Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008953.1 Hibiscus syriacus cultivar Beakdansim tig00112281_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2822058
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 15
Found at i:12713 original size:18 final size:17
Alignment explanation
Indices: 12685--12721 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
12675 TTATATTAGT
12685 AAATATTAAATAAAGTA
1 AAATATTAAATAAAGTA
*
12702 AAATACTTAAATAAATTA
1 AAATA-TTAAATAAAGTA
12720 AA
1 AA
12722 TACATAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (17 bp):
AAATATTAAATAAAGTA
Found at i:12722 original size:17 final size:18
Alignment explanation
Indices: 12684--12724 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
12674 ATTATATTAG
12684 TAAATA-TTAAATAAAGT
1 TAAATACTTAAATAAAGT
*
12701 AAAATACTTAAATAAA-T
1 TAAATACTTAAATAAAGT
12718 TAAATAC
1 TAAATAC
12725 ATAATATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (18 bp):
TAAATACTTAAATAAAGT
Found at i:12782 original size:10 final size:10
Alignment explanation
Indices: 12763--12793 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
12753 TTTAAACAGA
*
12763 GAGAGTATTT
1 GAGAGAATTT
12773 GAGAGAATTT
1 GAGAGAATTT
12783 GAGAGAATTT
1 GAGAGAATTT
12793 G
1 G
12794 GTGTGATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:15349 original size:79 final size:80
Alignment explanation
Indices: 15226--15384 Score: 275
Period size: 79 Copynumber: 2.0 Consensus size: 80
15216 TTTTCAAAAA
* * *
15226 ACCTTCACGATTCTTTAATTCCTGAGGCAATGTTCGTTTTATTGGGGTCAATAATTGAGCTTTTG
1 ACCTTCACGATTATTTAATTCCTAAGGCAATGTTCGTTTTATTGGGGACAATAATTGAGCTTTTG
15291 CATTCATGCTAGGAG
66 CATTCATGCTAGGAG
*
15306 ACCTTCATGATTATTTAATT-CTAAGGCAATGTTCGTTTTATTGGGGACAATAATTGAGCTTTTG
1 ACCTTCACGATTATTTAATTCCTAAGGCAATGTTCGTTTTATTGGGGACAATAATTGAGCTTTTG
15370 CATTCATGCTAGGAG
66 CATTCATGCTAGGAG
15385 GTGAATATTA
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
79 57 0.76
80 18 0.24
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.39
Consensus pattern (80 bp):
ACCTTCACGATTATTTAATTCCTAAGGCAATGTTCGTTTTATTGGGGACAATAATTGAGCTTTTG
CATTCATGCTAGGAG
Found at i:20418 original size:20 final size:17
Alignment explanation
Indices: 20377--20410 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
20367 AAGTGGAAGG
20377 GTTCATAATGAGAAGAA
1 GTTCATAATGAGAAGAA
20394 GTTCATAATGAGAAGAA
1 GTTCATAATGAGAAGAA
20411 CTTGTTCAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.24, T:0.24
Consensus pattern (17 bp):
GTTCATAATGAGAAGAA
Found at i:20838 original size:36 final size:35
Alignment explanation
Indices: 20791--20893 Score: 152
Period size: 36 Copynumber: 2.9 Consensus size: 35
20781 TTTCAAAGAC
20791 TTCATCTCACTTGAGATTGTTTATTTTAAAACATAT
1 TTCATCTCACTTGAGATTGTTT-TTTTAAAACATAT
*
20827 TTCATCTCACTTGAGATTGTTTTCCTTAAAACATAT
1 TTCATCTCACTTGAGATTGTTTT-TTTAAAACATAT
* *
20863 TTTATCTCACTTGAGATTATTTTTCTTAAAA
1 TTCATCTCACTTGAGATTGTTTTT-TTAAAA
20894 TAGTTTCAAG
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
35 1 0.02
36 60 0.98
ACGTcount: A:0.29, C:0.16, G:0.08, T:0.48
Consensus pattern (35 bp):
TTCATCTCACTTGAGATTGTTTTTTTAAAACATAT
Found at i:20937 original size:62 final size:62
Alignment explanation
Indices: 20840--20958 Score: 204
Period size: 62 Copynumber: 1.9 Consensus size: 62
20830 ATCTCACTTG
*
20840 AGATTGTTTTCCTTAAAACATATTTTATCTCACTTGAGATTATTTTTCTTAAAATAGTTTCA
1 AGATTGTTTTCCTTAAAACATATTTTATATCACTTGAGATTATTTTTCTTAAAATAGTTTCA
*
20902 AGATTGTTTTCCTTAAAA-TTGATTTTATATCACTTGAGATTATTTTTCTTAAAATAG
1 AGATTGTTTTCCTTAAAACAT-ATTTTATATCACTTGAGATTATTTTTCTTAAAATAG
20959 ATTTTATCTC
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
61 1 0.02
62 53 0.98
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.49
Consensus pattern (62 bp):
AGATTGTTTTCCTTAAAACATATTTTATATCACTTGAGATTATTTTTCTTAAAATAGTTTCA
Found at i:21007 original size:37 final size:36
Alignment explanation
Indices: 20902--21011 Score: 157
Period size: 36 Copynumber: 3.0 Consensus size: 36
20892 AATAGTTTCA
* *
20902 AGATTGTTTTCCTTAAAATTGATTTTATATCACTTG
1 AGATTGTTTTCCTTAAAATAGATTTTATCTCACTTG
* *
20938 AGATTATTTTTCTTAAAATAGATTTTATCTCACTTG
1 AGATTGTTTTCCTTAAAATAGATTTTATCTCACTTG
* *
20974 TGATTGTTTTCCTTAAAAAAAGATTTTATCTCACTTG
1 AGATTGTTTTCCTT-AAAATAGATTTTATCTCACTTG
21011 A
1 A
21012 AATCATTGTC
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
36 43 0.67
37 21 0.33
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (36 bp):
AGATTGTTTTCCTTAAAATAGATTTTATCTCACTTG
Found at i:21044 original size:72 final size:72
Alignment explanation
Indices: 20903--21037 Score: 173
Period size: 72 Copynumber: 1.9 Consensus size: 72
20893 ATAGTTTCAA
** * * * * *
20903 GATTGTTTTCCTTAAAATTGATTTTATATCACTTGAGATTATTTTTCTTAAAATAGATTTTATCT
1 GATTGTTTTCCTTAAAAAAGATTTTATATCACTTGAAATCATTTGTCTTAAAACAAATTTTATCT
20968 CACTTGT
66 CACTTGT
* *
20975 GATTGTTTTCCTTAAAAAAAGATTTTATCTCACTTGAAATCA-TTGTCTTGAAACAAATTTTAT
1 GATTGTTTTCCTT-AAAAAAGATTTTATATCACTTGAAATCATTTGTCTTAAAACAAATTTTAT
21038 TCCACTTAAG
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
72 30 0.57
73 23 0.43
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (72 bp):
GATTGTTTTCCTTAAAAAAGATTTTATATCACTTGAAATCATTTGTCTTAAAACAAATTTTATCT
CACTTGT
Found at i:21608 original size:26 final size:26
Alignment explanation
Indices: 21579--21683 Score: 63
Period size: 24 Copynumber: 4.0 Consensus size: 26
21569 ACCCTTATTA
21579 TTTATATGTATATATATATATTATAT
1 TTTATATGTATATATATATATTATAT
* * * * *
21605 TTTATTTATTTATTTATTTATTATAATTT
1 TTTA--TATGTATATATATA-TATTATAT
* * **
21634 TTTCTTTGCGT-TATATATATTAT-T
1 TTTATATGTATATATATATATTATAT
*
21658 TTTCTAT-TATATATATATATATATAT
1 TTTATATGTATATATATATAT-TATAT
21684 ATATATAATA
Statistics
Matches: 58, Mismatches: 15, Indels: 12
0.68 0.18 0.14
Matches are distributed among these distances:
23 1 0.02
24 16 0.28
25 8 0.14
26 10 0.17
27 3 0.05
28 11 0.19
29 9 0.16
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (26 bp):
TTTATATGTATATATATATATTATAT
Found at i:21670 original size:2 final size:2
Alignment explanation
Indices: 21665--21696 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
21655 ATTTTTCTAT
21665 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21697 TATTTTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21892 original size:9 final size:9
Alignment explanation
Indices: 21878--21942 Score: 53
Period size: 8 Copynumber: 6.9 Consensus size: 9
21868 ACATACATTT
21878 TATATTTTA
1 TATATTTTA
21887 TATATTTT-
1 TATATTTTA
21895 TATATTTT-
1 TATATTTTA
*
21903 TTTATTTTA
1 TATATTTTA
21912 TTATACTATTTA
1 -TATA-T-TTTA
*
21924 TTTATTTTCA
1 TATATTTT-A
21934 TTATATTTT
1 -TATATTTT
21943 TAGTTTCTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
8 15 0.33
9 11 0.24
10 5 0.11
11 11 0.24
12 4 0.09
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (9 bp):
TATATTTTA
Found at i:21900 original size:8 final size:8
Alignment explanation
Indices: 21875--21910 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
21865 TATACATACA
21875 TTTTATAT
1 TTTTATAT
21883 TTTATATAT
1 TTT-TATAT
21892 TTTTATAT
1 TTTTATAT
*
21900 TTTTTTAT
1 TTTTATAT
21908 TTT
1 TTT
21911 ATTATACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 18 0.69
9 8 0.31
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTATAT
Found at i:21921 original size:21 final size:22
Alignment explanation
Indices: 21897--21938 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
21887 TATATTTTTA
*
21897 TATTTTTTTATTTT-ATTATAC
1 TATTTATTTATTTTCATTATAC
21918 TATTTATTTATTTTCATTATA
1 TATTTATTTATTTTCATTATA
21939 TTTTTAGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (22 bp):
TATTTATTTATTTTCATTATAC
Found at i:21944 original size:21 final size:20
Alignment explanation
Indices: 21877--21944 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 20
21867 TACATACATT
*
21877 TTATA-TTTTATATA-TTT-
1 TTATATTTTTATTTATTTTA
21894 TTATA-TTTT-TTTATTTTA
1 TTATATTTTTATTTATTTTA
*
21912 TTATACTATTTATTTATTTTCA
1 TTATA-TTTTTATTTATTTT-A
21934 TTATATTTTTA
1 TTATATTTTTA
21945 GTTTCTTTGC
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
16 3 0.07
17 12 0.29
18 5 0.12
20 3 0.07
21 13 0.31
22 6 0.14
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (20 bp):
TTATATTTTTATTTATTTTA
Found at i:22030 original size:16 final size:16
Alignment explanation
Indices: 22011--22052 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 16
22001 TTTGTATATA
22011 TATTTTTTTCTTC-ATT
1 TATTTTTTT-TTCAATT
22027 TATTTTATTTTTCAATT
1 TATTTT-TTTTTCAATT
22044 TCATTTTTT
1 T-ATTTTTT
22053 AAAATATTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 9 0.39
17 9 0.39
18 5 0.22
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.74
Consensus pattern (16 bp):
TATTTTTTTTTCAATT
Found at i:23236 original size:19 final size:20
Alignment explanation
Indices: 23200--23237 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
23190 ACCTTACTAA
*
23200 CTCTTTTCATTTTTTTTCCT
1 CTCTTTTCATTTTATTTCCT
23220 CTCTTTT-ATTTTATTTCC
1 CTCTTTTCATTTTATTTCC
23238 ATCATCTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (20 bp):
CTCTTTTCATTTTATTTCCT
Found at i:26676 original size:13 final size:12
Alignment explanation
Indices: 26658--26710 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 12
26648 GAAAAGAAGC
26658 AAAAAAGCAAAAA
1 AAAAAAG-AAAAA
26671 AAAAAAGAAAAA
1 AAAAAAGAAAAA
26683 GAGAAACAAGAAAAA
1 -A-AAA-AAGAAAAA
*
26698 ATCAAAAGAAAAA
1 A-AAAAAGAAAAA
26711 GGGACAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
12 5 0.14
13 16 0.46
14 6 0.17
15 8 0.23
ACGTcount: A:0.81, C:0.06, G:0.11, T:0.02
Consensus pattern (12 bp):
AAAAAAGAAAAA
Found at i:26697 original size:28 final size:30
Alignment explanation
Indices: 26642--26711 Score: 83
Period size: 28 Copynumber: 2.4 Consensus size: 30
26632 AATCAAGAAC
*
26642 AAAAAAG-AAAAGAAGCAAAAAAGCAAAAA
1 AAAAAAGAAAAAGAAGCAAAAAAGAAAAAA
*
26671 AAAAAAGAAAAAG-AG-AAACAAGAAAAAA
1 AAAAAAGAAAAAGAAGCAAAAAAGAAAAAA
**
26699 TCAAAAGAAAAAG
1 AAAAAAGAAAAAG
26712 GGACAAAAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 22 0.61
29 9 0.25
30 5 0.14
ACGTcount: A:0.79, C:0.06, G:0.14, T:0.01
Consensus pattern (30 bp):
AAAAAAGAAAAAGAAGCAAAAAAGAAAAAA
Found at i:26697 original size:35 final size:35
Alignment explanation
Indices: 26643--26710 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
26633 ATCAAGAACA
*
26643 AAAAAGAAAAGAAGCAAAAAAGCAAAAAAAAAAAG
1 AAAAAGAAAACAAGCAAAAAAGCAAAAAAAAAAAG
* *
26678 AAAAAGAGAAACAAG-AAAAAATCAAAAGAAAAA
1 AAAAAGA-AAACAAGCAAAAAAGCAAAAAAAAAA
26711 GGGACAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 23 0.79
36 6 0.21
ACGTcount: A:0.79, C:0.06, G:0.13, T:0.01
Consensus pattern (35 bp):
AAAAAGAAAACAAGCAAAAAAGCAAAAAAAAAAAG
Found at i:27536 original size:22 final size:22
Alignment explanation
Indices: 27462--27538 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
27452 GCTACCCCAT
*
27462 CAAACCGTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
* *
27484 CAAACCTATGAGCATCAAATGT
1 CAAACCTTTGAGCATCAAATGC
27506 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
27528 CAAACCTTTGA
1 CAAACCTTTGA
27539 CCAAACATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.22
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:29619 original size:106 final size:106
Alignment explanation
Indices: 28343--29618 Score: 1906
Period size: 106 Copynumber: 12.0 Consensus size: 106
28333 ATATCGTGCC
* * * * *
28343 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTAGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
28408 AATTTCAGAGCCAATTTCAACTTCACAATGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
28449 ACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGATTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
28514 AATTTCAGAGCCAATTTCAACTTCATAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
** * * * *
28555 ACTCCAGACAACGCAAGTTCAACTTCATAATGAAGGGACCGCTGATTGTCAACAAACGACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
28620 AATTTCAGAGCTAATTTCAACTTCATAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
28661 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGATCGCTGGTTGTCAATAAAAAATTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
28726 AATTTCAGAGCCAATTTCAACTTCACAGCGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
28767 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
28832 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
28873 ACTCCAGACAACGCAAGTTCAACTTCACAACTAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
28938 AATTTCATAGCCAATTTCAACTTTACAACGAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
28979 ACTCCAGACAACGCAAGTTCAACTTCACGACAAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
29044 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGAATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
29085 ACTCAAGACAACGTAAGTTCAACATCATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
29150 AATTTCAGAGCCAATTTCAACTTCACATA-GAAGGATATTGA
66 AATTTCAGAGCCAATTTCAACTTCACA-ACGAAGGATATTGG
* * *
29191 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGATCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
29256 AATTTCAGAGCCAATTTTAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
29297 ACTCCAGACAACGCAAGTTCAACTTCACGTCGAAGGGACTGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
29362 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
29403 ACTCCAGACAATGCAAGTTTAACTTCATGACGAAGGGACCGCTGGTTGTCAAAAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
29468 AATTTCAGAGCCAATTTCAACTTCACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * ** *
29509 ACTCGAGACAACACAAGTTCAACTTTACAACGAAGGGATGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * *
29574 GATTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
29615 ACTC
1 ACTC
29619 GGAACAATGC
Statistics
Matches: 1058, Mismatches: 110, Indels: 4
0.90 0.09 0.00
Matches are distributed among these distances:
105 1 0.00
106 1057 1.00
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:30897 original size:15 final size:16
Alignment explanation
Indices: 30852--30899 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
30842 TATATATATA
*
30852 TATAATTATATTTTAT
1 TATAATTATTTTTTAT
*
30868 T-TATTTATTTATTTAT
1 TATAATTATTT-TTTAT
30884 TATAATT-TTTTTTAT
1 TATAATTATTTTTTAT
30899 T
1 T
30900 TTTCTTTGCG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 13 0.48
16 10 0.37
17 4 0.15
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TATAATTATTTTTTAT
Found at i:31169 original size:18 final size:18
Alignment explanation
Indices: 31146--31206 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
31136 TTATACATAC
31146 ATTTTTATATTTTTATAT
1 ATTTTTATATTTTTATAT
* *
31164 ATTTTTTTATTTTTTTAT
1 ATTTTTATATTTTTATAT
* * *
31182 TTTATTTATACTATTTATTT
1 ATT-TTTATA-TTTTTATAT
31202 ATTTT
1 ATTTT
31207 CATTATGTTT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
18 18 0.55
19 7 0.21
20 8 0.24
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (18 bp):
ATTTTTATATTTTTATAT
Found at i:31189 original size:9 final size:9
Alignment explanation
Indices: 31156--31205 Score: 52
Period size: 8 Copynumber: 5.9 Consensus size: 9
31146 ATTTTTATAT
*
31156 TTTTATATA
1 TTTTATTTA
31165 TTTT-TTTA
1 TTTTATTTA
31173 TTTT-TTTA
1 TTTTATTTA
31181 TTTTATTTA
1 TTTTATTTA
**
31190 TACTATTTA
1 TTTTATTTA
31199 -TTTATTT
1 TTTTATTT
31206 TCATTATGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
8 20 0.57
9 15 0.43
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTATTTA
Found at i:31327 original size:19 final size:20
Alignment explanation
Indices: 31296--31333 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
31286 TATATATATT
31296 TTTTTCTTCATTT-ATTTTA
1 TTTTTCTTCATTTCATTTTA
31315 TTTTT-TTCAATTTCATTTT
1 TTTTTCTTC-ATTTCATTTT
31334 TTAAAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.18
19 9 0.53
20 5 0.29
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTTCTTCATTTCATTTTA
Found at i:33511 original size:25 final size:26
Alignment explanation
Indices: 33476--33530 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 26
33466 TTTTGATGTT
* *
33476 TTAATTTAGTCCTTAGATTAATTTTG
1 TTAATTTAGTCATAAGATTAATTTTG
*
33502 TTAA-TTAGTCATAATATTAATTTTG
1 TTAATTTAGTCATAAGATTAATTTTG
33527 TTAA
1 TTAA
33531 GTAAATTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 22 0.85
26 4 0.15
ACGTcount: A:0.33, C:0.05, G:0.09, T:0.53
Consensus pattern (26 bp):
TTAATTTAGTCATAAGATTAATTTTG
Found at i:38553 original size:15 final size:15
Alignment explanation
Indices: 38533--38574 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
38523 CTTCATGGGG
*
38533 TAAGAAGACAACGTC
1 TAAGAAGAAAACGTC
38548 TAAGAAGAAAACGTC
1 TAAGAAGAAAACGTC
*
38563 AAAGAAGGAAAA
1 TAAGAA-GAAAA
38575 AAAGCATTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.57, C:0.12, G:0.21, T:0.10
Consensus pattern (15 bp):
TAAGAAGAAAACGTC
Found at i:42455 original size:51 final size:49
Alignment explanation
Indices: 42397--42496 Score: 150
Period size: 51 Copynumber: 2.0 Consensus size: 49
42387 AGAACTTTTT
42397 GAAAAGGAAGAGGAG-AAAGGAGAAGGGACACTG-AAGACGGAAAAAGAGAAA
1 GAAAAGGAAGAGG-GTAAAGGAGAAGGGACACTGCAA-A-GGAAAAAG-GAAA
42448 GAAAAGGAAGAGGGTAAAGGAGAAGGGACACTGCAAAGGAAAAAGGAAA
1 GAAAAGGAAGAGGGTAAAGGAGAAGGGACACTGCAAAGGAAAAAGGAAA
42497 AGGAGAAAGG
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
49 4 0.09
50 9 0.19
51 32 0.68
52 2 0.04
ACGTcount: A:0.54, C:0.06, G:0.37, T:0.03
Consensus pattern (49 bp):
GAAAAGGAAGAGGGTAAAGGAGAAGGGACACTGCAAAGGAAAAAGGAAA
Found at i:42506 original size:39 final size:40
Alignment explanation
Indices: 42449--42536 Score: 117
Period size: 39 Copynumber: 2.2 Consensus size: 40
42439 AAAGAGAAAG
* * *
42449 AAAAGGAAGAGGGTAAAGGAGAAGGGACACTGCAAA-GGA
1 AAAAGGAAAAGGGTAAAGGAGAAGGGACACCGAAAAGGGA
42488 AAAAGGAAAAGGAG-AAAGGAGAAGGGACACCGAAAAGGGA
1 AAAAGGAAAAGG-GTAAAGGAGAAGGGACACCGAAAAGGGA
*
42528 AAAAAGAAA
1 AAAAGGAAA
42537 GAAAAGGATG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
39 31 0.72
40 12 0.28
ACGTcount: A:0.56, C:0.07, G:0.35, T:0.02
Consensus pattern (40 bp):
AAAAGGAAAAGGGTAAAGGAGAAGGGACACCGAAAAGGGA
Found at i:44912 original size:2 final size:2
Alignment explanation
Indices: 44896--44986 Score: 132
Period size: 2 Copynumber: 46.5 Consensus size: 2
44886 TCAATCTACA
*
44896 AT AT AA AT A- 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 AT AT
* *
44937 AT AT AT AT -T TT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
44978 AT AC AT AT A
1 AT AT AT AT A
44987 ATTTATGAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
1 2 0.03
2 78 0.98
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:44999 original size:18 final size:18
Alignment explanation
Indices: 44904--45000 Score: 61
Period size: 18 Copynumber: 5.3 Consensus size: 18
44894 CAATATAAAT
* *
44904 AATATATATATATATATA
1 AATACATATATATTTATA
* * *
44922 TATATATATATATATATA
1 AATACATATATATTTATA
* ** *
44940 TATATTTTATATATATATA
1 AATA-CATATATATTTATA
* *
44959 TATATATATATATTTATA
1 AATACATATATATTTATA
*
44977 TATACATATA-ATTTATGA
1 AATACATATATATTTAT-A
44995 AATACA
1 AATACA
45001 ATCACGACAA
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
17 6 0.08
18 48 0.68
19 17 0.24
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.48
Consensus pattern (18 bp):
AATACATATATATTTATA
Found at i:45223 original size:13 final size:13
Alignment explanation
Indices: 45207--45251 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
45197 CCCAATGAAT
*
45207 GTCATTAATGCGC
1 GTCATAAATGCGC
** *
45220 GTCATAAATATGT
1 GTCATAAATGCGC
45233 GTCATAAATGCGC
1 GTCATAAATGCGC
45246 GTCATA
1 GTCATA
45252 TATTTATGAC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (13 bp):
GTCATAAATGCGC
Found at i:45224 original size:57 final size:57
Alignment explanation
Indices: 45115--45224 Score: 136
Period size: 57 Copynumber: 1.9 Consensus size: 57
45105 TGTCAAGCAG
* * * *
45115 ATTTATGACGGGGACTTCAATGACGCGCAATGTAAGTCATACATGTGTGTCATCTTA
1 ATTTATGACGGGGACTTCAATGACACCCAATGTAAGTCATACATGCGCGTCATCTTA
45172 ATTTATGAC-GGGAGCTTCAATGACACCCAATG-AATGTCATTA-ATGCGCGTCAT
1 ATTTATGACGGGGA-CTTCAATGACACCCAATGTAA-GTCA-TACATGCGCGTCAT
45225 AAATATGTGT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
56 6 0.13
57 38 0.83
58 2 0.04
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (57 bp):
ATTTATGACGGGGACTTCAATGACACCCAATGTAAGTCATACATGCGCGTCATCTTA
Found at i:46950 original size:27 final size:27
Alignment explanation
Indices: 46910--46962 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
46900 TTATCGAGCG
46910 AGTCAATTGCGAGTTGGGCAGTGCTCA
1 AGTCAATTGCGAGTTGGGCAGTGCTCA
* * *
46937 AGTCGATTGTGAGTTGGGCATTGCTC
1 AGTCAATTGCGAGTTGGGCAGTGCTC
46963 GACTCATGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.19, C:0.17, G:0.34, T:0.30
Consensus pattern (27 bp):
AGTCAATTGCGAGTTGGGCAGTGCTCA
Found at i:47045 original size:26 final size:28
Alignment explanation
Indices: 47009--47074 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
46999 TGTTCATTAA
* *
47009 GCTCGTTAAAA-TT-TTGCTCGACTCGT
1 GCTCATTAAAACTTATTGCTCAACTCGT
47035 GCTCATTAAAAAAACTTATTGCTCAACTCGT
1 GCTCATT---AAAACTTATTGCTCAACTCGT
47066 GCTCATTAA
1 GCTCATTAA
47075 GCTCGTTGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
26 6 0.18
28 2 0.06
29 4 0.12
30 2 0.06
31 19 0.58
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (28 bp):
GCTCATTAAAACTTATTGCTCAACTCGT
Found at i:47075 original size:66 final size:65
Alignment explanation
Indices: 46957--47081 Score: 196
Period size: 66 Copynumber: 1.9 Consensus size: 65
46947 GAGTTGGGCA
* * *
46957 TTGCTCGACTCATGCTCGTTAAAAAAATTGTTGCTCAACTCATGTTCATTAAGCTCGTTAAAATT
1 TTGCTCGACTCATGCTCATTAAAAAAATTATTGCTCAACTCATGCTCATTAAGCTCGTTAAAATT
* *
47022 TTGCTCGACTCGTGCTCATTAAAAAAACTTATTGCTCAACTCGTGCTCATTAAGCTCGTT
1 TTGCTCGACTCATGCTCATTAAAAAAA-TTATTGCTCAACTCATGCTCATTAAGCTCGTT
47082 GCTCGTTAAG
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
65 25 0.46
66 29 0.54
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.36
Consensus pattern (65 bp):
TTGCTCGACTCATGCTCATTAAAAAAATTATTGCTCAACTCATGCTCATTAAGCTCGTTAAAATT
Found at i:47090 original size:16 final size:16
Alignment explanation
Indices: 47061--47103 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
47051 TATTGCTCAA
*
47061 CTCG-TGCTCATTAAG
1 CTCGTTGCTCGTTAAG
47076 CTCGTTGCTCGTTAAG
1 CTCGTTGCTCGTTAAG
* *
47092 CTTGTTACTCGT
1 CTCGTTGCTCGT
47104 CTCTTTGCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.14, C:0.26, G:0.21, T:0.40
Consensus pattern (16 bp):
CTCGTTGCTCGTTAAG
Found at i:47127 original size:28 final size:28
Alignment explanation
Indices: 47080--47149 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
47070 ATTAAGCTCG
* *
47080 TTGCTCGTTAAGCTTGTTACTCGTCTCT
1 TTGCTCGTTAAGCTTATTACTCGTCTCA
*
47108 TTGCTCGTTAAG-TTCATTACTTGTCTCA
1 TTGCTCGTTAAGCTT-ATTACTCGTCTCA
*
47136 TTGCTTGTTAAGCT
1 TTGCTCGTTAAGCT
47150 CAACAAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 2 0.06
28 33 0.92
29 1 0.03
ACGTcount: A:0.14, C:0.21, G:0.17, T:0.47
Consensus pattern (28 bp):
TTGCTCGTTAAGCTTATTACTCGTCTCA
Found at i:49157 original size:3 final size:3
Alignment explanation
Indices: 49143--49177 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
49133 TCAAAATAAA
* *
49143 ATT ATT ACT ATT ATT ATT ATT ACT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
49178 AGATTTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:49163 original size:15 final size:15
Alignment explanation
Indices: 49143--49177 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
49133 TCAAAATAAA
49143 ATTATTACTATTATT
1 ATTATTACTATTATT
49158 ATTATTACTATTATT
1 ATTATTACTATTATT
49173 ATTAT
1 ATTAT
49178 AGATTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTATTACTATTATT
Found at i:56531 original size:44 final size:44
Alignment explanation
Indices: 56414--56532 Score: 161
Period size: 44 Copynumber: 2.7 Consensus size: 44
56404 TGACGAGTGT
* * * * *
56414 ATCGGTACAC-TGCATAGTCTATCAATGCACATTCAAGGAATGC
1 ATCGGTACACTTTCATAGTGTATCGATGCATATTCAAGGAATCC
*
56457 ATCGGTGCACCTTT-ATAGTGTATCGATGCATATTCAAGGAATCC
1 ATCGGTACA-CTTTCATAGTGTATCGATGCATATTCAAGGAATCC
56501 ATCGGTACACTTTCATAGTGTATCGATGCATA
1 ATCGGTACACTTTCATAGTGTATCGATGCATA
56533 GTGCACAAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
43 12 0.18
44 53 0.80
45 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (44 bp):
ATCGGTACACTTTCATAGTGTATCGATGCATATTCAAGGAATCC
Found at i:62276 original size:65 final size:64
Alignment explanation
Indices: 62166--62319 Score: 206
Period size: 65 Copynumber: 2.4 Consensus size: 64
62156 CACAGTTGGG
* * *
62166 GTGCATCGGTACACT-AATTACATTCGATGTTTCAAAAGAGCCAGGAGTGTATCGATGCATGGTT
1 GTGCATCGGTACA-TAAAATGCATTCGATGTTTCAAAAGAGCCAGGAGTGCATCGATGCATGG-T
62230 T
64 T
*
62231 GTGCATCGGTACATAAAATGCATTCGATGTTTCATTAAA-A-TCAGGAGTGCATCGATGCATGGT
1 GTGCATCGGTACATAAAATGCATTCGATGTTTCA--AAAGAGCCAGGAGTGCATCGATGCATGGT
62294 T
64 T
*
62295 GTGCATCGGTACACAAAATGCATTC
1 GTGCATCGGTACATAAAATGCATTC
62320 AAATTAGGGT
Statistics
Matches: 81, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
64 27 0.33
65 50 0.62
66 1 0.01
67 3 0.04
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (64 bp):
GTGCATCGGTACATAAAATGCATTCGATGTTTCAAAAGAGCCAGGAGTGCATCGATGCATGGTT
Found at i:62355 original size:20 final size:21
Alignment explanation
Indices: 62325--62364 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
62315 CATTCAAATT
62325 AGGGTGTGCATCGATACATCA
1 AGGGTGTGCATCGATACATCA
*
62346 AGGG-GTGCATCGGTACATC
1 AGGGTGTGCATCGATACATC
62365 CCTTTATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.25, C:0.20, G:0.33, T:0.23
Consensus pattern (21 bp):
AGGGTGTGCATCGATACATCA
Found at i:64352 original size:21 final size:21
Alignment explanation
Indices: 64328--64376 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
64318 GTGGCAGTGG
*
64328 CATCTGACCCAACTGCGGTGA
1 CATCTGACCCAACTGCGATGA
* * *
64349 CATCTGACCTAGCTGCGATGG
1 CATCTGACCCAACTGCGATGA
64370 CATCTGA
1 CATCTGA
64377 TATGGAAGCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.31, G:0.24, T:0.22
Consensus pattern (21 bp):
CATCTGACCCAACTGCGATGA
Found at i:64437 original size:42 final size:42
Alignment explanation
Indices: 64349--64439 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 42
64339 ACTGCGGTGA
* * * * *
64349 CATCTGACCTAGCTGCGATGGCATCTGATATGGAAGCAGTGG
1 CATCTGACCCAGCTACGATGGCATCTGAAATGGAAGCAATGC
* *
64391 CATCTGACCCGGCTACGGTGGCATCTGAAATGGACA-CAATGC
1 CATCTGACCCAGCTACGATGGCATCTGAAATGGA-AGCAATGC
64433 CATCTGA
1 CATCTGA
64440 TATGGCTGTA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 40 0.98
43 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.22
Consensus pattern (42 bp):
CATCTGACCCAGCTACGATGGCATCTGAAATGGAAGCAATGC
Found at i:66041 original size:20 final size:19
Alignment explanation
Indices: 65995--66048 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
65985 GATGCAAATA
* *
65995 GTATCGATACT-GGGAGGG
1 GTATCGATACTATGGAGAG
*
66013 GTATTGATACTATGGAGAAG
1 GTATCGATACTATGGAG-AG
*
66033 GTATCGATACCATGGA
1 GTATCGATACTATGGA
66049 TCCAGAATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 10 0.34
19 4 0.14
20 15 0.52
ACGTcount: A:0.30, C:0.11, G:0.33, T:0.26
Consensus pattern (19 bp):
GTATCGATACTATGGAGAG
Found at i:66625 original size:55 final size:56
Alignment explanation
Indices: 66457--66667 Score: 304
Period size: 55 Copynumber: 3.8 Consensus size: 56
66447 TGGCATTGTC
* *
66457 TGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTGTG
1 TGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGAGCACTGTG
* *
66513 TGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGCAT-AGGACTGTG
1 TGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGAGCACTGTG
* *
66568 TGTGC-AAAACTAATAAATTCATAATGAGTTTATGAATTTCTGTATGAGCACAT-TG
1 TGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGAGCAC-TGTG
* * *
66623 TGTGC-AAAATTAAGAAATTCATAATAAGTATATGAATTTTTGTAT
1 TGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTAT
66668 TGGTAGTGGG
Statistics
Matches: 140, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.26
55 58 0.41
56 45 0.32
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (56 bp):
TGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGAGCACTGTG
Found at i:66685 original size:55 final size:55
Alignment explanation
Indices: 66447--66670 Score: 292
Period size: 56 Copynumber: 4.1 Consensus size: 55
66437 GATTACCAAA
* * *
66447 TGGCATTGTCTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
1 TGGCACTGTGTGTGC-AAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTAT
* *
66503 GGGCACTGTGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGCAT
1 TGGCACTGTGTGTGC-AAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTAT
* * *
66559 AGG-ACTGTGTGTGCAAAACTAATAAATTCATAATGAGTTTATGAATTTCTGTA-
1 TGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTAT
* * *
66612 TGAGCACAT-TGTGTGCAAAATTAAGAAATTCATAATAAGTATATGAATTTTTGTAT
1 TG-GCAC-TGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTAT
66668 TGG
1 TGG
66671 TAGTGGGCGT
Statistics
Matches: 149, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
53 1 0.01
54 37 0.25
55 55 0.37
56 56 0.38
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.35
Consensus pattern (55 bp):
TGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTAT
Found at i:68171 original size:32 final size:32
Alignment explanation
Indices: 68135--68197 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
68125 GTTCCAACCT
* * *
68135 AAGGGAATATCTTAGAGCCTGAGAGCCTACCA
1 AAGGGAATATCATAGAGCCTAAAAGCCTACCA
* *
68167 AAGGGAGTATCATAGGGCCTAAAAGCCTACC
1 AAGGGAATATCATAGAGCCTAAAAGCCTACC
68198 CAAGTAAGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.17
Consensus pattern (32 bp):
AAGGGAATATCATAGAGCCTAAAAGCCTACCA
Found at i:68215 original size:32 final size:32
Alignment explanation
Indices: 68179--68265 Score: 102
Period size: 32 Copynumber: 2.7 Consensus size: 32
68169 GGGAGTATCA
* * *
68179 TAGGGCCTAAAAGCCTACCCAAGTAAGTACCT
1 TAGGGCCTTAGAGCCTACCCAAGTAAATACCT
* * * *
68211 TAGGGCATTAGAGCCTACCTAACTAAATGCCT
1 TAGGGCCTTAGAGCCTACCCAAGTAAATACCT
*
68243 TGGGGCCTTAGAGCCTACCCAAG
1 TAGGGCCTTAGAGCCTACCCAAG
68266 GTCACCTTAA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.21
Consensus pattern (32 bp):
TAGGGCCTTAGAGCCTACCCAAGTAAATACCT
Found at i:69977 original size:15 final size:15
Alignment explanation
Indices: 69957--69985 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
69947 TGGGAAGGTA
69957 GTATCGATACCATAG
1 GTATCGATACCATAG
69972 GTATCGATACCATA
1 GTATCGATACCATA
69986 AGGAAGGTAT
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:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (15 bp):
GTATCGATACCATAG
Found at i:70805 original size:22 final size:22
Alignment explanation
Indices: 70774--70816 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
70764 TCGAGGGTTA
*
70774 CATAGGTCCTTCGGGAAATATG
1 CATAGATCCTTCGGGAAATATG
*
70796 CATAGATCCTTCGGGAGATAT
1 CATAGATCCTTCGGGAAATAT
70817 TTCACATGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (22 bp):
CATAGATCCTTCGGGAAATATG
Found at i:84076 original size:40 final size:41
Alignment explanation
Indices: 84011--84095 Score: 154
Period size: 40 Copynumber: 2.1 Consensus size: 41
84001 ACCGTCAATC
84011 TGAAATTTATTTGCGATTCAATTTGTTAATTATTATTTTGA
1 TGAAATTTATTTGCGATTCAATTTGTTAATTATTATTTTGA
*
84052 TGAAATTTATTT-TGATTCAATTTGTTAATTATTATTTTGA
1 TGAAATTTATTTGCGATTCAATTTGTTAATTATTATTTTGA
84092 TGAA
1 TGAA
84096 TCAGTTTTTC
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 31 0.72
41 12 0.28
ACGTcount: A:0.31, C:0.04, G:0.12, T:0.54
Consensus pattern (41 bp):
TGAAATTTATTTGCGATTCAATTTGTTAATTATTATTTTGA
Found at i:86016 original size:23 final size:24
Alignment explanation
Indices: 85980--86027 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
85970 GAACGGTGGT
*
85980 GGAGGAGGCTACCACCTCG-CGAA
1 GGAGGAGGCCACCACCTCGTCGAA
*
86003 GGAGGCGGCCACCACCTCGTCGAA
1 GGAGGAGGCCACCACCTCGTCGAA
86027 G
1 G
86028 AAAAACTCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.23, C:0.33, G:0.35, T:0.08
Consensus pattern (24 bp):
GGAGGAGGCCACCACCTCGTCGAA
Found at i:91906 original size:30 final size:30
Alignment explanation
Indices: 91855--91912 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
91845 AAAATTTTGG
* *
91855 TTAGTGACCAAAAATGTAAATTTTGAAAGT
1 TTAGTGACCAAAAATGAAAATTTAGAAAGT
*
91885 TTAGTGACCAAAGTAT-AAAATTTAGAAA
1 TTAGTGACCAAA-AATGAAAATTTAGAAA
91913 TATTTAGGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.47, C:0.07, G:0.16, T:0.31
Consensus pattern (30 bp):
TTAGTGACCAAAAATGAAAATTTAGAAAGT
Found at i:94615 original size:59 final size:59
Alignment explanation
Indices: 94538--94715 Score: 241
Period size: 59 Copynumber: 3.0 Consensus size: 59
94528 CAATAGGTTG
* * * *
94538 CATATTTGGGATTGCACTAAAGTATAACTATTGTAGATGGTGGGCACGACCTTATGTGT
1 CATATTCGGGATTGCACTAAAGTATAACTAGTGCAGATGGTGGGCATGACCTTATGTGT
* * * * * *
94597 TATTTTCGGGATTCCACTAAAGTATAACTGGTGCATATGGTGGGCATGACCTTGTGTGT
1 CATATTCGGGATTGCACTAAAGTATAACTAGTGCAGATGGTGGGCATGACCTTATGTGT
* *
94656 CATATTCGAGACTGCACTAAAGTATAACTAGTGCAGAT-GTGGGCATGACCTTATGTGT
1 CATATTCGGGATTGCACTAAAGTATAACTAGTGCAGATGGTGGGCATGACCTTATGTGT
94714 CA
1 CA
94716 CACTCAGTTA
Statistics
Matches: 101, Mismatches: 18, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
58 21 0.21
59 80 0.79
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (59 bp):
CATATTCGGGATTGCACTAAAGTATAACTAGTGCAGATGGTGGGCATGACCTTATGTGT
Found at i:95724 original size:2 final size:2
Alignment explanation
Indices: 95717--95753 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
95707 CTAGGCATAA
95717 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
95754 AGTTCATGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:98052 original size:21 final size:20
Alignment explanation
Indices: 98026--98123 Score: 83
Period size: 21 Copynumber: 4.7 Consensus size: 20
98016 ATCCCATTTC
*
98026 AAAAGGATCGATCCCTCGAGG
1 AAAAGGATCGATCCCTCGA-A
*
98047 AAAAGGATC-ACTCCCTCTAA
1 AAAAGGATCGA-TCCCTCGAA
*
98067 ATAAAGGATCGATCCCTCGAGG
1 A-AAAGGATCGATCCCTCGA-A
* *
98089 AAAATGATC-ACTCCCTCTAA
1 AAAAGGATCGA-TCCCTCGAA
98109 ATAAAGGATCGATCC
1 A-AAAGGATCGATCC
98124 TTTATTGTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 14
0.74 0.10 0.17
Matches are distributed among these distances:
20 4 0.06
21 55 0.89
22 3 0.05
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (20 bp):
AAAAGGATCGATCCCTCGAA
Found at i:98077 original size:42 final size:42
Alignment explanation
Indices: 98027--98123 Score: 185
Period size: 42 Copynumber: 2.3 Consensus size: 42
98017 TCCCATTTCA
98027 AAAGGATCGATCCCTCGAGGAAAAGGATCACTCCCTCTAAAT
1 AAAGGATCGATCCCTCGAGGAAAAGGATCACTCCCTCTAAAT
*
98069 AAAGGATCGATCCCTCGAGGAAAATGATCACTCCCTCTAAAT
1 AAAGGATCGATCCCTCGAGGAAAAGGATCACTCCCTCTAAAT
98111 AAAGGATCGATCC
1 AAAGGATCGATCC
98124 TTTATTGTTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.20
Consensus pattern (42 bp):
AAAGGATCGATCCCTCGAGGAAAAGGATCACTCCCTCTAAAT
Found at i:99439 original size:16 final size:16
Alignment explanation
Indices: 99418--99448 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
99408 TGTCATAACC
99418 ATTTTTAAAAAATTAA
1 ATTTTTAAAAAATTAA
*
99434 ATTTTTAAAATATTA
1 ATTTTTAAAAAATTA
99449 TAACTTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTTTTAAAAAATTAA
Found at i:101229 original size:23 final size:24
Alignment explanation
Indices: 101186--101230 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
101176 AATAAAATAA
*
101186 AAATATTATTAATTATTTAATATT
1 AAATATTATTAATTATATAATATT
101210 AAATA-TATATAA-TATATAATA
1 AAATATTAT-TAATTATATAATA
101231 AAATAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
AAATATTATTAATTATATAATATT
Found at i:101601 original size:2 final size:2
Alignment explanation
Indices: 101594--101625 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
101584 ATCTCATGTG
101594 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
101626 TGCTTTTGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:103080 original size:18 final size:18
Alignment explanation
Indices: 103057--103095 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
103047 AAAATGCTTT
*
103057 ATGAAAGAATTTTAAATA
1 ATGAAAGAATATTAAATA
103075 ATGAAAGAATATTAAATA
1 ATGAAAGAATATTAAATA
103093 ATG
1 ATG
103096 TTTGATGAAG
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:0.56, C:0.00, G:0.13, T:0.31
Consensus pattern (18 bp):
ATGAAAGAATATTAAATA
Found at i:103120 original size:25 final size:23
Alignment explanation
Indices: 103079--103143 Score: 78
Period size: 25 Copynumber: 2.7 Consensus size: 23
103069 TAAATAATGA
103079 AAGAATATT-AAATAATGTTTGATG
1 AAGAAT-TTGAAA-AATGTTTGATG
103103 AAGGAGATTTGAAAAATGTTTGATG
1 AA-GA-ATTTGAAAAATGTTTGATG
*
103128 AAGATTTTGAAAAATG
1 AAGAATTTGAAAAATG
103144 GTGCCCCTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
23 11 0.30
24 4 0.11
25 17 0.46
26 5 0.14
ACGTcount: A:0.45, C:0.00, G:0.22, T:0.34
Consensus pattern (23 bp):
AAGAATTTGAAAAATGTTTGATG
Found at i:103140 original size:23 final size:25
Alignment explanation
Indices: 103092--103143 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
103082 AATATTAAAT
103092 AATGTTTGATGAAGGAGATTTGAAA
1 AATGTTTGATGAAGGAGATTTGAAA
*
103117 AATGTTTGATGAA-GA-TTTTGAAA
1 AATGTTTGATGAAGGAGATTTGAAA
103140 AATG
1 AATG
103144 GTGCCCCTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.40, C:0.00, G:0.25, T:0.35
Consensus pattern (25 bp):
AATGTTTGATGAAGGAGATTTGAAA
Found at i:107972 original size:23 final size:23
Alignment explanation
Indices: 107940--108004 Score: 121
Period size: 23 Copynumber: 2.8 Consensus size: 23
107930 ATGGTAGCAA
*
107940 ATGGATATGTCGTGGCAAAGTGG
1 ATGGAAATGTCGTGGCAAAGTGG
107963 ATGGAAATGTCGTGGCAAAGTGG
1 ATGGAAATGTCGTGGCAAAGTGG
107986 ATGGAAATGTCGTGGCAAA
1 ATGGAAATGTCGTGGCAAA
108005 TTTAATTGTG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.31, C:0.09, G:0.37, T:0.23
Consensus pattern (23 bp):
ATGGAAATGTCGTGGCAAAGTGG
Found at i:118683 original size:23 final size:23
Alignment explanation
Indices: 118653--118698 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
118643 AACAATAAAG
118653 CGTTCACCAAGCAAGTGACAGAA
1 CGTTCACCAAGCAAGTGACAGAA
118676 CGTTCACCAAGCAAGTGACAGAA
1 CGTTCACCAAGCAAGTGACAGAA
118699 TGGTCTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.26, G:0.22, T:0.13
Consensus pattern (23 bp):
CGTTCACCAAGCAAGTGACAGAA
Found at i:118882 original size:23 final size:22
Alignment explanation
Indices: 118855--118905 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 22
118845 AAAATTTTAA
*
118855 AAAAAAATTATTTAAAAAACACTT
1 AAAATAATTATTTAAAAAA-AC-T
*
118879 AAAATTATTATTTAAAAAAACT
1 AAAATAATTATTTAAAAAAACT
118901 AAAAT
1 AAAAT
118906 TTTTAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 6 0.24
23 2 0.08
24 17 0.68
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAATAATTATTTAAAAAAACT
Found at i:119254 original size:23 final size:24
Alignment explanation
Indices: 119228--119283 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 24
119218 AAAATTGGAT
119228 TTTTATAAATAA-ATTATTTTTT-A
1 TTTTATAAA-AATATTATTTTTTAA
* *
119251 TTTTTTAAAAATATTTTTTTTTAA
1 TTTTATAAAAATATTATTTTTTAA
119275 TTTCTATAA
1 TTT-TATAA
119284 GTCTGATGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 2 0.07
23 17 0.63
24 4 0.15
25 4 0.15
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTTATAAAAATATTATTTTTTAA
Found at i:126720 original size:102 final size:101
Alignment explanation
Indices: 126522--126724 Score: 325
Period size: 102 Copynumber: 2.0 Consensus size: 101
126512 CTGACTTCAG
* *
126522 TACTACTACTATCATCTCTATTTTACCTATTTCATGTTTCTTTAACTATAAAGATCTGCATCTAA
1 TACTACTACTATCATATCTATTTTACCTATTTCATGTTTCTTTAACTAAAAAGATCTGCATCTAA
126587 GAACAAATAACAAAGTTATGATAATAAATAGAATAT
66 GAACAAATAACAAAGTTATGATAATAAATAGAATAT
* * *
126623 TACTACTACTATCATATCTATTTTACCTATTTCATGTTTCTTTATGCTAAAAAGATTTGCATCTG
1 TACTACTACTATCATATCTATTTTACCTATTTCATGTTTCTTTA-ACTAAAAAGATCTGCATCTA
* * *
126688 AGAACTAATAATAAAGTTATGATATTAAATAGAATAT
65 AGAACAAATAACAAAGTTATGATAATAAATAGAATAT
126725 ATATATGATT
Statistics
Matches: 93, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
101 43 0.46
102 50 0.54
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.39
Consensus pattern (101 bp):
TACTACTACTATCATATCTATTTTACCTATTTCATGTTTCTTTAACTAAAAAGATCTGCATCTAA
GAACAAATAACAAAGTTATGATAATAAATAGAATAT
Found at i:129206 original size:20 final size:20
Alignment explanation
Indices: 129192--129353 Score: 166
Period size: 20 Copynumber: 8.0 Consensus size: 20
129182 TTCGCAACGT
*
129192 GATTATGACTATCGCATTGC
1 GATTATGACTATCGCAATGC
*
129212 GATTTTCTGACTATCGCAATGC
1 GA--TTATGACTATCGCAATGC
* * *
129234 AAATATGTA-AATCGCAATGC
1 GATTATG-ACTATCGCAATGC
* *
129254 GAGTATGACTATCGCAACGC
1 GATTATGACTATCGCAATGC
* *
129274 GAATATGTA-AATCGCAATGC
1 GATTATG-ACTATCGCAATGC
129294 GATTATGACTATCGCAATGC
1 GATTATGACTATCGCAATGC
* *
129314 GATTCTGACTATCGCAACGC
1 GATTATGACTATCGCAATGC
*
129334 GATTCTGACTATCGCAATGC
1 GATTATGACTATCGCAATGC
129354 TGAATTTCAA
Statistics
Matches: 118, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
19 2 0.02
20 97 0.82
21 2 0.02
22 17 0.14
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (20 bp):
GATTATGACTATCGCAATGC
Found at i:129279 original size:40 final size:40
Alignment explanation
Indices: 129219--129358 Score: 183
Period size: 40 Copynumber: 3.5 Consensus size: 40
129209 TGCGATTTTC
* *
129219 TGACTATCGCAATGCAAATATGTAAATCGCAATGCGAGTA
1 TGACTATCGCAATGCGAATATGTAAATCGCAATGCGATTA
*
129259 TGACTATCGCAACGCGAATATGTAAATCGCAATGCGATTA
1 TGACTATCGCAATGCGAATATGTAAATCGCAATGCGATTA
* * * * *
129299 TGACTATCGCAATGCGATTCTG-ACTATCGCAACGCGATTC
1 TGACTATCGCAATGCGAATATGTA-AATCGCAATGCGATTA
129339 TGACTATCGCAATGCTGAAT
1 TGACTATCGCAATGC-GAAT
129359 TTCAAATTCG
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
39 1 0.01
40 84 0.95
41 3 0.03
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.26
Consensus pattern (40 bp):
TGACTATCGCAATGCGAATATGTAAATCGCAATGCGATTA
Found at i:129348 original size:60 final size:60
Alignment explanation
Indices: 129183--129353 Score: 184
Period size: 60 Copynumber: 2.8 Consensus size: 60
129173 GTTTCCAGAT
* * **
129183 TCGCAACGTGATTATGACTATCGCATTGCGATTTTCTGACTATCGCAATGCAAATATGTAAA
1 TCGCAATGCGATTATGACTATCGCAACGCGA--TTCTGACTATCGCAATGCAAATATGTAAA
* * * * * * *
129245 TCGCAATGCGAGTATGACTATCGCAACGCGAATATGTA-AATCGCAATGCGATTATG-ACTA
1 TCGCAATGCGATTATGACTATCGCAACGCGATTCTG-ACTATCGCAATGCAAATATGTA-AA
*
129305 TCGCAATGCGATTCTGACTATCGCAACGCGATTCTGACTATCGCAATGC
1 TCGCAATGCGATTATGACTATCGCAACGCGATTCTGACTATCGCAATGC
129354 TGAATTTCAA
Statistics
Matches: 90, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
59 2 0.02
60 61 0.68
61 1 0.01
62 26 0.29
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (60 bp):
TCGCAATGCGATTATGACTATCGCAACGCGATTCTGACTATCGCAATGCAAATATGTAAA
Found at i:132514 original size:18 final size:18
Alignment explanation
Indices: 132491--132525 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
132481 AGCAAAAGGC
*
132491 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
132509 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
132526 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:132728 original size:20 final size:20
Alignment explanation
Indices: 132703--132997 Score: 250
Period size: 20 Copynumber: 15.7 Consensus size: 20
132693 CACATTCATT
132703 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAATA
132723 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAATA
*
132743 TGACTATCGCAACGCAAATA
1 TGACTATCGCAACGCGAATA
* *
132763 TGACTATCGCAACGTGAATT
1 TGACTATCGCAACGCGAATA
* *
132783 TGAATATCGCAACG-G--GA
1 TGACTATCGCAACGCGAATA
* *
132800 T-A--ATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
*
132817 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* *
132837 TAACTATCGCAACG-G--GA
1 TGACTATCGCAACGCGAATA
* * *
132854 T-A--ATCGCAATGCAAAAA
1 TGACTATCGCAACGCGAATA
*
132871 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* * *
132891 TAACTATCGCATCGCGAATT
1 TGACTATCGCAACGCGAATA
* *
132911 TGACTATCACAA--CG-AGA
1 TGACTATCGCAACGCGAATA
132928 T-A--ATCGCAACGCGAA-A
1 TGACTATCGCAACGCGAATA
*
132944 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* * *
132964 TGATTATCGCAACGGGAATT
1 TGACTATCGCAACGCGAATA
132984 TGACTATCGCAACG
1 TGACTATCGCAACG
132998 AGAAAATCGC
Statistics
Matches: 222, Mismatches: 34, Indels: 38
0.76 0.12 0.13
Matches are distributed among these distances:
14 22 0.10
15 1 0.00
16 7 0.03
17 10 0.05
18 4 0.02
19 15 0.07
20 163 0.73
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.22
Consensus pattern (20 bp):
TGACTATCGCAACGCGAATA
Found at i:132830 original size:54 final size:53
Alignment explanation
Indices: 132703--132901 Score: 256
Period size: 54 Copynumber: 3.6 Consensus size: 53
132693 CACATTCATT
* * * *
132703 TGACTATCGCAACGCGAATATGACTATCGCAACGCGAATATGACTATCGCAACGCAAATA
1 TGACTATCGCAACGCGAATTTAACTATCGCAACG-G--GAT-A--ATCGCAATGCAAA-A
*
132763 TGACTATCGCAACGTGAATTTGAA-TATCGCAACGGGATAATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATTT-AACTATCGCAACGGGATAATCGCAATGC-AAAA
132817 TGACTATCGCAACGCGAATTTAACTATCGCAACGGGATAATCGCAATGCAAAAA
1 TGACTATCGCAACGCGAATTTAACTATCGCAACGGGATAATCGCAATGC-AAAA
132871 TGACTATCGCAACGCGAATTTAACTATCGCA
1 TGACTATCGCAACGCGAATTTAACTATCGCA
132902 TCGCGAATTT
Statistics
Matches: 129, Mismatches: 7, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
53 2 0.02
54 90 0.70
55 3 0.02
56 1 0.01
57 2 0.02
59 1 0.01
60 29 0.22
61 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.22
Consensus pattern (53 bp):
TGACTATCGCAACGCGAATTTAACTATCGCAACGGGATAATCGCAATGCAAAA
Found at i:132880 original size:74 final size:73
Alignment explanation
Indices: 132708--133009 Score: 329
Period size: 74 Copynumber: 4.1 Consensus size: 73
132698 TCATTTGACT
* * *
132708 ATCGCAACGCGAATATGACTATCGCAACGCGAATATGACTATCGCAACGCAAATATGACTATCGC
1 ATCGCAACGC-AAAATGACTATCGCAACGCGAATATGACTATCGCAACGCGAATTTGACTATCGC
*
132773 AACGTGA-A
65 AACGAGATA
* * * *** * * *
132781 TTTGAATATCGCAACGGGA-TAATCGCAATGCGAAAATGACTATCGCAACGCGAATTTAACTATC
1 ATCGCA-A-CGCAAAATGACT-ATCGCAACGCGAATATGACTATCGCAACGCGAATTTGACTATC
*
132845 GCAACGGGATA
63 GCAACGAGATA
* * * * *
132856 ATCGCAATGCAAAAATGACTATCGCAACGCGAATTTAACTATCGCATCGCGAATTTGACTATCAC
1 ATCGCAACGC-AAAATGACTATCGCAACGCGAATATGACTATCGCAACGCGAATTTGACTATCGC
132921 AACGAGATA
65 AACGAGATA
* * * *
132930 ATCGCAACGCGAAATGACTATCGCAACGCGAATTTGATTATCGCAACGGGAATTTGACTATCGCA
1 ATCGCAACGCAAAATGACTATCGCAACGCGAATATGACTATCGCAACGCGAATTTGACTATCGCA
*
132995 ACGAGAAA
66 ACGAGATA
133003 ATCGCAA
1 ATCGCAA
133010 AGTGTATTAG
Statistics
Matches: 188, Mismatches: 35, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
73 69 0.37
74 111 0.59
75 8 0.04
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.21
Consensus pattern (73 bp):
ATCGCAACGCAAAATGACTATCGCAACGCGAATATGACTATCGCAACGCGAATTTGACTATCGCA
ACGAGATA
Found at i:132960 original size:53 final size:54
Alignment explanation
Indices: 132876--132977 Score: 152
Period size: 53 Copynumber: 1.9 Consensus size: 54
132866 AAAAATGACT
* *
132876 ATCGCAACGCGAATTTAACTATCGCATCGCGAATTTGACTATCACAACGAGATA
1 ATCGCAACGCGAATATAACTATCGCAACGCGAATTTGACTATCACAACGAGATA
* * *
132930 ATCGCAACGCGAA-ATGACTATCGCAACGCGAATTTGATTATCGCAACG
1 ATCGCAACGCGAATATAACTATCGCAACGCGAATTTGACTATCACAACG
132978 GGAATTTGAC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 30 0.70
54 13 0.30
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (54 bp):
ATCGCAACGCGAATATAACTATCGCAACGCGAATTTGACTATCACAACGAGATA
Found at i:133225 original size:34 final size:30
Alignment explanation
Indices: 133146--133212 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
133136 ATTAAACAAG
*
133146 AACAAATAAGAATTATTTACACATTAATTA
1 AACAAATAAGAATTATTTACACATCAATTA
133176 AACAAATAAGAATTATTTACACATCAATTA
1 AACAAATAAGAATTATTTACACATCAATTA
133206 AACAAAT
1 AACAAAT
133213 CAACTCTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.55, C:0.12, G:0.03, T:0.30
Consensus pattern (30 bp):
AACAAATAAGAATTATTTACACATCAATTA
Found at i:135245 original size:40 final size:40
Alignment explanation
Indices: 135198--135292 Score: 163
Period size: 40 Copynumber: 2.4 Consensus size: 40
135188 TCGCAACACG
*
135198 AATGACTATCGCAACACGAAAATTACTATCGCAACGCGAA
1 AATGACTATCGCAACACGAAAATAACTATCGCAACGCGAA
135238 AATGACTATCGCAACACGAAAATAACTATCGCAACGCGAA
1 AATGACTATCGCAACACGAAAATAACTATCGCAACGCGAA
**
135278 TTTGACTATCGCAAC
1 AATGACTATCGCAAC
135293 GAGAGAATCG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.41, C:0.25, G:0.15, T:0.19
Consensus pattern (40 bp):
AATGACTATCGCAACACGAAAATAACTATCGCAACGCGAA
Found at i:135293 original size:20 final size:20
Alignment explanation
Indices: 135187--135292 Score: 144
Period size: 20 Copynumber: 5.4 Consensus size: 20
135177 GAAACTTAAA
135187 ATCGCAACACG--AATGACT
1 ATCGCAACACGAAAATGACT
*
135205 ATCGCAACACGAAAATTACT
1 ATCGCAACACGAAAATGACT
*
135225 ATCGCAACGCGAAAATGACT
1 ATCGCAACACGAAAATGACT
*
135245 ATCGCAACACGAAAATAACT
1 ATCGCAACACGAAAATGACT
* **
135265 ATCGCAACGCGAATTTGACT
1 ATCGCAACACGAAAATGACT
135285 ATCGCAAC
1 ATCGCAAC
135293 GAGAGAATCG
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
18 11 0.14
20 66 0.86
ACGTcount: A:0.41, C:0.26, G:0.15, T:0.18
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:135361 original size:20 final size:20
Alignment explanation
Indices: 135336--135403 Score: 93
Period size: 20 Copynumber: 3.4 Consensus size: 20
135326 GCGATTCTTT
*
135336 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAATTTCG
* *
135356 CGTTGCAATAGTCATTTTCG
1 CGTTGCGATAGTCAATTTCG
135376 CGTTGCGATAGTC-ATTTCCG
1 CGTTGCGATAGTCAATTT-CG
135396 CGTTGCGA
1 CGTTGCGA
135404 AAGTAAACTA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
19 3 0.07
20 39 0.93
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTTCG
Found at i:135574 original size:18 final size:18
Alignment explanation
Indices: 135551--135600 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
135541 TTTACTAAGC
135551 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
135569 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
135587 AATCTAAGTGAAAT
1 AATCTAAGTGAAAT
135601 TACGAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (18 bp):
AATCTAAGTGAAATGGTT
Found at i:137352 original size:20 final size:20
Alignment explanation
Indices: 137329--137435 Score: 101
Period size: 20 Copynumber: 5.5 Consensus size: 20
137319 TCTGAAACTT
*
137329 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCGAAAATG
*
137349 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCGAAAATG
** * **
137369 ACTATCACAACGCGAATTTG
1 AAAATCGCAACGCGAAAATG
** *
137389 ACTATTGCAACGCG-AAATG
1 AAAATCGCAACGCGAAAATG
*
137408 AAAATCGCAACGCGAAACT-
1 AAAATCGCAACGCGAAAATG
137427 AAAATCGCA
1 AAAATCGCA
137436 TTGCGATTCT
Statistics
Matches: 72, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
19 23 0.32
20 49 0.68
ACGTcount: A:0.47, C:0.22, G:0.16, T:0.15
Consensus pattern (20 bp):
AAAATCGCAACGCGAAAATG
Found at i:137848 original size:22 final size:22
Alignment explanation
Indices: 137821--137862 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
137811 GAGATAGACG
137821 GATTTCGTCGGAGATGGGGATT
1 GATTTCGTCGGAGATGGGGATT
137843 GATTTCGTCGGAGATGGGGA
1 GATTTCGTCGGAGATGGGGA
137863 CGGATGTCGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.10, G:0.43, T:0.29
Consensus pattern (22 bp):
GATTTCGTCGGAGATGGGGATT
Found at i:138115 original size:60 final size:60
Alignment explanation
Indices: 138039--138174 Score: 175
Period size: 60 Copynumber: 2.3 Consensus size: 60
138029 GCTTTGAAAA
* *
138039 TCGCATTGCGACAGTCAGAATTGCGTTGCAATAGTCAGAATCGCATTGCGATAGT-CATAC
1 TCGCATTGCGATAGTCAGAATCGCGTTGCAATAGTCAGAATCGCATTGCGAT-GTACATAC
* * * * * * *
138099 TCGCATTGCGATAGTCATACTCGCGTTGCGATAGTCATACTCGCATTGCGATTTACATAT
1 TCGCATTGCGATAGTCAGAATCGCGTTGCAATAGTCAGAATCGCATTGCGATGTACATAC
138159 TCGCATTGCGATAGTC
1 TCGCATTGCGATAGTC
138175 GGAAAATTGC
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
59 1 0.02
60 65 0.98
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (60 bp):
TCGCATTGCGATAGTCAGAATCGCGTTGCAATAGTCAGAATCGCATTGCGATGTACATAC
Found at i:138148 original size:20 final size:20
Alignment explanation
Indices: 138039--138174 Score: 157
Period size: 20 Copynumber: 6.8 Consensus size: 20
138029 GCTTTGAAAA
* * *
138039 TCGCATTGCGACAGTCAGAA
1 TCGCATTGCGATAGTCATAC
* * * * *
138059 TTGCGTTGCAATAGTCAGAA
1 TCGCATTGCGATAGTCATAC
138079 TCGCATTGCGATAGTCATAC
1 TCGCATTGCGATAGTCATAC
138099 TCGCATTGCGATAGTCATAC
1 TCGCATTGCGATAGTCATAC
*
138119 TCGCGTTGCGATAGTCATAC
1 TCGCATTGCGATAGTCATAC
* *
138139 TCGCATTGCGAT-TTACATAT
1 TCGCATTGCGATAGT-CATAC
138159 TCGCATTGCGATAGTC
1 TCGCATTGCGATAGTC
138175 GGAAAATTGC
Statistics
Matches: 100, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
19 1 0.01
20 98 0.98
21 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (20 bp):
TCGCATTGCGATAGTCATAC
Found at i:149378 original size:3 final size:3
Alignment explanation
Indices: 149370--149460 Score: 164
Period size: 3 Copynumber: 30.3 Consensus size: 3
149360 TTAATATATT
* *
149370 TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
149418 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
149461 GATATGGGTA
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 84 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:150029 original size:113 final size:113
Alignment explanation
Indices: 149784--150568 Score: 1205
Period size: 113 Copynumber: 7.0 Consensus size: 113
149774 AGAATTATGC
* * * * *
149784 AAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTTTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * *
149849 TATGAAC-TTCTCCGGAAAAGATAATCCATCAATTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGGT
149896 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * **
149961 TATGAACTTTCTCTGGAAAAGCTGATCCATTAAATGATGGATTCATAT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGGT
150009 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
**** * ** *
150074 TATGAACTCGAACTGGAAAAGATGATCCATCAATTGATTAATTTAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGGT
150122 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
150187 TATGAACTTTCTCTGGAAAAGCTGATCCATTAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGGT
*
150235 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATCAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
**
150300 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGAC
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGGT
150348 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
**** *
150413 TATGAACTCGAACTGGAAAAGATGATCCACCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGGT
*
150461 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
**** * *
150526 TATGAACTCGAACTGGAAAA-ATTTATCCATCAAGTGATGGATT
66 TATGAACTTTCTCTGGAAAAGA-TGATCCATCAAATGATGGATT
150569 TGAATCTTTG
Statistics
Matches: 619, Mismatches: 52, Indels: 3
0.92 0.08 0.00
Matches are distributed among these distances:
112 68 0.11
113 551 0.89
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.37
Consensus pattern (113 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGGT
Found at i:151360 original size:84 final size:84
Alignment explanation
Indices: 151252--151673 Score: 756
Period size: 84 Copynumber: 5.0 Consensus size: 84
151242 GATCATGCAG
* * * *
151252 TTCATCTT-TTAATTCCAACGATTGGTTCTGTCCAACCATATTAGATAACTCAAAGAACACTTCC
1 TTCATCTTCTAAATT-CAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCC
151316 AGAAGATGCTATTGAGCACA
65 AGAAGATGCTATTGAGCACA
151336 TTCATCTTCTAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCA
1 TTCATCTTCTAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCA
*
151401 AAAGATGCTATTGAGCACA
66 GAAGATGCTATTGAGCACA
151420 TTCATCTTCTAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCA
1 TTCATCTTCTAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCA
151485 GAAGATGCTATTGAGCACA
66 GAAGATGCTATTGAGCACA
*
151504 TTCATCTTCTAAATTCAATGATTGGTTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCA
1 TTCATCTTCTAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCA
151569 GAAGATGCTATTGAGCACA
66 GAAGATGCTATTGAGCACA
* *
151588 TTCATCTTCTAAATTCAATGATTGGTTATGTCCCACCAGATCAGATAACTCAAAGAACACTTCCA
1 TTCATCTTCTAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCA
151653 GAAGATGCTATTGAGCACA
66 GAAGATGCTATTGAGCACA
151672 TT
1 TT
151674 ATATTTGTTC
Statistics
Matches: 327, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
84 322 0.98
85 5 0.02
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (84 bp):
TTCATCTTCTAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCA
GAAGATGCTATTGAGCACA
Found at i:152840 original size:11 final size:11
Alignment explanation
Indices: 152812--152884 Score: 60
Period size: 11 Copynumber: 6.3 Consensus size: 11
152802 TTGACCCCCC
152812 CTTTC-TTTTT
1 CTTTCTTTTTT
152822 CTTCTTCTTTTTT
1 C-T-TTCTTTTTT
152835 CTTTCTTTTTT
1 CTTTCTTTTTT
152846 CTTTTTTCTATTTTT
1 C---TTTCT-TTTTT
*
152861 -TTTCTATTTT
1 CTTTCTTTTTT
*
152871 CTTTCTTTTCT
1 CTTTCTTTTTT
152882 CTT
1 CTT
152885 AAGCATAATA
Statistics
Matches: 52, Mismatches: 3, Indels: 15
0.74 0.04 0.21
Matches are distributed among these distances:
10 5 0.10
11 27 0.52
12 4 0.08
13 6 0.12
14 5 0.10
15 5 0.10
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (11 bp):
CTTTCTTTTTT
Found at i:152849 original size:18 final size:17
Alignment explanation
Indices: 152813--152884 Score: 81
Period size: 18 Copynumber: 3.9 Consensus size: 17
152803 TGACCCCCCC
152813 TTTCTTTTTCTTCTTCTTT
1 TTTCTTTTT-TT-TTCTTT
152832 TTTCTTTCTTTTTTCTTT
1 TTTCTTT-TTTTTTCTTT
*
152850 TTTCTATTTTTTTTCTAT
1 TTTCT-TTTTTTTTCTTT
*
152868 TTTCTTTCTTTTCTCTT
1 TTTCTTT-TTTTTTCTT
152885 AAGCATAATA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
17 2 0.04
18 32 0.68
19 11 0.23
20 2 0.04
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTCTTTTTTTTTCTTT
Found at i:152854 original size:25 final size:26
Alignment explanation
Indices: 152812--152877 Score: 86
Period size: 25 Copynumber: 2.7 Consensus size: 26
152802 TTGACCCCCC
152812 CTTTC-TTTTTC-TTCTTCT-TTTTT
1 CTTTCTTTTTTCTTTCTTCTATTTTT
*
152835 CTTTCTTTTTTCTTTTTTCTATTTTT
1 CTTTCTTTTTTCTTTCTTCTATTTTT
*
152861 -TTTCTATTTTCTTTCTT
1 CTTTCTTTTTTCTTTCTT
152878 TTCTCTTAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 5 0.14
24 6 0.16
25 21 0.57
26 5 0.14
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (26 bp):
CTTTCTTTTTTCTTTCTTCTATTTTT
Found at i:163542 original size:18 final size:19
Alignment explanation
Indices: 163512--163556 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
163502 TGCAAATAAA
163512 ATAAAACAT-ATAAATAT-T
1 ATAAAA-ATAATAAATATAT
*
163530 ATGAAAATAATAAATATAT
1 ATAAAAATAATAAATATAT
163549 ATAAAAAT
1 ATAAAAAT
163557 TTTAAAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 13 0.57
19 8 0.35
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
ATAAAAATAATAAATATAT
Found at i:165733 original size:3 final size:3
Alignment explanation
Indices: 165725--165824 Score: 182
Period size: 3 Copynumber: 33.3 Consensus size: 3
165715 TTAATATATT
* *
165725 TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
165773 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
165821 TAA T
1 TAA T
165825 GATATGGGTA
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 93 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:166838 original size:2 final size:2
Alignment explanation
Indices: 166831--166857 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
166821 ACAATAAGGC
166831 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
166858 GAATCAAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:169094 original size:33 final size:31
Alignment explanation
Indices: 169027--169098 Score: 92
Period size: 33 Copynumber: 2.3 Consensus size: 31
169017 AATAATAATA
*
169027 ATAAAAATATATTATATATTATATAAATATT
1 ATAATAATATATTATATATTATATAAATATT
*
169058 ATAATAATATACTTATAATATTA-ATGAATATAT
1 ATAATAATATA-TTAT-ATATTATATAAATAT-T
169091 ATAATAAT
1 ATAATAAT
169099 GTTTGAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
31 10 0.28
32 11 0.31
33 15 0.42
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (31 bp):
ATAATAATATATTATATATTATATAAATATT
Found at i:169653 original size:3 final size:3
Alignment explanation
Indices: 169645--169687 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
169635 TTCGTCCCAA
169645 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
169688 TCAGGCTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:169928 original size:26 final size:26
Alignment explanation
Indices: 169873--169928 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
169863 ACAGTCGTTG
**
169873 GATCGACTTGTTGATATAACGGTCTG
1 GATCGACTTGTTGATATAACGGTCCA
* *
169899 GATCGGCTTGTTGATATAACTGTCCA
1 GATCGACTTGTTGATATAACGGTCCA
169925 GATC
1 GATC
169929 AGGAGTTGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (26 bp):
GATCGACTTGTTGATATAACGGTCCA
Found at i:172053 original size:131 final size:131
Alignment explanation
Indices: 171814--172313 Score: 599
Period size: 131 Copynumber: 3.8 Consensus size: 131
171804 TCGATATTGA
* * * * * * * * *
171814 GAATAATAATATCTTTTCATTTCGGTTGGAGTAATAAATGACCGCTCTAAGGCACGAGAGGTCAT
1 GAATAATGATATCTCTTCATTTCGATTGGAGCAATAAATGACTGATTTAAGGTATGAGAGGTCAT
* * * ** * * *
171879 TTATTCTCGATTGAAAATAATTTGATATTATCGTTCTCTCTCGAATTAATATTGATTTTTAAGAT
66 TTATTCTCGATTGAAAATAATTAGATATTATCGTTTTCACTCGAATCGATGTTGAATTTTAAGAC
171944 G
131 G
*
171945 GAATAATGATATCTCTTCATTTCGATTGGAGCAATAAATGACTGATTTAAGGTATGAGAGATCAT
1 GAATAATGATATCTCTTCATTTCGATTGGAGCAATAAATGACTGATTTAAGGTATGAGAGGTCAT
* * * * *
172010 TTATTTTAGATTGAAAATTATTAGATATTATCATTTTCACTCGAATCGACGTTGAATTTTAAGAC
66 TTATTCTCGATTGAAAATAATTAGATATTATCGTTTTCACTCGAATCGATGTTGAATTTTAAGAC
172075 G
131 G
* * * *
172076 GAATAGTGATATCTCTTCATTTTGATTGAAGCAATAAATGACT-ACTTTAAAGTATGAGAGGTCA
1 GAATAATGATATCTCTTCATTTCGATTGGAGCAATAAATGACTGA-TTTAAGGTATGAGAGGTCA
* * * * *
172140 TTTATTCTCGAGTGGAAATCATTAGATATTATCGTTTTCACTCGGATCGATGTTAAATTTTAAGA
65 TTTATTCTCGATTGAAAATAATTAGATATTATCGTTTTCACTCGAATCGATGTTGAATTTTAAGA
172205 CG
130 CG
* * * * * * *
172207 GAATAGTTATATTTCTTCATTCCGATTAGAGTAATAAATGACTGCTTTAAGGTATGAGAGGTCAT
1 GAATAATGATATCTCTTCATTTCGATTGGAGCAATAAATGACTGATTTAAGGTATGAGAGGTCAT
* *
172272 TTATTCGCGGTT-AGAAATAATTAGATATTATCGTTTTCACTC
66 TTATTCTCGATTGA-AAATAATTAGATATTATCGTTTTCACTC
172314 TTAAAATTAT
Statistics
Matches: 315, Mismatches: 51, Indels: 6
0.85 0.14 0.02
Matches are distributed among these distances:
130 1 0.00
131 314 1.00
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (131 bp):
GAATAATGATATCTCTTCATTTCGATTGGAGCAATAAATGACTGATTTAAGGTATGAGAGGTCAT
TTATTCTCGATTGAAAATAATTAGATATTATCGTTTTCACTCGAATCGATGTTGAATTTTAAGAC
G
Found at i:176770 original size:19 final size:19
Alignment explanation
Indices: 176725--176771 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
176715 CAAGATGTCT
*
176725 TTCTGCACACATTACTATG
1 TTCTGCAGACATTACTATG
176744 TTCTGCAGACATTACTATG
1 TTCTGCAGACATTACTATG
176763 TTCTGCAGA
1 TTCTGCAGA
176772 AAAATAACCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (19 bp):
TTCTGCAGACATTACTATG
Found at i:183000 original size:18 final size:17
Alignment explanation
Indices: 182979--183031 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 17
182969 AAAGAAATGA
182979 AAAAGAGAAAAAATAAAG
1 AAAA-AGAAAAAATAAAG
*
182997 AAAAATAAAGAAA-AGAAG
1 AAAAAGAAA-AAATA-AAG
183015 AAAAAGAAAAAAATAAA
1 AAAAAG-AAAAAATAAA
183032 AAGGGGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
17 5 0.17
18 20 0.69
19 4 0.14
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (17 bp):
AAAAAGAAAAAATAAAG
Found at i:183002 original size:26 final size:25
Alignment explanation
Indices: 182968--183034 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 25
182958 AAAATGAAAC
182968 AAAAGAAATGAAAAAGAGAA-AAAATA-
1 AAAA-AAAT-AAAAAGAGAAGAAAA-AG
*
182994 AAGAAAAATAAAGAAAAGAAGAAAAAG
1 AA-AAAAATAAA-AAGAGAAGAAAAAG
183021 AAAAAAATAAAAAG
1 AAAAAAATAAAAAG
183035 GGGATTTAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
25 5 0.14
26 22 0.63
27 8 0.23
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (25 bp):
AAAAAAATAAAAAGAGAAGAAAAAG
Found at i:183022 original size:14 final size:14
Alignment explanation
Indices: 182979--183034 Score: 53
Period size: 14 Copynumber: 4.0 Consensus size: 14
182969 AAAGAAATGA
182979 AAAAG-AGAAAAA-
1 AAAAGAAGAAAAAG
*
182991 ATAAAGAAAAATAAAG
1 A-AAAGAAGAA-AAAG
183007 AAAAGAAGAAAAAG
1 AAAAGAAGAAAAAG
* *
183021 AAAAAAATAAAAAG
1 AAAAGAAGAAAAAG
183035 GGGATTTAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
12 1 0.03
13 4 0.11
14 19 0.53
15 11 0.31
16 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.05
Consensus pattern (14 bp):
AAAAGAAGAAAAAG
Found at i:184463 original size:133 final size:133
Alignment explanation
Indices: 184263--184843 Score: 680
Period size: 134 Copynumber: 4.3 Consensus size: 133
184253 AGTGGTTCTA
* * * ** *
184263 CCTCTATTCAATCTTCCCTGAAGAATAGTGGAATGAATCAACATCTCCATATCTGATTTTCACTC
1 CCTCAATTCAATATTCCCTGAAGAACAGTGGAATGAATCAATGTC-CCATATCTGATTTTCCCTC
*
184328 AAGAAGAAGCAGAACAGATCCCTCTCTTTCAAGATATT-ATATTCCCTGAGTAACAGTGGAACAA
65 AAGAAGAAGCAGAACAGATCCCTCTCTTTCAAGAT-TTGATATTCCATGAGTAACAGTGGAACAA
*
184392 GTCTG
129 ATCTG
** * * *
184397 CCTTGATTTAATATTCCCTAAAGAACAGTGGAATGAATCAATGTCCCATATATGATTTTCCCTCA
1 CCTCAATTCAATATTCCCTGAAGAACAGTGGAATGAATCAATGTCCCATATCTGATTTTCCCTCA
* ** *
184462 AGAAGAAGCAGAATAGATCTTTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAAT
66 AGAAGAAGCAGAACAGATCCCTCTCTTTCAAGATTTGATATTCCATGAGTAACAGTGGAACAAAT
184527 CTG
131 CTG
* * *
184530 CCTCAATTCAATATTCCCTGAAGAACATTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTC
1 CCTCAATTCAATATTCCCTGAAGAACAGTGGAATGAATCAATGT-CCCATATCTGATTTTCCCTC
* * ** * *
184595 AAGAAGAAGTAGAACATATCATTCTCTTTCAATATTTGATATTCCATGAGTAACAATGGAACAAA
65 AAGAAGAAGCAGAACAGATCCCTCTCTTTCAAGATTTGATATTCCATGAGTAACAGTGGAACAAA
184660 TCTG
130 TCTG
* * * * *
184664 CCTCAATTGAATCTTCCCTG-AGTAACAGTGGAATGAATCAATGTCCCTAAATTTGAGTTTCCCT
1 CCTCAATTCAATATTCCCTGAAG-AACAGTGGAATGAATCAATGTCCC-ATATCTGATTTTCCCT
* * * * * * *
184728 AAAAAAAGAAGCAGAACAGATCCCTCGTTTTTCAAGATTTAATCTTCCATGAGTAAAAGTGGAAT
64 -CAAGAAGAAGCAGAACAGATCCCTC-TCTTTCAAGATTTGATATTCCATGAGTAACAGTGGAAC
* *
184793 AAGTCTA
127 AAATCTG
* * * * *
184800 CCTCGATTCCATCTTCCCTGAAGAAAAGTGGAATGAGTCAATGT
1 CCTCAATTCAATATTCCCTGAAGAACAGTGGAATGAATCAATGT
184844 TTCTCGATTT
Statistics
Matches: 384, Mismatches: 56, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
132 2 0.01
133 122 0.32
134 167 0.43
135 19 0.05
136 72 0.19
137 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (133 bp):
CCTCAATTCAATATTCCCTGAAGAACAGTGGAATGAATCAATGTCCCATATCTGATTTTCCCTCA
AGAAGAAGCAGAACAGATCCCTCTCTTTCAAGATTTGATATTCCATGAGTAACAGTGGAACAAAT
CTG
Found at i:185020 original size:3 final size:3
Alignment explanation
Indices: 185012--185045 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
185002 TTGTCCCGAC
*
185012 ATT ATT ATT ATT ATT ATT ATT AATT TTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT
185046 TTAGGCTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:187437 original size:131 final size:131
Alignment explanation
Indices: 187206--187697 Score: 619
Period size: 131 Copynumber: 3.8 Consensus size: 131
187196 GAGAATAATA
* * * * *
187206 ATATCTTTTCATTTCGATTGGAGTAATAAATGACCGCTCTAAGGCACGAGAGGTCATTTATTCTC
1 ATATCTCTTCATTTCGATTGGAGCAATAAATGACTGCTTTAAGGCATGAGAGGTCATTTATTCTC
* * * * * ** * * * *
187271 GATTGAAAATAATTTGATACTATCATTCTCTCTCGAATTAATATTGATTTTTATGATGGAATAGT
66 GATTGAAAATAATTAGATATTATCGTTTTCACTCGAATCGATGTTGAATTTTAAGACGGAATAGT
187336 G
131 G
* * *
187337 ATATCTCTTCATTTCGATTGGAGCAATAAATGACTGCTTTAAGGTATGAGAGATTATTTATTCTC
1 ATATCTCTTCATTTCGATTGGAGCAATAAATGACTGCTTTAAGGCATGAGAGGTCATTTATTCTC
* *
187402 GATTGAAAATCATTAGATATTATTGTTTTCACTCGAATCGATGTTGAATTTTAAGACGGAATAGT
66 GATTGAAAATAATTAGATATTATCGTTTTCACTCGAATCGATGTTGAATTTTAAGACGGAATAGT
187467 G
131 G
* * * * *
187468 ATATCTGTTCATTTCGATTGAAGCAATAAATGACTGCTTTAAGGTATTAGGGGTCATTTATTCTC
1 ATATCTCTTCATTTCGATTGGAGCAATAAATGACTGCTTTAAGGCATGAGAGGTCATTTATTCTC
* * * *
187533 GAGTGGAAATCATTAGATATTATCGTTTTCACTCGAATCGATGTTGAATTTTAAGACGGAATAAT
66 GATTGAAAATAATTAGATATTATCGTTTTCACTCGAATCGATGTTGAATTTTAAGACGGAATAGT
187598 G
131 G
* * * *
187599 ATATTTCTTCATTTTGATTGGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTCATTTATTCT-
1 ATATCTCTTCATTTCGATTGGAGCAATAAATGACTGCTTTAAGGCATGAGAGGTCATTTATTCTC
* * *
187663 -ATGTTAGATATAATTAGATATTATTGTTTTCACTC
66 GAT-TGA-AAATAATTAGATATTATCGTTTTCACTC
187698 TTAAAATTAT
Statistics
Matches: 313, Mismatches: 46, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
129 1 0.00
130 1 0.00
131 311 0.99
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (131 bp):
ATATCTCTTCATTTCGATTGGAGCAATAAATGACTGCTTTAAGGCATGAGAGGTCATTTATTCTC
GATTGAAAATAATTAGATATTATCGTTTTCACTCGAATCGATGTTGAATTTTAAGACGGAATAGT
G
Found at i:188243 original size:14 final size:14
Alignment explanation
Indices: 188224--188254 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
188214 ATATATATTT
188224 ATAATATAATTATA
1 ATAATATAATTATA
*
188238 ATAATATACTTATA
1 ATAATATAATTATA
188252 ATA
1 ATA
188255 TTAATGAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (14 bp):
ATAATATAATTATA
Found at i:188253 original size:20 final size:21
Alignment explanation
Indices: 188228--188273 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
188218 ATATTTATAA
188228 TATAAT-TATAAT-AATATACT
1 TATAATAT-TAATGAATATACT
188248 TATAATATTAATGAATATA--
1 TATAATATTAATGAATATACT
188267 TATAATA
1 TATAATA
188274 ATGTTTGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 7 0.29
20 10 0.42
21 7 0.29
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
TATAATATTAATGAATATACT
Found at i:188269 original size:25 final size:24
Alignment explanation
Indices: 188205--188270 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 24
188195 TTTTCAGCAA
* *
188205 ATAATAAAAATATATATTTATAAT
1 ATAATAATAATATATACTTATAAT
*
188229 ATAATTATAATAATATACTTATAAT
1 ATAATAATAAT-ATATACTTATAAT
188254 ATTAATGAAT-ATATATA
1 A-TAAT-AATAATATATA
188271 ATAATGTTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 9 0.26
25 18 0.51
26 6 0.17
27 2 0.06
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (24 bp):
ATAATAATAATATATACTTATAAT
Found at i:188457 original size:20 final size:20
Alignment explanation
Indices: 188432--188485 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
188422 ACTAATTTTA
*
188432 TACAATAATTATTAAACTAT
1 TACAATAATAATTAAACTAT
188452 TACAATAATAATTAAACTAT
1 TACAATAATAATTAAACTAT
188472 TACAATAATAATTA
1 TACAATAATAATTA
188486 TAAAGATAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (20 bp):
TACAATAATAATTAAACTAT
Found at i:189275 original size:148 final size:147
Alignment explanation
Indices: 189002--189293 Score: 444
Period size: 148 Copynumber: 2.0 Consensus size: 147
188992 AAATACTCAA
* * * *
189002 TTCAGTTTATAAAATATTTGACTTGCAATTTTTTTATTTGAGTTTATAAAATTTAAATCAAGTCG
1 TTCAATTTATAAAATATTTGACTCGAAATTTTTTGATTTGAGTTTATAAAATTTAAATCAAGTCG
* * * *
189067 AATTGAATTGAATTTTTGAGTTTATTTTTAAATTTAATTATAAATATTTATCATATTATAATATT
66 AATTGAATTGAATTTTTGAGTTTATGTTTAAATATAATTATAAATATTTATAATACTATAATATT
*
189132 ATTTGATTCTAATTCAG
131 ATTTGATTCAAATTCAG
189149 TTCAATTTATAAAATAGTTT-ACTCGAAATTTTTTCGATTTGAGTTTATAAAATTTAAATCAAGT
1 TTCAATTTATAAAATA-TTTGACTCGAAATTTTTT-GATTTGAGTTTATAAAATTTAAATCAAGT
* *
189213 CGGATTGAATTG-ATTTTTCGAGTTTCTGTTTAAATATAATTATAAATATTTATAATACTATAAT
64 CGAATTGAATTGAATTTTT-GAGTTTATGTTTAAATATAATTATAAATATTTATAATACTATAAT
189277 ATTATTTGATTCAAATT
128 ATTATTTGATTCAAATT
189294 TAAATAGTTT
Statistics
Matches: 131, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
147 33 0.25
148 98 0.75
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.49
Consensus pattern (147 bp):
TTCAATTTATAAAATATTTGACTCGAAATTTTTTGATTTGAGTTTATAAAATTTAAATCAAGTCG
AATTGAATTGAATTTTTGAGTTTATGTTTAAATATAATTATAAATATTTATAATACTATAATATT
ATTTGATTCAAATTCAG
Found at i:193906 original size:19 final size:19
Alignment explanation
Indices: 193884--193927 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
193874 AGAGTTAAAA
*
193884 ATAATAAAAT-ATATTATTT
1 ATAATAAAATAATA-TACTT
*
193903 ATAATATAATAATATACTT
1 ATAATAAAATAATATACTT
193922 ATAATA
1 ATAATA
193928 TTAATCAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
ATAATAAAATAATATACTT
Found at i:193928 original size:19 final size:21
Alignment explanation
Indices: 193901--193939 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
193891 AATATATTAT
193901 TTATAATA-TAAT-AATATAC
1 TTATAATATTAATCAATATAC
193920 TTATAATATTAATCAATATA
1 TTATAATATTAATCAATATA
193940 TAATAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (21 bp):
TTATAATATTAATCAATATAC
Found at i:195063 original size:26 final size:26
Alignment explanation
Indices: 195027--195088 Score: 124
Period size: 26 Copynumber: 2.4 Consensus size: 26
195017 AGATGCCGGC
195027 TTTACAATGTTAATGCTGATACTATT
1 TTTACAATGTTAATGCTGATACTATT
195053 TTTACAATGTTAATGCTGATACTATT
1 TTTACAATGTTAATGCTGATACTATT
195079 TTTACAATGT
1 TTTACAATGT
195089 CAAAAGTTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (26 bp):
TTTACAATGTTAATGCTGATACTATT
Found at i:204293 original size:54 final size:54
Alignment explanation
Indices: 203803--204646 Score: 899
Period size: 54 Copynumber: 15.7 Consensus size: 54
203793 TATACAGTCG
* * ** * * *
203803 TTCATCAACACATGATGAATTCTGTGGGTTGCACACATAGTGCCTG-TACGGTTG
1 TTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCC-GAAACGGTTA
* * * * * * * *
203857 TTCATTAAC-TCATGATAAATTCCGTGTATTGCACACATAGTGCTTG-TACGATTG
1 TTCATCAACAT-ATGATGAATTCCGTGAATTGCACACTTAGTGC-CGAAACGGTTA
* ** * *
203911 TTCATCAAC-TCATGATGAATTTCGTGGGTTGCACA-TATAGTGCCTG-TACGGTTG
1 TTCATCAACAT-ATGATGAATTCCGTGAATTGCACACT-TAGTGCC-GAAACGGTTA
** * * * *
203965 TTCATCAAC-TCATGATGAATT-CGTGGGTTGCACACATAGTACCTG-TACGGTTG
1 TTCATCAACAT-ATGATGAATTCCGTGAATTGCACACTTAGTGCC-GAAACGGTTA
* * * * * ** * *
204018 TTCATTAAC-TCGTGATAAATTTCATGGGTTGCACACATAGTGCTGAAACGG---
1 TTCATCAACAT-ATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTTA
** *
204069 -TCATCAACATATGATGAATTTTGTGAATTGCACACTTAGTGTCGAAACGGTTA
1 TTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTTA
*
204122 TTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAGCGGTTA
1 TTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTTA
* * *
204176 TTCATCAACATATGATGAATTCCATTAATTGCACACTTAGTGCCGAAACGATTA
1 TTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTTA
* *
204230 TTCATCAACATATGATGAATTTCTTGAATTGCACACTTAGTGCCGAAACGGTTA
1 TTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTTA
* * * * * *
204284 TTCATCAACATATAACGAATTCCATGAATTGTACACTTAGCGCTGAAACGGTTA
1 TTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTTA
** * * *
204338 TTCATCAACATATGACAAATTCCGTGAATTGTACACTTAGTGTCGAAACGATTA
1 TTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTTA
* * * *
204392 TTCATCAACATATGTTGAATTCAGTGAATTGTACACTTAGTGTCGAAACGGTTA
1 TTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTTA
*
204446 TTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACAGTTA
1 TTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTTA
* *
204500 TTCATCAATATATGATGAATTCCGTGAATTGTACACTTAGTGCCGAAACGGTTA
1 TTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTTA
**
204554 TTCATCAACATATGACT-AATTCCGTGAATTGCACACTTAGTGTTGAAACGGTTA
1 TTCATCAACATATGA-TGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTTA
* *
204608 TTCATCAAAATATGATGAATTCCATGAATTGCACACTTA
1 TTCATCAACATATGATGAATTCCGTGAATTGCACACTTA
204647 ATACCTATTT
Statistics
Matches: 696, Mismatches: 80, Indels: 28
0.87 0.10 0.03
Matches are distributed among these distances:
50 38 0.05
51 1 0.00
53 49 0.07
54 607 0.87
55 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.33
Consensus pattern (54 bp):
TTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTTA
Found at i:204910 original size:22 final size:22
Alignment explanation
Indices: 204885--204951 Score: 93
Period size: 22 Copynumber: 3.1 Consensus size: 22
204875 TAGTATACCC
204885 ATACCATGGTATCGATACTACT
1 ATACCATGGTATCGATACTACT
* * *
204907 ATACTATGGTATTGATAC--CC
1 ATACCATGGTATCGATACTACT
204927 ATACCATGGTATCGATACTACT
1 ATACCATGGTATCGATACTACT
204949 ATA
1 ATA
204952 TTATGGTACT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
20 17 0.46
22 20 0.54
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (22 bp):
ATACCATGGTATCGATACTACT
Found at i:204935 original size:20 final size:20
Alignment explanation
Indices: 204879--204944 Score: 87
Period size: 20 Copynumber: 3.2 Consensus size: 20
204869 AATTTTTAGT
204879 ATACCCATACCATGGTATCG
1 ATACCCATACCATGGTATCG
* * *
204899 ATACTACTATACTATGGTATTG
1 ATAC--CCATACCATGGTATCG
204921 ATACCCATACCATGGTATCG
1 ATACCCATACCATGGTATCG
204941 ATAC
1 ATAC
204945 TACTATATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
20 21 0.55
22 17 0.45
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (20 bp):
ATACCCATACCATGGTATCG
Found at i:204938 original size:42 final size:42
Alignment explanation
Indices: 204879--204966 Score: 158
Period size: 42 Copynumber: 2.1 Consensus size: 42
204869 AATTTTTAGT
*
204879 ATACCCATACCATGGTATCGATACTACTATACTATGGTATTG
1 ATACCCATACCATGGTATCGATACTACTATACTATGGTACTG
*
204921 ATACCCATACCATGGTATCGATACTACTATATTATGGTACTG
1 ATACCCATACCATGGTATCGATACTACTATACTATGGTACTG
204963 ATAC
1 ATAC
204967 TCTATTATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.33
Consensus pattern (42 bp):
ATACCCATACCATGGTATCGATACTACTATACTATGGTACTG
Done.