTAATAATCATGC
*
14126717 AGATAAATTAATAATCATGC
1 AAATAAATTAATAATCATGC
* * * *
14126737 AAACATATTAATAGTCATGT
1 AAATAAATTAATAATCATGC
14126757 AAATA
1 AAATA
14126762 TAATATCTAT
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.52, C:0.08, G:0.09, T:0.31
Consensus pattern (20 bp):
AAATAAATTAATAATCATGC
Found at i:14126776 original size:2 final size:2
Alignment explanation
Indices: 14126759--14126798 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
14126749 AGTCATGTAA
*
14126759 AT AT A- AT AT CT AT AT AT AT A- AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14126798 A
1 A
14126799 ACAACATACA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
1 3 0.09
2 30 0.91
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14126779 original size:15 final size:15
Alignment explanation
Indices: 14126759--14126798 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
14126749 AGTCATGTAA
*
14126759 ATATAATATCTATAT
1 ATATAATATATATAT
14126774 ATATAATATATATAT
1 ATATAATATATATAT
*
14126789 ATATTATATA
1 ATATAATATA
14126799 ACAACATACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATAATATATATAT
Found at i:14126785 original size:13 final size:13
Alignment explanation
Indices: 14126759--14126798 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
14126749 AGTCATGTAA
14126759 ATATAATATCTATAT
1 ATATAATA--TATAT
14126774 ATATAATATATAT
1 ATATAATATATAT
*
14126787 ATATATTATATA
1 ATATAATATATA
14126799 ACAACATACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 16 0.67
15 8 0.33
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATAATATATAT
Found at i:14128042 original size:16 final size:16
Alignment explanation
Indices: 14128023--14128067 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
14128013 TTAATTATGT
14128023 AAATAAAATATTAGGC
1 AAATAAAATATTAGGC
* * *
14128039 AAATAAATTATCATGC
1 AAATAAAATATTAGGC
*
14128055 AAATATAATATTA
1 AAATAAAATATTA
14128068 ATCATGCAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (16 bp):
AAATAAAATATTAGGC
Found at i:14128065 original size:32 final size:33
Alignment explanation
Indices: 14128005--14128067 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
14127995 ATAAATCACA
* * *
14128005 CAAATATATTAATTATGTAAATAAAATATTAGG
1 CAAATAAATTAATCATGCAAATAAAATATTAGG
*
14128038 CAAATAAATT-ATCATGCAAATATAATATTA
1 CAAATAAATTAATCATGCAAATAAAATATTA
14128068 ATCATGCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 17 0.65
33 9 0.35
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.35
Consensus pattern (33 bp):
CAAATAAATTAATCATGCAAATAAAATATTAGG
Found at i:14128073 original size:20 final size:20
Alignment explanation
Indices: 14128048--14128098 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
14128038 CAAATAAATT
14128048 ATCATGCAAATATAATATTA
1 ATCATGCAAATATAATATTA
14128068 ATCATGCAAATATAATATTA
1 ATCATGCAAATATAATATTA
*
14128088 GTCATGCAAAT
1 ATCATGCAAAT
14128099 TTATGCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.33
Consensus pattern (20 bp):
ATCATGCAAATATAATATTA
Found at i:14128099 original size:52 final size:50
Alignment explanation
Indices: 14128006--14128112 Score: 117
Period size: 52 Copynumber: 2.1 Consensus size: 50
14127996 TAAATCACAC
* * *
14128006 AAAT-ATATTAATTATGTAAATAAAATATTAGGCAAATAAATTATCATGCAA
1 AAATAATATTAATCATGCAAATAAAATATTAGGCAAACAAATT-T-ATGCAA
* * * **
14128057 ATATAATATTAATCATGCAAATATAATATTAGTCATGCAAATTTATGCAA
1 AAATAATATTAATCATGCAAATAAAATATTAGGCAAACAAATTTATGCAA
14128107 AAATAA
1 AAATAA
14128113 ATACCATATA
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
50 11 0.24
51 4 0.09
52 31 0.67
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.34
Consensus pattern (50 bp):
AAATAATATTAATCATGCAAATAAAATATTAGGCAAACAAATTTATGCAA
Found at i:14128747 original size:26 final size:26
Alignment explanation
Indices: 14128704--14128753 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
14128694 AAAAAAAAAT
* *
14128704 AAAAATTAAACCAAAAATTAAATTAA
1 AAAAATTAAAACAAAAATAAAATTAA
* *
14128730 AAAAATTAAAATACAAATAAAATT
1 AAAAATTAAAACAAAAATAAAATT
14128754 TAGGGCTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (26 bp):
AAAAATTAAAACAAAAATAAAATTAA
Found at i:14131065 original size:63 final size:62
Alignment explanation
Indices: 14130950--14131092 Score: 144
Period size: 63 Copynumber: 2.3 Consensus size: 62
14130940 AATTTGAGTG
* * * * * ** *
14130950 ATTACTAAAGGCAGTTTTGATAGAAAATGCCTTATATAATCTCATTACAAAAATGGATAGGGA
1 ATTATTAAAGGCATTTTTGACAGAAAATGCCTTATATAATCCCATCACAAAAAAAG-TAGGCA
* * * *
14131013 ATTATTGAAGGCATTTTTGACAGATAATGCCTTGA-ATAATCCCCTCATAAAAAAAGTAGGCA
1 ATTATTAAAGGCATTTTTGACAGAAAATGCCTT-ATATAATCCCATCACAAAAAAAGTAGGCA
*
14131075 ATTATTAAAGGTATTTTT
1 ATTATTAAAGGCATTTTT
14131093 TTATCAAAAA
Statistics
Matches: 65, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
62 21 0.32
63 43 0.66
64 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (62 bp):
ATTATTAAAGGCATTTTTGACAGAAAATGCCTTATATAATCCCATCACAAAAAAAGTAGGCA
Found at i:14131712 original size:35 final size:35
Alignment explanation
Indices: 14131666--14131735 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
14131656 TATATCTATA
*
14131666 AAGTCAATTGTAGGTTTATGCCCAGAAAACATTTG
1 AAGTCAATTGTAGATTTATGCCCAGAAAACATTTG
*
14131701 AAGTCAATTGTAGATTTATGCCCATAAAACATTTG
1 AAGTCAATTGTAGATTTATGCCCAGAAAACATTTG
14131736 GTTTATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (35 bp):
AAGTCAATTGTAGATTTATGCCCAGAAAACATTTG
Found at i:14132535 original size:13 final size:13
Alignment explanation
Indices: 14132517--14132546 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
14132507 ATTTTTATTC
14132517 ATTTTTATTTCAT
1 ATTTTTATTTCAT
*
14132530 ATTTTTATTTCGT
1 ATTTTTATTTCAT
14132543 ATTT
1 ATTT
14132547 ATCATTTTTT
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:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (13 bp):
ATTTTTATTTCAT
Found at i:14133395 original size:3 final size:3
Alignment explanation
Indices: 14133389--14133498 Score: 72
Period size: 3 Copynumber: 37.7 Consensus size: 3
14133379 TCTTTCTTAT
*
14133389 TTA TTA TTA TTA TTA TT- TCTT TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
* ** *
14133434 TTTA TTGA TTA -GA TTA GAA TTA TTTA GTA TT- TT- TTA TT- TTA TT-
1 -TTA TT-A TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
* *
14133477 TTA TTT TTA TTT TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
14133499 TTTTAAATGA
Statistics
Matches: 84, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
2 12 0.14
3 62 0.74
4 10 0.12
ACGTcount: A:0.26, C:0.01, G:0.04, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:14133421 original size:24 final size:23
Alignment explanation
Indices: 14133381--14133444 Score: 85
Period size: 23 Copynumber: 2.7 Consensus size: 23
14133371 TTTTTTTTTC
14133381 TTTCTTATTTATTATTATTATTA
1 TTTCTTATTTATTATTATTATTA
*
14133404 TTTCTTTTATTATTATTATTATTA
1 TTTCTTAT-TTATTATTATTATTA
*
14133428 -TTATTATTTATTGATTA
1 TTTCTTATTTATT-ATTA
14133445 GATTAGAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 5 0.14
23 16 0.44
24 15 0.42
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.69
Consensus pattern (23 bp):
TTTCTTATTTATTATTATTATTA
Found at i:14133483 original size:17 final size:18
Alignment explanation
Indices: 14133461--14133503 Score: 72
Period size: 17 Copynumber: 2.5 Consensus size: 18
14133451 AATTATTTAG
14133461 TATTTTTTA-TTTTATTT
1 TATTTTTTATTTTTATTT
14133478 TA-TTTTTATTTTTATTT
1 TATTTTTTATTTTTATTT
14133495 TATTTTTTA
1 TATTTTTTA
14133504 AATGATTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.25
17 12 0.50
18 6 0.25
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (18 bp):
TATTTTTTATTTTTATTT
Found at i:14133484 original size:11 final size:11
Alignment explanation
Indices: 14133464--14133501 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
14133454 TATTTAGTAT
14133464 TTTTTATTTTA
1 TTTTTATTTTA
14133475 -TTTTATTTTTA
1 TTTTTA-TTTTA
14133486 TTTTTATTTTA
1 TTTTTATTTTA
14133497 TTTTT
1 TTTTT
14133502 TAAATGATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 5 0.20
11 15 0.60
12 5 0.20
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:14133501 original size:6 final size:6
Alignment explanation
Indices: 14133464--14133501 Score: 55
Period size: 5 Copynumber: 6.8 Consensus size: 6
14133454 TATTTAGTAT
14133464 TTTTTA -TTTTA -TTTTA TTTTTA TTTTTA -TTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
14133502 TAAATGATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 15 0.50
6 15 0.50
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:14133501 original size:12 final size:12
Alignment explanation
Indices: 14133461--14133503 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
14133451 AATTATTTAG
14133461 TATTTTTTATTT
1 TATTTTTTATTT
*
14133473 TATTTTAT-TTT
1 TATTTTTTATTT
14133484 TA-TTTTTATTT
1 TATTTTTTATTT
14133495 TATTTTTTA
1 TATTTTTTA
14133504 AATGATTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 4 0.15
11 10 0.37
12 13 0.48
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (12 bp):
TATTTTTTATTT
Found at i:14133611 original size:58 final size:56
Alignment explanation
Indices: 14133532--14133690 Score: 187
Period size: 58 Copynumber: 2.8 Consensus size: 56
14133522 AAATTTTAAA
* *
14133532 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AAGTTTTGT
1 AAAAAAT-TTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAG-TTT-C
**
14133590 AAAAAATTTTTTCGAGAAAAAGTTGAAAGTATCAA-TTTTCTTCGAAGTTAAAGTTTC
1 AAAAAATTTTTT-GAGAAAAAGTTGAAAGTATCAATTTTTCTT-GAAAATAAAGTTTC
* * *
14133647 AGAAAAATATTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTTG
1 A-AAAAATTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTG
14133691 TACAAAAGCA
Statistics
Matches: 89, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
57 35 0.39
58 51 0.57
59 3 0.03
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.37
Consensus pattern (56 bp):
AAAAAATTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAGTTTC
Found at i:14133634 original size:30 final size:29
Alignment explanation
Indices: 14133549--14133635 Score: 78
Period size: 29 Copynumber: 3.0 Consensus size: 29
14133539 ATTTTTGAGG
14133549 AAAAGTTGAAAGTATCAATTTTTCTT-GAA
1 AAAAGTTGAAAGTATCAA-TTTTCTTCGAA
14133578 AATAAGTTTTGTAAA--A--AATTTT-TTCGAGA
1 AA-AAG--TTG-AAAGTATCAATTTTCTTCGA-A
14133607 AAAAGTTGAAAGTATCAATTTTCTTCGAA
1 AAAAGTTGAAAGTATCAATTTTCTTCGAA
14133636 GTTAAAGTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 22
0.68 0.00 0.32
Matches are distributed among these distances:
25 3 0.06
26 3 0.06
27 3 0.06
28 9 0.19
29 14 0.30
30 8 0.17
31 1 0.02
32 3 0.06
33 3 0.06
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (29 bp):
AAAAGTTGAAAGTATCAATTTTCTTCGAA
Found at i:14136029 original size:34 final size:34
Alignment explanation
Indices: 14135999--14136063 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
14135989 ACATTTTTTG
** *
14135999 GATATAAACGTTATTAAATTAATGATATTTTTCA
1 GATATAAACGCCATTAAAATAATGATATTTTTCA
* *
14136033 TATATAAACGCCATTAAAATAGTGATATTTT
1 GATATAAACGCCATTAAAATAATGATATTTT
14136064 ATATAAAATG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.42
Consensus pattern (34 bp):
GATATAAACGCCATTAAAATAATGATATTTTTCA
Found at i:14151711 original size:16 final size:16
Alignment explanation
Indices: 14151690--14151728 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
14151680 GTAGATAAAT
*
14151690 ATATCTTCTATAATAA
1 ATATCTACTATAATAA
*
14151706 ATATCTACTGTAATAA
1 ATATCTACTATAATAA
14151722 ATATCTA
1 ATATCTA
14151729 ACTTTATGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.44, C:0.13, G:0.03, T:0.41
Consensus pattern (16 bp):
ATATCTACTATAATAA
Found at i:14153633 original size:14 final size:14
Alignment explanation
Indices: 14153614--14153642 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
14153604 CTTTCTATTA
14153614 TCTACGTACACAGT
1 TCTACGTACACAGT
14153628 TCTACGTACACAGT
1 TCTACGTACACAGT
14153642 T
1 T
14153643 TATTTATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (14 bp):
TCTACGTACACAGT
Found at i:14154454 original size:2 final size:2
Alignment explanation
Indices: 14154447--14154472 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14154437 TGATTATAAA
14154447 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
14154473 GAAACAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14155012 original size:7 final size:7
Alignment explanation
Indices: 14155000--14155029 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
14154990 CTCAAAATCA
14155000 TTTTTAT
1 TTTTTAT
14155007 TTTTTAT
1 TTTTTAT
14155014 TTTTTAT
1 TTTTTAT
14155021 TTTTT-T
1 TTTTTAT
14155027 TTT
1 TTT
14155030 AAATTACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 19 0.83
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (7 bp):
TTTTTAT
Found at i:14157684 original size:2 final size:2
Alignment explanation
Indices: 14157677--14157714 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
14157667 CTCTTTTGTA
14157677 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14157715 CAAGCTTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14158590 original size:2 final size:2
Alignment explanation
Indices: 14158583--14158616 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
14158573 TAGTGGAAAA
14158583 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
14158617 GGAGGGGCAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14162690 original size:11 final size:11
Alignment explanation
Indices: 14162674--14162698 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14162664 ACATGGTATA
14162674 TCTTTTCTTTC
1 TCTTTTCTTTC
14162685 TCTTTTCTTTC
1 TCTTTTCTTTC
14162696 TCT
1 TCT
14162699 CTTAAGATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (11 bp):
TCTTTTCTTTC
Found at i:14164934 original size:21 final size:23
Alignment explanation
Indices: 14164908--14164970 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
14164898 TGGTAATTAA
14164908 TATTATTGCATGATAGT-TTATTAT
1 TATTATTGCATGATA-TATTA-TAT
** *
14164932 TATTGCTGCATAATATATTATAT
1 TATTATTGCATGATATATTATAT
14164955 TATTATTGCATGATAT
1 TATTATTGCATGATAT
14164971 TATTTACATA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
23 17 0.53
24 15 0.47
ACGTcount: A:0.32, C:0.06, G:0.11, T:0.51
Consensus pattern (23 bp):
TATTATTGCATGATATATTATAT
Found at i:14164971 original size:21 final size:21
Alignment explanation
Indices: 14164908--14164973 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 21
14164898 TGGTAATTAA
14164908 TATTATTGCATGATAGTT-TAT
1 TATTATTGCATGATA-TTATAT
*
14164929 TATTATTGCTGCATAATATATTATAT
1 TATTA-T--TGCAT--GATATTATAT
14164955 TATTATTGCATGATATTAT
1 TATTATTGCATGATATTAT
14164974 TTACATAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
21 12 0.32
22 1 0.03
23 5 0.14
24 5 0.14
25 3 0.08
26 11 0.30
ACGTcount: A:0.32, C:0.06, G:0.11, T:0.52
Consensus pattern (21 bp):
TATTATTGCATGATATTATAT
Found at i:14169420 original size:13 final size:13
Alignment explanation
Indices: 14169387--14169425 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
14169377 ATGAAAAATG
*
14169387 AAAAAATGAA-AA
1 AAAAAAAGAAGAA
14169399 AAAAAAAGAAGAA
1 AAAAAAAGAAGAA
*
14169412 AAAAGAAGAAGAA
1 AAAAAAAGAAGAA
14169425 A
1 A
14169426 TTAATGGGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (13 bp):
AAAAAAAGAAGAA
Found at i:14170881 original size:44 final size:44
Alignment explanation
Indices: 14170833--14170916 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
14170823 TTTTTGAAAA
* *
14170833 TTTGGATGTGAATCTCT-AAGTTTTTCAAATGAAAATCTTTAACT
1 TTTGGATATGAATCTCTAAAATTTTT-AAATGAAAATCTTTAACT
*
14170877 TTTGGATATGAATCTCTAAAATTTTTAAATGAGAATCTTT
1 TTTGGATATGAATCTCTAAAATTTTTAAATGAAAATCTTT
14170917 GAATTCTAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 29 0.81
45 7 0.19
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (44 bp):
TTTGGATATGAATCTCTAAAATTTTTAAATGAAAATCTTTAACT
Found at i:14171099 original size:17 final size:17
Alignment explanation
Indices: 14171074--14171116 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
14171064 TTGTGAAATT
14171074 GAATATCTTACGAATTTA
1 GAAT-TCTTACGAATTTA
14171092 GAATTCTTACGAATTTA
1 GAATTCTTACGAATTTA
14171109 GAATTCTT
1 GAATTCTT
14171117 GCAAATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 21 0.84
18 4 0.16
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (17 bp):
GAATTCTTACGAATTTA
Found at i:14171123 original size:17 final size:17
Alignment explanation
Indices: 14171074--14171124 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
14171064 TTGTGAAATT
*
14171074 GAATATCTTACGAATTTA
1 GAAT-TCTTACAAATTTA
*
14171092 GAATTCTTACGAATTTA
1 GAATTCTTACAAATTTA
*
14171109 GAATTCTTGCAAATTT
1 GAATTCTTACAAATTT
14171125 TTGATTTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 27 0.87
18 4 0.13
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (17 bp):
GAATTCTTACAAATTTA
Found at i:14171226 original size:18 final size:18
Alignment explanation
Indices: 14171199--14171240 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
14171189 AATCTAAAAC
*
14171199 TCTTACAAATTTTTGAAT
1 TCTTACAAATCTTTGAAT
*
14171217 TCTTATAAATCTTTGAAT
1 TCTTACAAATCTTTGAAT
14171235 TCTTAC
1 TCTTAC
14171241 GAGCTTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.31, C:0.14, G:0.05, T:0.50
Consensus pattern (18 bp):
TCTTACAAATCTTTGAAT
Found at i:14171269 original size:16 final size:17
Alignment explanation
Indices: 14171248--14171289 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
14171238 TACGAGCTTA
14171248 AAATTCTTGAGAATCT-
1 AAATTCTTGAGAATCTG
* *
14171264 AAATTCTTGTGAATTTG
1 AAATTCTTGAGAATCTG
14171281 AAATTCTTG
1 AAATTCTTG
14171290 CAAATTTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (17 bp):
AAATTCTTGAGAATCTG
Found at i:14171287 original size:103 final size:102
Alignment explanation
Indices: 14171057--14171290 Score: 229
Period size: 103 Copynumber: 2.3 Consensus size: 102
14171047 ATTATAGTAA
* * * * * * *
14171057 GAAATTCTTGTGAAATTGAATATCTTACGAATTTAGAATTCTTACGAATTTAGAATTCTTGCAAA
1 GAAATTCTTGTGAATTTGAAT-TCTTGCGAATCTAAAACTCTTACAAATTTAGAATTCTTACAAA
* * * *
14171122 TTTTTGATTTCTTATGAACCTTAAATTCTTGTGAATAT
65 TCTTTGAATTCTTACGAACCTTAAATTCTTGAGAATAT
* * ** * * *
14171160 GAACTTTTTGTGAATCTTCCATTCTTGTGAATCTAAAACTCTTACAAATTTTTGAATTCTTATAA
1 GAAATTCTTGTGAAT-TTGAATTCTTGCGAATCTAAAACTCTTACAAA-TTTAGAATTCTTACAA
* *
14171225 ATCTTTGAATTCTTACG-AGCTTAAAATTCTTGAGAATCT
64 ATCTTTGAATTCTTACGAACCTT-AAATTCTTGAGAATAT
14171264 -AAATTCTTGTGAATTTGAAATTCTTGC
1 GAAATTCTTGTGAATTTG-AATTCTTGC
14171291 AAATTTGAAT
Statistics
Matches: 102, Mismatches: 25, Indels: 8
0.76 0.19 0.06
Matches are distributed among these distances:
102 2 0.02
103 55 0.54
104 45 0.44
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.44
Consensus pattern (102 bp):
GAAATTCTTGTGAATTTGAATTCTTGCGAATCTAAAACTCTTACAAATTTAGAATTCTTACAAAT
CTTTGAATTCTTACGAACCTTAAATTCTTGAGAATAT
Found at i:14171295 original size:17 final size:17
Alignment explanation
Indices: 14171264--14171334 Score: 90
Period size: 17 Copynumber: 4.2 Consensus size: 17
14171254 TTGAGAATCT
**
14171264 AAATTCTTGTGAATTTG
1 AAATTCTTGCAAATTTG
14171281 AAATTCTTGCAAATTTG
1 AAATTCTTGCAAATTTG
* *
14171298 -AATTCATGCGAATTTG
1 AAATTCTTGCAAATTTG
14171314 AAATGTCTTGCAAATTTG
1 AAAT-TCTTGCAAATTTG
14171332 AAA
1 AAA
14171335 AGTATTGTGA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
16 14 0.30
17 18 0.39
18 14 0.30
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.39
Consensus pattern (17 bp):
AAATTCTTGCAAATTTG
Found at i:14171311 original size:16 final size:16
Alignment explanation
Indices: 14171274--14171315 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
14171264 AAATTCTTGT
*
14171274 GAATTTGAAATTCTTGC
1 GAATTTG-AATTCATGC
*
14171291 AAATTTGAATTCATGC
1 GAATTTGAATTCATGC
14171307 GAATTTGAA
1 GAATTTGAA
14171316 ATGTCTTGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.38
Consensus pattern (16 bp):
GAATTTGAATTCATGC
Done.