Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011557.1 Kokia drynarioides strain JFW-HI SEQ_126546, 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: 84817
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Found at i:2535 original size:31 final size:31
Alignment explanation
Indices: 2497--2558 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
2487 TGGTGACATT
2497 GGCTCCTATTGTTTCGAAATGAGCCTCAAAA
1 GGCTCCTATTGTTTCGAAATGAGCCTCAAAA
2528 GGCTCCTATTGTTTCGAAATGAGCCTCAAAA
1 GGCTCCTATTGTTTCGAAATGAGCCTCAAAA
2559 TGGTTTAGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (31 bp):
GGCTCCTATTGTTTCGAAATGAGCCTCAAAA
Found at i:2818 original size:37 final size:36
Alignment explanation
Indices: 2777--2856 Score: 106
Period size: 37 Copynumber: 2.2 Consensus size: 36
2767 AATTTTTACT
* * *
2777 CAAAACAGGGTAAATATCGATGCTTTTTGCTTAAAAA
1 CAAAACAGCGCAAATATCGATAC-TTTTGCTTAAAAA
2814 CAAAACCAGCGCAAATATCGATACTTTTGCTTAAAAA
1 CAAAA-CAGCGCAAATATCGATACTTTTGCTTAAAAA
*
2851 CGAAAC
1 CAAAAC
2857 CAATGGGACA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
36 1 0.03
37 22 0.58
38 15 0.39
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (36 bp):
CAAAACAGCGCAAATATCGATACTTTTGCTTAAAAA
Found at i:3777 original size:6 final size:6
Alignment explanation
Indices: 3752--3796 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
3742 ACAATTCATA
* * *
3752 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
3797 ATTTTGATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (6 bp):
TCACTT
Found at i:7742 original size:22 final size:22
Alignment explanation
Indices: 7698--7743 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
7688 AACAGCCCAG
*
7698 TCTTCTCCTTTCTTTTTTCTTT
1 TCTTCTCCTTTCTTTTATCTTT
*
7720 TCTTCTTCTTTC-TTTATCATTT
1 TCTTCTCCTTTCTTTTATC-TTT
7742 TC
1 TC
7744 CAAGTTTGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.04, C:0.26, G:0.00, T:0.70
Consensus pattern (22 bp):
TCTTCTCCTTTCTTTTATCTTT
Found at i:15368 original size:17 final size:17
Alignment explanation
Indices: 15328--15369 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
15318 AAAATCTGAA
* *
15328 TCCAAAAAAGCTTGAGC
1 TCCAAAAAAGCCTAAGC
*
15345 -CCTAAAAAGCCTAAGC
1 TCCAAAAAAGCCTAAGC
15361 TCCAAAAAA
1 TCCAAAAAA
15370 ATTGAATCTG
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.48, C:0.26, G:0.12, T:0.14
Consensus pattern (17 bp):
TCCAAAAAAGCCTAAGC
Found at i:15866 original size:16 final size:18
Alignment explanation
Indices: 15827--15860 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15817 TAAGTTTATA
15827 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
15844 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
15861 AATTTAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:17040 original size:14 final size:14
Alignment explanation
Indices: 17023--17052 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17013 TTTAAACTCT
*
17023 AAAAGATAAATCTA
1 AAAAGATAAATATA
17037 AAAAGATAAATATA
1 AAAAGATAAATATA
17051 AA
1 AA
17053 TTAAATACAA
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:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (14 bp):
AAAAGATAAATATA
Found at i:17875 original size:16 final size:17
Alignment explanation
Indices: 17849--17884 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
17839 ACACTCCAAA
17849 TTTATTTATTTATTATT
1 TTTATTTATTTATTATT
*
17866 TTTA-TTATTTTTTATT
1 TTTATTTATTTATTATT
17882 TTT
1 TTT
17885 TCAATAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTATTTATTTATTATT
Found at i:20069 original size:53 final size:53
Alignment explanation
Indices: 20006--20197 Score: 269
Period size: 53 Copynumber: 3.6 Consensus size: 53
19996 TTAGCATTTG
* * *
20006 ATAACTCACGATGACACAAAGTCATAGGACCCTTAATCTGTAATAGGATTCAT
1 ATAACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
* * * *
20059 ATAACTCACGATGAAACATAGTCATCGAACCTTTAATCCGT-ATAGAATTCAT
1 ATAACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
* * *
20111 ATAACTCACGATGACACGAAGTCATTGGACCTTTAATCCGTAATAAGATTCAT
1 ATAACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
* *
20164 ATAACTCACGGTGACACAGAGTCATCGGACCTTT
1 ATAACTCACGATGACACAAAGTCATCGGACCTTT
20198 CATCTTTGAC
Statistics
Matches: 120, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
52 46 0.38
53 74 0.62
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (53 bp):
ATAACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
Found at i:20168 original size:105 final size:105
Alignment explanation
Indices: 20006--20197 Score: 303
Period size: 105 Copynumber: 1.8 Consensus size: 105
19996 TTAGCATTTG
* *
20006 ATAACTCACGATGACACAAAGTCATAGGACCCTTAATCTGTAATAGGATTCATATAACTCACGAT
1 ATAACTCACGATGACACAAAGTCATAGGACCCTTAATCCGTAATAAGATTCATATAACTCACGAT
*
20071 GAAACATAGTCATCGAACCTTTAATCCGTATAGAATTCAT
66 GAAACAGAGTCATCGAACCTTTAATCCGTATAGAATTCAT
* * * *
20111 ATAACTCACGATGACACGAAGTCATTGGACCTTTAATCCGTAATAAGATTCATATAACTCACGGT
1 ATAACTCACGATGACACAAAGTCATAGGACCCTTAATCCGTAATAAGATTCATATAACTCACGAT
* *
20176 GACACAGAGTCATCGGACCTTT
66 GAAACAGAGTCATCGAACCTTT
20198 CATCTTTGAC
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
105 78 1.00
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (105 bp):
ATAACTCACGATGACACAAAGTCATAGGACCCTTAATCCGTAATAAGATTCATATAACTCACGAT
GAAACAGAGTCATCGAACCTTTAATCCGTATAGAATTCAT
Found at i:26743 original size:53 final size:53
Alignment explanation
Indices: 26659--26856 Score: 236
Period size: 53 Copynumber: 3.7 Consensus size: 53
26649 TTCGCATTTG
* * * * * * *
26659 ATAACTCATGATGACATAAAGTCACCGGACCTTTAATCCGTAATAGGATTCAT
1 ATAATTCACGATGACACAGAGTCATCAGACCTTTAATCTGTAATAGGATTCAT
* * * *
26712 ATAATTCACGATGGCACATAGTCATCAGACCTTTAATCTATGATAGGATTCAT
1 ATAATTCACGATGACACAGAGTCATCAGACCTTTAATCTGTAATAGGATTCAT
* * *
26765 ATAACTCACGATGACACAGAGTCATCGGACCTTTAATCTGTTATAGGATTCAT
1 ATAATTCACGATGACACAGAGTCATCAGACCTTTAATCTGTAATAGGATTCAT
* *
26818 ATAGCTT-ACGATGACACAGAGTCATCAAACCTTTAATCT
1 ATA-ATTCACGATGACACAGAGTCATCAGACCTTTAATCT
26857 TTGGCACAAG
Statistics
Matches: 124, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
53 123 0.99
54 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (53 bp):
ATAATTCACGATGACACAGAGTCATCAGACCTTTAATCTGTAATAGGATTCAT
Found at i:26844 original size:106 final size:106
Alignment explanation
Indices: 26659--26856 Score: 290
Period size: 106 Copynumber: 1.9 Consensus size: 106
26649 TTCGCATTTG
* *
26659 ATAACTCATGATGACATAAAGTCACCGGACCTTTAATCCGTAATAGGATTCATATAATTCACGAT
1 ATAACTCACGATGACACAAAGTCACCGGACCTTTAATCCGTAATAGGATTCATATAATTCACGAT
* * *
26724 GGCACATAGTCATCAGACCTTTAATCTATGATAGGATTCAT
66 GACACAGAGTCATCAAACCTTTAATCTATGATAGGATTCAT
* * * * *
26765 ATAACTCACGATGACACAGAGTCATCGGACCTTTAATCTGTTATAGGATTCATATAGCTT-ACGA
1 ATAACTCACGATGACACAAAGTCACCGGACCTTTAATCCGTAATAGGATTCATATA-ATTCACGA
26829 TGACACAGAGTCATCAAACCTTTAATCT
65 TGACACAGAGTCATCAAACCTTTAATCT
26857 TTGGCACAAG
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
106 79 0.98
107 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (106 bp):
ATAACTCACGATGACACAAAGTCACCGGACCTTTAATCCGTAATAGGATTCATATAATTCACGAT
GACACAGAGTCATCAAACCTTTAATCTATGATAGGATTCAT
Found at i:28801 original size:24 final size:23
Alignment explanation
Indices: 28758--28822 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
28748 TACAAGTGAT
*
28758 CCAAACCCAAA-ACCTAAACAAGAC
1 CCAAACCCAAATACC-CAACAAG-C
* *
28782 CTAAACCCAATTACCCAACAAGC
1 CCAAACCCAAATACCCAACAAGC
*
28805 CCAAGCCCAAATACCCAA
1 CCAAACCCAAATACCCAA
28823 AAATTATTAG
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
23 16 0.47
24 15 0.44
25 3 0.09
ACGTcount: A:0.48, C:0.40, G:0.05, T:0.08
Consensus pattern (23 bp):
CCAAACCCAAATACCCAACAAGC
Found at i:34578 original size:12 final size:12
Alignment explanation
Indices: 34561--34597 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
34551 GTGTTATCAA
34561 AAAGAAAAAAAG
1 AAAGAAAAAAAG
34573 AAAGAAAAAAAG
1 AAAGAAAAAAAG
*
34585 AAAAAGAAAAAAG
1 AAAGA-AAAAAAG
34598 GGGTAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 16 0.70
13 7 0.30
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAAAG
Found at i:35017 original size:40 final size:40
Alignment explanation
Indices: 34973--35053 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
34963 AAAAGAATGG
34973 GGCATTGGAGGTGACCAATAAGAACATCAAAGGATTCATT
1 GGCATTGGAGGTGACCAATAAGAACATCAAAGGATTCATT
*
35013 GGCATTGGAGGTGACCAATAAGAACATCAGAGGATTCATT
1 GGCATTGGAGGTGACCAATAAGAACATCAAAGGATTCATT
35053 G
1 G
35054 TGAAGTAGCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (40 bp):
GGCATTGGAGGTGACCAATAAGAACATCAAAGGATTCATT
Found at i:35561 original size:7 final size:7
Alignment explanation
Indices: 35545--35600 Score: 53
Period size: 7 Copynumber: 8.3 Consensus size: 7
35535 AATTTCACCC
35545 AAAG-AA
1 AAAGAAA
35551 AAAGAAA
1 AAAGAAA
35558 AAAGAAA
1 AAAGAAA
* *
35565 GAA-AAG
1 AAAGAAA
* *
35571 GAAGAAG
1 AAAGAAA
*
35578 AAAGAAG
1 AAAGAAA
35585 AAAGAAA
1 AAAGAAA
35592 AAAGAAA
1 AAAGAAA
35599 AA
1 AA
35601 GGAGAGGTCG
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
6 9 0.20
7 35 0.80
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:35567 original size:4 final size:4
Alignment explanation
Indices: 35551--35598 Score: 50
Period size: 4 Copynumber: 12.8 Consensus size: 4
35541 ACCCAAAGAA
*
35551 AAAG AAA- AAAG AAAG AAAAG GAAG -AAG AAAG -AAG AAAG AAA- AAAG
1 AAAG AAAG AAAG AAAG -AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
35596 AAA
1 AAA
35599 AAGGAGAGGT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
3 12 0.32
4 22 0.58
5 4 0.11
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:35578 original size:16 final size:16
Alignment explanation
Indices: 35545--35598 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
35535 AATTTCACCC
35545 AAAGAAAAAGAAAAAAG
1 AAAG-AAAAGAAAAAAG
* *
35562 AAAGAAAAGGAAGAAG
1 AAAGAAAAGAAAAAAG
35578 AAAGAAGAAAGAAAAAAG
1 AAAG-A-AAAGAAAAAAG
35596 AAA
1 AAA
35599 AAGGAGAGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
16 14 0.45
17 5 0.16
18 12 0.39
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (16 bp):
AAAGAAAAGAAAAAAG
Found at i:36898 original size:99 final size:98
Alignment explanation
Indices: 36603--37323 Score: 380
Period size: 99 Copynumber: 7.3 Consensus size: 98
36593 AGAATCTAAG
* * * * *
36603 ATGGG-AAGGATTGAGGCCACAACGACGAATCCGGTACCATGAAAATGTGATGGGAAAGGTTGAA
1 ATGGGAAAGG-TTGAGGCTACAACGACGAACCCAGTACCATGAAGAT-TGAAGGGAAAGGTT-AA
* * ** * *
36667 -GCCACGACGGTGAAC-CTGGTACCAT-GAAGATTTGA
63 GGCCGCAACGACGAACTC-GGTACCTTAGAAGATGT-A
* *** * * * * *** *
36702 A-GGGAAAGGTTAAGGCCGTAATGACGAACTCGGTACCATAAAAGATGTGATCAGAAAGATTAAG
1 ATGGGAAAGGTTGAGGCTACAACGACGAACCCAGTACCAT-GAAGAT-TGAAGGGAAAGGTTAAG
** * * * * * *
36766 GCCATAATGGCGAATTCGATACCAT-GAAAATGTA
64 GCCGCAACGACGAACTCGGTACCTTAGAAGATGTA
* *
36800 ATGGGAAAGGTTGAGGCTACAACGGCGAACCCAGTACCATGAAGATTCGAAGGGAAAAGTTAAGG
1 ATGGGAAAGGTTGAGGCTACAACGACGAACCCAGTACCATGAAGATT-GAAGGGAAAGGTTAAGG
* *
36865 CCGCAACGACGAACACGGTACCTTAAAAGATGTA
65 CCGCAACGACGAACTCGGTACCTTAGAAGATGTA
* * ** *
36899 ATGGG-AAGGATTGAGGCCACAACGACGAATCC-GATACCATGAAGATTTGAAGGGAAAAATAAA
1 ATGGGAAAGG-TTGAGGCTACAACGACGAACCCAG-TACCATGAAGA-TTGAAGGGAAAGGTTAA
* *
36962 GGCCGCAACGACAAACTCGGTACCTTAGAAGATGTG
63 GGCCGCAACGACGAACTCGGTACCTTAGAAGATGTA
** * * * * *
36998 ATGGG-AAGGATTGAGGCTGTAACGACGAATCC-GACACCATGAA-AATGTAACAGGAAAGGTTG
1 ATGGGAAAGG-TTGAGGCTACAACGACGAACCCAG-TACCATGAAGATTG-AA-GGGAAAGGTTA
** * *
37060 AGGCCATAACGACGAAC-CTGGTACCAT-GAAGATTTGA
62 AGGCCGCAACGACGAACTC-GGTACCTTAGAAGATGT-A
* * * * * * * *
37097 A-GGGAAAGGTTGAGACCGA-AACGGCGAACCCAATACCTTAGAAGACATGATGGG-AAGGATTG
1 ATGGGAAAGGTTGAG-GCTACAACGACGAACCCAGTACCAT-GAAGA-TTGAAGGGAAAGG-TTA
* * * * **
37159 AGGCCGTAACGATGAATTCGGTACCAT-GAA-ATGCG
62 AGGCCGCAACGACGAACTCGGTACCTTAGAAGATGTA
* * ***
37194 ATGGGAAAAGTTGAGGCTGCAACGGTAAACCCAGTACCATGAAGATATGAAGGGAAAGGTTAAGG
1 ATGGGAAAGGTTGAGGCTACAACGACGAACCCAGTACCATGAAGAT-TGAAGGGAAAGGTTAAGG
* * * * * * *
37259 CCACGATGGCGAACCCGGTACCTTAGAAGATATG
65 CCGCAACGACGAACTCGGTACCTTAGAAGATGTA
* **
37293 ATGAGAAAGGTTGAGGCCGCAACGACGAACC
1 ATGGGAAAGGTTGAGGCTACAACGACGAACC
37324 TAACACCTTA
Statistics
Matches: 482, Mismatches: 112, Indels: 56
0.74 0.17 0.09
Matches are distributed among these distances:
97 36 0.07
98 143 0.30
99 294 0.61
100 6 0.01
101 3 0.01
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.17
Consensus pattern (98 bp):
ATGGGAAAGGTTGAGGCTACAACGACGAACCCAGTACCATGAAGATTGAAGGGAAAGGTTAAGGC
CGCAACGACGAACTCGGTACCTTAGAAGATGTA
Found at i:36916 original size:50 final size:49
Alignment explanation
Indices: 36603--37323 Score: 205
Period size: 49 Copynumber: 14.6 Consensus size: 49
36593 AGAATCTAAG
* * * *
36603 ATGGGAAGGATTGAGGCCACAACGACGAATCCGGTACCAT-GAAAATGTG
1 ATGGGAAGGATTGAGGCCGCAACGACGAA-CCGGTACCTTAGAAGATGTA
* * * ** * *
36652 ATGGGAAAGG-TTGAAGCCACGACGGTGAACCTGGTACCAT-GAAGATTTGA
1 ATGGG-AAGGATTGAGGCCGCAACGACGAACC-GGTACCTTAGAAGATGT-A
* * * * * *
36702 A-GGGAAAGG-TTAAGGCCGTAATGACGAACTCGGTACCATAAAAGATGTG
1 ATGGG-AAGGATTGAGGCCGCAACGACGAAC-CGGTACCTTAGAAGATGTA
** * * ** * * * * * *
36751 ATCAGAAAGATTAAGGCCATAATGGCGAATTCGATACCAT-GAAAATGTA
1 ATGGGAAGGATTGAGGCCGCAACGACGAA-CCGGTACCTTAGAAGATGTA
** * * *
36800 ATGGGAAAGG-TTGAGGCTACAACGGCGAACCCAGTACCAT-GAAGAT-TCGA
1 ATGGG-AAGGATTGAGGCCGCAACGACGAA-CCGGTACCTTAGAAGATGT--A
* * *
36850 A-GGGAA-AAGTTAAGGCCGCAACGACGAACACGGTACCTTAAAAGATGTA
1 ATGGGAAGGA-TTGAGGCCGCAACGACGAAC-CGGTACCTTAGAAGATGTA
* * * *
36899 ATGGGAAGGATTGAGGCCACAACGACGAATCCGATACCAT-GAAGATTTGA
1 ATGGGAAGGATTGAGGCCGCAACGACGAA-CCGGTACCTTAGAAGATGT-A
** ** * *
36949 A-GGGAAAAATAAAGGCCGCAACGACAAACTCGGTACCTTAGAAGATGTG
1 ATGGGAAGGATTGAGGCCGCAACGACGAAC-CGGTACCTTAGAAGATGTA
* * ** * *
36998 ATGGGAAGGATTGAGGCTGTAACGACGAATCCGACACCAT-GAAAATGTA
1 ATGGGAAGGATTGAGGCCGCAACGACGAA-CCGGTACCTTAGAAGATGTA
* * ** * *
37047 ACAGGAAAGG-TTGAGGCCATAACGACGAACCTGGTACCAT-GAAGATTTGA
1 A-TGGGAAGGATTGAGGCCGCAACGACGAACC-GGTACCTTAGAAGATGT-A
* * * ** ** *
37097 A-GGGAAAGG-TTGAGACCGAAACGGCGAACCCAATACCTTAGAAGACATG
1 ATGGG-AAGGATTGAGGCCGCAACGACGAA-CCGGTACCTTAGAAGATGTA
* * * * **
37146 ATGGGAAGGATTGAGGCCGTAACGATGAATTCGGTACCAT-GAA-ATGCG
1 ATGGGAAGGATTGAGGCCGCAACGACGAA-CCGGTACCTTAGAAGATGTA
* * *** * * *
37194 ATGGGAA-AAGTTGAGGCTGCAACGGTAAACCCAGTACCAT-GAAGATATGA
1 ATGGGAAGGA-TTGAGGCCGCAACGACGAA-CCGGTACCTTAGAAGATGT-A
* * * * * * *
37244 A-GGGAAAGG-TTAAGGCCACGATGGCGAACCCGGTACCTTAGAAGATATG
1 ATGGG-AAGGATTGAGGCCGCAACGACGAA-CCGGTACCTTAGAAGATGTA
*
37293 ATGAGAAAGG-TTGAGGCCGCAACGACGAACC
1 ATG-GGAAGGATTGAGGCCGCAACGACGAACC
37324 TAACACCTTA
Statistics
Matches: 496, Mismatches: 136, Indels: 80
0.70 0.19 0.11
Matches are distributed among these distances:
47 1 0.00
48 46 0.09
49 262 0.53
50 182 0.37
51 5 0.01
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.17
Consensus pattern (49 bp):
ATGGGAAGGATTGAGGCCGCAACGACGAACCGGTACCTTAGAAGATGTA
Found at i:36954 original size:148 final size:146
Alignment explanation
Indices: 36603--37323 Score: 521
Period size: 148 Copynumber: 4.9 Consensus size: 146
36593 AGAATCTAAG
* * *
36603 ATGGGAAGGATTGAGGCCACAACGACGAATCCGGTACCATGAAAATGTGATGGGAAAGGTTGAAG
1 ATGGGAAGGATTGAGGCCACAACGACGAATCCGATACCATGAAAATGTGAAGGGAAAGGTTGAGG
* * ** *
36668 CCACGACGGTGAACCTGGTACCATGAAGATTTGAAGGGAAAGGTTAAGGCCGTAATGACGAACTC
66 CCACAACGGCGAACCCAGTACCATGAAGA-TTGAAGGGAAAGGTTAAGGCCGTAACGACGAAC-C
*
36733 GGTACCATAAAAGATGTG
129 GGTACCATAAAAGATGTA
** * * * * * *
36751 ATCAGAAAGATTAAGGCCATAATGGCGAATTCGATACCATGAAAATGT-AATGGGAAAGGTTGAG
1 ATGGGAAGGATTGAGGCCACAACGACGAATCCGATACCATGAAAATGTGAA-GGGAAAGGTTGAG
* * *
36815 GCTACAACGGCGAACCCAGTACCATGAAGATTCGAAGGGAAAAGTTAAGGCCGCAACGACGAACA
65 GCCACAACGGCGAACCCAGTACCATGAAGATT-GAAGGGAAAGGTTAAGGCCGTAACGACGAAC-
*
36880 CGGTACCTTAAAAGATGTA
128 CGGTACCATAAAAGATGTA
* * ** **
36899 ATGGGAAGGATTGAGGCCACAACGACGAATCCGATACCATGAAGATTTGAAGGGAAAAATAAAGG
1 ATGGGAAGGATTGAGGCCACAACGACGAATCCGATACCATGAAAATGTGAAGGGAAAGGTTGAGG
* * * * * * * * *
36964 CCGCAACGACAAACTCGGTACCTTAGAAGATGTGATGGG-AAGGATTGAGGCTGTAACGACGAAT
66 CCACAACGGCGAACCCAGTACCAT-GAAGAT-TGAAGGGAAAGG-TTAAGGCCGTAACGACGAA-
** *
37028 CCGACACCATGAAA-ATGTA
127 CCGGTACCATAAAAGATGTA
* * * * * *
37047 ACAGGAAAGG-TTGAGGCCATAACGACGAA-CCTGGTACCATGAAGATTTGAAGGGAAAGGTTGA
1 A-TGGGAAGGATTGAGGCCACAACGACGAATCC-GATACCATGAAAATGTGAAGGGAAAGGTTGA
* * * * * * *
37110 GACCGA-AACGGCGAACCCAATACCTTAGAAGACATGATGGG-AAGGATTGAGGCCGTAACGATG
64 GGCC-ACAACGGCGAACCCAGTACCAT-GAAGA-TTGAAGGGAAAGG-TTAAGGCCGTAACGACG
* * **
37173 AATTCGGTACCAT-GAA-ATGCG
125 AA-CCGGTACCATAAAAGATGTA
* ** * * * * *
37194 ATGGGAA-AAGTTGAGGCTGCAACG--GTAAACCCAGTACCATGAAGATATGAAGGGAAAGGTTA
1 ATGGGAAGGA-TTGAGGCCACAACGACG-AATCCGA-TACCATGAAAATGTGAAGGGAAAGGTTG
* * * * * * * *
37256 AGGCCACGATGGCGAACCCGGTACCTTAGAAGATATGATGAGAAAGGTTGAGGCCGCAACGACGA
63 AGGCCACAACGGCGAACCCAGTACCAT-GAAGAT-TGAAGGGAAAGGTTAAGGCCGTAACGACGA
37321 ACC
126 ACC
37324 TAACACCTTA
Statistics
Matches: 458, Mismatches: 96, Indels: 40
0.77 0.16 0.07
Matches are distributed among these distances:
145 1 0.00
146 8 0.02
147 99 0.22
148 304 0.66
149 44 0.10
150 2 0.00
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.17
Consensus pattern (146 bp):
ATGGGAAGGATTGAGGCCACAACGACGAATCCGATACCATGAAAATGTGAAGGGAAAGGTTGAGG
CCACAACGGCGAACCCAGTACCATGAAGATTGAAGGGAAAGGTTAAGGCCGTAACGACGAACCGG
TACCATAAAAGATGTA
Found at i:36996 original size:247 final size:246
Alignment explanation
Indices: 36616--37188 Score: 648
Period size: 247 Copynumber: 2.3 Consensus size: 246
36606 GGAAGGATTG
* * * * * *
36616 AGGCCACAACGACGAATCCGGTACCATGAAA-ATGTGATGGGAAAGG-TTGAAGCCACGACGGTG
1 AGGCCGCAACGACGAA-CCGGTACCTTAAAAGATGTGATGGG-AAGGATTGAGGCCACAACGATG
** * * * *
36679 AA-CCTGGTACCATGAAGATTTGAAGGGAAAGGTTAAGGCCGTAATGACGAACTCGGTACCATAA
64 AATCC-GGTACCATGAAGATTTGAAGGGAAAAATAAAGGCCGCAACGACAAACTCGGTACCATAA
* * * * **
36743 AAGATGTGATCAGAAAGATTAAGGCCATAATGGCGAATTCGATACCATGAAAATGTAATGGGAAA
128 AAGATGTGATCAGAAAGATTAAGGCCATAACGACGAATCCGACACCATGAAAATGTAACAGGAAA
* *
36808 GGTTGAGGCTACAACGGCGAACCCAGTACCATGAAGATTCGAAGGGAAAAGTTA
193 GGTTGAGGCCACAACGACGAACCCAGTACCATGAAGATTCGAAGGGAAAAGTTA
* *
36862 AGGCCGCAACGACGAACACGGTACCTTAAAAGATGTAATGGGAAGGATTGAGGCCACAACGACGA
1 AGGCCGCAACGACGAAC-CGGTACCTTAAAAGATGTGATGGGAAGGATTGAGGCCACAACGATGA
* * *
36927 ATCCGATACCATGAAGATTTGAAGGGAAAAATAAAGGCCGCAACGACAAACTCGGTACCTTAGAA
65 ATCCGGTACCATGAAGATTTGAAGGGAAAAATAAAGGCCGCAACGACAAACTCGGTACCATAAAA
** * * **
36992 GATGTGATGGGAAGGATTGAGGCTGTAACGACGAATCCGACACCATGAAAATGTAACAGGAAAGG
130 GATGTGATCAGAAAGATTAAGGCCATAACGACGAATCCGACACCATGAAAATGTAACAGGAAAGG
* ** * * *
37057 TTGAGGCCATAACGACGAACCTGGTACCATGAAGATTTGAAGGGAAAGGTTG
195 TTGAGGCCACAACGACGAACCCAGTACCATGAAGATTCGAAGGGAAAAGTTA
* * * ** * ** **
37109 AGACCGAAACGGCGAACCCAATACCTTAGAAGACATGATGGGAAGGATTGAGGCCGTAACGATGA
1 AGGCCGCAACGACGAA-CCGGTACCTTAAAAGATGTGATGGGAAGGATTGAGGCCACAACGATGA
*
37174 ATTCGGTACCATGAA
65 ATCCGGTACCATGAA
37189 ATGCGATGGG
Statistics
Matches: 271, Mismatches: 51, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
245 1 0.00
246 30 0.11
247 237 0.87
248 3 0.01
ACGTcount: A:0.37, C:0.18, G:0.28, T:0.17
Consensus pattern (246 bp):
AGGCCGCAACGACGAACCGGTACCTTAAAAGATGTGATGGGAAGGATTGAGGCCACAACGATGAA
TCCGGTACCATGAAGATTTGAAGGGAAAAATAAAGGCCGCAACGACAAACTCGGTACCATAAAAG
ATGTGATCAGAAAGATTAAGGCCATAACGACGAATCCGACACCATGAAAATGTAACAGGAAAGGT
TGAGGCCACAACGACGAACCCAGTACCATGAAGATTCGAAGGGAAAAGTTA
Found at i:37791 original size:39 final size:39
Alignment explanation
Indices: 37684--37835 Score: 130
Period size: 39 Copynumber: 3.9 Consensus size: 39
37674 CATAAAGTAC
* * * *
37684 ACAACCATCCAATCTTTTACCCCGACCATGGGGCATATTG
1 ACAACCATCCAATCTCTTA-CCCGATCATGGGGCAAATCG
* * *
37724 AAAACCATCCGATCTCTTATCCCAATCATGGGGCAAATCG
1 ACAACCATCCAATCTCTTA-CCCGATCATGGGGCAAATCG
* * *
37764 -CAACCATCCAATCTCTTACCTTGATCATGGGGCAGATTG
1 ACAACCATCCAATCTCTTACC-CGATCATGGGGCAAATCG
* * *
37803 A-AAACA-CCAAACTCTTGCCCCGATCATGGGGCA
1 ACAACCATCCAATCTCTT-ACCCGATCATGGGGCA
37836 GATTAAAGAA
Statistics
Matches: 91, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
38 23 0.25
39 36 0.40
40 32 0.35
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (39 bp):
ACAACCATCCAATCTCTTACCCGATCATGGGGCAAATCG
Found at i:37828 original size:38 final size:39
Alignment explanation
Indices: 37689--38525 Score: 648
Period size: 40 Copynumber: 21.4 Consensus size: 39
37679 AGTACACAAC
* * *
37689 CATCCAATCTTTTACCCCGACCATGGGGCATATTGAAAA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAAA
* * * * * * *
37728 CCATCCGATCTCTTATCCCAATCATGGGGCAAATCGCAAC
1 -CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAAA
**
37768 CATCCAATCTCTTACCTTGATCATGGGGCAGATTGAAAA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAAA
* *
37807 CA-CCAAACTCTTGCCCCGATCATGGGGCAGATT-AAAGA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAA-A
* *** *
37845 -ATTCAATCTCTTACCTTAATCA-GAAGGCAGATT-AAAGA
1 CATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAAA-A
* * * * *
37883 CACACCAATCTCTTACCTCAATCATGAGGCAGATT-AAAG
1 CA-TCCAATCTCTTACCCCGATCATGGGGCAGATTGAAAA
*** **
37922 CATCCAATCTCTTACCTTAATCA-GAAAGCAGATT-AAAGA
1 CATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAAA-A
* * * * *
37961 CAAACCAATCTCTTACCTCAATCATGAGGCAGATTG-AAG
1 C-ATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAAA
** * * *
38000 CATCCAATCTCTTACCCTAATCA-GATGGCAAATTGAAGA
1 CATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAAAA
* * * * * * *
38039 CATGCAGTCTTTTACCTCGATCATGAGGCAAATTG-AAG
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAAA
* * ** * * *
38077 CATTCAATCT-TTACACTAAT--TGAAAGGTAGATTGAAGA
1 CATCCAATCTCTTACCCCGATCATG--GGGCAGATTGAAAA
* * * *
38115 CA-CCAATCTTTTACCCCGATC-TGGGGCAAATTGCAAC
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAAA
* * * *
38152 CATGCAATCTCTTACCCCGATCACGAGGCAGATTAAAAA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAAA
*
38191 CCATCCAATCTCTTACCCCGATCATGGGGTAGATTGAAAA
1 -CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAAA
*
38231 CA-CCAATCTCTTACCCCGATCATGGGGTAGATTGAAAA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAAA
** * *
38269 CA-CCAATCTCTTACTTCGATCATAGGGCAAATTGAAAA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAAA
* * * *
38307 CCATTCAATCTCTTACCCCGATCATGAGGTAGATTGAAAGC
1 -CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAA-A
* *
38348 CATCCAATCTCTTACCCCGATCATGAGGCAGATTAAAAA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAAA
* * * *
38387 TCATCCAATCTCTTACCTCGATCATAGGACATATTGAAAA
1 -CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAAA
* *
38427 CCATCCAATTTCTTACCCCTATCATGGGGCAGATTGAAAA
1 -CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAAA
38467 CCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAACCA
1 -CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAA--A
*
38509 TCATCCAATCTTTTACC
1 -CATCCAATCTCTTACC
38526 TTTAAACCAA
Statistics
Matches: 645, Mismatches: 124, Indels: 54
0.78 0.15 0.07
Matches are distributed among these distances:
35 2 0.00
37 37 0.06
38 217 0.34
39 80 0.12
40 291 0.45
41 2 0.00
42 16 0.02
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (39 bp):
CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAAA
Found at i:37914 original size:78 final size:78
Alignment explanation
Indices: 37772--38501 Score: 443
Period size: 78 Copynumber: 9.4 Consensus size: 78
37762 CGCAACCATC
* * * * * * *
37772 CAATCTCTTACCTTGATCATGGGGCAGATTGAA-A-ACACCAAACTCTTGCCCCGATCATGGGGC
1 CAATCTCTTACCCTAATCATGAGGCAGATTAAAGACACACCAATCTCTTACCCCGATCATGAGGC
37835 AGATTAAAGAATT
66 AGATTAAAGAATT
* * *
37848 CAATCTCTTACCTTAATCA-GAAGGCAGATTAAAGACACACCAATCTCTTACCTCAATCATGAGG
1 CAATCTCTTACCCTAATCATG-AGGCAGATTAAAGACACACCAATCTCTTACCCCGATCATGAGG
* *
37912 CAGATTAAAGCATC
65 CAGATTAAAGAATT
* * * * *
37926 CAATCTCTTACCTTAATCA-GAAAGCAGATTAAAGACAAACCAATCTCTTACCTCAATCATGAGG
1 CAATCTCTTACCCTAATCATG-AGGCAGATTAAAGACACACCAATCTCTTACCCCGATCATGAGG
* * *
37990 CAGATTGAAGCATC
65 CAGATTAAAGAATT
* * ** * * *
38004 CAATCTCTTACCCTAATCA-GATGGCAAATTGAAGACA-TGCAGTCTTTTACCTCGATCATGAGG
1 CAATCTCTTACCCTAATCATGA-GGCAGATTAAAGACACACCAATCTCTTACCCCGATCATGAGG
* * *
38067 CAAATTGAAGCATT
65 CAGATTAAAGAATT
* * * * *
38081 CAATCT-TTACACTAAT--TGAAAGGTAGATTGAAG--ACACCAATCTTTTACCCCGATC-TGGG
1 CAATCTCTTACCCTAATCATG--AGGCAGATTAAAGACACACCAATCTCTTACCCCGATCATGAG
* * ** *
38140 GCAAATTGCAACCATG
64 GCAGATT-AAAGAATT
** * * *
38156 CAATCTCTTACCCCGATCACGAGGCAGATTAAAAAC-CATCCAATCTCTTACCCCGATCATGGGG
1 CAATCTCTTACCCTAATCATGAGGCAGATTAAAGACACA-CCAATCTCTTACCCCGATCATGAGG
* *
38220 TAGATTGAAA-ACA-C
65 CAGATT-AAAGA-ATT
** * * * **
38234 CAATCTCTTACCCCGATCATGGGGTAGATTGAA-A-ACACCAATCTCTTACTTCGATCAT-AGGG
1 CAATCTCTTACCCTAATCATGAGGCAGATTAAAGACACACCAATCTCTTACCCCGATCATGA-GG
*
38296 CAAATTGAAA-ACCATT
65 CAGATT-AAAGA--ATT
** *
38312 CAATCTCTTACCCCGATCATGAGGTAGATTGAAAG-C-CATCCAATCTCTTACCCCGATCATGAG
1 CAATCTCTTACCCTAATCATGAGGCAGATT-AAAGACACA-CCAATCTCTTACCCCGATCATGAG
38375 GCAGATTAAA-AATCAT
64 GCAGATTAAAGAAT--T
* * * *
38391 CCAATCTCTTA-CCTCGATCAT-AGGACATATTGAAA-AC-CATCCAATTTCTTACCCCTATCAT
1 -CAATCTCTTACCCT-AATCATGAGG-CAGATT-AAAGACACA-CCAATCTCTTACCCCGATCAT
* *
38452 GGGGCAGATTGAAA-ACCATC
61 GAGGCAGATT-AAAGA--ATT
** *
38472 CAATCTCTTACCCCGATCATGGGGCAGATT
1 CAATCTCTTACCCTAATCATGAGGCAGATT
38502 GAAACCATCA
Statistics
Matches: 544, Mismatches: 73, Indels: 70
0.79 0.11 0.10
Matches are distributed among these distances:
74 11 0.02
75 29 0.05
76 94 0.17
77 51 0.09
78 218 0.40
79 27 0.05
80 103 0.19
81 9 0.02
83 2 0.00
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.26
Consensus pattern (78 bp):
CAATCTCTTACCCTAATCATGAGGCAGATTAAAGACACACCAATCTCTTACCCCGATCATGAGGC
AGATTAAAGAATT
Found at i:39106 original size:24 final size:23
Alignment explanation
Indices: 39078--39136 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
39068 CAAGTGATCC
39078 AAACCCAAAACCTAAACAAGACCA
1 AAACCCAAAACCT-AACAAGACCA
* *
39102 AAACCCAATTACCTAACAAGCCCA
1 AAACCCAA-AACCTAACAAGACCA
39126 ATAAGCCCAAA
1 A-AA-CCCAAA
39137 TACCCAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 18 0.62
25 6 0.21
26 5 0.17
ACGTcount: A:0.53, C:0.34, G:0.05, T:0.08
Consensus pattern (23 bp):
AAACCCAAAACCTAACAAGACCA
Found at i:45142 original size:21 final size:20
Alignment explanation
Indices: 45117--45166 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
45107 GAATTCATGT
45117 TAATTTAAATTTAGTATTTAA
1 TAATTTAAATTTAGTA-TTAA
**
45138 TAATTTAATATTTTTTATTAA
1 TAATTTAA-ATTTAGTATTAA
45159 -AATTTAAA
1 TAATTTAAA
45167 CATAGACAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 1 0.04
20 7 0.27
21 12 0.46
22 6 0.23
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
TAATTTAAATTTAGTATTAA
Found at i:45506 original size:26 final size:26
Alignment explanation
Indices: 45449--45513 Score: 66
Period size: 26 Copynumber: 2.5 Consensus size: 26
45439 TAATAATTTT
45449 TTAAAAATTTAAAATTATAAAAATAG
1 TTAAAAATTTAAAATTATAAAAATAG
45475 TT-AAAATTTATAAA-TA-AAAGAATTA-
1 TTAAAAATTTA-AAATTATAAA-AA-TAG
45500 TTAAAAATTCTAAA
1 TTAAAAATT-TAAA
45514 TATATTATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
24 3 0.09
25 14 0.41
26 15 0.44
27 2 0.06
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (26 bp):
TTAAAAATTTAAAATTATAAAAATAG
Found at i:46505 original size:10 final size:10
Alignment explanation
Indices: 46492--46555 Score: 53
Period size: 10 Copynumber: 6.4 Consensus size: 10
46482 TTTAAAGAAA
46492 TTTATATATT
1 TTTATATATT
46502 TTTATATATT
1 TTTATATATT
*
46512 TAT-TA-ATT
1 TTTATATATT
*
46520 TATATATTATAT
1 TTTATA-TAT-T
46532 TTTATGA-ATT
1 TTTAT-ATATT
*
46542 TTTGTATATT
1 TTTATATATT
46552 TTTA
1 TTTA
46556 AAATATTAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
8 6 0.14
9 5 0.11
10 23 0.52
11 4 0.09
12 5 0.11
13 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (10 bp):
TTTATATATT
Found at i:46621 original size:23 final size:23
Alignment explanation
Indices: 46595--46639 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
46585 TGTATATATA
*
46595 TTATATTTTCTA-ATTTTCTAAAT
1 TTATATTTTATATATTTT-TAAAT
46618 TTATATTTTATATATTTTTAAA
1 TTATATTTTATATATTTTTAAA
46640 ATAATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (23 bp):
TTATATTTTATATATTTTTAAAT
Found at i:48053 original size:30 final size:30
Alignment explanation
Indices: 48019--48109 Score: 87
Period size: 29 Copynumber: 3.0 Consensus size: 30
48009 ATAATTTACA
*
48019 AAAATTGAATTAAATCAAAATTTCATGTAT
1 AAAATTGAATTAAATCAAAAGTTCATGTAT
* **
48049 AAAATTGCACAAAATC-AAAGTTCATGTAT
1 AAAATTGAATTAAATCAAAAGTTCATGTAT
* * *
48078 ACAATTGCACATTAAATC-ATAGTTGATGTAT
1 AAAATTG-A-ATTAAATCAAAAGTTCATGTAT
48109 A
1 A
48110 GTTTTGATAT
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
29 18 0.37
30 13 0.27
31 18 0.37
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (30 bp):
AAAATTGAATTAAATCAAAAGTTCATGTAT
Found at i:48083 original size:29 final size:30
Alignment explanation
Indices: 48029--48109 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
48019 AAAATTGAAT
*
48029 TAAATCAAAATTTCATGTATAAAATTGCACA
1 TAAATC-AAAGTTCATGTATAAAATTGCACA
*
48060 -AAATCAAAGTTCATGTATACAATTGCACA
1 TAAATCAAAGTTCATGTATAAAATTGCACA
* *
48089 TTAAATCATAGTTGATGTATA
1 -TAAATCAAAGTTCATGTATA
48110 GTTTTGATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
29 22 0.50
30 5 0.11
31 17 0.39
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.33
Consensus pattern (30 bp):
TAAATCAAAGTTCATGTATAAAATTGCACA
Found at i:48539 original size:3 final size:3
Alignment explanation
Indices: 48531--48574 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
48521 ACTAAAACAA
48531 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
48575 AATTAATGTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:50226 original size:36 final size:36
Alignment explanation
Indices: 50178--50254 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
50168 ATATAATCAG
* **
50178 TCACATGACATGATGAACATACCCACATATTTTCTT
1 TCACATGACATGAAGAACATACCCACATATTCACTT
*
50214 TCACATGGCATGAAGAACATACCCACATATTCACTT
1 TCACATGACATGAAGAACATACCCACATATTCACTT
50250 TCACA
1 TCACA
50255 ACAGTCATCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.35, C:0.27, G:0.09, T:0.29
Consensus pattern (36 bp):
TCACATGACATGAAGAACATACCCACATATTCACTT
Found at i:50350 original size:23 final size:23
Alignment explanation
Indices: 50324--50584 Score: 294
Period size: 23 Copynumber: 11.3 Consensus size: 23
50314 ATCTTAACTC
* *
50324 TTTAAGCACAAATCACATTAATA
1 TTTAAGCATAAATCATATTAATA
* *
50347 TTTAATCATAAACCATATTAATA
1 TTTAAGCATAAATCATATTAATA
* *
50370 TTTAAGCATAAATTATATTAGTA
1 TTTAAGCATAAATCATATTAATA
50393 TTTAAGCATAAATCACT-TTAATA
1 TTTAAGCATAAATCA-TATTAATA
* *
50416 TTTGAGCACAAATCATATTAATA
1 TTTAAGCATAAATCATATTAATA
* *
50439 TTTAAGCATAAATCACATTAGTA
1 TTTAAGCATAAATCATATTAATA
50462 TTTAAGCATAAATCACT-TTAATA
1 TTTAAGCATAAATCA-TATTAATA
* *
50485 TTTGAGCACAAATCATATTAATA
1 TTTAAGCATAAATCATATTAATA
* **
50508 TTTAAGCACAAATCACCTTACA-A
1 TTTAAGCATAAATCATATTA-ATA
* *
50531 TTTAAGTACAAATCATATTAATA
1 TTTAAGCATAAATCATATTAATA
* * *
50554 TTTAATCATAAAACATTTTAATA
1 TTTAAGCATAAATCATATTAATA
50577 TTTAAGCA
1 TTTAAGCA
50585 GATATAAGAA
Statistics
Matches: 200, Mismatches: 32, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
22 3 0.01
23 195 0.98
24 2 0.01
ACGTcount: A:0.45, C:0.13, G:0.05, T:0.37
Consensus pattern (23 bp):
TTTAAGCATAAATCATATTAATA
Found at i:50435 original size:69 final size:69
Alignment explanation
Indices: 50324--50584 Score: 335
Period size: 69 Copynumber: 3.8 Consensus size: 69
50314 ATCTTAACTC
* * * * * *
50324 TTTAAGCACAAATCACATTAATATTTAATCATAAACCATATTAATATTTAAGCATAAATTATATT
1 TTTAAGCACAAATCACTTTAATATTTAAGCACAAATCATATTAATATTTAAGCATAAATCACATT
50389 AGTA
66 AGTA
* *
50393 TTTAAGCATAAATCACTTTAATATTTGAGCACAAATCATATTAATATTTAAGCATAAATCACATT
1 TTTAAGCACAAATCACTTTAATATTTAAGCACAAATCATATTAATATTTAAGCATAAATCACATT
50458 AGTA
66 AGTA
* * * *
50462 TTTAAGCATAAATCACTTTAATATTTGAGCACAAATCATATTAATATTTAAGCACAAATCACCTT
1 TTTAAGCACAAATCACTTTAATATTTAAGCACAAATCATATTAATATTTAAGCATAAATCACATT
**
50527 ACAA
66 AGTA
* * * * *
50531 TTTAAGTACAAATCA-TATTAATATTTAATCATAAAACATTTTAATATTTAAGCA
1 TTTAAGCACAAATCACT-TTAATATTTAAGCACAAATCATATTAATATTTAAGCA
50585 GATATAAGAA
Statistics
Matches: 172, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
68 1 0.01
69 171 0.99
ACGTcount: A:0.45, C:0.13, G:0.05, T:0.37
Consensus pattern (69 bp):
TTTAAGCACAAATCACTTTAATATTTAAGCACAAATCATATTAATATTTAAGCATAAATCACATT
AGTA
Found at i:54807 original size:23 final size:23
Alignment explanation
Indices: 54772--54937 Score: 210
Period size: 23 Copynumber: 7.2 Consensus size: 23
54762 ATCTTAATTC
* *
54772 TTTAAGCACAAATCACATTAATA
1 TTTAATCATAAATCACATTAATA
* *
54795 TTTAATTATAAATCATATTAATA
1 TTTAATCATAAATCACATTAATA
* *
54818 TTTAAGCACAAATCACATTAATA
1 TTTAATCATAAATCACATTAATA
* *
54841 TTTAAGCACAAATCACATTAATA
1 TTTAATCATAAATCACATTAATA
54864 TTTAATCACT-AATCACATTAATA
1 TTTAATCA-TAAATCACATTAATA
54887 TTTAATCACT-AATCACATTAATA
1 TTTAATCA-TAAATCACATTAATA
* *
54910 TTTAATCATAAATTATATTAATA
1 TTTAATCATAAATCACATTAATA
54933 TTTAA
1 TTTAA
54938 GCACGAATAT
Statistics
Matches: 129, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
22 1 0.01
23 128 0.99
ACGTcount: A:0.46, C:0.13, G:0.02, T:0.39
Consensus pattern (23 bp):
TTTAATCATAAATCACATTAATA
Found at i:54847 original size:69 final size:69
Alignment explanation
Indices: 54772--54937 Score: 244
Period size: 69 Copynumber: 2.4 Consensus size: 69
54762 ATCTTAATTC
* *
54772 TTTAAGCACAAATCACATTAATATTTAATTA-TAAATCATATTAATATTTAAGCACAAATCACAT
1 TTTAAGCACAAATCACATTAATATTTAATCACT-AATCACATTAATATTTAAGCACAAATCACAT
54836 TAATA
65 TAATA
* *
54841 TTTAAGCACAAATCACATTAATATTTAATCACTAATCACATTAATATTTAATCACTAATCACATT
1 TTTAAGCACAAATCACATTAATATTTAATCACTAATCACATTAATATTTAAGCACAAATCACATT
54906 AATA
66 AATA
* * * *
54910 TTTAATCATAAATTATATTAATATTTAA
1 TTTAAGCACAAATCACATTAATATTTAA
54938 GCACGAATAT
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
69 87 0.99
70 1 0.01
ACGTcount: A:0.46, C:0.13, G:0.02, T:0.39
Consensus pattern (69 bp):
TTTAAGCACAAATCACATTAATATTTAATCACTAATCACATTAATATTTAAGCACAAATCACATT
AATA
Found at i:65005 original size:11 final size:12
Alignment explanation
Indices: 64985--65010 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
64975 CTCATATCTG
64985 TTTTCTTTTTTT
1 TTTTCTTTTTTT
64997 TTTTCTTTTTTT
1 TTTTCTTTTTTT
65009 TT
1 TT
65011 CAAAACCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTCTTTTTTT
Found at i:66421 original size:22 final size:23
Alignment explanation
Indices: 66387--66432 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
66377 TGTCATTTAC
*
66387 TTTTTTAACAAATAATTTTAATT
1 TTTTTTAACAAATAATTATAATT
66410 TTTTTTAA-AAATAATTATAATT
1 TTTTTTAACAAATAATTATAATT
66432 T
1 T
66433 AAATTCTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTTTTAACAAATAATTATAATT
Found at i:66464 original size:18 final size:17
Alignment explanation
Indices: 66400--66464 Score: 60
Period size: 18 Copynumber: 3.8 Consensus size: 17
66390 TTTAACAAAT
* *
66400 AATTTTAATTTTTTTTA
1 AATTATAATTATTTTTA
* *
66417 AA-AATAATTATAATTTA
1 AATTATAATTAT-TTTTA
*
66434 AATTCTAATTATTTTTA
1 AATTATAATTATTTTTA
66451 AATGTATAATTATT
1 AAT-TATAATTATT
66465 ACAACTTAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
16 6 0.16
17 15 0.41
18 16 0.43
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (17 bp):
AATTATAATTATTTTTA
Found at i:66479 original size:44 final size:44
Alignment explanation
Indices: 66431--66514 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
66421 TAATTATAAT
* *
66431 TTAAATTCTAATTATTTTTAAATGTATAATTATTACAACTTAAA
1 TTAAATTATAATTATTTTTAAATGTATAATTATCACAACTTAAA
*
66475 TTAAATTATAATTATTTTTAAATTTATAATTATCACAACT
1 TTAAATTATAATTATTTTTAAATGTATAATTATCACAACT
66515 GCTATTTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.43, C:0.07, G:0.01, T:0.49
Consensus pattern (44 bp):
TTAAATTATAATTATTTTTAAATGTATAATTATCACAACTTAAA
Found at i:66855 original size:17 final size:16
Alignment explanation
Indices: 66798--66855 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 16
66788 AACATCAACG
66798 AATATTTTTTAAAAAT
1 AATATTTTTTAAAAAT
**
66814 AA-AAATTTTAGAAAAT
1 AATATTTTTTA-AAAAT
66830 AAATCATTTTTTAAAAAT
1 -AAT-ATTTTTTAAAAAT
66848 AAGTATTT
1 AA-TATTT
66856 AAATTTATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
15 6 0.18
16 7 0.21
17 8 0.24
18 6 0.18
19 6 0.18
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (16 bp):
AATATTTTTTAAAAAT
Found at i:66927 original size:20 final size:20
Alignment explanation
Indices: 66904--66946 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
66894 AAAATTATTC
*
66904 AAAAATTATTAGAGTTAT-A
1 AAAAAATATTAGAGTTATCA
*
66923 AAAAAATATTAGATTTATCA
1 AAAAAATATTAGAGTTATCA
66943 AAAA
1 AAAA
66947 TGAAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (20 bp):
AAAAAATATTAGAGTTATCA
Found at i:67089 original size:11 final size:11
Alignment explanation
Indices: 67041--67102 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
67031 GTTTTAACAA
*
67041 TTTTTACAAATT
1 TTTTTATAAA-T
*
67053 TTTATTATTAAT
1 TTT-TTATAAAT
* *
67065 TATTAAT-AAT
1 TTTTTATAAAT
*
67075 TTTTTATATAT
1 TTTTTATAAAT
67086 TTTTTATAAAT
1 TTTTTATAAAT
67097 TTTTTA
1 TTTTTA
67103 AGTTTTAGTA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
10 8 0.20
11 21 0.52
12 6 0.15
13 5 0.12
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTTTATAAAT
Found at i:67526 original size:16 final size:16
Alignment explanation
Indices: 67505--67556 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
67495 GGTTCACTGG
*
67505 AATTGAATAAGGTTGT
1 AATTGAATAAGGATGT
67521 AATTGAAT-AGAGATGT
1 AATTGAATAAG-GATGT
* * *
67537 AATGGAATAAAGCTGT
1 AATTGAATAAGGATGT
67553 AATT
1 AATT
67557 AGTAATTCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 2 0.07
16 26 0.90
17 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.23, T:0.33
Consensus pattern (16 bp):
AATTGAATAAGGATGT
Found at i:68962 original size:23 final size:23
Alignment explanation
Indices: 68929--69001 Score: 103
Period size: 23 Copynumber: 3.2 Consensus size: 23
68919 GGTCAACAGC
*
68929 TCGGTTTGATCAAAGTTAATAGT
1 TCGGTTCGATCAAAGTTAATAGT
*
68952 TCGGTTCGATCAAAGTCAATAGT
1 TCGGTTCGATCAAAGTTAATAGT
*
68975 TCGGTTCGGTCAAAGTTAA-AGGT
1 TCGGTTCGATCAAAGTTAATA-GT
68998 TCGG
1 TCGG
69002 GTCAAGTTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 1 0.02
23 44 0.98
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (23 bp):
TCGGTTCGATCAAAGTTAATAGT
Found at i:71809 original size:30 final size:29
Alignment explanation
Indices: 71768--72181 Score: 359
Period size: 30 Copynumber: 14.0 Consensus size: 29
71758 TGGAAACTCG
71768 GGGGTAAAAATGGAATTTTTGGAAGTTTT
1 GGGGTAAAAATGGAATTTTTGGAAGTTTT
* *
71797 GGGGTAAAAAATGGGATTTTTAGAAG-TTT
1 GGGGT-AAAAATGGAATTTTTGGAAGTTTT
* *
71826 GAGGGAAAAAATGGAATTTTTGAAAGTTTT
1 G-GGGTAAAAATGGAATTTTTGGAAGTTTT
* * *
71856 GGGGTCAAAAATGGGATTTTTGAAAGTTTA
1 GGGGT-AAAAATGGAATTTTTGGAAGTTTT
*
71886 GGGGTAAAAATGGAATTTTTGGAAGTTTC
1 GGGGTAAAAATGGAATTTTTGGAAGTTTT
* * * * *
71915 GTGGTTAAAAAT-AAGATTTTCGAAAG-TTC
1 G-GGGTAAAAATGGA-ATTTTTGGAAGTTTT
* * *
71944 GAGGGTAAAAATGAAATTTTTAGAAGTTTC
1 G-GGGTAAAAATGGAATTTTTGGAAGTTTT
* * * **
71974 GACGTTAAAAATGGGATTTTTGGAAGTTCG
1 G-GGGTAAAAATGGAATTTTTGGAAGTTTT
* **
72004 GGGGTAAAAATGAAATTTTTAAAAGTTTT
1 GGGGTAAAAATGGAATTTTTGGAAGTTTT
* *
72033 GAGGTCAAAAATGGGATTTTTGGAAGTTTT
1 GGGGT-AAAAATGGAATTTTTGGAAGTTTT
* *
72063 GGGGTCAAAAATGGGATTTTTGGAAG-TTC
1 GGGGT-AAAAATGGAATTTTTGGAAGTTTT
* * **
72092 GAGGGTCAAAAATGGGATTTTTAGAAGTTCG
1 G-GGGT-AAAAATGGAATTTTTGGAAGTTTT
* ** *
72123 GGGGTTAAAAATGGGATTTTTTAAAGTTTG
1 GGGG-TAAAAATGGAATTTTTGGAAGTTTT
72153 GGGGTAAAAATGGAATTTTTGGATAGTTT
1 GGGGTAAAAATGGAATTTTTGGA-AGTTT
72182 AGGGACCTCT
Statistics
Matches: 320, Mismatches: 52, Indels: 25
0.81 0.13 0.06
Matches are distributed among these distances:
29 116 0.36
30 201 0.63
31 3 0.01
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.35
Consensus pattern (29 bp):
GGGGTAAAAATGGAATTTTTGGAAGTTTT
Found at i:71853 original size:59 final size:59
Alignment explanation
Indices: 71726--72185 Score: 439
Period size: 59 Copynumber: 7.8 Consensus size: 59
71716 AAAAGGGTAA
* * * ** * *
71726 TTTTGAGAGTTTCGAGGTCGAAAATGGGA-TTTTGGAAACTCGGGGGTAAAAATGGAAT
1 TTTTGAAAGTTTCGGGGTCAAAAATGGGATTTTTGGAAGTTTGAGGGTAAAAATGGAAT
* * * * *
71784 TTTTGGAAGTTTTGGGGTAAAAAATGGGATTTTTAGAAGTTTGAGGGAAAAAATGGAAT
1 TTTTGAAAGTTTCGGGGTCAAAAATGGGATTTTTGGAAGTTTGAGGGTAAAAATGGAAT
* *
71843 TTTTGAAAGTTTTGGGGTCAAAAATGGGATTTTTGAAAGTTT-AGGGGTAAAAATGGAAT
1 TTTTGAAAGTTTCGGGGTCAAAAATGGGATTTTTGGAAGTTTGA-GGGTAAAAATGGAAT
* * * ** * * * *
71902 TTTTGGAAGTTTCGTGGTTAAAAATAAGATTTTCGAAAGTTCGAGGGTAAAAATGAAAT
1 TTTTGAAAGTTTCGGGGTCAAAAATGGGATTTTTGGAAGTTTGAGGGTAAAAATGGAAT
** * * * *
71961 TTTT-AGAAGTTTCGACGTTAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATGAAAT
1 TTTTGA-AAGTTTCGGGGTCAAAAATGGGATTTTTGGAAGTTTGAGGGTAAAAATGGAAT
* * * *
72020 TTTTAAAAGTTTTGAGGTCAAAAATGGGATTTTTGGAAGTTTTG-GGGTCAAAAATGGGAT
1 TTTTGAAAGTTTCGGGGTCAAAAATGGGATTTTTGGAAG-TTTGAGGGT-AAAAATGGAAT
* * * * *
72080 TTTTGGAAG-TTCGAGGGTCAAAAATGGGATTTTTAGAAGTTCGGGGGTTAAAAATGGGAT
1 TTTTGAAAGTTTCG-GGGTCAAAAATGGGATTTTTGGAAGTTTGAGGG-TAAAAATGGAAT
* * *
72140 TTTTTAAAGTTTGGGGGT-AAAAATGGAATTTTTGGATAGTTT-AGGG
1 TTTTGAAAGTTTCGGGGTCAAAAATGGGATTTTTGGA-AGTTTGAGGG
72186 ACCTCTAAGG
Statistics
Matches: 337, Mismatches: 53, Indels: 23
0.82 0.13 0.06
Matches are distributed among these distances:
58 24 0.07
59 236 0.70
60 73 0.22
61 4 0.01
ACGTcount: A:0.33, C:0.03, G:0.29, T:0.34
Consensus pattern (59 bp):
TTTTGAAAGTTTCGGGGTCAAAAATGGGATTTTTGGAAGTTTGAGGGTAAAAATGGAAT
Found at i:71883 original size:89 final size:87
Alignment explanation
Indices: 71768--72186 Score: 407
Period size: 89 Copynumber: 4.7 Consensus size: 87
71758 TGGAAACTCG
* * *
71768 GGGGTAAAAATGGAATTTTTGGAAGTTTTGGGGTAAAAAATGGGATTTTTAGAAGTTTGAGGGAA
1 GGGGTAAAAATGGGATTTTTGAAAGTTTTGGGGT-AAAAATGGGATTTTTGGAAGTTTGAGGGAA
*
71833 AAAATGGAATTTTTGAAAGTTTT
65 AAAATGAAATTTTTGAAAGTTTT
* * * **
71856 GGGGTCAAAAATGGGATTTTTGAAAGTTTAGGGGTAAAAATGGAATTTTTGGAAGTTTCGTGGTT
1 GGGGT-AAAAATGGGATTTTTGAAAGTTTTGGGGTAAAAATGGGATTTTTGGAAGTTT-GAGGGA
* *
71921 AAAAAT-AAGATTTTCGAAAG-TTC
64 AAAAATGAA-ATTTTTGAAAGTTTT
** * * * * *
71944 GAGGGTAAAAATGAAATTTTT-AGAAGTTTCGACGTTAAAAATGGGATTTTTGGAAGTTCGGGGG
1 G-GGGTAAAAATGGGATTTTTGA-AAGTTTTG-GGGTAAAAATGGGATTTTTGGAAGTTTGAGGG
* *
72008 TAAAAATGAAATTTTTAAAAGTTTT
63 AAAAAATGAAATTTTTGAAAGTTTT
* * *
72033 GAGGTCAAAAATGGGATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGT
1 GGGGT-AAAAATGGGATTTTTGAAAGTTTTGGGGT-AAAAATGGGATTTTTGGAAGTTTGAGGG-
* ** **
72098 CAAAAATGGGATTTTT-AGAAGTTCG
63 AAAAAATGAAATTTTTGA-AAGTTTT
* * *
72123 GGGGTTAAAAATGGGATTTTTTAAAGTTTGGGGGTAAAAATGGAATTTTTGGATAGTTT-AGGGA
1 GGGG-TAAAAATGGGATTTTTGAAAGTTTTGGGGTAAAAATGGGATTTTTGGA-AGTTTGAGGGA
72187 CCTCTAAGGC
Statistics
Matches: 273, Mismatches: 43, Indels: 30
0.79 0.12 0.09
Matches are distributed among these distances:
87 1 0.00
88 74 0.27
89 146 0.53
90 51 0.19
91 1 0.00
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.34
Consensus pattern (87 bp):
GGGGTAAAAATGGGATTTTTGAAAGTTTTGGGGTAAAAATGGGATTTTTGGAAGTTTGAGGGAAA
AAATGAAATTTTTGAAAGTTTT
Found at i:72973 original size:11 final size:11
Alignment explanation
Indices: 72949--72983 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
72939 AAGTACTCTC
*
72949 TTTTCTTTCCTT
1 TTTTCTTT-TTT
72961 TTTTCTTTTTT
1 TTTTCTTTTTT
72972 TTTTCTTTTTT
1 TTTTCTTTTTT
72983 T
1 T
72984 AAGCAACGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 14 0.64
12 8 0.36
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:74037 original size:17 final size:17
Alignment explanation
Indices: 74022--74116 Score: 82
Period size: 17 Copynumber: 5.5 Consensus size: 17
74012 TTAAAATTTT
74022 ATTTCAAAATAAATTTAA
1 ATTT-AAAATAAATTTAA
74040 ATTTAAAATAAATTTAA
1 ATTTAAAATAAATTTAA
* ** **
74057 ACTCCAAATAAGCTTAA
1 ATTTAAAATAAATTTAA
*
74074 ATTTACAATAAATTTAA
1 ATTTAAAATAAATTTAA
* * * *
74091 ACTTAAATTGAATTAAA
1 ATTTAAAATAAATTTAA
*
74108 AATTAAAAT
1 ATTTAAAAT
74117 CTAAAATTGG
Statistics
Matches: 59, Mismatches: 18, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
17 55 0.93
18 4 0.07
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (17 bp):
ATTTAAAATAAATTTAA
Found at i:74066 original size:34 final size:34
Alignment explanation
Indices: 74028--74093 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
74018 TTTTATTTCA
*
74028 AAATAAATTTAAATTTAAAATAAATTTAAACTCC
1 AAATAAACTTAAATTTAAAATAAATTTAAACTCC
* *
74062 AAATAAGCTTAAATTTACAATAAATTTAAACT
1 AAATAAACTTAAATTTAAAATAAATTTAAACT
74094 TAAATTGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.35
Consensus pattern (34 bp):
AAATAAACTTAAATTTAAAATAAATTTAAACTCC
Found at i:74830 original size:188 final size:187
Alignment explanation
Indices: 74438--75139 Score: 681
Period size: 205 Copynumber: 3.5 Consensus size: 187
74428 TTTGTCGTTG
* * * *
74438 ATTTGGTCTACTTCTTAGTA-CTTCATCAGGAAGCTAATCATTTTATTGCTTCGACCTACTTCTC
1 ATTTGGTCCACTTCTCAGTATC-TCATCAGGAAGCTAA-CCTTTTATTGCTTCG-CCTGC-T-TC
* * *
74502 AATATCTTATCAGGAAGCTGGGATTCGAAGGTTTGCTCACATCGGGCCCTACGTTGGTATATTTC
61 ----TCTTATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATC--G----ACGTTGGTATACTTC
* * * * *
74567 TTTATATCTCATCAAGAAGATAACCGTCCT-GTTTGTTTCAATCCGCTTCTCTGTACCTCGTCAG
116 TCTATATCTCATCAGGAAGATGACCG-CCTCGTTTGTTTCAATCCGCTTCTCTGTAACTCATCAG
74631 GAAGACGA
180 GAAGACGA
* * *
74639 ATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGTTAATCTTTTTATTGCTTCGCCTTGCTTCTCT
1 ATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAA-CCTTTTATTGCTTCGCC-TGCTTCTCT
* * * * *
74704 TATCAGGAAGCTGGGGTTCGAAGATTTGTTCGCATTGA-GTTGGTATACTTCTCTATAACTCCTC
64 TATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGACGTTGGTATACTTCTCTATATCTCATC
** *
74768 AGGAAGATGACCGCCTCACTTGTTTCAATCCACTTCTCTGTAACTCATCAGGAAGACGA
129 AGGAAGATGACCGCCTCGTTTGTTTCAATCCGCTTCTCTGTAACTCATCAGGAAGACGA
* *
74827 ATTTGGTCCACTTCTTAGTATCTCGTCAGGAAGCTAACCTTTTATTGCTTCGACCTGCTTCCCAG
1 ATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTATTGCTTCG-CCTGCTT--C--
* * *
74892 TATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGACTTGGTCTTC
61 --TCTTATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGA-CGTTGG--T-A--T--ACTTC
* * * *
74957 TTCTCAGTATCTCATCAGGAAGATGACTGCGTCGTTTGTTTCAATCCGCTTCTCTGTATCTTATC
116 -TCT-A-TATCTCATCAGGAAGATGACCGCCTCGTTTGTTTCAATCCGCTTCTCTGTAACTCATC
75022 AGGAAGACGA
178 AGGAAGACGA
*
75032 ATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTATTGCTTCGACATGCTTCTCAG
1 ATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTATTGCTTCG-CCTGCTTCTC--
* *
75097 TATCTCATCAGGAAGCTGGGATTCGAAGATTTACTCACATCGA
63 --T-T-ATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGA
75140 GCGTGGGTTT
Statistics
Matches: 425, Mismatches: 48, Indels: 52
0.81 0.09 0.10
Matches are distributed among these distances:
187 22 0.05
188 105 0.25
189 2 0.00
193 38 0.09
195 38 0.09
197 1 0.00
198 1 0.00
199 4 0.01
200 4 0.01
201 48 0.11
202 5 0.01
203 5 0.01
204 1 0.00
205 151 0.36
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.35
Consensus pattern (187 bp):
ATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTATTGCTTCGCCTGCTTCTCTTA
TCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGACGTTGGTATACTTCTCTATATCTCATCAG
GAAGATGACCGCCTCGTTTGTTTCAATCCGCTTCTCTGTAACTCATCAGGAAGACGA
Found at i:75124 original size:205 final size:205
Alignment explanation
Indices: 74766--75200 Score: 726
Period size: 205 Copynumber: 2.1 Consensus size: 205
74756 CTATAACTCC
* * *
74766 TCAGGAAGATGACCGCCTCACTTGTTTCAATCCACTTCTCTGTAACTCATCAGGAAGACGAATTT
1 TCAGGAAGATGACTGCGTCGCTTGTTTCAATCCACTTCTCTGTAACTCATCAGGAAGACGAATTT
* * *
74831 GGTCCACTTCTTAGTATCTCGTCAGGAAGCTAACCTTTTATTGCTTCGACCTGCTTCCCAGTATC
66 GGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTATTGCTTCGACATGCTTCCCAGTATC
* *
74896 TCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGACTTGGTCTTCTTCT
131 TCATCAGGAAGCTGGGATTCGAAGATTTACTCACATCGAGCGTGGGTTTGACTTGGTCTTCTTCT
74961 CAGTATCTCA
196 CAGTATCTCA
* * * *
74971 TCAGGAAGATGACTGCGTCGTTTGTTTCAATCCGCTTCTCTGTATCTTATCAGGAAGACGAATTT
1 TCAGGAAGATGACTGCGTCGCTTGTTTCAATCCACTTCTCTGTAACTCATCAGGAAGACGAATTT
*
75036 GGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTATTGCTTCGACATGCTTCTCAGTATC
66 GGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTATTGCTTCGACATGCTTCCCAGTATC
75101 TCATCAGGAAGCTGGGATTCGAAGATTTACTCACATCGAGCGTGGGTTTGACTTGGTCTTCTTCT
131 TCATCAGGAAGCTGGGATTCGAAGATTTACTCACATCGAGCGTGGGTTTGACTTGGTCTTCTTCT
*
75166 CGGTATCTCA
196 CAGTATCTCA
* *
75176 TCAAGAAGATGATTGCGTCGCTTGT
1 TCAGGAAGATGACTGCGTCGCTTGT
75201 GGGTAATCGT
Statistics
Matches: 213, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
205 213 1.00
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.34
Consensus pattern (205 bp):
TCAGGAAGATGACTGCGTCGCTTGTTTCAATCCACTTCTCTGTAACTCATCAGGAAGACGAATTT
GGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTATTGCTTCGACATGCTTCCCAGTATC
TCATCAGGAAGCTGGGATTCGAAGATTTACTCACATCGAGCGTGGGTTTGACTTGGTCTTCTTCT
CAGTATCTCA
Found at i:75726 original size:27 final size:27
Alignment explanation
Indices: 75688--75747 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
75678 TCCAAAATTC
* *
75688 TATTAAGAAGAGGATCAAAGGAAACAA
1 TATTAAAAAGAGGATCAAAGAAAACAA
75715 TATTAAAAAGAGGATCAAAGAAAACAA
1 TATTAAAAAGAGGATCAAAGAAAACAA
75742 TCATTA
1 T-ATTA
75748 GTTGAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 26 0.87
28 4 0.13
ACGTcount: A:0.57, C:0.08, G:0.17, T:0.18
Consensus pattern (27 bp):
TATTAAAAAGAGGATCAAAGAAAACAA
Done.