Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005419.1 Hibiscus syriacus cultivar Beakdansim tig00012432_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: 82777
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Found at i:12102 original size:18 final size:18
Alignment explanation
Indices: 12041--12110 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 18
12031 TTGTATATTA
*
12041 AAAAATTAATAAATTAGT
1 AAAAATTAATAAATTAAT
* * * *
12059 GATAATT-ATTAATCAAT
1 AAAAATTAATAAATTAAT
**
12076 AATTTATTAATAAATTAAT
1 AA-AAATTAATAAATTAAT
12095 AAAAATTAATAAATTA
1 AAAAATTAATAAATTA
12111 GGAAATTAAT
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
17 8 0.21
18 21 0.54
19 10 0.26
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (18 bp):
AAAAATTAATAAATTAAT
Found at i:12104 original size:26 final size:26
Alignment explanation
Indices: 12075--12132 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
12065 TATTAATCAA
* *
12075 TAATTTATTAATAAATTAATAAAAAT
1 TAATTAATTAAGAAATTAATAAAAAT
* * **
12101 TAATAAATTAGGAAATTAATAATTAT
1 TAATTAATTAAGAAATTAATAAAAAT
12127 TAATTA
1 TAATTA
12133 GACTTTTTTA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (26 bp):
TAATTAATTAAGAAATTAATAAAAAT
Found at i:12703 original size:20 final size:20
Alignment explanation
Indices: 12662--12752 Score: 87
Period size: 20 Copynumber: 4.5 Consensus size: 20
12652 TCGACTATCA
* *
12662 CATTGCGATTTTCCAAATTCG
1 CATTGCGA-TTTACATATTCG
*
12683 CGTTGCGATTTACATATTCG
1 CATTGCGATTTACATATTCG
*
12703 CATTGCGA-TAATCGA-AGTTCG
1 CATTGCGATTTA-C-ATA-TTCG
*
12724 CTTTGCGATTTACATATTCG
1 CATTGCGATTTACATATTCG
12744 CATTGCGAT
1 CATTGCGAT
12753 AGTCGAAGTT
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
19 2 0.04
20 32 0.56
21 21 0.37
22 2 0.04
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (20 bp):
CATTGCGATTTACATATTCG
Found at i:12708 original size:41 final size:41
Alignment explanation
Indices: 12679--12770 Score: 166
Period size: 41 Copynumber: 2.2 Consensus size: 41
12669 ATTTTCCAAA
12679 TTCGCGTTGCGATTTACATATTCGCATTGCGATAATCGAAG
1 TTCGCGTTGCGATTTACATATTCGCATTGCGATAATCGAAG
* *
12720 TTCGCTTTGCGATTTACATATTCGCATTGCGATAGTCGAAG
1 TTCGCGTTGCGATTTACATATTCGCATTGCGATAATCGAAG
12761 TTCGCGTTGC
1 TTCGCGTTGC
12771 CCAAAATCGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (41 bp):
TTCGCGTTGCGATTTACATATTCGCATTGCGATAATCGAAG
Found at i:12770 original size:21 final size:21
Alignment explanation
Indices: 12699--12770 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
12689 GATTTACATA
12699 TTCGCATTGCGATAATCGAAG
1 TTCGCATTGCGATAATCGAAG
* *
12720 TTCGCTTTGCGAT-TTAC-ATA-
1 TTCGCATTGCGATAAT-CGA-AG
*
12740 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAATCGAAG
*
12761 TTCGCGTTGC
1 TTCGCATTGC
12771 CCAAAATCGC
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
20 16 0.39
21 25 0.61
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.35
Consensus pattern (21 bp):
TTCGCATTGCGATAATCGAAG
Found at i:13625 original size:21 final size:21
Alignment explanation
Indices: 13596--13728 Score: 105
Period size: 21 Copynumber: 6.5 Consensus size: 21
13586 GCGATTTTGG
13596 GCAACGCGAACTTCGACTATC
1 GCAACGCGAACTTCGACTATC
* *
13617 GCAATGCGAA-TAT-GTA-AATC
1 GCAACGCGAACT-TCG-ACTATC
* *
13637 GCAACACGAACTTCAACTATC
1 GCAACGCGAACTTCGACTATC
* * **
13658 GCAA--CGAATTTGGAAAATC
1 GCAACGCGAACTTCGACTATC
*
13677 GCAACGCGAACTCCGACTATC
1 GCAACGCGAACTTCGACTATC
* *
13698 GCAATGCGAACTTGGACTATC
1 GCAACGCGAACTTCGACTATC
*
13719 GCAATGCGAA
1 GCAACGCGAA
13729 TATGTAAATC
Statistics
Matches: 86, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
19 14 0.16
20 15 0.17
21 57 0.66
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.20
Consensus pattern (21 bp):
GCAACGCGAACTTCGACTATC
Found at i:13740 original size:81 final size:81
Alignment explanation
Indices: 13596--13767 Score: 208
Period size: 81 Copynumber: 2.1 Consensus size: 81
13586 GCGATTTTGG
* *
13596 GCAACGCGAACTTCGACTATCGCAATGCGAATATGTAAATCGCAACACGAACTTCAACTATCGCA
1 GCAACGCGAACTCCGACTATCGCAATGCGAATATGGAAATCGCAACACGAACTTCAAC-ATCGCA
13661 AC-GAATTTGGAAAATC
65 ACAGAATTTGGAAAATC
* ** *
13677 GCAACGCGAACTCCGACTATCGCAATGCGAACT-TGGACTATCGCAATGCGAA-TATGTAA-ATC
1 GCAACGCGAACTCCGACTATCGCAATGCGAA-TATGGA-AATCGCAACACGAACT-T-CAACATC
13739 GCAACAGAATTTGGAAAATC
62 GCAACAGAATTTGGAAAATC
*
13759 GCAATGCGA
1 GCAACGCGA
13768 TAGTCGAAGT
Statistics
Matches: 79, Mismatches: 7, Indels: 9
0.83 0.07 0.09
Matches are distributed among these distances:
81 42 0.53
82 35 0.44
83 2 0.03
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (81 bp):
GCAACGCGAACTCCGACTATCGCAATGCGAATATGGAAATCGCAACACGAACTTCAACATCGCAA
CAGAATTTGGAAAATC
Found at i:13818 original size:21 final size:21
Alignment explanation
Indices: 13763--13809 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
13753 AAAATCGCAA
*
13763 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTCGAAATTCGCGT
13784 TGCGATAGTCGAAATTCGCGT
1 TGCGATAGTCGAAATTCGCGT
13805 TGCGA
1 TGCGA
13810 ATCTAGAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.28
Consensus pattern (21 bp):
TGCGATAGTCGAAATTCGCGT
Found at i:13952 original size:32 final size:32
Alignment explanation
Indices: 13911--13971 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
13901 GTTACATTAC
13911 AAAAAATACTCCAAACTCATACTAAACATACA
1 AAAAAATACTCCAAACTCATACTAAACATACA
13943 AAAAAATACTCCAAACTCATACTAAACAT
1 AAAAAATACTCCAAACTCATACTAAACAT
13972 TATTTTAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.56, C:0.25, G:0.00, T:0.20
Consensus pattern (32 bp):
AAAAAATACTCCAAACTCATACTAAACATACA
Found at i:28865 original size:23 final size:22
Alignment explanation
Indices: 28833--28884 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 22
28823 TTTTTATGAT
28833 TATTTTAATA-TTATTTCATAAA
1 TATTTTAATATTTATTTCA-AAA
28855 TATTTTAAATATTCTTATTTCAAAA
1 TATTTT-AATA-T-TTATTTCAAAA
28880 TATTT
1 TATTT
28885 CTTTTAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 6 0.23
23 4 0.15
25 8 0.31
26 8 0.31
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (22 bp):
TATTTTAATATTTATTTCAAAA
Found at i:30062 original size:63 final size:63
Alignment explanation
Indices: 29963--30088 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
29953 AATGCTGCGC
29963 CCCATGCTTGCTTCTTTGGACCACCTTTAATTTGTATTACCATTCCCTTACCGTTACAAAAAT
1 CCCATGCTTGCTTCTTTGGACCACCTTTAATTTGTATTACCATTCCCTTACCGTTACAAAAAT
30026 CCCATGCTTGCTTCTTTGGACCACCTTTAATTTGTATTACCATTCCCTTACCGTTACAAAAAT
1 CCCATGCTTGCTTCTTTGGACCACCTTTAATTTGTATTACCATTCCCTTACCGTTACAAAAAT
30089 ATATTATTTC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.24, C:0.29, G:0.10, T:0.38
Consensus pattern (63 bp):
CCCATGCTTGCTTCTTTGGACCACCTTTAATTTGTATTACCATTCCCTTACCGTTACAAAAAT
Found at i:31877 original size:20 final size:20
Alignment explanation
Indices: 31852--31892 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
31842 ACATTTTCTT
31852 TCAACTCTTT-GCCGGCATGA
1 TCAACT-TTTCGCCGGCATGA
*
31872 TCAACTTTTCGTCGGCATGA
1 TCAACTTTTCGCCGGCATGA
31892 T
1 T
31893 TAATGGCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.34
Consensus pattern (20 bp):
TCAACTTTTCGCCGGCATGA
Found at i:38386 original size:2 final size:2
Alignment explanation
Indices: 38375--38410 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
38365 TTAGGTTATC
38375 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
38411 TTCATTATTT
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:43271 original size:14 final size:14
Alignment explanation
Indices: 43252--43279 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
43242 ATCATAACAA
43252 AATTATATAACTAT
1 AATTATATAACTAT
43266 AATTATATAACTAT
1 AATTATATAACTAT
43280 TCTTTCACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTATATAACTAT
Found at i:43564 original size:10 final size:10
Alignment explanation
Indices: 43549--43578 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
43539 AAAACAAAAA
43549 TTCCTGTTTT
1 TTCCTGTTTT
43559 TTCCTGTTTT
1 TTCCTGTTTT
*
43569 TTCCAGTTTT
1 TTCCTGTTTT
43579 CAGCCAGTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.03, C:0.20, G:0.10, T:0.67
Consensus pattern (10 bp):
TTCCTGTTTT
Found at i:45598 original size:2 final size:2
Alignment explanation
Indices: 45591--45640 Score: 68
Period size: 2 Copynumber: 26.0 Consensus size: 2
45581 AGATTACTAG
*
45591 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T TT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
45631 AA AT AT AT AT
1 AT AT AT AT AT
45641 CGGATATTGG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
1 2 0.05
2 41 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47891 original size:2 final size:2
Alignment explanation
Indices: 47884--47926 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
47874 AATTGCCTTT
47884 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47926 T
1 T
47927 CGTTAAACTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:52974 original size:31 final size:31
Alignment explanation
Indices: 52932--53184 Score: 461
Period size: 31 Copynumber: 8.2 Consensus size: 31
52922 GGTCACAATA
* *
52932 TAAACTATTCATATGTGCCTTCAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
52963 TAGACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
52994 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
53025 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
53056 TAAACTGTTCATATGTGTCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
53087 TAAATTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
53118 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
53149 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
53180 TAAAC
1 TAAAC
53185 CCTCGACTCT
Statistics
Matches: 214, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 214 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.39
Consensus pattern (31 bp):
TAAACTGTTCATATGTGCCTTTAAACATATG
Found at i:53802 original size:64 final size:65
Alignment explanation
Indices: 53694--53919 Score: 217
Period size: 64 Copynumber: 3.5 Consensus size: 65
53684 TAATGAAGGT
* * ** ** * ** *
53694 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTAAT-ATTATTGCTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATGTAATCATTATTAATGGA
* * *
53758 ATGGATTGATGCACT-CATTATGCATCGATGCACCAATTGCATTCGATGT-TTCATTATTAATGG
1 ATGCATCGATGCACTAC-TTATGCATCGATGCACCAATTGCATTCGATGTAATCATTATTAATGG
53821 A
65 A
** * * **
53822 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTATTTATT-TTAAAAGA
1 ATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATGTAATCATTATTAATGGA
* **
53886 GTGCATCGATGCACTACCAATGCATCGATGCACC
1 ATGCATCGATGCACTACTTATGCATCGATGCACC
53920 TTCAAACGAT
Statistics
Matches: 133, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
63 2 0.02
64 125 0.94
65 6 0.05
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (65 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATGTAATCATTATTAATGGA
Found at i:56893 original size:31 final size:31
Alignment explanation
Indices: 56855--57106 Score: 443
Period size: 31 Copynumber: 8.2 Consensus size: 31
56845 GGTCACAATA
56855 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* * *
56886 TAGACTGTTCATATATGCCTTT-AACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* *
56916 TAAATTGTTCATATGTGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
56947 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
56978 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
57009 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
57040 TAAACTGTTAATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
57071 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
57102 TAAAC
1 TAAAC
57107 CCTCGACTCT
Statistics
Matches: 210, Mismatches: 10, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
30 26 0.12
31 184 0.88
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (31 bp):
TAAACTGTTCATATGTGCCTTTAAACATATG
Found at i:57724 original size:64 final size:64
Alignment explanation
Indices: 57616--57839 Score: 213
Period size: 64 Copynumber: 3.5 Consensus size: 64
57606 TAATGAAGGT
* * ** * **
57616 ATGCATCGATGCACTATTGATGCATCGGTGCATAAAAGGTATTCGATGTAAT-ATTATTGCTGGG
1 ATGCATCGATGCACTCTT-ATGCATCGATGCATAAATTGCATTCGATGTAATCATTATTAATGGG
** *
57680 ATGCATCGATGCACTCCTTATGCATCGATGCACCAATTGCATTCGATGT-TTCATTATTAATGGG
1 ATGCATCGATGCACT-CTTATGCATCGATGCATAAATTGCATTCGATGTAATCATTATTAATGGG
* * * * **
57744 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTTGATGTATTTATT-TTAA-AAG
1 ATGCATCGATGCACT-CTTATGCATCGATGCATAAATTGCATTCGATGTAATCATTATTAATGGG
**
57807 AGTGCATCGATGCACTACCAATGCATCGATGCA
1 A-TGCATCGATGCACT-CTTATGCATCGATGCA
57840 CCTTCAAACG
Statistics
Matches: 137, Mismatches: 19, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
63 3 0.02
64 127 0.93
65 7 0.05
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTCTTATGCATCGATGCATAAATTGCATTCGATGTAATCATTATTAATGGG
Found at i:58645 original size:34 final size:34
Alignment explanation
Indices: 58605--58679 Score: 141
Period size: 34 Copynumber: 2.2 Consensus size: 34
58595 GGGATGTTAC
58605 ATATATAATTAATATAAAAAATATAAAATATTAT
1 ATATATAATTAATATAAAAAATATAAAATATTAT
*
58639 ATATATAATTAATATAAAAAATATATAATATTAT
1 ATATATAATTAATATAAAAAATATAAAATATTAT
58673 ATATATA
1 ATATATA
58680 TATATAATCG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (34 bp):
ATATATAATTAATATAAAAAATATAAAATATTAT
Found at i:59946 original size:39 final size:39
Alignment explanation
Indices: 59878--59954 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
59868 ATACTCTTTA
* *
59878 ATATAACTTTTTGGTTGTAACTAAAAATATTATAAATTT
1 ATATAACTTTTTGGTCGTAACAAAAAATATTATAAATTT
*
59917 ATATAA-TTTTTGGATCG-AACAAAATAATATTTTAAATT
1 ATATAACTTTTTGG-TCGTAACAAAA-AATATTATAAATT
59955 AAAAATCATC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 13 0.39
39 20 0.61
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.44
Consensus pattern (39 bp):
ATATAACTTTTTGGTCGTAACAAAAAATATTATAAATTT
Found at i:62208 original size:6 final size:6
Alignment explanation
Indices: 62164--62214 Score: 56
Period size: 6 Copynumber: 8.8 Consensus size: 6
62154 GAGTGACAGT
62164 GAGAGG GAG-GAG GAG-GG GAG-GG GAG-GG GAGAGTG GAGAGG GAGAGG
1 GAGAGG GAGAG-G GAGAGG GAGAGG GAGAGG GAGAG-G GAGAGG GAGAGG
62210 GAGAG
1 GAGAG
62215 CCAGAGAGGG
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
5 15 0.36
6 21 0.50
7 6 0.14
ACGTcount: A:0.29, C:0.00, G:0.69, T:0.02
Consensus pattern (6 bp):
GAGAGG
Found at i:64894 original size:11 final size:11
Alignment explanation
Indices: 64878--65004 Score: 65
Period size: 11 Copynumber: 10.6 Consensus size: 11
64868 AAAAATTAAG
64878 AGCTCGATTCA
1 AGCTCGATTCA
*
64889 AGCTCGAGACTCA
1 AGCTC--GATTCA
* **
64902 AGCTAGATTTTG
1 AGCTCGA-TTCA
*
64914 AGCTCGATTGAAA
1 AGCTCGATT--CA
* *
64927 AACTCGATGCA
1 AGCTCGATTCA
*
64938 AGCTCGATTGAGA
1 AGCTCGATT--CA
*
64951 AGCTCGATTAAAA
1 AGCTCGATT--CA
*
64964 AGCTCGATTTTA
1 AGCTCGA-TTCA
*
64976 AGCTCGTTTCA
1 AGCTCGATTCA
64987 AGCTCGATTCA
1 AGCTCGATTCA
64998 AGCTCGA
1 AGCTCGA
65005 AAACGGGTTA
Statistics
Matches: 88, Mismatches: 20, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
11 37 0.42
12 14 0.16
13 35 0.40
14 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (11 bp):
AGCTCGATTCA
Found at i:65726 original size:3 final size:3
Alignment explanation
Indices: 65712--65742 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
65702 TTCCCCTTGC
*
65712 TCT TCT TAT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
65743 TACTTGATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:66397 original size:14 final size:15
Alignment explanation
Indices: 66378--66407 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
66368 CATAATCGGA
66378 TTTAGGGTTT-AGGT
1 TTTAGGGTTTAAGGT
66392 TTTAGGGTTTAAGGT
1 TTTAGGGTTTAAGGT
66407 T
1 T
66408 CATTACAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (15 bp):
TTTAGGGTTTAAGGT
Found at i:66706 original size:15 final size:14
Alignment explanation
Indices: 66680--66709 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
66670 TTTATTCATC
66680 AATAATGTATTTTT
1 AATAATGTATTTTT
*
66694 AATAATGTAATTTT
1 AATAATGTATTTTT
66708 AA
1 AA
66710 AAAATTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
AATAATGTATTTTT
Found at i:72456 original size:17 final size:19
Alignment explanation
Indices: 72415--72458 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
72405 TTTTTTATAT
*
72415 TAATATATTTATGTAAATA
1 TAATATTTTTATGTAAATA
*
72434 TTATATTTTTAT-TAAA-A
1 TAATATTTTTATGTAAATA
72451 TAATATTT
1 TAATATTT
72459 ATATATTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 4 0.18
19 10 0.45
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TAATATTTTTATGTAAATA
Found at i:72475 original size:34 final size:32
Alignment explanation
Indices: 72371--72475 Score: 81
Period size: 33 Copynumber: 3.2 Consensus size: 32
72361 GGTAAGAAAT
* * * *
72371 TTATTTTATGTTAGTATTTTTTAAATAGTTATTA
1 TTATTTTATATTAATA-TATTTATATA-TTATTA
* *
72405 TT-TTTTATATTAATATATTTATGTAAATATTA
1 TTATTTTATATTAATATATTTATAT-ATTATTA
72437 -TATTTT-TATTAAAATAATATTTATATATTATTA
1 TTATTTTATATT--AAT-ATATTTATATATTATTA
72470 TTATTT
1 TTATTT
72476 AGAATTATTA
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
31 5 0.09
32 15 0.26
33 21 0.37
34 16 0.28
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (32 bp):
TTATTTTATATTAATATATTTATATATTATTA
Found at i:74241 original size:21 final size:21
Alignment explanation
Indices: 74215--74307 Score: 120
Period size: 21 Copynumber: 4.5 Consensus size: 21
74205 TATGCCATCT
* *
74215 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATGCCTAGC
*
74236 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATGCCTAGC
74257 CCGCCA-GGTTACATGCCTAG-
1 CCG-CAGGGTTACATGCCTAGC
74277 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
74298 CCGCAGGGTT
1 CCGCAGGGTT
74308 TTATACCATA
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
20 22 0.33
21 43 0.64
22 2 0.03
ACGTcount: A:0.18, C:0.34, G:0.27, T:0.20
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCTAGC
Found at i:74282 original size:20 final size:20
Alignment explanation
Indices: 74242--74298 Score: 96
Period size: 20 Copynumber: 2.8 Consensus size: 20
74232 GAGCCCGCAG
*
74242 GGTTACATTCCTAGCCCGCCA
1 GGTTACATGCCTAG-CCGCCA
74263 GGTTACATGCCTAGCCGCCA
1 GGTTACATGCCTAGCCGCCA
74283 GGTTACATGCCTAGCC
1 GGTTACATGCCTAGCC
74299 CGCAGGGTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 22 0.63
21 13 0.37
ACGTcount: A:0.19, C:0.35, G:0.23, T:0.23
Consensus pattern (20 bp):
GGTTACATGCCTAGCCGCCA
Found at i:74876 original size:33 final size:34
Alignment explanation
Indices: 74817--74913 Score: 124
Period size: 33 Copynumber: 2.9 Consensus size: 34
74807 ATAAATGTTT
* *
74817 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCAAAATTTAAAATA
* * *
74851 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCAAAATTTAAAATA
* *
74884 AAAATATAAATTATAGTATTCAAAATTTAA
1 AAAATAAAAATTATATTATTCAAAATTTAA
74914 CATTAAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 28 0.51
34 27 0.49
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCAAAATTTAAAATA
Found at i:74920 original size:34 final size:32
Alignment explanation
Indices: 74815--74920 Score: 122
Period size: 34 Copynumber: 3.2 Consensus size: 32
74805 TGATAAATGT
*
74815 TTAAAATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTC-AAATTT-AAA
* *
74849 TAAAAATAAAAATAATATTATTCAAATTTAAA
1 TTAAAATAAAAATTATATTATTCAAATTTAAA
* *
74881 TTTAAAATATAAATTATAGTATTCAAAATTTAACA
1 -TTAAAATAAAAATTATATTATTC-AAATTTAA-A
74916 TTAAA
1 TTAAA
74921 TTTCAACTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
32 3 0.05
33 25 0.40
34 33 0.53
35 1 0.02
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (32 bp):
TTAAAATAAAAATTATATTATTCAAATTTAAA
Found at i:76329 original size:506 final size:508
Alignment explanation
Indices: 75311--77054 Score: 2998
Period size: 506 Copynumber: 3.5 Consensus size: 508
75301 TTACCTGATT
* *
75311 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGAT-ATATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACACGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
75375 TGATGAAATAATGGAAGGCGC-CCCCTGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
75439 CTGATATATCTA-----CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
131 CTGA-ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
75499 ACGAAATAATGGAAGG-GCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGG---T
195 ACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTACT
*
75560 G--ATATCTAGTGTCCCCGAGGGACATGAGTGAC--AATATGGCAATGATAACATATTCTCTAAA
260 GATATATCTAGTGT-CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT-AA
75621 CGAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTG
323 CGAAATAATGGAAGGCG--CCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTG
75686 ATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACG
386 ATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACG
75751 AAATAATGGAAGGCGCG-CCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
451 AAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
75808 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACACGAGTGACATAATAGGGCAATGATAACATATTCTC
*
75873 TGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
*
75938 CTG-ATATCTAGTGTCCCCGAGGGAGATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
131 CTGAATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
*
76002 CGAAATAATGGAAGGCGCGTCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTACTG
196 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTACTG
76067 ATATATCTAGTGTCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTAACGA
261 ATATATCTAGTGTCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTAACGA
76132 AATAATGGAAGGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAA-AGGTACTGATATA
326 AATAATGGAAGGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATA
*
76196 TCTAGTGTCCCCGAGGGACACGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATA
391 TCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATA
76261 ATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
456 ATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
76314 TACTGATATATCTAGTGTCCCCGAGGGACACGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACACGAGTGACATAATAGGGCAATGATAACATATTCTC
76379 TGACGAAATAA-GGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
76443 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
131 CTGA-ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
* *** *
76508 ATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGGTAC
195 ACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATAGGTAC
* *
76572 TGATATATCTAGTGTCCCGAGGGAGATGAGTGACATAATAGGGCAATGATAACATATTCTCT-GC
259 TGATATATCTAGTGTCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTAAC
* *** *
76636 GAAATAATGGAAGGGCGTCCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATAGGTACTG-
324 GAAATAATGGAA-GGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGGTACTGA
*
76699 -ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTAACGA
387 TATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGA
*
76763 AATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
452 AATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
76820 TACTGATATATCTAGTGTCCCCGAGGGACACGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACACGAGTGACATAATAGGGCAATGATAACATATTCTC
76885 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
*
76950 CTGATATATCTAGTGTCCCCGAGGGACACGAGTGACATAATAGGGCAATGATAACATATTCTCTG
131 CTGA-ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
77015 ACGAAATAATGGAAGGCGCG-CCCCGGGAACGCGCCTTCAT
195 ACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAT
77055 ATGAATAGTA
Statistics
Matches: 1197, Mismatches: 27, Indels: 37
0.95 0.02 0.03
Matches are distributed among these distances:
497 61 0.05
498 30 0.03
499 45 0.04
502 63 0.05
503 43 0.04
505 145 0.12
506 381 0.32
507 365 0.30
508 39 0.03
509 25 0.02
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.23
Consensus pattern (508 bp):
TACTGATATATCTAGTGTCCCCGAGGGACACGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
CTGAATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTACTG
ATATATCTAGTGTCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTAACGA
AATAATGGAAGGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATA
TCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATA
ATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:76364 original size:128 final size:128
Alignment explanation
Indices: 75311--77063 Score: 2958
Period size: 127 Copynumber: 13.9 Consensus size: 128
75301 TTACCTGATT
*
75311 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGAT-ATATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
75375 TGATGAAATAATGGAAGGCGC-CCCCTGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
75437 TACTGATATATCTA-----CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*** *
75497 TGACGAAATAATGGAAGG-GCGCCCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGG
*
75559 ---TG--ATATCTAGTGTCCCCGAGGGACATGAGTGAC--AATATGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
75617 TAAACGAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 T-GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
75681 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
75746 TGACGAAATAATGGAAGGCGCG-CCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
75808 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
75873 TGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
75936 TACTG--ATATCTAGTGTCCCCGAGGGAGATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *** *
75999 TGACGAAATAATGGAAGGCGCGTCCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGG
76062 TACTGATATATCTAGTGT-CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
76126 TAACGAAATAATGGAA-G-GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAA-AGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
76186 TACTGATATATCTAGTGTCCCCGAGGGACACGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
76251 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
76314 TACTGATATATCTAGTGTCCCCGAGGGACACGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
76379 TGACGAAATAA-GGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
76441 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
76506 TGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
76569 TACTGATATATCTAGTGT-CCCGAGGGAGATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *** *
76633 TG-CGAAATAATGGAAGG-GCGTCCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGG
76694 TACTG--ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
76757 TAACGAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
76820 TACTGATATATCTAGTGTCCCCGAGGGACACGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
76885 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
76948 TACTGATATATCTAGTGTCCCCGAGGGACACGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
77013 TGACGAAATAATGGAAGGCGCG-CCCCGGGAACGCGCCTTCATATGAATAGT
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
77064 ACTCCGATTA
Statistics
Matches: 1537, Mismatches: 55, Indels: 69
0.93 0.03 0.04
Matches are distributed among these distances:
117 7 0.00
119 2 0.00
120 25 0.02
121 54 0.04
122 116 0.08
123 12 0.01
124 68 0.04
125 153 0.10
126 189 0.12
127 458 0.30
128 428 0.28
129 25 0.02
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:80675 original size:22 final size:22
Alignment explanation
Indices: 80638--80690 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
80628 ATCGAAACAT
*
80638 TAATAATATATTATTTATAATAA
1 TAATAA-AAATTATTTATAATAA
*
80661 TAATAAAAATTATTTATTATAA
1 TAATAAAAATTATTTATAATAA
80683 -AA-AAAAAT
1 TAATAAAAAT
80691 ACGTGTGTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 6 0.21
21 2 0.07
22 14 0.50
23 6 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TAATAAAAATTATTTATAATAA
Done.