Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 202 of 230
Found at i:60498330 original size:11 final size:11
Alignment explanation
Indices: 60498316--60498359 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
60498306 AGATAAATAT
60498316 TATTTTATTAA
1 TATTTTATTAA
*
60498327 TATTTTAATGAGA
1 TATTTT-ATTA-A
*
60498340 TATTTTATTAT
1 TATTTTATTAA
60498351 TATTTTATT
1 TATTTTATT
60498360 TAGTATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 15 0.54
12 6 0.21
13 7 0.25
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:60499650 original size:35 final size:34
Alignment explanation
Indices: 60499611--60499770 Score: 128
Period size: 35 Copynumber: 4.7 Consensus size: 34
60499601 ACTATGAACA
* * *
60499611 TAAGACCATGGTTGGACCATGGCAGTGTTTATATG
1 TAAGACCATAGTTGGGCTATGGCAGT-TTTATATG
* * *
60499646 TAAGACTATAGTTGGGCTATGGCA-TTCT-GATG
1 TAAGACCATAGTTGGGCTATGGCAGTTTTATATG
** * * * * *
60499678 ATAAGACCATAACTGGGTTATGGCACTATGA-ACG
1 -TAAGACCATAGTTGGGCTATGGCAGTTTTATATG
* * *
60499712 TAAGACCATGGTTGGACCATGGCAGTGTTTATATG
1 TAAGACCATAGTTGGGCTATGGCAGT-TTTATATG
60499747 TAAGACCATAGTTGGGCTATGGCA
1 TAAGACCATAGTTGGGCTATGGCA
60499771 TTCTGATGAT
Statistics
Matches: 93, Mismatches: 27, Indels: 10
0.72 0.21 0.08
Matches are distributed among these distances:
32 3 0.03
33 41 0.44
34 6 0.06
35 43 0.46
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (34 bp):
TAAGACCATAGTTGGGCTATGGCAGTTTTATATG
Found at i:60499700 original size:33 final size:32
Alignment explanation
Indices: 60499643--60499803 Score: 115
Period size: 33 Copynumber: 4.8 Consensus size: 32
60499633 CAGTGTTTAT
* **
60499643 ATGTAAGACTATAGTTGGGCTATGGCATTCTG
1 ATGTAAGACCATAACTGGGCTATGGCATTCTG
* * *
60499675 ATGATAAGACCATAACTGGGTTATGGCACTATG
1 ATG-TAAGACCATAACTGGGCTATGGCATTCTG
* *** * * * *
60499708 AACGTAAGACCATGGTTGGACCATGGCAGTGTTTAT
1 -ATGTAAGACCATAACTGGGCTATGGCA-T-TCT-G
**
60499744 ATGTAAGACCATAGTTGGGCTATGGCATTCTG
1 ATGTAAGACCATAACTGGGCTATGGCATTCTG
*
60499776 ATGATAAGACCATAACTGGGTTATGGCA
1 ATG-TAAGACCATAACTGGGCTATGGCA
60499804 CTACAAATGT
Statistics
Matches: 98, Mismatches: 25, Indels: 11
0.73 0.19 0.08
Matches are distributed among these distances:
32 6 0.06
33 64 0.65
34 3 0.03
35 25 0.26
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (32 bp):
ATGTAAGACCATAACTGGGCTATGGCATTCTG
Found at i:60499751 original size:101 final size:101
Alignment explanation
Indices: 60499576--60499806 Score: 408
Period size: 101 Copynumber: 2.3 Consensus size: 101
60499566 TGAATTCACG
* ** *
60499576 GATAATACCATAACTAAGTTATGGAACTATGAACATAAGACCATGGTTGGACCATGGCAGTGTTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAACATAAGACCATGGTTGGACCATGGCAGTGTTT
*
60499641 ATATGTAAGACTATAGTTGGGCTATGGCATTCTGAT
66 ATATGTAAGACCATAGTTGGGCTATGGCATTCTGAT
*
60499677 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAACATAAGACCATGGTTGGACCATGGCAGTGTTT
60499742 ATATGTAAGACCATAGTTGGGCTATGGCATTCTGAT
66 ATATGTAAGACCATAGTTGGGCTATGGCATTCTGAT
60499778 GATAAGACCATAACTGGGTTATGGCACTA
1 GATAAGACCATAACTGGGTTATGGCACTA
60499807 CAAATGTAAA
Statistics
Matches: 124, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 124 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (101 bp):
GATAAGACCATAACTGGGTTATGGCACTATGAACATAAGACCATGGTTGGACCATGGCAGTGTTT
ATATGTAAGACCATAGTTGGGCTATGGCATTCTGAT
Found at i:60499859 original size:24 final size:25
Alignment explanation
Indices: 60499806--60499859 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
60499796 TTATGGCACT
*
60499806 ACAAATGTAAAGGATGAATTGATGG
1 ACAAATGTAAAGGATGAATTGATCG
*
60499831 A-AAATGTAAATGATGAATTGA-CG
1 ACAAATGTAAAGGATGAATTGATCG
60499854 ACAAAT
1 ACAAAT
60499860 TACCCAAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 2 0.08
24 23 0.88
25 1 0.04
ACGTcount: A:0.48, C:0.06, G:0.22, T:0.24
Consensus pattern (25 bp):
ACAAATGTAAAGGATGAATTGATCG
Found at i:60503295 original size:97 final size:97
Alignment explanation
Indices: 60503129--60503322 Score: 361
Period size: 97 Copynumber: 2.0 Consensus size: 97
60503119 CCCCAGTACG
60503129 TATTTCCAGCATTGAACATCGACCCACCAAGGTGCATGTCCCATCCACTAACCGAGTGTCGTGTA
1 TATTTCCAGCATTGAACATCGACCCACCAAGGTGCATGTCCCATCCACTAACCGAGTGTCGTGTA
60503194 AGAGTTGTGTATTCCATACTGCCACCAAACAC
66 AGAGTTGTGTATTCCATACTGCCACCAAACAC
* * *
60503226 TATTTCCAGCATTGAACATTGACCCATCGAGGTGCATGTCCCATCCACTAACCGAGTGTCGTGTA
1 TATTTCCAGCATTGAACATCGACCCACCAAGGTGCATGTCCCATCCACTAACCGAGTGTCGTGTA
60503291 AGAGTTGTGTATTCCATACTGCCACCAAACAC
66 AGAGTTGTGTATTCCATACTGCCACCAAACAC
60503323 GGGTGTTTCC
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
97 94 1.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (97 bp):
TATTTCCAGCATTGAACATCGACCCACCAAGGTGCATGTCCCATCCACTAACCGAGTGTCGTGTA
AGAGTTGTGTATTCCATACTGCCACCAAACAC
Found at i:60527256 original size:46 final size:46
Alignment explanation
Indices: 60527184--60527276 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
60527174 AGGGATAGAC
*
60527184 TATGATGAAACATATGCTCCCGTAGCTAGAATGGAAACCATTAGGA
1 TATGATGAAACATATGCTCCCATAGCTAGAATGGAAACCATTAGGA
60527230 TATGATGAAACATATGCTCCCATAGCTAGAATGGAAACCATTAGGA
1 TATGATGAAACATATGCTCCCATAGCTAGAATGGAAACCATTAGGA
60527276 T
1 T
60527277 GCTTTTAGCT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (46 bp):
TATGATGAAACATATGCTCCCATAGCTAGAATGGAAACCATTAGGA
Found at i:60539674 original size:15 final size:15
Alignment explanation
Indices: 60539637--60539675 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
60539627 CATAGCAGTG
60539637 TTTTAAGAAATATATA
1 TTTTAA-AAATATATA
* *
60539653 ATCTAAAAATATATA
1 TTTTAAAAATATATA
60539668 TTTTAAAA
1 TTTTAAAA
60539676 TTTATAAATA
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (15 bp):
TTTTAAAAATATATA
Found at i:60539915 original size:21 final size:21
Alignment explanation
Indices: 60539891--60539950 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
60539881 AGGTGAAAAA
*
60539891 ATAAAAATATATGAA-ATTATC
1 ATAAAAATAAAT-AATATTATC
*
60539912 ATAAATATAAATAATATTATC
1 ATAAAAATAAATAATATTATC
* *
60539933 ATAAATATAAATATTATT
1 ATAAAAATAAATAATATT
60539951 TAATTATCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
20 2 0.06
21 33 0.94
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (21 bp):
ATAAAAATAAATAATATTATC
Found at i:60539960 original size:26 final size:26
Alignment explanation
Indices: 60539905--60539978 Score: 95
Period size: 26 Copynumber: 3.0 Consensus size: 26
60539895 AAATATATGA
60539905 AATTATCATAAATATAAATA--A--T
1 AATTATCATAAATATAAATATTATTT
60539927 -ATTATCATAAATATAAATATTATTT
1 AATTATCATAAATATAAATATTATTT
* *
60539952 AATTATCATAAAGATAAAAATTATTT
1 AATTATCATAAATATAAATATTATTT
60539978 A
1 A
60539979 CCTTAACATT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
21 19 0.42
23 1 0.02
25 1 0.02
26 24 0.53
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (26 bp):
AATTATCATAAATATAAATATTATTT
Found at i:60542624 original size:12 final size:12
Alignment explanation
Indices: 60542591--60542624 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
60542581 AGACCAATGG
60542591 GAGCATAACAAA
1 GAGCATAACAAA
*
60542603 GAGCACAACAAA
1 GAGCATAACAAA
*
60542615 GAGTATAACA
1 GAGCATAACA
60542625 TAAGCACGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.56, C:0.18, G:0.18, T:0.09
Consensus pattern (12 bp):
GAGCATAACAAA
Found at i:60542792 original size:55 final size:55
Alignment explanation
Indices: 60542729--60542837 Score: 218
Period size: 55 Copynumber: 2.0 Consensus size: 55
60542719 CTAGAAGAAA
60542729 AAGTAAAGCTTCTTTATTATGGATTCAAATAACCCAGAAAAGGAAACATCAAAAG
1 AAGTAAAGCTTCTTTATTATGGATTCAAATAACCCAGAAAAGGAAACATCAAAAG
60542784 AAGTAAAGCTTCTTTATTATGGATTCAAATAACCCAGAAAAGGAAACATCAAAA
1 AAGTAAAGCTTCTTTATTATGGATTCAAATAACCCAGAAAAGGAAACATCAAAA
60542838 AGCACTTACC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.48, C:0.15, G:0.14, T:0.24
Consensus pattern (55 bp):
AAGTAAAGCTTCTTTATTATGGATTCAAATAACCCAGAAAAGGAAACATCAAAAG
Found at i:60561248 original size:19 final size:20
Alignment explanation
Indices: 60561226--60561264 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
60561216 ATTTTTTTTA
60561226 ATTTAATAAAATTTT-ATAT
1 ATTTAATAAAATTTTCATAT
**
60561245 ATTTTTTAAAATTTTCATAT
1 ATTTAATAAAATTTTCATAT
60561265 TGATTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTAATAAAATTTTCATAT
Found at i:60564854 original size:22 final size:22
Alignment explanation
Indices: 60564829--60564873 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
60564819 TGTTATAACT
60564829 TTTTTTTATTTACCAAAATATA
1 TTTTTTTATTTACCAAAATATA
60564851 TTTTTTTATTTACCAAAATATA
1 TTTTTTTATTTACCAAAATATA
60564873 T
1 T
60564874 AAAAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTTTTATTTACCAAAATATA
Found at i:60564972 original size:27 final size:27
Alignment explanation
Indices: 60564942--60565009 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
60564932 ACGCCAATGG
60564942 CATTGGCGGCACCAAAGGTGCCAAAAC
1 CATTGGCGGCACCAAAGGTGCCAAAAC
* *
60564969 CATTGGCGGCACCAATGGTGCCAATAC
1 CATTGGCGGCACCAAAGGTGCCAAAAC
60564996 CATTGGCGGCACCA
1 CATTGGCGGCACCA
60565010 GTTGATAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.28, C:0.31, G:0.26, T:0.15
Consensus pattern (27 bp):
CATTGGCGGCACCAAAGGTGCCAAAAC
Found at i:60565068 original size:4 final size:4
Alignment explanation
Indices: 60565052--60565181 Score: 70
Period size: 4 Copynumber: 31.0 Consensus size: 4
60565042 GAAGGAGAGG
* * *
60565052 GAAA GAAA TAAA GAAA GAAA GGAGAG GAAA GAAA GAAAA GAAG GAAA GAAAA
1 GAAA GAAA GAAA GAAA GAAA -GA-AA GAAA GAAA G-AAA GAAA GAAA G-AAA
* * *
60565104 GGAAA G-GA GAAGA GAAA AAAA GAAG GAAA G-AA G-AA GAAAA GGAAA
1 -GAAA GAAA GAA-A GAAA GAAA GAAA GAAA GAAA GAAA G-AAA -GAAA
* *
60565149 GGAGAA GAAA -AAA GAAA GAAG GAAG GAAA GAAA
1 -GA-AA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
60565182 AGGAAAGGAG
Statistics
Matches: 100, Mismatches: 14, Indels: 24
0.72 0.10 0.17
Matches are distributed among these distances:
3 11 0.11
4 56 0.56
5 28 0.28
6 5 0.05
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:60565078 original size:27 final size:27
Alignment explanation
Indices: 60565043--60565165 Score: 98
Period size: 26 Copynumber: 4.7 Consensus size: 27
60565033 TGGGGGCCAG
*
60565043 AAGGAGAGGGAAAGAAA-TAAAGAAAGA
1 AAGGAGA-GGAAAGAAAGAAAAGAAAGA
*
60565070 AAGGAGAGGAAAGAAAGAAAAGAAGGA
1 AAGGAGAGGAAAGAAAGAAAAGAAAGA
* * * *
60565097 AAGAAAAGGAAAG-GAGAAGAGAAA-A
1 AAGGAGAGGAAAGAAAGAAAAGAAAGA
* *
60565122 AAAGA-AGGAAAG-AAGAAGAA-AAGGA
1 AAGGAGAGGAAAGAAAGAA-AAGAAAGA
*
60565147 AAGGAGAAGAAA-AAAGAAA
1 AAGGAGAGGAAAGAAAGAAA
60565166 GAAGGAAGGA
Statistics
Matches: 77, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
24 13 0.17
25 11 0.14
26 27 0.35
27 26 0.34
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.01
Consensus pattern (27 bp):
AAGGAGAGGAAAGAAAGAAAAGAAAGA
Found at i:60565150 original size:45 final size:42
Alignment explanation
Indices: 60565079--60565213 Score: 131
Period size: 39 Copynumber: 3.3 Consensus size: 42
60565069 AAAGGAGAGG
* * *
60565079 AAAGAAAGAA-AAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
1 AAAGAAGGAAGAAGAAGAAAAGGAAAGGAAAGGAGAA-A-AAAA
* *
60565122 AAAGAAGGAAAGAAGAAGAAAAGGAAAGG--AGAAGAAAAAAG
1 AAAGAAGG-AAGAAGAAGAAAAGGAAAGGAAAGGAGAAAAAAA
*
60565163 AAAGAAGGAAGGA-AAGAAAAGGAAAGGAGAA-GAG-AAAAAA
1 AAAGAAGGAAGAAGAAGAAAAGGAAAGGA-AAGGAGAAAAAAA
60565203 AAAGAA-GAAGA
1 AAAGAAGGAAGA
60565214 GGGAAGGAAG
Statistics
Matches: 78, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
39 18 0.23
40 15 0.19
41 13 0.17
42 2 0.03
43 13 0.17
44 2 0.03
45 15 0.19
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (42 bp):
AAAGAAGGAAGAAGAAGAAAAGGAAAGGAAAGGAGAAAAAAA
Found at i:60565225 original size:40 final size:39
Alignment explanation
Indices: 60565062--60565227 Score: 134
Period size: 40 Copynumber: 4.3 Consensus size: 39
60565052 GAAAGAAATA
* *
60565062 AAGAAAGAAAGGAGAGGA-AAGAAAGAAAAGAAGGAA-A--G
1 AAGAAGGAAAGGAGAAGAGAA-AAA-AAAAGAA-GAAGAGGG
*
60565100 AA-AAGGAAAGGAGAAGAGAAAAAAAGAAGGAAAGAAGA-AG
1 AAGAAGGAAAGGAGAAGAGAAAAAAA-AA-G-AAGAAGAGGG
* * *
60565140 AA-AAGGAAAGGAGAAGA-AAAAAGAAAGAAGGA-AGGA
1 AAGAAGGAAAGGAGAAGAGAAAAAAAAAGAAGAAGAGGG
60565176 AAGAAAAGGAAAGGAGAAGAGAAAAAAAAAGAAGAAGAGGG
1 AAG--AAGGAAAGGAGAAGAGAAAAAAAAAGAAGAAGAGGG
60565217 AAGGAAGGAAA
1 AA-GAAGGAAA
60565228 AAAAGAAAAA
Statistics
Matches: 106, Mismatches: 9, Indels: 24
0.76 0.06 0.17
Matches are distributed among these distances:
35 1 0.01
36 8 0.08
37 19 0.18
38 10 0.09
39 24 0.23
40 38 0.36
41 5 0.05
42 1 0.01
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (39 bp):
AAGAAGGAAAGGAGAAGAGAAAAAAAAAGAAGAAGAGGG
Found at i:60565228 original size:23 final size:23
Alignment explanation
Indices: 60565125--60565234 Score: 79
Period size: 23 Copynumber: 4.8 Consensus size: 23
60565115 GAGAAAAAAA
*
60565125 GAAGGAAAG--AAGAAGAAAAGG
1 GAAGGAAAGAAAAGAAGAAGAGG
* *
60565146 AAAGGAGAAGAAAA-AAGAAAGAAG
1 GAAGGA-AAGAAAAGAAG-AAGAGG
60565170 GAAGGAAAGAAAAG--GAA-AGG
1 GAAGGAAAGAAAAGAAGAAGAGG
*
60565190 AGAAGAGAAAAAAAAAGAAGAAGAGG
1 -GAAG-G-AAAGAAAAGAAGAAGAGG
* *
60565216 GAAGGAAGGAAAAAAAGAA
1 GAAGGAAAGAAAAGAAGAA
60565235 AAAAAGGTAA
Statistics
Matches: 69, Mismatches: 9, Indels: 20
0.70 0.09 0.20
Matches are distributed among these distances:
20 2 0.03
21 11 0.16
22 5 0.07
23 29 0.42
24 12 0.17
25 7 0.10
26 3 0.04
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (23 bp):
GAAGGAAAGAAAAGAAGAAGAGG
Found at i:60566130 original size:160 final size:160
Alignment explanation
Indices: 60565733--60566181 Score: 379
Period size: 160 Copynumber: 2.8 Consensus size: 160
60565723 TATTCCCCCT
* *
60565733 TAACACACTAAATTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAAGACTA
1 TAACACACT-AATTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATA-GA
* * *
60565798 AGTTTATGATA--TTT-TTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCAGAAG
64 A-ATTATGATATTTTTATTTAAAGCAATAAAATGCGGAGAAAAAAATACGAACAAAGGGCAGAAG
**** *
60565860 TAAGAGTGTATTACTAACTTTTTTAAAATTTAGA
128 TAAGAGTGTATTACTAACCAAATT-AAATTTAAA
* * * * ** * * ** *
60565894 -AATA-ATTAA-TACAAAATATTTCAAAGAAAATGTACTGAAATAATTTAAAACAATAACATACG
1 TAACACACTAATTA-ATAA-ATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATA-G
* * * *
60565956 AGAATAAT-ATATTTTTATTTAAAGCAATAAAAAT-C-GAGAAAATAATACGAGCAAAGGGCAGG
63 A-AATTATGATATTTTTATTTAAAGCAAT-AAAATGCGGAGAAAAAAATACGAACAAAGGGCAGA
* * * **
60566018 GGTAAGGGT-TTTTTTTACACCAAATT-AATTTAAA
126 AGTAAGAGTGTATTACTA-ACCAAATTAAATTTAAA
60566052 TAACACACTAGATTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAGA
1 TAACACACTA-ATTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAA-TAGA
* * * *
60566117 AATTATGATA---TT-TTTAAAGGAATAAAATGCGGAGAAAAAAATACGAATAAATGGCCGAAGT
64 AATTATGATATTTTTATTTAAAGCAATAAAATGCGGAGAAAAAAATACGAACAAAGGGCAGAAGT
60566178 AAGA
129 AAGA
60566182 TTTTTTTACT
Statistics
Matches: 221, Mismatches: 51, Indels: 36
0.72 0.17 0.12
Matches are distributed among these distances:
155 5 0.02
156 11 0.05
157 30 0.14
158 15 0.07
159 54 0.24
160 82 0.37
161 17 0.08
162 7 0.03
ACGTcount: A:0.49, C:0.09, G:0.13, T:0.29
Consensus pattern (160 bp):
TAACACACTAATTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATAGAAA
TTATGATATTTTTATTTAAAGCAATAAAATGCGGAGAAAAAAATACGAACAAAGGGCAGAAGTAA
GAGTGTATTACTAACCAAATTAAATTTAAA
Found at i:60568427 original size:11 final size:11
Alignment explanation
Indices: 60568408--60568463 Score: 53
Period size: 11 Copynumber: 5.0 Consensus size: 11
60568398 TAACTTAATC
*
60568408 TGGAAACAATT
1 TGGATACAATT
60568419 TGGATACAATT
1 TGGATACAATT
*
60568430 T--ATAACTTAATC
1 TGGAT-AC--AATT
60568442 TGGATACAATT
1 TGGATACAATT
60568453 TGGATACAATT
1 TGGATACAATT
60568464 ACCTTTTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
9 2 0.05
10 2 0.05
11 25 0.68
12 4 0.11
13 2 0.05
14 2 0.05
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (11 bp):
TGGATACAATT
Found at i:60568433 original size:34 final size:34
Alignment explanation
Indices: 60568394--60568463 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
60568384 CACATGGTAT
60568394 TTTATAACTTAATCTGGAAACAATTTGGATACAA
1 TTTATAACTTAATCTGGAAACAATTTGGATACAA
*
60568428 TTTATAACTTAATCTGGATACAATTTGGATACAA
1 TTTATAACTTAATCTGGAAACAATTTGGATACAA
60568462 TT
1 TT
60568464 ACCTTTTATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (34 bp):
TTTATAACTTAATCTGGAAACAATTTGGATACAA
Found at i:60571559 original size:3 final size:3
Alignment explanation
Indices: 60571551--60571597 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
60571541 TCTTAATACT
60571551 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
60571598 TAATAATAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:60571688 original size:19 final size:21
Alignment explanation
Indices: 60571664--60571702 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
60571654 ACTAAAACAA
*
60571664 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAACAATATAC
60571683 AAAATAATAACAACAATATA
1 AAAATAATAACAACAATATA
60571703 ATCAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAATAACAACAATATAC
Found at i:60571959 original size:24 final size:25
Alignment explanation
Indices: 60571927--60571976 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 25
60571917 TTTTTGTTTT
60571927 TTATATA-TTTTGGTAAATAAAAAA
1 TTATATATTTTTGGTAAATAAAAAA
60571951 TTATATATTTTTTGGTAAATAAAAAA
1 TTATATA-TTTTTGGTAAATAAAAAA
60571977 AAGTTATAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 7 0.29
26 17 0.71
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (25 bp):
TTATATATTTTTGGTAAATAAAAAA
Found at i:60571991 original size:28 final size:26
Alignment explanation
Indices: 60571928--60571996 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 26
60571918 TTTTGTTTTT
*
60571928 TATATATTTTGGTAAATAAAAAATTA
1 TATACATTTTGGTAAATAAAAAATTA
**
60571954 TATATTTTTTGGTAAATAAAAAAAAGTTA
1 TATACATTTTGGTAAAT--AAAAAA-TTA
60571983 TA-ACATTTTGGTAA
1 TATACATTTTGGTAA
60571997 TTTTTTATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 16 0.43
28 16 0.43
29 5 0.14
ACGTcount: A:0.46, C:0.01, G:0.10, T:0.42
Consensus pattern (26 bp):
TATACATTTTGGTAAATAAAAAATTA
Found at i:60573438 original size:113 final size:112
Alignment explanation
Indices: 60573288--60573503 Score: 256
Period size: 113 Copynumber: 1.9 Consensus size: 112
60573278 TCTCAAGACC
* * * * ** * *
60573288 AAAACGCATCGTTTTTGTCTTGATGTATACAATAATTAGTGGCGA-TTATGATAAAACGCC-GCT
1 AAAACGCATCGTTTTGGTATCGATGTATACAAGAATTAGTGGC-ATTTACAAAAAAAAGCCAG-T
* * * *
60573351 AAAGCAAGTATTAGCGGCGCATTGCGGGAAGCGCCGCAAAAATCTTAACG
64 AAAACAAGTATTAGCGGCGC-TTACGGAAAGCGCCACAAAAATCTTAACG
**
60573401 AAAACGCATCGTTTTGGTATCGATGTATAGTAGAATTAGTGGCATTTACAAAAAAAAGCCAGTAA
1 AAAACGCATCGTTTTGGTATCGATGTATACAAGAATTAGTGGCATTTACAAAAAAAAGCCAGTAA
*
60573466 AACAAGTCTTAGCGGCGCTTACGGAAAGCGCCACAAAA
66 AACAAGTATTAGCGGCGCTTACGGAAAGCGCCACAAAA
60573504 TATGATAACC
Statistics
Matches: 86, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
112 18 0.21
113 67 0.78
114 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (112 bp):
AAAACGCATCGTTTTGGTATCGATGTATACAAGAATTAGTGGCATTTACAAAAAAAAGCCAGTAA
AACAAGTATTAGCGGCGCTTACGGAAAGCGCCACAAAAATCTTAACG
Found at i:60573755 original size:114 final size:114
Alignment explanation
Indices: 60573562--60573989 Score: 429
Period size: 114 Copynumber: 3.7 Consensus size: 114
60573552 AAAAATGTTA
* * * * * * * *
60573562 ACCAAAACGCAGCGGTTTGGTCTCGATGTATAATACAATTACTGGC-ATTA-GGGAAAAACGCCG
1 ACCAAAACGCAG-AGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTACTGG-AAAACGCCG
* * *
60573625 CTAGAGCATA-TAATTAGCGGCGATTTTCTAGAATCGCCGCAAGATATGCAC
64 CTAAAGCATACT-ATTAGCGGCGATTTTCTAAAAGCGCCGCAAGATATGCAC
* *
60573676 ACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTACTGTAAAACGCCGCT
1 ACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTACTGGAAAACGCCGCT
* * * *
60573741 AAAGCGTACTATTAGCGGCGCTTCTCTAAAAGCGCCGCTAA-AT-TTCTTA-
66 AAAGCATACTATTAGCGGCGATTTTCTAAAAGCGCCGC-AAGATATGC--AC
** * * * *
60573790 ACCAAAACTTAGCGTTTTGGTCTTGATGTATACTATAATTAGTGGCGCTTAC-GAGAAAACGCCG
1 ACCAAAACGCAGAG-TTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTACTG-GAAAACGCCG
** * ** **
60573854 CTAAATAATAGTATTAGCGGCGATTTGATTTAAGCGCCGCAAGATATGCAC
64 CTAAAGCATACTATTAGCGGCGATTTTCTAAAAGCGCCGCAAGATATGCAC
* * *
60573905 ACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGGGCTGATTGGAAAACGCCGCT
1 ACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTACTGGAAAACGCCGCT
*
60573970 AAAGTATACTATTAGCGGCG
66 AAAGCATACTATTAGCGGCG
60573990 CGTTTTTAGA
Statistics
Matches: 254, Mismatches: 48, Indels: 24
0.78 0.15 0.07
Matches are distributed among these distances:
113 28 0.11
114 133 0.52
115 91 0.36
116 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (114 bp):
ACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTACTGGAAAACGCCGCT
AAAGCATACTATTAGCGGCGATTTTCTAAAAGCGCCGCAAGATATGCAC
Found at i:60574005 original size:114 final size:113
Alignment explanation
Indices: 60573562--60574103 Score: 401
Period size: 114 Copynumber: 4.7 Consensus size: 113
60573552 AAAAATGTTA
* * * * * * * *
60573562 ACCAAAACGCAGCGGTTTGGTCTCGATGTATAATACAATTACTGGC-ATTAGGGAAAAACGCCGC
1 ACCAAAACGCAG-AGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGG-AAAACGCCGC
* *
60573626 TAGAGCATA-TAATTAGCGGCGATT-TTCTAGAAT-CGCCGCAAGATATGCAC
64 TAAAGCATACT-ATTAGCGGCGCTTATT-TAG-ATGCGCCGCAAGATATGCAC
* *
60573676 ACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTACTGTAAAACGCCGCT
1 ACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTA-TGGAAAACGCCGCT
* * * * * *
60573741 AAAGCGTACTATTAGCGGCGCTTCTCTAAAAGCGCCGCTAA-AT-TTCTTA-
65 AAAGCATACTATTAGCGGCGCTTATTTAGATGCGCCGC-AAGATATGC--AC
** * * * * *
60573790 ACCAAAACTTAGCGTTTTGGTCTTGATGTATACTATAATTAGTGGCGCTTACGAGAAAACGCCGC
1 ACCAAAACGCAGAG-TTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATG-GAAAACGCCGC
** * *
60573855 TAAATAATAGTATTAGCGGCGATTTGATTTA-A-GCGCCGCAAGATATGCAC
64 TAAAGCATACTATTAGCGGCG-CTT-ATTTAGATGCGCCGCAAGATATGCAC
* *
60573905 ACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGGGCTGATTGGAAAACGCCGCT
1 ACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTA-TGGAAAACGCCGCT
* **
60573970 AAAGTATACTATTAGCGGCGCGTT-TTTAGATGCGCCGC-AGAATATATTA-
65 AAAGCATACTATTAGCGGCGC-TTATTTAGATGCGCCGCAAG-ATAT-GCAC
** * * ** * * *
60574019 ACTGAAACGCTGTGTTTAAATCTTGATGTATATTGGAATTAGTGGCG-TTCA-CGATAAATCGCC
1 ACCAAAACGCAGAGTTT-GGTCTTGAGGTATATTAGAATTAGTGGCGCTT-ATGGA-AAA-CGCC
*
60574082 GCTAAAGCATATTATTAGCGGC
62 GCTAAAGCATACTATTAGCGGC
60574104 ACTTTTTGGT
Statistics
Matches: 341, Mismatches: 62, Indels: 49
0.75 0.14 0.11
Matches are distributed among these distances:
112 4 0.01
113 34 0.10
114 159 0.47
115 136 0.40
116 5 0.01
117 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (113 bp):
ACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGGAAAACGCCGCTA
AAGCATACTATTAGCGGCGCTTATTTAGATGCGCCGCAAGATATGCAC
Found at i:60574007 original size:229 final size:228
Alignment explanation
Indices: 60573559--60573990 Score: 607
Period size: 229 Copynumber: 1.9 Consensus size: 228
60573549 GCAAAAAATG
*
60573559 TTAACCAAAACGCAGCGGTTTGGTCTCGATGTATAATACAATTACTGGCATTAGGGAAAAACGCC
1 TTAACCAAAACGCAGCGGTTTGGTCTCGATGTATAATACAATTACTGGCATTAGAGAAAAACGCC
* * ** *
60573624 GCTAGAGCATATAATTAGCGGCGATTTTCTAGAATCGCCGCAAGATATGCACACCAAAACGCAGA
66 GCTAAAGAATATAATTAGCGGCGATTTGATAGAAGCGCCGCAAGATATGCACACCAAAACGCAGA
* * * *
60573689 GTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTACTGTAAAACGCCGCTAAAGCGTACTATT
131 GTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTGACTGGAAAACGCCGCTAAAGCATACTATT
60573754 AGCGGCGCTTCTCTAAAAGCGCCGCTAAATTTC
196 AGCGGCGCTTCTCTAAAAGCGCCGCTAAATTTC
** * * * * * *
60573787 TTAACCAAAACTTAGCGTTTTGGTCTTGATGTATACTATAATTAGTGGCGCTTACGAG-AAAACG
1 TTAACCAAAACGCAGCGGTTTGGTCTCGATGTATAATACAATTACTGGC-ATTA-GAGAAAAACG
* **
60573851 CCGCTAAATAATAGT-ATTAGCGGCGATTTGATTTAAGCGCCGCAAGATATGCACACCAAAACGC
64 CCGCTAAAGAATA-TAATTAGCGGCGATTTGATAGAAGCGCCGCAAGATATGCACACCAAAACGC
* * *
60573915 AGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGGGCTGATTGGAAAACGCCGCTAAAGTATACT
128 AGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTGACTGGAAAACGCCGCTAAAGCATACT
60573980 ATTAGCGGCGC
193 ATTAGCGGCGC
60573991 GTTTTTAGAT
Statistics
Matches: 177, Mismatches: 24, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
228 42 0.24
229 132 0.75
230 3 0.02
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (228 bp):
TTAACCAAAACGCAGCGGTTTGGTCTCGATGTATAATACAATTACTGGCATTAGAGAAAAACGCC
GCTAAAGAATATAATTAGCGGCGATTTGATAGAAGCGCCGCAAGATATGCACACCAAAACGCAGA
GTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTGACTGGAAAACGCCGCTAAAGCATACTATT
AGCGGCGCTTCTCTAAAAGCGCCGCTAAATTTC
Found at i:60574119 original size:229 final size:228
Alignment explanation
Indices: 60573616--60574157 Score: 607
Period size: 229 Copynumber: 2.4 Consensus size: 228
60573606 GCATTAGGGA
* * *
60573616 AAAACGCCGCTAGAGCATATAATTAGCGGCGATTTTCTAG-AATCGCCGCAAGATATGCACACCA
1 AAAACGCCGCTAAAGCATATTATTAGCGGCGATTTT-T-GTAAGCGCCGCAAGATATGCACACCA
* * *
60573680 AAACGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTACTGTAAAACGCCGCTAAAG
64 AAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTGACTGGAAAACGCCGCTAAAG
* * * * ***
60573745 CGTACTATTAGCGGCGCTTCTCTAAAAGCGCCGCTAAATTTCTTAACCAAAACTTAGCGTTTTGG
129 CATACTATTAGCGGCGCTTCTCTAAAAGCGCCGCTAAATATATTAACCAAAACCTAGCGTTTAAA
*
60573810 TCTTGATGTATACTATAATTAGTGGCGCTTACGAG
194 TCTTGATGTATACTAGAATTAGTGGCGCTTACGAG
** *
60573845 AAAACGCCGCTAAATAATAGTATTAGCGGCGATTTGATT-TAAGCGCCGCAAGATATGCACACCA
1 AAAACGCCGCTAAAGCATATTATTAGCGGCGATTT--TTGTAAGCGCCGCAAGATATGCACACCA
* *
60573909 AAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGGGCTGATTGGAAAACGCCGCTAAAG
64 AAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTGACTGGAAAACGCCGCTAAAG
* * * * ** *
60573974 TATACTATTAGCGGCGCGTT-TTTAGATGCGCCGC-AGAATATATTAACTGAAACGCT-GTGTTT
129 CATACTATTAGCGGCGC-TTCTCTAAAAGCGCCGCTA-AATATATTAACCAAAAC-CTAGCGTTT
* * *
60574036 AAATCTTGATGTATATTGGAATTAGTGGCG-TTCACGAT
191 AAATCTTGATGTATACTAGAATTAGTGGCGCTT-ACGAG
* * *
60574074 AAATCGCCGCTAAAGCATATTATTAGCGGC-ACTTTTTGGTAAGCGCCACAAAATAT-CTTA-AC
1 AAAACGCCGCTAAAGCATATTATTAGCGGCGA-TTTTT-GTAAGCGCCGCAAGATATGC--ACAC
*
60574136 CAAAACGCACAGTTTTGGTCTT
62 CAAAACGCAGAG-TTTGGTCTT
60574158 AACCATGCAT
Statistics
Matches: 264, Mismatches: 36, Indels: 25
0.81 0.11 0.08
Matches are distributed among these distances:
227 2 0.01
228 5 0.02
229 242 0.92
230 14 0.05
231 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (228 bp):
AAAACGCCGCTAAAGCATATTATTAGCGGCGATTTTTGTAAGCGCCGCAAGATATGCACACCAAA
ACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTGACTGGAAAACGCCGCTAAAGCA
TACTATTAGCGGCGCTTCTCTAAAAGCGCCGCTAAATATATTAACCAAAACCTAGCGTTTAAATC
TTGATGTATACTAGAATTAGTGGCGCTTACGAG
Found at i:60574497 original size:8 final size:7
Alignment explanation
Indices: 60574470--60574503 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
60574460 AGGTTATGGT
*
60574470 GTTTTGG
1 GTTTAGG
60574477 GTTTAGG
1 GTTTAGG
60574484 GTTTAGG
1 GTTTAGG
60574491 AGTTTAGG
1 -GTTTAGG
60574499 GTTTA
1 GTTTA
60574504 TGCTACTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.47
Consensus pattern (7 bp):
GTTTAGG
Found at i:60574922 original size:23 final size:24
Alignment explanation
Indices: 60574873--60574936 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
60574863 TATAATACAT
* *
60574873 TAATTTAATAA-TATAAATAATTTA
1 TAATTT-ATAATTTTAAATAATTGA
60574897 TAATTTATAATTTTAAAT-ATTGA
1 TAATTTATAATTTTAAATAATTGA
60574920 TAATATT-TAAATTTTAA
1 TAAT-TTAT-AATTTTAA
60574937 TGTATGAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
23 13 0.37
24 22 0.63
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
TAATTTATAATTTTAAATAATTGA
Found at i:60575615 original size:44 final size:44
Alignment explanation
Indices: 60575561--60575650 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 44
60575551 AATTCTTGCG
* *
60575561 TCCTTCTTGCCCAATTTCTTGAATTCCCAAATCCATAAATGGCC
1 TCCTTCTTGCCCAATTTCTTGAAATCCCAAATCCATAAATCGCC
* * *
60575605 TCCTTTTTGCCGAATTTCTTGAAATCCCAAATCCTTAAATCGCC
1 TCCTTCTTGCCCAATTTCTTGAAATCCCAAATCCATAAATCGCC
60575649 TC
1 TC
60575651 TTTCCTCCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.24, C:0.31, G:0.09, T:0.36
Consensus pattern (44 bp):
TCCTTCTTGCCCAATTTCTTGAAATCCCAAATCCATAAATCGCC
Found at i:60577303 original size:19 final size:19
Alignment explanation
Indices: 60577279--60577340 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
60577269 TTTAAAGTTA
60577279 TATTTTAAATATTTTATTT
1 TATTTTAAATATTTTATTT
** *
60577298 TATTTT-AATCA--CGAATT
1 TATTTTAAAT-ATTTTATTT
60577315 T-TTTTAAATATTTTATTT
1 TATTTTAAATATTTTATTT
60577333 TATTTTAA
1 TATTTTAA
60577341 TCACGAATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
16 5 0.16
17 7 0.22
18 7 0.22
19 13 0.41
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (19 bp):
TATTTTAAATATTTTATTT
Found at i:60577325 original size:35 final size:35
Alignment explanation
Indices: 60577281--60577368 Score: 158
Period size: 35 Copynumber: 2.5 Consensus size: 35
60577271 TAAAGTTATA
*
60577281 TTTTAAATATTTTATTTTATTTTAATCACGAATTT
1 TTTTAAATATTTTATTTTATTTTAATCACGAATAT
60577316 TTTTAAATATTTTATTTTATTTTAATCACGAATAT
1 TTTTAAATATTTTATTTTATTTTAATCACGAATAT
*
60577351 TTTTAAATATTTAATTTT
1 TTTTAAATATTTTATTTT
60577369 TTTAAAGTTC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 51 1.00
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (35 bp):
TTTTAAATATTTTATTTTATTTTAATCACGAATAT
Found at i:60577425 original size:16 final size:16
Alignment explanation
Indices: 60577404--60577461 Score: 68
Period size: 16 Copynumber: 3.8 Consensus size: 16
60577394 CGTAATTTAT
60577404 ATAACTTACATAATTC
1 ATAACTTACATAATTC
60577420 ATAACTTACATAATT-
1 ATAACTTACATAATTC
* * *
60577435 -TAAATT-TATAATAC
1 ATAACTTACATAATTC
60577449 ATAACTTACATAA
1 ATAACTTACATAA
60577462 CTTATTAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 5 0.15
14 5 0.15
15 5 0.15
16 19 0.56
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (16 bp):
ATAACTTACATAATTC
Found at i:60577431 original size:9 final size:9
Alignment explanation
Indices: 60577388--60577465 Score: 54
Period size: 9 Copynumber: 8.7 Consensus size: 9
60577378 CAAATTTCAC
*
60577388 AACTTACGT
1 AACTTACAT
* *
60577397 AATTTATAT
1 AACTTACAT
60577406 AACTTACAT
1 AACTTACAT
60577415 AA-TT-CAT
1 AACTTACAT
60577422 AACTTACAT
1 AACTTACAT
* *
60577431 AATTTAAATTT
1 AACTTACA--T
*
60577442 ATA-ATACAT
1 A-ACTTACAT
60577451 AACTTACAT
1 AACTTACAT
60577460 AACTTA
1 AACTTA
60577466 TTAATATTTA
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
7 5 0.09
8 5 0.09
9 37 0.70
11 5 0.09
12 1 0.02
ACGTcount: A:0.45, C:0.14, G:0.01, T:0.40
Consensus pattern (9 bp):
AACTTACAT
Found at i:60577743 original size:12 final size:12
Alignment explanation
Indices: 60577722--60577785 Score: 110
Period size: 12 Copynumber: 5.3 Consensus size: 12
60577712 AAAAACTTAC
60577722 ATAACTTACATA
1 ATAACTTACATA
*
60577734 ATATCTTACATA
1 ATAACTTACATA
60577746 ATAACTTACATA
1 ATAACTTACATA
*
60577758 ATATCTTACATA
1 ATAACTTACATA
60577770 ATAACTTACATA
1 ATAACTTACATA
60577782 ATAA
1 ATAA
60577786 TACATACCCT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 48 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:60577754 original size:24 final size:24
Alignment explanation
Indices: 60577722--60577784 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
60577712 AAAAACTTAC
60577722 ATAACTTACATAATATCTTACATA
1 ATAACTTACATAATATCTTACATA
60577746 ATAACTTACATAATATCTTACATA
1 ATAACTTACATAATATCTTACATA
60577770 ATAACTTACATAATA
1 ATAACTTACATAATA
60577785 ATACATACCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.37
Consensus pattern (24 bp):
ATAACTTACATAATATCTTACATA
Found at i:60577840 original size:25 final size:23
Alignment explanation
Indices: 60577812--60577873 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 23
60577802 ATTAAATAAG
60577812 TTACATAATACACAAAAACAAAAAC
1 TTACATAATACA-AAAAAC-AAAAC
* *
60577837 TTACATAACTTACATAAAACATAAC
1 TTACATAA--TACAAAAAACAAAAC
60577862 TTACATAATACA
1 TTACATAATACA
60577874 TTAGTTATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 4 0.12
25 20 0.61
26 5 0.15
27 4 0.12
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.24
Consensus pattern (23 bp):
TTACATAATACAAAAAACAAAAC
Found at i:60577860 original size:16 final size:16
Alignment explanation
Indices: 60577839--60577874 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
60577829 ACAAAAACTT
60577839 ACATAACTTACATAAA
1 ACATAACTTACATAAA
*
60577855 ACATAACTTACATAAT
1 ACATAACTTACATAAA
60577871 ACAT
1 ACAT
60577875 TAGTTATTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (16 bp):
ACATAACTTACATAAA
Found at i:60583358 original size:21 final size:21
Alignment explanation
Indices: 60583332--60583389 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
60583322 TAACAACTTA
* *
60583332 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
*
60583353 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
*
60583374 AAGCAGATGCCGCAGC
1 AAGCAGAGGCCGCAGC
60583390 AAAGGAATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.31, C:0.22, G:0.43, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:60584076 original size:126 final size:127
Alignment explanation
Indices: 60583849--60584081 Score: 312
Period size: 126 Copynumber: 1.8 Consensus size: 127
60583839 GTTTGTGAAA
* *
60583849 TAAGCGCCGCGAAAGAACACTACTTTTAGCGGCGTTTTCTTCCTAAGCGCAGCTAAAGATCATGT
1 TAAGCGCCGCGAAAGAACACTACTTTTAGCGGCGTTTTCTTCCTAAGCGCAGCTAAAGAACATGA
**
60583914 TCTTTAGCGGCGTTTTCTCCAAAGCGTTGCTAAAGAACATGATCTTCAGCGACGTTTTTCCC
66 TCTTTAGCGGCGTTTTCTCCAAAGCGCCGCTAAAGAACATGATCTTCAGCGACGTTTTTCCC
* *
60583976 TAAGCGCCGCTG-AAGAACA-TGA-TCTTTAGCGGCGTTTT-TTCCTAAGCGCCGCTGAAGAACA
1 TAAGCGCCGC-GAAAGAACACT-ACT-TTTAGCGGCGTTTTCTTCCTAAGCGCAGCTAAAGAACA
* *** *
60584037 TGATCTTTAGCGGCGTTTTTTCGGTAGCGCCGCTGAAGAACATGA
63 TGATCTTTAGCGGCGTTTTCTCCAAAGCGCCGCTAAAGAACATGA
60584082 GCTTTAGCAG
Statistics
Matches: 92, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
126 59 0.64
127 32 0.35
128 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (127 bp):
TAAGCGCCGCGAAAGAACACTACTTTTAGCGGCGTTTTCTTCCTAAGCGCAGCTAAAGAACATGA
TCTTTAGCGGCGTTTTCTCCAAAGCGCCGCTAAAGAACATGATCTTCAGCGACGTTTTTCCC
Found at i:60584098 original size:42 final size:42
Alignment explanation
Indices: 60583849--60584113 Score: 268
Period size: 42 Copynumber: 6.2 Consensus size: 42
60583839 GTTTGTGAAA
*
60583849 TAAGCGCCGC-GAAAGAACACT-A-CTTTTAGCGGCGTTTTCTTCC
1 TAAGCGCCGCTG-AAGAACA-TGATC-TTTAGCGGCGTTTT-TTCG
* * * * * *
60583892 TAAGCGCAGCTAAAGATCATGTTCTTTAGCGGCGTTTTCTCC
1 TAAGCGCCGCTGAAGAACATGATCTTTAGCGGCGTTTTTTCG
* ** * * * * *
60583934 AAAGCGTTGCTAAAGAACATGATCTTCAGCGACGTTTTTCCC
1 TAAGCGCCGCTGAAGAACATGATCTTTAGCGGCGTTTTTTCG
*
60583976 TAAGCGCCGCTGAAGAACATGATCTTTAGCGGCGTTTTTTCC
1 TAAGCGCCGCTGAAGAACATGATCTTTAGCGGCGTTTTTTCG
60584018 TAAGCGCCGCTGAAGAACATGATCTTTAGCGGCGTTTTTTCGG
1 TAAGCGCCGCTGAAGAACATGATCTTTAGCGGCGTTTTTTC-G
* * *
60584061 T-AGCGCCGCTGAAGAACATGAGCTTTAGCAGCATTTTTTTCTG
1 TAAGCGCCGCTGAAGAACATGATCTTTAGCGGC-GTTTTTTC-G
60584104 TAAGCGCCGC
1 TAAGCGCCGC
60584114 AAAAGTTAAC
Statistics
Matches: 190, Mismatches: 26, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
42 142 0.75
43 39 0.21
44 9 0.05
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (42 bp):
TAAGCGCCGCTGAAGAACATGATCTTTAGCGGCGTTTTTTCG
Found at i:60585656 original size:31 final size:29
Alignment explanation
Indices: 60585621--60585692 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 29
60585611 TTTTTGTACC
*
60585621 AAAATGAAAGCAATCC-AAAAGTTGGGTGACT
1 AAAATGAAAGC--TCCTAAAAGTTGAGTGA-T
60585652 AAAATGAAAGCTCCTTAAAAGTTGAGTGAT
1 AAAATGAAAGCTCC-TAAAAGTTGAGTGAT
60585682 AAAATTGAAAG
1 AAAA-TGAAAG
60585693 GATTTTCAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
29 3 0.08
30 5 0.14
31 29 0.78
ACGTcount: A:0.47, C:0.10, G:0.21, T:0.22
Consensus pattern (29 bp):
AAAATGAAAGCTCCTAAAAGTTGAGTGAT
Found at i:60586702 original size:3 final size:3
Alignment explanation
Indices: 60586694--60586733 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
60586684 GACTACAATC
60586694 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
60586734 GACGGGTGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.35, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:60590260 original size:25 final size:26
Alignment explanation
Indices: 60590209--60590260 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
60590199 GTTATAACTT
60590209 TTTTTTTATTTACCAAAAAATATATAA
1 TTTTTTTATTTACC-AAAAATATATAA
60590236 TTTTTTTATTTACC-AAAATATATAA
1 TTTTTTTATTTACCAAAAATATATAA
60590261 AAAAAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 11 0.44
27 14 0.56
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (26 bp):
TTTTTTTATTTACCAAAAATATATAA
Found at i:60590812 original size:14 final size:14
Alignment explanation
Indices: 60590781--60590821 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
60590771 CAATAACCAC
*
60590781 AATAATTGAAACTAG
1 AATAATT-AAATTAG
60590796 AATAATTAAATTAG
1 AATAATTAAATTAG
60590810 AATAATTAAATT
1 AATAATTAAATT
60590822 GATACAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 18 0.72
15 7 0.28
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.34
Consensus pattern (14 bp):
AATAATTAAATTAG
Found at i:60591667 original size:14 final size:14
Alignment explanation
Indices: 60591650--60591678 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
60591640 TTTTTGTATC
60591650 AATTTAATTATTCT
1 AATTTAATTATTCT
60591664 AATTTAATTATTCT
1 AATTTAATTATTCT
60591678 A
1 A
60591679 GTTCCAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (14 bp):
AATTTAATTATTCT
Found at i:60592160 original size:27 final size:27
Alignment explanation
Indices: 60592087--60592163 Score: 127
Period size: 27 Copynumber: 2.9 Consensus size: 27
60592077 ATAACACGAG
**
60592087 TGGTGCCGCCAACAGGGAACCCTTGTT
1 TGGTGCCGCCAACAGGGTTCCCTTGTT
60592114 TGGTGCCGCCAACAGGGTTCCCTTGTT
1 TGGTGCCGCCAACAGGGTTCCCTTGTT
*
60592141 TGGTGCCGCCAACAGTGTTCCCT
1 TGGTGCCGCCAACAGGGTTCCCT
60592164 CCACCCAGGG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.14, C:0.31, G:0.29, T:0.26
Consensus pattern (27 bp):
TGGTGCCGCCAACAGGGTTCCCTTGTT
Found at i:60592255 original size:23 final size:23
Alignment explanation
Indices: 60592227--60592273 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
60592217 TATTTTTTTT
60592227 AATATATTTTGGTAAATAAAAAA
1 AATATATTTTGGTAAATAAAAAA
*
60592250 AATATATTTTGTTAAATAAAAAA
1 AATATATTTTGGTAAATAAAAAA
60592273 A
1 A
60592274 GTTATAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.36
Consensus pattern (23 bp):
AATATATTTTGGTAAATAAAAAA
Found at i:60596261 original size:17 final size:18
Alignment explanation
Indices: 60596239--60596274 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
60596229 CCTCAATAAG
60596239 CATTTATA-AAAATCAAA
1 CATTTATATAAAATCAAA
*
60596256 CATTTATATAAACTCAAA
1 CATTTATATAAAATCAAA
60596274 C
1 C
60596275 CTTTCCATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.31
Consensus pattern (18 bp):
CATTTATATAAAATCAAA
Found at i:60596540 original size:42 final size:41
Alignment explanation
Indices: 60596458--60596617 Score: 180
Period size: 42 Copynumber: 3.8 Consensus size: 41
60596448 AACTCGTACA
* * * *
60596458 ATGCC-ATATCCCAGATATGGTCTTACATGCTATCATATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AATC-TATATCG
** *
60596500 ATGCCAATAG-CCCAGTTATGGTCTTACACGAATCTCATATCC
1 ATGCCAAT-GTCCCAGACATGGTCTTACACGAATCT-ATATCG
*
60596542 ATGCCAATGTCCCAAACATGGTCTTACACGAATCTTATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAATC-TATATCG
*
60596584 GTGCCAATGTCCCAGACATGGTCTTACACGAATC
1 ATGCCAATGTCCCAGACATGGTCTTACACGAATC
60596618 ACATCTCAGT
Statistics
Matches: 102, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
41 2 0.02
42 79 0.77
43 21 0.21
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (41 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAATCTATATCG
Found at i:60602095 original size:29 final size:32
Alignment explanation
Indices: 60602060--60602126 Score: 86
Period size: 29 Copynumber: 2.2 Consensus size: 32
60602050 CAATAAAAAT
*
60602060 AAAATTTATATTTAAAATATA-T-ATTA-ATG
1 AAAATTTATATTTAAAATAAATTAATTATATG
* *
60602089 AAAATTTATTTTTATAATAAATTAATTATATG
1 AAAATTTATATTTAAAATAAATTAATTATATG
60602121 AAAATT
1 AAAATT
60602127 AAATATACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 18 0.56
30 1 0.03
31 4 0.12
32 9 0.28
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (32 bp):
AAAATTTATATTTAAAATAAATTAATTATATG
Found at i:60602154 original size:25 final size:25
Alignment explanation
Indices: 60602126--60602174 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
60602116 ATATGAAAAT
* * *
60602126 TAAATATACATAATTTAAAAATATG
1 TAAATATAAAAAATTAAAAAATATG
*
60602151 TAAATTTAAAAAATTAAAAAATAT
1 TAAATATAAAAAATTAAAAAATAT
60602175 TGTTGAGGCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (25 bp):
TAAATATAAAAAATTAAAAAATATG
Found at i:60605991 original size:42 final size:43
Alignment explanation
Indices: 60605883--60606090 Score: 226
Period size: 42 Copynumber: 4.9 Consensus size: 43
60605873 AGCTCGTATA
* * ***
60605883 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCA-ACTATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACAAAATCATA-TATCG
* * *
60605926 ATGCCACTGTCCCAAACAGGGTCTTACACAAAATCATATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACAAAATCATATATCG
*
60605968 ATGCCAATGTCCCACACATGGTCTTACACAAAATCATATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACAAAATCATATATCG
* *
60606010 ATGTCAATGTCCCAGACATGGTCTTACACATAAATC-TCAAATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACA-AAATCAT-ATATCG
* * * *
60606054 ATGCCAACGTCCCAGACGTGGTCTTATACGAAATCAT
1 ATGCCAATGTCCCAGACATGGTCTTACACAAAATCAT
60606091 GTACTGCCAT
Statistics
Matches: 141, Mismatches: 19, Indels: 9
0.83 0.11 0.05
Matches are distributed among these distances:
42 70 0.50
43 42 0.30
44 29 0.21
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACAAAATCATATATCG
Found at i:60611029 original size:16 final size:16
Alignment explanation
Indices: 60611008--60611071 Score: 69
Period size: 16 Copynumber: 3.9 Consensus size: 16
60610998 TTCATACTAA
60611008 ATAAATTATATAAAAT
1 ATAAATTATATAAAAT
*
60611024 ATAAATTATATATAAT
1 ATAAATTATATAAAAT
*
60611040 ATAAA-TAGTTTAATATAT
1 ATAAATTA-TATAA-A-AT
60611058 ATAAATTATA-AAAA
1 ATAAATTATATAAAA
60611072 AAAATTCAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
15 3 0.08
16 24 0.60
17 3 0.08
18 8 0.20
19 2 0.05
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (16 bp):
ATAAATTATATAAAAT
Found at i:60611471 original size:2 final size:2
Alignment explanation
Indices: 60611464--60611491 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
60611454 AGCCTTCAAC
60611464 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
60611492 TCCTTTTCCT
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):
AT
Found at i:60613811 original size:22 final size:24
Alignment explanation
Indices: 60613786--60613843 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 24
60613776 GTCTTAACAT
60613786 TTTTAATTTT-TTTAAATATTT-A
1 TTTTAATTTTATTTAAATATTTAA
*
60613808 TTTT-ATTTTATTTTAATATTTAA
1 TTTTAATTTTATTTAAATATTTAA
60613831 TATTTAATATTTA
1 T-TTTAAT-TTTA
60613844 ATATTTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 5 0.17
22 14 0.47
23 2 0.07
24 3 0.10
25 2 0.07
26 4 0.13
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
TTTTAATTTTATTTAAATATTTAA
Found at i:60613831 original size:7 final size:7
Alignment explanation
Indices: 60613819--60613849 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
60613809 TTTATTTTAT
60613819 TTTAATA
1 TTTAATA
60613826 TTTAATA
1 TTTAATA
60613833 TTTAATA
1 TTTAATA
60613840 TTTAATA
1 TTTAATA
60613847 TTT
1 TTT
60613850 TTATATAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TTTAATA
Found at i:60613845 original size:21 final size:20
Alignment explanation
Indices: 60613811--60613849 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
60613801 ATATTTATTT
*
60613811 TATTTTATTTTAATATTTAA
1 TATTTAATTTTAATATTTAA
60613831 TATTTAATATTTAATATTT
1 TATTTAAT-TTTAATATTT
60613850 TTATATAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TATTTAATTTTAATATTTAA
Found at i:60615340 original size:13 final size:12
Alignment explanation
Indices: 60615318--60615354 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
60615308 TCTCAACCTG
60615318 TATTAATTTTTTA
1 TATT-ATTTTTTA
60615331 TATTATTTTTTA
1 TATTATTTTTTA
*
60615343 TATAATTTTTTA
1 TATTATTTTTTA
60615355 AAAAAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 19 0.83
13 4 0.17
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TATTATTTTTTA
Found at i:60616030 original size:17 final size:17
Alignment explanation
Indices: 60616008--60616071 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
60615998 AATCTTAGAG
60616008 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
* *
60616025 TTCTAATTGTGTCTTAAAG-
1 TTCTAA-T-TGT-ATACAGC
60616044 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
*
60616061 TTTTAATTGTA
1 TTCTAATTGTA
60616072 GCCTTTGATG
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 4 0.11
17 19 0.50
18 2 0.05
19 9 0.24
20 4 0.11
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (17 bp):
TTCTAATTGTATACAGC
Found at i:60616047 original size:36 final size:36
Alignment explanation
Indices: 60616000--60616070 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
60615990 GATTATATAA
*
60616000 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTGTG
1 TCTTAAAGTTCTAATTGTATACAGCTTCTAATTGTG
*
60616036 TCTTAAAGTTCTAATTGTATACAGCTTTTAATTGT
1 TCTTAAAGTTCTAATTGTATACAGCTTCTAATTGT
60616071 AGCCTTTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.46
Consensus pattern (36 bp):
TCTTAAAGTTCTAATTGTATACAGCTTCTAATTGTG
Found at i:60616340 original size:48 final size:48
Alignment explanation
Indices: 60616265--60616359 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
60616255 TGAGGGAATT
* *
60616265 CTGTTGAATCCTTTATCATTGTAAGTTAGGCCGACTTAGGCGTTTTTG
1 CTGTTGAATCCTTTATCATTGCAAGTTAGGCCGACTTAGGCATTTTTG
* *
60616313 CTGTTGAATCCTTTATCATTGCGAGTTAGGCTGACTTAGGCATTTTT
1 CTGTTGAATCCTTTATCATTGCAAGTTAGGCCGACTTAGGCATTTTT
60616360 AAGCAAAGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (48 bp):
CTGTTGAATCCTTTATCATTGCAAGTTAGGCCGACTTAGGCATTTTTG
Found at i:60621422 original size:48 final size:48
Alignment explanation
Indices: 60621347--60621441 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
60621337 TGAGGGAATT
*
60621347 CTGTTAAATCCTTTATCATAGCAAGTTAGGCTGACTTAGGCGTTTTTG
1 CTGTTAAATCCTTTATCATAGCAAGTTAAGCTGACTTAGGCGTTTTTG
* * *
60621395 CTGTTGAATCCTTTATCATTGCGAGTTAAGCTGACTTAGGCGTTTTT
1 CTGTTAAATCCTTTATCATAGCAAGTTAAGCTGACTTAGGCGTTTTT
60621442 AAGTAAAGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (48 bp):
CTGTTAAATCCTTTATCATAGCAAGTTAAGCTGACTTAGGCGTTTTTG
Found at i:60622053 original size:2 final size:2
Alignment explanation
Indices: 60622046--60622083 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
60622036 CATGTCTCTT
60622046 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
60622084 CTTACACTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:60622537 original size:11 final size:11
Alignment explanation
Indices: 60622521--60622646 Score: 64
Period size: 11 Copynumber: 12.2 Consensus size: 11
60622511 TTTTTATTTT
60622521 AAAAATTTTAA
1 AAAAATTTTAA
*
60622532 AAAAA-TTAAA
1 AAAAATTTTAA
60622542 AAAATTATTTTAA
1 AAAA--ATTTTAA
*
60622555 AAATATTTT--
1 AAAAATTTTAA
60622564 -AAAA--TTAA
1 AAAAATTTTAA
60622572 AAAAA--TTAA
1 AAAAATTTTAA
60622581 AAAAGTATTTTAA
1 AAAA--ATTTTAA
*
60622594 AAATATTTT--
1 AAAAATTTTAA
60622603 -AAAA--TTAA
1 AAAAATTTTAA
60622611 AAAAA-TTTAA
1 AAAAATTTTAA
60622621 AAAATTATTTTAA
1 AAAA--ATTTTAA
*
60622634 AAATATTTTAA
1 AAAAATTTTAA
60622645 AA
1 AA
60622647 TTAAAAAAAT
Statistics
Matches: 91, Mismatches: 7, Indels: 34
0.69 0.05 0.26
Matches are distributed among these distances:
6 4 0.04
8 6 0.07
9 16 0.18
10 16 0.18
11 25 0.27
12 2 0.02
13 22 0.24
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (11 bp):
AAAAATTTTAA
Found at i:60622555 original size:32 final size:31
Alignment explanation
Indices: 60622514--60622579 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 31
60622504 CGGCCCATTT
60622514 TTATTTTAAAAAT-TTTAAAAAAATTAAAAAAA
1 TTATTTTAAAAATATTT--AAAAATTAAAAAAA
*
60622546 TTATTTTAAAAATATTTTAAAATTAAAAAAA
1 TTATTTTAAAAATATTTAAAAATTAAAAAAA
60622577 TTA
1 TTA
60622580 AAAAAGTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
31 16 0.50
32 13 0.41
33 3 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (31 bp):
TTATTTTAAAAATATTTAAAAATTAAAAAAA
Found at i:60622582 original size:8 final size:9
Alignment explanation
Indices: 60622564--60622663 Score: 51
Period size: 9 Copynumber: 10.3 Consensus size: 9
60622554 AAAATATTTT
60622564 AAAATTAAA
1 AAAATTAAA
60622573 AAAATTAAA
1 AAAATTAAA
60622582 AAAGTATTTTAAA
1 AAA--A--TTAAA
* **
60622595 AATATT-TT
1 AAAATTAAA
60622603 AAAATTAAA
1 AAAATTAAA
60622612 AAAATTTAAA
1 AAAA-TTAAA
60622622 AAATTATTTTAAA
1 AAA--A--TTAAA
* **
60622635 AATATT-TT
1 AAAATTAAA
60622643 AAAATTAAA
1 AAAATTAAA
60622652 AAAATTAAA
1 AAAATTAAA
60622661 AAA
1 AAA
60622664 GTATGTCAAA
Statistics
Matches: 69, Mismatches: 12, Indels: 20
0.68 0.12 0.20
Matches are distributed among these distances:
8 10 0.14
9 32 0.46
10 8 0.12
11 3 0.04
12 1 0.01
13 15 0.22
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (9 bp):
AAAATTAAA
Found at i:60622590 original size:39 final size:39
Alignment explanation
Indices: 60622528--60622695 Score: 282
Period size: 39 Copynumber: 4.3 Consensus size: 39
60622518 TTTAAAAATT
*
60622528 TTAAAAAAATTAAAAAAATTATTTTAAAAATATTTTAAAA
1 TTAAAAAAATT-AAAAAAGTATTTTAAAAATATTTTAAAA
60622568 TTAAAAAAATTAAAAAAGTATTTTAAAAATATTTTAAAA
1 TTAAAAAAATTAAAAAAGTATTTTAAAAATATTTTAAAA
*
60622607 TTAAAAAAATTTAAAAAATTATTTTAAAAATATTTTAAAA
1 TTAAAAAAA-TTAAAAAAGTATTTTAAAAATATTTTAAAA
* *
60622647 TTAAAAAAATTAAAAAAGTATGTCAAAAATATTTTAAAA
1 TTAAAAAAATTAAAAAAGTATTTTAAAAATATTTTAAAA
60622686 TTAAAAAAAT
1 TTAAAAAAAT
60622696 AAATATATTT
Statistics
Matches: 122, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 73 0.60
40 49 0.40
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.36
Consensus pattern (39 bp):
TTAAAAAAATTAAAAAAGTATTTTAAAAATATTTTAAAA
Found at i:60622611 original size:79 final size:79
Alignment explanation
Indices: 60622528--60622695 Score: 309
Period size: 79 Copynumber: 2.1 Consensus size: 79
60622518 TTTAAAAATT
* *
60622528 TTAAAAAAATTAAAAAAATTATTTTAAAAATATTTTAAAATTAAAAAAATTAAAAAAGTATTTTA
1 TTAAAAAAATTAAAAAAATTATTTTAAAAATATTTTAAAATTAAAAAAATTAAAAAAGTATGTCA
60622593 AAAATATTTTAAAA
66 AAAATATTTTAAAA
*
60622607 TTAAAAAAATTTAAAAAATTATTTTAAAAATATTTTAAAATTAAAAAAATTAAAAAAGTATGTCA
1 TTAAAAAAATTAAAAAAATTATTTTAAAAATATTTTAAAATTAAAAAAATTAAAAAAGTATGTCA
60622672 AAAATATTTTAAAA
66 AAAATATTTTAAAA
60622686 TTAAAAAAAT
1 TTAAAAAAAT
60622696 AAATATATTT
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 86 1.00
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.36
Consensus pattern (79 bp):
TTAAAAAAATTAAAAAAATTATTTTAAAAATATTTTAAAATTAAAAAAATTAAAAAAGTATGTCA
AAAATATTTTAAAA
Found at i:60633457 original size:21 final size:21
Alignment explanation
Indices: 60633431--60633471 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
60633421 AGACGAGCAA
* *
60633431 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
60633452 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
60633472 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:60635424 original size:25 final size:24
Alignment explanation
Indices: 60635373--60635419 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
60635363 AGGTAGAGAT
60635373 TGTTGAAAAGACAAATTAAAAGGGG
1 TGTTGAAAAGACAAA-TAAAAGGGG
*
60635398 TGTTGAAAAGTCAAA-AAAAGGG
1 TGTTGAAAAGACAAATAAAAGGG
60635420 AGGTGCAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
25 14 0.67
ACGTcount: A:0.49, C:0.04, G:0.28, T:0.19
Consensus pattern (24 bp):
TGTTGAAAAGACAAATAAAAGGGG
Found at i:60641411 original size:125 final size:124
Alignment explanation
Indices: 60641136--60641422 Score: 448
Period size: 124 Copynumber: 2.3 Consensus size: 124
60641126 ATTTATTAAG
* * *
60641136 GAAATCGCTCCCACGTGGATGCGCTTTTGATACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGATACGCTTTTGCTACAGTAGATCCTGAAAAAATAATTTCGAGTTGAC
* *
60641201 GTTTCTGAGCAAATAGTATAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
66 GTTTCTAAGCAAATAGTATAAAAACGCTTCAAGCAGGATGCTTTATCAAAAGAATTTCT
* * * *
60641260 AAAATCGCTTCCACGTGGACACGCTTTTGCTACAGTAGATCCTGAAAAAATAATTTTGAGTTGAC
1 GAAATCGCTCCCACGTGGATACGCTTTTGCTACAGTAGATCCTGAAAAAATAATTTCGAGTTGAC
* *
60641325 GTTTCTAAGCAAATAGTATAAAAAAGGCTTCAAGCAGGATGCTTTATCAAAAGAATTTTT
66 GTTTCTAAGCAAATAGTAT-AAAAACGCTTCAAGCAGGATGCTTTATCAAAAGAATTTCT
* *
60641385 GAAATTGCTCCCACGTGGATATGCTTTTGCTACAGTAG
1 GAAATCGCTCCCACGTGGATACGCTTTTGCTACAGTAG
60641423 CATGTTTGGG
Statistics
Matches: 146, Mismatches: 16, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
124 76 0.52
125 70 0.48
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (124 bp):
GAAATCGCTCCCACGTGGATACGCTTTTGCTACAGTAGATCCTGAAAAAATAATTTCGAGTTGAC
GTTTCTAAGCAAATAGTATAAAAACGCTTCAAGCAGGATGCTTTATCAAAAGAATTTCT
Found at i:60644573 original size:49 final size:49
Alignment explanation
Indices: 60644518--60644815 Score: 269
Period size: 49 Copynumber: 6.5 Consensus size: 49
60644508 TAAGAATATT
* *
60644518 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
*
60644567 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATG
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
* * *
60644616 AACTATTTTGTATTTTATTACATC--A-AATAT-AAACTATT----TTG
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
* * ** *** * *
60644657 TA-TTTTATTAAATGAAATAATATC-AA-AATATTCAAAATA---------
1 AACTATT-TTGTATTTTATTACATCAAATAATA-TCAAAATATTCAAAATA
* *
60644696 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
*
60644745 AACTATTTTGTATTTTATTA-ATCAAATAATATCAAAATATTCAAAATG
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
60644793 AACTATTTTGTATTTTATTACAT
1 AACTATTTTGTATTTTATTACAT
60644816 TAATATAAAC
Statistics
Matches: 205, Mismatches: 27, Indels: 34
0.77 0.10 0.13
Matches are distributed among these distances:
39 10 0.05
40 16 0.08
41 17 0.08
42 5 0.02
43 1 0.00
44 5 0.02
45 7 0.03
46 5 0.02
47 1 0.00
48 46 0.22
49 92 0.45
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (49 bp):
AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
Found at i:60644651 original size:31 final size:31
Alignment explanation
Indices: 60644608--60644675 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
60644598 ATCAAAATAT
* *
60644608 TCAAA-ATGAACTATTTTGTATTTTATTACA
1 TCAAATATAAACTATTTTGTATTTTATTAAA
60644638 TCAAATATAAACTATTTTGTATTTTATTAAA
1 TCAAATATAAACTATTTTGTATTTTATTAAA
*
60644669 TGAAATA
1 TCAAATA
60644676 ATATCAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 5 0.15
31 29 0.85
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.46
Consensus pattern (31 bp):
TCAAATATAAACTATTTTGTATTTTATTAAA
Found at i:60644670 original size:129 final size:128
Alignment explanation
Indices: 60644512--60644899 Score: 513
Period size: 129 Copynumber: 3.0 Consensus size: 128
60644502 TATTATTAAG
60644512 AATATTAACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTG
1 AATA-TAACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTG
* * *
60644577 TATTTTATTACATCAAATAATATCAAAATATTCAAAATGAACTATTTTGTATTTTATTACATCA
65 TATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTTATTACATCA
60644641 AATATAAACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTG
1 AATAT-AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTG
60644706 TATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTTATTA-ATC-
65 TATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTTATTACATCA
**** * * * * * ***
60644768 AA-ATAA-TA-TCAAAATATTCA--AAATGAACTATTTTGTATTTTATTACATTAATATAAACTA
1 AATATAACTATTTTGTAT-TTTATTAAATGAAATAATAT-CAAAATATT-CA--AA-ATAAACTA
60644828 TTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGT-TTTTATTAC
60 TTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTTATTAC
60644892 ATCA
125 ATCA
60644896 AATA
1 AATA
60644900 ATATCAAAAT
Statistics
Matches: 234, Mismatches: 15, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
122 11 0.05
123 8 0.03
124 7 0.03
125 2 0.01
126 12 0.05
127 68 0.29
128 6 0.03
129 120 0.51
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.43
Consensus pattern (128 bp):
AATATAACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGT
ATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTTATTACATCA
Found at i:60644829 original size:78 final size:78
Alignment explanation
Indices: 60644742--60644893 Score: 270
Period size: 79 Copynumber: 1.9 Consensus size: 78
60644732 AATATTCAAA
*
60644742 ATAAACTATTTTGTATTTTATT-AATCAAATAATATCAAAATATTCAAAATGAACTATTTTGTAT
1 ATAAACTATTTTGTATTTTATTAAATCAAATAATATCAAAATATTCAAAATAAACTATTTTGT-T
60644806 TTTATTACATTAAT
65 TTTATTACATTAAT
*
60644820 ATAAACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTTT
1 ATAAACTATTTTGTATTTTATTAAATCAAATAATATCAAAATATTCAAAATAAACTATTTTGTTT
60644885 TTATTACAT
66 TTATTACAT
60644894 CAAATAATAT
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
78 33 0.46
79 38 0.54
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (78 bp):
ATAAACTATTTTGTATTTTATTAAATCAAATAATATCAAAATATTCAAAATAAACTATTTTGTTT
TTATTACATTAAT
Found at i:60644863 original size:127 final size:126
Alignment explanation
Indices: 60644562--60644949 Score: 491
Period size: 127 Copynumber: 3.0 Consensus size: 126
60644552 AAAATATTCA
* * *
60644562 AAATAAACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATGAACTATTTTGT
1 AAATAAACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGT
**** * * * * * ***
60644627 ATTTTATTACATCAAATATAAACTAT-TTTGTATTTTATTAAATGAAATAATAT-CAAAATATT-
66 ATTTTATTACATC-AA-AT-AA-TATCAAAATA-TTCA--AAATGAACTATTTTGTATTTTATTA
60644689 CA-
124 CAT
60644691 AAATAAACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGT
1 AAATAAACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGT
60644756 ATTTTATTA-ATCAAATAATATCAAAATATTCAAAATGAACTATTTTGTATTTTATTACATT
66 ATTTTATTACATCAAATAATATCAAAATATTCAAAATGAACTATTTTGTATTTTATTACA-T
60644817 AATATAAACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTG
1 AA-ATAAACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTG
* *
60644882 T-TTTTATTACATCAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTGATTACAT
65 TATTTTATTACATCAAATAATATCAAAATATTCAAAATGAACTATTTTGTATTTTATTACAT
60644943 CAAATAA
1 -AAATAA
60644950 TATCAAAATA
Statistics
Matches: 234, Mismatches: 17, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
122 11 0.05
123 5 0.02
124 8 0.03
125 4 0.02
126 17 0.07
127 115 0.49
128 3 0.01
129 71 0.30
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.43
Consensus pattern (126 bp):
AAATAAACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGT
ATTTTATTACATCAAATAATATCAAAATATTCAAAATGAACTATTTTGTATTTTATTACAT
Found at i:60644875 original size:49 final size:49
Alignment explanation
Indices: 60644820--60644991 Score: 310
Period size: 49 Copynumber: 3.5 Consensus size: 49
60644810 TTACATTAAT
* *
60644820 ATAAACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAA
1 ATAAACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAA
60644869 ATAAACTATTTTGT-TTTTATTACATCAAATAATATCAAAATATTCAAA
1 ATAAACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAA
*
60644917 ATAAACTATTTTGTATTTGATTACATCAAATAATATCAAAATATTCAAA
1 ATAAACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAA
60644966 ATAAACTATTTTGTATTTTATTACAT
1 ATAAACTATTTTGTATTTTATTACAT
60644992 TAATACAAAC
Statistics
Matches: 118, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
48 46 0.39
49 72 0.61
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.42
Consensus pattern (49 bp):
ATAAACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAA
Found at i:60644947 original size:176 final size:177
Alignment explanation
Indices: 60644518--60645010 Score: 900
Period size: 176 Copynumber: 2.8 Consensus size: 177
60644508 TAAGAATATT
60644518 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTT
1 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTT
*
60644583 ATTACATCAAATAATATCAAAATATTCAAAATGAACTATTTTGTATTTTATTACATCAAATATAA
66 ATTACATCAAATAATATCAAAATATTCAAAATGAACTATTTTGTATTTTATTACAT-TAATATAA
60644648 ACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATA
130 ACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATA
60644696 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTT
1 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTT
60644761 ATTA-ATCAAATAATATCAAAATATTCAAAATGAACTATTTTGTATTTTATTACATTAATATAAA
66 ATTACATCAAATAATATCAAAATATTCAAAATGAACTATTTTGTATTTTATTACATTAATATAAA
60644825 CTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATA
131 CTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATA
* * *
60644872 AACTATTTTGT-TTTTATTACATCAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTG
1 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTT
* *
60644936 ATTACATCAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTTATTACATTAATACAAA
66 ATTACATCAAATAATATCAAAATATTCAAAATGAACTATTTTGTATTTTATTACATTAATATAAA
*
60645001 CTACTTTGTA
131 CTATTTTGTA
60645011 CAAATAAATT
Statistics
Matches: 307, Mismatches: 7, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
175 54 0.18
176 133 0.43
177 51 0.17
178 69 0.22
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (177 bp):
AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTT
ATTACATCAAATAATATCAAAATATTCAAAATGAACTATTTTGTATTTTATTACATTAATATAAA
CTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATA
Found at i:60645018 original size:97 final size:94
Alignment explanation
Indices: 60644820--60645000 Score: 285
Period size: 97 Copynumber: 1.9 Consensus size: 94
60644810 TTACATTAAT
* *
60644820 ATAAACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTTT
1 ATAAACTATTTTGTATTTGATTAAATCAAATAATATCAAAATATTCAAAATAAACTATTTTGTTT
60644885 TTATTACATCAAATAATATCAAAATATTCAAA
66 TTATTACAT---ATAATATCAAAATATTCAAA
*
60644917 ATAAACTATTTTGTATTTGATTACATCAAATAATATCAAAATATTCAAAATAAACTATTTTGTAT
1 ATAAACTATTTTGTATTTGATTAAATCAAATAATATCAAAATATTCAAAATAAACTATTTTGT-T
60644982 TTTATTACAT-TAATA-CAAA
65 TTTATTACATATAATATCAAA
60645001 CTACTTTGTA
Statistics
Matches: 80, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
93 4 0.05
94 5 0.06
97 60 0.75
98 11 0.14
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.41
Consensus pattern (94 bp):
ATAAACTATTTTGTATTTGATTAAATCAAATAATATCAAAATATTCAAAATAAACTATTTTGTTT
TTATTACATATAATATCAAAATATTCAAA
Found at i:60645425 original size:18 final size:18
Alignment explanation
Indices: 60645399--60645441 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
60645389 GACTAGGAAA
* * *
60645399 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
60645417 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
60645435 AGGATAC
1 AGGATAC
60645442 GCATCTGACG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:60647306 original size:22 final size:22
Alignment explanation
Indices: 60647280--60647354 Score: 132
Period size: 22 Copynumber: 3.4 Consensus size: 22
60647270 AAATAGGAAT
60647280 TTGAGAGAATATTAGAGAGAAA
1 TTGAGAGAATATTAGAGAGAAA
*
60647302 TTGAGATAATATTAGAGAGAAA
1 TTGAGAGAATATTAGAGAGAAA
*
60647324 TTGAGAGAATATTAGTGAGAAA
1 TTGAGAGAATATTAGAGAGAAA
60647346 TTGAGAGAA
1 TTGAGAGAA
60647355 AAGATTTAGT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.48, C:0.00, G:0.27, T:0.25
Consensus pattern (22 bp):
TTGAGAGAATATTAGAGAGAAA
Found at i:60647355 original size:10 final size:10
Alignment explanation
Indices: 60647280--60647355 Score: 80
Period size: 10 Copynumber: 7.0 Consensus size: 10
60647270 AAATAGGAAT
60647280 TTGAGAGAATA
1 TTGAGAGAA-A
60647291 TTAGAGAGAAA
1 TT-GAGAGAAA
*
60647302 TTGAGATAATA
1 TTGAGAGAA-A
60647313 TTAGAGAGAAA
1 TT-GAGAGAAA
60647324 TTGAGAGAATA
1 TTGAGAGAA-A
*
60647335 TTAGTGAGAAA
1 TT-GAGAGAAA
60647346 TTGAGAGAAA
1 TTGAGAGAAA
60647356 AGATTTAGTT
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
10 20 0.36
11 17 0.30
12 19 0.34
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.25
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:60649169 original size:43 final size:44
Alignment explanation
Indices: 60649120--60649220 Score: 116
Period size: 45 Copynumber: 2.2 Consensus size: 44
60649110 AAAATGAATA
* * *
60649120 AAATTATGAAAAT-GTAAAAAGATATATGTATGTACATATAT-AT
1 AAATTAT-AAAATAATAAAAAAATATAAGTATGTACATATATAAT
*
60649163 AAATTATAAGATATAATAAAAAAATATAAGTATGTATATATATAAAT
1 AAATTATAA-A-ATAATAAAAAAATATAAGTATGTACATATAT-AAT
60649210 AAATTATAAAA
1 AAATTATAAAA
60649221 ATATGTACGT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.04
43 8 0.16
44 2 0.04
45 25 0.51
46 1 0.02
47 11 0.22
ACGTcount: A:0.57, C:0.01, G:0.08, T:0.34
Consensus pattern (44 bp):
AAATTATAAAATAATAAAAAAATATAAGTATGTACATATATAAT
Found at i:60649258 original size:31 final size:31
Alignment explanation
Indices: 60649173--60649274 Score: 91
Period size: 35 Copynumber: 3.2 Consensus size: 31
60649163 AAATTATAAG
* *
60649173 ATATAATAAAAAAATATAAGTATGTATATATAT
1 ATATATTATAAAAATAT--GTATGTATATATAT
*
60649206 AAATAAATTATAAAAATATGTACGTGTATATATAT
1 --ATATATTATAAAAATATGTA--TGTATATATAT
* *
60649241 GTATATTAT-AAAA-ATGTATGTATTTATAT
1 ATATATTATAAAAATATGTATGTATATATAT
60649270 ATATA
1 ATATA
60649275 ACGAAATTTG
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
29 14 0.24
31 5 0.09
32 4 0.07
33 10 0.17
35 25 0.43
ACGTcount: A:0.51, C:0.01, G:0.08, T:0.40
Consensus pattern (31 bp):
ATATATTATAAAAATATGTATGTATATATAT
Found at i:60649271 original size:35 final size:34
Alignment explanation
Indices: 60649182--60649275 Score: 100
Period size: 33 Copynumber: 2.7 Consensus size: 34
60649172 GATATAATAA
*
60649182 AAAAATATAAGTATGTATATATATAAATAAATTAT
1 AAAAAT-TATGTATGTATATATATAAATAAATTAT
* * ** *
60649217 AAAAA-TATGTACGTGTATATATATGTATATTAT
1 AAAAATTATGTATGTATATATATAAATAAATTAT
*
60649250 AAAAATGTATGTATTTATATATATAA
1 AAAAAT-TATGTATGTATATATATAA
60649276 CGAAATTTGA
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
33 27 0.57
35 20 0.43
ACGTcount: A:0.50, C:0.01, G:0.09, T:0.40
Consensus pattern (34 bp):
AAAAATTATGTATGTATATATATAAATAAATTAT
Found at i:60649337 original size:19 final size:19
Alignment explanation
Indices: 60649309--60649345 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
60649299 TAAATGAGTA
60649309 AATAACAATAATAATAATT
1 AATAACAATAATAATAATT
* *
60649328 AATAATAATAGTAATAAT
1 AATAACAATAATAATAAT
60649346 ATCAAATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (19 bp):
AATAACAATAATAATAATT
Found at i:60650510 original size:13 final size:13
Alignment explanation
Indices: 60650492--60650516 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60650482 GGGCTGAGGG
60650492 TTTTGGGTTGTTA
1 TTTTGGGTTGTTA
60650505 TTTTGGGTTGTT
1 TTTTGGGTTGTT
60650517 GTTAAGTTTG
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:0.04, C:0.00, G:0.32, T:0.64
Consensus pattern (13 bp):
TTTTGGGTTGTTA
Found at i:60651187 original size:45 final size:44
Alignment explanation
Indices: 60651131--60651323 Score: 203
Period size: 44 Copynumber: 4.3 Consensus size: 44
60651121 ACTACAGCGC
* * *
60651131 CAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTACAACTT
1 CAGGGAGATAAGATT-GCTATCTTCAGTCTGCTCCACTACAACTT
**
60651176 CAGGGAGATAAGACTTG-TATCTTCAACCTGCTCCACTACAACTT
1 CAGGGAGATAAGA-TTGCTATCTTCAGTCTGCTCCACTACAACTT
* * * *
60651220 CAGGGAGATAAGGTTTGCTTTCTTTAGTCTGCTCCACTGCAACTT
1 CAGGGAGATAA-GATTGCTATCTTCAGTCTGCTCCACTACAACTT
* * * *
60651265 TAAGGAGATAAGACTTG-TATCTTCA-ACGTGCTCCACTGCAACTT
1 CAGGGAGATAAGA-TTGCTATCTTCAGTC-TGCTCCACTACAACTT
60651309 CAGGGAGATAAGATT
1 CAGGGAGATAAGATT
60651324 CGCCATGATA
Statistics
Matches: 124, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
43 3 0.02
44 71 0.57
45 48 0.39
46 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
CAGGGAGATAAGATTGCTATCTTCAGTCTGCTCCACTACAACTT
Found at i:60651215 original size:44 final size:44
Alignment explanation
Indices: 60651159--60651321 Score: 209
Period size: 44 Copynumber: 3.7 Consensus size: 44
60651149 TGTCTTCAGT
*
60651159 CTGCTCCGCTACAACTTCAGGGAGATAAGACTTGTATCTTCAAC
1 CTGCTCCACTACAACTTCAGGGAGATAAGACTTGTATCTTCAAC
** * * **
60651203 CTGCTCCACTACAACTTCAGGGAGATAAGGTTTGCTTTCTTTAGT
1 CTGCTCCACTACAACTTCAGGGAGATAAGACTTG-TATCTTCAAC
* * *
60651248 CTGCTCCACTGCAACTTTAAGGAGATAAGACTTGTATCTTCAAC
1 CTGCTCCACTACAACTTCAGGGAGATAAGACTTGTATCTTCAAC
* *
60651292 GTGCTCCACTGCAACTTCAGGGAGATAAGA
1 CTGCTCCACTACAACTTCAGGGAGATAAGA
60651322 TTCGCCATGA
Statistics
Matches: 99, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
44 64 0.65
45 35 0.35
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.29
Consensus pattern (44 bp):
CTGCTCCACTACAACTTCAGGGAGATAAGACTTGTATCTTCAAC
Found at i:60651250 original size:89 final size:89
Alignment explanation
Indices: 60651131--60651326 Score: 293
Period size: 89 Copynumber: 2.2 Consensus size: 89
60651121 ACTACAGCGC
* * *
60651131 CAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTACAACTTCAGGGAGATAAGACTTGTAT
1 CAGGGAGATAAGATTCGCTGTCTTCAGTCTGCTCCACTACAACTTCAAGGAGATAAGACTTGTAT
60651196 CTTCAACCTGCTCCACTACAACTT
66 CTTCAACCTGCTCCACTACAACTT
* * * * * *
60651220 CAGGGAGATAAGGTTTGCTTTCTTTAGTCTGCTCCACTGCAACTTTAAGGAGATAAGACTTGTAT
1 CAGGGAGATAAGATTCGCTGTCTTCAGTCTGCTCCACTACAACTTCAAGGAGATAAGACTTGTAT
* *
60651285 CTTCAACGTGCTCCACTGCAACTT
66 CTTCAACCTGCTCCACTACAACTT
60651309 CAGGGAGATAAGATTCGC
1 CAGGGAGATAAGATTCGC
60651327 CATGATAACT
Statistics
Matches: 94, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
89 94 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (89 bp):
CAGGGAGATAAGATTCGCTGTCTTCAGTCTGCTCCACTACAACTTCAAGGAGATAAGACTTGTAT
CTTCAACCTGCTCCACTACAACTT
Found at i:60660702 original size:39 final size:40
Alignment explanation
Indices: 60660608--60660702 Score: 95
Period size: 39 Copynumber: 2.4 Consensus size: 40
60660598 ATTTGGAACA
* * *
60660608 AAAGCGCCACAACAAATCGAGCATCAGCGGCGATTTAGTC
1 AAAGCGCCACAAAAAATAGAGAATCAGCGGCGATTTAGTC
* * * * *
60660648 AAAGCGCCGCTAAAAATAG-GAATTAGCGGCGTTTTA-TAT
1 AAAGCGCCACAAAAAATAGAGAATCAGCGGCGATTTAGT-C
60660687 AAAGCGCCACAAAAAA
1 AAAGCGCCACAAAAAA
60660703 CCTAAGACCA
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
38 1 0.02
39 28 0.64
40 15 0.34
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.17
Consensus pattern (40 bp):
AAAGCGCCACAAAAAATAGAGAATCAGCGGCGATTTAGTC
Found at i:60660798 original size:41 final size:41
Alignment explanation
Indices: 60660741--60661001 Score: 247
Period size: 41 Copynumber: 6.4 Consensus size: 41
60660731 ATTTTTAAAC
* * * * *
60660741 CTTTAGCGGCGTTTTTATTTTAGTGCCGCTAATGGTCCGAT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGAT
* * * * **
60660782 CTTTAGCGGCATTTTTATCTGAGCGCCACTAATGCTCTGGC
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGAT
* *
60660823 CTTTAGCGGCGTTTTTCTCTAAGCGCCGCTAATGCTCATAT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGAT
* * * * * **
60660864 CTTTAGTGGCGTTTTTATCTGAGCGCCACTAATTCTCTGGC
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGAT
* * *
60660905 CTTTAGCGGTGTTTTTTTCTAAGCGCCGCTAATG-TTAGTAT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAG-AT
* * * *
60660946 CTTTAGTGGCGTTTTTATCTGAGCGCCACTAATGCTCTGA-
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGAT
60660986 CTTTTAGCGGCGTTTT
1 C-TTTAGCGGCGTTTT
60661002 ATAGGTAAGC
Statistics
Matches: 173, Mismatches: 44, Indels: 6
0.78 0.20 0.03
Matches are distributed among these distances:
40 3 0.02
41 168 0.97
42 2 0.01
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.39
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGAT
Found at i:60660879 original size:82 final size:81
Alignment explanation
Indices: 60660740--60661001 Score: 371
Period size: 82 Copynumber: 3.2 Consensus size: 81
60660730 GATTTTTAAA
* * * ** * *
60660740 CCTTTAGCGGCGTTTTTATTTTAGTGCCGCTAATGGTCCGATCTTTAGCGGCATTTTTATCTGAG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAAT-GTCATATCTTTAGTGGCGTTTTTATCTGAG
60660805 CGCCACTAATGCTCTGG
65 CGCCACTAATGCTCTGG
*
60660822 CCTTTAGCGGCGTTTTTCTCTAAGCGCCGCTAATGCTCATATCTTTAGTGGCGTTTTTATCTGAG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATG-TCATATCTTTAGTGGCGTTTTTATCTGAG
*
60660887 CGCCACTAATTCTCTGG
65 CGCCACTAATGCTCTGG
* * *
60660904 CCTTTAGCGGTGTTTTTTTCTAAGCGCCGCTAATGTTAGTATCTTTAGTGGCGTTTTTATCTGAG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGTCA-TATCTTTAGTGGCGTTTTTATCTGAG
*
60660969 CGCCACTAATGCTCTGA
65 CGCCACTAATGCTCTGG
*
60660986 CTTTTAGCGGCGTTTT
1 CCTTTAGCGGCGTTTT
60661002 ATAGGTAAGC
Statistics
Matches: 162, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
81 3 0.02
82 159 0.98
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.39
Consensus pattern (81 bp):
CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGTCATATCTTTAGTGGCGTTTTTATCTGAGC
GCCACTAATGCTCTGG
Found at i:60663478 original size:8 final size:10
Alignment explanation
Indices: 60663456--60663492 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
60663446 TATTTTTACT
60663456 TATATATGGA
1 TATATATGGA
*
60663466 TATATATGAA
1 TATATATGGA
60663476 TATATATGGA
1 TATATATGGA
60663486 TATATAT
1 TATATAT
60663493 ATATATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (10 bp):
TATATATGGA
Found at i:60664178 original size:8 final size:10
Alignment explanation
Indices: 60664156--60664192 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
60664146 TATTTTTACT
60664156 TATATATGGA
1 TATATATGGA
*
60664166 TATATATGAA
1 TATATATGGA
60664176 TATATATGGA
1 TATATATGGA
60664186 TATATAT
1 TATATAT
60664193 ATAGTTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (10 bp):
TATATATGGA
Found at i:60664301 original size:27 final size:27
Alignment explanation
Indices: 60664260--60664311 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
60664250 AATAAACAAA
* *
60664260 TAAATAAGTTAGTAATGATTTATTTGT
1 TAAATAAATTAGTAATGAATTATTTGT
* *
60664287 TAAATAAATTGGTAATTAATTATTT
1 TAAATAAATTAGTAATGAATTATTT
60664312 AAAAGTAAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (27 bp):
TAAATAAATTAGTAATGAATTATTTGT
Found at i:60665512 original size:11 final size:11
Alignment explanation
Indices: 60665496--60665532 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
60665486 TTGACTTTTC
60665496 TAATTTGATTA
1 TAATTTGATTA
60665507 TAATTTGATTA
1 TAATTTGATTA
*
60665518 TAATTTCATTA
1 TAATTTGATTA
60665529 TAAT
1 TAAT
60665533 GTAGTATCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (11 bp):
TAATTTGATTA
Found at i:60665855 original size:34 final size:33
Alignment explanation
Indices: 60665778--60666340 Score: 322
Period size: 34 Copynumber: 18.0 Consensus size: 33
60665768 ACATATCATT
* *
60665778 TAATTAATTAATATACATAGATTACATAACTT-A
1 TAATTAA-TATTATACATAAATTACATAACTTAA
*
60665811 -CATTAATATTATACATAAATTACATAACTTAA
1 TAATTAATATTATACATAAATTACATAACTTAA
60665843 TGAATTAATATTATAC-------AC--AACTT-A
1 T-AATTAATATTATACATAAATTACATAACTTAA
*
60665867 -CATTAATATTATACATAAATTACATAACTTAA
1 TAATTAATATTATACATAAATTACATAACTTAA
60665899 TTAATTAATTAGTATATACATAAATTACATAACTTAAA
1 -TAATTAA-TA-T-TATACATAAATTACATAACTT-AA
60665937 TAATT-A-A-TAT---T--A-TACATAACTT-A
1 TAATTAATATTATACATAAATTACATAACTTAA
* *
60665960 -CATTAATATTATACATAAATTACATAACATAA
1 TAATTAATATTATACATAAATTACATAACTTAA
60665992 TTAATTAA---TAT---T--A-TACATAACTT-A
1 -TAATTAATATTATACATAAATTACATAACTTAA
*
60666016 -CATTAATATTATACATAAATTACATAACTTAA
1 TAATTAATATTATACATAAATTACATAACTTAA
60666048 TAAATT-A-A-TAT---T--A-TACATAACTT-A
1 T-AATTAATATTATACATAAATTACATAACTTAA
* *
60666072 -CATTAATATTATACATAAATTACATAACTTAGT
1 TAATTAATATTATACATAAATTACATAACTTA-A
*
60666105 TAATTAATATTATACATAACTTACATAACTTACA
1 TAATTAATATTATACATAAATTACATAACTTA-A
* * *
60666139 -ACTTACATAACT-TACATTAATATTATACATATTATACATAA
1 TAATTA-AT-ATTATACA-TAA-A-T-TAC--A-TA-ACTTAA
*
60666180 CTTACATTAATATTATACAT-ATTATACATAACTT-A
1 --TA-ATTAATATTATACATAAAT-TACATAACTTAA
*
60666215 -CATTAATATTATACATAAATTACATAAC-T--
1 TAATTAATATTATACATAAATTACATAACTTAA
60666244 TAATT-A-A-TATACATAAATTACATAACTTAA
1 TAATTAATATTATACATAAATTACATAACTTAA
* *
60666274 TTAATTAATATTATACATAAATTACATAAATTAGT
1 -TAATTAATATTATACATAAATTACATAACTTA-A
*
60666309 TAATTAATATTATACATAACTTACATAACTTA
1 TAATTAATATTATACATAAATTACATAACTTA
60666341 CAACTTACAT
Statistics
Matches: 417, Mismatches: 33, Indels: 159
0.68 0.05 0.26
Matches are distributed among these distances:
22 24 0.06
23 3 0.01
24 5 0.01
25 43 0.10
26 3 0.01
27 21 0.05
28 8 0.02
29 3 0.01
30 7 0.02
31 93 0.22
32 13 0.03
33 6 0.01
34 113 0.27
35 8 0.02
36 5 0.01
37 29 0.07
38 6 0.01
40 6 0.01
41 3 0.01
42 5 0.01
43 3 0.01
44 7 0.02
45 3 0.01
ACGTcount: A:0.48, C:0.11, G:0.01, T:0.39
Consensus pattern (33 bp):
TAATTAATATTATACATAAATTACATAACTTAA
Found at i:60665866 original size:56 final size:56
Alignment explanation
Indices: 60665800--60666334 Score: 353
Period size: 56 Copynumber: 9.2 Consensus size: 56
60665790 ATACATAGAT
60665800 TACATAACTTACATTAATATTATACATAAAT-TACATAACTTAATGAATTAATATTA
1 TACATAACTTACATTAATATTATACATAAATATACATAACTTAAT-AATTAATATTA
*
60665856 TACACAACTTACATTAATATTATACATAAAT-TACATAACTTAATTAATTAATTAGTATA
1 TACATAACTTACATTAATATTATACATAAATATACATAACTTAA-TAATTAA-TA-T-TA
* * *
60665915 TACATAAATTACA-TAACT-TAAATA-ATTAATATTATACATAACTT-A-CATTAATATTA
1 TACATAACTTACATTAA-TAT-TATACA-TAA-A-TATACATAACTTAATAATTAATATTA
* * * *
60665971 TACATAAATTACATAACATAATTAATTA-AT-ATTATACATAACTT-A-CATTAATATTA
1 TACATAACTTACATTA-AT-ATT-A-TACATAAATATACATAACTTAATAATTAATATTA
* * * *
60666027 TACATAAATTACA-TAACT-TAATAAATTAATATTATACATAACTT-A-CATTAATATTA
1 TACATAACTTACATTAA-TATTATACA-TAA-A-TATACATAACTTAATAATTAATATTA
* * *
60666083 TACATAAATTACA-TAACTTAGTTAATTA-AT-ATTATACATAACTTACATAACTTACA-ACT-
1 TACATAACTTACATTAA--TA-TT-A-TACATAAATATACATAACTTA-ATAA-TTA-ATATTA
*
60666142 TACATAACTTACATTAATATTATACAT-ATTATACATAACTTACATTAATATTATACATATTA
1 TACATAACTTACATTAATATTATACATAAATATACATAACTTA-A-T-A-A-T-TA-ATATTA
*
60666204 TACATAACTTACATTAATATTATACATAAAT-TACATAACTTAATTAATATACATA-AA
1 TACATAACTTACATTAATATTATACATAAATATACATAACTTAA-TAAT-TA-ATATTA
* * *
60666261 TTACATAACTTAATTAATTAATATTATACATAAAT-TACATAAATTAGTTAATTAATATTA
1 -TACATAACTT-A--CATTAATATTATACATAAATATACATAACTTA-ATAATTAATATTA
60666321 TACATAACTTACAT
1 TACATAACTTACAT
60666335 AACTTACAAC
Statistics
Matches: 406, Mismatches: 26, Indels: 94
0.77 0.05 0.18
Matches are distributed among these distances:
51 2 0.00
52 2 0.00
53 2 0.00
54 2 0.00
55 4 0.01
56 174 0.43
57 11 0.03
58 34 0.08
59 60 0.15
60 22 0.05
61 43 0.11
62 48 0.12
63 2 0.00
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (56 bp):
TACATAACTTACATTAATATTATACATAAATATACATAACTTAATAATTAATATTA
Found at i:60665874 original size:22 final size:22
Alignment explanation
Indices: 60665846--60665891 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
60665836 AACTTAATGA
*
60665846 ATTAATATTATACACAACTTAC
1 ATTAATATTATACACAAATTAC
*
60665868 ATTAATATTATACATAAATTAC
1 ATTAATATTATACACAAATTAC
60665890 AT
1 AT
60665892 AACTTAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (22 bp):
ATTAATATTATACACAAATTAC
Found at i:60665892 original size:9 final size:9
Alignment explanation
Indices: 60665878--60666306 Score: 103
Period size: 9 Copynumber: 46.2 Consensus size: 9
60665868 ATTAATATTA
60665878 TACATAAAT
1 TACATAAAT
*
60665887 TACATAACT
1 TACATAAAT
*
60665896 TA-ATTAAT
1 TACATAAAT
*
60665904 TA-ATTAGTAT
1 TACA-TA-AAT
60665914 ATACATAAAT
1 -TACATAAAT
*
60665924 TACATAACT
1 TACATAAAT
*
60665933 TAAAT-AAT
1 TACATAAAT
*
60665941 TA-AT-ATT
1 TACATAAAT
*
60665948 ATACATAACT
1 -TACATAAAT
60665958 TACATTAATATT
1 TACA-TAA-A-T
60665970 ATACATAAAT
1 -TACATAAAT
60665980 TACATAACA-
1 TACATAA-AT
*
60665989 TA-ATTAAT
1 TACATAAAT
*
60665997 TA-AT-ATT
1 TACATAAAT
*
60666004 ATACATAACT
1 -TACATAAAT
60666014 TACATTAATATT
1 TACA-TAA-A-T
60666026 ATACATAAAT
1 -TACATAAAT
*
60666036 TACATAACT
1 TACATAAAT
60666045 TA-ATAAAT
1 TACATAAAT
*
60666053 TA-AT-ATT
1 TACATAAAT
*
60666060 ATACATAACT
1 -TACATAAAT
60666070 TACATTAATATT
1 TACA-TAA-A-T
60666082 ATACATAAAT
1 -TACATAAAT
*
60666092 TACATAACT
1 TACATAAAT
* *
60666101 TA-GTTAAT
1 TACATAAAT
*
60666109 TA-AT-ATT
1 TACATAAAT
*
60666116 ATACATAACT
1 -TACATAAAT
*
60666126 TACATAACT
1 TACATAAAT
*
60666135 TAC--AACT
1 TACATAAAT
*
60666142 TACATAACT
1 TACATAAAT
60666151 TACATTAATATT
1 TACA-TAA-A-T
*
60666163 ATACAT-ATT
1 -TACATAAAT
*
60666172 ATACATAACT
1 -TACATAAAT
60666182 TACATTAATATT
1 TACA-TAA-A-T
*
60666194 ATACAT-ATT
1 -TACATAAAT
*
60666203 ATACATAACT
1 -TACATAAAT
60666213 TACATTAATATT
1 TACA-TAA-A-T
60666225 ATACATAAAT
1 -TACATAAAT
*
60666235 TACATAACT
1 TACATAAAT
*
60666244 TA-ATTAAT
1 TACATAAAT
60666252 ATACATAAAT
1 -TACATAAAT
*
60666262 TACATAACT
1 TACATAAAT
*
60666271 TA-ATTAAT
1 TACATAAAT
*
60666279 TA-AT-ATT
1 TACATAAAT
60666286 ATACATAAAT
1 -TACATAAAT
60666296 TACATAAAT
1 TACATAAAT
60666305 TA
1 TA
60666307 GTTAATTAAT
Statistics
Matches: 325, Mismatches: 44, Indels: 102
0.69 0.09 0.22
Matches are distributed among these distances:
7 20 0.06
8 55 0.17
9 149 0.46
10 46 0.14
11 10 0.03
12 21 0.06
13 24 0.07
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.39
Consensus pattern (9 bp):
TACATAAAT
Found at i:60665967 original size:22 final size:22
Alignment explanation
Indices: 60665939--60665984 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
60665929 AACTTAAATA
*
60665939 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAAATTAC
60665961 ATTAATATTATACATAAATTAC
1 ATTAATATTATACATAAATTAC
60665983 AT
1 AT
60665985 AACATAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (22 bp):
ATTAATATTATACATAAATTAC
Found at i:60666023 original size:22 final size:21
Alignment explanation
Indices: 60665986--60666040 Score: 85
Period size: 22 Copynumber: 2.6 Consensus size: 21
60665976 AAATTACATA
60665986 ACATAATTA-ATTAATATTAT
1 ACATAATTACATTAATATTAT
60666006 ACATAACTTACATTAATATTAT
1 ACATAA-TTACATTAATATTAT
60666028 ACATAAATTACAT
1 ACAT-AATTACAT
60666041 AACTTAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 6 0.19
21 3 0.09
22 21 0.66
23 2 0.06
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (21 bp):
ACATAATTACATTAATATTAT
Found at i:60666057 original size:112 final size:112
Alignment explanation
Indices: 60665912--60666300 Score: 496
Period size: 112 Copynumber: 3.5 Consensus size: 112
60665902 ATTAATTAGT
60665912 ATATACATAAATTACATAACTTAA-ATAATTAATATTATACATAACTTACATTAATATTATACAT
1 ATATACATAAATTACATAACTTAATA-AATTAATATTATACATAACTTACATTAATATTATACAT
60665976 AAATTACATAACATAATTAATTAATATTATACATAACTTACATTAATA
65 AAATTACATAACATAATTAATTAATATTATACATAACTTACATTAATA
*
60666024 TTATACATAAATTACATAACTTAATAAATTAATATTATACATAACTTACATTAATATTATACATA
1 ATATACATAAATTACATAACTTAATAAATTAATATTATACATAACTTACATTAATATTATACATA
* *
60666089 AATTACATAACTTAGTTAATTAATATTATACATAACTTACA-T-A-A
66 AATTACATAACATAATTAATTAATATTATACATAACTTACATTAATA
* *
60666133 CT-TAC--AACTTACATAACTTACATTAATATTATACATATTATACATAACTTACATTAATATTA
1 ATATACATAAATTACATAACTTA-A-TAA-A-T-TA-ATATTATACATAACTTACATTAATATTA
*
60666195 TACAT--ATT--AT-ACATAACTTACATTAATATTATACATAAATTACATAACTTAATTA
60 TACATAAATTACATAACATAA-TTA-ATTAATATTATACATAACTTAC---A-TTAA-TA
* *
60666250 ATATACATAAATTACATAACTTAATTAATTAATATTATACATAAATTACAT
1 ATATACATAAATTACATAACTTAATAAATTAATATTATACATAACTTACAT
60666301 AAATTAGTTA
Statistics
Matches: 245, Mismatches: 12, Indels: 38
0.83 0.04 0.13
Matches are distributed among these distances:
106 14 0.06
107 5 0.02
108 11 0.04
109 24 0.10
110 5 0.02
111 3 0.01
112 135 0.55
113 1 0.00
114 20 0.08
115 3 0.01
116 1 0.00
117 3 0.01
118 5 0.02
119 1 0.00
120 14 0.06
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (112 bp):
ATATACATAAATTACATAACTTAATAAATTAATATTATACATAACTTACATTAATATTATACATA
AATTACATAACATAATTAATTAATATTATACATAACTTACATTAATA
Found at i:60666079 original size:22 final size:22
Alignment explanation
Indices: 60666051--60666096 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
60666041 AACTTAATAA
*
60666051 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAAATTAC
60666073 ATTAATATTATACATAAATTAC
1 ATTAATATTATACATAAATTAC
60666095 AT
1 AT
60666097 AACTTAGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (22 bp):
ATTAATATTATACATAAATTAC
Found at i:60666122 original size:25 final size:22
Alignment explanation
Indices: 60666092--60666169 Score: 52
Period size: 25 Copynumber: 3.3 Consensus size: 22
60666082 ATACATAAAT
60666092 TACATAACTTAGTTAATTAATATTA
1 TACATAACTTA---AATTAATATTA
*
60666117 TACATAACTTACATAACTTACA-ACT-
1 TACATAACTT--A-AA-TTA-ATATTA
*
60666142 TACATAACTTACATTAATATTA
1 TACATAACTTAAATTAATATTA
60666164 TACATA
1 TACATA
60666170 TTATACATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 15
0.71 0.05 0.24
Matches are distributed among these distances:
20 1 0.02
21 5 0.11
22 7 0.16
23 1 0.02
25 23 0.52
26 5 0.11
27 2 0.05
ACGTcount: A:0.45, C:0.15, G:0.01, T:0.38
Consensus pattern (22 bp):
TACATAACTTAAATTAATATTA
Found at i:60666143 original size:16 final size:16
Alignment explanation
Indices: 60666122--60666154 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
60666112 TATTATACAT
60666122 AACTTACATAACTTAC
1 AACTTACATAACTTAC
60666138 AACTTACATAACTTAC
1 AACTTACATAACTTAC
60666154 A
1 A
60666155 TTAATATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.30
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:60666223 original size:22 final size:22
Alignment explanation
Indices: 60666198--60666266 Score: 75
Period size: 22 Copynumber: 2.9 Consensus size: 22
60666188 AATATTATAC
*
60666198 ATATTATACATAACTTACATTA
1 ATATTATACATAAATTACATTA
60666220 ATATTATACATAAATTACATAACTTA
1 ATATTATACATAAATTAC---A-TTA
*
60666246 ATTAATATACATAAATTACAT
1 A-TATTATACATAAATTACAT
60666267 AACTTAATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
22 17 0.43
23 1 0.03
24 1 0.03
25 1 0.03
26 4 0.10
27 16 0.40
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTATACATAAATTACATTA
Found at i:60666248 original size:13 final size:13
Alignment explanation
Indices: 60666232--60666276 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
60666222 ATTATACATA
60666232 AATTACATAACTT
1 AATTACATAACTT
*
60666245 AATTA-ATATACATA
1 AATTACATA-AC-TT
60666259 AATTACATAACTT
1 AATTACATAACTT
60666272 AATTA
1 AATTA
60666277 ATTAATATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
12 3 0.11
13 13 0.48
14 8 0.30
15 3 0.11
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (13 bp):
AATTACATAACTT
Found at i:60666335 original size:9 final size:9
Alignment explanation
Indices: 60666321--60666538 Score: 114
Period size: 9 Copynumber: 26.2 Consensus size: 9
60666311 ATTAATATTA
60666321 TACATAACT
1 TACATAACT
60666330 TACATAACT
1 TACATAACT
60666339 TAC--AACT
1 TACATAACT
60666346 TACATAACT
1 TACATAACT
***
60666355 TACATTTTTT
1 TACA-TAACT
*
60666365 TA-ATTA-T
1 TACATAACT
* *
60666372 T-CGTAAAT
1 TACATAACT
60666380 TACATAACT
1 TACATAACT
* *
60666389 TACTTAATT
1 TACATAACT
*
60666398 TGCATAA--
1 TACATAACT
*
60666405 TAAATAACT
1 TACATAACT
60666414 TACATAACT
1 TACATAACT
60666423 TACATAA--
1 TACATAACT
60666430 TACATAACT
1 TACATAACT
* *
60666439 TATATGACT
1 TACATAACT
60666448 TACATAACT
1 TACATAACT
60666457 TACAT-A--
1 TACATAACT
* *
60666463 -GCATAATT
1 TACATAACT
*
60666471 TTCATAA--
1 TACATAACT
*
60666478 TACACAACT
1 TACATAACT
*
60666487 TACATAATT
1 TACATAACT
*
60666496 TTCATAA--
1 TACATAACT
*
60666503 TAAATAACT
1 TACATAACT
60666512 TACATAA--
1 TACATAACT
60666519 TACATAACT
1 TACATAACT
*
60666528 TACATAGCT
1 TACATAACT
60666537 TA
1 TA
60666539 ATTATACTTA
Statistics
Matches: 159, Mismatches: 30, Indels: 40
0.69 0.13 0.17
Matches are distributed among these distances:
5 3 0.02
6 1 0.01
7 40 0.25
8 5 0.03
9 106 0.67
10 4 0.03
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (9 bp):
TACATAACT
Found at i:60666347 original size:16 final size:16
Alignment explanation
Indices: 60666326--60666358 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
60666316 TATTATACAT
60666326 AACTTACATAACTTAC
1 AACTTACATAACTTAC
60666342 AACTTACATAACTTAC
1 AACTTACATAACTTAC
60666358 A
1 A
60666359 TTTTTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.30
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:60666349 original size:25 final size:25
Alignment explanation
Indices: 60666321--60666462 Score: 80
Period size: 25 Copynumber: 5.6 Consensus size: 25
60666311 ATTAATATTA
60666321 TACATAACTTACATAACTTACAACT
1 TACATAACTTACATAACTTACAACT
** **
60666346 TACATAACTTACAT-TTTTTTAA-T
1 TACATAACTTACATAACTTACAACT
* * *
60666369 TATTCGTAAATTACATAACTTACTTAATT
1 TA--CATAACTTACATAACTTAC--AACT
* *
60666398 TGCATAA--TAAATAACTTACATAACT
1 TACATAACTTACATAACTTAC--AACT
*
60666423 TACATAA--TACATAACTTATATGACT
1 TACATAACTTACATAACTTACA--ACT
60666448 TACATAACTTACATA
1 TACATAACTTACATA
60666463 GCATAATTTT
Statistics
Matches: 89, Mismatches: 18, Indels: 18
0.71 0.14 0.14
Matches are distributed among these distances:
23 4 0.04
24 4 0.04
25 65 0.73
26 2 0.02
27 10 0.11
28 2 0.02
29 2 0.02
ACGTcount: A:0.42, C:0.17, G:0.02, T:0.39
Consensus pattern (25 bp):
TACATAACTTACATAACTTACAACT
Found at i:60666359 original size:34 final size:33
Alignment explanation
Indices: 60666321--60666462 Score: 94
Period size: 34 Copynumber: 4.2 Consensus size: 33
60666311 ATTAATATTA
*
60666321 TACATAACTTACATAACTTACAACTTACATAACT
1 TACATAATTTACATAA-TTACAACTTACATAACT
** * *
60666355 TACATTTTTTTA-ATTATT-CGTAAATTACATAACT
1 TACA-TAATTTACATAATTAC--AACTTACATAACT
* * * *
60666389 TACTTAATTTGCATAATAAATAACTTACATAACT
1 TACATAATTTACATAAT-TACAACTTACATAACT
*
60666423 TACATAA--TACATAACTTATATGACTTACATAACT
1 TACATAATTTACATAA-TTACA--ACTTACATAACT
60666457 TACATA
1 TACATA
60666463 GCATAATTTT
Statistics
Matches: 83, Mismatches: 16, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
32 10 0.12
33 7 0.08
34 62 0.75
35 4 0.05
ACGTcount: A:0.42, C:0.17, G:0.02, T:0.39
Consensus pattern (33 bp):
TACATAATTTACATAATTACAACTTACATAACT
Found at i:60666433 original size:16 final size:16
Alignment explanation
Indices: 60666414--60666533 Score: 96
Period size: 16 Copynumber: 7.9 Consensus size: 16
60666404 ATAAATAACT
60666414 TACATAACTTACATAA
1 TACATAACTTACATAA
* *
60666430 TACATAACTTATATGACT
1 TACATAACTTACAT-A-A
60666448 TACATAACTTACAT-A
1 TACATAACTTACATAA
* * *
60666463 -GCATAATTTTCATAA
1 TACATAACTTACATAA
*
60666478 TACACAACTTACATAA
1 TACATAACTTACATAA
60666494 T---T---TT-CATAA
1 TACATAACTTACATAA
*
60666503 TAAATAACTTACATAA
1 TACATAACTTACATAA
60666519 TACATAACTTACATA
1 TACATAACTTACATA
60666534 GCTTAATTAT
Statistics
Matches: 80, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
9 6 0.08
10 2 0.03
12 1 0.01
14 10 0.12
15 3 0.04
16 44 0.55
17 1 0.01
18 13 0.16
ACGTcount: A:0.46, C:0.17, G:0.02, T:0.35
Consensus pattern (16 bp):
TACATAACTTACATAA
Done.