Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001179.1 Hibiscus syriacus cultivar Beakdansim tig00002345_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: 278765
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 2 of 2
Found at i:119696 original size:20 final size:18
Alignment explanation
Indices: 119671--119724 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 18
119661 TTATCTTCCT
119671 TTATTTTATTTTATTCAA
1 TTATTTTATTTTATTCAA
*
119689 TTTCATTTT-TTTTCATCCAA
1 -TT-ATTTTATTTT-ATTCAA
119709 TTATTTTATGTTTATT
1 TTATTTTAT-TTTATT
119725 ATTATTGGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
18 5 0.17
19 11 0.38
20 13 0.45
ACGTcount: A:0.22, C:0.09, G:0.02, T:0.67
Consensus pattern (18 bp):
TTATTTTATTTTATTCAA
Found at i:125759 original size:22 final size:22
Alignment explanation
Indices: 125733--125776 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
125723 ACATCCAAAA
*
125733 CAACTCAAAATTCAATCTCCGT
1 CAACTCAAAATTCAATATCCGT
* *
125755 CAACTCGAAATTCGATATCCGT
1 CAACTCAAAATTCAATATCCGT
125777 TGCATCGGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.34, C:0.30, G:0.09, T:0.27
Consensus pattern (22 bp):
CAACTCAAAATTCAATATCCGT
Found at i:129174 original size:18 final size:18
Alignment explanation
Indices: 129151--129186 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
129141 TTTACAACCA
129151 ACCTGGTGCCGGACCTGC
1 ACCTGGTGCCGGACCTGC
*
129169 ACCTGGTGCCGGTCCTGC
1 ACCTGGTGCCGGACCTGC
129187 GCCCGGTGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.08, C:0.39, G:0.33, T:0.19
Consensus pattern (18 bp):
ACCTGGTGCCGGACCTGC
Found at i:129194 original size:18 final size:18
Alignment explanation
Indices: 129155--129195 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
129145 CAACCAACCT
*
129155 GGTGCCGGACCTGCACCT
1 GGTGCCGGACCTGCACCC
* *
129173 GGTGCCGGTCCTGCGCCC
1 GGTGCCGGACCTGCACCC
129191 GGTGC
1 GGTGC
129196 TGAAAGTGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.05, C:0.39, G:0.39, T:0.17
Consensus pattern (18 bp):
GGTGCCGGACCTGCACCC
Found at i:132446 original size:19 final size:20
Alignment explanation
Indices: 132422--132472 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
132412 AATGACCAAT
132422 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATATAC
* *
132441 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATATAC
132461 AAAATCGCAACG
1 AAAATCGCAACG
132473 TTAAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATATAC
Found at i:132466 original size:20 final size:20
Alignment explanation
Indices: 132422--132780 Score: 197
Period size: 20 Copynumber: 17.6 Consensus size: 20
132412 AATGACCAAT
*
132422 AAAATCGCAACGCGA-T-ATC
1 AAAATCGCAACGCGATTGA-G
*
132441 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTGAG
** ***
132461 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATTGAG
**
132481 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TGAG
**
132501 AAAATCGCAACGCGAGCTT-CC
1 AAAATCGCAACGCGA--TTGAG
**
132522 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGA-TT-G-AG
* *
132545 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTGAG
* * * *
132565 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTGAG
* *
132585 AGAATCGCAATTGCGATTGAG
1 AAAATCGCAA-CGCGATTGAG
* *
132606 AGAGTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGA-TT-G-AG
* * *
132629 AGAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTGAG
* * *
132649 AGAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTGAG
* * *
132669 AGAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTGAG
* * *
132689 AGAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTGAG
* * *
132709 AGAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTGAG
* *
132729 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTGAG
* *
132749 AGAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTGAG
132769 AAAATCGCAACG
1 AAAATCGCAACG
132781 TTGAAAATAA
Statistics
Matches: 292, Mismatches: 33, Indels: 29
0.82 0.09 0.08
Matches are distributed among these distances:
19 15 0.05
20 209 0.72
21 36 0.12
22 4 0.01
23 27 0.09
24 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.18
Consensus pattern (20 bp):
AAAATCGCAACGCGATTGAG
Found at i:132677 original size:40 final size:40
Alignment explanation
Indices: 132547--132778 Score: 311
Period size: 40 Copynumber: 5.7 Consensus size: 40
132537 TTTAGAAGAA
* * * *
132547 AATCGCAATGCGATTGATAGAATCGCAATGCGATTTATAG
1 AATCGCAATGCGACTGAGAGAATCGCAATGCGATTGAGAG
* * *
132587 AATCGCAATTGCGATTGAGAGAGTCGCAACGCGATTTAGAAGAG
1 AATCGCAA-TGCGACTGAGAGAATCGCAATGCGA-TT-G-AGAG
*
132631 AATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAG
1 AATCGCAATGCGACTGAGAGAATCGCAATGCGATTGAGAG
*
132671 AATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAG
1 AATCGCAATGCGACTGAGAGAATCGCAATGCGATTGAGAG
132711 AATCGCAATGCGACTGAGAGAATCGCAATGCGATTGAGAG
1 AATCGCAATGCGACTGAGAGAATCGCAATGCGATTGAGAG
* * * *
132751 AATCGCAACGCGATTTAGAAAATCGCAA
1 AATCGCAATGCGACTGAGAGAATCGCAA
132779 CGTTGAAAAT
Statistics
Matches: 174, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
40 115 0.66
41 23 0.13
42 3 0.02
43 22 0.13
44 11 0.06
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (40 bp):
AATCGCAATGCGACTGAGAGAATCGCAATGCGATTGAGAG
Found at i:132707 original size:60 final size:60
Alignment explanation
Indices: 132547--132778 Score: 320
Period size: 60 Copynumber: 3.8 Consensus size: 60
132537 TTTAGAAGAA
* * * * *
132547 AATCGCAATGCGATTGATAGAATCGCAATGCGATTTATAGAATCGCAATTGCGATTGAGAG
1 AATCGCAATGCGATTGAGAGAATCGCAATGCGACTGAGAGAATCGCAA-TGCGACTGAGAG
* *
132608 AGTCGCAACGCGATTTAGAAGAGAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAG
1 AATCGCAATGCGA-TT-G-AGAGAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAG
*
132671 AATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAG
1 AATCGCAATGCGATTGAGAGAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAG
* * * *
132731 AATCGCAATGCGATTGAGAGAATCGCAACGCGATTTAGAAAATCGCAA
1 AATCGCAATGCGATTGAGAGAATCGCAATGCGACTGAGAGAATCGCAA
132779 CGTTGAAAAT
Statistics
Matches: 153, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
60 87 0.57
61 12 0.08
62 3 0.02
63 23 0.15
64 28 0.18
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (60 bp):
AATCGCAATGCGATTGAGAGAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAG
Found at i:132807 original size:20 final size:20
Alignment explanation
Indices: 132769--132807 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
132759 CGCGATTTAG
* *
132769 AAAATCGCAACGTTGAAAAT
1 AAAATCGCAACGGTCAAAAT
132789 AAAATCGCAACGGTCAAAA
1 AAAATCGCAACGGTCAAAA
132808 GAATAGTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.18, G:0.15, T:0.15
Consensus pattern (20 bp):
AAAATCGCAACGGTCAAAAT
Found at i:132899 original size:6 final size:6
Alignment explanation
Indices: 132888--132962 Score: 150
Period size: 6 Copynumber: 12.5 Consensus size: 6
132878 GACACGTATT
132888 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
132936 ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACC
132963 CGAGACGAGA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 69 1.00
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:133661 original size:6 final size:6
Alignment explanation
Indices: 133650--133694 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
133640 TCTCGTCTCG
133650 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
133695 AATACGTGTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:133827 original size:20 final size:20
Alignment explanation
Indices: 133804--133951 Score: 179
Period size: 20 Copynumber: 7.4 Consensus size: 20
133794 ATTTTCAACG
* *
133804 TTGCGATTCTATAAATCGCA
1 TTGCGATTCTCTCAATCGCA
* *
133824 TTGCGATTCTCTCAGTCGCG
1 TTGCGATTCTCTCAATCGCA
* *
133844 TTGCGATTCTCTCAGTCGCG
1 TTGCGATTCTCTCAATCGCA
* *
133864 TTGCGACTCTCTCAATCGCG
1 TTGCGATTCTCTCAATCGCA
* *
133884 TTGCGACTCTCTCAATCGCT
1 TTGCGATTCTCTCAATCGCA
* *
133904 TTGCGATTATATCAATCGCA
1 TTGCGATTCTCTCAATCGCA
*
133924 TTGCGATTCTATCAATCGCA
1 TTGCGATTCTCTCAATCGCA
133944 TTGCGATT
1 TTGCGATT
133952 TTCTTCTAAA
Statistics
Matches: 116, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 116 1.00
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (20 bp):
TTGCGATTCTCTCAATCGCA
Found at i:133846 original size:40 final size:40
Alignment explanation
Indices: 133802--133972 Score: 198
Period size: 40 Copynumber: 4.2 Consensus size: 40
133792 TTATTTTCAA
* *
133802 CGTTGCGATTCTATAAATCGCATTGCGATTCTCTCAGTCG
1 CGTTGCGATTCTATCAATCGCATTGCGATTCTCTCAATCG
* * * *
133842 CGTTGCGATTCTCTCAGTCGCGTTGCGACTCTCTCAATCG
1 CGTTGCGATTCTATCAATCGCATTGCGATTCTCTCAATCG
* * * * *
133882 CGTTGCGACTCTCTCAATCGCTTTGCGATTATATCAATCG
1 CGTTGCGATTCTATCAATCGCATTGCGATTCTCTCAATCG
* *
133922 CATTGCGATTCTATCAATCGCATTGCGATTTTCTTCTAAATCG
1 CGTTGCGATTCTATCAATCGCATTGCGA--TTC-TCTCAATCG
133965 CGTTGCGA
1 CGTTGCGA
133973 ACTTGGAAGC
Statistics
Matches: 108, Mismatches: 20, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
40 92 0.85
42 2 0.02
43 14 0.13
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (40 bp):
CGTTGCGATTCTATCAATCGCATTGCGATTCTCTCAATCG
Found at i:133851 original size:60 final size:60
Alignment explanation
Indices: 133782--133972 Score: 174
Period size: 60 Copynumber: 3.1 Consensus size: 60
133772 TTCTTTTGAC
* * *
133782 CGTTGCGATTTTATTTTCAACGTTGCGATTCTATAAATCGCATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTATTATCAACGTTGCGATTCTATCAATCGCATTGCGATTCTCTCAATCG
* * * * * * * *
133842 CGTTGCGATTCTCTCAGTC-GCGTTGCGACTCTCTCAATCGCGTTGCGACTCTCTCAATCG
1 CGTTGCGATTTTATTA-TCAACGTTGCGATTCTATCAATCGCATTGCGATTCTCTCAATCG
* *
133902 CTTTGCGA--TTA-TATCAATCGCATTGCGATTCTATCAATCGCATTGCGATTTTCTTCTAAATC
1 CGTTGCGATTTTATTATCAA-CG--TTGCGATTCTATCAATCGCATTGCGA--TTC-TCTCAATC
133964 G
60 G
133965 CGTTGCGA
1 CGTTGCGA
133973 ACTTGGAAGC
Statistics
Matches: 101, Mismatches: 22, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
56 2 0.02
57 1 0.01
58 3 0.03
60 76 0.75
61 2 0.02
62 2 0.02
63 15 0.15
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.37
Consensus pattern (60 bp):
CGTTGCGATTTTATTATCAACGTTGCGATTCTATCAATCGCATTGCGATTCTCTCAATCG
Found at i:134013 original size:20 final size:20
Alignment explanation
Indices: 133988--134039 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
133978 GAAGCTCGCA
*
133988 TTGCGATTTTCTTTTGACCG
1 TTGCGATTTTCTTTTGAACG
*
134008 TTGCGATTTTCTTTTTAACG
1 TTGCGATTTTCTTTTGAACG
134028 TTGCGATTTTCT
1 TTGCGATTTTCT
134040 AAATCGCGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.12, C:0.17, G:0.17, T:0.54
Consensus pattern (20 bp):
TTGCGATTTTCTTTTGAACG
Found at i:134066 original size:19 final size:20
Alignment explanation
Indices: 134026--134076 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
134016 TTCTTTTTAA
*
134026 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCGAAATCG
*
134046 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCGAAATCG
134065 CGTTGCGATTTT
1 CGTTGCGATTTT
134077 ATTGGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTCGAAATCG
Found at i:138409 original size:16 final size:16
Alignment explanation
Indices: 138388--138431 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
138378 TAATAAATAA
138388 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
138404 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
138420 ACGAACATAAAC
1 ACGAACATAAAC
138432 ATTGGAGACC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.57, C:0.23, G:0.11, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:139097 original size:24 final size:24
Alignment explanation
Indices: 139062--139130 Score: 102
Period size: 24 Copynumber: 2.9 Consensus size: 24
139052 GATTGGCTTA
* *
139062 AACATAAATGAATGAACATAAACG
1 AACATAACTGAACGAACATAAACG
*
139086 AACATAACTGAACAAACATAAACG
1 AACATAACTGAACGAACATAAACG
*
139110 AACATAACTAAACGAACATAA
1 AACATAACTGAACGAACATAA
139131 CTGAACGTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.59, C:0.17, G:0.09, T:0.14
Consensus pattern (24 bp):
AACATAACTGAACGAACATAAACG
Found at i:139105 original size:14 final size:14
Alignment explanation
Indices: 139082--139137 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
139072 AATGAACATA
139082 AACGAACATAACTG
1 AACGAACATAACTG
*
139096 AACAAACAT-A---
1 AACGAACATAACTG
*
139106 AACGAACATAACTA
1 AACGAACATAACTG
139120 AACGAACATAACTG
1 AACGAACATAACTG
139134 AACG
1 AACG
139138 TTTACGAACG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
10 8 0.23
11 1 0.03
13 1 0.03
14 25 0.71
ACGTcount: A:0.55, C:0.21, G:0.11, T:0.12
Consensus pattern (14 bp):
AACGAACATAACTG
Found at i:143462 original size:86 final size:86
Alignment explanation
Indices: 143312--143521 Score: 388
Period size: 86 Copynumber: 2.5 Consensus size: 86
143302 TTTGAAGAGG
*
143312 CGTTCAGTGGGCTAAGACTCAGATACTGATCGTTATCTCCAACCGATCACCGAGTCCAGCAGCTA
1 CGTTAAGTGGGCTAAGACTCAGATACTGATCGTTATCTCCAACCGATCACCGAGTCCAGCAGCTA
*
143377 CAAACCGCAGATAGGGTCGGC
66 CAAACCGCAGATAGGGTCAGC
143398 CGTTAAGTGGGCTAAGACTCAGATACTGATCGTTATCTCCAACCGATCACCGAGTCCAGCAGCTA
1 CGTTAAGTGGGCTAAGACTCAGATACTGATCGTTATCTCCAACCGATCACCGAGTCCAGCAGCTA
143463 CAAACCGCAGATAGGGTCAGC
66 CAAACCGCAGATAGGGTCAGC
143484 CGTTAAGTGGGCT--GACTCAGATACTGATCGTTATCTCC
1 CGTTAAGTGGGCTAAGACTCAGATACTGATCGTTATCTCC
143522 TTTAAGTGCC
Statistics
Matches: 122, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
84 25 0.20
86 97 0.80
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.22
Consensus pattern (86 bp):
CGTTAAGTGGGCTAAGACTCAGATACTGATCGTTATCTCCAACCGATCACCGAGTCCAGCAGCTA
CAAACCGCAGATAGGGTCAGC
Found at i:143976 original size:23 final size:24
Alignment explanation
Indices: 143946--143994 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
143936 ACAATGGCTT
143946 ATAGTT-GGATCAATTGTATTAGC
1 ATAGTTGGGATCAATTGTATTAGC
143969 ATAGTTGGGATCAATTGTATTAGC
1 ATAGTTGGGATCAATTGTATTAGC
143993 AT
1 AT
143995 TTATATTGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (24 bp):
ATAGTTGGGATCAATTGTATTAGC
Found at i:164095 original size:24 final size:23
Alignment explanation
Indices: 164068--164143 Score: 57
Period size: 24 Copynumber: 3.2 Consensus size: 23
164058 TGGCTCTCCC
164068 AAATTACGAAATGATAAACTTAAA
1 AAATTAC-AAATGATAAACTTAAA
* * *
164092 AAATAACTAAAAT-TTAAGAGTTAAA
1 AAATTAC--AAATGATAA-ACTTAAA
*
164117 ATAACTA-AAATGATAAACTTAAA
1 A-AATTACAAATGATAAACTTAAA
164140 AAAT
1 AAAT
164144 AAACAGTTTA
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
22 2 0.05
23 11 0.28
24 12 0.31
25 11 0.28
26 3 0.08
ACGTcount: A:0.61, C:0.07, G:0.07, T:0.26
Consensus pattern (23 bp):
AAATTACAAATGATAAACTTAAA
Found at i:164104 original size:25 final size:25
Alignment explanation
Indices: 164076--164145 Score: 92
Period size: 23 Copynumber: 2.9 Consensus size: 25
164066 CCAAATTACG
164076 AAATGATAAACTTAAAAAATAACTA
1 AAATGATAAACTTAAAAAATAACTA
* *
164101 AAAT-TTAAGAGTT--AAAATAACTA
1 AAATGATAA-ACTTAAAAAATAACTA
164124 AAATGATAAACTTAAAAAATAA
1 AAATGATAAACTTAAAAAATAA
164146 ACAGTTTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
23 17 0.46
24 6 0.16
25 14 0.38
ACGTcount: A:0.63, C:0.06, G:0.06, T:0.26
Consensus pattern (25 bp):
AAATGATAAACTTAAAAAATAACTA
Found at i:175669 original size:6 final size:6
Alignment explanation
Indices: 175658--175690 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
175648 ACAAAATAAG
175658 TTCTAA TTCTAA TTCTAA TTCTAA TTCTAA TTC
1 TTCTAA TTCTAA TTCTAA TTCTAA TTCTAA TTC
175691 AACTCCTTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.30, C:0.18, G:0.00, T:0.52
Consensus pattern (6 bp):
TTCTAA
Found at i:178752 original size:2 final size:2
Alignment explanation
Indices: 178745--178774 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
178735 AGGCACAACC
178745 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
178775 TGTACAATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:180218 original size:44 final size:44
Alignment explanation
Indices: 180154--180240 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
180144 TCTAAAGAGG
*
180154 AACTCAAAACAGAAAATAGGAGGAGGATCTTATCCTCCGAAAAAT
1 AACTCAAAACAGAAAATAGGAGGAGGATCTTATCCACC-AAAAAT
* * *
180199 AACTCAAATC-GAAAATAGGATGTGGATCTTATCCACCAAAAA
1 AACTCAAAACAGAAAATAGGAGGAGGATCTTATCCACCAAAAA
180241 GGAACAATGG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 5 0.13
44 24 0.63
45 9 0.24
ACGTcount: A:0.46, C:0.18, G:0.16, T:0.20
Consensus pattern (44 bp):
AACTCAAAACAGAAAATAGGAGGAGGATCTTATCCACCAAAAAT
Found at i:180534 original size:2 final size:2
Alignment explanation
Indices: 180523--180558 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
180513 AAATAAATTT
180523 TA TA -A TA TA 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 TA TA TA TA TA T
180559 TACTTGATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:180971 original size:27 final size:25
Alignment explanation
Indices: 180940--180989 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
180930 AACTGTAAAG
180940 ATAAACTCAATATGTCCAAAAAAAAAC
1 ATAAACTCAA-ATGT-CAAAAAAAAAC
* *
180967 ATAAAGTCAAATGTCAACAAAAA
1 ATAAACTCAAATGTCAAAAAAAA
180990 TAGTCAAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 8 0.38
26 4 0.19
27 9 0.43
ACGTcount: A:0.60, C:0.16, G:0.06, T:0.18
Consensus pattern (25 bp):
ATAAACTCAAATGTCAAAAAAAAAC
Found at i:182422 original size:15 final size:15
Alignment explanation
Indices: 182402--182430 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
182392 AGGAAACAAA
182402 ACATGGGCGGCTATG
1 ACATGGGCGGCTATG
182417 ACATGGGCGGCTAT
1 ACATGGGCGGCTAT
182431 CAAAATTATT
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:0.21, C:0.21, G:0.38, T:0.21
Consensus pattern (15 bp):
ACATGGGCGGCTATG
Found at i:191292 original size:114 final size:114
Alignment explanation
Indices: 191087--191307 Score: 379
Period size: 114 Copynumber: 1.9 Consensus size: 114
191077 GATTAAGATA
*
191087 TTTTGAGACCGGGTGGAGTAGGAATTTTTAGAGCCCGACATTTTATCGGTGGATTCTGTCCACTT
1 TTTTGAGACCGGGTGGAGTAGGAATTTTTAGAGCCAGACATTTTATCGGTGGATTCTGTCCACTT
*
191152 GATGTAAAATAGATGAAACTCATGCGAACGATGATAATTATCTGTTTAT
66 GATGTAAAATAGATGAAACTCATGCGAAAGATGATAATTATCTGTTTAT
* * *
191201 TTTTTAGACCGGGTGGAGTATGAATTTTTAGAGCCAGACATTTTGTCGGTGGATTCTGTCCACTT
1 TTTTGAGACCGGGTGGAGTAGGAATTTTTAGAGCCAGACATTTTATCGGTGGATTCTGTCCACTT
* *
191266 GCTGTTAAATAGATGAAACTCATGCGAAAGATGATAATTATC
66 GATGTAAAATAGATGAAACTCATGCGAAAGATGATAATTATC
191308 GAGTGCTCTT
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 100 1.00
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (114 bp):
TTTTGAGACCGGGTGGAGTAGGAATTTTTAGAGCCAGACATTTTATCGGTGGATTCTGTCCACTT
GATGTAAAATAGATGAAACTCATGCGAAAGATGATAATTATCTGTTTAT
Found at i:193432 original size:16 final size:16
Alignment explanation
Indices: 193413--193444 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
193403 AAAAAACGTT
193413 TCCATTAAGAAACATA
1 TCCATTAAGAAACATA
193429 TCCATTAAGAAACATA
1 TCCATTAAGAAACATA
193445 ATAAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.25
Consensus pattern (16 bp):
TCCATTAAGAAACATA
Found at i:193727 original size:11 final size:11
Alignment explanation
Indices: 193711--193764 Score: 54
Period size: 11 Copynumber: 4.5 Consensus size: 11
193701 GAAAGTGGGC
193711 GGGCGGATACG
1 GGGCGGATACG
*
193722 GGGCGGATGCGGGG
1 GGGCGGATAC---G
193736 CGGGCGGATACG
1 -GGGCGGATACG
*
193748 GGGCGGATGCG
1 GGGCGGATACG
193759 GGGCGG
1 GGGCGG
193765 GTAATGTCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
11 25 0.69
12 1 0.03
14 1 0.03
15 9 0.25
ACGTcount: A:0.11, C:0.19, G:0.63, T:0.07
Consensus pattern (11 bp):
GGGCGGATACG
Found at i:193727 original size:15 final size:15
Alignment explanation
Indices: 193707--193753 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
193697 AATAGAAAGT
193707 GGGCGGGCGGATAC-
1 GGGCGGGCGGATACG
*
193721 --G-GGGCGGATGCG
1 GGGCGGGCGGATACG
193733 GGGCGGGCGGATACG
1 GGGCGGGCGGATACG
193748 GGGCGG
1 GGGCGG
193754 ATGCGGGGCG
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
11 9 0.33
12 1 0.04
14 1 0.04
15 16 0.59
ACGTcount: A:0.11, C:0.19, G:0.64, T:0.06
Consensus pattern (15 bp):
GGGCGGGCGGATACG
Found at i:193743 original size:26 final size:26
Alignment explanation
Indices: 193707--193765 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
193697 AATAGAAAGT
193707 GGGCGGGCGGATACGGGGCGGATGCG
1 GGGCGGGCGGATACGGGGCGGATGCG
193733 GGGCGGGCGGATACGGGGCGGATGCG
1 GGGCGGGCGGATACGGGGCGGATGCG
193759 GGGCGGG
1 GGGCGGG
193766 TAATGTCTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.10, C:0.19, G:0.64, T:0.07
Consensus pattern (26 bp):
GGGCGGGCGGATACGGGGCGGATGCG
Found at i:200674 original size:48 final size:48
Alignment explanation
Indices: 200622--200724 Score: 111
Period size: 48 Copynumber: 2.1 Consensus size: 48
200612 ATATTTTATC
* *
200622 TGATTTCCGA-CTTGAATTTTGTTCTGATA-CATGACCTAAATTCTGTTA
1 TGATTTCCGATC-TGAATTCTGTTCTGATATC-TGACCTAAATTCTATTA
* * ** *
200670 TGATTTCTGATCTGGATTCTGTTCTGATATCTGTTCTAAATTCTATTT
1 TGATTTCCGATCTGAATTCTGTTCTGATATCTGACCTAAATTCTATTA
200718 TGATTTC
1 TGATTTC
200725 TAATATCTCC
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
48 44 0.96
49 2 0.04
ACGTcount: A:0.21, C:0.16, G:0.15, T:0.49
Consensus pattern (48 bp):
TGATTTCCGATCTGAATTCTGTTCTGATATCTGACCTAAATTCTATTA
Found at i:200688 original size:24 final size:24
Alignment explanation
Indices: 200657--200725 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 24
200647 GATACATGAC
200657 CTAAATTCTGTTATGATTTCTGAT
1 CTAAATTCTGTTATGATTTCTGAT
** * * *
200681 CTGGATTCTGTTCTGATATCTGTT
1 CTAAATTCTGTTATGATTTCTGAT
* *
200705 CTAAATTCTATTTTGATTTCT
1 CTAAATTCTGTTATGATTTCT
200726 AATATCTCCG
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.20, C:0.14, G:0.13, T:0.52
Consensus pattern (24 bp):
CTAAATTCTGTTATGATTTCTGAT
Found at i:200894 original size:2 final size:2
Alignment explanation
Indices: 200887--200921 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
200877 AGGATAGGGG
200887 TA TA TA TA 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 TA TA TA TA T
200922 GTTTTAAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:220491 original size:27 final size:27
Alignment explanation
Indices: 220453--220520 Score: 136
Period size: 27 Copynumber: 2.5 Consensus size: 27
220443 AAGGTAAAAT
220453 GAAAATTATATTAAATTCAACCAACAA
1 GAAAATTATATTAAATTCAACCAACAA
220480 GAAAATTATATTAAATTCAACCAACAA
1 GAAAATTATATTAAATTCAACCAACAA
220507 GAAAATTATATTAA
1 GAAAATTATATTAA
220521 CTGATAAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.56, C:0.12, G:0.04, T:0.28
Consensus pattern (27 bp):
GAAAATTATATTAAATTCAACCAACAA
Found at i:228278 original size:17 final size:18
Alignment explanation
Indices: 228235--228282 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
228225 TATTTCTGAG
*
228235 GGAATTGGAATATGTGAA
1 GGAATTGGAATCTGTGAA
* *
228253 GGAACTGGAATCTGT-CA
1 GGAATTGGAATCTGTGAA
228270 GGAATTGGAATCT
1 GGAATTGGAATCT
228283 AATTCCATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.27
Consensus pattern (18 bp):
GGAATTGGAATCTGTGAA
Found at i:229119 original size:264 final size:249
Alignment explanation
Indices: 228670--229218 Score: 702
Period size: 264 Copynumber: 2.2 Consensus size: 249
228660 GTTTCACCTG
* *
228670 ACCCGACCCGAAATAA-AAAAAAA-A---TTATTCAATAAAAGCAGTGACTTAATTGGAAAAAAT
1 ACCCGACCCAAAATAATAAAAAAATATTTTTATTCAATAAAAGCAGTGACTTAATTGAAAAAAAT
*
228730 AGAGAGAGAGGAGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTTTTTGGG
66 AGAGAGAGAGGAGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTATTT--G
* * *
228795 TCGGGTCGGGTATTTTTCACTCTAAACCTGAACCCGACCCGAATATCACACTTAAAAAAAACCTA
129 TCGAGTCGGGTATTTTTCACCCTAAACCCGAACCCGACCCGAATATCACACTTAAAAAAAA--T-
*
228860 CCCGACCCGACCAAAATAAAGTTTCACCCGACCCGACACGAATATATGAATTAGAAATCCTACCC
191 --CGACCCGACCAAAATAAAGTTTCACCCAACCCGACACGAATATATGAATTAG-AA----ACCC
*
228925 G
249 A
*
228926 ACCCGACCCAAAATAATAAAAAATTTTATTTTTATTCAATAGAAA-CAGTGACTTAATTGAAAAA
1 ACCCGACCCAAAATAATAAAAAA--ATATTTTTATTCAATA-AAAGCAGTGACTTAATTGAAAAA
* * * * *
228990 AATTATATATAGAGGGGTATTATTGTAATTATTCCTAAATATATAATGTAAAATTATATA-TATT
63 AA-TAGAGAGAGAGGAGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTATT
229054 T-TCGAGTCGGGTATTTTTCACCCTAAACCCGATCTCGACCCGACCCGAATATCACACTT-AAAA
127 TGTCGAGTCGGGTATTTTTCACCCTAAACCCGA-----ACCCGACCCGAATATCACACTTAAAAA
*
229117 AAATCGACCCGACCAAAATAAAGTTTCACCCAACCCGACCCGAATATATGAATTAGAAACCCA
187 AAATCGACCCGACCAAAATAAAGTTTCACCCAACCCGACACGAATATATGAATTAGAAACCCA
*
229180 ACCCGACCTAAAATAATAAAAAAATATTTTTATTCAATA
1 ACCCGACCCAAAATAATAAAAAAATATTTTTATTCAATA
229219 TATGAATAAG
Statistics
Matches: 262, Mismatches: 17, Indels: 32
0.84 0.05 0.10
Matches are distributed among these distances:
252 15 0.06
254 26 0.10
256 15 0.06
257 6 0.02
258 2 0.01
259 50 0.19
260 29 0.11
262 1 0.00
263 34 0.13
264 62 0.24
265 22 0.08
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.27
Consensus pattern (249 bp):
ACCCGACCCAAAATAATAAAAAAATATTTTTATTCAATAAAAGCAGTGACTTAATTGAAAAAAAT
AGAGAGAGAGGAGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTATTTGTC
GAGTCGGGTATTTTTCACCCTAAACCCGAACCCGACCCGAATATCACACTTAAAAAAAATCGACC
CGACCAAAATAAAGTTTCACCCAACCCGACACGAATATATGAATTAGAAACCCA
Found at i:229187 original size:259 final size:258
Alignment explanation
Indices: 228694--229187 Score: 712
Period size: 259 Copynumber: 1.9 Consensus size: 258
228684 AAAAAAAAAA
*
228694 TTATTCAATAAAAGCAGTGACTTAATTGGAAAAAATAGAGAGAGAGGAGTATTATTGTAATTATT
1 TTATTCAATAAAAGCAGTGACTTAATTGAAAAAAATAGAGAGAGAGGAGTATTATTGTAATTATT
* * * *
228759 CCTAAATATATAAGGTAAAATTATATATTTTTTGGGTCGGGTCGGGTATTTTTCACTCTAAACCT
66 CCTAAATATATAAGGTAAAATTATATATTATTT--GTCGAGTCGGGTATTTTTCACCCTAAACCC
228824 GAACCCGACCCGAATATCACACTTAAAAAAAACCTACCCGACCCGACCAAAATAAAGTTTCACCC
129 GAACCCGACCCGAATATCACACTTAAAAAAAA-CT--CCGACCCGACCAAAATAAAGTTTCACCC
* * *
228889 GACCCGACACGAATATATGAATTAGAAATCCTACCCGACCCGACCCAAAATAATAAAAAATTTTA
191 AACCCGACACGAATATATGAATTAGAAACCCAACCCGACCCGACCCAAAATAATAAAAAATTTTA
228954 TTT
256 TTT
* * * *
228957 TTATTCAATAGAAA-CAGTGACTTAATTGAAAAAAATTATATATAGAGGGGTATTATTGTAATTA
1 TTATTCAATA-AAAGCAGTGACTTAATTGAAAAAAA-TAGAGAGAGAGGAGTATTATTGTAATTA
*
229021 TTCCTAAATATATAATGTAAAATTATATA-TATTT-TCGAGTCGGGTATTTTTCACCCTAAACCC
64 TTCCTAAATATATAAGGTAAAATTATATATTATTTGTCGAGTCGGGTATTTTTCACCCTAAACCC
229084 GATCTCGACCCGACCCGAATATCACACTT-AAAAAAA-T-CGACCCGACCAAAATAAAGTTTCAC
129 GA-----ACCCGACCCGAATATCACACTTAAAAAAAACTCCGACCCGACCAAAATAAAGTTTCAC
*
229146 CCAACCCGACCCGAATATATGAATTAGAAACCCAACCCGACC
189 CCAACCCGACACGAATATATGAATTAGAAACCCAACCCGACC
229188 TAAAATAATA
Statistics
Matches: 210, Mismatches: 14, Indels: 18
0.87 0.06 0.07
Matches are distributed among these distances:
259 63 0.30
260 28 0.13
262 1 0.00
263 34 0.16
264 62 0.30
265 22 0.10
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (258 bp):
TTATTCAATAAAAGCAGTGACTTAATTGAAAAAAATAGAGAGAGAGGAGTATTATTGTAATTATT
CCTAAATATATAAGGTAAAATTATATATTATTTGTCGAGTCGGGTATTTTTCACCCTAAACCCGA
ACCCGACCCGAATATCACACTTAAAAAAAACTCCGACCCGACCAAAATAAAGTTTCACCCAACCC
GACACGAATATATGAATTAGAAACCCAACCCGACCCGACCCAAAATAATAAAAAATTTTATTT
Found at i:245053 original size:17 final size:17
Alignment explanation
Indices: 245031--245064 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
245021 TCCATAAATC
*
245031 CAAAATCCAACAATCCA
1 CAAAATCAAACAATCCA
*
245048 CAAAATCAAACATTCCA
1 CAAAATCAAACAATCCA
245065 AAATATTCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.32, G:0.00, T:0.15
Consensus pattern (17 bp):
CAAAATCAAACAATCCA
Found at i:247097 original size:20 final size:23
Alignment explanation
Indices: 247052--247110 Score: 79
Period size: 20 Copynumber: 2.7 Consensus size: 23
247042 TTCCCCTGTG
247052 GGGGGAATCGGTTCCTCTTCAAA
1 GGGGGAATCGGTTCCTCTTCAAA
247075 GGGGGAATCGGTTCC-C-T-AAA
1 GGGGGAATCGGTTCCTCTTCAAA
* *
247095 GGGGGGATCGATTCCT
1 GGGGGAATCGGTTCCT
247111 TCTGCACCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.48
21 1 0.03
22 1 0.03
23 15 0.45
ACGTcount: A:0.20, C:0.20, G:0.36, T:0.24
Consensus pattern (23 bp):
GGGGGAATCGGTTCCTCTTCAAA
Found at i:250959 original size:22 final size:21
Alignment explanation
Indices: 250917--250956 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
250907 GAGTTTGTTT
*
250917 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
250938 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
250957 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:252436 original size:22 final size:22
Alignment explanation
Indices: 252410--252455 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
252400 CCTTACAAAA
252410 TCCCTCAAGAGTATACCCCAAC
1 TCCCTCAAGAGTATACCCCAAC
252432 TCCCTCAAGAGTATACCCCAAC
1 TCCCTCAAGAGTATACCCCAAC
252454 TC
1 TC
252456 TTGAGAACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.41, G:0.09, T:0.20
Consensus pattern (22 bp):
TCCCTCAAGAGTATACCCCAAC
Found at i:261688 original size:2 final size:2
Alignment explanation
Indices: 261683--261707 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
261673 TGTGGGTTTT
261683 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 T
261708 GGGATAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.