Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 255 of 310
Found at i:84078036 original size:13 final size:13
Alignment explanation
Indices: 84078020--84078046 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
84078010 TAATTAAAGG
84078020 GTTAAAATTTAAA
1 GTTAAAATTTAAA
84078033 GTTAAAATTTAAA
1 GTTAAAATTTAAA
84078046 G
1 G
84078047 AGGACAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (13 bp):
GTTAAAATTTAAA
Found at i:84078115 original size:9 final size:9
Alignment explanation
Indices: 84078101--84078294 Score: 125
Period size: 9 Copynumber: 22.0 Consensus size: 9
84078091 GACTTTGGAT
84078101 CATAACTTA
1 CATAACTTA
84078110 CATAACTTA
1 CATAACTTA
84078119 CATAACTTA
1 CATAACTTA
84078128 CATAA--TA
1 CATAACTTA
*
84078135 CATAA-ATA
1 CATAACTTA
* * *
84078143 TATATCATA
1 CATAACTTA
84078152 TCATAACTTA
1 -CATAACTTA
*
84078162 CATAACCTA
1 CATAACTTA
*
84078171 CATAA-ATA
1 CATAACTTA
* * *
84078179 TATATCATA
1 CATAACTTA
*
84078188 TTATAACTTA
1 -CATAACTTA
84078198 CATAACTTA
1 CATAACTTA
84078207 CATAA--TA
1 CATAACTTA
*
84078214 CATAA-ATA
1 CATAACTTA
* * *
84078222 TATATCATA
1 CATAACTTA
84078231 TCATAACTTA
1 -CATAACTTA
84078241 CATAACTTA
1 CATAACTTA
84078250 CATAACTTA
1 CATAACTTA
*
84078259 CATAA-ATA
1 CATAACTTA
* * *
84078267 TATATCATA
1 CATAACTTA
84078276 TCATAACTTA
1 -CATAACTTA
*
84078286 TATAACTTA
1 CATAACTTA
84078295 ATTCTACTTA
Statistics
Matches: 151, Mismatches: 24, Indels: 20
0.77 0.12 0.10
Matches are distributed among these distances:
7 14 0.09
8 20 0.13
9 92 0.61
10 25 0.17
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:84078164 original size:43 final size:43
Alignment explanation
Indices: 84078110--84078294 Score: 285
Period size: 43 Copynumber: 4.4 Consensus size: 43
84078100 TCATAACTTA
84078110 CATAACTTACATAACTTACATAATACATAAATATATATCATAT
1 CATAACTTACATAACTTACATAATACATAAATATATATCATAT
84078153 CATAACTTACATAAC---C----TACATAAATATATATCATAT
1 CATAACTTACATAACTTACATAATACATAAATATATATCATAT
*
84078189 TATAACTTACATAACTTACATAATACATAAATATATATCATAT
1 CATAACTTACATAACTTACATAATACATAAATATATATCATAT
84078232 CATAACTTACATAACTTACATAACTTACATAAATATATATCATAT
1 CATAACTTACATAACTTACATAA--TACATAAATATATATCATAT
*
84078277 CATAACTTATATAACTTA
1 CATAACTTACATAACTTA
84078295 ATTCTACTTA
Statistics
Matches: 130, Mismatches: 3, Indels: 16
0.87 0.02 0.11
Matches are distributed among these distances:
36 34 0.26
39 1 0.01
40 1 0.01
43 57 0.44
45 37 0.28
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.36
Consensus pattern (43 bp):
CATAACTTACATAACTTACATAATACATAAATATATATCATAT
Found at i:84078180 original size:36 final size:36
Alignment explanation
Indices: 84078119--84078254 Score: 177
Period size: 36 Copynumber: 3.6 Consensus size: 36
84078109 ACATAACTTA
84078119 CATAACTTACATAA--TACATAAATATATATCATAT
1 CATAACTTACATAACCTACATAAATATATATCATAT
84078153 CATAACTTACATAACCTACATAAATATATATCATAT
1 CATAACTTACATAACCTACATAAATATATATCATAT
*
84078189 TATAACTTACATAACTTACATAATACATAAATATATATCATAT
1 CATAACTTACATAAC---C----TACATAAATATATATCATAT
*
84078232 CATAACTTACATAACTTACATAA
1 CATAACTTACATAACCTACATAA
84078255 CTTACATAAA
Statistics
Matches: 90, Mismatches: 3, Indels: 16
0.83 0.03 0.15
Matches are distributed among these distances:
34 14 0.16
36 41 0.46
39 1 0.01
43 34 0.38
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.35
Consensus pattern (36 bp):
CATAACTTACATAACCTACATAAATATATATCATAT
Found at i:84078207 original size:88 final size:88
Alignment explanation
Indices: 84078099--84078294 Score: 281
Period size: 88 Copynumber: 2.2 Consensus size: 88
84078089 AAGACTTTGG
*
84078099 ATCATAACTTACATAACTTACATAACTTACAT-AATACATA-AATAT-ATATCATATCATAACTT
1 ATCATAACTTACATAACTTACATAA--TACATAAATACATATAATATCATAACATA-CATAACTT
84078161 ACATAACCTACATAAATATATATCAT
63 ACATAACCTACATAAATATATATCAT
* * * *
84078187 ATTATAACTTACATAACTTACATAATACATAAATATATATCATATCATAACTTACATAACTTACA
1 ATCATAACTTACATAACTTACATAATACATAAATACATATAATATCATAACATACATAACTTACA
*
84078252 TAACTTACATAAATATATATCAT
66 TAACCTACATAAATATATATCAT
*
84078275 ATCATAACTTATATAACTTA
1 ATCATAACTTACATAACTTA
84078295 ATTCTACTTA
Statistics
Matches: 97, Mismatches: 8, Indels: 6
0.87 0.07 0.05
Matches are distributed among these distances:
86 5 0.05
87 7 0.07
88 79 0.81
89 6 0.06
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (88 bp):
ATCATAACTTACATAACTTACATAATACATAAATACATATAATATCATAACATACATAACTTACA
TAACCTACATAAATATATATCAT
Found at i:84078216 original size:52 final size:52
Alignment explanation
Indices: 84078160--84078263 Score: 122
Period size: 52 Copynumber: 2.0 Consensus size: 52
84078150 TATCATAACT
* * *
84078160 TACATAACCTACATA-AATAT-ATATCATATTATAACTTACATAACTTACATAA
1 TACATAA-ATACATATAATATCATAACATA-CATAACTTACATAACTTACATAA
* * *
84078212 TACATAAATATATATCATATCATAACTTACATAACTTACATAACTTACATAA
1 TACATAAATACATATAATATCATAACATACATAACTTACATAACTTACATAA
84078264 ATATATATCA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
51 5 0.11
52 33 0.75
53 6 0.14
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (52 bp):
TACATAAATACATATAATATCATAACATACATAACTTACATAACTTACATAA
Found at i:84078281 original size:79 final size:79
Alignment explanation
Indices: 84078111--84078290 Score: 256
Period size: 79 Copynumber: 2.3 Consensus size: 79
84078101 CATAACTTAC
*
84078111 ATAACTTACATAACTTACATAATACATAAATATATATCATATCATAACTTACATAACCTACATAA
1 ATAACATACATAACTTACATAATACATAAATATATATCATATCATAACTTACATAACCTACATAA
* *
84078176 ATATATATCATATT
66 ATACATATAATATT
* *
84078190 ATAACTTACATAACTTACATAATACATAAATATATATCATATCATAACTTACATAACTTACATAA
1 ATAACATACATAACTTACATAATACATAAATATATATCATATCATAACTTACATAACCTACATAA
*
84078255 CTTACATA-AATA-T
66 -ATACATATAATATT
* *
84078268 ATATCATATCATAACTTATATAA
1 ATAACATA-CATAACTTACATAA
84078291 CTTAATTCTA
Statistics
Matches: 92, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
78 7 0.08
79 80 0.87
80 5 0.05
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (79 bp):
ATAACATACATAACTTACATAATACATAAATATATATCATATCATAACTTACATAACCTACATAA
ATACATATAATATT
Found at i:84083927 original size:66 final size:66
Alignment explanation
Indices: 84083845--84084048 Score: 313
Period size: 66 Copynumber: 3.1 Consensus size: 66
84083835 GCAAATTACT
84083845 CAACTTAAAGCGGAGGCAGCATCGAGAGAAGCAGAGGCTCAAAGAAAATATGAAGAACTCCAGCT
1 CAACTTAAAGCGGAGGCAGCATCGAGAGAAGCAGAGGCTCAAAGAAAATATGAAGAACTCCAGCT
84083910 A
66 A
84083911 CAACTTAAAGCGGAGGCAGCATCGAGAGAAGCAGAGGCTCAAAGAAAATATGAAGAACTCCAGCT
1 CAACTTAAAGCGGAGGCAGCATCGAGAGAAGCAGAGGCTCAAAGAAAATATGAAGAACTCCAGCT
84083976 A
66 A
* * * * * * *
84083977 CAACTTAAAGCGGAGGCGGTAGCGAGGGAAGCAAAGG--CAAGTAGAAAATATGACGAACTCTAG
1 CAACTTAAAGCGGAGGCAGCATCGAGAGAAGCAGAGGCTCAA--AGAAAATATGAAGAACTCCAG
84084040 CTA
64 CTA
84084043 CAACTT
1 CAACTT
84084049 CAGAATATGA
Statistics
Matches: 129, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
64 3 0.02
66 126 0.98
ACGTcount: A:0.41, C:0.19, G:0.26, T:0.13
Consensus pattern (66 bp):
CAACTTAAAGCGGAGGCAGCATCGAGAGAAGCAGAGGCTCAAAGAAAATATGAAGAACTCCAGCT
A
Found at i:84084395 original size:43 final size:43
Alignment explanation
Indices: 84084348--84084435 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
84084338 AAACACCGAC
* * **
84084348 AAAGAACATGA-CTTGTAGTGGCACTTTTATTAAAAACGCCGCT
1 AAAGAACAAGACCTT-TAGCGGCACTTTTAGGAAAAACGCCGCT
* *
84084391 AAAGAACAAGACCTTTAGCGGCATTTTTAGGAAAAGCGCCGCT
1 AAAGAACAAGACCTTTAGCGGCACTTTTAGGAAAAACGCCGCT
84084434 AA
1 AA
84084436 TGGTCAAGTC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 35 0.92
44 3 0.08
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.24
Consensus pattern (43 bp):
AAAGAACAAGACCTTTAGCGGCACTTTTAGGAAAAACGCCGCT
Found at i:84084453 original size:43 final size:42
Alignment explanation
Indices: 84084379--84084536 Score: 138
Period size: 43 Copynumber: 3.7 Consensus size: 42
84084369 CACTTTTATT
* ** * *
84084379 AAAAACGCCGCTAAAGAACAAGACCTTTAGCGGCATTTTTAGG
1 AAAAGCGCCGCTAAAGGTCAAGTCCTATAGCGGCATTTTT-GG
* ** *
84084422 AAAAGCGCCGCTAATGGTCAAGTCCTATAGCGGTGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGTCCTATAGCGGCATTT-TTGG
* * * * *
84084465 AAAAGCGCCGCTAAAAGTTATGTTCTATAGCGGCCTTTTTGG
1 AAAAGCGCCGCTAAAGGTCAAGTCCTATAGCGGCATTTTTGG
* * *
84084507 GAAA-CGCCGCTAAAGGTCATGTTCTATAGC
1 AAAAGCGCCGCTAAAGGTCAAGTCCTATAGC
84084537 AACGTTTTTC
Statistics
Matches: 94, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
41 24 0.26
42 6 0.06
43 63 0.67
44 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (42 bp):
AAAAGCGCCGCTAAAGGTCAAGTCCTATAGCGGCATTTTTGG
Found at i:84084545 original size:41 final size:43
Alignment explanation
Indices: 84084406--84084545 Score: 158
Period size: 43 Copynumber: 3.3 Consensus size: 43
84084396 ACAAGACCTT
* * * * *
84084406 TAGCGGCATTTTTAGGAAAAGCGCCGCTAATGGTCAAGTCCTA
1 TAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCATGTTCTA
* * * *
84084449 TAGCGGTGTTTGTGGGAAAAGCGCCGCTAAAAGTTATGTTCTA
1 TAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCATGTTCTA
*
84084492 TAGCGGCCTTTTTGGG-AAA-CGCCGCTAAAGGTCATGTTCTA
1 TAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCATGTTCTA
**
84084533 TAGCAACGTTTTT
1 TAGCGGCGTTTTT
84084546 CCACATAATT
Statistics
Matches: 80, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
41 30 0.38
42 3 0.04
43 47 0.59
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
TAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCATGTTCTA
Found at i:84085394 original size:12 final size:12
Alignment explanation
Indices: 84085377--84085405 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
84085367 CATTAGTATA
84085377 CATTCCATGATC
1 CATTCCATGATC
84085389 CATTCCATGATC
1 CATTCCATGATC
84085401 CATTC
1 CATTC
84085406 ATATCAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.34, G:0.07, T:0.34
Consensus pattern (12 bp):
CATTCCATGATC
Found at i:84088494 original size:16 final size:16
Alignment explanation
Indices: 84088458--84088493 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
84088448 TAAAAATATA
*
84088458 ATTTTATAATTTTAAT
1 ATTTTATAATCTTAAT
84088474 ATTTTAT-ATCTTAAT
1 ATTTTATAATCTTAAT
84088489 ATTTT
1 ATTTT
84088494 TTAAATGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTTTATAATCTTAAT
Found at i:84088708 original size:15 final size:15
Alignment explanation
Indices: 84088688--84088720 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
84088678 GAACCCACCA
84088688 TAATTTTAGTAGAGT
1 TAATTTTAGTAGAGT
84088703 TAATTTTAGTAGAGT
1 TAATTTTAGTAGAGT
84088718 TAA
1 TAA
84088721 GAGACAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (15 bp):
TAATTTTAGTAGAGT
Found at i:84088814 original size:27 final size:27
Alignment explanation
Indices: 84088777--84088833 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
84088767 ATAGCAAACG
*
84088777 TTTTAGTTTGCGTATAGTTCGGTCTCT
1 TTTTAGTTTGCGTATAGTTCCGTCTCT
84088804 TTTTAGTTTGCGTATAGTTCCGTCTCT
1 TTTTAGTTTGCGTATAGTTCCGTCTCT
84088831 TTT
1 TTT
84088834 AAGTAAAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.11, C:0.16, G:0.19, T:0.54
Consensus pattern (27 bp):
TTTTAGTTTGCGTATAGTTCCGTCTCT
Found at i:84091057 original size:2 final size:2
Alignment explanation
Indices: 84091050--84091093 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
84091040 TCAAAAGTTA
*
84091050 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT GT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
84091092 CT
1 CT
84091094 TCTTCGGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.48, G:0.02, T:0.50
Consensus pattern (2 bp):
CT
Found at i:84091653 original size:15 final size:15
Alignment explanation
Indices: 84091633--84091663 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
84091623 AACTGATACA
*
84091633 AAGAAGAGGATGATG
1 AAGAAGAAGATGATG
84091648 AAGAAGAAGATGATG
1 AAGAAGAAGATGATG
84091663 A
1 A
84091664 TGAAAGAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.35, T:0.13
Consensus pattern (15 bp):
AAGAAGAAGATGATG
Found at i:84091654 original size:18 final size:19
Alignment explanation
Indices: 84091633--84091672 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
84091623 AACTGATACA
84091633 AAGAAGAGGATGATG-AAG
1 AAGAAGAGGATGATGAAAG
*
84091651 AAGAAGATGATGATGAAAG
1 AAGAAGAGGATGATGAAAG
84091670 AAG
1 AAG
84091673 GGAGAAGAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.35, T:0.12
Consensus pattern (19 bp):
AAGAAGAGGATGATGAAAG
Found at i:84094235 original size:29 final size:31
Alignment explanation
Indices: 84094166--84094245 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
84094156 AATCTTAAAA
*
84094166 TTATATATGAATTTTGGTTTAATGAGTAATTG
1 TTATATATGAATTTTGATTT-ATGAGTAATTG
* *
84094198 TT-TACATGAATTTTGATTT-TGTGTAATT-
1 TTATATATGAATTTTGATTTATGAGTAATTG
*
84094226 TTATATATGAAATTCTGATT
1 TTATATATG-AATTTTGATT
84094246 GATCTAATTC
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
28 2 0.05
29 13 0.32
30 9 0.22
31 15 0.37
32 2 0.05
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.53
Consensus pattern (31 bp):
TTATATATGAATTTTGATTTATGAGTAATTG
Found at i:84094734 original size:22 final size:20
Alignment explanation
Indices: 84094706--84094750 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 20
84094696 TTGCATGTAA
84094706 TTTTATATAT-TAAATAATATAT
1 TTTTATA-ATCTAAAT-ATA-AT
84094728 TTTTATAATCTAAATATAAT
1 TTTTATAATCTAAATATAAT
84094748 TTT
1 TTT
84094751 ATTAATTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.23
21 5 0.23
22 12 0.55
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTTATAATCTAAATATAAT
Found at i:84095862 original size:212 final size:212
Alignment explanation
Indices: 84095477--84095893 Score: 708
Period size: 212 Copynumber: 2.0 Consensus size: 212
84095467 AACCACTGAT
* *
84095477 TTAAACACATCAAACATAGATCAGTAATCTAAAAAAATGAAACCAAGAATTAAGCACACATAATT
1 TTAAACACATCAAACATAGATCAATAATCTAAAAAAATCAAACCAAGAATTAAGCACACATAATT
*
84095542 GAGAATAAGAAATTAAGTATTTATTGCGTAAATAAAAATTAAACGACTGAATCCATCATAGAGTT
66 GAGAATAAGAAATTAAGTATTTATTGCGTAAATAAAAATTAAACAACTGAATCCATCATAGAGTT
* ** *
84095607 CATCTCCCTAGGTATTTAGGGAACTAGTTTATACTTAAAAATAAACACATCCAAGACACAGTATA
131 CATCTCCCTAGGTATTTAGAGAACTAGTCCATACTTAAAAATAAACACATCAAAGACACAGTATA
84095672 ACTGAAAGAATCAAGAA
196 ACTGAAAGAATCAAGAA
* * *
84095689 TTAAGCACATCAAACATGGATCAATAATCTAAAAATATCAAACCAAGAATTAAGCACACATAATT
1 TTAAACACATCAAACATAGATCAATAATCTAAAAAAATCAAACCAAGAATTAAGCACACATAATT
* *
84095754 TAGAATACGAAATTAAGTATTTATTGCGTAAATAAAAATTAAACAACTGAATCCATCATAGAGTT
66 GAGAATAAGAAATTAAGTATTTATTGCGTAAATAAAAATTAAACAACTGAATCCATCATAGAGTT
* *
84095819 CATCTCCCTAGGTATTTAGAGAGCTAGTCCATACTTGAAAATAAACACATCAAAGACACAGTATA
131 CATCTCCCTAGGTATTTAGAGAACTAGTCCATACTTAAAAATAAACACATCAAAGACACAGTATA
84095884 ACTGAAAGAA
196 ACTGAAAGAA
84095894 ATAAAGAAAC
Statistics
Matches: 191, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
212 191 1.00
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.25
Consensus pattern (212 bp):
TTAAACACATCAAACATAGATCAATAATCTAAAAAAATCAAACCAAGAATTAAGCACACATAATT
GAGAATAAGAAATTAAGTATTTATTGCGTAAATAAAAATTAAACAACTGAATCCATCATAGAGTT
CATCTCCCTAGGTATTTAGAGAACTAGTCCATACTTAAAAATAAACACATCAAAGACACAGTATA
ACTGAAAGAATCAAGAA
Found at i:84097089 original size:24 final size:20
Alignment explanation
Indices: 84097060--84097111 Score: 52
Period size: 24 Copynumber: 2.5 Consensus size: 20
84097050 ATTTATCAAG
84097060 ATAAATATTAGATTAAATATAAT
1 ATAAATATT--ATTAAA-ATAAT
*
84097083 ATTAAATCTTATTAAAATAAT
1 A-TAAATATTATTAAAATAAT
84097104 A-AAATATT
1 ATAAATATT
84097112 TAAACATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 6 0.23
21 6 0.23
22 6 0.23
23 1 0.04
24 7 0.27
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
ATAAATATTATTAAAATAAT
Found at i:84101301 original size:29 final size:30
Alignment explanation
Indices: 84101268--84101429 Score: 105
Period size: 30 Copynumber: 5.4 Consensus size: 30
84101258 TTGGCACATC
*
84101268 CCTTTTTGAT-ATTCAATAGCCGAAGCTAT
1 CCTTTTTCATAATTCAATAGCCGAAGCTAT
* *
84101297 CCTTTTTCTTAATTCAATAGCTGAAGCTAT
1 CCTTTTTCATAATTCAATAGCCGAAGCTAT
* * ** * * * *
84101327 CATCTTTCATAATTTGATGGTCGTCA-CCAT
1 CCTTTTTCATAATTCAATAGCCG-AAGCTAT
* * ** *
84101357 CCCTTTTCATAATTCGATAGCTAAAGCCAT
1 CCTTTTTCATAATTCAATAGCCGAAGCTAT
* * * *
84101387 CCCTTTTCATAGA-TCGATTGCCGAAGCCAT
1 CCTTTTTCATA-ATTCAATAGCCGAAGCTAT
84101417 CCTTTTTCATAAT
1 CCTTTTTCATAAT
84101430 CGATGGTTGT
Statistics
Matches: 102, Mismatches: 26, Indels: 9
0.74 0.19 0.07
Matches are distributed among these distances:
29 10 0.10
30 90 0.88
31 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (30 bp):
CCTTTTTCATAATTCAATAGCCGAAGCTAT
Found at i:84101365 original size:30 final size:31
Alignment explanation
Indices: 84101331--84101462 Score: 118
Period size: 30 Copynumber: 4.5 Consensus size: 31
84101321 AGCTATCATC
* *
84101331 TTTCATAATTTGATGGTCGTCA-CCATCCCT
1 TTTCATAATTCGATGGTCGTAAGCCATCCCT
*
84101361 TTTCATAATTCGATAG-C-TAAAGCCATCCCT
1 TTTCATAATTCGATGGTCGT-AAGCCATCCCT
* * *
84101391 TTTCATAGA-TCGATTGCCG-AAGCCATCCTT
1 TTTCATA-ATTCGATGGTCGTAAGCCATCCCT
* *
84101421 TTTCATAA-TCGATGGTTGTCA-CCATCCCT
1 TTTCATAATTCGATGGTCGTAAGCCATCCCT
84101450 TTTCATAA-TCGAT
1 TTTCATAATTCGAT
84101463 AGCCGGAGCT
Statistics
Matches: 86, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
28 1 0.01
29 30 0.35
30 53 0.62
31 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (31 bp):
TTTCATAATTCGATGGTCGTAAGCCATCCCT
Found at i:84101431 original size:29 final size:29
Alignment explanation
Indices: 84101353--84101482 Score: 136
Period size: 29 Copynumber: 4.4 Consensus size: 29
84101343 ATGGTCGTCA
**
84101353 CCATCCCTTTTCATAATTCGATAGCTAAAG
1 CCATCCCTTTTCATAA-TCGATAGCCGAAG
*
84101383 CCATCCCTTTTCATAGATCGATTGCCGAAG
1 CCATCCCTTTTCATA-ATCGATAGCCGAAG
* * ** *
84101413 CCATCCTTTTTCATAATCGATGGTTGTCA-
1 CCATCCCTTTTCATAATCGATAGCCG-AAG
*
84101442 CCATCCCTTTTCATAATCGATAGCCGGAG
1 CCATCCCTTTTCATAATCGATAGCCGAAG
*
84101471 CTATCCCTTTTC
1 CCATCCCTTTTC
84101483 GTTTTTAATA
Statistics
Matches: 83, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
28 1 0.01
29 41 0.49
30 40 0.48
31 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.13, T:0.35
Consensus pattern (29 bp):
CCATCCCTTTTCATAATCGATAGCCGAAG
Found at i:84113922 original size:27 final size:27
Alignment explanation
Indices: 84113891--84114068 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
84113881 TAAATTGTAC
84113891 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
84113918 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
84113944 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
84113972 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
84114000 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
84114027 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
84114054 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
84114069 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:84114005 original size:82 final size:81
Alignment explanation
Indices: 84113892--84114047 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
84113882 AAATTGTACA
* *
84113892 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
84113956 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
84113973 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
84114038 TGCGAGTTGA
65 TGCGAATTGA
84114048 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:84114059 original size:82 final size:81
Alignment explanation
Indices: 84113888--84114068 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
84113878 GATTAAATTG
* *
84113888 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
84113953 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
84113969 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
84114033 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
84114051 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
84114069 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:84121607 original size:22 final size:22
Alignment explanation
Indices: 84121582--84121625 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
84121572 ACACTTGATC
84121582 TTGCTACAACCTTTTGTTTCTT
1 TTGCTACAACCTTTTGTTTCTT
84121604 TTGCTACAACCTTTTGTTTCTT
1 TTGCTACAACCTTTTGTTTCTT
84121626 ACTTCGCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.14, C:0.23, G:0.09, T:0.55
Consensus pattern (22 bp):
TTGCTACAACCTTTTGTTTCTT
Found at i:84122808 original size:28 final size:28
Alignment explanation
Indices: 84122777--84122849 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 28
84122767 GAGTTGTGGT
*
84122777 TTAAAGTTTAGGGATTAGTGGGTAAAGG
1 TTAAAGGTTAGGGATTAGTGGGTAAAGG
* *
84122805 TTAAGGGTTATGGATTAGTGGGTAAAGG
1 TTAAAGGTTAGGGATTAGTGGGTAAAGG
* *
84122833 TTAAGGGTTATGGATTA
1 TTAAAGGTTAGGGATTA
84122850 CGGGTTTAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.30, C:0.00, G:0.36, T:0.34
Consensus pattern (28 bp):
TTAAAGGTTAGGGATTAGTGGGTAAAGG
Found at i:84122875 original size:29 final size:27
Alignment explanation
Indices: 84122801--84122894 Score: 116
Period size: 29 Copynumber: 3.3 Consensus size: 27
84122791 TTAGTGGGTA
* *
84122801 AAGGTTAAGGGTTATGGATTAGTGGGTA
1 AAGGTTAAGGGTTATGGATTAG-GGTTT
84122829 AAGGTTAAGGGTTATGGATTACGGGTTT
1 AAGGTTAAGGGTTATGGATTA-GGGTTT
*
84122857 AAGGATTAAGGGTCATGGATTATGGGTTT
1 AAGG-TTAAGGGTTATGGATTA-GGGTTT
84122886 AATGGTTAA
1 AA-GGTTAA
84122895 AGGGATAGGG
Statistics
Matches: 59, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
28 28 0.47
29 29 0.49
30 2 0.03
ACGTcount: A:0.29, C:0.02, G:0.35, T:0.34
Consensus pattern (27 bp):
AAGGTTAAGGGTTATGGATTAGGGTTT
Found at i:84122878 original size:14 final size:14
Alignment explanation
Indices: 84122805--84122884 Score: 72
Period size: 14 Copynumber: 5.6 Consensus size: 14
84122795 TGGGTAAAGG
84122805 TTAAGGGTTATGGA
1 TTAAGGGTTATGGA
* * *
84122819 TTAGTGGGTAAAGG-
1 TTA-AGGGTTATGGA
84122833 TTAAGGGTTATGGA
1 TTAAGGGTTATGGA
* *
84122847 TTACGGGTTTAAGGA
1 TTAAGGG-TTATGGA
*
84122862 TTAAGGGTCATGGA
1 TTAAGGGTTATGGA
*
84122876 TTATGGGTT
1 TTAAGGGTT
84122885 TAATGGTTAA
Statistics
Matches: 50, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
13 7 0.14
14 24 0.48
15 19 0.38
ACGTcount: A:0.26, C:0.03, G:0.36, T:0.35
Consensus pattern (14 bp):
TTAAGGGTTATGGA
Found at i:84122964 original size:7 final size:7
Alignment explanation
Indices: 84122954--84123080 Score: 53
Period size: 7 Copynumber: 17.6 Consensus size: 7
84122944 TGGGAAAGGA
84122954 GTTTATG
1 GTTTATG
84122961 GTTTATG
1 GTTTATG
*
84122968 AGTTAATG
1 -GTTTATG
* *
84122976 TTTTAAG
1 GTTTATG
84122983 GTTTA-G
1 GTTTATG
84122989 AGATTT-TG
1 -G-TTTATG
84122997 GTTTATG
1 GTTTATG
*
84123004 GTTTAAG
1 GTTTATG
* **
84123011 GGTTGGG
1 GTTTATG
*
84123018 GTTTAAG
1 GTTTATG
*
84123025 GTTTAGG
1 GTTTATG
*
84123032 GGTTAGTG
1 GTTTA-TG
* *
84123040 GATTAGG
1 GTTTATG
84123047 GTTTATG
1 GTTTATG
84123054 GTTTCATG
1 GTTT-ATG
*
84123062 ATTTA-G
1 GTTTATG
84123068 GTATTTATG
1 G--TTTATG
84123077 GTTT
1 GTTT
84123081 GGGGTTTAAA
Statistics
Matches: 89, Mismatches: 21, Indels: 20
0.68 0.16 0.15
Matches are distributed among these distances:
6 5 0.06
7 57 0.64
8 25 0.28
9 2 0.02
ACGTcount: A:0.20, C:0.01, G:0.31, T:0.48
Consensus pattern (7 bp):
GTTTATG
Found at i:84123006 original size:21 final size:22
Alignment explanation
Indices: 84122954--84123008 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
84122944 TGGGAAAGGA
84122954 GTTTATGGTTTATGAGTTAATG
1 GTTTATGGTTTATGAGTTAATG
* * *
84122976 TTTTAAGGTTTA-GAGATT-TTG
1 GTTTATGGTTTATGAG-TTAATG
84122997 GTTTATGGTTTA
1 GTTTATGGTTTA
84123009 AGGGTTGGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (22 bp):
GTTTATGGTTTATGAGTTAATG
Found at i:84123020 original size:21 final size:21
Alignment explanation
Indices: 84122996--84123035 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
84122986 TAGAGATTTT
*
84122996 GGTTTATGGTTTAAGGGTTGG
1 GGTTTAAGGTTTAAGGGTTGG
*
84123017 GGTTTAAGGTTTAGGGGTT
1 GGTTTAAGGTTTAAGGGTT
84123036 AGTGGATTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.42, T:0.42
Consensus pattern (21 bp):
GGTTTAAGGTTTAAGGGTTGG
Found at i:84123388 original size:26 final size:27
Alignment explanation
Indices: 84123315--84123389 Score: 109
Period size: 26 Copynumber: 2.9 Consensus size: 27
84123305 AATAATTTAA
*
84123315 AATTTTAAAGATTTCAAA-TTTAGAAT
1 AATTTTCAAGATTTCAAATTTTAGAAT
*
84123341 AAATTTCAAGATTTCAAATTTTA-AAT
1 AATTTTCAAGATTTCAAATTTTAGAAT
*
84123367 AATTTTCAATATTTCAAATTTTA
1 AATTTTCAAGATTTCAAATTTTA
84123390 TCTAATTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 40 0.91
27 4 0.09
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (27 bp):
AATTTTCAAGATTTCAAATTTTAGAAT
Found at i:84123534 original size:18 final size:17
Alignment explanation
Indices: 84123503--84123537 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
84123493 TAGTTGATTG
*
84123503 TTTTTTAATTTATATTA
1 TTTTTAAATTTATATTA
84123520 TTTTTAAATTATATATTA
1 TTTTTAAATT-TATATTA
84123538 AATAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTTAAATTTATATTA
Found at i:84124077 original size:14 final size:14
Alignment explanation
Indices: 84124043--84124081 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
84124033 ACCATAAGTG
84124043 TTTTTCCCCTAAAA
1 TTTTTCCCCTAAAA
*
84124057 -CTTTCCCCTAAAA
1 TTTTTCCCCTAAAA
84124070 TTTTTCCCCTAA
1 TTTTTCCCCTAA
84124082 CCCTAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.26, C:0.33, G:0.00, T:0.41
Consensus pattern (14 bp):
TTTTTCCCCTAAAA
Found at i:84126469 original size:23 final size:23
Alignment explanation
Indices: 84126439--84126488 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
84126429 AACATTAATC
84126439 AAATGTATGAATTGCAGCCCTTT
1 AAATGTATGAATTGCAGCCCTTT
84126462 AAATGTATGAATTGCAGCCCTTT
1 AAATGTATGAATTGCAGCCCTTT
84126485 AAAT
1 AAAT
84126489 AAACTTGAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (23 bp):
AAATGTATGAATTGCAGCCCTTT
Found at i:84127490 original size:514 final size:514
Alignment explanation
Indices: 84126518--84127506 Score: 1879
Period size: 514 Copynumber: 1.9 Consensus size: 514
84126508 TTCTTGTAGC
*
84126518 TTAATTATTATTTGAAGTATGAATACGTATGAATAAGTTTTTATATTTGGTTCAACTTAATTATT
1 TTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATTTGGTTCAACTTAATTATT
*
84126583 ATTTGATTCAACTTAAGTATGAATAAGTATGAATAAATTTTATTACTATGTAGCTTGCTTGTCCA
66 ATTTGATTCAACTTAAGTATGAATAAGTATGAATAAATTTTATTACCATGTAGCTTGCTTGTCCA
*
84126648 TTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGT
131 TTAAAATTACAACAATAGCTGACCTTCTCTCCAAACTTATTTTAAATATTTTAAAGATTCAAAGT
* * * *
84126713 ATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCTCTAG
196 ATATAGGCTGGAAACCTGACGAGTTGCCTTATATCGAACTATAAGATATAATGGATCCTCCCTAG
84126778 GTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGA
261 GTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGA
84126843 GCTCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAAC
326 GCTCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAAC
84126908 TACGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGATTT
391 TACGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGATTT
84126973 TAATATTTAATATTTTTAAATGTCTTTAAAAGTTATAACTAATTTTTATCAAAATAGTA
456 TAATATTTAATATTTTTAAATGTCTTTAAAAGTTATAACTAATTTTTATCAAAATAGTA
84127032 TTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATTTGGTTCAACTTAATTATT
1 TTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATTTGGTTCAACTTAATTATT
*
84127097 ATTTGATTCAACTTAAGTATGAATAAGTATGAATTAATTTTATTACCATGTAGCTTGCTTGTCCA
66 ATTTGATTCAACTTAAGTATGAATAAGTATGAATAAATTTTATTACCATGTAGCTTGCTTGTCCA
* *
84127162 TTAAAATTACAACAATAGCTGACCTTCTCTCCAAACTTATTTTAAATATTTTAAATATTCAGAGT
131 TTAAAATTACAACAATAGCTGACCTTCTCTCCAAACTTATTTTAAATATTTTAAAGATTCAAAGT
84127227 ATATAGGCTGGAAACCTGACGAGTTGCCTTATATCGAACTATAAGATATAATGGATCCTCCCTAG
196 ATATAGGCTGGAAACCTGACGAGTTGCCTTATATCGAACTATAAGATATAATGGATCCTCCCTAG
84127292 GTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGA
261 GTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGA
84127357 GCTCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAAC
326 GCTCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAAC
*
84127422 TACGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGGTTT
391 TACGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGATTT
84127487 TAATATTTAATATTTTTAAA
456 TAATATTTAATATTTTTAAA
84127507 GGTATTTTTA
Statistics
Matches: 464, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
514 464 1.00
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (514 bp):
TTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATTTGGTTCAACTTAATTATT
ATTTGATTCAACTTAAGTATGAATAAGTATGAATAAATTTTATTACCATGTAGCTTGCTTGTCCA
TTAAAATTACAACAATAGCTGACCTTCTCTCCAAACTTATTTTAAATATTTTAAAGATTCAAAGT
ATATAGGCTGGAAACCTGACGAGTTGCCTTATATCGAACTATAAGATATAATGGATCCTCCCTAG
GTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGA
GCTCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAAC
TACGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGATTT
TAATATTTAATATTTTTAAATGTCTTTAAAAGTTATAACTAATTTTTATCAAAATAGTA
Found at i:84127842 original size:9 final size:9
Alignment explanation
Indices: 84127819--84127946 Score: 121
Period size: 9 Copynumber: 13.6 Consensus size: 9
84127809 ATTGATCATT
*
84127819 ACTTAAATA
1 ACTTACATA
*
84127828 AATTACATA
1 ACTTACATA
84127837 ACTTACATA
1 ACTTACATA
* *
84127846 ACTCATATA
1 ACTTACATA
84127855 ACTTACATA
1 ACTTACATA
*
84127864 ATTTACATAACA
1 ACTTACAT---A
84127876 ACTTACATA
1 ACTTACATA
*
84127885 ACTCACATA
1 ACTTACATA
84127894 ACTTACATA
1 ACTTACATA
*
84127903 ATTTACATA
1 ACTTACATA
*
84127912 ACTCACATA
1 ACTTACATA
*
84127921 ACGTACATAACA
1 ACTTACAT---A
84127933 ACTTACATA
1 ACTTACATA
84127942 ACTTA
1 ACTTA
84127947 ACTAATACAT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 80 0.83
12 16 0.17
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:84127888 original size:39 final size:39
Alignment explanation
Indices: 84127836--84127913 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
84127826 TAAATTACAT
*
84127836 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
84127875 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
84127914 TCACATAACG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:84127913 original size:57 final size:57
Alignment explanation
Indices: 84127832--84127944 Score: 172
Period size: 57 Copynumber: 2.0 Consensus size: 57
84127822 TAAATAAATT
* * **
84127832 ACATAACTTACATAACTCATATAACTTACATAATTTACATAACAACTTACATAACTC
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
* *
84127889 ACATAACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACATAACT
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACT
84127945 TAACTAATAC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.30
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
Found at i:84133408 original size:21 final size:21
Alignment explanation
Indices: 84133382--84133429 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
84133372 TCAACTTATA
* *
84133382 GCGGAGGCAGCAGCGCGGGAG
1 GCGGAGGCAGCAACGAGGGAG
84133403 GCGGAGGCAGCAACGAGGGAG
1 GCGGAGGCAGCAACGAGGGAG
84133424 GCGGAG
1 GCGGAG
84133430 CAGAACAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.23, C:0.21, G:0.56, T:0.00
Consensus pattern (21 bp):
GCGGAGGCAGCAACGAGGGAG
Found at i:84134838 original size:14 final size:14
Alignment explanation
Indices: 84134819--84134845 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
84134809 ATCCTAATTA
84134819 GATATCTTGGTTCT
1 GATATCTTGGTTCT
84134833 GATATCTTGGTTC
1 GATATCTTGGTTC
84134846 CATTTTAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.48
Consensus pattern (14 bp):
GATATCTTGGTTCT
Found at i:84139598 original size:16 final size:18
Alignment explanation
Indices: 84139551--84139598 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
84139541 AATTTAAAAT
84139551 TTTTATATATTTTTTAGA
1 TTTTATATATTTTTTAGA
* *
84139569 TTTTATTTACTTTTTA-A
1 TTTTATATATTTTTTAGA
84139586 -TTTATATATTTTT
1 TTTTATATATTTTT
84139599 ATAAAATTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 11 0.42
17 1 0.04
18 14 0.54
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTTATATATTTTTTAGA
Found at i:84143166 original size:22 final size:23
Alignment explanation
Indices: 84143141--84143189 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
84143131 ATCCTCTGAG
*
84143141 GAAGGGATAATATGTA-CTT-TGA
1 GAAGGGAAAAT-TGTACCTTATGA
84143163 GAAGGGAAAATTGTACCTTATGA
1 GAAGGGAAAATTGTACCTTATGA
84143186 GAAG
1 GAAG
84143190 ATGATGATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 4 0.17
22 13 0.54
23 7 0.29
ACGTcount: A:0.39, C:0.06, G:0.29, T:0.27
Consensus pattern (23 bp):
GAAGGGAAAATTGTACCTTATGA
Found at i:84151698 original size:39 final size:40
Alignment explanation
Indices: 84151603--84151864 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
84151593 TTGAATGATG
*
84151603 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
84151641 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
84151682 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
84151721 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
84151760 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
84151799 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
84151838 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
84151865 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:84157812 original size:48 final size:49
Alignment explanation
Indices: 84157759--84157854 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 49
84157749 ATTAAACTCT
* *
84157759 CTCATAACTTATCTCTCA-AGGATGAAATTCATTCAAATAAATTTGACA
1 CTCATAACTAATCTCTCAGAGGATGAAATTCAATCAAATAAATTTGACA
* * * *
84157807 CTCATAACTAATCTCTTAGGGGTTGTAATTCAATCAAATAAATTTGAC
1 CTCATAACTAATCTCTCAGAGGATGAAATTCAATCAAATAAATTTGAC
84157855 TCTCTCAGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
48 16 0.39
49 25 0.61
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (49 bp):
CTCATAACTAATCTCTCAGAGGATGAAATTCAATCAAATAAATTTGACA
Found at i:84170375 original size:16 final size:16
Alignment explanation
Indices: 84170354--84170424 Score: 88
Period size: 16 Copynumber: 4.4 Consensus size: 16
84170344 GTTTGGTTCA
*
84170354 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
*
84170370 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
* *
84170386 CTGTAATGAAATAGGG
1 CTGTAATGGAATAGAG
* *
84170402 TTGTAATGGACTAGAG
1 CTGTAATGGAATAGAG
84170418 CTGTAAT
1 CTGTAAT
84170425 AAGTAATTCA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.34, C:0.07, G:0.30, T:0.30
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:84170399 original size:32 final size:32
Alignment explanation
Indices: 84170354--84170424 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 32
84170344 GTTTGGTTCA
* *
84170354 CTGTAATGGAATAGGGCTGTAATTGAATAGAG
1 CTGTAATGAAATAGGGCTGTAATGGAATAGAG
* *
84170386 CTGTAATGAAATAGGGTTGTAATGGACTAGAG
1 CTGTAATGAAATAGGGCTGTAATGGAATAGAG
84170418 CTGTAAT
1 CTGTAAT
84170425 AAGTAATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.34, C:0.07, G:0.30, T:0.30
Consensus pattern (32 bp):
CTGTAATGAAATAGGGCTGTAATGGAATAGAG
Found at i:84170468 original size:46 final size:44
Alignment explanation
Indices: 84170406--84170499 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
84170396 ATAGGGTTGT
* * *
84170406 AATGGACTAGAGCTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAAT-AGT-ATTCAACTATTTGGTTGAATGG
***
84170452 AATGGAATAGAACTGTAATAGTATTCTTGTATTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGTATTCAACTATTTGGTTGAATGG
84170496 AATG
1 AATG
84170500 ATGTTGTAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 22 0.52
45 3 0.07
46 17 0.40
ACGTcount: A:0.33, C:0.06, G:0.26, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCAACTATTTGGTTGAATGG
Found at i:84174070 original size:40 final size:40
Alignment explanation
Indices: 84173906--84174070 Score: 183
Period size: 40 Copynumber: 4.1 Consensus size: 40
84173896 CAGAATTTAA
** *
84173906 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
84173946 CCGGTTATAGTAACTCGCACAAATGCCTCCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
84173986 CCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
84174026 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
84174066 CCGGA
1 CCGGA
84174071 CATCATTCAA
Statistics
Matches: 105, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
39 4 0.04
40 90 0.86
41 11 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:84190507 original size:11 final size:12
Alignment explanation
Indices: 84190482--84190511 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
84190472 AAAATGAAGC
84190482 CATTTCTAGCTT
1 CATTTCTAGCTT
84190494 CATTTCTA-CTT
1 CATTTCTAGCTT
84190505 CATTTCT
1 CATTTCT
84190512 TACCCAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.17, C:0.27, G:0.03, T:0.53
Consensus pattern (12 bp):
CATTTCTAGCTT
Found at i:84195228 original size:40 final size:40
Alignment explanation
Indices: 84195184--84195339 Score: 183
Period size: 40 Copynumber: 3.9 Consensus size: 40
84195174 GGATATAGCT
* *
84195184 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
84195224 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
* * **
84195264 GCTCGCACAAATGCCTTCGGGACTTAGCCCGG-AATTAGCC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* *
84195304 ACTAGCTCAAATG-CTCTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCT-TCGGGACTTAGCCCGGTTAT
84195340 CATCCGAACA
Statistics
Matches: 99, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
39 2 0.02
40 94 0.95
41 3 0.03
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:84201660 original size:48 final size:48
Alignment explanation
Indices: 84201619--84202029 Score: 576
Period size: 48 Copynumber: 8.6 Consensus size: 48
84201609 ATATCGGTGT
* * * * * *
84201619 CGATGTCATGTCCTAAACATGGTCTTACATTAGCACACATATCATCGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
84201667 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
** *
84201715 CGAT-CCATGTCCCAGACATCATCTTACACTGGCACACATATCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
84201762 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
** *
84201810 CGAT-CCATGTCCCAGACATCATCTTACACTGGCACACATATCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
84201857 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
** *
84201905 CGAT-CCATGTCCCAGACATCATCTTACACTGGCACACATATCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
* * ** * ***
84201952 CGATGCCATGTCCCAGACATGGTCTTACACTTGCTCTTATCTCGGGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATC-AACGC
*
84202001 CAATGCCATGTCCCAGACATGGTCTTACA
1 CGATGCCATGTCCCAGACATGGTCTTACA
84202030 TAGGATCTCA
Statistics
Matches: 327, Mismatches: 32, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
47 132 0.40
48 165 0.50
49 30 0.09
ACGTcount: A:0.28, C:0.33, G:0.16, T:0.24
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
Found at i:84201766 original size:95 final size:95
Alignment explanation
Indices: 84201641--84201982 Score: 648
Period size: 95 Copynumber: 3.6 Consensus size: 95
84201631 CTAAACATGG
* * * *
84201641 TCTTACATTAGCACACATATCATCGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACA
1 TCTTACACTGGCACACATATCAACGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACA
84201706 TATCAACGCCGATCCATGTCCCAGACATCA
66 TATCAACGCCGATCCATGTCCCAGACATCA
84201736 TCTTACACTGGCACACATATCAACGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACA
1 TCTTACACTGGCACACATATCAACGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACA
84201801 TATCAACGCCGATCCATGTCCCAGACATCA
66 TATCAACGCCGATCCATGTCCCAGACATCA
84201831 TCTTACACTGGCACACATATCAACGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACA
1 TCTTACACTGGCACACATATCAACGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACA
84201896 TATCAACGCCGATCCATGTCCCAGACATCA
66 TATCAACGCCGATCCATGTCCCAGACATCA
84201926 TCTTACACTGGCACACATATCAACGCCGATGCCATGTCCCAGACATGGTCTTACACT
1 TCTTACACTGGCACACATATCAACGCCGATGCCATGTCCCAGACATGGTCTTACACT
84201983 TGCTCTTATC
Statistics
Matches: 243, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 243 1.00
ACGTcount: A:0.29, C:0.34, G:0.15, T:0.23
Consensus pattern (95 bp):
TCTTACACTGGCACACATATCAACGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACA
TATCAACGCCGATCCATGTCCCAGACATCA
Found at i:84204442 original size:18 final size:20
Alignment explanation
Indices: 84204407--84204446 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
84204397 GGAGATTTGG
84204407 AAATTAATTTTTAGTTTAAA
1 AAATTAATTTTTAGTTTAAA
84204427 AAATT-ATTTTTA-TTTAAA
1 AAATTAATTTTTAGTTTAAA
84204445 AA
1 AA
84204447 TATAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
19 7 0.35
20 5 0.25
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
AAATTAATTTTTAGTTTAAA
Found at i:84204466 original size:17 final size:17
Alignment explanation
Indices: 84204442--84204489 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
84204432 ATTTTTATTT
84204442 AAAAATATAAAAA-TAA
1 AAAAATATAAAAAGTAA
84204458 AAAAGATATTAAAAAGTTAA
1 AAAA-ATA-TAAAAAG-TAA
84204478 AAAAAT-TAAAAA
1 AAAAATATAAAAA
84204490 AATTGAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
16 4 0.14
17 9 0.32
18 6 0.21
19 2 0.07
20 7 0.25
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (17 bp):
AAAAATATAAAAAGTAA
Found at i:84204572 original size:16 final size:17
Alignment explanation
Indices: 84204551--84204586 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
84204541 CTTTAAAACT
84204551 TTTATAATATTTT-TTA
1 TTTATAATATTTTATTA
*
84204567 TTTATAATTTTTTATTA
1 TTTATAATATTTTATTA
84204584 TTT
1 TTT
84204587 TCAAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTATAATATTTTATTA
Found at i:84204634 original size:21 final size:21
Alignment explanation
Indices: 84204609--84204648 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
84204599 ATATACTTTT
*
84204609 AAATTTATTTACTTTTTAAAA
1 AAATTAATTTACTTTTTAAAA
*
84204630 AAATTAATTTATTTTTTAA
1 AAATTAATTTACTTTTTAA
84204649 TTTAAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (21 bp):
AAATTAATTTACTTTTTAAAA
Found at i:84214943 original size:21 final size:21
Alignment explanation
Indices: 84214914--84214958 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
84214904 CAAATCCGAC
* *
84214914 CACCACCACCAGCACCAGCAA
1 CACCACCACAAGCACCAACAA
*
84214935 CACCGCCACAAGCACCAACAA
1 CACCACCACAAGCACCAACAA
84214956 CAC
1 CAC
84214959 AGTCGCCACC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.51, G:0.09, T:0.00
Consensus pattern (21 bp):
CACCACCACAAGCACCAACAA
Found at i:84218508 original size:29 final size:30
Alignment explanation
Indices: 84218443--84218512 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 30
84218433 ATCTCAAAAC
*
84218443 TATACATGAACTACGATTTAATGTGCAATTG
1 TATACATGAACTACGATTT-ATCTGCAATTG
** *
84218474 TATACATGAACTTTGATTT-TCTGCAATTT
1 TATACATGAACTACGATTTATCTGCAATTG
84218503 TATACATGAA
1 TATACATGAA
84218513 ATTTTAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 18 0.51
31 17 0.49
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (30 bp):
TATACATGAACTACGATTTATCTGCAATTG
Found at i:84223462 original size:17 final size:18
Alignment explanation
Indices: 84223440--84223473 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
84223430 AATACTTCTC
84223440 AAAAGTGC-TTTTGGGAA
1 AAAAGTGCTTTTTGGGAA
84223457 AAAAGTGCTTTTTGGGA
1 AAAAGTGCTTTTTGGGA
84223474 GAAGCTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.32
Consensus pattern (18 bp):
AAAAGTGCTTTTTGGGAA
Found at i:84223597 original size:18 final size:17
Alignment explanation
Indices: 84223569--84223609 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
84223559 CTTGTTTAGG
*
84223569 AATGC-TTTTGTCTCAA
1 AATGCTTTTTGTCGCAA
84223585 AAGTGCTTTTTGTCGCAA
1 AA-TGCTTTTTGTCGCAA
84223603 AATGCTT
1 AATGCTT
84223610 CTTAGAAGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 2 0.09
17 8 0.36
18 12 0.55
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.41
Consensus pattern (17 bp):
AATGCTTTTTGTCGCAA
Found at i:84223900 original size:16 final size:16
Alignment explanation
Indices: 84223875--84223910 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
84223865 ATAACCAATT
*
84223875 TTCATATCATTATTAA
1 TTCATATCATTATCAA
*
84223891 TTCATTTCATTATCAA
1 TTCATATCATTATCAA
84223907 TTCA
1 TTCA
84223911 CATATAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (16 bp):
TTCATATCATTATCAA
Found at i:84225514 original size:3 final size:3
Alignment explanation
Indices: 84225503--84225590 Score: 72
Period size: 3 Copynumber: 29.3 Consensus size: 3
84225493 ATTATTTTGT
* *
84225503 TTA TT- TTA TTA TTA TTA TTA TTA TTTA CTA TTA TTA TCT- TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T-TA TTA TTA
* * * * * *
84225548 TTA TTG TTA GTA TTA TTA CTA CTA TTA TTA TTA CTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
84225591 ATTTATACCT
Statistics
Matches: 67, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
2 3 0.04
3 60 0.90
4 4 0.06
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:84225523 original size:12 final size:12
Alignment explanation
Indices: 84225508--84225590 Score: 85
Period size: 12 Copynumber: 6.6 Consensus size: 12
84225498 TTTGTTTATT
*
84225508 TTATTATTATTA
1 TTATTATTACTA
84225520 TTATTATTTACTA
1 TTATTA-TTACTA
84225533 TTATTATCTTTACTA
1 TTATTA---TTACTA
* *
84225548 TTATTGTTAGTA
1 TTATTATTACTA
*
84225560 TTATTACTACTA
1 TTATTATTACTA
84225572 TTATTATTACTA
1 TTATTATTACTA
*
84225584 TCATTAT
1 TTATTAT
84225591 ATTTATACCT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
12 37 0.62
13 11 0.18
15 12 0.20
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.59
Consensus pattern (12 bp):
TTATTATTACTA
Found at i:84237670 original size:46 final size:44
Alignment explanation
Indices: 84237603--84237931 Score: 211
Period size: 44 Copynumber: 7.6 Consensus size: 44
84237593 ATAATACAGG
*
84237603 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* *
84237649 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGA-T-AGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAG--A
* * * * * *
84237693 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG-----GA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
* * *
84237732 TCTTATCTCCCTGA-AGTTACAGTAGAGA-AGATC--ACA-TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGA-ACAGATCAAAGATTCAGA
* * *
84237773 TCTTATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATTTCGGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* * ** ****
84237819 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
* * * *
84237863 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGA--CACTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCA-GA
*
84237906 TCCTATCTCCCTGA-AGTTACAGTGGA
1 TCTTATCTCCCTGAGA-TTACAGTGGA
84237932 GTGGATTAAA
Statistics
Matches: 224, Mismatches: 42, Indels: 37
0.74 0.14 0.12
Matches are distributed among these distances:
37 1 0.00
38 1 0.00
39 24 0.11
40 1 0.00
41 29 0.13
42 5 0.02
43 25 0.11
44 69 0.31
45 1 0.00
46 68 0.30
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
Found at i:84237720 original size:44 final size:46
Alignment explanation
Indices: 84237606--84237932 Score: 180
Period size: 46 Copynumber: 7.5 Consensus size: 46
84237596 ATACAGGTCT
* * * *
84237606 TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCAGATCC
*
84237652 TATCTCCCTGAGATTACAGCGGAGCAGATCAAAG-ATAGT-A-ATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAAT-GTCAGATCC
* * * * *
84237696 TATCTCCTTGAGATTACAATGGAGCGGAT--TA-AA-G---GATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCAGATCC
* * * * *
84237735 TATCTCCCTGA-AGTTACAGTAGAGAAGATC--A-CA--TCAGGTCT
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGAATGTCAGATCC
** * * * *
84237776 TATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATTTCGGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCAGATCC
* ** * *
84237822 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA-G--AGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAG-AATGTCAGATCC
* * *
84237866 TATCTCCCTGAGATTACAGCGGAGCAGATC---GAA-GACACTATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCA-GATCC
84237909 TATCTCCCTGA-AGTTACAGTGGAG
1 TATCTCCCTGAGA-TTACAGTGGAG
84237933 TGGATTAAAA
Statistics
Matches: 221, Mismatches: 41, Indels: 41
0.73 0.14 0.14
Matches are distributed among these distances:
38 1 0.00
39 27 0.12
40 3 0.01
41 29 0.13
42 5 0.02
43 25 0.11
44 61 0.28
45 3 0.01
46 66 0.30
47 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (46 bp):
TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCAGATCC
Found at i:84239511 original size:3 final size:3
Alignment explanation
Indices: 84239500--84239587 Score: 72
Period size: 3 Copynumber: 29.3 Consensus size: 3
84239490 ATTATTTTGT
* *
84239500 TTA TT- TTA TTA TTA TTA TTA TTA TTTA CTA TTA TTA TCT- TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T-TA TTA TTA
* * * * * *
84239545 TTA TTG TTA GTA TTA TTA CTA CTA TTA TTA TTA CTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
84239588 ATTTATACCT
Statistics
Matches: 67, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
2 3 0.04
3 60 0.90
4 4 0.06
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:84239520 original size:12 final size:12
Alignment explanation
Indices: 84239505--84239587 Score: 85
Period size: 12 Copynumber: 6.6 Consensus size: 12
84239495 TTTGTTTATT
*
84239505 TTATTATTATTA
1 TTATTATTACTA
84239517 TTATTATTTACTA
1 TTATTA-TTACTA
84239530 TTATTATCTTTACTA
1 TTATTA---TTACTA
* *
84239545 TTATTGTTAGTA
1 TTATTATTACTA
*
84239557 TTATTACTACTA
1 TTATTATTACTA
84239569 TTATTATTACTA
1 TTATTATTACTA
*
84239581 TCATTAT
1 TTATTAT
84239588 ATTTATACCT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
12 37 0.62
13 11 0.18
15 12 0.20
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.59
Consensus pattern (12 bp):
TTATTATTACTA
Found at i:84240295 original size:3 final size:3
Alignment explanation
Indices: 84240287--84240369 Score: 69
Period size: 3 Copynumber: 27.3 Consensus size: 3
84240277 NNNNNNNNNN
* * *
84240287 TTA TTA TTA TTA TTA TTA TTTA CTA TTA TTA TCT- TTA CTA TTA TTG
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* * * * *
84240333 TTA GTA TTA TTA CTA CTA TTA TTA TTA CTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
84240370 ATTTATACCT
Statistics
Matches: 63, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
2 1 0.02
3 58 0.92
4 4 0.06
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:84240304 original size:12 final size:12
Alignment explanation
Indices: 84240287--84240369 Score: 85
Period size: 12 Copynumber: 6.6 Consensus size: 12
84240277 NNNNNNNNNN
*
84240287 TTATTATTATTA
1 TTATTATTACTA
84240299 TTATTATTTACTA
1 TTATTA-TTACTA
84240312 TTATTATCTTTACTA
1 TTATTA---TTACTA
* *
84240327 TTATTGTTAGTA
1 TTATTATTACTA
*
84240339 TTATTACTACTA
1 TTATTATTACTA
84240351 TTATTATTACTA
1 TTATTATTACTA
*
84240363 TCATTAT
1 TTATTAT
84240370 ATTTATACCT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
12 37 0.62
13 11 0.18
15 12 0.20
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.59
Consensus pattern (12 bp):
TTATTATTACTA
Found at i:84240545 original size:36 final size:34
Alignment explanation
Indices: 84240505--84240573 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
84240495 CATATTTTCG
*
84240505 TATATTTTATAATTTGTATATACATATACTTATATC
1 TATATTTTATAATTT-T-TATAAATATACTTATATC
* *
84240541 TATATTTTCTAATTTTTATAAATATATTTATAT
1 TATATTTTATAATTTTTATAAATATACTTATAT
84240574 GTACATACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 15 0.50
35 1 0.03
36 14 0.47
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (34 bp):
TATATTTTATAATTTTTATAAATATACTTATATC
Found at i:84244615 original size:17 final size:18
Alignment explanation
Indices: 84244576--84244620 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
84244566 TGTTTAGCAT
*
84244576 TATTTTTGAGACAAAAAAA
1 TATTTTTAAGAC-AAAAAA
*
84244595 TATTTTTAAGAC-AAAAG
1 TATTTTTAAGACAAAAAA
84244612 TATTTTTAA
1 TATTTTTAA
84244621 ATAAATTACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 13 0.54
19 11 0.46
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (18 bp):
TATTTTTAAGACAAAAAA
Found at i:84245057 original size:72 final size:72
Alignment explanation
Indices: 84244940--84245102 Score: 274
Period size: 72 Copynumber: 2.3 Consensus size: 72
84244930 TTAACTTTAC
*
84244940 ACTTCTCCCTCTTTTTCATTCTCATGTCTGAAACATCTTCTTTTTTTCATTCTTCTTCCCATTTC
1 ACTTCTCCCTCTTTTTCATTCTCACGTCTGAAACATCTTCTTTTTTTCATTCTTCTTCCCATTTC
84245005 CTTCCAA
66 CTTCCAA
**
84245012 ACTTCTCTATCTTTTTCATTCTCACGTCT-AAAGCATCTTCTTTTTTTCATTCTTCTTCCCATTT
1 ACTTCTCCCTCTTTTTCATTCTCACGTCTGAAA-CATCTTCTTTTTTTCATTCTTCTTCCCATTT
84245076 CCTTCCAA
65 CCTTCCAA
*
84245084 CCTTCTCCCTCTTTTTCAT
1 ACTTCTCCCTCTTTTTCAT
84245103 GCTTCTATAC
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
71 3 0.04
72 81 0.96
ACGTcount: A:0.15, C:0.33, G:0.02, T:0.50
Consensus pattern (72 bp):
ACTTCTCCCTCTTTTTCATTCTCACGTCTGAAACATCTTCTTTTTTTCATTCTTCTTCCCATTTC
CTTCCAA
Found at i:84248150 original size:33 final size:33
Alignment explanation
Indices: 84248111--84248173 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
84248101 TTTGTTTTCG
*
84248111 TCATGGATGTTTGAACTTGATTAAATTGGTCCA
1 TCATGGATGTTTGAACTTGATCAAATTGGTCCA
* *
84248144 TCATGGATGTTTGGATTTGATCAAATTGGT
1 TCATGGATGTTTGAACTTGATCAAATTGGT
84248174 TGGTTTAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.25, C:0.10, G:0.24, T:0.41
Consensus pattern (33 bp):
TCATGGATGTTTGAACTTGATCAAATTGGTCCA
Found at i:84248253 original size:43 final size:43
Alignment explanation
Indices: 84248192--84248276 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
84248182 TCAGGAATTG
*
84248192 GTTGGGTATCAAGTTGGAAAAGACATCAAATTGGTTGCCTTAA
1 GTTGGATATCAAGTTGGAAAAGACATCAAATTGGTTGCCTTAA
* *
84248235 GTTGGATATTAAGTTGGAAAAGGCATCAAATTGGTTGCCTTA
1 GTTGGATATCAAGTTGGAAAAGACATCAAATTGGTTGCCTTA
84248277 TGTATTTGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (43 bp):
GTTGGATATCAAGTTGGAAAAGACATCAAATTGGTTGCCTTAA
Found at i:84257414 original size:46 final size:46
Alignment explanation
Indices: 84257364--84257536 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
84257354 TGGTTGAGCA
84257364 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
84257410 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
84257455 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
84257503 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
84257537 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:84257520 original size:93 final size:93
Alignment explanation
Indices: 84257361--84257531 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
84257351 GGATGGTTGA
* *
84257361 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
84257426 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
84257454 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
84257519 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
84257532 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:84264971 original size:46 final size:46
Alignment explanation
Indices: 84264921--84265093 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
84264911 TGGTTGAGCA
84264921 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
84264967 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
84265012 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
84265060 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
84265094 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:84265077 original size:93 final size:93
Alignment explanation
Indices: 84264918--84265088 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
84264908 GGATGGTTGA
* *
84264918 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
84264983 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
84265011 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
84265076 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
84265089 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:84272934 original size:48 final size:48
Alignment explanation
Indices: 84272878--84273097 Score: 220
Period size: 48 Copynumber: 4.7 Consensus size: 48
84272868 CACATGGTAG
* ** *
84272878 GATGCCAATGCCATATCCTGGAGATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* ** *
84272926 GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCGTAGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
*
84272974 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * * ** *
84273022 GATGCCGAT---A-G-CCTAG-CTATGGTCTTATATGAAATTACATATC
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATC
* * *
84273065 -ATGCCAAAGCCATGTCCCAGGCATAGTCTTACA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACA
84273098 CAGGATCGTA
Statistics
Matches: 140, Mismatches: 25, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
42 7 0.05
43 24 0.17
44 1 0.01
45 2 0.01
46 1 0.01
47 13 0.09
48 92 0.66
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:84287434 original size:40 final size:38
Alignment explanation
Indices: 84287277--84287442 Score: 197
Period size: 38 Copynumber: 4.3 Consensus size: 38
84287267 GCAGGCTATA
* * *
84287277 TGCTGGAATTATATCCAGGTTAAATCCCACAGGCTTCG
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
* * *
84287315 TGCTGGTAATATATCCGGGTTAAATCCTGCAGGCTCCG
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
* * *
84287353 TGCTGGTATTATATCCGGGTTAAATCCCGTAGGCCTAG
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
* * *
84287391 TGCTGGTATTATATCTGAGTTTAAAGTCCCGTAGGCTTCG
1 TGCTGGTATTATATCCG-GGTTAAA-TCCCGCAGGCTTCG
*
84287431 TGCTGGTGTTAT
1 TGCTGGTATTAT
84287443 GTTTGGGTTT
Statistics
Matches: 109, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
38 80 0.73
39 6 0.06
40 23 0.21
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.33
Consensus pattern (38 bp):
TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
Found at i:84295204 original size:12 final size:13
Alignment explanation
Indices: 84295173--84295208 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
84295163 GTCTTAAAAT
84295173 AAAATAAAAGTAA
1 AAAATAAAAGTAA
*
84295186 AACATAAAA-TAA
1 AAAATAAAAGTAA
84295198 AAAATAAAAGT
1 AAAATAAAAGT
84295209 TTTTAAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.17
Consensus pattern (13 bp):
AAAATAAAAGTAA
Found at i:84297157 original size:50 final size:50
Alignment explanation
Indices: 84297040--84297237 Score: 247
Period size: 50 Copynumber: 4.0 Consensus size: 50
84297030 GTAGCCAAAC
* * * *
84297040 TATCTGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACC-AAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAAT
* *
84297089 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAAT
* * * *
84297139 TATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAA-T
* * *
84297190 TAT-TGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTA
1 TATCT-GGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTA
84297238 GCTACATATA
Statistics
Matches: 129, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
49 40 0.31
50 49 0.38
51 40 0.31
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (50 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAAT
Found at i:84297228 original size:101 final size:99
Alignment explanation
Indices: 84297053--84297237 Score: 262
Period size: 101 Copynumber: 1.8 Consensus size: 99
84297043 CTGGTACGCA
* * *
84297053 TAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
*
84297118 GTACTACACACGTGACCTAATTATCTGATACACG
66 GTACTACACACGCGACCTAATTATCTGATACACG
* * ** *
84297152 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATTGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
*
84297217 TAGTACTACACATGCGACCTA
64 TAGTACTACACACGCGACCTA
84297238 GCTACATATA
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 28 0.38
100 3 0.04
101 43 0.58
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAATTATCTGATACACG
Found at i:84298077 original size:30 final size:30
Alignment explanation
Indices: 84298043--84298103 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
84298033 TCCTTAACTC
84298043 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
84298073 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
84298103 A
1 A
84298104 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:84300944 original size:55 final size:55
Alignment explanation
Indices: 84300835--84300954 Score: 134
Period size: 55 Copynumber: 2.2 Consensus size: 55
84300825 TATATGGGCC
* * * * *
84300835 CACGCCTGTGTTAATTTAATAGGTTCGGCCACGGGTGCTAGACACGAGCGTGTCG
1 CACGCCCGTGTTAATTTAACAGGTTCAGCCACGGGTGCAAGACACGAGCATGTCG
* * * * *
84300890 TACGCCCGTGTTAATTTGACAGGTTCAGTCACGGGTTCAAGGA-ACGGGCATGTCG
1 CACGCCCGTGTTAATTTAACAGGTTCAGCCACGGGTGCAA-GACACGAGCATGTCG
84300945 CACGCCCGTG
1 CACGCCCGTG
84300955 CTGTTTTGGC
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
55 51 0.96
56 2 0.04
ACGTcount: A:0.20, C:0.25, G:0.31, T:0.24
Consensus pattern (55 bp):
CACGCCCGTGTTAATTTAACAGGTTCAGCCACGGGTGCAAGACACGAGCATGTCG
Found at i:84310572 original size:29 final size:28
Alignment explanation
Indices: 84310518--84310573 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
84310508 TTGGGTTTTT
84310518 GGACACGGGTGTGTCTAGGCCGTGTGAG
1 GGACACGGGTGTGTCTAGGCCGTGTGAG
*
84310546 GGACACGGGCATGTG-CTTGGCCGTGTGA
1 GGACACGGG--TGTGTCTAGGCCGTGTGA
84310574 AAACCCCTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 9 0.36
29 12 0.48
30 4 0.16
ACGTcount: A:0.14, C:0.20, G:0.45, T:0.21
Consensus pattern (28 bp):
GGACACGGGTGTGTCTAGGCCGTGTGAG
Found at i:84312299 original size:48 final size:48
Alignment explanation
Indices: 84312143--84312295 Score: 122
Period size: 48 Copynumber: 3.3 Consensus size: 48
84312133 CCCGGATATA
* ** *
84312143 GTCTTACATGGGATCACATATGGATGCCAATGCCATGTCCCAGACATG
1 GTCTTACATGGGATCACATATAGATGCCAAAACCATGTCCTAGACATG
* * *
84312191 GCCTTACATGGGATCACAT-TGAGATGCC--GA-TA-G-CCTAG-CTATG
1 GTCTTACATGGGATCACATAT-AGATGCCAAAACCATGTCCTAGAC-ATG
* ** * * *
84312234 GTCTTACACGAAATTACATATCGATGCCAAAACCATGTCCTGGACATG
1 GTCTTACATGGGATCACATATAGATGCCAAAACCATGTCCTAGACATG
84312282 GTCTTACATGGGAT
1 GTCTTACATGGGAT
84312296 TACACATAAC
Statistics
Matches: 78, Mismatches: 18, Indels: 18
0.68 0.16 0.16
Matches are distributed among these distances:
42 1 0.01
43 27 0.35
44 2 0.03
45 2 0.03
46 1 0.01
47 2 0.03
48 42 0.54
49 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (48 bp):
GTCTTACATGGGATCACATATAGATGCCAAAACCATGTCCTAGACATG
Found at i:84324257 original size:13 final size:13
Alignment explanation
Indices: 84324239--84324269 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
84324229 CTTTATTTCA
84324239 CATTTCTACTACT
1 CATTTCTACTACT
84324252 CATTTCTACTACT
1 CATTTCTACTACT
84324265 CATTT
1 CATTT
84324270 TAAAAATCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.23, C:0.29, G:0.00, T:0.48
Consensus pattern (13 bp):
CATTTCTACTACT
Found at i:84325607 original size:52 final size:52
Alignment explanation
Indices: 84325545--84325650 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
84325535 TGTCCAATAC
84325545 AAAGGTGTTTGGCACTTACGTCCGTATAATGCCTCATAAGGCACCATTTTCA
1 AAAGGTGTTTGGCACTTACGTCCGTATAATGCCTCATAAGGCACCATTTTCA
84325597 AAAGGTGTTTGGCACTTACGTCCGTATAATGCCTCATAAGGCACCATTTTCA
1 AAAGGTGTTTGGCACTTACGTCCGTATAATGCCTCATAAGGCACCATTTTCA
84325649 AA
1 AA
84325651 GTCGACTGAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (52 bp):
AAAGGTGTTTGGCACTTACGTCCGTATAATGCCTCATAAGGCACCATTTTCA
Found at i:84331169 original size:21 final size:21
Alignment explanation
Indices: 84331143--84331184 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
84331133 TAAACAATGA
84331143 CAAAAAATATCAATACCTTTT
1 CAAAAAATATCAATACCTTTT
* *
84331164 CAAAAAGTATCAATATCTTTT
1 CAAAAAATATCAATACCTTTT
84331185 ACTAGGTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (21 bp):
CAAAAAATATCAATACCTTTT
Found at i:84334224 original size:13 final size:13
Alignment explanation
Indices: 84334206--84334230 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84334196 ACGAGGCTCT
84334206 TTCGTTCCTTTGC
1 TTCGTTCCTTTGC
84334219 TTCGTTCCTTTG
1 TTCGTTCCTTTG
84334231 TTGATGGCTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.28, G:0.16, T:0.56
Consensus pattern (13 bp):
TTCGTTCCTTTGC
Found at i:84339922 original size:48 final size:48
Alignment explanation
Indices: 84339845--84340083 Score: 245
Period size: 48 Copynumber: 5.0 Consensus size: 48
84339835 GGTTATGTGT
* * *
84339845 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAGCATTGTTACGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTACGA
* * **
84339893 AAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAATATAC--
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGT-TACGA
* * * *
84339941 TAGCCAGTGTAAGACCATGT-TTGGACCATGGCATCGGCATTGTTATGT
1 GAGCCAGTGTAAGACCATGTCTGGGA-CATGGCATCGGCATTGTTACGA
* * * *
84339989 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACACCAATG-TATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG---GCATTGTTACGA
*
84340039 GAGCCAGTGTAAGACCATGTCCGGGACATGGCATCGGCATT-TTAC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTAC
84340084 CCTTTTTGTA
Statistics
Matches: 157, Mismatches: 24, Indels: 21
0.78 0.12 0.10
Matches are distributed among these distances:
46 2 0.01
47 10 0.06
48 95 0.61
49 5 0.03
50 41 0.26
51 4 0.03
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTACGA
Found at i:84340010 original size:96 final size:96
Alignment explanation
Indices: 84339845--84340083 Score: 331
Period size: 96 Copynumber: 2.5 Consensus size: 96
84339835 GGTTATGTGT
*
84339845 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAGCATTGTTACGAAAGCTAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTTTGG-ACATGGCATCGGCATTGTTACGAAAGCTAGTGTAAGACCA
* *
84339910 TGTCTGGGACATGGCATCGGCATCAA-TAT-A
65 TGTCTGGGACATGGCATCGACACCAAGTATGA
* * **
84339940 CTAGCCAGTGTAAGACCATGTTTGGACCATGGCATCGGCATTGTTATGTGAGCTAGTGTAAGACC
1 -GAGCCAGTGTAAGACCATGTTTGGA-CATGGCATCGGCATTGTTACGAAAGCTAGTGTAAGACC
84340005 ATGTCTGGGACATGGCATCGACACCAATGTATGA
64 ATGTCTGGGACATGGCATCGACACCAA-GTATGA
**
84340039 GAGCCAGTGTAAGACCATGTCCGGGACATGGCATCGGCATT-TTAC
1 GAGCCAGTGTAAGACCATGT-TTGGACATGGCATCGGCATTGTTAC
84340084 CCTTTTTGTA
Statistics
Matches: 127, Mismatches: 11, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
95 1 0.01
96 82 0.65
97 3 0.02
98 37 0.29
99 4 0.03
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (96 bp):
GAGCCAGTGTAAGACCATGTTTGGACATGGCATCGGCATTGTTACGAAAGCTAGTGTAAGACCAT
GTCTGGGACATGGCATCGACACCAAGTATGA
Found at i:84342905 original size:46 final size:47
Alignment explanation
Indices: 84342754--84342931 Score: 227
Period size: 47 Copynumber: 3.8 Consensus size: 47
84342744 GGAAATTGAG
* * *
84342754 ATCCGAACTCGTTGAGTTGCATTCCGAGTTCATGA-GAATTATGAAGC
1 ATCCGAACTCGTTGAGTTGCATTCCGAGTTCATTATGGA-TGTGAAGC
* *
84342801 ATCCGAACTCGTTGAGTTGCATTCTGAGTTCACTTATGGATG-CAAGC
1 ATCCGAACTCGTTGAGTTGCATTCCGAGTTCA-TTATGGATGTGAAGC
**
84342848 ATCCGAACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGTGAA-C
1 ATCCGAACTCGTTGAGTTGCATTCCGAGTTCATTATGGATGTGAAGC
* * *
84342894 ACCCGAGCTCGTTGAGTTGCGTTCCGAGTTCATTATGG
1 ATCCGAACTCGTTGAGTTGCATTCCGAGTTCATTATGG
84342932 GTGAAATTAT
Statistics
Matches: 116, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
46 45 0.39
47 66 0.57
48 3 0.03
49 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.32
Consensus pattern (47 bp):
ATCCGAACTCGTTGAGTTGCATTCCGAGTTCATTATGGATGTGAAGC
Found at i:84344618 original size:13 final size:13
Alignment explanation
Indices: 84344600--84344630 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
84344590 TGTAAAAGTT
84344600 GTAAAAATGAGTA
1 GTAAAAATGAGTA
84344613 GTAAAAATGAGTA
1 GTAAAAATGAGTA
84344626 GTAAA
1 GTAAA
84344631 GATCTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.23, T:0.23
Consensus pattern (13 bp):
GTAAAAATGAGTA
Found at i:84348772 original size:20 final size:20
Alignment explanation
Indices: 84348747--84348788 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
84348737 TCGAGACCAA
84348747 TTTGAAACAATTTAGAAAGT
1 TTTGAAACAATTTAGAAAGT
84348767 TTTGAAACAATTTAGAAAGT
1 TTTGAAACAATTTAGAAAGT
84348787 TT
1 TT
84348789 AGGAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (20 bp):
TTTGAAACAATTTAGAAAGT
Found at i:84352204 original size:35 final size:35
Alignment explanation
Indices: 84352165--84352236 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
84352155 AAGCATATGA
84352165 ACTTTTTTAATCAAGCATTCATTATGGCATACATC
1 ACTTTTTTAATCAAGCATTCATTATGGCATACATC
84352200 ACTTTTTTAATCAAGCATTCATTATGGCATACATC
1 ACTTTTTTAATCAAGCATTCATTATGGCATACATC
84352235 AC
1 AC
84352237 ATGGTCATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (35 bp):
ACTTTTTTAATCAAGCATTCATTATGGCATACATC
Found at i:84354378 original size:14 final size:14
Alignment explanation
Indices: 84354356--84354441 Score: 82
Period size: 14 Copynumber: 6.1 Consensus size: 14
84354346 TACGGACTCT
84354356 TACATGTGGATTCA
1 TACATGTGGATTCA
*
84354370 TAGATGTGGATTCA
1 TACATGTGGATTCA
* *
84354384 TACATGCGAATTCA
1 TACATGTGGATTCA
* *
84354398 TACATGTGAATCCA
1 TACATGTGGATTCA
* * * *
84354412 TATAGGCGAATTCA
1 TACATGTGGATTCA
*
84354426 TACATGTGAATTCA
1 TACATGTGGATTCA
84354440 TA
1 TA
84354442 AATGCAGATT
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 59 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.33
Consensus pattern (14 bp):
TACATGTGGATTCA
Found at i:84354396 original size:28 final size:28
Alignment explanation
Indices: 84354356--84354446 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 28
84354346 TACGGACTCT
* * * *
84354356 TACATGTGGATTCATAGATGTGGATTCA
1 TACATGCGAATTCATACATGTGAATTCA
*
84354384 TACATGCGAATTCATACATGTGAATCCA
1 TACATGCGAATTCATACATGTGAATTCA
* *
84354412 TATAGGCGAATTCATACATGTGAATTCA
1 TACATGCGAATTCATACATGTGAATTCA
*
84354440 TAAATGC
1 TACATGC
84354447 AGATTGTACT
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 53 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (28 bp):
TACATGCGAATTCATACATGTGAATTCA
Found at i:84357060 original size:28 final size:28
Alignment explanation
Indices: 84357025--84357180 Score: 124
Period size: 28 Copynumber: 5.6 Consensus size: 28
84357015 TTGCGGACTG
84357025 TTGCTTG-AAGAATAGTTCATGTGAACTC
1 TTGCTTGAAAG-ATAGTTCATGTGAACTC
* * * *
84357053 TTGTTTGAAAGATTGTACATG-CAGACTC
1 TTGCTTGAAAGATAGTTCATGTGA-ACTC
* *
84357081 TTGTTTGAAAGATAG-TCTATG-CAGACTC
1 TTGCTTGAAAGATAGTTC-ATGTGA-ACTC
*
84357109 TTGCTTGAAAGATAG-TCAATGTGCACTC
1 TTGCTTGAAAGATAGTTC-ATGTGAACTC
* * *
84357137 TTGCTTGAGAGATAGTTTATGTGGACTC
1 TTGCTTGAAAGATAGTTCATGTGAACTC
* *
84357165 TTACTTGAAAGGTAGT
1 TTGCTTGAAAGATAGT
84357181 CCTTGTAGAG
Statistics
Matches: 107, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
27 2 0.02
28 101 0.94
29 4 0.04
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (28 bp):
TTGCTTGAAAGATAGTTCATGTGAACTC
Found at i:84357117 original size:56 final size:56
Alignment explanation
Indices: 84357049--84357181 Score: 144
Period size: 56 Copynumber: 2.4 Consensus size: 56
84357039 GTTCATGTGA
* * *
84357049 ACTCTTGTTTGAAAGATTGT-ACATGCAG-ACTCTTGTTTGAAAGATAGTCTATGCAG
1 ACTCTTGCTTGAAAGATAGTCA-ATG-AGCACTCTTGCTTGAAAGATAGTCTATGCAG
* * * **
84357105 ACTCTTGCTTGAAAGATAGTCAATGTGCACTCTTGCTTGAGAGATAGTTTATGTGG
1 ACTCTTGCTTGAAAGATAGTCAATGAGCACTCTTGCTTGAAAGATAGTCTATGCAG
* *
84357161 ACTCTTACTTGAAAGGTAGTC
1 ACTCTTGCTTGAAAGATAGTC
84357182 CTTGTAGAGT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
55 1 0.02
56 63 0.97
57 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (56 bp):
ACTCTTGCTTGAAAGATAGTCAATGAGCACTCTTGCTTGAAAGATAGTCTATGCAG
Found at i:84371649 original size:42 final size:42
Alignment explanation
Indices: 84371599--84371718 Score: 127
Period size: 42 Copynumber: 2.8 Consensus size: 42
84371589 GTAATTCAAT
*
84371599 ATCGATGCCTCTGTCCCAGACAAGGTCTTATAC-AAA-ATCA
1 ATCGATGCCTATGTCCCAGACAAGGTCTTATACGAAATATCA
* * * *
84371639 GATACGATGCCGATGTCCCACACATGGTCTTATACGTAAATCTCA
1 -AT-CGATGCCTATGTCCCAGACAAGGTCTTATACG-AAATATCA
* * *
84371684 ATCGAGGCCTATGTCCCAGACACGGTCTTACACGA
1 ATCGATGCCTATGTCCCAGACAAGGTCTTATACGA
84371719 TATCTCAGAT
Statistics
Matches: 65, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
41 2 0.03
42 28 0.43
43 27 0.42
44 5 0.08
45 3 0.05
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.24
Consensus pattern (42 bp):
ATCGATGCCTATGTCCCAGACAAGGTCTTATACGAAATATCA
Found at i:84373486 original size:15 final size:14
Alignment explanation
Indices: 84373448--84373495 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
84373438 TTAAAACGAA
*
84373448 TTTTATAATTTAA-A
1 TTTTAT-ATTTAATT
*
84373462 TTTAATATTTATATT
1 TTTTATATTTA-ATT
84373477 TTTTATATTTAATT
1 TTTTATATTTAATT
84373491 TTTTA
1 TTTTA
84373496 ACACTAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 5 0.17
14 14 0.48
15 10 0.34
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTATATTTAATT
Found at i:84373897 original size:12 final size:12
Alignment explanation
Indices: 84373849--84373900 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 12
84373839 GGCTACTAGA
*
84373849 AGAAGAAAAAGG
1 AGAAAAAAAAGG
84373861 AGAAAAAAGAAGAG
1 AGAAAAAA-AAG-G
84373875 AGAAAATAAAAGG
1 AGAAAA-AAAAGG
*
84373888 AAAAAGAAAAAGG
1 AGAAA-AAAAAGG
84373901 GCAAATTGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
12 7 0.21
13 14 0.41
14 11 0.32
15 2 0.06
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (12 bp):
AGAAAAAAAAGG
Found at i:84376811 original size:22 final size:21
Alignment explanation
Indices: 84376785--84376829 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
84376775 GGTTGACTGT
84376785 TTGGATCGTGAATAGGTTGTGG
1 TTGGATCGTGAATAGGTTG-GG
*
84376807 TTGGATCGTGGATAGGTTGGG
1 TTGGATCGTGAATAGGTTGGG
84376828 TT
1 TT
84376830 ATCGGTCTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.16, C:0.04, G:0.42, T:0.38
Consensus pattern (21 bp):
TTGGATCGTGAATAGGTTGGG
Found at i:84377257 original size:21 final size:21
Alignment explanation
Indices: 84377211--84377258 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
84377201 AGCTTCAGAA
* *
84377211 AAGAAAAAGGGTGGAGGTTTG
1 AAGAGAAAGGATGGAGGTTTG
*
84377232 AAGAGAAAGGATGGTGGTTTG
1 AAGAGAAAGGATGGAGGTTTG
84377253 AAGAGA
1 AAGAGA
84377259 CCATCCAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.42, T:0.19
Consensus pattern (21 bp):
AAGAGAAAGGATGGAGGTTTG
Found at i:84379140 original size:14 final size:13
Alignment explanation
Indices: 84379101--84379140 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
84379091 AAACTCGTGG
84379101 TTATATATATATA
1 TTATATATATATA
84379114 TTA-ATATATATA
1 TTATATATATATA
*
84379126 TTATAGATATCATA
1 TTATATATAT-ATA
84379140 T
1 T
84379141 CTTATTGGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 12 0.50
13 8 0.33
14 4 0.17
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (13 bp):
TTATATATATATA
Found at i:84379643 original size:19 final size:19
Alignment explanation
Indices: 84379621--84379658 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
84379611 ATTTTTATAC
*
84379621 TTTTTAAAAATATTTAATT
1 TTTTTAAAAATAATTAATT
*
84379640 TTTTTAAAATTAATTAATT
1 TTTTTAAAAATAATTAATT
84379659 GTTGGCAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTTAAAAATAATTAATT
Found at i:84381615 original size:19 final size:21
Alignment explanation
Indices: 84381591--84381631 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
84381581 TTTACTAAAA
84381591 AGAA-TTT-AAAAGAGTAATT
1 AGAATTTTCAAAAGAGTAATT
*
84381610 AGAATTTTCAAAAGAGTGATT
1 AGAATTTTCAAAAGAGTAATT
84381631 A
1 A
84381632 TGTGTGTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 3 0.16
21 12 0.63
ACGTcount: A:0.49, C:0.02, G:0.17, T:0.32
Consensus pattern (21 bp):
AGAATTTTCAAAAGAGTAATT
Found at i:84381856 original size:29 final size:30
Alignment explanation
Indices: 84381793--84381850 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
84381783 TTTTCATGGG
*
84381793 TAAAAATAATAGATTAAGGGCTTATTTAAC
1 TAAAAATAATAGATTAAGAGCTTATTTAAC
*
84381823 TAAAAA-AATAGTATT-AGAGCTTGTTTAA
1 TAAAAATAATAG-ATTAAGAGCTTATTTAA
84381851 ACAAAATGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.47, C:0.05, G:0.14, T:0.34
Consensus pattern (30 bp):
TAAAAATAATAGATTAAGAGCTTATTTAAC
Found at i:84382587 original size:7 final size:7
Alignment explanation
Indices: 84382575--84382603 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
84382565 AATTATTGGA
84382575 TTTCTTT
1 TTTCTTT
84382582 TTTCTTT
1 TTTCTTT
84382589 TTTCTTT
1 TTTCTTT
84382596 TTT-TTT
1 TTTCTTT
84382602 TT
1 TT
84382604 ATAAATACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.23
7 17 0.77
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (7 bp):
TTTCTTT
Found at i:84386692 original size:21 final size:22
Alignment explanation
Indices: 84386666--84386711 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
84386656 ACAGGTTTTT
**
84386666 AATAATTTTTATGA-TTTTTAA
1 AATAATTTTTAAAATTTTTTAA
84386687 AATAATTTTTAAAATTTTTTAA
1 AATAATTTTTAAAATTTTTTAA
84386709 AAT
1 AAT
84386712 TAAAAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
AATAATTTTTAAAATTTTTTAA
Found at i:84386696 original size:12 final size:11
Alignment explanation
Indices: 84386679--84386711 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
84386669 AATTTTTATG
84386679 ATTTTTAAAAT
1 ATTTTTAAAAT
84386690 AATTTTTAAAAT
1 -ATTTTTAAAAT
84386702 -TTTTTAAAAT
1 ATTTTTAAAAT
84386712 TAAAAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
12 11 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
ATTTTTAAAAT
Found at i:84387264 original size:25 final size:26
Alignment explanation
Indices: 84387235--84387303 Score: 72
Period size: 25 Copynumber: 2.7 Consensus size: 26
84387225 AGTACGTGGC
84387235 AATTTTAATAAAAATATATAGAA-TTT
1 AATTTTAATAAAAATATATA-AACTTT
* * *
84387261 -ATTTTATTAAACATATGTAAACTTT
1 AATTTTAATAAAAATATATAAACTTT
84387286 AAATTTT-ATAAAAATATA
1 -AATTTTAATAAAAATATA
84387304 AATATAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
24 2 0.06
25 19 0.56
26 8 0.24
27 5 0.15
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (26 bp):
AATTTTAATAAAAATATATAAACTTT
Found at i:84394234 original size:146 final size:146
Alignment explanation
Indices: 84393970--84394260 Score: 555
Period size: 146 Copynumber: 2.0 Consensus size: 146
84393960 CATAATATAT
84393970 GCTTATCGGATACCATTTAACTGCACTACAAGGGCCACAATAGTGATAATTGAGCTATCATATAT
1 GCTTATCGGATACCATTTAACTGCACTACAAGGGCCACAATAGTGATAATTGAGCTATCATATAT
84394035 TAAACCTTATATATGTGCATTAAAATTAGTAAATCACATGTCACATTAATGTATTTTCACATATT
66 TAAACCTTATATATGTGCATTAAAATTAGTAAATCACATGTCACATTAATGTATTTTCACATATT
84394100 ACTTGTTGTATTAGCC
131 ACTTGTTGTATTAGCC
* *
84394116 GCTTATCGGATACCATTTAACTGCACTACAAGTGTCACAATAGTGATAATTGAGCTATCATATAT
1 GCTTATCGGATACCATTTAACTGCACTACAAGGGCCACAATAGTGATAATTGAGCTATCATATAT
*
84394181 TAAACCTTATATATGTGCGTTAAAATTAGTAAATCACATGTCACATTAATGTATTTTCACATATT
66 TAAACCTTATATATGTGCATTAAAATTAGTAAATCACATGTCACATTAATGTATTTTCACATATT
84394246 ACTTGTTGTATTAGC
131 ACTTGTTGTATTAGC
84394261 ATCATATATA
Statistics
Matches: 142, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
146 142 1.00
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.36
Consensus pattern (146 bp):
GCTTATCGGATACCATTTAACTGCACTACAAGGGCCACAATAGTGATAATTGAGCTATCATATAT
TAAACCTTATATATGTGCATTAAAATTAGTAAATCACATGTCACATTAATGTATTTTCACATATT
ACTTGTTGTATTAGCC
Done.