Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 67 of 85
Found at i:23385426 original size:4 final size:4
Alignment explanation
Indices: 23385413--23385442 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
23385403 ATTTTGCCCT
23385413 TTTA -TTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
23385443 TCACTATTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:23386209 original size:33 final size:33
Alignment explanation
Indices: 23386154--23386234 Score: 92
Period size: 33 Copynumber: 2.5 Consensus size: 33
23386144 GTGTGATATT
* *
23386154 TTGAAATAAAAAAAAATACTCACTTGGTAGCCA
1 TTGAAATAAAAAAATATACTCACTTGATAGCCA
* * *
23386187 TTGAAATAAAAAAATTTGCTCACTTGATAGTCA
1 TTGAAATAAAAAAATATACTCACTTGATAGCCA
*
23386220 -TGTAATTAAAAAAAT
1 TTG-AAATAAAAAAAT
23386235 GATGTATTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
32 2 0.05
33 39 0.95
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (33 bp):
TTGAAATAAAAAAATATACTCACTTGATAGCCA
Found at i:23392386 original size:17 final size:18
Alignment explanation
Indices: 23392348--23392386 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
23392338 CTTTTCTACC
*
23392348 CTCATCAAACCCACAAATT
1 CTCACCAAACCCAC-AATT
23392367 CTCACCAAACCCAC-ATT
1 CTCACCAAACCCACAATT
23392384 CTC
1 CTC
23392387 CGCTAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
19 13 0.68
ACGTcount: A:0.36, C:0.44, G:0.00, T:0.21
Consensus pattern (18 bp):
CTCACCAAACCCACAATT
Found at i:23398290 original size:23 final size:23
Alignment explanation
Indices: 23398260--23398305 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
23398250 CCGTGTCTCC
*
23398260 TGCTGGTTAGGGTTTTGGGTTTT
1 TGCTGGTTAAGGTTTTGGGTTTT
23398283 TGCTGGTTAAGGTTTTGGGTTTT
1 TGCTGGTTAAGGTTTTGGGTTTT
23398306 GTTTTAGGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.07, C:0.04, G:0.37, T:0.52
Consensus pattern (23 bp):
TGCTGGTTAAGGTTTTGGGTTTT
Found at i:23398340 original size:15 final size:15
Alignment explanation
Indices: 23398289--23398348 Score: 56
Period size: 13 Copynumber: 4.3 Consensus size: 15
23398279 TTTTTGCTGG
*
23398289 TTAAGGTTTTGGGTT
1 TTAAGGTTTAGGGTT
*
23398304 TT--GTTTTAGGG-T
1 TTAAGGTTTAGGGTT
23398316 TTAAGG-TTAGGGTT
1 TTAAGGTTTAGGGTT
* *
23398330 TTTAGGTTTAGAGTT
1 TTAAGGTTTAGGGTT
23398345 TTAA
1 TTAA
23398349 AGAAAAAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
12 3 0.09
13 13 0.37
14 7 0.20
15 12 0.34
ACGTcount: A:0.18, C:0.00, G:0.30, T:0.52
Consensus pattern (15 bp):
TTAAGGTTTAGGGTT
Found at i:23398681 original size:127 final size:127
Alignment explanation
Indices: 23398539--23399080 Score: 887
Period size: 127 Copynumber: 4.3 Consensus size: 127
23398529 TAATTTAAAA
* *
23398539 AAGCTCCCATGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAA-AAGACGTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTC-AAGAAGACGTT
*
23398603 TCTGAGCAAATAGTGTCAAAAAATGCTTTAAGCAAGATGCTTTGTCAGCAAAAGTACTGAAAG
65 TCTGAGCAAATAGTGTCAAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAAAAGTACTGAAAG
* * *
23398666 AAGCTCCCACATGGACGCGCTTTTGCTACAGTAGCTTCTGAAAAAATAATTTCGAGAAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCAAGAAGACGTTT
* *
23398731 CTGAGCAAATAGTGTCAAAAAACACTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAAAAGTACTGAAAG
*
23398793 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGGAAAAATAATTTCAAGAAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCAAGAAGACGTTT
* *
23398858 CTGAGCAAATA--GTCAAAAAACGCTTTAAGCAGGATGCTTTATCAGCAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAAAAGTACTGAAAG
* *
23398918 AAGCTCCCACATGGACGCGCTTTTGCTACAATAGCTCCTGAAAAAATAATTTCAAGAAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCAAGAAGACGTTT
*
23398983 CTGAGCAAATAGTGTCAAAAAA-GCTTTAAGCAAGATGCTTTGTCAGCAAAAGTACTAAAAG
66 CTGAGCAAATAGTGTCAAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAAAAGTACTGAAAG
* *
23399044 AAGCT-CCACCGTGTACACGCTTTTGCTACAGTAGCTC
1 AAGCTCCCA-CGTGGACGCGCTTTTGCTACAGTAGCTC
23399081 ATGTTTGGCT
Statistics
Matches: 387, Mismatches: 24, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
125 123 0.32
126 66 0.17
127 198 0.51
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (127 bp):
AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCAAGAAGACGTTT
CTGAGCAAATAGTGTCAAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAAAAGTACTGAAAG
Found at i:23398986 original size:252 final size:252
Alignment explanation
Indices: 23398534--23399080 Score: 904
Period size: 252 Copynumber: 2.2 Consensus size: 252
23398524 AGTGTTAATT
* *
23398534 TAAAA-AAGCTCCCATGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAAAAG
1 TAAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAAAAG
* *
23398598 ACGTTTCTGAGCAAATAGTGTCAAAAAATGCTTTAAGCAAGATGCTTTGTCAGCAAAAGTACTGA
66 ACGTTTCTGAGCAAATAG-GTCAAAAAACGCTTTAAGCAAGATGCTTTATCAGCAAAAGTACTGA
* * *
23398663 AAGAAGCTCCCACATGGACGCGCTTTTGCTACAGTAGCTTCTGAAAAAATAATTTCGAGAAGACG
130 AAGAAGCTCCCACATGGACGCGCTTTTGCTACAATAGCTCCTGAAAAAATAATTTCAAGAAGACG
*
23398728 TTTCTGAGCAAATAGTGTCAAAAAACACTTTAAGCAGGATGCTTTGTCAGCAAAAGTAC
195 TTTCTGAGCAAATAGTGTCAAAAAA-ACTTTAAGCAAGATGCTTTGTCAGCAAAAGTAC
* *
23398787 TGAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGGAAAAATAATTTC-AAGAA
1 TAAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAA-AA
*
23398851 GACGTTTCTGAGCAAATA-GTCAAAAAACGCTTTAAGCAGGATGCTTTATCAGCAAAAGTACTGA
65 GACGTTTCTGAGCAAATAGGTCAAAAAACGCTTTAAGCAAGATGCTTTATCAGCAAAAGTACTGA
23398915 AAGAAGCTCCCACATGGACGCGCTTTTGCTACAATAGCTCCTGAAAAAATAATTTCAAGAAGACG
130 AAGAAGCTCCCACATGGACGCGCTTTTGCTACAATAGCTCCTGAAAAAATAATTTCAAGAAGACG
*
23398980 TTTCTGAGCAAATAGTGTCAAAAAAGCTTTAAGCAAGATGCTTTGTCAGCAAAAGTAC
195 TTTCTGAGCAAATAGTGTCAAAAAAACTTTAAGCAAGATGCTTTGTCAGCAAAAGTAC
* *
23399038 TAAAAGAAGCT-CCACCGTGTACACGCTTTTGCTACAGTAGCTC
1 TAAAAGAAGCTCCCA-CGTGGACGCGCTTTTGCTACAGTAGCTC
23399081 ATGTTTGGCT
Statistics
Matches: 276, Mismatches: 15, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
250 3 0.01
251 67 0.24
252 130 0.47
253 6 0.02
254 70 0.25
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (252 bp):
TAAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAAAAG
ACGTTTCTGAGCAAATAGGTCAAAAAACGCTTTAAGCAAGATGCTTTATCAGCAAAAGTACTGAA
AGAAGCTCCCACATGGACGCGCTTTTGCTACAATAGCTCCTGAAAAAATAATTTCAAGAAGACGT
TTCTGAGCAAATAGTGTCAAAAAAACTTTAAGCAAGATGCTTTGTCAGCAAAAGTAC
Found at i:23402161 original size:18 final size:18
Alignment explanation
Indices: 23402138--23402223 Score: 127
Period size: 18 Copynumber: 4.8 Consensus size: 18
23402128 TGATTCAATT
23402138 TAATTCGGTTAATTCGGG
1 TAATTCGGTTAATTCGGG
*
23402156 TAATTCAGTTAATTCGGG
1 TAATTCGGTTAATTCGGG
*
23402174 TAATTCGGTTAATTCGAG
1 TAATTCGGTTAATTCGGG
* *
23402192 TAATTCGGGTAATTCGGT
1 TAATTCGGTTAATTCGGG
*
23402210 TAATTTGGTTAATT
1 TAATTCGGTTAATT
23402224 TTTAACCAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 60 1.00
ACGTcount: A:0.26, C:0.09, G:0.23, T:0.42
Consensus pattern (18 bp):
TAATTCGGTTAATTCGGG
Found at i:23402224 original size:9 final size:9
Alignment explanation
Indices: 23402137--23402223 Score: 113
Period size: 9 Copynumber: 9.7 Consensus size: 9
23402127 GTGATTCAAT
23402137 TTAATTCGG
1 TTAATTCGG
23402146 TTAATTCGG
1 TTAATTCGG
* *
23402155 GTAATTCAG
1 TTAATTCGG
23402164 TTAATTCGG
1 TTAATTCGG
*
23402173 GTAATTCGG
1 TTAATTCGG
23402182 TTAATTCGAG
1 TTAATTCG-G
23402192 -TAATTCGG
1 TTAATTCGG
*
23402200 GTAATTCGG
1 TTAATTCGG
*
23402209 TTAATTTGG
1 TTAATTCGG
23402218 TTAATT
1 TTAATT
23402224 TTTAACCAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
8 1 0.01
9 66 0.97
10 1 0.01
ACGTcount: A:0.25, C:0.09, G:0.23, T:0.43
Consensus pattern (9 bp):
TTAATTCGG
Found at i:23402402 original size:12 final size:12
Alignment explanation
Indices: 23402385--23402409 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23402375 TGTTATTTCG
23402385 GGTCGGTTAACC
1 GGTCGGTTAACC
23402397 GGTCGGTTAACC
1 GGTCGGTTAACC
23402409 G
1 G
23402410 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:23404328 original size:9 final size:9
Alignment explanation
Indices: 23404310--23404364 Score: 92
Period size: 9 Copynumber: 6.1 Consensus size: 9
23404300 TGAAGAAACG
*
23404310 TCATCATCC
1 TCATCGTCC
23404319 TCATCGTCC
1 TCATCGTCC
*
23404328 TCATCGTCA
1 TCATCGTCC
23404337 TCATCGTCC
1 TCATCGTCC
23404346 TCATCGTCC
1 TCATCGTCC
23404355 TCATCGTCC
1 TCATCGTCC
23404364 T
1 T
23404365 TTTTGCAACC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.15, C:0.42, G:0.09, T:0.35
Consensus pattern (9 bp):
TCATCGTCC
Found at i:23406790 original size:13 final size:13
Alignment explanation
Indices: 23406772--23407021 Score: 147
Period size: 13 Copynumber: 19.1 Consensus size: 13
23406762 ATTAAAAGTC
*
23406772 AAAACATTATATT
1 AAAACAGTATATT
23406785 AAAACAGTATATTT
1 AAAACAGTATA-TT
* * *
23406799 ATAATAGTGTATT
1 AAAACAGTATATT
*
23406812 AAAACAATATATT
1 AAAACAGTATATT
*
23406825 AAAAAAGTATATTT
1 AAAACAGTATA-TT
*
23406839 ATAACAGTATATT
1 AAAACAGTATATT
23406852 AAAACAGTATATT
1 AAAACAGTATATT
* * *
23406865 ACATTAAAAATTATTGTTT
1 --A--AAACAGTA-T-ATT
* * ** *
23406884 TAATCAAAAAATT
1 AAAACAGTATATT
23406897 --AACA-TATATT
1 AAAACAGTATATT
*
23406907 AAAA-AATATATTT
1 AAAACAGTATA-TT
*
23406920 ATAACAGTATATT
1 AAAACAGTATATT
* *
23406933 AAAACAATATATC
1 AAAACAGTATATT
*
23406946 AAAAAAGTATATTT
1 AAAACAGTATA-TT
* *
23406960 ATAATAGTATATT
1 AAAACAGTATATT
23406973 AAAACAGTATATT
1 AAAACAGTATATT
23406986 AAAA-A-T-T-TT
1 AAAACAGTATATT
*
23406995 ATAACAGTATATT
1 AAAACAGTATATT
23407008 AAAACAGTATATT
1 AAAACAGTATATT
23407021 A
1 A
23407022 CATTAAAAAT
Statistics
Matches: 179, Mismatches: 40, Indels: 36
0.70 0.16 0.14
Matches are distributed among these distances:
9 5 0.03
10 6 0.03
11 6 0.03
12 8 0.04
13 104 0.58
14 36 0.20
15 5 0.03
17 6 0.03
18 1 0.01
19 2 0.01
ACGTcount: A:0.52, C:0.06, G:0.05, T:0.37
Consensus pattern (13 bp):
AAAACAGTATATT
Found at i:23406827 original size:40 final size:39
Alignment explanation
Indices: 23406772--23407021 Score: 237
Period size: 40 Copynumber: 6.4 Consensus size: 39
23406762 ATTAAAAGTC
* * *
23406772 AAAACATTATATTAAAACAGTATATTTATAATAGTGTATT
1 AAAACAATATATTAAAA-AGTATATTTATAACAGTATATT
23406812 AAAACAATATATTAAAAAAGTATATTTATAACAGTATATT
1 AAAACAATATATT-AAAAAGTATATTTATAACAGTATATT
* * ** *
23406852 AAAACAGTATATTACATTAAAAATTAT-TGTTTTAATCAAAAAATT
1 AAAACA--ATA-T--ATTAAAAAGTATAT-TTATAA-CAGTATATT
*
23406897 --AAC-ATATATTAAAAAATATATTTATAACAGTATATT
1 AAAACAATATATTAAAAAGTATATTTATAACAGTATATT
* *
23406933 AAAACAATATATCAAAAAAGTATATTTATAATAGTATATT
1 AAAACAATATAT-TAAAAAGTATATTTATAACAGTATATT
*
23406973 AAAACAGTATATT-AAAA--AT-TTTATAACAGTATATT
1 AAAACAATATATTAAAAAGTATATTTATAACAGTATATT
*
23407008 AAAACAGTATATTA
1 AAAACAATATATTA
23407022 CATTAAAAAT
Statistics
Matches: 177, Mismatches: 19, Indels: 32
0.78 0.08 0.14
Matches are distributed among these distances:
35 28 0.16
36 8 0.05
37 16 0.09
38 8 0.05
39 7 0.04
40 76 0.43
41 4 0.02
42 3 0.02
43 5 0.03
44 13 0.07
45 9 0.05
ACGTcount: A:0.52, C:0.06, G:0.05, T:0.37
Consensus pattern (39 bp):
AAAACAATATATTAAAAAGTATATTTATAACAGTATATT
Found at i:23409685 original size:7 final size:7
Alignment explanation
Indices: 23409673--23409704 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
23409663 TATTAGTTAT
23409673 ATACTAA
1 ATACTAA
23409680 ATACTAA
1 ATACTAA
23409687 ATACTAA
1 ATACTAA
23409694 ATACTAA
1 ATACTAA
23409701 ATAC
1 ATAC
23409705 CAATCGACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (7 bp):
ATACTAA
Found at i:23413623 original size:54 final size:54
Alignment explanation
Indices: 23413560--23413663 Score: 199
Period size: 54 Copynumber: 1.9 Consensus size: 54
23413550 ACCTGCTTTG
23413560 CATGATAATAGGATCATTATTTTGTGGTTTTGATTTTTCCTCTGTCATTGCTAT
1 CATGATAATAGGATCATTATTTTGTGGTTTTGATTTTTCCTCTGTCATTGCTAT
*
23413614 CATGATAATAGGATCATTATTTTGTGGTTTTGATTTTTCCTGTGTCATTG
1 CATGATAATAGGATCATTATTTTGTGGTTTTGATTTTTCCTCTGTCATTG
23413664 ATATTCAACG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.20, C:0.12, G:0.18, T:0.50
Consensus pattern (54 bp):
CATGATAATAGGATCATTATTTTGTGGTTTTGATTTTTCCTCTGTCATTGCTAT
Found at i:23418539 original size:18 final size:19
Alignment explanation
Indices: 23418518--23418566 Score: 75
Period size: 18 Copynumber: 2.6 Consensus size: 19
23418508 CAAAATATAT
23418518 AAAAAAACTAAAAAACA-A
1 AAAAAAACTAAAAAACAGA
23418536 AAAAAAA-TAAAAAACAGA
1 AAAAAAACTAAAAAACAGA
23418554 AAAAAAACCTAAA
1 AAAAAAA-CTAAA
23418567 CTGATTTGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.32
18 15 0.54
20 4 0.14
ACGTcount: A:0.82, C:0.10, G:0.02, T:0.06
Consensus pattern (19 bp):
AAAAAAACTAAAAAACAGA
Found at i:23418540 original size:17 final size:18
Alignment explanation
Indices: 23418518--23418560 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
23418508 CAAAATATAT
*
23418518 AAAAAAACTAAAAAACA-
1 AAAAAAAATAAAAAACAG
23418535 AAAAAAAATAAAAAACAG
1 AAAAAAAATAAAAAACAG
23418553 AAAAAAAA
1 AAAAAAAA
23418561 CCTAAACTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.86, C:0.07, G:0.02, T:0.05
Consensus pattern (18 bp):
AAAAAAAATAAAAAACAG
Found at i:23418668 original size:27 final size:27
Alignment explanation
Indices: 23418591--23418670 Score: 115
Period size: 27 Copynumber: 3.0 Consensus size: 27
23418581 CCCTGAATGG
**
23418591 AGGGAAGCAGGTTGGCGGCACCAAACA
1 AGGGAAGCAGGTTGGCGGCACCAGTCA
* *
23418618 AAGGAAGCAGGTTGGCGGCACCAGTCT
1 AGGGAAGCAGGTTGGCGGCACCAGTCA
*
23418645 AGGGAACCAGGTTGGCGGCACCAGTC
1 AGGGAAGCAGGTTGGCGGCACCAGTC
23418671 CTGCCAACCA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.28, C:0.24, G:0.38, T:0.11
Consensus pattern (27 bp):
AGGGAAGCAGGTTGGCGGCACCAGTCA
Found at i:23418679 original size:27 final size:27
Alignment explanation
Indices: 23418625--23418692 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
23418615 ACAAAGGAAG
**
23418625 CAGGTTGGCGGCACCAGTCTAGGGAAC
1 CAGGTTGGCGGCACCAGTCTAGCCAAC
23418652 CAGGTTGGCGGCACCAGTCCT-GCCAAC
1 CAGGTTGGCGGCACCAGT-CTAGCCAAC
* *
23418679 CAGATTGGTGGCAC
1 CAGGTTGGCGGCAC
23418693 TACTCGTGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
27 34 0.94
28 2 0.06
ACGTcount: A:0.21, C:0.29, G:0.34, T:0.16
Consensus pattern (27 bp):
CAGGTTGGCGGCACCAGTCTAGCCAAC
Found at i:23418990 original size:3 final size:3
Alignment explanation
Indices: 23418982--23419043 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
23418972 AATTTTATAG
23418982 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
23419030 TCT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
23419044 AGATGTTACT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:23421924 original size:17 final size:17
Alignment explanation
Indices: 23421902--23421938 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
23421892 AGTAAGATGT
23421902 CATGAATATTAGAATAG
1 CATGAATATTAGAATAG
23421919 CATGAATATTAGAATAG
1 CATGAATATTAGAATAG
23421936 CAT
1 CAT
23421939 CTTATCCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.30
Consensus pattern (17 bp):
CATGAATATTAGAATAG
Found at i:23423289 original size:27 final size:28
Alignment explanation
Indices: 23423222--23423280 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
23423212 AAAAATAAAA
23423222 ATTTACCAAAATATTACAACTTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTT
23423250 ATTTACCAAAATATTACAAC-TTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTT
23423277 ATTT
1 ATTT
23423281 TGGTAAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 11 0.35
28 20 0.65
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.51
Consensus pattern (28 bp):
ATTTACCAAAATATTACAACTTTTTTTT
Found at i:23424021 original size:26 final size:29
Alignment explanation
Indices: 23423969--23424042 Score: 111
Period size: 28 Copynumber: 2.7 Consensus size: 29
23423959 TTTTACTTTT
*
23423969 TTATATATATTTTGGTAAATAATAAAAA-
1 TTATATATATTTTGGTCAATAATAAAAAG
23423997 TTATATATATTTTGGTCAATAA-AAAAAG
1 TTATATATATTTTGGTCAATAATAAAAAG
23424025 TTATA-ATATTTTGG-CAAT
1 TTATATATATTTTGGTCAAT
23424043 TTTTTATTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
26 4 0.09
27 14 0.32
28 26 0.59
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (29 bp):
TTATATATATTTTGGTCAATAATAAAAAG
Found at i:23424987 original size:16 final size:16
Alignment explanation
Indices: 23424948--23424987 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
23424938 AGTTCAGGTT
*
23424948 TTTTTTCTGTTTTTTAT
1 TTTTTT-TGTTTTTTAG
23424965 TTTTTTTGTTTTTTAG
1 TTTTTTTGTTTTTTAG
23424981 TTTTTTT
1 TTTTTTT
23424988 ATATATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.05, C:0.03, G:0.07, T:0.85
Consensus pattern (16 bp):
TTTTTTTGTTTTTTAG
Found at i:23425017 original size:27 final size:26
Alignment explanation
Indices: 23424985--23425043 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 26
23424975 TTTTAGTTTT
23424985 TTTATATATTTTGGTAAATAAAAAAA
1 TTTATATATTTTGGTAAATAAAAAAA
23425011 TTATATATATTTTGGTAAATAAAAAAA
1 TT-TATATATTTTGGTAAATAAAAAAA
23425038 TTTATA
1 TTTATA
23425044 ACATTTTAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 6 0.19
27 26 0.81
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (26 bp):
TTTATATATTTTGGTAAATAAAAAAA
Found at i:23425049 original size:27 final size:27
Alignment explanation
Indices: 23424987--23425055 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
23424977 TTAGTTTTTT
*
23424987 TATATATTTTGGTAAATAAAAAAATTA
1 TATACATTTTGGTAAATAAAAAAATTA
*
23425014 TATATATTTTGGTAAATAAAAAAATT-
1 TATACATTTTGGTAAATAAAAAAATTA
*
23425040 TATAACATTTTAGTAA
1 TAT-ACATTTTGGTAA
23425056 TTTTTTATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
26 3 0.08
27 36 0.92
ACGTcount: A:0.49, C:0.01, G:0.07, T:0.42
Consensus pattern (27 bp):
TATACATTTTGGTAAATAAAAAAATTA
Found at i:23426647 original size:20 final size:20
Alignment explanation
Indices: 23426624--23426680 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
23426614 GGTTTTTGAG
23426624 TTTTTT-TATATTTTTTAAT
1 TTTTTTATATATTTTTTAAT
* *
23426643 TTTTTTATATATTCTTTAGT
1 TTTTTTATATATTTTTTAAT
*
23426663 TTCTTTATA-ATTTTTTAA
1 TTTTTTATATATTTTTTAA
23426681 GATGTAAAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 13 0.41
20 19 0.59
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTTTTATATATTTTTTAAT
Found at i:23427431 original size:20 final size:20
Alignment explanation
Indices: 23427406--23427444 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
23427396 CTCATTGATA
23427406 GATTTATTAATTTTTTAACC
1 GATTTATTAATTTTTTAACC
23427426 GATTTATTAATTTTTTAAC
1 GATTTATTAATTTTTTAAC
23427445 TGCAATCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.08, G:0.05, T:0.56
Consensus pattern (20 bp):
GATTTATTAATTTTTTAACC
Found at i:23427455 original size:22 final size:20
Alignment explanation
Indices: 23427410--23427455 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
23427400 TTGATAGATT
* *
23427410 TATTAATTTTTTAACCGATT
1 TATTAATTTTTTAACCAATC
23427430 TATTAATTTTTTAACTGCAATC
1 TATTAATTTTTTAAC--CAATC
23427452 TATT
1 TATT
23427456 TGTTAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 15 0.68
22 7 0.32
ACGTcount: A:0.30, C:0.11, G:0.04, T:0.54
Consensus pattern (20 bp):
TATTAATTTTTTAACCAATC
Found at i:23428393 original size:25 final size:25
Alignment explanation
Indices: 23428357--23428440 Score: 115
Period size: 25 Copynumber: 3.6 Consensus size: 25
23428347 ATTATATATT
23428357 AAATATATATATTTTATTTTTAATC
1 AAATATATATATTTTATTTTTAATC
*
23428382 --ATATATATA---TATATTTAATC
1 AAATATATATATTTTATTTTTAATC
*
23428402 AAATATATATTTTTTATTTTTAATC
1 AAATATATATATTTTATTTTTAATC
23428427 AAATATATATATTT
1 AAATATATATATTT
23428441 AATATGGGCC
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 10 0.20
22 8 0.16
23 9 0.18
25 23 0.46
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (25 bp):
AAATATATATATTTTATTTTTAATC
Found at i:23428400 original size:20 final size:20
Alignment explanation
Indices: 23428349--23428411 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
23428339 CAGCCCGGAT
*
23428349 TATATATTAAAT-ATATATA
1 TATATATTTAATCATATATA
* *
23428368 TTTTATTTTTAATCATATATA
1 -TATATATTTAATCATATATA
*
23428389 TATATATTTAATCAAATATA
1 TATATATTTAATCATATATA
23428409 TAT
1 TAT
23428412 TTTTTATTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
20 29 0.81
21 7 0.19
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.52
Consensus pattern (20 bp):
TATATATTTAATCATATATA
Found at i:23428406 original size:45 final size:43
Alignment explanation
Indices: 23428357--23428443 Score: 147
Period size: 45 Copynumber: 2.0 Consensus size: 43
23428347 ATTATATATT
23428357 AAATATATATATTTTATTTTTAATCATATATATATATATTTAATC
1 AAATATATATATTTTATTTTTAATCA-A-ATATATATATTTAATC
*
23428402 AAATATATATTTTTTATTTTTAATCAAATATATATATTTAAT
1 AAATATATATATTTTATTTTTAATCAAATATATATATTTAAT
23428444 ATGGGCCGAG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
43 15 0.37
44 1 0.02
45 25 0.61
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (43 bp):
AAATATATATATTTTATTTTTAATCAAATATATATATTTAATC
Found at i:23431406 original size:6 final size:6
Alignment explanation
Indices: 23431395--23431421 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
23431385 ATTGTTTAAA
23431395 AAATAT AAATAT AAATAT AAATAT AAA
1 AAATAT AAATAT AAATAT AAATAT AAA
23431422 AATTTATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATAT
Found at i:23432832 original size:15 final size:15
Alignment explanation
Indices: 23432807--23432841 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
23432797 GACTCTATTT
*
23432807 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
23432821 TAATTAATATTAAGA
1 TAATTAATATTAAGA
23432836 TAATTA
1 TAATTA
23432842 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:23436790 original size:4 final size:4
Alignment explanation
Indices: 23436781--23436841 Score: 54
Period size: 4 Copynumber: 14.5 Consensus size: 4
23436771 CAACCCAATT
*
23436781 TTTA TTTA TTTA TTTA TTTTC TTTA CTTTA TTTA -TTA TTTTA TTTTA
1 TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA TTTA TTTA -TTTA -TTTA
23436828 TTT- TATTA TTTA TT
1 TTTA T-TTA TTTA TT
23436842 ACTTATTTGG
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
3 4 0.08
4 29 0.59
5 16 0.33
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:23436810 original size:22 final size:22
Alignment explanation
Indices: 23436781--23436841 Score: 74
Period size: 21 Copynumber: 2.8 Consensus size: 22
23436771 CAACCCAATT
23436781 TTTATTTATTTATTTATTTT-C
1 TTTATTTATTTATTTATTTTAC
*
23436802 TTTACTTTATTTA-TTATTTTAT
1 TTTA-TTTATTTATTTATTTTAC
23436824 TTTATTT-TATTATTTATT
1 TTTATTTAT-TTATTTATT
23436842 ACTTATTTGG
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
20 1 0.03
21 17 0.49
22 17 0.49
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTATTTATTTATTTATTTTAC
Found at i:23436822 original size:26 final size:25
Alignment explanation
Indices: 23436779--23436842 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 25
23436769 GGCAACCCAA
*
23436779 TTTTTATTTATT-TATTTATTTTCT
1 TTTTTATTTATTATATTTATTTTAT
23436803 TTACTTTATTTATTAT-TTTATTTTAT
1 TT--TTTATTTATTATATTTATTTTAT
23436829 TTTATTATTTATTA
1 TTT-TTATTTATTA
23436843 CTTATTTGGA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
24 3 0.09
25 10 0.29
26 21 0.60
27 1 0.03
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTTTATTTATTATATTTATTTTAT
Found at i:23436832 original size:18 final size:16
Alignment explanation
Indices: 23436785--23436838 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 16
23436775 CCAATTTTTA
*
23436785 TTTATTTATTTATTTT
1 TTTATTTATTTATTAT
23436801 CTTTACTTTATTTATTAT
1 -TTTA-TTTATTTATTAT
23436819 TTTATTTTATTTTATTAT
1 TTTA-TTTA-TTTATTAT
23436837 TT
1 TT
23436839 ATTACTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 12 0.36
18 21 0.64
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTATTTATTTATTAT
Found at i:23437043 original size:22 final size:22
Alignment explanation
Indices: 23436996--23437044 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
23436986 GCCCAGAATG
* *
23436996 CCTGCAGCCAAACTACCCTATT
1 CCTGCAGCCAAACCACCCTATC
23437018 CCTGCAGCC-AACCACCCTTATC
1 CCTGCAGCCAAACCACCC-TATC
23437040 CCTGC
1 CCTGC
23437045 GCCCAAGCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.22, C:0.47, G:0.10, T:0.20
Consensus pattern (22 bp):
CCTGCAGCCAAACCACCCTATC
Found at i:23438181 original size:6 final size:6
Alignment explanation
Indices: 23438172--23438199 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
23438162 AATAATAAAT
23438172 AAATCA AAATCA AAATCA AAATCA AAAT
1 AAATCA AAATCA AAATCA AAATCA AAAT
23438200 AAATAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.68, C:0.14, G:0.00, T:0.18
Consensus pattern (6 bp):
AAATCA
Found at i:23438215 original size:17 final size:17
Alignment explanation
Indices: 23438195--23438235 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
23438185 AATCAAAATC
23438195 AAAATAAATAA-AAAAAG
1 AAAATAAA-AAGAAAAAG
*
23438212 AAAAGAAAAAGAAAAAG
1 AAAATAAAAAGAAAAAG
23438229 AAAATAA
1 AAAATAA
23438236 TTTGGGGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 2 0.10
17 19 0.90
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (17 bp):
AAAATAAAAAGAAAAAG
Found at i:23447263 original size:2 final size:2
Alignment explanation
Indices: 23447256--23447292 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
23447246 TCAAAGGTTC
* *
23447256 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23447293 CATAAAGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23449182 original size:36 final size:36
Alignment explanation
Indices: 23449083--23449168 Score: 129
Period size: 36 Copynumber: 2.4 Consensus size: 36
23449073 TATTCCAACC
*
23449083 AAAACACACCAGATACTCATAAGAGCTAATCCATCCA
1 AAAACACACCA-ATGCTCATAAGAGCTAATCCATCCA
* *
23449120 AAAACACACCAATGCTCATAAGAGCTAATCCATTCG
1 AAAACACACCAATGCTCATAAGAGCTAATCCATCCA
23449156 AAAACACA-CAATG
1 AAAACACACCAATG
23449169 GCTGTGAAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
35 5 0.11
36 30 0.65
37 11 0.24
ACGTcount: A:0.47, C:0.28, G:0.09, T:0.16
Consensus pattern (36 bp):
AAAACACACCAATGCTCATAAGAGCTAATCCATCCA
Found at i:23462028 original size:18 final size:18
Alignment explanation
Indices: 23462007--23462045 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
23461997 ATACCATTAT
23462007 AATCA-AATATATCTATCA
1 AATCACAATATATC-ATCA
*
23462025 AATCACATTATATCATCA
1 AATCACAATATATCATCA
23462043 AAT
1 AAT
23462046 ATTTCATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (18 bp):
AATCACAATATATCATCA
Found at i:23468066 original size:12 final size:12
Alignment explanation
Indices: 23468049--23468090 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
23468039 CTTGACATTA
23468049 AATAAATAATGG
1 AATAAATAATGG
**
23468061 AATAAA-ATATTA
1 AATAAATA-ATGG
23468073 AATAAATAATGG
1 AATAAATAATGG
23468085 AATAAA
1 AATAAA
23468091 ACATACCTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 1 0.04
12 22 0.92
13 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (12 bp):
AATAAATAATGG
Found at i:23468072 original size:24 final size:24
Alignment explanation
Indices: 23468045--23468091 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
23468035 GGTTCTTGAC
23468045 ATTAAATAAATAATGGAATAAAAT
1 ATTAAATAAATAATGGAATAAAAT
23468069 ATTAAATAAATAATGGAATAAAA
1 ATTAAATAAATAATGGAATAAAA
23468092 CATACCTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.28
Consensus pattern (24 bp):
ATTAAATAAATAATGGAATAAAAT
Found at i:23470409 original size:22 final size:21
Alignment explanation
Indices: 23470384--23470432 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
23470374 TTTATCTTAA
23470384 AATTAATTAATTTTAATAATGT
1 AATTAATTAATTTTAAT-ATGT
** *
23470406 AATTTTTTTAATTTTTATATGT
1 AA-TTAATTAATTTTAATATGT
23470428 AATTA
1 AATTA
23470433 TTATTTACAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
21 2 0.09
22 8 0.36
23 12 0.55
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (21 bp):
AATTAATTAATTTTAATATGT
Found at i:23470467 original size:18 final size:18
Alignment explanation
Indices: 23470422--23470472 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
23470412 TTTAATTTTT
*
23470422 ATATGTAATTATTATTTAC
1 ATATGT-ATTATTATGTAC
* * *
23470441 ATGTATATTTTTATGTAC
1 ATATGTATTATTATGTAC
23470459 ATATGTATTATTAT
1 ATATGTATTATTAT
23470473 TTTTTTCAAA
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.55
Consensus pattern (18 bp):
ATATGTATTATTATGTAC
Found at i:23478962 original size:50 final size:50
Alignment explanation
Indices: 23478902--23479004 Score: 190
Period size: 50 Copynumber: 2.1 Consensus size: 50
23478892 TCAAACACAA
23478902 AGACTTAATTGGGATAAAAGAAAACTCAAATACCG-AAGTAAATCATGTAT
1 AGACTTAATTGGGATAAAAGAAAACTCAAATA-CGAAAGTAAATCATGTAT
23478952 AGACTTAATTGGGATAAAAGAAAACTCAAATACGAAAGTAAATCATGTAT
1 AGACTTAATTGGGATAAAAGAAAACTCAAATACGAAAGTAAATCATGTAT
23479002 AGA
1 AGA
23479005 ATTGAGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
49 2 0.04
50 50 0.96
ACGTcount: A:0.50, C:0.11, G:0.17, T:0.23
Consensus pattern (50 bp):
AGACTTAATTGGGATAAAAGAAAACTCAAATACGAAAGTAAATCATGTAT
Found at i:23484155 original size:38 final size:35
Alignment explanation
Indices: 23484057--23484157 Score: 87
Period size: 39 Copynumber: 2.7 Consensus size: 35
23484047 GACCCGGCCC
*
23484057 ATATTTGATTAAAAATAAAAATATATATTTAATAT
1 ATATTTGATTAAAAATAAAAATATATATTTAAAAT
* *
23484092 ATAATTCAGATTAAAAGTCTAAAAA-ATATATTTAATAGAAAGT
1 AT-ATT-TGATTAAAA--ATAAAAATATATA-TT--TA-AAA-T
23484135 ATATTTGATTAAAAATAAAAATA
1 ATATTTGATTAAAAATAAAAATA
23484158 AAAATAAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
35 2 0.04
36 3 0.06
37 8 0.16
38 5 0.10
39 14 0.27
40 1 0.02
41 10 0.20
42 5 0.10
43 3 0.06
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (35 bp):
ATATTTGATTAAAAATAAAAATATATATTTAAAAT
Found at i:23484779 original size:10 final size:10
Alignment explanation
Indices: 23484764--23484826 Score: 53
Period size: 9 Copynumber: 6.4 Consensus size: 10
23484754 TTTAAAATAC
23484764 TTTTTTTAAA
1 TTTTTTTAAA
23484774 -TTTTTTAAA
1 TTTTTTTAAA
*
23484783 --TTTTAAAA
1 TTTTTTTAAA
23484791 TTTTTTTAAAA
1 TTTTTTT-AAA
23484802 TACTTTTTT-AA
1 T--TTTTTTAAA
*
23484813 TTTTTTTTAA
1 TTTTTTTAAA
23484823 TTTT
1 TTTT
23484827 AAAATATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
8 7 0.16
9 15 0.33
10 10 0.22
11 7 0.16
13 6 0.13
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTTTTAAA
Found at i:23484779 original size:30 final size:28
Alignment explanation
Indices: 23484743--23484816 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 28
23484733 ATTATTTTTT
*
23484743 ATTTTTTTAATTTTAAAATACTTTTTTTAA
1 ATTTTTTTAATTTTAAAAT--TTTTTTAAA
*
23484773 ATTTTTTAAATTTTAAAATTTTTTTAAA
1 ATTTTTTTAATTTTAAAATTTTTTTAAA
23484801 ATACTTTTTTAATTTT
1 AT--TTTTTTAATTTT
23484817 TTTTAATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
28 10 0.26
30 29 0.74
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.64
Consensus pattern (28 bp):
ATTTTTTTAATTTTAAAATTTTTTTAAA
Found at i:23484825 original size:40 final size:40
Alignment explanation
Indices: 23484753--23484883 Score: 181
Period size: 40 Copynumber: 3.1 Consensus size: 40
23484743 ATTTTTTTAA
* *
23484753 TTTTAAAATACTTTTTTTAAATTTTTTAAATTTTAAAATTT
1 TTTTAAAATAC-TTTTTTAATTTTTTTTAATTTTAAAATTT
*
23484794 TTTTAAAATACTTTTTTAATTTTTTTTAATTTTAAAATAT
1 TTTTAAAATACTTTTTTAATTTTTTTTAATTTTAAAATTT
23484834 TTTTAAAATACTTTTTTAATTTTTATTTTAATTTTTAAAATAATT
1 TTTTAAAATACTTTTTTAA-TTTT-TTTTAA-TTTTAAAAT--TT
23484879 TTTTA
1 TTTTA
23484884 GTATTTATTT
Statistics
Matches: 81, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
40 45 0.56
41 15 0.19
42 6 0.07
43 9 0.11
45 6 0.07
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (40 bp):
TTTTAAAATACTTTTTTAATTTTTTTTAATTTTAAAATTT
Found at i:23484868 original size:32 final size:32
Alignment explanation
Indices: 23484832--23484893 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
23484822 ATTTTAAAAT
* *
23484832 ATTTTTAAAATACTTTTTTAATTTTTATTTTA
1 ATTTTTAAAATAATTTTTTAATATTTATTTTA
*
23484864 ATTTTTAAAATAATTTTTTAGTATTTATTT
1 ATTTTTAAAATAATTTTTTAATATTTATTT
23484894 AAAAAACGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (32 bp):
ATTTTTAAAATAATTTTTTAATATTTATTTTA
Found at i:23485749 original size:7 final size:7
Alignment explanation
Indices: 23485737--23485761 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
23485727 TGTTTTACTT
23485737 AATAATA
1 AATAATA
23485744 AATAATA
1 AATAATA
23485751 AATAATA
1 AATAATA
23485758 AATA
1 AATA
23485762 TCTATTTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AATAATA
Found at i:23486778 original size:63 final size:63
Alignment explanation
Indices: 23486655--23486778 Score: 140
Period size: 63 Copynumber: 2.0 Consensus size: 63
23486645 GTGTTAATGT
* * * * *
23486655 AGTGAATGATTGCGCGTGCTATGGTGCTTGTGTAAAATAAAGTAGTGCTAAATGATATGATAC
1 AGTGAACGATTGCGCGTGCTATGGTGCTTATGTAAAATAAAGTAGAGCTAAAGGAGATGATAC
* * * * * * *
23486718 AGTGAACGATTGGGCGTGCTGTGGTGGTTATGTAAAATAAATTGGAGCTGAAGGGGATGAT
1 AGTGAACGATTGCGCGTGCTATGGTGCTTATGTAAAATAAAGTAGAGCTAAAGGAGATGAT
23486779 GTAGGGAATG
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
63 49 1.00
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.30
Consensus pattern (63 bp):
AGTGAACGATTGCGCGTGCTATGGTGCTTATGTAAAATAAAGTAGAGCTAAAGGAGATGATAC
Found at i:23487008 original size:13 final size:13
Alignment explanation
Indices: 23486990--23487031 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
23486980 CCAGTGTGAG
23486990 AAATGATATTATC
1 AAATGATATTATC
* *
23487003 AAATGAATTTTACC
1 AAATG-ATATTATC
23487017 AAATGATATTATC
1 AAATGATATTATC
23487030 AA
1 AA
23487032 TCCATTTAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.36
Consensus pattern (13 bp):
AAATGATATTATC
Found at i:23489521 original size:69 final size:68
Alignment explanation
Indices: 23489368--23489524 Score: 192
Period size: 69 Copynumber: 2.3 Consensus size: 68
23489358 CCTGATCAGT
* * * * *
23489368 ATACGACACATAACTGCCT--AATACGACACACGAGGTGTCTGAAATACGACACACGAGGTGCTT
1 ATACGACACATAAGTGCCTGAAATACGACACACGAGGTGCCTGAAATACGACACACAAAGTGCCT
*
23489431 GAA
66 AAA
* * * *
23489434 ATATGACACACGAGGTGCCTGAAATACGACACACGAGGTGCCTGAAATACGACACATAAAGTGCC
1 ATACGACACA-TAAGTGCCTGAAATACGACACACGAGGTGCCTGAAATACGACACACAAAGTGCC
23489499 TAAA
65 TAAA
23489503 ATACGACACATAAAGTGCCTGA
1 ATACGACACAT-AAGTGCCTGA
23489525 TCGGCATAGC
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
66 9 0.12
67 6 0.08
69 59 0.80
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (68 bp):
ATACGACACATAAGTGCCTGAAATACGACACACGAGGTGCCTGAAATACGACACACAAAGTGCCT
AAA
Found at i:23489522 original size:23 final size:23
Alignment explanation
Indices: 23489387--23489512 Score: 189
Period size: 23 Copynumber: 5.5 Consensus size: 23
23489377 ATAACTGCCT
*
23489387 AATACGACACACGAGGTGTCTGA
1 AATACGACACACGAGGTGCCTGA
*
23489410 AATACGACACACGAGGTGCTTGA
1 AATACGACACACGAGGTGCCTGA
*
23489433 AATATGACACACGAGGTGCCTGA
1 AATACGACACACGAGGTGCCTGA
23489456 AATACGACACACGAGGTGCCTGA
1 AATACGACACACGAGGTGCCTGA
** * *
23489479 AATACGACACATAAAGTGCCTAA
1 AATACGACACACGAGGTGCCTGA
23489502 AATACGACACA
1 AATACGACACA
23489513 TAAAGTGCCT
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 94 1.00
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.16
Consensus pattern (23 bp):
AATACGACACACGAGGTGCCTGA
Found at i:23491666 original size:6 final size:6
Alignment explanation
Indices: 23491655--23491682 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
23491645 CAAAAAATAT
23491655 ATTAAA ATTAAA ATTAAA ATTAAA ATTA
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTA
23491683 TTTAAAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
ATTAAA
Found at i:23492991 original size:4 final size:4
Alignment explanation
Indices: 23492982--23493006 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
23492972 AAGTGTTTTC
23492982 TTTG TTTG TTTG TTTG TTTG TTTG T
1 TTTG TTTG TTTG TTTG TTTG TTTG T
23493007 GATAATCTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (4 bp):
TTTG
Found at i:23493931 original size:72 final size:72
Alignment explanation
Indices: 23493810--23493970 Score: 171
Period size: 72 Copynumber: 2.2 Consensus size: 72
23493800 AGGTGGGCGT
** * * * ** * *
23493810 TGAATTGCTACCAAAGCTTTTAGATGGTTCTACAATTGCCAACAGGATGGGTATGAATATGGAGG
1 TGAATTGCTACCAAAGCTTAGAGAAGATTCTACAAGTGCCAACAGGATGGACAAGAATATGGAGA
23493875 TGAACAC
66 TGAACAC
* * * *
23493882 TGAATTGCTACCATATCTTAGAGAAGATTCTACAAGTGCTAA-AGAGATGGACAAGACTATGGAG
1 TGAATTGCTACCAAAGCTTAGAGAAGATTCTACAAGTGCCAACAG-GATGGACAAGAATATGGAG
*
23493946 ATGAACAT
65 ATGAACAC
*
23493954 TGAATTGTTACCAAAGC
1 TGAATTGCTACCAAAGC
23493971 CTACAGTAGC
Statistics
Matches: 71, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
71 2 0.03
72 69 0.97
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (72 bp):
TGAATTGCTACCAAAGCTTAGAGAAGATTCTACAAGTGCCAACAGGATGGACAAGAATATGGAGA
TGAACAC
Found at i:23493987 original size:60 final size:60
Alignment explanation
Indices: 23493911--23494033 Score: 203
Period size: 60 Copynumber: 2.0 Consensus size: 60
23493901 AGAGAAGATT
* *
23493911 CTACAAGTGCTAAAGAGATGGACAAGACTATGGAGATGAACATTGAATTGTTACCAAAGC
1 CTACAAGTGCTAAAGAGATGGACAAGACTATGGAGATGAAAATTGAATTGTTACCAAAAC
*
23493971 CTAC-AGTAGCTAAAGAGATGGATAAGACTATGGAGATGAAAATTGAATTGTTACCAAAAC
1 CTACAAGT-GCTAAAGAGATGGACAAGACTATGGAGATGAAAATTGAATTGTTACCAAAAC
23494031 CTA
1 CTA
23494034 TAGAAGATTC
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 3 0.05
60 56 0.95
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (60 bp):
CTACAAGTGCTAAAGAGATGGACAAGACTATGGAGATGAAAATTGAATTGTTACCAAAAC
Found at i:23494075 original size:72 final size:75
Alignment explanation
Indices: 23493980--23494218 Score: 182
Period size: 75 Copynumber: 3.2 Consensus size: 75
23493970 CCTACAGTAG
* * *
23493980 CTAAAGAGATGGATAAGACTATGGA-GA-T-GAAAATTGAATTGTTACCAAAACCTATAGAAGAT
1 CTAAAGAGATGGATAAGAATATGGAGGAGTGGAAAATCGAATTGATACCAAAACCTATAGAAGAT
23494042 TCTACAAGTC
66 TCTACAAGTC
* * * ** * * * *
23494052 CTAAAGAGATGGGTCATAATATGGAGGAGTGGAGCATCGAATTGATATCAAAGCTTATGGAAGAT
1 CTAAAGAGATGGATAAGAATATGGAGGAGTGGAAAATCGAATTGATACCAAAACCTATAGAAGAT
* *
23494117 TCTCCAAGTG
66 TCTACAAGTC
* * * ** ** * * *
23494127 CTAAAGAGATAGATATGAAAATGGAGGAG-GAGAACGTTC-AATTGATGTCAAAGCTTACAGAAG
1 CTAAAGAGATGGATAAGAATATGGAGGAGTG-GAA-AATCGAATTGATACCAAAACCTATAGAAG
* * *
23494190 ATTCTTCAAATG
64 ATTCTACAAGTC
23494202 CTAAAGAGATGGATAAG
1 CTAAAGAGATGGATAAG
23494219 GATGTGGCAG
Statistics
Matches: 132, Mismatches: 30, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
72 21 0.16
73 2 0.02
74 2 0.02
75 105 0.80
76 2 0.02
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.24
Consensus pattern (75 bp):
CTAAAGAGATGGATAAGAATATGGAGGAGTGGAAAATCGAATTGATACCAAAACCTATAGAAGAT
TCTACAAGTC
Found at i:23494125 original size:75 final size:75
Alignment explanation
Indices: 23494035--23494216 Score: 208
Period size: 75 Copynumber: 2.4 Consensus size: 75
23494025 CAAAACCTAT
* * * *
23494035 AGAAGATTCTACAAGTCCTAAAGAGATGGGTCAT-AATATGGAGGAGTG-GAGC-ATCGAATTGA
1 AGAAGATTCTACAAGTGCTAAAGAGATGGAT-ATGAAAATGGAGGAG-GAGAACGATC-AATTGA
*
23494097 TATCAAAGCTTAT
63 TATCAAAGCTTAC
* * * * *
23494110 GGAAGATTCTCCAAGTGCTAAAGAGATAGATATGAAAATGGAGGAGGAGAACGTTCAATTGATGT
1 AGAAGATTCTACAAGTGCTAAAGAGATGGATATGAAAATGGAGGAGGAGAACGATCAATTGATAT
23494175 CAAAGCTTAC
66 CAAAGCTTAC
* *
23494185 AGAAGATTCTTCAAATGCTAAAGAGATGGATA
1 AGAAGATTCTACAAGTGCTAAAGAGATGGATA
23494217 AGGATGTGGC
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
74 3 0.03
75 85 0.94
76 2 0.02
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.24
Consensus pattern (75 bp):
AGAAGATTCTACAAGTGCTAAAGAGATGGATATGAAAATGGAGGAGGAGAACGATCAATTGATAT
CAAAGCTTAC
Found at i:23500698 original size:7 final size:7
Alignment explanation
Indices: 23500686--23500740 Score: 58
Period size: 7 Copynumber: 7.7 Consensus size: 7
23500676 TAGGGTTAGA
23500686 GTTTTGG
1 GTTTTGG
23500693 GTTTTGG
1 GTTTTGG
23500700 GTTTTGG
1 GTTTTGG
*
23500707 G-TTAGG
1 GTTTTGG
23500713 GTTTTGGG
1 GTTTT-GG
*
23500721 GTTTTTGA
1 G-TTTTGG
*
23500729 GTTTAGG
1 GTTTTGG
23500736 GTTTT
1 GTTTT
23500741 AAAGAAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
6 5 0.13
7 25 0.64
8 5 0.13
9 4 0.10
ACGTcount: A:0.05, C:0.00, G:0.40, T:0.55
Consensus pattern (7 bp):
GTTTTGG
Found at i:23500714 original size:13 final size:13
Alignment explanation
Indices: 23500678--23500720 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
23500668 CTTTGCGTTA
*
23500678 GGGTTAGAGTTTT
1 GGGTTAGGGTTTT
*
23500691 GGGTTTTGGGTTTT
1 GGG-TTAGGGTTTT
23500705 GGGTTAGGGTTTT
1 GGGTTAGGGTTTT
23500718 GGG
1 GGG
23500721 GTTTTTGAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.07, C:0.00, G:0.47, T:0.47
Consensus pattern (13 bp):
GGGTTAGGGTTTT
Found at i:23500904 original size:96 final size:94
Alignment explanation
Indices: 23500766--23501036 Score: 344
Period size: 96 Copynumber: 2.8 Consensus size: 94
23500756 TAAATAAGGG
* * * * * *
23500766 ATTAGGATTTAGGGTTTCTTAATTAAATTAATTATAAATTTTTTAAAATTAGATTAGGGTTTCGT
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTTTTAAAATTAGATTAGGGTTTAGT
* *
23500831 GTTTATGGTTTTTAAGGAAAAAATCAATTAA
66 GTTTAGGGTTTTTAAGG-AAAAATCAAAT-A
* * *
23500862 ATTAGGGTTTAAGGTTACTTGAGTAAATTAATTATAATTTTTTTTAAAAATCATATTAGGGTTTA
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAA-TTTTTTT-AAAATTAGATTAGGGTTTA
*
23500927 GTGTTAAGGGTTTTTAAGGAAAAATCAAATA
64 GTGTTTAGGGTTTTTAAGGAAAAATCAAATA
* ****
23500958 ATTAAGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTAAAAAAAATTAGATTAGGGTTTAG
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT-AATTTTTTTAAAATTAGATTAGGGTTTAG
23501023 TGTTTAGGGTTTTT
65 TGTTTAGGGTTTTT
23501037 GAGTAAATTA
Statistics
Matches: 151, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
95 31 0.21
96 69 0.46
97 18 0.12
98 33 0.22
ACGTcount: A:0.37, C:0.03, G:0.18, T:0.43
Consensus pattern (94 bp):
ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTTTTAAAATTAGATTAGGGTTTAGT
GTTTAGGGTTTTTAAGGAAAAATCAAATA
Found at i:23501511 original size:18 final size:18
Alignment explanation
Indices: 23501485--23501527 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
23501475 GACAAGAAGA
* * *
23501485 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
23501503 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
23501521 AGGATAC
1 AGGATAC
23501528 GCACCTGGCA
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:23501616 original size:30 final size:30
Alignment explanation
Indices: 23501582--23501639 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
23501572 TTGAAGTGTT
*
23501582 GGGTCGGGTGACTGTGTCGGTGCTGTTGTC
1 GGGTCGGGTGACTGTGTCGGCGCTGTTGTC
* * *
23501612 GGGTCTGGTGATTGTGTGGGCGCTGTTG
1 GGGTCGGGTGACTGTGTCGGCGCTGTTG
23501640 ATGCGCCTGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.03, C:0.14, G:0.48, T:0.34
Consensus pattern (30 bp):
GGGTCGGGTGACTGTGTCGGCGCTGTTGTC
Found at i:23502155 original size:7 final size:7
Alignment explanation
Indices: 23502145--23502170 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
23502135 TTATATACAT
23502145 AATACTA
1 AATACTA
23502152 AATACTA
1 AATACTA
23502159 AATACTA
1 AATACTA
23502166 AATAC
1 AATAC
23502171 GAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:23503342 original size:11 final size:11
Alignment explanation
Indices: 23503328--23503374 Score: 62
Period size: 11 Copynumber: 4.3 Consensus size: 11
23503318 GAGAGCTTTA
23503328 AGAGGAATTTG
1 AGAGGAATTTG
23503339 AGAGGAATTTG
1 AGAGGAATTTG
23503350 AGA-GAATATT-
1 AGAGGAAT-TTG
23503360 AGAGAGAATTTG
1 AGAG-GAATTTG
23503372 AGA
1 AGA
23503375 AAAAGGATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.22
11 18 0.56
12 7 0.22
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.26
Consensus pattern (11 bp):
AGAGGAATTTG
Found at i:23509809 original size:20 final size:20
Alignment explanation
Indices: 23509784--23509821 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23509774 TATCTTAAGT
*
23509784 TAATTAAATTATGTTAATGA
1 TAATTAAATTAAGTTAATGA
*
23509804 TAATTAAGTTAAGTTAAT
1 TAATTAAATTAAGTTAAT
23509822 TAGGTCTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (20 bp):
TAATTAAATTAAGTTAATGA
Found at i:23513285 original size:18 final size:17
Alignment explanation
Indices: 23513262--23513298 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
23513252 TAAGTCTAAG
*
23513262 AAAATAATAATAAACATA
1 AAAATAAAAATAAA-ATA
23513280 AAAATAAAAATAAAATA
1 AAAATAAAAATAAAATA
23513297 AA
1 AA
23513299 TAAACTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAATAAAAATAAAATA
Found at i:23520132 original size:42 final size:42
Alignment explanation
Indices: 23520009--23520151 Score: 132
Period size: 42 Copynumber: 3.4 Consensus size: 42
23519999 CTTATCACTA
* * * * *
23520009 ATGATGCACTTGCA-TGCCAATATAATTACTTCGATTTATTAG
1 ATGATGCACTT-AAGTGTCAATATGATTACTTTGATTTATTCG
* * *
23520051 ATGATGCACTTAAAGTATCAATAGGACTA-TTTCCG-TTTATTCG
1 ATGATGCACTT-AAGTGTCAATATGATTACTTT--GATTTATTCG
*
23520094 ATGATGCACTTATGTGTCAATATGATTACTTTGATTTATTCG
1 ATGATGCACTTAAGTGTCAATATGATTACTTTGATTTATTCG
*
23520136 ATGATGCA-TTACGTGT
1 ATGATGCACTTAAGTGT
23520152 GACAGTATAA
Statistics
Matches: 82, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
41 8 0.10
42 43 0.52
43 30 0.37
44 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.40
Consensus pattern (42 bp):
ATGATGCACTTAAGTGTCAATATGATTACTTTGATTTATTCG
Found at i:23523419 original size:12 final size:12
Alignment explanation
Indices: 23523404--23523430 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
23523394 ATGTTTTAAA
23523404 AAATAAAAATTT
1 AAATAAAAATTT
23523416 AAATAAAAATTT
1 AAATAAAAATTT
23523428 AAA
1 AAA
23523431 GAATTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAATAAAAATTT
Found at i:23524088 original size:22 final size:21
Alignment explanation
Indices: 23524062--23524110 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
23524052 AAATATGTAA
23524062 ATAAAACA-AAATTATAAGAACT
1 ATAAAACATAAA-TATAA-AACT
*
23524084 ATAAAATATAAATATAAAACT
1 ATAAAACATAAATATAAAACT
*
23524105 AAAAAA
1 ATAAAA
23524111 TTTATAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 9 0.38
22 12 0.50
23 3 0.12
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.22
Consensus pattern (21 bp):
ATAAAACATAAATATAAAACT
Found at i:23527955 original size:25 final size:26
Alignment explanation
Indices: 23527906--23527957 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
23527896 TCTTTTCTTT
* *
23527906 TCTTTTCATTTTTAGATTAGGTTTTA
1 TCTTTTCATTTTTAGAATAGATTTTA
23527932 TCTTTTC-TTTTTAGAATAGATTTTA
1 TCTTTTCATTTTTAGAATAGATTTTA
23527957 T
1 T
23527958 ATTTATTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.21, C:0.08, G:0.10, T:0.62
Consensus pattern (26 bp):
TCTTTTCATTTTTAGAATAGATTTTA
Found at i:23530667 original size:56 final size:56
Alignment explanation
Indices: 23530581--23530835 Score: 441
Period size: 56 Copynumber: 4.7 Consensus size: 56
23530571 TAAAGAGATT
23530581 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTC
23530637 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTC
23530693 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTC
*
23530749 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCATC---GAG---ATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTC
* *
23530799 TCATATAAGACCATGTCTGGGACATGGCATTGGCATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
23530836 NNNNNNNNNN
Statistics
Matches: 195, Mismatches: 4, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
50 44 0.23
53 3 0.02
56 148 0.76
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (56 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTC
Found at i:23540133 original size:4 final size:4
Alignment explanation
Indices: 23540124--23540195 Score: 96
Period size: 4 Copynumber: 18.0 Consensus size: 4
23540114 TGTCTTTCTC
23540124 CTTT CTTT CTTT CTTT CTTT -TTT -TTT CTTT CTTT C-TT CTTT CTGTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT C--TTT
23540171 CGTTT CTTT CTTT CTTT CTTT CTTT
1 C-TTT CTTT CTTT CTTT CTTT CTTT
23540196 TTATTACTTA
Statistics
Matches: 64, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
3 9 0.14
4 46 0.72
5 5 0.08
6 4 0.06
ACGTcount: A:0.00, C:0.22, G:0.03, T:0.75
Consensus pattern (4 bp):
CTTT
Found at i:23540153 original size:22 final size:22
Alignment explanation
Indices: 23540116--23540189 Score: 96
Period size: 22 Copynumber: 3.3 Consensus size: 22
23540106 CCTAACCTTG
*
23540116 TCTTTCTCCTTTCTTTCTTTCTT
1 TCTTTCT-GTTTCTTTCTTTCTT
* *
23540139 TCTTTTTTTTTCTTTCTTTC-T
1 TCTTTCTGTTTCTTTCTTTCTT
23540160 TCTTTCTGTTTCGTTTCTTTCTT
1 TCTTTCTGTTTC-TTTCTTTCTT
23540183 TCTTTCT
1 TCTTTCT
23540190 TTCTTTTTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.24
22 20 0.44
23 14 0.31
ACGTcount: A:0.00, C:0.24, G:0.03, T:0.73
Consensus pattern (22 bp):
TCTTTCTGTTTCTTTCTTTCTT
Found at i:23541279 original size:30 final size:29
Alignment explanation
Indices: 23541187--23541282 Score: 77
Period size: 30 Copynumber: 3.2 Consensus size: 29
23541177 TATAAATTGA
* **
23541187 TACTTAAACTATGTCATTCTTCTCATCTTGG
1 TACTTAAACTAT-TTATT-TTCTCAAGTTGG
* * * *
23541218 TACCTAAACTTTTTTTTTTATCACAAG-TGG
1 TACTTAAAC-TATTTATTT-TCTCAAGTTGG
23541248 TACTTAAACTACTTTATTTTCTCAAGTTGG
1 TACTTAAACTA-TTTATTTTCTCAAGTTGG
23541278 TACTT
1 TACTT
23541283 TCATTAGTTA
Statistics
Matches: 50, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
29 7 0.14
30 26 0.52
31 15 0.30
32 2 0.04
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (29 bp):
TACTTAAACTATTTATTTTCTCAAGTTGG
Found at i:23541855 original size:16 final size:16
Alignment explanation
Indices: 23541833--23541952 Score: 69
Period size: 19 Copynumber: 6.8 Consensus size: 16
23541823 AAGTTATCAA
23541833 AAAATATAAAAATTAT
1 AAAATATAAAAATTAT
* *
23541849 TAAATATAAAAAGTAT
1 AAAATATAAAAATTAT
*
23541865 AAAATTATGAAAATTGAT
1 AAAA-TATAAAAATT-AT
*
23541883 ATAAACTTATAAATATTAT
1 A-AAA--TATAAAAATTAT
* *
23541902 AAAAAATTGTAAATATTAT
1 --AAAA-TATAAAAATTAT
23541921 AAATATATAAAAAATCTAAT
1 AAA-ATAT-AAAAAT-T-AT
*
23541941 AAATTATAAAAA
1 AAAATATAAAAA
23541953 AAATATAAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
16 17 0.20
17 13 0.16
18 14 0.17
19 21 0.25
20 17 0.20
21 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (16 bp):
AAAATATAAAAATTAT
Found at i:23541992 original size:21 final size:21
Alignment explanation
Indices: 23541944--23542019 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
23541934 ATCTAATAAA
* *
23541944 TTATAAAAAAAATATAAAA-T
1 TTATAAAAAATATTTAAAATT
* *
23541964 TAATAAAACATATTTAAAATT
1 TTATAAAAAATATTTAAAATT
23541985 TTATAAAAAAGTA-TTAAAATT
1 TTATAAAAAA-TATTTAAAATT
*
23542006 CTATTAAAACAATA
1 TTA-TAAAA-AATA
23542020 AAAACCATAA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
20 15 0.33
21 19 0.42
22 9 0.20
23 2 0.04
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (21 bp):
TTATAAAAAATATTTAAAATT
Found at i:23542075 original size:9 final size:9
Alignment explanation
Indices: 23541820--23542078 Score: 96
Period size: 9 Copynumber: 27.6 Consensus size: 9
23541810 TAAAAAACAG
23541820 AAAAAGTTAT
1 AAAAA-TTAT
*
23541830 CAAAAAATAT
1 -AAAAATTAT
23541840 AAAAATTAT
1 AAAAATTAT
*
23541849 -TAAA-TAT
1 AAAAATTAT
*
23541856 AAAAAGTAT
1 AAAAATTAT
23541865 -AAAATTAT
1 AAAAATTAT
*
23541873 GAAAATTGAT
1 AAAAATT-AT
*
23541883 ATAAACTTAT
1 A-AAAATTAT
*
23541893 AAATATTAT
1 AAAAATTAT
*
23541902 AAAAAATTGT
1 -AAAAATTAT
*
23541912 AAATATTAT
1 AAAAATTAT
*
23541921 AAATA-TAT
1 AAAAATTAT
* *
23541929 AAAAAATCT
1 AAAAATTAT
23541938 AATAAATTAT
1 AA-AAATTAT
**
23541948 AAAAAAAAT
1 AAAAATTAT
23541957 ATAAAATTAAT
1 A-AAAATT-AT
*
23541968 AAAACATATTT
1 AAAA-AT-TAT
*
23541979 AAAATTTTAT
1 AAAA-ATTAT
*
23541989 AAAAAAGTATT
1 -AAAAATTA-T
*
23542000 AAAATTCTAT
1 AAAAAT-TAT
* **
23542010 TAAAACAAT
1 AAAAATTAT
**
23542019 AAAAACCAT
1 AAAAATTAT
*
23542028 AAAAAGTAT
1 AAAAATTAT
*
23542037 TAAAA-TATT
1 AAAAATTA-T
*
23542046 AAAAATGAT
1 AAAAATTAT
* *
23542055 ATGAAGTTAT
1 A-AAAATTAT
23542065 AAAAATTAT
1 AAAAATTAT
23542074 AAAAA
1 AAAAA
23542079 AGATTCATAA
Statistics
Matches: 185, Mismatches: 45, Indels: 38
0.69 0.17 0.14
Matches are distributed among these distances:
7 3 0.02
8 22 0.12
9 83 0.45
10 48 0.26
11 28 0.15
12 1 0.01
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:23545773 original size:9 final size:8
Alignment explanation
Indices: 23545742--23545926 Score: 79
Period size: 8 Copynumber: 20.9 Consensus size: 8
23545732 GTATATATCA
23545742 ATTTTAAT
1 ATTTTAAT
23545750 ATTTTAAT
1 ATTTTAAT
*
23545758 ATTTTTAT
1 ATTTTAAT
23545766 AATATTTAAT
1 -AT-TTTAAT
*
23545776 -TTTTAAGA
1 ATTTTAA-T
23545784 ATTTTAAT
1 ATTTTAAT
*
23545792 ATGTTTTTAT
1 A--TTTTAAT
23545802 ATTTTAAAT
1 ATTTT-AAT
*
23545811 ATGTTTTATT
1 A--TTTTAAT
23545821 AATTTCATAAT
1 -ATTT--TAAT
* *
23545832 TTTTTTA-
1 ATTTTAAT
23545839 ATTTTAAT
1 ATTTTAAT
23545847 ATGTTTAGTAT
1 AT-TTTA--AT
23545858 CAATTTTAAT
1 --ATTTTAAT
23545868 ATTTTAAT
1 ATTTTAAT
*
23545876 ATTTTTAT
1 ATTTTAAT
23545884 AATATTTAAT
1 -AT-TTTAAT
*
23545894 -TTTTAAGA
1 ATTTTAA-T
23545902 ATTTTAAT
1 ATTTTAAT
*
23545910 ATGTTTTTAT
1 A--TTTTAAT
23545920 ATTTTAA
1 ATTTTAA
23545927 ATATGTTTTA
Statistics
Matches: 135, Mismatches: 18, Indels: 48
0.67 0.09 0.24
Matches are distributed among these distances:
7 15 0.11
8 47 0.35
9 26 0.19
10 31 0.23
11 10 0.07
12 4 0.03
13 2 0.01
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.61
Consensus pattern (8 bp):
ATTTTAAT
Found at i:23545789 original size:16 final size:17
Alignment explanation
Indices: 23545750--23545793 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
23545740 CAATTTTAAT
* *
23545750 ATTTTAATATTTTTATA
1 ATTTTAATATTTTAAGA
23545767 ATATTTAAT-TTTTAAGA
1 AT-TTTAATATTTTAAGA
23545784 ATTTTAATAT
1 ATTTTAATAT
23545794 GTTTTTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 6 0.26
17 11 0.48
18 6 0.26
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
ATTTTAATATTTTAAGA
Found at i:23545847 original size:55 final size:55
Alignment explanation
Indices: 23545743--23545970 Score: 220
Period size: 55 Copynumber: 4.1 Consensus size: 55
23545733 TATATATCAA
*
23545743 TTTTAATATTTT-AATAT-TTTTA-TAATATTTAATTTTTAAGAATTTTAATATG
1 TTTTTATATTTTAAATATGTTTTATTAATATTTAATTTTTAAGAATTTTAATATG
**
23545795 TTTTTATATTTTAAATATGTTTTATTAAT-TTCATAATTTTT-TTAATTTTAATATG
1 TTTTTATATTTTAAATATGTTTTATTAATATT--TAATTTTTAAGAATTTTAATATG
* *
23545850 TTTAGTATCAATTTTAATATTTTAATATTTT-TATAATATTTAATTTTTAAGAATTTTAATATG
1 TTT-TTAT--ATTTTAA-A---T-ATGTTTTAT-TAATATTTAATTTTTAAGAATTTTAATATG
**
23545913 TTTTTATATTTTAAATATGTTTTATTAAT-TTCATAATTTTT-TTAATTTTAATATG
1 TTTTTATATTTTAAATATGTTTTATTAATATT--TAATTTTTAAGAATTTTAATATG
23545968 TTT
1 TTT
23545971 AGTATCAATT
Statistics
Matches: 146, Mismatches: 11, Indels: 35
0.76 0.06 0.18
Matches are distributed among these distances:
52 11 0.08
53 5 0.03
54 9 0.06
55 44 0.30
56 21 0.14
58 7 0.05
59 2 0.01
60 7 0.05
62 13 0.09
63 25 0.17
64 2 0.01
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.61
Consensus pattern (55 bp):
TTTTTATATTTTAAATATGTTTTATTAATATTTAATTTTTAAGAATTTTAATATG
Found at i:23545867 original size:118 final size:118
Alignment explanation
Indices: 23545737--23546007 Score: 517
Period size: 118 Copynumber: 2.3 Consensus size: 118
23545727 TATAAGTATA
23545737 TATCAATTTTAATATTTTAATATTTTTATAATATTTAATTTTTAAGAATTTTAATATGTTTTTAT
1 TATCAATTTTAATATTTTAATATTTTTATAATATTTAATTTTTAAGAATTTTAATATGTTTTTAT
23545802 ATTTTAAATATGTTTTATTAATTTCATAATTTTTTTAATTTTAATATGTTTAG
66 ATTTTAAATATGTTTTATTAATTTCATAATTTTTTTAATTTTAATATGTTTAG
23545855 TATCAATTTTAATATTTTAATATTTTTATAATATTTAATTTTTAAGAATTTTAATATGTTTTTAT
1 TATCAATTTTAATATTTTAATATTTTTATAATATTTAATTTTTAAGAATTTTAATATGTTTTTAT
23545920 ATTTTAAATATGTTTTATTAATTTCATAATTTTTTTAATTTTAATATGTTTAG
66 ATTTTAAATATGTTTTATTAATTTCATAATTTTTTTAATTTTAATATGTTTAG
* *
23545973 TATCAATTTTAATATTTTTAT-TTTTTATAACATTT
1 TATCAATTTTAATATTTTAATATTTTTATAATATTT
23546008 TATAATTTTT
Statistics
Matches: 151, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
117 13 0.09
118 138 0.91
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.61
Consensus pattern (118 bp):
TATCAATTTTAATATTTTAATATTTTTATAATATTTAATTTTTAAGAATTTTAATATGTTTTTAT
ATTTTAAATATGTTTTATTAATTTCATAATTTTTTTAATTTTAATATGTTTAG
Found at i:23545907 original size:16 final size:17
Alignment explanation
Indices: 23545868--23545911 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
23545858 CAATTTTAAT
* *
23545868 ATTTTAATATTTTTATA
1 ATTTTAATATTTTAAGA
23545885 ATATTTAAT-TTTTAAGA
1 AT-TTTAATATTTTAAGA
23545902 ATTTTAATAT
1 ATTTTAATAT
23545912 GTTTTTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 6 0.26
17 11 0.48
18 6 0.26
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
ATTTTAATATTTTAAGA
Found at i:23545991 original size:36 final size:35
Alignment explanation
Indices: 23545901--23545997 Score: 97
Period size: 36 Copynumber: 2.6 Consensus size: 35
23545891 AATTTTTAAG
*
23545901 AATTTTAATATGTTTTTATATTTTAAATATGTTTTATT
1 AATTTTAATA--TTTTTA-ATTTTAAATATGTTTTATC
*
23545939 AATTTCATAATTTTTTTAATTTT-AATATGTTTAGTATC
1 AATTT--TAATATTTTTAATTTTAAATATGTTT--TATC
*
23545977 AATTTTAATATTTTTATTTTT
1 AATTTTAATATTTTTAATTTT
23545998 TATAACATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
36 23 0.45
37 5 0.10
38 19 0.37
40 4 0.08
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (35 bp):
AATTTTAATATTTTTAATTTTAAATATGTTTTATC
Found at i:23546014 original size:55 final size:54
Alignment explanation
Indices: 23545901--23546016 Score: 130
Period size: 55 Copynumber: 2.1 Consensus size: 54
23545891 AATTTTTAAG
* * *
23545901 AATTTTAATATGTTTTTATATTTTAAATATGTTTTATTAATTTCATAATTTTTTT
1 AATTTTAATATGTTTGTATATTTTAAATATGTTTTATT-ATTTCATAAATTTTAT
*
23545956 AATTTTAATATGTTTAGTATCAATTTT-AATAT-TTTTATT-TTTTATAACATTTTAT
1 AATTTTAATATGTTT-GTAT--ATTTTAAATATGTTTTATTATTTCATAA-ATTTTAT
23546011 AATTTT
1 AATTTT
23546017 TAATCATTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
54 7 0.13
55 26 0.49
56 10 0.19
57 5 0.09
58 5 0.09
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (54 bp):
AATTTTAATATGTTTGTATATTTTAAATATGTTTTATTATTTCATAAATTTTAT
Found at i:23546330 original size:14 final size:14
Alignment explanation
Indices: 23546313--23546358 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
23546303 CCTCTCCTCT
23546313 CTCTTCGGCGTCAC
1 CTCTTCGGCGTCAC
* * *
23546327 CTCTTC-TCCTC-T
1 CTCTTCGGCGTCAC
23546339 CTCTTCGGCGTCAC
1 CTCTTCGGCGTCAC
23546353 CTCTTC
1 CTCTTC
23546359 TCCTCTCTCC
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
12 6 0.25
13 6 0.25
14 12 0.50
ACGTcount: A:0.04, C:0.46, G:0.13, T:0.37
Consensus pattern (14 bp):
CTCTTCGGCGTCAC
Found at i:23546335 original size:26 final size:26
Alignment explanation
Indices: 23546305--23546367 Score: 126
Period size: 26 Copynumber: 2.4 Consensus size: 26
23546295 TCTCCTCTCC
23546305 TCTCCTCTCTCTTCGGCGTCACCTCT
1 TCTCCTCTCTCTTCGGCGTCACCTCT
23546331 TCTCCTCTCTCTTCGGCGTCACCTCT
1 TCTCCTCTCTCTTCGGCGTCACCTCT
23546357 TCTCCTCTCTC
1 TCTCCTCTCTC
23546368 CGGCAGTTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.03, C:0.48, G:0.10, T:0.40
Consensus pattern (26 bp):
TCTCCTCTCTCTTCGGCGTCACCTCT
Found at i:23552341 original size:4 final size:4
Alignment explanation
Indices: 23552221--23552322 Score: 113
Period size: 4 Copynumber: 26.0 Consensus size: 4
23552211 CCACACACGC
* * *
23552221 ACAT ACAT AC-- ACAC ACAT ACAT ATGCAT AC-- ACAC ACAC ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT A--CAT ACAT ACAT ACAT ACAT ACAT
* *
23552267 ACAT ACAT GCAT ACAT ACAT ACAT ACAT ACAT GCAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
23552315 ACAT ACAT
1 ACAT ACAT
23552323 GAAATATATC
Statistics
Matches: 86, Mismatches: 6, Indels: 12
0.83 0.06 0.12
Matches are distributed among these distances:
2 4 0.05
4 78 0.91
6 4 0.05
ACGTcount: A:0.47, C:0.28, G:0.03, T:0.22
Consensus pattern (4 bp):
ACAT
Found at i:23554777 original size:12 final size:12
Alignment explanation
Indices: 23554760--23554787 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
23554750 TTCATACCAG
23554760 TCAAGTTAAGAC
1 TCAAGTTAAGAC
23554772 TCAAGTTAAGAC
1 TCAAGTTAAGAC
23554784 TCAA
1 TCAA
23554788 TCGGTATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (12 bp):
TCAAGTTAAGAC
Found at i:23559682 original size:6 final size:6
Alignment explanation
Indices: 23559671--23559702 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
23559661 CGTACCTCAT
*
23559671 TTCCTC TTCCTC TTCCTC TTCCTC GTCCTC TT
1 TTCCTC TTCCTC TTCCTC TTCCTC TTCCTC TT
23559703 TCACGGCCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.47, G:0.03, T:0.50
Consensus pattern (6 bp):
TTCCTC
Found at i:23560266 original size:24 final size:24
Alignment explanation
Indices: 23560238--23560296 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
23560228 GTTGTGGTGT
* *
23560238 TTGTGCTAATAATGGTGGCGCTGC
1 TTGTGCTAACAATGATGGCGCTGC
* * *
23560262 TTGTGCTGACAATGATTGCGGTGC
1 TTGTGCTAACAATGATGGCGCTGC
23560286 TTGTGCTAACA
1 TTGTGCTAACA
23560297 CAGGTTGTGA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.19, C:0.17, G:0.31, T:0.34
Consensus pattern (24 bp):
TTGTGCTAACAATGATGGCGCTGC
Found at i:23566588 original size:3 final size:3
Alignment explanation
Indices: 23566580--23566630 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
23566570 ATCTTGTATC
* * *
23566580 ATT ATT ATT ATT ATTT ATT ATT GTT ATT GTT ATT ATT ATT TTT ATT
1 ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
23566626 TTT AT
1 ATT AT
23566631 ATTCATGCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (3 bp):
ATT
Found at i:23568686 original size:20 final size:20
Alignment explanation
Indices: 23568663--23568701 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
23568653 AAGGACTGGG
*
23568663 TTCAAGGTTTGAGATTCAAT
1 TTCAAGGTTTAAGATTCAAT
23568683 TTCAAGGTTTAAGATTCAA
1 TTCAAGGTTTAAGATTCAA
23568702 GGTAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.38
Consensus pattern (20 bp):
TTCAAGGTTTAAGATTCAAT
Found at i:23571343 original size:2 final size:2
Alignment explanation
Indices: 23571336--23571362 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
23571326 AAATGTGAAA
23571336 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
23571363 AGGAAGAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:23571898 original size:27 final size:26
Alignment explanation
Indices: 23571866--23571926 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 26
23571856 TTTTTGGTCA
*
23571866 TTAAGGACTCAGTAAGGTGTACTTTTT
1 TTAAGGACTCAATAAGGTGTAC-TTTT
*
23571893 TTAAGGGCTCAATAAGGTGTACTTTT
1 TTAAGGACTCAATAAGGTGTACTTTT
23571919 TTAAGGAC
1 TTAAGGAC
23571927 CTAGTTGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
26 11 0.35
27 20 0.65
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (26 bp):
TTAAGGACTCAATAAGGTGTACTTTT
Found at i:23574798 original size:45 final size:45
Alignment explanation
Indices: 23574734--23574823 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
23574724 TCACCTAGAC
* *
23574734 TTCATTTGTCATTATCAATCTAATTTATTTACTTAGTAAATTGAT
1 TTCATCTGTCACTATCAATCTAATTTATTTACTTAGTAAATTGAT
* *
23574779 TTCATCTGTCACTATCAATCTAATTTCTTTACTTAGTAACTTGAT
1 TTCATCTGTCACTATCAATCTAATTTATTTACTTAGTAAATTGAT
23574824 CTGTAGAAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.29, C:0.16, G:0.07, T:0.49
Consensus pattern (45 bp):
TTCATCTGTCACTATCAATCTAATTTATTTACTTAGTAAATTGAT
Found at i:23575021 original size:38 final size:38
Alignment explanation
Indices: 23574979--23575056 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
23574969 TAATCTAGTA
*
23574979 GATTTATGGTAGATTTGACTCTAAGGGCAAGACTTCAG
1 GATTTATGGTAGATTTGACTCTAAGAGCAAGACTTCAG
23575017 GATTTATGGTAGATTTGACTCTAAGAGCAAGACTTCAG
1 GATTTATGGTAGATTTGACTCTAAGAGCAAGACTTCAG
23575055 GA
1 GA
23575057 ATAGTTCATG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.31
Consensus pattern (38 bp):
GATTTATGGTAGATTTGACTCTAAGAGCAAGACTTCAG
Found at i:23578797 original size:40 final size:38
Alignment explanation
Indices: 23578728--23578845 Score: 148
Period size: 40 Copynumber: 3.0 Consensus size: 38
23578718 GGCGTTTAGA
* *
23578728 TAAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTT
1 TAAAAAACGCCACTAAAAAT-GAGCATTAGCGGCGCTTT
* * *
23578767 TAATAAAATGCCACTAAAGATAGAGTATTAGCGGCGCTTTT
1 TAA-AAAACGCCACTAAAAAT-GAGCATTAGCGGCGC-TTT
23578808 TAAAAAACGCCACTAAAAATGAGCATTAGCGGCG-TTT
1 TAAAAAACGCCACTAAAAATGAGCATTAGCGGCGCTTT
23578845 T
1 T
23578846 CCATAAAGCG
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
37 4 0.06
39 16 0.24
40 42 0.62
41 6 0.09
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (38 bp):
TAAAAAACGCCACTAAAAATGAGCATTAGCGGCGCTTT
Found at i:23578963 original size:41 final size:41
Alignment explanation
Indices: 23578901--23578980 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
23578891 GAGTTTTTGG
23578901 GGGCATTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTAA
1 GGGCATTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTAA
*
23578942 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCT
1 GGGCATTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCT
23578981 NNNNNNNNNN
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (41 bp):
GGGCATTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTAA
Found at i:23594051 original size:23 final size:22
Alignment explanation
Indices: 23594025--23594176 Score: 103
Period size: 23 Copynumber: 6.6 Consensus size: 22
23594015 AAATGTTGTT
23594025 AATTGATATGTTTAAGTGCTGCA
1 AATTGA-ATGTTTAAGTGCTGCA
* *
23594048 AATTTAAGTTTTTAAGTGCTGCA
1 AATTGAA-TGTTTAAGTGCTGCA
*
23594071 AATTGAAGTGTTTAAGTGCTACA
1 AATTGAA-TGTTTAAGTGCTGCA
* * *
23594094 AAGTGAGATGTTTTA-TCGCTG-T
1 AATTGA-ATGTTTAAGT-GCTGCA
* * **
23594116 AATTG-ATGTGTATAAATGTTGTT
1 AATTGAATGT-T-TAAGTGCTGCA
*
23594139 AATTGATATGTTAAAGTGCTGCA
1 AATTGA-ATGTTTAAGTGCTGCA
23594162 AATTGAAGTGTTTAA
1 AATTGAA-TGTTTAA
23594177 ATTTAACTTG
Statistics
Matches: 101, Mismatches: 18, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
20 4 0.04
21 1 0.01
22 12 0.12
23 78 0.77
24 2 0.02
25 4 0.04
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.40
Consensus pattern (22 bp):
AATTGAATGTTTAAGTGCTGCA
Found at i:23594840 original size:43 final size:43
Alignment explanation
Indices: 23594793--23594999 Score: 333
Period size: 43 Copynumber: 4.8 Consensus size: 43
23594783 TTTTCGTGAC
* ** * *
23594793 CTTTAGTGGCGTTTTTGGGAAAAGCGCCACTAAAGGTCTTGGT
1 CTTTAGCGGCGTTTGCGGGAGAAGCGCCGCTAAAGGTCTTGGT
23594836 CTTTAGCGGCGTTTGCGGGAGAAGCGCCGCTAAAGGTCTTGGT
1 CTTTAGCGGCGTTTGCGGGAGAAGCGCCGCTAAAGGTCTTGGT
23594879 CTTTAGCGGCGTTTGCGGGAGAAGCGCCGCTAAAGGTCTTGGT
1 CTTTAGCGGCGTTTGCGGGAGAAGCGCCGCTAAAGGTCTTGGT
* *
23594922 CTTTAGCGGCGTTTGCGGGAGAAGCGCCGCTAAAGATCCTGGT
1 CTTTAGCGGCGTTTGCGGGAGAAGCGCCGCTAAAGGTCTTGGT
* *
23594965 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
1 CTTTAGCGGCGTTTGCGGGAGAAGCGCCGCTAAAG
23595000 TTAGCGACGC
Statistics
Matches: 155, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 155 1.00
ACGTcount: A:0.19, C:0.20, G:0.35, T:0.26
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGCGGGAGAAGCGCCGCTAAAGGTCTTGGT
Found at i:23595512 original size:18 final size:18
Alignment explanation
Indices: 23595472--23595515 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
23595462 TAATTTTATG
**
23595472 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
23595490 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
23595508 CTTGGGTT
1 ATTGGGTT
23595516 TAGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:23596863 original size:35 final size:35
Alignment explanation
Indices: 23596817--23596895 Score: 131
Period size: 35 Copynumber: 2.3 Consensus size: 35
23596807 AAGAAACTAA
*
23596817 TGAAATCCATCCATAGAATACGCAAATGTTAACAT
1 TGAAAACCATCCATAGAATACGCAAATGTTAACAT
*
23596852 TGAAAACCATCCATAGCATACGCAAATGTTAACAT
1 TGAAAACCATCCATAGAATACGCAAATGTTAACAT
*
23596887 TGAAGACCA
1 TGAAAACCA
23596896 CACACTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.43, C:0.22, G:0.13, T:0.23
Consensus pattern (35 bp):
TGAAAACCATCCATAGAATACGCAAATGTTAACAT
Found at i:23597968 original size:24 final size:24
Alignment explanation
Indices: 23597939--23597985 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
23597929 ATTTAAAATT
23597939 TTTATAACTTT-TTTATGAATTTTG
1 TTTAT-ACTTTGTTTATGAATTTTG
* *
23597963 TTTATATTTTGTTTATGATTTTT
1 TTTATACTTTGTTTATGAATTTT
23597986 TAAATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.21, C:0.02, G:0.09, T:0.68
Consensus pattern (24 bp):
TTTATACTTTGTTTATGAATTTTG
Found at i:23597985 original size:13 final size:12
Alignment explanation
Indices: 23597950--23597984 Score: 54
Period size: 11 Copynumber: 2.9 Consensus size: 12
23597940 TTATAACTTT
23597950 TTTATGAATTTTG
1 TTTATG-ATTTTG
23597963 TTTAT-ATTTTG
1 TTTATGATTTTG
23597974 TTTATGATTTT
1 TTTATGATTTT
23597985 TTAAATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 11 0.52
12 5 0.24
13 5 0.24
ACGTcount: A:0.20, C:0.00, G:0.11, T:0.69
Consensus pattern (12 bp):
TTTATGATTTTG
Found at i:23603478 original size:19 final size:19
Alignment explanation
Indices: 23603462--23603501 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
23603452 TAATAATATA
23603462 CTTGTTCCTCGACAATACT
1 CTTGTTCCTCGACAATACT
23603481 CTTGTTCCTCGACAATACT
1 CTTGTTCCTCGACAATACT
23603500 CT
1 CT
23603502 ATGGTTCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.33, G:0.10, T:0.38
Consensus pattern (19 bp):
CTTGTTCCTCGACAATACT
Found at i:23605398 original size:11 final size:11
Alignment explanation
Indices: 23605384--23605410 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
23605374 AGATAATTGT
23605384 TATTTAATTAA
1 TATTTAATTAA
23605395 TATTTAATTAA
1 TATTTAATTAA
23605406 TATTT
1 TATTT
23605411 TTAGTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TATTTAATTAA
Found at i:23609555 original size:62 final size:56
Alignment explanation
Indices: 23609454--23609606 Score: 162
Period size: 57 Copynumber: 2.6 Consensus size: 56
23609444 ATCTCTGAAA
* * **
23609454 AAGAATTTATGGTAAAAAGGATTTAGCCCGGACGGGTGATCCTATCCTGATATAGTTCTCCCG
1 AAGAATATATGG-AAAAA-GATTTAGCCCGGACGAGTGAT-C--T--TGATATAGCCCTCCCG
*
23609517 AAGAATATATGTGAAAAAGATCTAGCCCGGACGAGTGATCTTGATATAGCCCTCCCG
1 AAGAATATATG-GAAAAAGATTTAGCCCGGACGAGTGATCTTGATATAGCCCTCCCG
* *
23609574 AAGAATATGTGGAAAATGGATTTAGCCCGGACG
1 AAGAATATATGGAAAA-AGATTTAGCCCGGACG
23609607 GTAATCCGAA
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
56 5 0.06
57 38 0.47
59 1 0.01
61 1 0.01
62 19 0.24
63 15 0.19
64 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (56 bp):
AAGAATATATGGAAAAAGATTTAGCCCGGACGAGTGATCTTGATATAGCCCTCCCG
Found at i:23617758 original size:24 final size:24
Alignment explanation
Indices: 23617726--23617775 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
23617716 CCATTAAGAA
23617726 AAACTTGAGAA-ACAAGAAAGCTTT
1 AAACTTGAGAAGA-AAGAAAGCTTT
*
23617750 AAACTTGAGAAGAAGGAAAGCTTT
1 AAACTTGAGAAGAAAGAAAGCTTT
23617774 AA
1 AA
23617776 GAAATCCGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.50, C:0.10, G:0.20, T:0.20
Consensus pattern (24 bp):
AAACTTGAGAAGAAAGAAAGCTTT
Found at i:23617896 original size:38 final size:38
Alignment explanation
Indices: 23617845--23617922 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
23617835 GACAAAGGCG
23617845 GTTTAGAAGTATTGGATTAGGAAAAGGAAATCTCATTT
1 GTTTAGAAGTATTGGATTAGGAAAAGGAAATCTCATTT
23617883 GTTTAGAAGTATTGGATTAGGAAAAGGAAATCTCATTT
1 GTTTAGAAGTATTGGATTAGGAAAAGGAAATCTCATTT
23617921 GT
1 GT
23617923 CAAAGGGCTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (38 bp):
GTTTAGAAGTATTGGATTAGGAAAAGGAAATCTCATTT
Found at i:23619454 original size:31 final size:31
Alignment explanation
Indices: 23619419--23619517 Score: 98
Period size: 31 Copynumber: 3.2 Consensus size: 31
23619409 AATAAATACC
23619419 AAAAAATTATTTT-AAAAT-TTTAAAAAAATTA
1 AAAAAATTATTTTAAAAATATTT--AAAAATTA
* *
23619450 AAAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAAATTATTTTAAAAATATTTAAAAATTA
** *
23619481 AAAAAA-T-TTAAAAAAAGTATTTTAAAATTA
1 AAAAAATTATTTTAAAAA-TATTTAAAAATTA
23619511 AAAAAAT
1 AAAAAAT
23619518 AAAAAAATTT
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
29 7 0.12
30 20 0.33
31 25 0.42
32 5 0.08
33 3 0.05
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (31 bp):
AAAAAATTATTTTAAAAATATTTAAAAATTA
Found at i:23619466 original size:12 final size:11
Alignment explanation
Indices: 23619435--23619477 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
23619425 TTATTTTAAA
*
23619435 ATTTTAAAAAA
1 ATTTTAAAAAT
**
23619446 ATTAAAAAAAGT
1 ATTTTAAAAA-T
23619458 ATTTTAAAAAT
1 ATTTTAAAAAT
23619469 ATTTTAAAA
1 ATTTTAAAA
23619478 TTAAAAAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 18 0.69
12 8 0.31
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (11 bp):
ATTTTAAAAAT
Found at i:23619497 original size:41 final size:42
Alignment explanation
Indices: 23619420--23619507 Score: 144
Period size: 41 Copynumber: 2.1 Consensus size: 42
23619410 ATAAATACCA
23619420 AAAAATTATTTTAAAATTTTAAAAAAATTAAAAAAAGTATTTT
1 AAAAATTATTTTAAAA-TTTAAAAAAATTAAAAAAAGTATTTT
23619463 AAAAA-TATTTTAAAA-TTAAAAAAATTTAAAAAAAGTATTTT
1 AAAAATTATTTTAAAATTTAAAAAAA-TTAAAAAAAGTATTTT
23619504 AAAA
1 AAAA
23619508 TTAAAAAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
40 9 0.20
41 20 0.45
42 10 0.23
43 5 0.11
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (42 bp):
AAAAATTATTTTAAAATTTAAAAAAATTAAAAAAAGTATTTT
Done.