Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 154 of 210
Found at i:46702916 original size:11 final size:11
Alignment explanation
Indices: 46702852--46702917 Score: 57
Period size: 11 Copynumber: 5.9 Consensus size: 11
46702842 ACACTAACCC
46702852 TCTCTCAAATT
1 TCTCTCAAATT
46702863 TCCTCTC-AATT
1 T-CTCTCAAATT
46702874 TCCTCTC-AATT
1 T-CTCTCAAATT
*
46702885 CGCTCTCAAATT
1 -TCTCTCAAATT
*
46702897 CCT-TCCAAATT
1 TCTCT-CAAATT
46702908 TCTCTCAAAT
1 TCTCTCAAAT
46702918 CGATTTTTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
10 1 0.02
11 36 0.77
12 10 0.21
ACGTcount: A:0.24, C:0.33, G:0.02, T:0.41
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:46704812 original size:18 final size:18
Alignment explanation
Indices: 46704785--46704824 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
46704775 CAGGTGCGTT
* *
46704785 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
46704803 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
46704821 TCCT
1 TCCT
46704825 TTTCCGAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:46705092 original size:21 final size:21
Alignment explanation
Indices: 46705066--46705112 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
46705056 CAACTCCGAC
* *
46705066 AACCAGATGCCCTACCGGAAG
1 AACCAGAAGCCCCACCGGAAG
*
46705087 AACCAGAAGCCCCGCCGGAAG
1 AACCAGAAGCCCCACCGGAAG
46705108 AACCA
1 AACCA
46705113 CAACCGCCGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.36, G:0.23, T:0.04
Consensus pattern (21 bp):
AACCAGAAGCCCCACCGGAAG
Found at i:46705122 original size:21 final size:21
Alignment explanation
Indices: 46705080--46705128 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
46705070 AGATGCCCTA
*
46705080 CCGGAAGAACCAGAAGCCCCG
1 CCGGAAGAACCACAAGCCCCG
46705101 CCGGAAGAACCACAA-CCGCCG
1 CCGGAAGAACCACAAGCC-CCG
*
46705122 CCAGAAG
1 CCGGAAG
46705129 CTGGACAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.35, C:0.39, G:0.27, T:0.00
Consensus pattern (21 bp):
CCGGAAGAACCACAAGCCCCG
Found at i:46705332 original size:16 final size:15
Alignment explanation
Indices: 46705311--46705343 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 15
46705301 AATTTATTAC
46705311 AAATTTATAAATTTAT
1 AAATTTAT-AATTTAT
46705327 AAATTTATAATTTAT
1 AAATTTATAATTTAT
46705342 AA
1 AA
46705344 TTAAATGCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AAATTTATAATTTAT
Found at i:46705345 original size:7 final size:8
Alignment explanation
Indices: 46705311--46705343 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
46705301 AATTTATTAC
46705311 AAATTTAT
1 AAATTTAT
46705319 AAATTTAT
1 AAATTTAT
46705327 AAATTTAT
1 AAATTTAT
46705335 -AATTTAT
1 AAATTTAT
46705342 AA
1 AA
46705344 TTAAATGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
AAATTTAT
Found at i:46705471 original size:43 final size:43
Alignment explanation
Indices: 46705394--46705903 Score: 610
Period size: 43 Copynumber: 12.0 Consensus size: 43
46705384 CTAAAAATCG
* *
46705394 AAACCCT-AACCCTTAAATTAAAAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAAATTAA
* * * *
46705437 AAACCATAAACCCTTAACCTAAACACCCTAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAAATTAA
**
46705480 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAAATTAA
*
46705523 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCTTTAAATTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAAATTAA
* * * *
46705567 AAATCCT-AACCCTCAACTTAAAAACCCTAAACCCTCAATTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAAATTAA
* * * *
46705610 AAACCCTAACCCCTCAACTTAAAAACCCTAACCCATAACTT-A
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAAATTAA
* *
46705652 AAACCCTAACCCCTTAACTTAAAAACCTTAAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAAATTAA
* *
46705696 AAACCCTAACCCCTTAACTT--TAA----AACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAAATTAA
*
46705733 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAAATTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAAATTAA
* * * *
46705776 AAACCTTAAACCCTTAACTTAAAAATCATAACCTTTAAATTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAAATTAA
***
46705819 AAACCCTAAACCCTTAACTTAAAAATAGTAACCCTTAAA-TAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAAATTAA
* * * *
46705861 AAATCGT-AACACTTAACTTAAAAACCCTAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAAATTAA
46705903 A
1 A
46705904 TATAATTTGA
Statistics
Matches: 410, Mismatches: 45, Indels: 25
0.85 0.09 0.05
Matches are distributed among these distances:
37 33 0.08
39 2 0.00
41 26 0.06
42 42 0.10
43 231 0.56
44 76 0.19
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (43 bp):
AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAAATTAA
Found at i:46705472 original size:65 final size:63
Alignment explanation
Indices: 46705394--46705903 Score: 586
Period size: 65 Copynumber: 8.0 Consensus size: 63
46705384 CTAAAAATCG
* * *
46705394 AAACCCTAACCCTTAAATTAAAAACCCTAAACCCTTAACTTAAAAACCATAAACCCTTAACCTA
1 AAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTA
*
46705458 AACACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACCTAA
1 AA-ACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAA-CTTA
* * * *
46705523 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCTTTAAATTAAAAATCCTAACCCTCAACTTAA
1 AAACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTT-A
* * * * *
46705588 AAACCCTAAACCCTCAATTTAAAAACCCTAACCCCTCAACTTAAAAACCCTAACCCATAACTTA
1 AAACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTA
* *
46705652 AAACCCTAACCCCTTAACTTAAAAACCTTAAACCCTTAAATTAAAAACCCTAACCCCTTAACTT-
1 AAACCCTAA-CCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAA-CCCTTAACTTA
* * *
46705716 TAA----AACCCTTAAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAAATTTA
1 AAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTT-AACTTA
* * * * *
46705776 AAACCTTAAACCCTTAACTTAAAAATCAT-AACCTTTAAATTAAAAACCCTAAACCCTTAACTTA
1 AAACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTT-
46705840 A
63 A
*** * * * *
46705841 AAATAGTAACCCTTAA-ATAAAAATCGT-AACACTTAACTTAAAAACCCTAACCCTTAACTTA
1 AAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTA
46705902 AA
1 AA
46705904 TATAATTTGA
Statistics
Matches: 386, Mismatches: 45, Indels: 33
0.83 0.10 0.07
Matches are distributed among these distances:
58 5 0.01
59 44 0.11
60 4 0.01
61 3 0.01
62 12 0.03
63 29 0.08
64 97 0.25
65 192 0.50
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (63 bp):
AAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTA
Found at i:46705743 original size:22 final size:21
Alignment explanation
Indices: 46705394--46705903 Score: 568
Period size: 22 Copynumber: 24.0 Consensus size: 21
46705384 CTAAAAATCG
*
46705394 AAACCCTAACCCTTAAATTAA
1 AAACCCTAACCCTTAACTTAA
46705415 AAACCCTAAACCCTTAACTTAA
1 AAACCCT-AACCCTTAACTTAA
* *
46705437 AAACCATAAACCCTTAACCTAA
1 AAACCCT-AACCCTTAACTTAA
*
46705459 ACACCCTAACCCTTAACTTAA
1 AAACCCTAACCCTTAACTTAA
46705480 AAACCCTAAACCCTTAACTTAA
1 AAACCCT-AACCCTTAACTTAA
*
46705502 AAACCCTAACCCTTAACCTAA
1 AAACCCTAACCCTTAACTTAA
46705523 AAACCCTAAACCCTTAACTTAA
1 AAACCCT-AACCCTTAACTTAA
* *
46705545 AAACCCTAAACCTTTAAATTAA
1 AAACCCT-AACCCTTAACTTAA
* *
46705567 AAATCCTAACCCTCAACTTAA
1 AAACCCTAACCCTTAACTTAA
* *
46705588 AAACCCTAAACCCTCAATTTAA
1 AAACCCT-AACCCTTAACTTAA
*
46705610 AAACCCTAACCCCTCAACTTAA
1 AAACCCTAA-CCCTTAACTTAA
*
46705632 AAACCCTAACCCATAACTT-A
1 AAACCCTAACCCTTAACTTAA
46705652 AAACCCTAACCCCTTAACTTAA
1 AAACCCTAA-CCCTTAACTTAA
* *
46705674 AAACCTTAAACCCTTAAATTAA
1 AAACCCT-AACCCTTAACTTAA
46705696 AAACCCTAACCCCTTAACTT--
1 AAACCCTAA-CCCTTAACTTAA
* *
46705716 TAA----AACCCTTAAATTAA
1 AAACCCTAACCCTTAACTTAA
46705733 AAACCCTAAACCCTTAACTTAA
1 AAACCCT-AACCCTTAACTTAA
* *
46705755 AAACCCTAACCCTTAAATTTA
1 AAACCCTAACCCTTAACTTAA
*
46705776 AAACCTTAAACCCTTAACTTAA
1 AAACCCT-AACCCTTAACTTAA
* * * *
46705798 AAATCATAACCTTTAAATTAA
1 AAACCCTAACCCTTAACTTAA
46705819 AAACCCTAAACCCTTAACTTAA
1 AAACCCT-AACCCTTAACTTAA
*** *
46705841 AAATAGTAACCCTTAA-ATAA
1 AAACCCTAACCCTTAACTTAA
* * *
46705861 AAATCGTAACACTTAACTTAA
1 AAACCCTAACCCTTAACTTAA
46705882 AAACCCTAACCCTTAACTTAA
1 AAACCCTAACCCTTAACTTAA
46705903 A
1 A
46705904 TATAATTTGA
Statistics
Matches: 418, Mismatches: 52, Indels: 38
0.82 0.10 0.07
Matches are distributed among these distances:
15 9 0.02
16 2 0.00
17 2 0.00
20 29 0.07
21 150 0.36
22 224 0.54
23 2 0.00
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (21 bp):
AAACCCTAACCCTTAACTTAA
Found at i:46705758 original size:15 final size:15
Alignment explanation
Indices: 46705706--46705739 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
46705696 AAACCCTAAC
* *
46705706 CCCTTAACTTTAAAA
1 CCCTTAAATTAAAAA
46705721 CCCTTAAATTAAAAA
1 CCCTTAAATTAAAAA
46705736 CCCT
1 CCCT
46705740 AAACCCTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.29, G:0.00, T:0.29
Consensus pattern (15 bp):
CCCTTAAATTAAAAA
Found at i:46709360 original size:125 final size:125
Alignment explanation
Indices: 46709074--46709640 Score: 748
Period size: 125 Copynumber: 4.5 Consensus size: 125
46709064 CCCAAACATG
*
46709074 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGTATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * * * * *
46709139 TAGAAGCGA--TTTTATACTATTTGCTCATAAACATCAAGTCGAAATTATTTTTCCAGGAC
66 TTGAAGC-ATTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGAC
* * *
46709198 CTACTGTAGCAAAAGCGCGTCTACGAGGGCGCGATTTCAGAAATTCTTCTCA-AATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG
* * *
46709262 CTTGAAGCATTGTTTTATACTATTTGCTCAGAAATGT-AACTCAAAATTATTTTTTCAGGAC
65 CTTGAAGCATT-TTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGAC
* * * *
46709323 CTACAGTAGCAAAAGAGCGTCCACGTGGGC-CTAATTTCACAAATTCTTCTCATAAAGCATCATG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGC-GATTTCACAAATTCTTCTCATAAAGCATCCTG
* **
46709387 CTTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTTGAAATTATTTCTTCCAGGAC
65 CTTGAAGCATTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTT-TTCCAGGAC
* * *
46709449 CAACTGTAGTAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
*
46709514 TTGAAGCATTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCATGAC
66 TTGAAGCATTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGAC
* * * ** * * * * *
46709574 CTACTGTAGCAAAAGCGCGTACACATGGGTGCGCCTTCAAAAATCCTTCTGATAAATCATCCCGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
46709639 TT
66 TT
46709641 TAATTTTATC
Statistics
Matches: 386, Mismatches: 48, Indels: 17
0.86 0.11 0.04
Matches are distributed among these distances:
123 3 0.01
124 88 0.23
125 158 0.41
126 136 0.35
127 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCATTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGAC
Found at i:46709497 original size:126 final size:125
Alignment explanation
Indices: 46709074--46709593 Score: 744
Period size: 126 Copynumber: 4.2 Consensus size: 125
46709064 CCCAAACATG
* *
46709074 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGTATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * * * * *
46709139 TAGAAGCGA--TTTTATACTATTTGCTCATAAACATCAAGTCGAAATTATTTTTCCAGGAC
66 TTGAAGC-ATTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGAC
* *
46709198 CTACTGTAGCAAAAGCGCGTCTACGAGGGCGCGATTTCAGAAATTCTTCTCA-AATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG
* * *
46709262 CTTGAAGCATTGTTTTATACTATTTGCTCAGAAATGT-AACTCAAAATTATTTTTTCAGGAC
65 CTTGAAGCATT-TTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGAC
* * * * *
46709323 CTACAGTAGCAAAAGAGCGTCCACGTGGGC-CTAATTTCACAAATTCTTCTCATAAAGCATCATG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGC-GATTTCACAAATTCTTCTCATAAAGCATCCTG
* **
46709387 CTTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTTGAAATTATTTCTTCCAGGAC
65 CTTGAAGCATTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTT-TTCCAGGAC
* *
46709449 CAACTGTAGTAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
*
46709514 TTGAAGCATTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCATGAC
66 TTGAAGCATTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGAC
46709574 CTACTGTAGCAAAAGCGCGT
1 CTACTGTAGCAAAAGCGCGT
46709594 ACACATGGGT
Statistics
Matches: 350, Mismatches: 37, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
123 3 0.01
124 88 0.25
125 122 0.35
126 136 0.39
127 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCATTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGAC
Found at i:46709520 original size:251 final size:249
Alignment explanation
Indices: 46709074--46709602 Score: 794
Period size: 251 Copynumber: 2.1 Consensus size: 249
46709064 CCCAAACATG
* * *
46709074 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGTATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCAATTTCACAAATTCTTCTCATAAAGCATCATGC
* * * *
46709139 TAGAAGCGATTTTATACTATTTGCTCATAAACATCAAGTCGAAATTATTTTTCCAGGACCTACTG
66 TAGAAGCGATTTTAAACTATTTGCTCAGAAACATCAACTCGAAATTATTTTTCCAGGACCAACTG
* *
46709204 TAGCAAAAGCGCGTCTACGAGGGCGCGATTTCAGAAATTCTTCTCAAATAGCATCCTGCTTGAAG
131 TAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTTGAAG
* * *
46709269 CATTGTTTTATACTATTTGCTCAGAAATGT-AACTCAAAATTATTTTTTCAGGAC
196 CATT-TTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGAC
* *
46709323 CTACAGTAGCAAAAGAGCGTCCACGTGGGC-CTAATTTCACAAATTCTTCTCATAAAGCATCATG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGC-AATTTCACAAATTCTTCTCATAAAGCATCATG
* * * *
46709387 CTTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTTGAAATTATTTCTTCCAGGACCAA
65 CTAGAAGCG-ATTTTAAACTATTTGCTCAGAAACATCAACTCGAAATTATTT-TTCCAGGACCAA
*
46709452 CTGTAGTAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGCTT
128 CTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCCTGCTT
*
46709516 GAAGCATTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCATGAC
192 GAAGCATTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGAC
* *
46709574 CTACTGTAGCAAAAGCGCGTACACATGGG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGG
46709603 TGCGCCTTCA
Statistics
Matches: 251, Mismatches: 24, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
248 1 0.00
249 65 0.26
250 59 0.24
251 124 0.49
252 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (249 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCAATTTCACAAATTCTTCTCATAAAGCATCATGC
TAGAAGCGATTTTAAACTATTTGCTCAGAAACATCAACTCGAAATTATTTTTCCAGGACCAACTG
TAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTTGAAG
CATTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGAC
Found at i:46711694 original size:29 final size:30
Alignment explanation
Indices: 46711662--46711719 Score: 91
Period size: 29 Copynumber: 1.9 Consensus size: 30
46711652 ACAAAAAATT
46711662 TATTTTAAAAATA-TAAAAAATAAAAAAAG
1 TATTTTAAAAATATTAAAAAATAAAAAAAG
*
46711691 TATTTTAAAAATATTTTAAAAATAAAAAA
1 TATTTTAAAAATA-TTAAAAAATAAAAAA
46711720 TATACATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 13 0.50
31 13 0.50
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (30 bp):
TATTTTAAAAATATTAAAAAATAAAAAAAG
Found at i:46711705 original size:11 final size:11
Alignment explanation
Indices: 46711685--46711714 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
46711675 TAAAAAATAA
46711685 AAAAAGTATTTT
1 AAAAA-TATTTT
46711697 AAAAATATTTT
1 AAAAATATTTT
46711708 AAAAATA
1 AAAAATA
46711715 AAAAATATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:46712900 original size:59 final size:59
Alignment explanation
Indices: 46712787--46712902 Score: 169
Period size: 59 Copynumber: 2.0 Consensus size: 59
46712777 CAATTCCTGA
* * *
46712787 GGCTTTCCTTGGGTCCATTTGATTGAATGCTTCCCTTATTCCATTGTCTATAAACTTGG
1 GGCTTTCCTTGGGTCCATTTGATTGAATGCTTCCCTAATTCCATGGTCCATAAACTTGG
* * * *
46712846 GGCTTTCCTTGGGTCTATTTGATTGAATGTTTCCCTAATTTCATGGTCCGTAAACTT
1 GGCTTTCCTTGGGTCCATTTGATTGAATGCTTCCCTAATTCCATGGTCCATAAACTT
46712903 CTTTAACAGT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.43
Consensus pattern (59 bp):
GGCTTTCCTTGGGTCCATTTGATTGAATGCTTCCCTAATTCCATGGTCCATAAACTTGG
Found at i:46713903 original size:19 final size:19
Alignment explanation
Indices: 46713879--46713916 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
46713869 GCGTTCCCGT
46713879 ATGAAGAAATATAGGTAAA
1 ATGAAGAAATATAGGTAAA
*
46713898 ATGAAGAATTATAGGTAAA
1 ATGAAGAAATATAGGTAAA
46713917 CTCCTTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.21, T:0.24
Consensus pattern (19 bp):
ATGAAGAAATATAGGTAAA
Found at i:46717646 original size:33 final size:33
Alignment explanation
Indices: 46717600--46717666 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
46717590 ATTGCCTATT
* *
46717600 ACCATGTGGAGGCCCAAAACCATCATTTAAACC
1 ACCATGTGGAGGCCCAAAACCACCATTGAAACC
*
46717633 ACCATGTGTAGGCCCAAAACCACCATTGAAACC
1 ACCATGTGGAGGCCCAAAACCACCATTGAAACC
46717666 A
1 A
46717667 TTATTAACCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.37, C:0.31, G:0.15, T:0.16
Consensus pattern (33 bp):
ACCATGTGGAGGCCCAAAACCACCATTGAAACC
Found at i:46718920 original size:19 final size:19
Alignment explanation
Indices: 46718896--46718933 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
46718886 GACTGATACC
46718896 ATGAAGAAATATAGGTAAA
1 ATGAAGAAATATAGGTAAA
*
46718915 ATGAAGAATTATAGGTAAA
1 ATGAAGAAATATAGGTAAA
46718934 CTCCTTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.21, T:0.24
Consensus pattern (19 bp):
ATGAAGAAATATAGGTAAA
Found at i:46720959 original size:26 final size:28
Alignment explanation
Indices: 46720917--46720974 Score: 75
Period size: 26 Copynumber: 2.1 Consensus size: 28
46720907 ACTTTATATA
46720917 TTTTTAAAAAATAATGA-AGTTTA-ATT
1 TTTTTAAAAAATAATGATAGTTTAGATT
* * *
46720943 TTTTTAAAAATTTATGATATTTTAGATT
1 TTTTTAAAAAATAATGATAGTTTAGATT
46720971 TTTT
1 TTTT
46720975 ATAATTATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 15 0.56
27 5 0.19
28 7 0.26
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (28 bp):
TTTTTAAAAAATAATGATAGTTTAGATT
Found at i:46732346 original size:19 final size:18
Alignment explanation
Indices: 46732311--46732353 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
46732301 AAAAATTACT
* * *
46732311 TATAAAAAAATAAATATG
1 TATATAAAAACAAATATA
46732329 TATATAAAAACAACATATA
1 TATATAAAAACAA-ATATA
46732348 TATATA
1 TATATA
46732354 TTTAATTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (18 bp):
TATATAAAAACAAATATA
Found at i:46733960 original size:44 final size:43
Alignment explanation
Indices: 46733894--46734575 Score: 304
Period size: 44 Copynumber: 15.7 Consensus size: 43
46733884 CTTGGGTCTA
* *
46733894 CTCCACTACAACTTCAGAGAGATAAGATTATCGTCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAT-GTCTTTAATCTG
* ** * *
46733938 CTCCACTACAACTTCAGGGAGATAAGATT-TGCCATCTCCAGTTTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATG---TCTTTAATCTG
* * *
46733983 C-CTCACTGCAACTTCA-GGAGGATAAGACT-TGTTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGATTATGTCT--TTAATCTG
* * * *** *
46734027 CTTCACTGCAACTTCAGGGAGATAAGACTA-G-ATGCGATATG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATGTCTTTAATCTG
* * * *
46734068 CT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGT-TTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGAT--TATGTCTTTAATCTG
* * *
46734111 CTCCACTGCAACTTCAAGGAAATAGGATTATCAGT-TTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAT--GTCTTTAATCTG
* * **
46734155 CTCCACTGCAACTTCAGGGTGATAAGATT-TGCCATCTTCAGCCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATG---TCTTTAATCTG
* * * *
46734200 C-CTCACTGCAACTTCA-GGAGGTTAAGACT-TGTTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGATTATGTCT--TTAATCTG
* * ***
46734244 CTCCACTGCAACTTCAGGGAGATAAGACTA-G-ATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATGTCTTTAATCTG
* ** * * *
46734285 CT-CTCTGCAACTTCAAAGAGATAAGATCCAAGGT-TTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT--TATGTCTTTAATCTG
* * *
46734328 CTCCACTGTAACTTCAGGGAAATAGGATTATCAG-CTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAT--GTCTTTAATCTG
* * * * *
46734372 CTCCACTGTAACTTCAGGGAGATAAAATT-TGCCAACTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATG---TCTTTAATCTG
* * * *
46734417 C-CTCACTGCAACTTTA-GGAGGATAAGACT-TGTTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGATTATGTCT--TTAATCTG
*
46734461 CTCCACTGCAACTTCAGGGAGATAAGACTATATG-C---GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-T-TATGTCTTTAATCTG
* * * * *
46734502 CT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGT-TTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT--TATGTCTTTAATCTG
*
46734545 CTCCACTGCAACTTCAGGGAGATAGGATTAT
1 CTCCACTGCAACTTCAGGGAGATAAGATTAT
46734576 TGGCCACCGA
Statistics
Matches: 484, Mismatches: 99, Indels: 112
0.70 0.14 0.16
Matches are distributed among these distances:
39 1 0.00
40 67 0.14
41 19 0.04
42 11 0.02
43 27 0.06
44 257 0.53
45 99 0.20
46 1 0.00
47 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTATGTCTTTAATCTG
Found at i:46734269 original size:217 final size:217
Alignment explanation
Indices: 46733894--46734575 Score: 1125
Period size: 217 Copynumber: 3.1 Consensus size: 217
46733884 CTTGGGTCTA
* * * *
46733894 CTCCACTACAACTTC-AGAGAGATAAGATTATC-GTCTTTAATCTGCTCCACTACAACTTCAGGG
1 CTCCACTGCAACTTCAAG-GAAATAGGATTATCAGT-TTTAATCTGCTCCACTGCAACTTCAGGG
* *
46733957 AGATAAGATTTGCCATCTCCAGTTTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTA
64 AGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTA
* *
46734022 GTCTGCTTCACTGCAACTTCAGGGAGATAAGACTAGATGCGATATGCTCTCTGCAACTTCAGAGA
129 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGA
*
46734087 GATAAGATCCAAGGTTTTAATCTG
194 GATAAGATCCAAGGTTTTAATCCG
*
46734111 CTCCACTGCAACTTCAAGGAAATAGGATTATCAGTTTTAATCTGCTCCACTGCAACTTCAGGGTG
1 CTCCACTGCAACTTCAAGGAAATAGGATTATCAGTTTTAATCTGCTCCACTGCAACTTCAGGGAG
* *
46734176 ATAAGATTTGCCATCTTCAGCCTGCCTCACTGCAACTTCAGGAGGTTAAGACTTGTTTACTTAGT
66 ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGT
*
46734241 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAAAGAGA
131 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
46734306 TAAGATCCAAGGTTTTAATCCG
196 TAAGATCCAAGGTTTTAATCCG
* * * *
46734328 CTCCACTGTAACTTCAGGGAAATAGGATTATCAGCTTTAATCTGCTCCACTGTAACTTCAGGGAG
1 CTCCACTGCAACTTCAAGGAAATAGGATTATCAGTTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * *
46734393 ATAAAATTTGCCAACTTCAGTCTGCCTCACTGCAACTTTAGGAGGATAAGACTTGTTTACTTAGT
66 ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGT
*
46734458 CTGCTCCACTGCAACTTCAGGGAGATAAGACTATATGCGATCTGCTCTCTGCAACTTCAGAGAGA
131 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
46734523 TAAGATCCAAGGTTTTAATCCG
196 TAAGATCCAAGGTTTTAATCCG
* *
46734545 CTCCACTGCAACTTCAGGGAGATAGGATTAT
1 CTCCACTGCAACTTCAAGGAAATAGGATTAT
46734576 TGGCCACCGA
Statistics
Matches: 436, Mismatches: 27, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
217 432 0.99
218 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (217 bp):
CTCCACTGCAACTTCAAGGAAATAGGATTATCAGTTTTAATCTGCTCCACTGCAACTTCAGGGAG
ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGT
CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
TAAGATCCAAGGTTTTAATCCG
Found at i:46749473 original size:193 final size:193
Alignment explanation
Indices: 46749125--46749505 Score: 600
Period size: 193 Copynumber: 2.0 Consensus size: 193
46749115 TGGCATGCCA
* *
46749125 ACTATATCAGACCCTATCCAAACAACTAATAGGGAAATCAATGTTTCGATTACATTACATAACCA
1 ACTATATCAGACCCTATCCAAACAACTAATAGGGAAATCAATGTTTCGATTACATCACACAACCA
* * *
46749190 ACTTTCACATCATCATTACGAATTCACATCTATAAAACCAATACCACATTGTATAGTTCAAACCA
66 ACTTGCACATCACCATTACGAATTCACATCTATAAAACCAATACCACATTGCATAGTTCAAACCA
* * * *
46749255 TTTTCATACCACGTATTATGTATCAATTGAATCATGTTATTTTCTATTTTATTCAATTATCCC
131 TTTTCATACCACATATCAGGTATCAATTGAATCATGTTATTTTCTATTTGATTCAATTATCCC
* * * *
46749318 ACTATCTCTGACCCTATCCAAACAACTAATAGGGTAATCAATGTTTCGATTACATCATACAACCA
1 ACTATATCAGACCCTATCCAAACAACTAATAGGGAAATCAATGTTTCGATTACATCACACAACCA
* * ** *
46749383 AGTTGCATATCACCATTATTAGTTCACATCTATAAAACCAATACCACATTGCATAGTTCAAACCA
66 ACTTGCACATCACCATTACGAATTCACATCTATAAAACCAATACCACATTGCATAGTTCAAACCA
46749448 TTTTCATACCACATATCAGGTATCAATTGAATCATGTTATTTTCTATTTGATTCAATT
131 TTTTCATACCACATATCAGGTATCAATTGAATCATGTTATTTTCTATTTGATTCAATT
46749506 TAGTCCATTA
Statistics
Matches: 170, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
193 170 1.00
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (193 bp):
ACTATATCAGACCCTATCCAAACAACTAATAGGGAAATCAATGTTTCGATTACATCACACAACCA
ACTTGCACATCACCATTACGAATTCACATCTATAAAACCAATACCACATTGCATAGTTCAAACCA
TTTTCATACCACATATCAGGTATCAATTGAATCATGTTATTTTCTATTTGATTCAATTATCCC
Found at i:46751498 original size:2 final size:2
Alignment explanation
Indices: 46751491--46751543 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
46751481 TGTATGTATA
46751491 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
46751533 TG TG TG TG TG T
1 TG TG TG TG TG T
46751544 AATTGAATGC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:46752286 original size:21 final size:20
Alignment explanation
Indices: 46752254--46752292 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
46752244 ATCTATTTAG
46752254 GATATAGATGAA-TTCATAT
1 GATATAGATGAAGTTCATAT
46752273 GATATGAGAATGAAGTTCAT
1 GATAT-AG-ATGAAGTTCAT
46752293 GTGGTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.29
20 2 0.12
21 5 0.29
22 5 0.29
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.33
Consensus pattern (20 bp):
GATATAGATGAAGTTCATAT
Found at i:46760813 original size:31 final size:31
Alignment explanation
Indices: 46760775--46760841 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
46760765 CAGTACGATG
*
46760775 AATAAATAGAAAGATTGTGGTAATACATACT
1 AATAAATAGAAAGATTGTGGAAATACATACT
* *
46760806 AATAAATAGCAAGATTGTGGAAATATATACT
1 AATAAATAGAAAGATTGTGGAAATACATACT
*
46760837 CATAA
1 AATAA
46760842 TAATAAGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.49, C:0.07, G:0.15, T:0.28
Consensus pattern (31 bp):
AATAAATAGAAAGATTGTGGAAATACATACT
Found at i:46765671 original size:15 final size:15
Alignment explanation
Indices: 46765651--46765680 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46765641 AAGCATCATA
46765651 TTAATTTTAATTAAT
1 TTAATTTTAATTAAT
*
46765666 TTAATTTTACTTAAT
1 TTAATTTTAATTAAT
46765681 CAAAATTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (15 bp):
TTAATTTTAATTAAT
Found at i:46767105 original size:2 final size:2
Alignment explanation
Indices: 46767098--46767135 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
46767088 ATGCAAATTC
*
46767098 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46767136 CTATTGCAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46774908 original size:9 final size:9
Alignment explanation
Indices: 46774894--46774926 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
46774884 TTTGCATCAT
46774894 TTTCTCTTA
1 TTTCTCTTA
46774903 TTTCTCTTA
1 TTTCTCTTA
46774912 TTTCTCTTA
1 TTTCTCTTA
46774921 TTTCTC
1 TTTCTC
46774927 GATAGCAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.09, C:0.24, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTCTCTTA
Found at i:46778516 original size:24 final size:23
Alignment explanation
Indices: 46778472--46778516 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
46778462 ACAGAAAAGA
* *
46778472 AGAAAAATAAAAGAAGGAAGAAC
1 AGAAAAAAAAAAGAACGAAGAAC
*
46778495 AGAAAAAAAACAAGAACTAAGA
1 AGAAAAAAAA-AAGAACGAAGA
46778517 TTTTCGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 9 0.50
24 9 0.50
ACGTcount: A:0.71, C:0.07, G:0.18, T:0.04
Consensus pattern (23 bp):
AGAAAAAAAAAAGAACGAAGAAC
Found at i:46781613 original size:2 final size:2
Alignment explanation
Indices: 46781606--46781661 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
46781596 ATTAATTTTC
46781606 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
46781648 GT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
46781662 NNNNNNNNNN
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46789963 original size:20 final size:20
Alignment explanation
Indices: 46789933--46789974 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
46789923 AAATTTTGAA
*
46789933 AATTTGTTGATTATG-AACT
1 AATTTGTTGATGATGAAACT
46789952 AATTTGGTTGATGATGAAACT
1 AATTT-GTTGATGATGAAACT
46789973 AA
1 AA
46789975 CCTTAATGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 9 0.45
21 6 0.30
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (20 bp):
AATTTGTTGATGATGAAACT
Found at i:46792477 original size:18 final size:19
Alignment explanation
Indices: 46792454--46792489 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46792444 ATCTTTCTAT
46792454 TTTTTTA-TCTTTATTTTA
1 TTTTTTATTCTTTATTTTA
*
46792472 TTTTTTATTTTTTATTTT
1 TTTTTTATTCTTTATTTT
46792490 TATAAACGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTTTATTCTTTATTTTA
Found at i:46796431 original size:23 final size:23
Alignment explanation
Indices: 46796401--46796451 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
46796391 AGGGGATTGC
*
46796401 ATCAGTTATACCAAGATGCTCAT
1 ATCAGTTATACCAAAATGCTCAT
46796424 ATCAGTTATACCAAAATGCTCAT
1 ATCAGTTATACCAAAATGCTCAT
46796447 ATCAG
1 ATCAG
46796452 ACCATGTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (23 bp):
ATCAGTTATACCAAAATGCTCAT
Found at i:46796570 original size:12 final size:11
Alignment explanation
Indices: 46796544--46796614 Score: 56
Period size: 11 Copynumber: 6.4 Consensus size: 11
46796534 CGGTATAGTG
46796544 AAAAAAAC-AA
1 AAAAAAACAAA
46796554 AAAAAAACAAA
1 AAAAAAACAAA
*
46796565 ACAAAAAGCAAA
1 A-AAAAAACAAA
* *
46796577 ATAAAAATAAGA
1 AAAAAAACAA-A
*
46796589 AAATAAAA-AAT
1 AAA-AAAACAAA
*
46796600 GAAAAAACAAA
1 AAAAAAACAAA
46796611 AAAA
1 AAAA
46796615 CCTCTACTAG
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
10 12 0.26
11 16 0.34
12 15 0.32
13 4 0.09
ACGTcount: A:0.83, C:0.07, G:0.04, T:0.06
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:46798074 original size:44 final size:44
Alignment explanation
Indices: 46797994--46798411 Score: 222
Period size: 44 Copynumber: 9.7 Consensus size: 44
46797984 AAGCCACAGC
* * * * ** *
46797994 CTTATCTCCCTGAGCAGCAATGGAGTAGGCTAAAGATTACAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTACAGAT
* * *
46798038 CTTATCTCCCTAAGCAGTAGTGGGGCAGATCGAAGATGAC-GAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTACAG-AT
* * ** *
46798082 CTTATCTTCCTAAG--GTAGTAGGAAGCAGATTTAAG-CCACCAG-C
1 CTTATCTCCCTAAGCAGTAGT-GG-AGCAGATTGAAGATTA-CAGAT
* * * * **
46798125 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTACAGAT
** * *
46798169 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGT-GA-AT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA--TTACAGAT
* * * ** *
46798213 TTTATCTTCCTAAG--GTAGTAGGAAGCAGATTTAAG-CCACCAG-C
1 CTTATCTCCCTAAGCAGTAGT-GG-AGCAGATTGAAGATTA-CAGAT
* ** * **
46798256 CTTATCTCCCTAAGCAGCAGTGGAATAGGTTGAAGATTGTAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTACAGAT
* * *
46798300 CTTATCTCCCTAAGCAATAGTGGAGCAGATCG--CATTA-AG-T
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTACAGAT
* * * *
46798340 CTTATCTCTCTAAGCAGTAGTAGAGCAGATAGAAGA-AACCA-AT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTA-CAGAT
*
46798383 CCTATCTCCCTAAGCAGTAGTGGAGCAGA
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGA
46798412 CAAAAGAAAC
Statistics
Matches: 276, Mismatches: 73, Indels: 51
0.69 0.18 0.13
Matches are distributed among these distances:
40 29 0.11
41 3 0.01
42 14 0.05
43 80 0.29
44 139 0.50
45 10 0.04
46 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (44 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTACAGAT
Found at i:46798160 original size:87 final size:86
Alignment explanation
Indices: 46798038--46798198 Score: 193
Period size: 87 Copynumber: 1.8 Consensus size: 86
46798028 GATTACAGAT
* * *
46798038 CTTATCTCCCTAAGCAGTAGTGGGGCAGATCGAAGA-TG-ACGAATCTTATCTTCCTAAG-GTAG
1 CTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGATTGTA-G-ATCTTATCTCCCTAAGAGTAG
46798100 TAGGAAGCAGATTTAAGCCACCAGC
64 T-GG-AGCAGATTTAAGCCACCAGC
* * * *
46798125 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
1 CTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGATTGTAGATCTTATCTCCCTAAG-AGTAGT
46798190 GGAGCAGAT
65 GGAGCAGAT
46798199 CAAAGACGGT
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
87 52 0.83
88 5 0.08
89 6 0.10
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (86 bp):
CTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGATTGTAGATCTTATCTCCCTAAGAGTAGTG
GAGCAGATTTAAGCCACCAGC
Found at i:46798224 original size:131 final size:131
Alignment explanation
Indices: 46797979--46798330 Score: 562
Period size: 131 Copynumber: 2.7 Consensus size: 131
46797969 CAGTGGGATG
* * * * **
46797979 GATTGAAGCCA-CAGCCTTATCTCCCTGAGCAGCAATGGAGTAGGCTAAAGATTACAGATCTTAT
1 GATTTAAGCCACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTAT
* * *
46798043 CTCCCTAAGCAGTAGTGGGGCAGATCGAAGATGACGAATCTTATCTTCCTAAGGTAGTAGGAAGC
66 CTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGAATCTTATCTTCCTAAGGTAGTAGGAAGC
46798108 A
131 A
46798109 GATTTAAGCCACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTAT
1 GATTTAAGCCACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTAT
** *
46798174 CTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATTTTATCTTCCTAAGGTAGTAGGAAGC
66 CTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGAATCTTATCTTCCTAAGGTAGTAGGAAGC
46798239 A
131 A
* *
46798240 GATTTAAGCCACCAGCCTTATCTCCCTAAGCAGCAGTGGAATAGGTTGAAGATTGTAGATCTTAT
1 GATTTAAGCCACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTAT
*
46798305 CTCCCTAAGCAATAGTGGAGCAGATC
66 CTCCCTAAGCAGTAGTGGAGCAGATC
46798331 GCATTAAGTC
Statistics
Matches: 206, Mismatches: 15, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
130 10 0.05
131 196 0.95
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (131 bp):
GATTTAAGCCACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTAT
CTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGAATCTTATCTTCCTAAGGTAGTAGGAAGC
A
Found at i:46798396 original size:43 final size:43
Alignment explanation
Indices: 46798342--46798433 Score: 148
Period size: 43 Copynumber: 2.1 Consensus size: 43
46798332 CATTAAGTCT
* * *
46798342 TATCTCTCTAAGCAGTAGTAGAGCAGATAGAAGAAACCAATCC
1 TATCTCCCTAAGCAGTAGTAGAGCAGACAAAAGAAACCAATCC
*
46798385 TATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAATCC
1 TATCTCCCTAAGCAGTAGTAGAGCAGACAAAAGAAACCAATCC
46798428 TATCTC
1 TATCTC
46798434 TATAAAGTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (43 bp):
TATCTCCCTAAGCAGTAGTAGAGCAGACAAAAGAAACCAATCC
Found at i:46798526 original size:128 final size:128
Alignment explanation
Indices: 46798385--46798846 Score: 798
Period size: 128 Copynumber: 3.6 Consensus size: 128
46798375 AAACCAATCC
** *
46798385 TATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAATCCTATCTCTATAAAGTTACAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTAAAGTTTCAGTGG
*
46798450 AGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCT
66 AGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCAAGTCT
*
46798513 TATCTCCCTAAGCAGTAGTGAAGCAGACAAAAGAAACCAATCCTATCTCCCTAAAGTTTCAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTAAAGTTTCAGTGG
* *
46798578 AGCGAATTAAAACCACAGATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATCGCATCAAGTCT
66 AGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCAAGTCT
46798641 TATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTAAAGTTTCAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTAAAGTTTCAGTGG
46798706 AGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCAAGTCT
66 AGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCAAGTCT
* * * * * *
46798769 TATCTCCCTAAGCAGTAGTGGATCAGACAGAAGAAATCAATCCTATTTCCCTGAAGTTGCAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTAAAGTTTCAGTGG
*
46798834 AGCCGATTAAAAC
66 AGCGGATTAAAAC
46798847 GATGAATCAT
Statistics
Matches: 317, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
128 317 1.00
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (128 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTAAAGTTTCAGTGG
AGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCAAGTCT
Found at i:46798611 original size:44 final size:44
Alignment explanation
Indices: 46798556--46798752 Score: 128
Period size: 44 Copynumber: 4.6 Consensus size: 44
46798546 AAACCAATCC
46798556 TATCTCCCTAAAGTTTCAGTGGAGCGA-ATTAAAACCACAGATCT
1 TATCTCCCTAAAGTTTCAGTGGAGCGACA-TAAAACCACAGATCT
* * * *** *
46798600 TATCTCTCTAAAGTTGT-AGTAGAGC-AGATCGCATCA-AG-TCT
1 TATCTCCCTAAAGTT-TCAGTGGAGCGACATAAAACCACAGATCT
* * *
46798641 TATCTCCCTAAGCAG--T-AGTGGAGCAGACAAAAGAAAC-CA-ATCC
1 TATCTCCCTAA--AGTTTCAGTGGAGC-GACATAA-AACCACAGATCT
*
46798684 TATCTCCCTAAAGTTTCAGTGGAGCGGA-TTAAAACCACAGATCT
1 TATCTCCCTAAAGTTTCAGTGGAGC-GACATAAAACCACAGATCT
* * *
46798728 TATCTCTCTAAAGTTGCAGTAGAGC
1 TATCTCCCTAAAGTTTCAGTGGAGC
46798753 AGATCGCATC
Statistics
Matches: 116, Mismatches: 23, Indels: 28
0.69 0.14 0.17
Matches are distributed among these distances:
40 8 0.07
41 15 0.13
42 7 0.06
43 28 0.24
44 57 0.49
45 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.26
Consensus pattern (44 bp):
TATCTCCCTAAAGTTTCAGTGGAGCGACATAAAACCACAGATCT
Found at i:46803740 original size:66 final size:66
Alignment explanation
Indices: 46803634--46803762 Score: 215
Period size: 66 Copynumber: 2.0 Consensus size: 66
46803624 TTGCACATGA
* *
46803634 TGCATTTGGGGATTTTCAGAATGCTTCAAAACCGAGCACAACT-GCATTTCCTTCTAGCGGTTTC
1 TGCATTTGGGGATTTTCAGAATGCTTCAAAACCAAGCACAA-TGGCATTTCCTTCTAGCAGTTTC
46803698 AG
65 AG
*
46803700 TGCATTTGGGGATTTTCAGAATGCTTCAAAACCAAGCACAATGGCGTTTCCTTCTAGCAGTTT
1 TGCATTTGGGGATTTTCAGAATGCTTCAAAACCAAGCACAATGGCATTTCCTTCTAGCAGTTT
46803763 TGGTTCAACT
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
65 1 0.02
66 58 0.98
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.33
Consensus pattern (66 bp):
TGCATTTGGGGATTTTCAGAATGCTTCAAAACCAAGCACAATGGCATTTCCTTCTAGCAGTTTCA
G
Found at i:46805372 original size:18 final size:19
Alignment explanation
Indices: 46805340--46805376 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
46805330 TTTGAAAATC
*
46805340 TTTAAAATTTATAAAATTT
1 TTTAAAATGTATAAAATTT
46805359 TTTAAAATGT-TAAAATTT
1 TTTAAAATGTATAAAATTT
46805377 ATATGTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
TTTAAAATGTATAAAATTT
Found at i:46805740 original size:20 final size:20
Alignment explanation
Indices: 46805717--46805758 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
46805707 CTACTTTTCT
46805717 TATTCTTTT-TAATTTTTTAA
1 TATT-TTTTATAATTTTTTAA
46805737 TATTTTTTATAATTTTTTAA
1 TATTTTTTATAATTTTTTAA
46805757 TA
1 TA
46805759 AATATTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (20 bp):
TATTTTTTATAATTTTTTAA
Found at i:46805759 original size:11 final size:11
Alignment explanation
Indices: 46805726--46805759 Score: 54
Period size: 10 Copynumber: 3.3 Consensus size: 11
46805716 TTATTCTTTT
46805726 TAATTTTTTAA
1 TAATTTTTTAA
46805737 T-ATTTTTT-A
1 TAATTTTTTAA
46805746 TAATTTTTTAA
1 TAATTTTTTAA
46805757 TAA
1 TAA
46805760 ATATTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 2 0.10
10 14 0.67
11 5 0.24
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TAATTTTTTAA
Found at i:46809530 original size:43 final size:43
Alignment explanation
Indices: 46809469--46809552 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
46809459 TCTCCTCCAT
* *
46809469 GATCAGTTCGTAAACATTTGATAACCGAATTTGATTTTTTCAC
1 GATCAGTTCGCAAACATTTGATAACCGAATTTGATTCTTTCAC
*
46809512 GATCAGTTTGCAAACATTTGATAACCGAATTTGATTCTTTC
1 GATCAGTTCGCAAACATTTGATAACCGAATTTGATTCTTTC
46809553 TCAACATGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (43 bp):
GATCAGTTCGCAAACATTTGATAACCGAATTTGATTCTTTCAC
Found at i:46810316 original size:27 final size:27
Alignment explanation
Indices: 46810276--46810330 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
46810266 CATGTGATTG
*
46810276 TTGCATCTCGAATCAAGGAACCATGTA
1 TTGCATCTCAAATCAAGGAACCATGTA
46810303 TTGCATCTCAAATCAAGGAACCATGTA
1 TTGCATCTCAAATCAAGGAACCATGTA
46810330 T
1 T
46810331 CCTATTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (27 bp):
TTGCATCTCAAATCAAGGAACCATGTA
Found at i:46813745 original size:66 final size:66
Alignment explanation
Indices: 46813639--46813773 Score: 191
Period size: 66 Copynumber: 2.0 Consensus size: 66
46813629 TATTCTAAAA
* * * *
46813639 TTGTAGCTGGAGTTCGTCATATTTTCTTGTTGCATCTGCTTCCCTCGTTGCTTCCTCCGCTTTAA
1 TTGTAGCTGGAGTTCATCATATTTTCTTGTAGCATCTGCTTCCCTCGATGCTGCCTCCGCTTTAA
46813704 G
66 G
* * *
46813705 TTGTAGCTGGAGTTCATCATATTTTCTT-TGAGCCTCTGCTTCTCTTGATGCTGCCTCCGCTTTA
1 TTGTAGCTGGAGTTCATCATATTTTCTTGT-AGCATCTGCTTCCCTCGATGCTGCCTCCGCTTTA
46813769 AG
65 AG
46813771 TTG
1 TTG
46813774 AGCAATTTGC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
65 1 0.02
66 60 0.98
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.44
Consensus pattern (66 bp):
TTGTAGCTGGAGTTCATCATATTTTCTTGTAGCATCTGCTTCCCTCGATGCTGCCTCCGCTTTAA
G
Found at i:46820347 original size:20 final size:21
Alignment explanation
Indices: 46820306--46820348 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
46820296 TAGTACAAAA
* *
46820306 TTTTTATATTTTAAACTTATT
1 TTTTTATATCTTAAACTCATT
46820327 TTTTTATATCTTAAA-TCATT
1 TTTTTATATCTTAAACTCATT
46820347 TT
1 TT
46820349 AAAAACTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTTATATCTTAAACTCATT
Found at i:46821275 original size:19 final size:19
Alignment explanation
Indices: 46821232--46821281 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
46821222 GCAGATGGTC
*
46821232 GGGGAAAATCTAAGGGATTT
1 GGGGAAAAT-TTAGGGATTT
46821252 GGGGAAATATTTAGGGATTT
1 GGGGAAA-ATTTAGGGATTT
46821272 -GGGAAAATTT
1 GGGGAAAATTT
46821282 TTAGGAGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 4 0.14
19 6 0.21
20 16 0.57
21 2 0.07
ACGTcount: A:0.34, C:0.02, G:0.34, T:0.30
Consensus pattern (19 bp):
GGGGAAAATTTAGGGATTT
Found at i:46821284 original size:20 final size:20
Alignment explanation
Indices: 46821244--46821286 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
46821234 GGAAAATCTA
*
46821244 AGGGATTTGGGGAAATATTT
1 AGGGATTTGGGAAAATATTT
*
46821264 AGGGATTTGGGAAAATTTTT
1 AGGGATTTGGGAAAATATTT
46821284 AGG
1 AGG
46821287 AGAAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.35, T:0.35
Consensus pattern (20 bp):
AGGGATTTGGGAAAATATTT
Found at i:46821430 original size:40 final size:40
Alignment explanation
Indices: 46821375--46821464 Score: 110
Period size: 41 Copynumber: 2.2 Consensus size: 40
46821365 AAAATGATAC
* *
46821375 TTTGCGGCACTTTTCTTAT-AACGCCGCTAATGCTTGACCT
1 TTTGCGGCACCTTTCTCATAAACGCCGCTAATGCTTGA-CT
* * *
46821415 TTTGCGGCGCCTTTCTCATAAACGCCGCTACTGCTTTACT
1 TTTGCGGCACCTTTCTCATAAACGCCGCTAATGCTTGACT
46821455 TATTGCGGCA
1 T-TTGCGGCA
46821465 TTTTTCCGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
40 19 0.45
41 23 0.55
ACGTcount: A:0.17, C:0.29, G:0.19, T:0.36
Consensus pattern (40 bp):
TTTGCGGCACCTTTCTCATAAACGCCGCTAATGCTTGACT
Found at i:46821690 original size:12 final size:12
Alignment explanation
Indices: 46821669--46821709 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
46821659 CTTTAGAAGT
* *
46821669 GCCGCTAAAAGC
1 GCCGCGAAAAAC
46821681 GCCGCGAAAAAC
1 GCCGCGAAAAAC
46821693 GCCGCGAAAAAC
1 GCCGCGAAAAAC
46821705 GCCGC
1 GCCGC
46821710 TAATGACAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.34, C:0.37, G:0.27, T:0.02
Consensus pattern (12 bp):
GCCGCGAAAAAC
Found at i:46821982 original size:129 final size:128
Alignment explanation
Indices: 46821747--46821990 Score: 393
Period size: 129 Copynumber: 1.9 Consensus size: 128
46821737 CGTTTTTTAA
* *
46821747 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCACAAACGCCGCTATAGATCAAGACC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCAACAAACGCCGCTATAGATCAAGACC
46821812 TATAGCGGCGCTTTTCCTACAAACGCCGCTATAGATCAAGACCTTTAGCGGCTCTTTTCCAAC
66 TATAGCGGCGCTTTTCCTACAAACGCCGCTATAGATCAAGACCTTTAGCGGCTCTTTTCCAAC
*
46821875 AAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTTCTAACAAACGCCGCTATAGATCAAGAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTC-AACAAACGCCGCTATAGATCAAGAC
* * *
46821940 CTTTAGCGGCG-TTTTTCTCACAAACGCTGCTATAGA-CGAAGACCTTTAGCG
65 CTATAGCGGCGCTTTTCCT-ACAAACGCCGCTATAGATC-AAGACCTTTAGCG
46821991 ACGCTTTAAT
Statistics
Matches: 107, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
128 44 0.41
129 63 0.59
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (128 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCAACAAACGCCGCTATAGATCAAGACC
TATAGCGGCGCTTTTCCTACAAACGCCGCTATAGATCAAGACCTTTAGCGGCTCTTTTCCAAC
Found at i:46822007 original size:43 final size:43
Alignment explanation
Indices: 46821728--46821997 Score: 352
Period size: 43 Copynumber: 6.3 Consensus size: 43
46821718 GCGTCGTTAA
* * *
46821728 CTTTAGCGGCG-TTTTTTAA-AAACGCCGCTATAGACCATGAC
1 CTTTAGCGGCGCTTTTCTAACAAACGCCGCTATAGATCAAGAC
*
46821769 CTTTAGCGGCGCTTTTC-CACAAACGCCGCTATAGATCAAGAC
1 CTTTAGCGGCGCTTTTCTAACAAACGCCGCTATAGATCAAGAC
*
46821811 CTATAGCGGCGCTTTTCCT-ACAAACGCCGCTATAGATCAAGAC
1 CTTTAGCGGCGCTTTT-CTAACAAACGCCGCTATAGATCAAGAC
* * * * * *
46821854 CTTTAGCGGCTCTTTTCCAACAAACGCCGCTAAAGACCATGAT
1 CTTTAGCGGCGCTTTTCTAACAAACGCCGCTATAGATCAAGAC
46821897 CTTTAGCGGCGCTTTTCTAACAAACGCCGCTATAGATCAAGAC
1 CTTTAGCGGCGCTTTTCTAACAAACGCCGCTATAGATCAAGAC
* * *
46821940 CTTTAGCGGCGTTTTTCTCACAAACGCTGCTATAGA-CGAAGAC
1 CTTTAGCGGCGCTTTTCTAACAAACGCCGCTATAGATC-AAGAC
*
46821983 CTTTAGCGACGCTTT
1 CTTTAGCGGCGCTTT
46821998 AATTACAAAC
Statistics
Matches: 200, Mismatches: 23, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
41 12 0.06
42 41 0.20
43 147 0.74
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCTAACAAACGCCGCTATAGATCAAGAC
Found at i:46826794 original size:22 final size:21
Alignment explanation
Indices: 46826769--46826820 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
46826759 TCACTATCCT
**
46826769 TTAAACCCTAAGTCACAACCCC
1 TTAAACCCTAAACCACAA-CCC
* *
46826791 TTAAACCTTAAACCCCAACCC
1 TTAAACCCTAAACCACAACCC
46826812 TTAAACCCT
1 TTAAACCCT
46826821 TAAAACCTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.37, C:0.40, G:0.02, T:0.21
Consensus pattern (21 bp):
TTAAACCCTAAACCACAACCC
Found at i:46827583 original size:41 final size:41
Alignment explanation
Indices: 46827294--46827574 Score: 323
Period size: 41 Copynumber: 6.9 Consensus size: 41
46827284 AATACATTTT
* * * * *
46827294 GCGGCGCTTTTCGAAAAATGCCGCAAAAGATCAGAGCATTA
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGACCAGAGCATTA
* * * *
46827335 GTGGCGTTTTCCCAAAAACGCCGCTAAAAACCAAAGCATTA
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGACCAGAGCATTA
* * *
46827376 GCGACGCTTTCCCAAAAGCGCCGCTATAGACCAGAGCATTA
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGACCAGAGCATTA
* * *
46827417 GCGGCGC-TTCATCAAAAACGCCGTTATAGACCAGAGCATTA
1 GCGGCGCTTTC-CCAAAAACGCCGCTAAAGACCAGAGCATTA
* *
46827458 GCGGCGC-TTCACCAAAAACGCCACTAAAGGCCAGAGCATTA
1 GCGGCGCTTTC-CCAAAAACGCCGCTAAAGACCAGAGCATTA
* * * *
46827499 GCGGCGCTTCCCCAAAAATGCCGCTAAAGGCCAGACCATTA
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGACCAGAGCATTA
* *
46827540 GCGACGCTTTCCCAAAAACGCCGCTAAAGGCCAGA
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGACCAGA
46827575 ATTTTAGCGG
Statistics
Matches: 206, Mismatches: 32, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
40 3 0.01
41 201 0.98
42 2 0.01
ACGTcount: A:0.32, C:0.30, G:0.22, T:0.16
Consensus pattern (41 bp):
GCGGCGCTTTCCCAAAAACGCCGCTAAAGACCAGAGCATTA
Found at i:46827713 original size:39 final size:40
Alignment explanation
Indices: 46827646--46827736 Score: 105
Period size: 39 Copynumber: 2.3 Consensus size: 40
46827636 TTGGGCTTGG
* * * * *
46827646 TTTTTTGCGGCGCTTTTCGAAAAACGCCGCTAATTC-TCA
1 TTTTTAGCGGCGCATTTCCAAAAACGCCGCTAATACTTAA
46827685 TTTTTAGCGGCG-ATTTCCAAAAAGCGCCGCTAATACTTAA
1 TTTTTAGCGGCGCATTTCCAAAAA-CGCCGCTAATACTTAA
*
46827725 TCTTTAGCGGCG
1 TTTTTAGCGGCG
46827737 TTTTTTATAC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
38 9 0.20
39 22 0.50
40 13 0.30
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (40 bp):
TTTTTAGCGGCGCATTTCCAAAAACGCCGCTAATACTTAA
Found at i:46827736 original size:40 final size:38
Alignment explanation
Indices: 46827660--46827736 Score: 100
Period size: 40 Copynumber: 2.0 Consensus size: 38
46827650 TTGCGGCGCT
* * * *
46827660 TTTCGAAAAACGCCGCTAATTCTCATTTTTAGCGGCGA
1 TTTCCAAAAACGCCGCTAATACTAATCTTTAGCGGCGA
46827698 TTTCCAAAAAGCGCCGCTAATACTTAATCTTTAGCGGCG
1 TTTCCAAAAA-CGCCGCTAATAC-TAATCTTTAGCGGCG
46827737 TTTTTTATAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 9 0.27
39 11 0.33
40 13 0.39
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (38 bp):
TTTCCAAAAACGCCGCTAATACTAATCTTTAGCGGCGA
Found at i:46832119 original size:2 final size:2
Alignment explanation
Indices: 46832112--46832137 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
46832102 GATTTTAATT
46832112 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
46832138 GTAAAACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:46832728 original size:6 final size:7
Alignment explanation
Indices: 46832710--46832736 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
46832700 AGTTTGGGTG
46832710 CTTTTTT
1 CTTTTTT
46832717 CTTTTTT
1 CTTTTTT
46832724 CTTTTTT
1 CTTTTTT
46832731 CTTTTT
1 CTTTTT
46832737 GCGGAAAGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
CTTTTTT
Found at i:46834212 original size:17 final size:17
Alignment explanation
Indices: 46834160--46834212 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
46834150 TAAGGAAACA
* *
46834160 TAATCTTCGAGGATATG
1 TAATCTTAGAAGATATG
*
46834177 CAATCTTAGATATGATATG
1 TAATCTTAGA-A-GATATG
46834196 TAATCTTAGAAGATATG
1 TAATCTTAGAAGATATG
46834213 ATTTTGTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 14 0.47
18 1 0.03
19 15 0.50
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (17 bp):
TAATCTTAGAAGATATG
Found at i:46834212 original size:22 final size:23
Alignment explanation
Indices: 46834184--46834228 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
46834174 ATGCAATCTT
46834184 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
46834206 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
46834229 GATTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:46834238 original size:22 final size:23
Alignment explanation
Indices: 46834194--46834238 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
46834184 AGATATGATA
*
46834194 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
46834217 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
46834239 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:46834676 original size:3 final size:3
Alignment explanation
Indices: 46834668--46834710 Score: 61
Period size: 3 Copynumber: 14.3 Consensus size: 3
46834658 ATTAATTTTG
*
46834668 TTA TTA TTA TTT TTA TTA TTA -TA TTA TATA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T
46834711 ACCTACATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:46834676 original size:15 final size:15
Alignment explanation
Indices: 46834652--46834709 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
46834642 GTTTTTAGTC
46834652 TATT-TTATTAATTT
1 TATTATTATTAATTT
* *
46834666 TGTTATTATTATTTT
1 TATTATTATTAATTT
*
46834681 TATTATTATATTATATAT
1 TATTA-T-TATTA-ATTT
46834699 TATTATTATTA
1 TATTATTATTA
46834710 TACCTACATA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
14 3 0.09
15 13 0.37
16 6 0.17
17 6 0.17
18 7 0.20
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
TATTATTATTAATTT
Found at i:46841741 original size:88 final size:88
Alignment explanation
Indices: 46841242--46841730 Score: 665
Period size: 88 Copynumber: 5.6 Consensus size: 88
46841232 GTGAAGATAA
* * * * * *
46841242 CAGATCTTGTCTTCCTGTACTGGCAGCGAAGCAGATCAAAGACACCAGTCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* * *
46841307 GCAGCGGAGTAGGTTAAAAA-AG
66 ACAGCGGAGCAGGCTAAAAATAG
* * * * *
46841329 TAGATCTTGCCTTCCTGCATCGACAGCGAAGTAGATCGAAGTCACTAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
46841394 TCAGCGGAGCAGGCTAAAAATAG
66 ACAGCGGAGCAGGCTAAAAATAG
*
46841417 CAGATCTTGCCTTCCTGCACCGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
46841482 GCAGCAGAGCAGGCTAAAAATAG
66 ACAGCGGAGCAGGCTAAAAATAG
* * * * *
46841505 CAGATCTTACATTCCTGCACCGACAACGAAGCAGATCAAAGTCACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
46841570 ACAGTGGAGCAGGCTAAAAATAG
66 ACAGCGGAGCAGGCTAAAAATAG
* *
46841593 CAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACAACAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* * *
46841658 ACAGTGGAGTAGGTTAAAAATAG
66 ACAGCGGAGCAGGCTAAAAATAG
* * * * *
46841681 TAGATATTGTCTTCCTGCACCGACAGCGAAGCAGATCGATGACCCCAGCC
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
46841731 CTATCTCCCT
Statistics
Matches: 356, Mismatches: 45, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
87 71 0.20
88 285 0.80
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
ACAGCGGAGCAGGCTAAAAATAG
Found at i:46841793 original size:44 final size:44
Alignment explanation
Indices: 46841730--46842149 Score: 516
Period size: 44 Copynumber: 9.7 Consensus size: 44
46841720 TGACCCCAGC
**
46841730 CCTATCTCCCTGTTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
46841774 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
*
46841818 CATATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * *
46841862 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * *
46841906 TCTATCTCCCTGGGCAGCAGTGGAATAGATT-AA-A----GAAT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
46841944 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * * * * **
46841988 CCTATCTCCCTAGTCAGCAGTAGAATAGGTTGAAGGTTAAGAAT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * * * *
46842032 TCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGT-AGGT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGA-AT
* * *
46842076 CCTATCTCCCT-GATCAGCAGTGGAATAGGTTGAAGATCGTGAAC
1 CCTATCTCCCTGGA-CAGCAGTGGAATAGGTTAAAGATTGTGAAT
* *
46842120 CCTATCTCCCT-GAGCAACAGTGGAGTAGGT
1 CCTATCTCCCTGGA-CAGCAGTGGAATAGGT
46842150 GGAAAATAGC
Statistics
Matches: 329, Mismatches: 38, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
38 32 0.10
39 2 0.01
40 1 0.00
42 1 0.00
43 4 0.01
44 288 0.88
45 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (44 bp):
CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
Found at i:46841978 original size:214 final size:214
Alignment explanation
Indices: 46841730--46842143 Score: 616
Period size: 214 Copynumber: 1.9 Consensus size: 214
46841720 TGACCCCAGC
** *
46841730 CCTATCTCCCTGTTCAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGACAGCAGT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTAGACAGCAGT
* ** *
46841795 GGAATAGGTTAAAGATTGTGAA-TCATATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGT-
66 AGAATAGGTTAAAGATTAAGAATTC-TATCTCCCTGGACAGCAGTGGAATAGATTAAAGATTGTA
* * ** * *
46841858 GAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAG
130 G-ATCCTATCTCCCTGATCAGCAGTGGAATAGGTTGAAGATCGAGAACCCTATCTCCCTGAGCAA
46841923 CAGTGGAATAGATTAAAGAAT
194 CAGTGGAATAGATTAAAGAAT
*
46841944 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTAGTCAGCAGT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTAGACAGCAGT
* * * *
46842009 AGAATAGGTTGAAGGTTAAGAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGTAG
66 AGAATAGGTTAAAGATTAAGAATTCTATCTCCCTGGACAGCAGTGGAATAGATTAAAGATTGTAG
* *
46842074 GTCCTATCTCCCTGATCAGCAGTGGAATAGGTTGAAGATCGTGAACCCTATCTCCCTGAGCAACA
131 ATCCTATCTCCCTGATCAGCAGTGGAATAGGTTGAAGATCGAGAACCCTATCTCCCTGAGCAACA
46842139 GTGGA
196 GTGGA
46842144 GTAGGTGGAA
Statistics
Matches: 178, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
214 175 0.98
215 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (214 bp):
CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTAGACAGCAGT
AGAATAGGTTAAAGATTAAGAATTCTATCTCCCTGGACAGCAGTGGAATAGATTAAAGATTGTAG
ATCCTATCTCCCTGATCAGCAGTGGAATAGGTTGAAGATCGAGAACCCTATCTCCCTGAGCAACA
GTGGAATAGATTAAAGAAT
Found at i:46841980 original size:82 final size:84
Alignment explanation
Indices: 46841858--46842103 Score: 309
Period size: 82 Copynumber: 2.9 Consensus size: 84
46841848 TAAAGATTGT
* * *
46841858 GAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAG
1 GAATCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGAGAATCCTATCTCCCTGGTCAG
46841923 CAGTGGAATAGATT-A-AA
66 CAGTGGAATAGATTAAGAA
* * *
46841940 GAATCCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTAGTCAG
1 GAATCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGAGAATCCTATCTCCCTGGTCAG
* *
46842005 CAGTAGAATAGGTTGAAGGTTAA
66 CAGTGGAATAGATT-AA-G--AA
* * * * *
46842028 GAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGTAG-GTCCTATCTCCCTGATCA
1 GAATCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTG-AGAATCCTATCTCCCTGGTCA
46842092 GCAGTGGAATAG
65 GCAGTGGAATAG
46842104 GTTGAAGATC
Statistics
Matches: 140, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
82 71 0.51
84 1 0.01
88 67 0.48
89 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (84 bp):
GAATCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGAGAATCCTATCTCCCTGGTCAG
CAGTGGAATAGATTAAGAA
Found at i:46841996 original size:170 final size:170
Alignment explanation
Indices: 46841770--46842103 Score: 517
Period size: 170 Copynumber: 2.0 Consensus size: 170
46841760 TAAAGATTGT
*
46841770 GAATCCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCATATCTCCCTGGACAG
1 GAATCCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCATATCTCCCTAGACAG
* ** * *
46841835 CAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
66 CAGTAGAATAGGTTAAAGATTAAGAATCCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATT
* *
46841900 G-AGAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAA
131 GTAG-ATCCTATCTCCCTGAGCAGCAGTGGAATAGATTAAA
* *
46841940 GAATCCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTAGTCAG
1 GAATCCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCATATCTCCCTAGACAG
* * *
46842005 CAGTAGAATAGGTTGAAGGTTAAGAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATT
66 CAGTAGAATAGGTTAAAGATTAAGAATCCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATT
* *
46842070 GTAGGTCCTATCTCCCTGATCAGCAGTGGAATAG
131 GTAGATCCTATCTCCCTGAGCAGCAGTGGAATAG
46842104 GTTGAAGATC
Statistics
Matches: 148, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
170 146 0.99
171 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (170 bp):
GAATCCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCATATCTCCCTAGACAG
CAGTAGAATAGGTTAAAGATTAAGAATCCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATT
GTAGATCCTATCTCCCTGAGCAGCAGTGGAATAGATTAAA
Found at i:46842542 original size:44 final size:44
Alignment explanation
Indices: 46842449--46842610 Score: 120
Period size: 44 Copynumber: 3.8 Consensus size: 44
46842439 ATGGCAAATT
* * * *
46842449 TTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCCGATAATC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGATAATC
* * * *
46842493 CTATCTCCCTGAAGTTGCAGTGAAGCGGATTAAAACC-TTGGATC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGAT-AATC
* * ** * *
46842537 TTATCTCTCTGAAGTTGCAGAG-AGCAGA--ACGCATC--TAGTC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGATTA-AAACCGATAATC
* *
46842577 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAA
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAA
46842611 TAAACAAATC
Statistics
Matches: 92, Mismatches: 21, Indels: 12
0.74 0.17 0.10
Matches are distributed among these distances:
40 22 0.24
41 8 0.09
42 2 0.02
43 7 0.08
44 53 0.58
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGATAATC
Found at i:46843008 original size:19 final size:19
Alignment explanation
Indices: 46842984--46843037 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
46842974 AATCGTCGAG
46842984 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
46843003 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
46843022 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
46843038 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:46843063 original size:22 final size:22
Alignment explanation
Indices: 46842997--46843060 Score: 80
Period size: 19 Copynumber: 3.0 Consensus size: 22
46842987 ATGCAATCTT
*
46842997 AGATATGATATGCAATCTT---
1 AGATATGATATGTAATCTTAGA
46843016 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
46843038 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
46843061 GATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 18 0.46
22 8 0.21
23 13 0.33
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:46843072 original size:23 final size:23
Alignment explanation
Indices: 46843026--46843071 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
46843016 AGATATGATA
*
46843026 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
46843049 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
46843071 T
1 T
46843072 TAGATACCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:46843263 original size:19 final size:21
Alignment explanation
Indices: 46843239--46843277 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
46843229 TGTTTTCTTT
*
46843239 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
46843258 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
46843278 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:46843508 original size:15 final size:15
Alignment explanation
Indices: 46843484--46843536 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
46843474 GTTTTTAGTC
46843484 TATT-TTATTAATTT
1 TATTATTATTAATTT
* *
46843498 TGTTATTATTATTTT
1 TATTATTATTAATTT
*
46843513 TATTA-TATTATATAT
1 TATTATTATTA-ATTT
46843528 TATTATTAT
1 TATTATTAT
46843537 ACCTACATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
14 8 0.26
15 20 0.65
16 3 0.10
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (15 bp):
TATTATTATTAATTT
Found at i:46843908 original size:2 final size:2
Alignment explanation
Indices: 46843901--46843928 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
46843891 TTATGTATTT
46843901 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
46843929 AGTTTTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:46843919 original size:51 final size:50
Alignment explanation
Indices: 46843798--46843919 Score: 124
Period size: 51 Copynumber: 2.4 Consensus size: 50
46843788 TTTTCCACGT
**
46843798 TTTTATATTATACT-TATATA-TTTCATTTTTTTGTAAATGCATGAATATA
1 TTTTATATTATA-TATATATATTTTCATTTTTTCATAAATGCATGAATATA
* * * * *
46843847 TTTTATATGTAAATATTTATATTTTCCTTGTTTTCATAAATGCAT-TATGTA
1 TTTTATAT-TATATATATATATTTTCATT-TTTTCATAAATGCATGAATATA
46843898 TTTTATATATATATATATATAT
1 TTTTATAT-TATATATATATAT
46843920 ATATATATAA
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
49 9 0.15
50 8 0.14
51 29 0.49
52 13 0.22
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (50 bp):
TTTTATATTATATATATATATTTTCATTTTTTCATAAATGCATGAATATA
Found at i:46848891 original size:15 final size:16
Alignment explanation
Indices: 46848871--46848916 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
46848861 TTTTTTATTA
46848871 TTTTTAATTTA-ATAG
1 TTTTTAATTTATATAG
*
46848886 TTTTTAAATATATATAG
1 TTTTT-AATTTATATAG
*
46848903 TTTTAAATTTATAT
1 TTTTTAATTTATAT
46848917 GATCTAACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 5 0.19
16 13 0.50
17 8 0.31
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (16 bp):
TTTTTAATTTATATAG
Found at i:46853533 original size:3 final size:3
Alignment explanation
Indices: 46853520--46853602 Score: 64
Period size: 3 Copynumber: 27.0 Consensus size: 3
46853510 TTACTATTTA
*
46853520 ATT ATTT ATT ATT ATT A-T ATT A-T ATT ATT ACTT GTTT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT A-TT -ATT ATT ATT ATT
* * *
46853566 ATCC ATT ATT ATT ATT ATT GA-T ATT GTA ATT ATT ATT
1 AT-T ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT
46853603 TTCGTGTACA
Statistics
Matches: 64, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
2 5 0.08
3 49 0.77
4 10 0.16
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:46853545 original size:13 final size:13
Alignment explanation
Indices: 46853520--46853581 Score: 61
Period size: 13 Copynumber: 4.5 Consensus size: 13
46853510 TTACTATTTA
46853520 ATTATTTATTATT
1 ATTATTTATTATT
46853533 ATTATATTATATTATT
1 A-T-TATT-TATTATT
*
46853549 ACTTGTTTATTATT
1 A-TTATTTATTATT
**
46853563 ATTATCCATTATT
1 ATTATTTATTATT
46853576 ATTATT
1 ATTATT
46853582 ATTGATATTG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
13 15 0.38
14 9 0.22
15 7 0.17
16 9 0.22
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (13 bp):
ATTATTTATTATT
Found at i:46855155 original size:31 final size:31
Alignment explanation
Indices: 46855094--46855155 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
46855084 TAAAATAATT
*
46855094 TTAAATTATTTAAAAATTTTCATTTAAGTCA
1 TTAAATTATTCAAAAATTTTCATTTAAGTCA
* * * *
46855125 TTAAATTATTCGAAAGTTTTTATTTTAGTCA
1 TTAAATTATTCAAAAATTTTCATTTAAGTCA
46855156 ATAGACTGGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.50
Consensus pattern (31 bp):
TTAAATTATTCAAAAATTTTCATTTAAGTCA
Found at i:46860486 original size:11 final size:11
Alignment explanation
Indices: 46860456--46860519 Score: 65
Period size: 11 Copynumber: 5.7 Consensus size: 11
46860446 AAACTAATCC
46860456 TCTCTCAATTAT
1 TCTCTCAATT-T
*
46860468 TTTCTCAATTT
1 TCTCTCAATTT
*
46860479 TCTCTCAAATT
1 TCTCTCAATTT
*
46860490 GCTCTCAATTT
1 TCTCTCAATTT
* * *
46860501 CCTTTCAAATT
1 TCTCTCAATTT
46860512 TCTCTCAA
1 TCTCTCAA
46860520 ATCCATATTT
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
11 33 0.79
12 9 0.21
ACGTcount: A:0.23, C:0.27, G:0.02, T:0.48
Consensus pattern (11 bp):
TCTCTCAATTT
Found at i:46860498 original size:22 final size:22
Alignment explanation
Indices: 46860470--46860519 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
46860460 TCAATTATTT
*
46860470 TCTCAATTTTCTCTCAAATTGC
1 TCTCAATTTCCTCTCAAATTGC
* *
46860492 TCTCAATTTCCTTTCAAATTTC
1 TCTCAATTTCCTCTCAAATTGC
46860514 TCTCAA
1 TCTCAA
46860520 ATCCATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.24, C:0.28, G:0.02, T:0.46
Consensus pattern (22 bp):
TCTCAATTTCCTCTCAAATTGC
Found at i:46862925 original size:26 final size:25
Alignment explanation
Indices: 46862896--46862948 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 25
46862886 AACCCTAAAC
46862896 TAATTTATTAA-AAATTTATAAATTTA
1 TAATTTA-TAATAAATTTAT-AATTTA
46862922 TAATTTATAATTAAATTTATAATTTA
1 TAATTTATAA-TAAATTTATAATTTA
46862948 T
1 T
46862949 TTGACAAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 3 0.12
26 14 0.56
27 8 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
TAATTTATAATAAATTTATAATTTA
Found at i:46862928 original size:7 final size:7
Alignment explanation
Indices: 46862908--46862948 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
46862898 ATTTATTAAA
46862908 AATTTAT
1 AATTTAT
46862915 AAATTTAT
1 -AATTTAT
46862923 AATTTAT
1 AATTTAT
46862930 AA-TTA-
1 AATTTAT
46862935 AATTTAT
1 AATTTAT
46862942 AATTTAT
1 AATTTAT
46862949 TTGACAAACC
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 2 0.06
6 6 0.19
7 16 0.52
8 7 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
AATTTAT
Found at i:46863055 original size:102 final size:102
Alignment explanation
Indices: 46862879--46863080 Score: 352
Period size: 102 Copynumber: 2.0 Consensus size: 102
46862869 TTAAGGTATT
*
46862879 ACTTAAAAACCCTAAACTAATTTATTAAAAATTTATAAATTTATAATTTATAATTAAATTTATAA
1 ACTTAAAAACCCTAAACTAATTTATTAAAAATTTATAAATTTATAAATTATAATTAAATTTATAA
* *
46862944 TTTATTTGACAAACCTTAACAAAAACCCTAACCCTCA
66 TTTAATTGACAAACCCTAACAAAAACCCTAACCCTCA
*
46862981 ACTTAAAAACCCTAAACTAATTTATTAAAAATTTATAAATTTATAAATTATAATTAAATTT-TGA
1 ACTTAAAAACCCTAAACTAATTTATTAAAAATTTATAAATTTATAAATTATAATTAAATTTATAA
46863045 TATTAATTGACAAACCCTAACAAAAACCCTAACCCT
66 T-TTAATTGACAAACCCTAACAAAAACCCTAACCCT
46863081 AACCCTAACA
Statistics
Matches: 95, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
101 3 0.03
102 92 0.97
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.35
Consensus pattern (102 bp):
ACTTAAAAACCCTAAACTAATTTATTAAAAATTTATAAATTTATAAATTATAATTAAATTTATAA
TTTAATTGACAAACCCTAACAAAAACCCTAACCCTCA
Found at i:46863109 original size:22 final size:22
Alignment explanation
Indices: 46863081--46863154 Score: 116
Period size: 22 Copynumber: 3.4 Consensus size: 22
46863071 CCCTAACCCT
*
46863081 AACCCTAACACTTTAACTTAAA
1 AACCCTAACACCTTAACTTAAA
46863103 AACCCTAA-ACCCTTAACTTAAA
1 AACCCTAACA-CCTTAACTTAAA
46863125 AACCCTAAC-CCTTAACTTAAA
1 AACCCTAACACCTTAACTTAAA
46863146 AACCCTAAC
1 AACCCTAAC
46863155 TCTAACCCTA
Statistics
Matches: 49, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
21 22 0.45
22 27 0.55
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (22 bp):
AACCCTAACACCTTAACTTAAA
Found at i:46863134 original size:21 final size:21
Alignment explanation
Indices: 46863081--46863154 Score: 121
Period size: 21 Copynumber: 3.4 Consensus size: 21
46863071 CCCTAACCCT
*
46863081 AACCCTAACACTTTAACTTAAA
1 AACCCTAAC-CCTTAACTTAAA
46863103 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
46863125 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
46863146 AACCCTAAC
1 AACCCTAAC
46863155 TCTAACCCTA
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
21 24 0.48
22 23 0.46
23 3 0.06
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:46863279 original size:58 final size:59
Alignment explanation
Indices: 46863185--46863310 Score: 202
Period size: 58 Copynumber: 2.2 Consensus size: 59
46863175 GATATAATTT
*
46863185 AATA-AATTTTACTAACACACTATAGCGTTTTTACAAAATGTTTCGATTGGTAC-AAAA
1 AATATAATTTTACTAACAAACTATAGCGTTTTTACAAAATGTTTCGATTGGTACAAAAA
* * *
46863242 AATATAATTTTACTAACAAAGTATTGCGTTTTTACAAAATGTTTTGATTGGTACAAAAA
1 AATATAATTTTACTAACAAACTATAGCGTTTTTACAAAATGTTTCGATTGGTACAAAAA
46863301 AATATAATTT
1 AATATAATTT
46863311 GTTTACAATG
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
57 4 0.06
58 45 0.71
59 14 0.22
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.38
Consensus pattern (59 bp):
AATATAATTTTACTAACAAACTATAGCGTTTTTACAAAATGTTTCGATTGGTACAAAAA
Found at i:46867218 original size:37 final size:37
Alignment explanation
Indices: 46867168--46867301 Score: 227
Period size: 37 Copynumber: 3.7 Consensus size: 37
46867158 NNNNNNNNNN
46867168 TGATCAAGAGACAAAGTGATAAGTGGCTACACTTATC
1 TGATCAAGAGACAAAGTGATAAGTGGCTACACTTATC
46867205 TGATCAAGAGACAAAGTGATAAGTGGCTACACTTATC
1 TGATCAAGAGACAAAGTGATAAGTGGCTACACTTATC
* *
46867242 TGATCAAGAAACAAAGTGATAGGTGGCTACACTTATC
1 TGATCAAGAGACAAAGTGATAAGTGGCTACACTTATC
*
46867279 TGATC-AGGGAC-AAGTGATAAGTG
1 TGATCAAGAGACAAAGTGATAAGTG
46867302 ATCATACGTA
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 11 0.12
36 4 0.04
37 77 0.84
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (37 bp):
TGATCAAGAGACAAAGTGATAAGTGGCTACACTTATC
Found at i:46869700 original size:124 final size:124
Alignment explanation
Indices: 46869432--46869989 Score: 875
Period size: 124 Copynumber: 4.5 Consensus size: 124
46869422 CAAACATGCT
* * *
46869432 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATTCTTCTGATAAAGCATCCTACTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTACTT
* * *
46869497 GAAGTG-TTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTCAGGACCT
66 GAAGCGTTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTAGGACCA
* * * *
46869555 ACTGTAGAAAAAACGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTAATAAAGCATCCTACTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTACTT
* * *
46869620 GAAGCGTTTTTTATACTATTCACTCAGAAACGTCAACTTGAAATTATTTTTTAGAACCA
66 GAAGCGTTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTAGGACCA
*
46869679 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTGCTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTACTT
* * *
46869744 GAAGCGTCTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTTTTTTTTAGGACCA
66 GAAGCGTTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTAGGACCA
* * *
46869803 ACTGTAGCAAAAGCGCGTCCATGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCTTGCTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTACTT
*
46869868 GAAGCGTTTTTTATACTATTCGCTCAAAAACGTCAACTCGAAATTATTTTTTCAGGACCA
66 GAAGCGTTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTT-AGGACCA
* * * *
46869928 ACTGTAGCAAAAGTGCGTCTATGTGGGCTCGATTTTAGAAATTCTTCTGATAAAGCATCCTA
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTA
46869990 TTTTGATTTT
Statistics
Matches: 400, Mismatches: 33, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
123 65 0.16
124 271 0.68
125 64 0.16
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (124 bp):
ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTACTT
GAAGCGTTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTAGGACCA
Found at i:46870149 original size:22 final size:21
Alignment explanation
Indices: 46870109--46870154 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
46870099 TTTTCTCTAA
**
46870109 AACCCTAAAAACCTTAAACCCT
1 AACCCTAAAAACCCCAAA-CCT
46870131 AACCCTAAAAACCCCAAACCT
1 AACCCTAAAAACCCCAAACCT
46870152 AAC
1 AAC
46870155 GTGGAGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.48, C:0.39, G:0.00, T:0.13
Consensus pattern (21 bp):
AACCCTAAAAACCCCAAACCT
Found at i:46870596 original size:19 final size:19
Alignment explanation
Indices: 46870571--46870616 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
46870561 TTTTTTAAAT
46870571 ATTAAAAGTT-TAAAAAAA
1 ATTAAAAGTTCTAAAAAAA
*
46870589 AGTTAAAAATTCTAAAAAAA
1 A-TTAAAAGTTCTAAAAAAA
46870609 ATTAAAAG
1 ATTAAAAG
46870617 AATATATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.04
19 14 0.58
20 9 0.38
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (19 bp):
ATTAAAAGTTCTAAAAAAA
Found at i:46873721 original size:47 final size:46
Alignment explanation
Indices: 46873599--46873776 Score: 257
Period size: 46 Copynumber: 3.8 Consensus size: 46
46873589 ACAAGGCTAT
* *
46873599 AACTCAGTATGATTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
* * * *
46873645 AACTCATTATGGTTTTCTTTACCGAAATACCATACATACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
*
46873691 AACATCAGTATGGTTTTCTTCATTGAAATACCATACCTACTTTTCAC
1 AAC-TCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
* * *
46873738 AACTTAGTATGGTTTTCTTCAATGGAATACCATACCTAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTAC
46873777 ATTACACACT
Statistics
Matches: 118, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
46 77 0.65
47 41 0.35
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.37
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
Found at i:46873767 original size:93 final size:93
Alignment explanation
Indices: 46873602--46873772 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
46873592 AGGCTATAAC
* * *
46873602 TCAGTATGATTTTCTTCACGGAAATACCATACCTACTTTTCACAACTCATTATGGTTTTCTTTAC
1 TCAGTATGATTTTCTTCACGGAAATACCATACCTACTTTTCACAACTCAGTATGGTTTTCTTCAA
46873667 CGAAATACCATACATACTTTTCACAACA
66 CGAAATACCATACATACTTTTCACAACA
* ** *
46873695 TCAGTATGGTTTTCTTCATTGAAATACCATACCTACTTTTCACAACTTAGTATGGTTTTCTTCAA
1 TCAGTATGATTTTCTTCACGGAAATACCATACCTACTTTTCACAACTCAGTATGGTTTTCTTCAA
* *
46873760 TGGAATACCATAC
66 CGAAATACCATAC
46873773 CTACATTACA
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (93 bp):
TCAGTATGATTTTCTTCACGGAAATACCATACCTACTTTTCACAACTCAGTATGGTTTTCTTCAA
CGAAATACCATACATACTTTTCACAACA
Found at i:46875057 original size:16 final size:17
Alignment explanation
Indices: 46875011--46875058 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
46875001 AAATTCTTTT
46875011 TAAATCACAAAATTCAA
1 TAAATCACAAAATTCAA
*
46875028 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAA
*
46875045 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
46875059 TTCTAAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAATCACAAAATTCAA
Found at i:46886074 original size:16 final size:16
Alignment explanation
Indices: 46886039--46886085 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
46886029 AAAATCATGA
*
46886039 TTATTGATA-AAAATAT
1 TTATTGATATAAAA-AG
46886055 TTATAT-ATATAAAAAG
1 TTAT-TGATATAAAAAG
46886071 TTATTGATATAAAAA
1 TTATTGATATAAAAA
46886086 AATTGAATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 1 0.04
16 21 0.78
17 5 0.19
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.40
Consensus pattern (16 bp):
TTATTGATATAAAAAG
Found at i:46893295 original size:22 final size:20
Alignment explanation
Indices: 46893263--46893305 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 20
46893253 ATATGAGAAA
46893263 ATTTATA-TTTTAATATAATT
1 ATTTATATTTTTAA-ATAATT
46893283 ATTTATAACTTTTTAAATAATT
1 ATTTAT-A-TTTTTAAATAATT
46893305 A
1 A
46893306 ATGCAACAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 6 0.30
21 1 0.05
22 7 0.35
23 6 0.30
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTATATTTTTAAATAATT
Found at i:46893673 original size:21 final size:20
Alignment explanation
Indices: 46893635--46893673 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
46893625 GTTCAAATTG
*
46893635 AATTAAATTTTAACCATTCA
1 AATTAAATTTTAAACATTCA
*
46893655 AATTTAATTTTAGAACATT
1 AATTAAATTTTA-AACATT
46893674 GATTTTGAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.44
Consensus pattern (20 bp):
AATTAAATTTTAAACATTCA
Found at i:46893860 original size:20 final size:18
Alignment explanation
Indices: 46893837--46893876 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 18
46893827 AAAACAAAGC
46893837 ATAAAAATTATAATAAAATA
1 ATAAAAATT-TAA-AAAATA
46893857 ATAAAAATTTAAAAAATA
1 ATAAAAATTTAAAAAATA
46893875 AT
1 AT
46893877 TCATAGAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
19 3 0.15
20 9 0.45
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAAAAATTTAAAAAATA
Found at i:46900935 original size:17 final size:17
Alignment explanation
Indices: 46900913--46900970 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
46900903 CCAAATAAGT
*
46900913 AATAAATAGTATAATAA
1 AATAAATAATATAATAA
46900930 AATAAAGTAATA-AATAA
1 AATAAA-TAATATAATAA
*
46900947 AGTAAA-AATAATAATAA
1 AATAAATAAT-ATAATAA
46900964 TAATAAA
1 -AATAAA
46900971 AATTGGGTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
15 3 0.09
16 1 0.03
17 21 0.62
18 9 0.26
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (17 bp):
AATAAATAATATAATAA
Found at i:46900944 original size:12 final size:12
Alignment explanation
Indices: 46900905--46900970 Score: 59
Period size: 12 Copynumber: 5.6 Consensus size: 12
46900895 ATTAATATCC
46900905 AAAT-AAGTAAT
1 AAATAAAGTAAT
*
46900916 AAATAGTA-TAAT
1 AAATA-AAGTAAT
46900928 AAAATAAAGTAAT
1 -AAATAAAGTAAT
46900941 AAATAAAGTAA-
1 AAATAAAGTAAT
*
46900952 AAATAATAATAAT
1 AAATAA-AGTAAT
46900965 -AATAAA
1 AAATAAA
46900971 AATTGGGTTG
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
11 11 0.24
12 25 0.54
13 10 0.22
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (12 bp):
AAATAAAGTAAT
Found at i:46901409 original size:13 final size:13
Alignment explanation
Indices: 46901391--46901418 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
46901381 CTTGCCTGTT
46901391 CTGCGGGTTCTAA
1 CTGCGGGTTCTAA
46901404 CTGCGGGTTCTAA
1 CTGCGGGTTCTAA
46901417 CT
1 CT
46901419 CCAACTCTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.25, G:0.29, T:0.32
Consensus pattern (13 bp):
CTGCGGGTTCTAA
Found at i:46910319 original size:107 final size:107
Alignment explanation
Indices: 46910133--46910352 Score: 404
Period size: 107 Copynumber: 2.1 Consensus size: 107
46910123 TATGGCTGAA
* * *
46910133 TCTGGAGAAGTTACATTAGTTTGTTTAAAAAGCCCAGAAGTTAAATCCTAACTTTAGAAATCGAG
1 TCTGGAGAAATTACATTAGTTTGTTTAAAAAACCCAGAAGTTAAATCCTAACTTTAGAAACCGAG
46910198 AATTTCGAAAATAATATTTTTAGCAAAATACTTACTTGTTAT
66 AATTTCGAAAATAATATTTTTAGCAAAATACTTACTTGTTAT
46910240 TCTGGAGAAATTACATTAGTTTGTTTAAAAAACCCAGAAGTTAAATCCTAACTTTAGAAACCGAG
1 TCTGGAGAAATTACATTAGTTTGTTTAAAAAACCCAGAAGTTAAATCCTAACTTTAGAAACCGAG
46910305 AATTTCGAAAATAATATTTTTAGCAAAATACTTACTTGTTAT
66 AATTTCGAAAATAATATTTTTAGCAAAATACTTACTTGTTAT
*
46910347 TTTGGA
1 TCTGGA
46910353 AATTTCGCAC
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
107 109 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (107 bp):
TCTGGAGAAATTACATTAGTTTGTTTAAAAAACCCAGAAGTTAAATCCTAACTTTAGAAACCGAG
AATTTCGAAAATAATATTTTTAGCAAAATACTTACTTGTTAT
Found at i:46910796 original size:38 final size:38
Alignment explanation
Indices: 46910745--46910864 Score: 222
Period size: 38 Copynumber: 3.2 Consensus size: 38
46910735 GGTCCTAAGT
46910745 TAGAAGATTACCTGAAACATATTAACAAACGAGTGAGC
1 TAGAAGATTACCTGAAACATATTAACAAACGAGTGAGC
46910783 TAGAAGATTACCTGAAACATATTAACAAACGAGTGAGC
1 TAGAAGATTACCTGAAACATATTAACAAACGAGTGAGC
* *
46910821 TAGAAGATTACCTGAAACATATTAATAAACAAGTGAGC
1 TAGAAGATTACCTGAAACATATTAACAAACGAGTGAGC
46910859 TAGAAG
1 TAGAAG
46910865 CTCAGTGTGT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 80 1.00
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.22
Consensus pattern (38 bp):
TAGAAGATTACCTGAAACATATTAACAAACGAGTGAGC
Found at i:46914400 original size:18 final size:18
Alignment explanation
Indices: 46914358--46914401 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
46914348 TTTTAACAAA
*
46914358 AATATATAAAAATTCAAT
1 AATATAAAAAAATTCAAT
46914376 -ATAATAAAAAAATTCAAT
1 AAT-ATAAAAAAATTCAAT
46914394 AATATAAA
1 AATATAAA
46914402 TAGTACAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 2 0.09
18 19 0.83
19 2 0.09
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (18 bp):
AATATAAAAAAATTCAAT
Found at i:46914724 original size:29 final size:31
Alignment explanation
Indices: 46914680--46914739 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 31
46914670 GGGGGTGGGA
46914680 TGGGAGGGGAGCAAAAGTTATGGG-GGAAAG
1 TGGGAGGGGAGCAAAAGTTATGGGAGGAAAG
* *
46914710 TGGGA-GGGAGTAAAAGTTTTGGGAGGAAAG
1 TGGGAGGGGAGCAAAAGTTATGGGAGGAAAG
46914740 GGAACAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.33, C:0.02, G:0.48, T:0.17
Consensus pattern (31 bp):
TGGGAGGGGAGCAAAAGTTATGGGAGGAAAG
Found at i:46927385 original size:30 final size:31
Alignment explanation
Indices: 46927350--46927417 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 31
46927340 TTTTTTTTGT
* *
46927350 CTAATTTGATACTTAAACTTATAC-TTT-CTC
1 CTAATTTGAAACCTAAACTT-TACATTTACTC
*
46927380 CTAATTTGAAACCTAAACTTTACATTTATTC
1 CTAATTTGAAACCTAAACTTTACATTTACTC
46927411 CTAATTT
1 CTAATTT
46927418 AGTATTTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 3 0.09
30 21 0.64
31 9 0.27
ACGTcount: A:0.32, C:0.19, G:0.03, T:0.46
Consensus pattern (31 bp):
CTAATTTGAAACCTAAACTTTACATTTACTC
Found at i:46932129 original size:44 final size:44
Alignment explanation
Indices: 46932041--46932130 Score: 103
Period size: 44 Copynumber: 2.0 Consensus size: 44
46932031 CGAAAAAAAT
* * *
46932041 AATAATAAATAATTTATAATACAAATGAAATATATTATGCATAA
1 AATAATAAATAATATATAACACAAAAGAAATATATTATGCATAA
* *
46932085 AATAATAAATGATATATAACATAAAAGCAAATAT-TTGATG-ATAA
1 AATAATAAATAATATATAACACAAAAG-AAATATATT-ATGCATAA
46932129 AA
1 AA
46932131 GATAATTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
44 30 0.77
45 9 0.23
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (44 bp):
AATAATAAATAATATATAACACAAAAGAAATATATTATGCATAA
Found at i:46944023 original size:16 final size:16
Alignment explanation
Indices: 46944004--46944047 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
46943994 ACAAAAATGG
*
46944004 AAGGGTAGAAAATTGA
1 AAGGGTAGAAAATTAA
*
46944020 AAGGGTATAAAATTAA
1 AAGGGTAGAAAATTAA
*
46944036 AAGGATAGAAAA
1 AAGGGTAGAAAA
46944048 CATAATTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.25, T:0.18
Consensus pattern (16 bp):
AAGGGTAGAAAATTAA
Found at i:46946879 original size:70 final size:70
Alignment explanation
Indices: 46946766--46946903 Score: 258
Period size: 70 Copynumber: 2.0 Consensus size: 70
46946756 CAAACAGCAC
46946766 AAGACCTGATATAGCTTTTGCTGTAAACTTGTTAGCAAGATTTAGTTTTTCTCCAACACGTAGAC
1 AAGACCTGATATAGCTTTTGCTGTAAACTTGTTAGCAAGATTTAGTTTTTCTCCAACACGTAGAC
46946831 ATTGG
66 ATTGG
* *
46946836 AAGACCTGATATAGCTTTTGTTGTAAACTTGTTATCAAGATTTAGTTTTTCTCCAACACGTAGAC
1 AAGACCTGATATAGCTTTTGCTGTAAACTTGTTAGCAAGATTTAGTTTTTCTCCAACACGTAGAC
46946901 ATT
66 ATT
46946904 AGAATGGAAT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 66 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (70 bp):
AAGACCTGATATAGCTTTTGCTGTAAACTTGTTAGCAAGATTTAGTTTTTCTCCAACACGTAGAC
ATTGG
Found at i:46955593 original size:16 final size:18
Alignment explanation
Indices: 46955567--46955600 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
46955557 TTTAATTAGA
46955567 TAAATTAATTTTC-CAAT
1 TAAATTAATTTTCTCAAT
46955584 TAAA-TAATTTTCTCAAT
1 TAAATTAATTTTCTCAAT
46955601 CCAATTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:46955854 original size:10 final size:10
Alignment explanation
Indices: 46955839--46955874 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
46955829 TCTAATTTCA
46955839 TCATTTATAT
1 TCATTTATAT
46955849 TCATTTATAT
1 TCATTTATAT
46955859 TCATTTATAT
1 TCATTTATAT
*
46955869 TTATTT
1 TCATTT
46955875 GTTTCTAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (10 bp):
TCATTTATAT
Found at i:46959782 original size:17 final size:17
Alignment explanation
Indices: 46959760--46959794 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
46959750 CACCAAAGTA
46959760 TATATATTATGGAACTG
1 TATATATTATGGAACTG
46959777 TATATATTATGGAACTG
1 TATATATTATGGAACTG
46959794 T
1 T
46959795 TTGGTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (17 bp):
TATATATTATGGAACTG
Found at i:46962640 original size:3 final size:3
Alignment explanation
Indices: 46962627--46962684 Score: 53
Period size: 3 Copynumber: 19.3 Consensus size: 3
46962617 ATTACTTAAC
* * * * * * *
46962627 TAT TTT TAT TAT TAT TGT TAT TAT TAT TAA TGT TAC TAT AAT TAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
46962675 TAT TAT TAT T
1 TAT TAT TAT T
46962685 TGTATTAGTT
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:46964255 original size:2 final size:2
Alignment explanation
Indices: 46964248--46964276 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
46964238 ATTAATTACC
46964248 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
46964277 CCATATCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:46964618 original size:17 final size:17
Alignment explanation
Indices: 46964593--46964657 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
46964583 GCATAACCCT
46964593 TAACCCCTAAATCCCCC
1 TAACCCCTAAATCCCCC
* **
46964610 TAACACCTAAAGCATAACCC
1 TAACCCCT-AA--ATCCCCC
*
46964630 TAACCCCTAAATCCCCT
1 TAACCCCTAAATCCCCC
*
46964647 TAACTCCTAAA
1 TAACCCCTAAA
46964658 GCATAACCCC
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
17 21 0.57
18 2 0.05
19 2 0.05
20 12 0.32
ACGTcount: A:0.37, C:0.42, G:0.02, T:0.20
Consensus pattern (17 bp):
TAACCCCTAAATCCCCC
Done.