Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2582
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: 45130
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Found at i:4137 original size:111 final size:109
Alignment explanation
Indices: 3991--4205 Score: 403
Period size: 111 Copynumber: 2.0 Consensus size: 109
3981 TCATGAGGCA
3991 AAAAATGATAATAAAAAAATACAACTAACACCATATATAAGCTAACAAATCACATTCCTTCTTCA
1 AAAAATGATAATAAAAAAATACAACTAACACCATATATAAGCTAACAAATCACATTCCTTCTTCA
4056 CATAATTAAATAAACTTGAAAACATGATGAACATACATGATAAT
66 CATAATTAAATAAACTTGAAAACATGATGAACATACATGATAAT
*
4100 AAAAATGATAATTAAAAAAAATGCAACTAACACCATATATAAGCTAACAAATCACATTCCTTCTT
1 AAAAATGATAA-T-AAAAAAATACAACTAACACCATATATAAGCTAACAAATCACATTCCTTCTT
4165 CACATAATTAAATAAACTTGAAAACATGATGAACATACATG
64 CACATAATTAAATAAACTTGAAAACATGATGAACATACATG
4206 CTGATATATA
Statistics
Matches: 103, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
109 11 0.11
110 1 0.01
111 91 0.88
ACGTcount: A:0.52, C:0.17, G:0.06, T:0.26
Consensus pattern (109 bp):
AAAAATGATAATAAAAAAATACAACTAACACCATATATAAGCTAACAAATCACATTCCTTCTTCA
CATAATTAAATAAACTTGAAAACATGATGAACATACATGATAAT
Found at i:5672 original size:42 final size:42
Alignment explanation
Indices: 5626--6287 Score: 402
Period size: 42 Copynumber: 15.7 Consensus size: 42
5616 TAAATGAGAC
* * *
5626 AGTCTTCAAGGTCAAAGCCGATAGGCAGAATGAGGGTAGAAA
1 AGTCTTCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGAAA
* ** * *
5668 AGTCTGCAGGGTC-AAGACTAATAGGCAGACTAAGGGTAGAAA
1 AGTCTTCAGGGTCAAAG-CCGACAGGCAGACTGAGGGTAGAAA
* * ** ** *
5710 AGTCTCCAAGGTCAAAGTAGACAAACAGACTGAGGCTA-AGAA
1 AGTCTTCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGA-AA
* * * *
5752 AGTC-TCTAGGGTCAAAGCCGACAAGTAGAC-GAAAGGTAAAAA
1 AGTCTTC-AGGGTCAAAGCCGACAGGCAGACTG-AGGGTAGAAA
* * *
5794 AGTC-TCTAGGGTCAAAGTCGACAGGTAGATTGAGGGTATGAAA
1 AGTCTTC-AGGGTCAAAGCCGACAGGCAGACTGAGGGTA-GAAA
* * * *** *
5837 AGTCTCCAGGGTC-ACGACTGACAAATAGACTAAGGGTAGAAA
1 AGTCTTCAGGGTCAAAG-CCGACAGGCAGACTGAGGGTAGAAA
* * * *
5879 AGTCTCCAAGGTCAAAGCCAACATGCAGACTGAGGGTAGAAA
1 AGTCTTCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGAAA
* * ** * *
5921 AGTC-TCTAAGGTCAAAGCTGACAGATAGA-TAAGGGAAGAAAA
1 AGTCTTC-AGGGTCAAAGCCGACAGGCAGACTGAGGGTAG-AAA
* * *
5963 AGTC-TCTAGGGTC-AAGACTGACAAGCAGACTAAGGGTAGAAA
1 AGTCTTC-AGGGTCAAAG-CCGACAGGCAGACTGAGGGTAGAAA
* * * *
6005 AGTCTCCAGGGTCAAA-CTCGATAGGCAGACTAAGGGTAGGAA
1 AGTCTTCAGGGTCAAAGC-CGACAGGCAGACTGAGGGTAGAAA
* * * *
6047 AGTC-TCTAGGGTCAAAGCTGACAAGCAGACTAAGGGTAGGAA
1 AGTCTTC-AGGGTCAAAGCCGACAGGCAGACTGAGGGTAGAAA
* * * * *
6089 AGTCTCCAGGGTTAAAGCTGATAGGCAGACTGAGGGAAGGAAA
1 AGTCTTCAGGGTCAAAGCCGACAGGCAGACTGAGGGTA-GAAA
* * ** *
6132 AGTCTCCAAGGTC-AAGATTGACAGGCAGACTAAGGGTAGAAA
1 AGTCTTCAGGGTCAAAG-CCGACAGGCAGACTGAGGGTAGAAA
* * * * * *
6174 AGTCTCCAAGGTCAAAGTCGACAAGCAGACTGAAGGTAGGAA
1 AGTCTTCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGAAA
* * * *
6216 GGTC-TCTAGGGTCAACGCCGACAGACAGATTGAGGGTA-AGAA
1 AGTCTTC-AGGGTCAAAGCCGACAGGCAGACTGAGGGTAGA-AA
* *
6258 AGTC-TCTAGGGTCAAAGCCGATAGGAAGAC
1 AGTCTTC-AGGGTCAAAGCCGACAGGCAGAC
6288 CAAGGGAAGG
Statistics
Matches: 493, Mismatches: 101, Indels: 52
0.76 0.16 0.08
Matches are distributed among these distances:
41 20 0.04
42 390 0.79
43 82 0.17
44 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.16
Consensus pattern (42 bp):
AGTCTTCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGAAA
Found at i:5744 original size:84 final size:83
Alignment explanation
Indices: 5626--6293 Score: 517
Period size: 84 Copynumber: 7.9 Consensus size: 83
5616 TAAATGAGAC
* * * * * * *
5626 AGTCTTCAAGGTCAAAGCCGATAGGCAGAATGAGGGTAGAAAAGTCTGCAGGGTCAAGACTAATA
1 AGTCTCCAAGGTCAAAGCTGACAAGCAGACTGAGGGTAGAAAAGTCTCCAGGGTCAA-ACTGATA
5691 GGCAGACTAAGGGTAGAAA
65 GGCAGACTAAGGGTAGAAA
* * * *
5710 AGTCTCCAAGGTCAAAG-TAGACAAACAGACTGAGGCTA-AGAAAGTCTCTAGGGTCAAAGCCGA
1 AGTCTCCAAGGTCAAAGCT-GACAAGCAGACTGAGGGTAGA-AAAGTCTCCAGGGTCAAA-CTGA
* * * * * *
5773 CAAGTAGACGAAAGGTAAAAA
63 TAGGCAGACTAAGGGTAGAAA
* * * * * *
5794 AGTCTCTAGGGTCAAAG-TCGACAGGTAGATTGAGGGTATGAAAAGTCTCCAGGGTCACGACTGA
1 AGTCTCCAAGGTCAAAGCT-GACAAGCAGACTGAGGGTA-GAAAAGTCTCCAGGGTCA-AACTGA
* ***
5858 CAAATAGACTAAGGGTAGAAA
63 TAGGCAGACTAAGGGTAGAAA
** * * * *
5879 AGTCTCCAAGGTCAAAGCCAACATGCAGACTGAGGGTAGAAAAGTCTCTAAGGTCAAAGCTGACA
1 AGTCTCCAAGGTCAAAGCTGACAAGCAGACTGAGGGTAGAAAAGTCTCCAGGGTCAAA-CTGATA
** *
5944 GATAGA-TAAGGGAAGAAAA
65 GGCAGACTAAGGGTAG-AAA
* * *
5963 AGTCTCTAGGGTC-AAGACTGACAAGCAGACTAAGGGTAGAAAAGTCTCCAGGGTCAAACTCGAT
1 AGTCTCCAAGGTCAAAG-CTGACAAGCAGACTGAGGGTAGAAAAGTCTCCAGGGTCAAACT-GAT
*
6027 AGGCAGACTAAGGGTAGGAA
64 AGGCAGACTAAGGGTAGAAA
* * * * *
6047 AGTCTCTAGGGTCAAAGCTGACAAGCAGACTAAGGGTAGGAAAGTCTCCAGGGTTAAAGCTGATA
1 AGTCTCCAAGGTCAAAGCTGACAAGCAGACTGAGGGTAGAAAAGTCTCCAGGGTCAAA-CTGATA
* *
6112 GGCAGACTGAGGGAAGGAAA
65 GGCAGACTAAGGGTA-GAAA
* * * * * *
6132 AGTCTCCAAGGTC-AAGATTGACAGGCAGACTAAGGGTAGAAAAGTCTCCAAGGTCAAAGTCGAC
1 AGTCTCCAAGGTCAAAG-CTGACAAGCAGACTGAGGGTAGAAAAGTCTCCAGGGTCAAACT-GAT
* *
6196 AAGCAGACTGAA-GGTAGGAA
64 AGGCAGACT-AAGGGTAGAAA
* * * * * * * *
6216 GGTCTCTAGGGTCAACGCCGAC-AGACAGATTGAGGGTA-AGAAAGTCTCTAGGGTCAAAGCCGA
1 AGTCTCCAAGGTCAAAGCTGACAAG-CAGACTGAGGGTAGA-AAAGTCTCCAGGGTCAAA-CTGA
* *
6279 TAGGAAGACCAAGGG
63 TAGGCAGACTAAGGG
6294 AAGGAAAAAT
Statistics
Matches: 469, Mismatches: 92, Indels: 46
0.77 0.15 0.08
Matches are distributed among these distances:
83 20 0.04
84 303 0.65
85 143 0.30
86 3 0.01
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.16
Consensus pattern (83 bp):
AGTCTCCAAGGTCAAAGCTGACAAGCAGACTGAGGGTAGAAAAGTCTCCAGGGTCAAACTGATAG
GCAGACTAAGGGTAGAAA
Found at i:6778 original size:42 final size:42
Alignment explanation
Indices: 6304--6841 Score: 393
Period size: 42 Copynumber: 12.8 Consensus size: 42
6294 AAGGAAAAAT
* * * *
6304 CGACAAGCAGACTAAGGGCCAA-AAAGTGTCTAGGGTCAAAGT
1 CGACAGGCAGACTAAGGG-AAAGAAAGTCTCTAGGGTCAAAGC
* * * * *
6346 CGATAGGCAAATTTAA-GGAAAAAAAGTCTTTAGGGTCAAAGC
1 CGACAGGCAGA-CTAAGGGAAAGAAAGTCTCTAGGGTCAAAGC
* * * * * *
6388 CAATAGGTAGACTAAAGGTAAA-AAAGTCTCCAGGGTTAAAGC
1 CGACAGGCAGACT-AAGGGAAAGAAAGTCTCTAGGGTCAAAGC
** * * * * * *
6430 TAACAAGCAGATTGAGGGTAGGACAGTCTCTAGGGTCAAAGC
1 CGACAGGCAGACTAAGGGAAAGAAAGTCTCTAGGGTCAAAGC
** * * * *
6472 CGGTAGGCAGAGTAAGGGAAGGAAAAGTCTCCAAGGTC-AAGAC
1 CGACAGGCAGACTAAGGGAAAG-AAAGTCTCTAGGGTCAAAG-C
* * * * *
6515 TGACAAGCAGACTAAGGGAAGGAAAAGTCTCCAAGGTCAAAGC
1 CGACAGGCAGACTAAGGGAAAG-AAAGTCTCTAGGGTCAAAGC
* * * *
6558 CGATAGGCAGACTGAGGGTAGGAAAGTCTCTAGGGTCAAAGC
1 CGACAGGCAGACTAAGGGAAAGAAAGTCTCTAGGGTCAAAGC
* * * * *
6600 TGACAGGCAGACTAAGAGAAAGAAAGTGTCCAGGGTCAAAAC
1 CGACAGGCAGACTAAGGGAAAGAAAGTCTCTAGGGTCAAAGC
* ** * *
6642 CGACAGGTAGACTAAGGGAATTAAAGTCTCCAAGGTCAAAGC
1 CGACAGGCAGACTAAGGGAAAGAAAGTCTCTAGGGTCAAAGC
* * * * *
6684 CGACAAGCAGACTAAGGGAAGGAAAGTCTCTAAGATCAAAGT
1 CGACAGGCAGACTAAGGGAAAGAAAGTCTCTAGGGTCAAAGC
* * *
6726 TGACAAGCAGACTAAGGGAAAGAAAGTCTCTAGGGTTAAAGC
1 CGACAGGCAGACTAAGGGAAAGAAAGTCTCTAGGGTCAAAGC
* * * * * *
6768 CGATAGGCAGACTGAGGGTAAGAAAATCTCCAAGGTCAAAGC
1 CGACAGGCAGACTAAGGGAAAGAAAGTCTCTAGGGTCAAAGC
* * *
6810 TGACAGGTAGACTAAGGGTCAA-AAAGTCTCTA
1 CGACAGGCAGACTAAGGG-AAAGAAAGTCTCTA
6842 AGAGTAAAAA
Statistics
Matches: 390, Mismatches: 97, Indels: 18
0.77 0.19 0.04
Matches are distributed among these distances:
41 7 0.02
42 307 0.79
43 73 0.19
44 3 0.01
ACGTcount: A:0.39, C:0.17, G:0.28, T:0.16
Consensus pattern (42 bp):
CGACAGGCAGACTAAGGGAAAGAAAGTCTCTAGGGTCAAAGC
Found at i:6836 original size:126 final size:124
Alignment explanation
Indices: 6304--7744 Score: 661
Period size: 126 Copynumber: 11.2 Consensus size: 124
6294 AAGGAAAAAT
* * * * * * * * *
6304 CGACAAGCAGACTAAGGGCCAAAAAGTGTCTAGGGTCAAAGTCGATAGGCAAATTTAA-GGAAAA
1 CGACAGGCAAACTAAGGG--AAAAAGTCTCTAGGGTCAAAGCCGACAAGCAGA-CTAAGGGAAAG
** * * * * * *
6368 AAAGTCTTTAGGGTCAAAGCCAATAGGTAGACTAAAGGTAA-AAAAGTCTCCAGGGTTAAAGC
63 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAAGAAAA-TCTCCAAGGTCAAAGC
** * * * * * * ** * * *
6430 TAACAAGCAGATTGAGGGTAGGACAGTCTCTAGGGTCAAAGCCGGTAGGCAGAGTAAGGGAAGGA
1 CGACAGGCAAACTAAGGG-A-AAAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTAAGGGAAAG-
* * *
6495 AAAGTCTCCAAGGTC-AAGACTGACAAGCAGACTAAGGG-AAGGAAAAGTCTCCAAGGTCAAAGC
63 AAAGTCTCCAGGGTCAAAG-CCGACAGGCAGACTAAGGGTAA-GAAAA-TCTCCAAGGTCAAAGC
* * * * * * *
6558 CGATAGGCAGACTGAGGGTAGGAAAGTCTCTAGGGTCAAAGCTGACAGGCAGACTAAGAGAAAGA
1 CGACAGGCAAACTAAGGG-A-AAAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTAAGGGAAAGA
* * * * *
6623 AAGTGTCCAGGGTCAAAACCGACAGGTAGACTAAGGG-AATTAAAGTCTCCAAGGTCAAAGC
64 AAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAA-GAAAATCTCCAAGGTCAAAGC
* * * * **
6684 CGACAAGCAGACTAAGGGAAGGAAAGTCTCTAAGATCAAAGTTGACAAGCAGACTAAGGGAAAGA
1 CGACAGGCAAACTAAGGGAA--AAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTAAGGGAAAGA
* * * *
6749 AAGTCTCTAGGGTTAAAGCCGATAGGCAGACTGAGGGTAAGAAAATCTCCAAGGTCAAAGC
64 AAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAAGAAAATCTCCAAGGTCAAAGC
* * * * * * ** * * *
6810 TGACAGGTAGACTAAGGGTCAAAAAGTCTCTAAGAGTAAAAAAGTCTCCAAG--GTCAAAGCCGA
1 CGACAGGCAAACTAAGGG--AAAAAGTCTCT-AGGGT--CAAAGCCGACAAGCAGACTAAG-GGA
* * * * * * * ** * *
6873 TAGATAGACT-GATGGTATGAAAAGTCTCCAGGGTAAAACTGATAGGCAGACTAAGGGTAGAAAA
60 AAGAAAGTCTCCA-GG-GT-CAAAGCCGACA-GG-CAGACT-A-AGG--G--T-A----AGAAAA
* *
6937 GTCT-CTAGAGTCAAAGT
109 -TCTCCAAG-GTCAAAGC
* * * * * * * * *
6954 CAACAAGTAAACTGAGGGTAGGAAAGTCTCCAAGGTTAAAGCCGACAGGCAGACTAAGGG-AAGA
1 CGACAGGCAAACTAAGGG-A-AAAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTAAGGGAAAG-
* **
7018 AAAGTCTCAAGGGTCAAAGTTGACAGGCAGACTAAGGGT-AGAAAAGTCTCCAAGGTCAAAGC
63 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAAGAAAA-TCTCCAAGGTCAAAGC
* * * * * *
7080 CGACAGGCAGACTTAGGGAAAGAAAGTCTCCAAGATCAAAGTCGAC-AGACAGACTTAA-GGAAA
1 CGACAGGCAAACTAAGGG-AA-AAAGTCTCTAGGGTCAAAGCCGACAAG-CAGAC-TAAGGGAAA
* * * * * * * ** *
7143 AAAAGTCTCTAGAGTCAAAGCCGACAGGCAGATTGAGGGAAAGAAAGTCTTTAGGGTCAAAGC
62 GAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAAGAAAATCTCCAAGGTCAAAGC
* * * * * *
7206 CGACAGGCAAACTGAGGGTAGGAAAGTCT-TCAGGGTCAAAACCGATAAGCAGACTGAGGGAAGG
1 CGACAGGCAAACTAAGGG-A-AAAAGTCTCT-AGGGTCAAAGCCGACAAGCAGACTAAGGGAAAG
* * * * * * * * **
7270 AAAAGCCTCCAGGGTCAAAGTCGACAGGCAAACTAAAGGTAGGGAAGTCTCCAGGGTCAAAAA
63 -AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAAGAAAATCTCCAAGGTCAAAGC
* * * * * * * *
7333 TGATAGGCAAACTTAGGGAAAAAAAGTCTCTAGGGTCAAACCCGA-TAGACAGACTGAGAG-TAG
1 CGACAGGCAAACTAAGGG--AAAAAGTCTCTAGGGTCAAAGCCGACAAG-CAGACTAAGGGAAAG
* * * * * * * *
7396 TTAAGTCTCCAAGGTCAAAGCCGATAAGCAGACTGAGGGATAGGAAAGTCTCCAGGGTC-AAGAC
63 -AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGG-TAAGAAAATCTCCAAGGTCAAAG-C
* * * * * *
7460 TGACAGGCAAACTAAGGGAAGGAAAGTCTCCAGGGTCAAACCCGACAGGCAGACTAAAGGAAGGA
1 CGACAGGCAAACTAAGGGAA--AAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTAAGGGAAAGA
* * * * *
7525 AAGTCTCTAGGGTCAAAGCCGAGAGGTAGACTAAGGG-ATAGAAAAGTCTCCAGGGTC-AAGAT
64 AAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTA-AGAAAA-TCTCCAAGGTCAAAG-C
* * * * *
7587 TGACAGGCAGACTAAGGGAAGGAAAGTCTCTAGGGTCAAAGCCGACAAGTAGACTTAGGGATAGG
1 CGACAGGCAAACTAAGGGAA--AAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTAAGGGA-AAG
* * * * * * *
7652 AAAGTCTTCAAGGTCAAATCTGACAAGCAGACTAAGGGATAGGAAAGTCTCCAAGGTCAAAGC
63 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGG-TAAGAAAATCTCCAAGGTCAAAGC
* *
7715 CCACAGGAAAACTAAGGGATAGAAAGTCTC
1 CGACAGGCAAACTAAGGGA-A-AAAGTCTC
7745 CAGAAATTTA
Statistics
Matches: 1009, Mismatches: 240, Indels: 130
0.73 0.17 0.09
Matches are distributed among these distances:
125 11 0.01
126 376 0.37
127 340 0.34
128 157 0.16
129 18 0.02
130 7 0.01
131 2 0.00
132 5 0.00
134 4 0.00
136 4 0.00
137 1 0.00
138 5 0.00
139 3 0.00
140 7 0.01
141 11 0.01
142 8 0.01
143 19 0.02
144 31 0.03
ACGTcount: A:0.39, C:0.17, G:0.28, T:0.16
Consensus pattern (124 bp):
CGACAGGCAAACTAAGGGAAAAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTAAGGGAAAGAAA
GTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAAGAAAATCTCCAAGGTCAAAGC
Found at i:6840 original size:84 final size:82
Alignment explanation
Indices: 5632--6841 Score: 460
Period size: 84 Copynumber: 14.5 Consensus size: 82
5622 AGACAGTCTT
* * * * * *
5632 CAAGGTCAAAGCCGATAGGCAGAATGAGGGTAGAAAAGTCTGC-AGGGTC-AAGACTA-ATAGGC
1 CAAGGTCAAAGCCGACAGGCAGACTAAGGG-AAAAAAGTCT-CTAGGGTCAAAGCCGACA-A-GC
*
5694 AGACTAAGGGTAGAAAAGTCTC
62 AGACTAAGGGAAGAAAA-TCTC
** ** * * * *
5716 CAAGGTCAAAGTAGACAAACAGACTGAGGCTAAGAAAGTCTCTAGGGTCAAAGCCGACAAGTAGA
1 CAAGGTCAAAGCCGACAGGCAGACTAAGG-GAAAAAAGTCTCTAGGGTCAAAGCCGACAAGCAGA
* *
5781 CGAAAGGTAA-AAAAGTCTC
65 C-TAAGGGAAGAAAA-TCTC
* * * * * * * * * * **
5800 TAGGGTCAAAGTCGACAGGTAGATTGAGGGTATGAAAAGTCTCCAGGGTC-ACGACTGACAAATA
1 CAAGGTCAAAGCCGACAGGCAGACTAAGGG-A-AAAAAGTCTCTAGGGTCAAAG-CCGACAAGCA
*
5864 GACTAAGGGTAGAAAAGTCTC
63 GACTAAGGGAAGAAAA-TCTC
* * * * * * *
5885 CAAGGTCAAAGCCAACATGCAGACTGAGGGTAGAAAAGTCTCTAAGGTCAAAGCTGAC-AGATAG
1 CAAGGTCAAAGCCGACAGGCAGACTAAGGG-AAAAAAGTCTCTAGGGTCAAAGCCGACAAG-CAG
5949 A-TAAGGGAAGAAAAAGTCTC
64 ACTAAGGGAAG-AAAA-TCTC
* * * * * * * *
5969 TAGGGTC-AAGACTGACAAGCAGACTAAGGGTAGAAAAGTCTCCAGGGTCAAA-CTCGATAGGCA
1 CAAGGTCAAAG-CCGACAGGCAGACTAAGGG-AAAAAAGTCTCTAGGGTCAAAGC-CGACAAGCA
* *
6032 GACTAAGGGTAGGAAAGTCTC
63 GACTAAGGG-AAGAAAATCTC
* * * * ** * * * * *
6053 TAGGGTCAAAGCTGACAAGCAGACTAAGGGTAGGAAAGTCTCCAGGGTTAAAGCTGATAGGCAGA
1 CAAGGTCAAAGCCGACAGGCAGACTAAGGG-AAAAAAGTCTCTAGGGTCAAAGCCGACAAGCAGA
*
6118 CTGAGGGAAGGAAAAGTCTC
65 CTAAGGGAA-GAAAA-TCTC
** * * * *
6138 CAAGGTC-AAGATTGACAGGCAGACTAAGGGTAGAAAAGTCTCCAAGGTCAAAGTCGACAAGCAG
1 CAAGGTCAAAG-CCGACAGGCAGACTAAGGG-AAAAAAGTCTCTAGGGTCAAAGCCGACAAGCAG
* * **
6202 ACTGAAGGTAGGAAGGTCTC
64 ACT-AAGGGAAGAAAATCTC
* * * * * * * * * *
6222 TAGGGTCAACGCCGACAGACAGATTGAGGGTAAGAAAGTCTCTAGGGTCAAAGCCGATAGGAAGA
1 CAAGGTCAAAGCCGACAGGCAGACTAAGGG-AAAAAAGTCTCTAGGGTCAAAGCCGACAAGCAGA
* **
6287 CCAAGGGAAGGAAAAATCGA
65 CTAAGGGAA-G-AAAATCTC
* * * * * * * ** *
6307 CAAGCAGACTAAGGGCCAAAAAG-TGTCT-AGGG-TCAAAG--TC----G--ATAG--G-CAA--
1 CAAG--GTC-AA-AGCCGACAGGCAGACTAAGGGAAAAAAGTCTCTAGGGTCAAAGCCGACAAGC
** * * * *
6356 A-TTTAAGGAAAAAAAGTCTT
62 AGACTAAGGGAAGAAAATCTC
* * * * * * * * **
6376 TAGGGTCAAAGCCAATAGGTAGACTAAAGGTAAAAAAGTCTCCAGGGTTAAAGCTAACAAGCAGA
1 CAAGGTCAAAGCCGACAGGCAGACT-AAGGGAAAAAAGTCTCTAGGGTCAAAGCCGACAAGCAGA
* * * * *
6441 TTGAGGGTAGGACAGTCTC
65 CTAAGGG-AAGAAAATCTC
* * ** * * * *
6460 TAGGGTCAAAGCCGGTAGGCAGAGTAAGGGAAGGAAAAGTCTCCAAGGTC-AAGACTGACAAGCA
1 CAAGGTCAAAGCCGACAGGCAGACTAAGGGAA--AAAAGTCTCTAGGGTCAAAG-CCGACAAGCA
6524 GACTAAGGGAAGGAAAAGTCTC
63 GACTAAGGGAA-GAAAA-TCTC
* * ** * *
6546 CAAGGTCAAAGCCGATAGGCAGACTGAGGGTAGGAAAGTCTCTAGGGTCAAAGCTGACAGGCAGA
1 CAAGGTCAAAGCCGACAGGCAGACTAAGGG-AAAAAAGTCTCTAGGGTCAAAGCCGACAAGCAGA
* * *
6611 CTAAGAGAAAGAAAGTGTC
65 CTAAG-GGAAGAAAATCTC
* * * * * *
6630 CAGGGTCAAAACCGACAGGTAGACTAAGGGAATTAAAGTCTCCAAGGTCAAAGCCGACAAGCAGA
1 CAAGGTCAAAGCCGACAGGCAGACTAAGGGAA-AAAAGTCTCTAGGGTCAAAGCCGACAAGCAGA
*
6695 CTAAGGGAAGGAAAGTCTC
65 CTAAGGGAA-GAAAATCTC
* * ** * * * *
6714 TAAGATCAAAGTTGACAAGCAGACTAAGGGAAAGAAAGTCTCTAGGGTTAAAGCCGATAGGCAGA
1 CAAGGTCAAAGCCGACAGGCAGACTAAGGGAAA-AAAGTCTCTAGGGTCAAAGCCGACAAGCAGA
*
6779 CTGAGGGTAAGAAAATCTC
65 CTAAGGG-AAGAAAATCTC
* * *
6798 CAAGGTCAAAGCTGACAGGTAGACTAAGGGTCAAAAAGTCTCTA
1 CAAGGTCAAAGCCGACAGGCAGACTAAGGG-AAAAAAGTCTCTA
6842 AGAGTAAAAA
Statistics
Matches: 856, Mismatches: 208, Indels: 124
0.72 0.18 0.10
Matches are distributed among these distances:
65 7 0.01
66 5 0.01
67 2 0.00
68 3 0.00
69 11 0.01
71 8 0.01
72 1 0.00
74 1 0.00
75 2 0.00
77 6 0.01
79 1 0.00
80 3 0.00
82 1 0.00
83 37 0.04
84 483 0.56
85 227 0.27
86 42 0.05
87 7 0.01
88 4 0.00
89 5 0.01
ACGTcount: A:0.39, C:0.17, G:0.29, T:0.16
Consensus pattern (82 bp):
CAAGGTCAAAGCCGACAGGCAGACTAAGGGAAAAAAGTCTCTAGGGTCAAAGCCGACAAGCAGAC
TAAGGGAAGAAAATCTC
Found at i:6924 original size:102 final size:101
Alignment explanation
Indices: 6748--6947 Score: 260
Period size: 102 Copynumber: 2.0 Consensus size: 101
6738 TAAGGGAAAG
* * * * *
6748 AAAGTCTCTAGGGTTAAAGCCGATAGGCAGACTGAGGGTAAGAAAATCTCCAAGGTCAAAGCTGA
1 AAAGTCTCCAAGGTCAAAGCCGATAGACAGACTGAGGGTAAGAAAATCTCCAAGGTCAAAACTGA
*
6813 CAGGTAGACTAAGGGTCA-AAAAGTCTCTAAGAGTAAA
66 CAGGCAGACTAAGGGT-AGAAAAGTCTCT-AGAGTAAA
* * * *
6850 AAAGTCTCCAAGGTCAAAGCCGATAGATAGACTGATGGTATGAAAAGTCTCCAGGGT-AAAACTG
1 AAAGTCTCCAAGGTCAAAGCCGATAGACAGACTGAGGGTAAGAAAA-TCTCCAAGGTCAAAACTG
*
6914 ATAGGCAGACTAAGGGTAGAAAAGTCTCTAGAGT
65 ACAGGCAGACTAAGGGTAGAAAAGTCTCTAGAGT
6948 CAAAGTCAAC
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
101 6 0.07
102 70 0.82
103 9 0.11
ACGTcount: A:0.39, C:0.15, G:0.27, T:0.20
Consensus pattern (101 bp):
AAAGTCTCCAAGGTCAAAGCCGATAGACAGACTGAGGGTAAGAAAATCTCCAAGGTCAAAACTGA
CAGGCAGACTAAGGGTAGAAAAGTCTCTAGAGTAAA
Found at i:7004 original size:84 final size:84
Alignment explanation
Indices: 6893--7746 Score: 725
Period size: 84 Copynumber: 10.1 Consensus size: 84
6883 GATGGTATGA
* * * * * * * *
6893 AAAGTCTCCAGGGT-AAAACTGATAGGCAGACTAAGGGTAGAAAAGTCTCTAGAGTCAAAGTCAA
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCTAGGGTCAAAGCCGA
* * *
6957 CAAGTAAACTGAGGGTAGG
66 CAGGCAAACTAAGGGTAGG
* * **
6976 AAAGTCTCCAAGGTTAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCAAGGGTCAAAGTTGA
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCTAGGGTCAAAGCCGA
* *
7041 CAGGCAGACTAAGGGTAGA
66 CAGGCAAACTAAGGGTAGG
* * * * *
7060 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAGGGAA-AGAAAGTCTCCAAGATCAAAGTCG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGAAGA-AAAGTCTCTAGGGTCAAAGCCG
* * * **
7124 ACAGACAGACTTAA-GGAAAA
65 ACAGGCAAAC-TAAGGGTAGG
* * * *
7144 AAAGTCT-CTAGAGTCAAAGCCGACAGGCAGATTGAGGGAA-AGAAAGTCTTTAGGGTCAAAGCC
1 AAAGTCTCCAAG-GTCAAAGCCGACAGGCAGACTAAGGGAAGA-AAAGTCTCTAGGGTCAAAGCC
*
7207 GACAGGCAAACTGAGGGTAGG
64 GACAGGCAAACTAAGGGTAGG
* * * * * * * * *
7228 AAAGTCTTCAGGGTCAAAACCGATAAGCAGACTGAGGGAAGGAAAAGCCTCCAGGGTCAAAGTCG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGAA-GAAAAGTCTCTAGGGTCAAAGCCG
*
7293 ACAGGCAAACTAAAGGTAGG
65 ACAGGCAAACTAAGGGTAGG
* * *** * * * * *
7313 GAAGTCTCCAGGGTCAAAAATGATAGGCAAACTTAGGGAAAAAAAGTCTCTAGGGTCAAACCCGA
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCTAGGGTCAAAGCCGA
* * * * * *
7378 TAGACAGACTGAGAGTAGT
66 CAGGCAAACTAAGGGTAGG
* * * * * * *
7397 TAAGTCTCCAAGGTCAAAGCCGATAAGCAGACTGAGGGATAGGAAAGTCTCCAGGGTC-AAGACT
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGA-AGAAAAGTCTCTAGGGTCAAAG-CC
*
7461 GACAGGCAAACTAAGGGAAGG
64 GACAGGCAAACTAAGGGTAGG
* * * *
7482 AAAGTCTCCAGGGTCAAACCCGACAGGCAGACTAAAGGAAGGAAAGTCTCTAGGGTCAAAGCCGA
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCTAGGGTCAAAGCCGA
* * * *
7547 GAGGTAGACTAAGGGATAGA
66 CAGGCAAACTAAGGG-TAGG
* ** *
7567 AAAGTCTCCAGGGTC-AAGATTGACAGGCAGACTAAGGGAAGGAAAGTCTCTAGGGTCAAAGCCG
1 AAAGTCTCCAAGGTCAAAG-CCGACAGGCAGACTAAGGGAAGAAAAGTCTCTAGGGTCAAAGCCG
* * * *
7631 ACAAGTAGACTTAGGGATAGG
65 ACAGGCAAACTAAGGG-TAGG
* * * * * * * *
7652 AAAGTCTTCAAGGTCAAATCTGACAAGCAGACTAAGGGATAGGAAAGTCTCCAAGGTCAAAGCCC
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGA-AGAAAAGTCTCTAGGGTCAAAGCCG
*
7717 ACAGGAAAACTAAGGGATA-G
65 ACAGGCAAACTAAGGG-TAGG
7737 AAAGTCTCCA
1 AAAGTCTCCA
7747 GAAATTTAAT
Statistics
Matches: 633, Mismatches: 123, Indels: 28
0.81 0.16 0.04
Matches are distributed among these distances:
83 19 0.03
84 318 0.50
85 256 0.40
86 40 0.06
ACGTcount: A:0.39, C:0.18, G:0.28, T:0.15
Consensus pattern (84 bp):
AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCTAGGGTCAAAGCCGA
CAGGCAAACTAAGGGTAGG
Found at i:7008 original size:228 final size:228
Alignment explanation
Indices: 6611--7067 Score: 557
Period size: 228 Copynumber: 2.0 Consensus size: 228
6601 GACAGGCAGA
* * * *
6611 CTAAGAGAAAGAAAGTGTCCAGGGTCAAAACCGACAGGTAGACTAAGGGAATTAAAGTCTCCAAG
1 CTAAGAGAAAGAAAGTCTCCAAGGTCAAAACCGACAGATAGACTAAGGGAATAAAAGTCTCCAAG
* * ** *
6676 GTCAAAGCCGACAAGCAGACTAAGGGAAGGAAAGTCTCTAAGATCAAAGTTGACAAGCAGACTAA
66 GTCAAAACCGACAAGCAGACTAAGGGAAGAAAAGTCTCTAAGATCAAAGTCAACAAGCAAACTAA
* * * *
6741 GGGAAAGAAAGTCTCTAGGGTTAAAGCCGATAGGCAGACTGAGGGTAAGAAAA-TCTCCAA-GGT
131 GGGAAAGAAAGTCTCCAAGGTTAAAGCCGACAGGCAGACTAAGGG-AAGAAAAGTCT-CAAGGGT
*
6804 CAAAGCTGACAGGTAGACTAAGGGTCA-AAAAGTCT
194 CAAAGCTGACAGGCAGACTAAGGGT-AGAAAAGTCT
* * * * *
6839 CTAAGAGTAAA-AAAGTCTCCAAGGTCAAAGCCGATAGATAGACTGATGGTATGAAAAGTCTCCA
1 CTAAGAG-AAAGAAAGTCTCCAAGGTCAAAACCGACAGATAGACTAAGGGAAT-AAAAGTCTCCA
* * * * * *
6903 GGGT-AAAACTGATAGGCAGACTAAGGGTAGAAAAGTCTCT-AGAGTCAAAGTCAACAAGTAAAC
64 AGGTCAAAACCGACAAGCAGACTAAGGGAAGAAAAGTCTCTAAGA-TCAAAGTCAACAAGCAAAC
* * *
6966 TGAGGGTAGGAAAGTCTCCAAGGTTAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCAAGGG
128 TAAGGGAAAGAAAGTCTCCAAGGTTAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCAAGGG
*
7031 TCAAAGTTGACAGGCAGACTAAGGGTAGAAAAGTCT
193 TCAAAGCTGACAGGCAGACTAAGGGTAGAAAAGTCT
7067 C
1 C
7068 CAAGGTCAAA
Statistics
Matches: 194, Mismatches: 29, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
227 14 0.07
228 164 0.85
229 16 0.08
ACGTcount: A:0.40, C:0.16, G:0.27, T:0.17
Consensus pattern (228 bp):
CTAAGAGAAAGAAAGTCTCCAAGGTCAAAACCGACAGATAGACTAAGGGAATAAAAGTCTCCAAG
GTCAAAACCGACAAGCAGACTAAGGGAAGAAAAGTCTCTAAGATCAAAGTCAACAAGCAAACTAA
GGGAAAGAAAGTCTCCAAGGTTAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCAAGGGTCA
AAGCTGACAGGCAGACTAAGGGTAGAAAAGTCT
Found at i:7022 original size:42 final size:42
Alignment explanation
Indices: 6849--7746 Score: 646
Period size: 42 Copynumber: 21.3 Consensus size: 42
6839 CTAAGAGTAA
* ** * * *
6849 AAAAGTCTCCAAGGTCAAAGCCGATAGATAGACTGATGGTATG
1 AAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACT-AAGGGAAG
* * * * *
6892 AAAAGTCTCCAGGGT-AAAACTGATAGGCAGACTAAGGGTAG
1 AAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGAAG
* * * * * * * *
6933 AAAAGTCT-CTAGAGTCAAAGTCAACAAGTAAACTGAGGGTAG
1 AAAAGTCTCCAAG-GTCAAAGCCGACAGGCAGACTAAGGGAAG
* *
6975 GAAAGTCTCCAAGGTTAAAGCCGACAGGCAGACTAAGGGAAG
1 AAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGAAG
** *
7017 AAAAGTCT-CAAGGGTCAAAGTTGACAGGCAGACTAAGGGTAG
1 AAAAGTCTCCAA-GGTCAAAGCCGACAGGCAGACTAAGGGAAG
*
7059 AAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAGGGAA-
1 AAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGAAG
* * * *
7100 AGAAAGTCTCCAAGATCAAAGTCGACAGACAGACTTAA-GGAAA
1 A-AAAGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TAAGGGAAG
* * *
7143 AAAAGTCT-CTAGAGTCAAAGCCGACAGGCAGATTGAGGGAA-
1 AAAAGTCTCCAAG-GTCAAAGCCGACAGGCAGACTAAGGGAAG
** * * * *
7184 AGAAAGTCTTTAGGGTCAAAGCCGACAGGCAAACTGAGGGTAG
1 A-AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGAAG
* * * * * * *
7227 GAAAGTCTTCAGGGTCAAAACCGATAAGCAGACTGAGGGAAGG
1 AAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGAA-G
* * * * * *
7270 AAAAGCCTCCAGGGTCAAAGTCGACAGGCAAACTAAAGGTAG
1 AAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGAAG
** * *** * * * *
7312 GGAAGTCTCCAGGGTCAAAAATGATAGGCAAACTTAGGGAAA
1 AAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGAAG
* * * * * * * *
7354 AAAAGTCTCTAGGGTCAAACCCGATAGACAGACTGAGAGTAG
1 AAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGAAG
** * * *
7396 TTAAGTCTCCAAGGTCAAAGCCGATAAGCAGACTGAGGGATAG
1 AAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGA-AG
* * * *
7439 GAAAGTCTCCAGGGTC-AAGACTGACAGGCAAACTAAGGGAAG
1 AAAAGTCTCCAAGGTCAAAG-CCGACAGGCAGACTAAGGGAAG
* * * *
7481 GAAAGTCTCCAGGGTCAAACCCGACAGGCAGACTAAAGGAAG
1 AAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGAAG
* * * * *
7523 GAAAGTCTCTAGGGTCAAAGCCGAGAGGTAGACTAAGGGATAG
1 AAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGA-AG
* **
7566 AAAAGTCTCCAGGGTC-AAGATTGACAGGCAGACTAAGGGAAG
1 AAAAGTCTCCAAGGTCAAAG-CCGACAGGCAGACTAAGGGAAG
* * * * * *
7608 GAAAGTCTCTAGGGTCAAAGCCGACAAGTAGACTTAGGGATAG
1 AAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGA-AG
* * * * *
7651 GAAAGTCTTCAAGGTCAAATCTGACAAGCAGACTAAGGGATAG
1 AAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGA-AG
* * * *
7694 GAAAGTCTCCAAGGTCAAAGCCCACAGGAAAACTAAGGGATAG
1 AAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGA-AG
7737 -AAAGTCTCCA
1 AAAAGTCTCCA
7747 GAAATTTAAT
Statistics
Matches: 685, Mismatches: 149, Indels: 43
0.78 0.17 0.05
Matches are distributed among these distances:
40 2 0.00
41 24 0.04
42 463 0.68
43 196 0.29
ACGTcount: A:0.39, C:0.18, G:0.28, T:0.15
Consensus pattern (42 bp):
AAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGAAG
Found at i:8798 original size:15 final size:15
Alignment explanation
Indices: 8767--8810 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
8757 CCGATTTGGG
**
8767 TTTTTATTTGATT-T
1 TTTTTATTTTTTTAT
*
8781 TTTTTGTTTTTTTAT
1 TTTTTATTTTTTTAT
8796 TTTTTATTTTTTTAT
1 TTTTTATTTTTTTAT
8811 GCATAATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.11, C:0.00, G:0.05, T:0.84
Consensus pattern (15 bp):
TTTTTATTTTTTTAT
Found at i:16249 original size:28 final size:28
Alignment explanation
Indices: 16209--16275 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
16199 AAAATAGGGA
* ** * *
16209 TTGGACTATCCCCTCGGAAGTAACGGGG
1 TTGGAGTATCCCCGAGGAAATAACGAGG
*
16237 TTGGAGTATCCCCGATGAAATAACGAGG
1 TTGGAGTATCCCCGAGGAAATAACGAGG
16265 TTGGAGTATCC
1 TTGGAGTATCC
16276 TCGATTGTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (28 bp):
TTGGAGTATCCCCGAGGAAATAACGAGG
Found at i:16326 original size:54 final size:52
Alignment explanation
Indices: 16268--16389 Score: 138
Period size: 51 Copynumber: 2.3 Consensus size: 52
16258 AACGAGGTTG
* * * * *
16268 GAGTATCCTCGATTGTGAAAAAATTGGTATTTTTTGGAAATAAAGTCGGAGTTA
1 GAGTATCCCCGATTGTGAAAAAATTAG--TGTTTTGAAAATAAAATCGGAGTTA
* * *
16322 GAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTGTGAAAAAATTAGTGTTTTGAAAATAAAATCGGAGTTA
*
16373 GAATATCCCCGATTGTG
1 GAGTATCCCCGATTGTG
16390 GAGAATTGAG
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
51 35 0.61
53 8 0.14
54 14 0.25
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.33
Consensus pattern (52 bp):
GAGTATCCCCGATTGTGAAAAAATTAGTGTTTTGAAAATAAAATCGGAGTTA
Found at i:18772 original size:13 final size:13
Alignment explanation
Indices: 18754--18779 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18744 ACAAAGATCC
18754 ATGTATCGATACA
1 ATGTATCGATACA
18767 ATGTATCGATACA
1 ATGTATCGATACA
18780 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:18775 original size:33 final size:33
Alignment explanation
Indices: 18733--18799 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
18723 AAAATTTCCA
***
18733 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
18766 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
18799 A
1 A
18800 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:18843 original size:19 final size:18
Alignment explanation
Indices: 18819--18886 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 18
18809 CAGTAGCTAA
18819 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
18838 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
18853 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
*
18870 TTATTTATCGATACAAA
1 TTATGTATCGATACAAA
18887 TTGTTGAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.10
19 24 0.57
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:18859 original size:13 final size:13
Alignment explanation
Indices: 18841--18865 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18831 ACAATACTTA
18841 TGTATCGATACAT
1 TGTATCGATACAT
18854 TGTATCGATACA
1 TGTATCGATACA
18866 AAACTTATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:18863 original size:32 final size:32
Alignment explanation
Indices: 18822--18884 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
18812 TAGCTAATTA
*
18822 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
*
18854 TGTATCGATACAAAACTTATTTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
18885 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:19595 original size:29 final size:29
Alignment explanation
Indices: 19562--19651 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
19552 CTTTGAGGAC
19562 TGAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGGCTT
* ** *
19591 TGAAAAGGGGTCCTGC-TCTT-TG-GGGAC--
1 TG-AAAGGTG-CCACCAACTTGTGTGGG-CTT
19618 TGAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGGCTT
19647 TGAAA
1 TGAAA
19652 AGAAAAAGCA
Statistics
Matches: 45, Mismatches: 8, Indels: 16
0.65 0.12 0.23
Matches are distributed among these distances:
25 3 0.07
26 9 0.20
27 5 0.11
28 6 0.13
29 10 0.22
30 9 0.20
31 3 0.07
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.27
Consensus pattern (29 bp):
TGAAAGGTGCCACCAACTTGTGTGGGCTT
Found at i:19802 original size:59 final size:59
Alignment explanation
Indices: 19287--20307 Score: 1295
Period size: 59 Copynumber: 17.5 Consensus size: 59
19277 GGAGTAAAAA
* * *
19287 GTGCCACCAACTCGTGTGGGCTTT----G-AAAGGCATCCTGCTCTTTGAGGACTGAAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG-AAG
* * * *
19342 GTGCCACCAACTTGTGTGGGCTTT--AAG---AGGTGTCCTGCTCTTTGAAGACTGGAAA
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACT-GAAG
* * * * * *
19397 ATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTCCTGCTTTTTG-GGAATTGAAAA
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGG-ACTG-AAG
* * ** *
19452 ATGCCACCAACTTGTGTGGGCTTCT-AAAG----GG-ATCCTACTCTTTGGGGACTGAAAG
1 GTGCCACCAACTTGTGTGGGCTT-TAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG-AAG
* * *
19507 GTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAG
1 GTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG-AAG
* * *
19568 GTGCCACCAACTTGTGTGGGCTTT----GAAAAGGGGTCCTGCTCTTTGGGGACTGAAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG-AAG
* * *
19624 GTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAG
1 GTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG-AAG
* * *
19685 GTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAG
1 GTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
* * *
19745 GTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAA
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
* ** *
19804 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAACGGCGTCTTGCTCTTTGAGGATTGAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
19863 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
19922 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
19981 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
*
20040 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTGTCCCGCTCTTTGAGGACTGAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
20099 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
* *
20158 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGAATGGAAA
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACT-GAAG
* ** * *
20218 ATGCCACCAACTTGTGTGGGCTTTAAAAGGGGAAGGCATCCTGCTCTTTGAGGACTGGGAA-
1 GTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCGTCCCGCTCTTTGAGGACT--GAAG
*
20279 GTGCCACCATCTTGTGTGGGCTTTAAAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAG
20308 GTGTCCTGCT
Statistics
Matches: 884, Mismatches: 55, Indels: 49
0.89 0.06 0.05
Matches are distributed among these distances:
53 1 0.00
54 3 0.00
55 150 0.17
56 62 0.07
57 1 0.00
59 427 0.48
60 57 0.06
61 179 0.20
62 4 0.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (59 bp):
GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
Found at i:21317 original size:1 final size:1
Alignment explanation
Indices: 21313--21373 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
21303 CTTTTCTCTC
* * * * ** * *
21313 TTTTTCTTTGTTTTGTTTTTTGTTTTTTTTTTTTGCTTTTTTTTTTGTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
21374 GAAGAGAAGG
Statistics
Matches: 45, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.87
Consensus pattern (1 bp):
T
Found at i:21336 original size:12 final size:13
Alignment explanation
Indices: 21319--21370 Score: 65
Period size: 12 Copynumber: 4.2 Consensus size: 13
21309 TCTCTTTTTC
21319 TTTG-TTTTGTTT
1 TTTGCTTTTGTTT
* *
21331 TTTGTTTTTTTTT
1 TTTGCTTTTGTTT
21344 TTTGCTTTT-TTT
1 TTTGCTTTTGTTT
21356 TTTG-TTTTGTTT
1 TTTGCTTTTGTTT
21368 TTT
1 TTT
21371 TTTGAAGAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
11 4 0.11
12 17 0.47
13 15 0.42
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.87
Consensus pattern (13 bp):
TTTGCTTTTGTTT
Found at i:21339 original size:37 final size:37
Alignment explanation
Indices: 21298--21370 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
21288 AAGCAGGTTC
21298 TTTTTCTTTTCT-CTCTTTTTCTTTGTTTTGTTTTTTG
1 TTTTTCTTTTCTGCT-TTTTTCTTTGTTTTGTTTTTTG
* * *
21335 TTTTTTTTTTTTGCTTTTTTTTTTGTTTTGTTTTTT
1 TTTTTCTTTTCTGCTTTTTTCTTTGTTTTGTTTTTT
21371 TTTGAAGAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 30 0.94
38 2 0.06
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (37 bp):
TTTTTCTTTTCTGCTTTTTTCTTTGTTTTGTTTTTTG
Found at i:21356 original size:16 final size:16
Alignment explanation
Indices: 21323--21373 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
21313 TTTTTCTTTG
21323 TTTTGTTTT-TTGTTTT
1 TTTTGTTTTGTT-TTTT
21339 TTTT-TTTTGCTTTTTT
1 TTTTGTTTTG-TTTTTT
21355 TTTTGTTTTGTTTTTT
1 TTTTGTTTTGTTTTTT
21371 TTT
1 TTT
21374 GAAGAGAAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 4 0.12
16 21 0.66
17 7 0.22
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (16 bp):
TTTTGTTTTGTTTTTT
Found at i:21366 original size:30 final size:29
Alignment explanation
Indices: 21313--21373 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 29
21303 CTTTTCTCTC
21313 TTTTTCTTTGTTTTGTTTTTTGTTTTTTT
1 TTTTTCTTTGTTTTGTTTTTTGTTTTTTT
*
21342 TTTTTGCTTT-TTTTTTTGTTTTGTTTTTTT
1 TTTTT-CTTTGTTTTGTT-TTTTGTTTTTTT
21372 TT
1 TT
21374 GAAGAGAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 11 0.38
30 18 0.62
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.87
Consensus pattern (29 bp):
TTTTTCTTTGTTTTGTTTTTTGTTTTTTT
Found at i:21369 original size:25 final size:25
Alignment explanation
Indices: 21314--21371 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 25
21304 TTTTCTCTCT
*
21314 TTTTCTTTGTTTTGTTTTTTGTTTTT
1 TTTT-TTTGTTTTGTTTTTTGTTTTG
21340 TTTTTTTGCTTTT-TTTTTTGTTTTG
1 TTTTTTTG-TTTTGTTTTTTGTTTTG
21365 TTTTTTT
1 TTTTTTT
21372 TTGAAGAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 22 0.73
26 8 0.27
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.86
Consensus pattern (25 bp):
TTTTTTTGTTTTGTTTTTTGTTTTG
Found at i:33895 original size:28 final size:28
Alignment explanation
Indices: 33855--33926 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
33845 AAAAAAAAAT
* ** *
33855 CGGGATTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
33883 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
33911 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
33927 TCGATTGTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:33978 original size:54 final size:52
Alignment explanation
Indices: 33919--34040 Score: 138
Period size: 51 Copynumber: 2.3 Consensus size: 52
33909 AACGAGGTTG
* * * * *
33919 GAGTATCCTCGATTGTGAAAAAATTGGTATTTTTTGGAAATAAAGTCGGAGTTA
1 GAGTATCCCCGATTGTGAAAAAATTAG--TGTTTTGAAAATAAAATCGGAGTTA
* * *
33973 GAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTGTGAAAAAATTAGTGTTTTGAAAATAAAATCGGAGTTA
*
34024 GAATATCCCCGATTGTG
1 GAGTATCCCCGATTGTG
34041 GAGAATTGAG
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
51 35 0.61
53 8 0.14
54 14 0.25
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.33
Consensus pattern (52 bp):
GAGTATCCCCGATTGTGAAAAAATTAGTGTTTTGAAAATAAAATCGGAGTTA
Found at i:36430 original size:13 final size:13
Alignment explanation
Indices: 36412--36437 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36402 ACAAAGATCC
36412 ATGTATCGATACA
1 ATGTATCGATACA
36425 ATGTATCGATACA
1 ATGTATCGATACA
36438 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:36433 original size:33 final size:33
Alignment explanation
Indices: 36391--36457 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
36381 AAAATTTCCA
***
36391 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
36424 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
36457 A
1 A
36458 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:36501 original size:19 final size:18
Alignment explanation
Indices: 36477--36544 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 18
36467 CAGTAGCTAA
36477 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
36496 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
*
36511 -T-TGTATCTATACAAAAC
1 TTATGTATCGATAC-AAAC
36528 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
36545 TTGTTGAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
13 10 0.24
14 1 0.02
16 2 0.05
18 4 0.10
19 24 0.59
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:36523 original size:32 final size:32
Alignment explanation
Indices: 36480--36542 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
36470 TAGCTAATTA
*
36480 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
*
36512 TGTATCTATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
36543 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:36607 original size:21 final size:21
Alignment explanation
Indices: 36580--36656 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
36570 GTTGGGACCC
* *
36580 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACA-TTCTACAAA
*
36601 GGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
36622 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
36643 TGTATCGATACATT
1 TGTATCGATACATT
36657 TGGAAATTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 4 0.08
21 47 0.92
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:37974 original size:20 final size:20
Alignment explanation
Indices: 37951--38024 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
37941 ACAATTCAAA
37951 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
37971 GTATCGATACATGAAAAAAAAT
1 GTATCGATACATG--TTGCAAT
37993 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
38013 GTATCGATACAT
1 GTATCGATACAT
38025 AAAAAGGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 28 0.64
22 16 0.36
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:38041 original size:41 final size:42
Alignment explanation
Indices: 37951--38045 Score: 165
Period size: 42 Copynumber: 2.3 Consensus size: 42
37941 ACAATTCAAA
37951 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAAAAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAAAAT
**
37993 GTATCGATACATGTTGCAATGTATCGATACAT-AAAAAGGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAAAAT
38034 GTATCGATACAT
1 GTATCGATACAT
38046 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
41 19 0.37
42 32 0.63
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAAAAT
Found at i:38102 original size:13 final size:13
Alignment explanation
Indices: 38084--38109 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38074 TACAGCAAGT
38084 ATGTATCGATACA
1 ATGTATCGATACA
38097 ATGTATCGATACA
1 ATGTATCGATACA
38110 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:42192 original size:15 final size:15
Alignment explanation
Indices: 42172--42202 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
42162 TAAAAATGTC
*
42172 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
42187 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
42202 C
1 C
42203 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:44302 original size:13 final size:13
Alignment explanation
Indices: 44284--44322 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
44274 ACATTTTTCC
44284 TTGTATCGATACA
1 TTGTATCGATACA
44297 TTGTATCGATACA
1 TTGTATCGATACA
*
44310 CTGTATCGATACA
1 TTGTATCGATACA
44323 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Done.