Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 157 of 187
Found at i:47323642 original size:20 final size:20
Alignment explanation
Indices: 47323617--47323654 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
47323607 TATTATGCAC
*
47323617 TTTGTTGATATTTGGTATAT
1 TTTGTTGATACTTGGTATAT
47323637 TTTGTTGATACTTGGTAT
1 TTTGTTGATACTTGGTAT
47323655 TTTATGCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.03, G:0.21, T:0.58
Consensus pattern (20 bp):
TTTGTTGATACTTGGTATAT
Found at i:47325305 original size:26 final size:26
Alignment explanation
Indices: 47325267--47325320 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
47325257 TTAGCCACAT
47325267 ATACTATTACTGGCAACTCTGCTGCG
1 ATACTATTACTGGCAACTCTGCTGCG
* * *
47325293 ATACTGTTGCTGGCAACTTTGCTGCG
1 ATACTATTACTGGCAACTCTGCTGCG
47325319 AT
1 AT
47325321 GCTACTGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.33
Consensus pattern (26 bp):
ATACTATTACTGGCAACTCTGCTGCG
Found at i:47325332 original size:26 final size:26
Alignment explanation
Indices: 47325277--47325332 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
47325267 ATACTATTAC
** *
47325277 TGGCAACTCTGCTGCGATACTGTTGC
1 TGGCAACTCTGCTGCGATACTACTGA
* *
47325303 TGGCAACTTTGCTGCGATGCTACTGA
1 TGGCAACTCTGCTGCGATACTACTGA
47325329 TGGC
1 TGGC
47325333 TTTGTGCCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.16, C:0.25, G:0.29, T:0.30
Consensus pattern (26 bp):
TGGCAACTCTGCTGCGATACTACTGA
Found at i:47325362 original size:32 final size:33
Alignment explanation
Indices: 47325321--47325539 Score: 225
Period size: 32 Copynumber: 6.8 Consensus size: 33
47325311 TTGCTGCGAT
*
47325321 GCTACTGATGGCTTTGTGCCAATCATAGT-ACC
1 GCTACTGATGGCTTTGTGCCGATCATAGTCACC
* * *
47325353 GCTACTGATGGCTTTGTGTCGTTCATAGT-ATC
1 GCTACTGATGGCTTTGTGCCGATCATAGTCACC
* * *
47325385 GTTACTGATGGCTTTGTGCCGATCATATTTCACT
1 GCTACTGATGGCTTTGTGCCGATCATA-GTCACC
* * * * *
47325419 GTTACTGATAGCTGTGTGCCGATCTTA-TCACT
1 GCTACTGATGGCTTTGTGCCGATCATAGTCACC
*
47325451 GCTACTGATGGCTTTGTGCCGATCAT-GTTACC
1 GCTACTGATGGCTTTGTGCCGATCATAGTCACC
* * *
47325483 GTTACTGATGG-TTGTGTGTCGATCATA-TCACT
1 GCTACTGATGGCTT-TGTGCCGATCATAGTCACC
*
47325515 GCTACTGATGGCTTTGTGCCAATCA
1 GCTACTGATGGCTTTGTGCCGATCA
47325540 CATTATTGTA
Statistics
Matches: 155, Mismatches: 26, Indels: 12
0.80 0.13 0.06
Matches are distributed among these distances:
31 2 0.01
32 125 0.81
33 3 0.02
34 25 0.16
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.37
Consensus pattern (33 bp):
GCTACTGATGGCTTTGTGCCGATCATAGTCACC
Found at i:47325402 original size:64 final size:64
Alignment explanation
Indices: 47325320--47325539 Score: 259
Period size: 64 Copynumber: 3.4 Consensus size: 64
47325310 TTTGCTGCGA
* *
47325320 TGCTACTGATGGCTTTGTGCCAATCATAGTACCGCTACTGATGGCTTTGTGTCGTTCATAGT-A-
1 TGCTACTGATGGCTTTGTGCCAATCATAGTACCGTTACTGATGGCTTTGTGTCGATCATA-TCAC
* * * * * * * *
47325383 TCGTTACTGATGGCTTTGTGCCGATCATATTTCACTGTTACTGATAGCTGTGTGCCGATCTTATC
1 T-GCTACTGATGGCTTTGTGCCAATCATA-GT-ACCGTTACTGATGGCTTTGTGTCGATCATATC
47325448 AC
63 AC
*
47325450 TGCTACTGATGGCTTTGTGCCGATCAT-GTTACCGTTACTGATGG-TTGTGTGTCGATCATATCA
1 TGCTACTGATGGCTTTGTGCCAATCATAG-TACCGTTACTGATGGCTT-TGTGTCGATCATATCA
47325513 C
64 C
47325514 TGCTACTGATGGCTTTGTGCCAATCA
1 TGCTACTGATGGCTTTGTGCCAATCA
47325540 CATTATTGTA
Statistics
Matches: 132, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
63 2 0.02
64 77 0.58
65 3 0.02
66 49 0.37
67 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.37
Consensus pattern (64 bp):
TGCTACTGATGGCTTTGTGCCAATCATAGTACCGTTACTGATGGCTTTGTGTCGATCATATCAC
Found at i:47325492 original size:98 final size:96
Alignment explanation
Indices: 47325320--47325534 Score: 256
Period size: 98 Copynumber: 2.2 Consensus size: 96
47325310 TTTGCTGCGA
* * * * * * * *
47325320 TGCTACTGATGGCTTTGTGCCAATCATAGT-ACCGCTACTGATGGCTTTGTGTCGTTCATAGTAT
1 TGCTACTGATAGCTGTGTGCCGATCTTA-TCACTGCTACTGATGGCTTTGTGCCGATCATAGTAC
47325384 CGTTACTGATGGCTT-TGTGCCGATCATATTTCAC
65 CGTTACTGATGG-TTGTGTGCCGATCATA--TCAC
*
47325418 TGTTACTGATAGCTGTGTGCCGATCTTATCACTGCTACTGATGGCTTTGTGCCGATCAT-GTTAC
1 TGCTACTGATAGCTGTGTGCCGATCTTATCACTGCTACTGATGGCTTTGTGCCGATCATAG-TAC
*
47325482 CGTTACTGATGGTTGTGTGTCGATCATATCAC
65 CGTTACTGATGGTTGTGTGCCGATCATATCAC
* *
47325514 TGCTACTGATGGCTTTGTGCC
1 TGCTACTGATAGCTGTGTGCC
47325535 AATCACATTA
Statistics
Matches: 101, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
96 22 0.22
97 4 0.04
98 75 0.74
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (96 bp):
TGCTACTGATAGCTGTGTGCCGATCTTATCACTGCTACTGATGGCTTTGTGCCGATCATAGTACC
GTTACTGATGGTTGTGTGCCGATCATATCAC
Found at i:47325645 original size:26 final size:26
Alignment explanation
Indices: 47325616--47325668 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
47325606 AGCCATTCTG
* * * *
47325616 ACTATTGGCAGCTCTGCTGCATTATT
1 ACTACTGGCAGCTATGATGCAATATT
47325642 ACTACTGGCAGCTATGATGCAATATT
1 ACTACTGGCAGCTATGATGCAATATT
47325668 A
1 A
47325669 GTGTGAAGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (26 bp):
ACTACTGGCAGCTATGATGCAATATT
Found at i:47329282 original size:24 final size:24
Alignment explanation
Indices: 47329237--47329283 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
47329227 AACAAGGAAG
**
47329237 ATACTCAACTTACCTTGGGGTTTA
1 ATACTCAACTTACCCAGGGGTTTA
* *
47329261 ATACTCAATTTACCCAGTGGTTT
1 ATACTCAACTTACCCAGGGGTTT
47329284 GCATAACATG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (24 bp):
ATACTCAACTTACCCAGGGGTTTA
Found at i:47330962 original size:16 final size:16
Alignment explanation
Indices: 47330941--47331008 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
47330931 TTTGGTTCGC
*
47330941 TGTATTAGATTAGAGG
1 TGTATTGGATTAGAGG
47330957 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
47330973 TGTATTGGATTAAAGG
1 TGTATTGGATTAGAGG
47330989 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
47331005 TGTA
1 TGTA
47331009 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:47331265 original size:18 final size:17
Alignment explanation
Indices: 47331244--47331278 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
47331234 TTATTATTAA
*
47331244 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
47331262 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
47331279 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:47331864 original size:13 final size:13
Alignment explanation
Indices: 47331846--47331875 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
47331836 TTAAAAGCTA
*
47331846 AATTCAGAAAATC
1 AATTCAGAAAAAC
47331859 AATTCAGAAAAAC
1 AATTCAGAAAAAC
47331872 AATT
1 AATT
47331876 ACATGACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.13, G:0.07, T:0.23
Consensus pattern (13 bp):
AATTCAGAAAAAC
Found at i:47339515 original size:46 final size:46
Alignment explanation
Indices: 47339448--47339536 Score: 142
Period size: 46 Copynumber: 1.9 Consensus size: 46
47339438 TTGCTACATT
*
47339448 AGGATCTGATAGGACTTAAATCACTTGTTATATTGAGTTTAAAAAC
1 AGGATCTGATAGGACTTAAATCACCTGTTATATTGAGTTTAAAAAC
* * *
47339494 AGGATGTGATATGACTTAAATCACCTGTTGTATTGAGTTTAAA
1 AGGATCTGATAGGACTTAAATCACCTGTTATATTGAGTTTAAA
47339537 GATAGTAGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.36
Consensus pattern (46 bp):
AGGATCTGATAGGACTTAAATCACCTGTTATATTGAGTTTAAAAAC
Found at i:47346712 original size:11 final size:11
Alignment explanation
Indices: 47346696--47346771 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
47346686 CTTAATCACT
47346696 TTAATATTAAA
1 TTAATATTAAA
47346707 TTAATA--AAA
1 TTAATATTAAA
*
47346716 -TACTATTAAGA
1 TTAATATTAA-A
*
47346727 TAAATATTAAA
1 TTAATATTAAA
47346738 TTAA-ATTTAATA
1 TTAATA-TTAA-A
47346750 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
47346763 ATAATATTA
1 TTAATATTA
47346772 TTTTTAGAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 3 0.06
11 20 0.39
12 12 0.24
13 4 0.08
14 4 0.08
15 1 0.02
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:47346758 original size:37 final size:36
Alignment explanation
Indices: 47346696--47346771 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
47346686 CTTAATCACT
*
47346696 TTAATATTAAATTAATAAAATACTATTAAGATAAATA
1 TTAATATTAAATTAATAAAATACTATTAAAAT-AATA
*
47346733 TTAA-ATTAAATTTAATATTAA-ACTATTAAAATAATA
1 TTAATATTAAA-TTAATA-AAATACTATTAAAATAATA
47346769 TTA
1 TTA
47346772 TTTTTAGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 20 0.57
38 2 0.06
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (36 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAATA
Found at i:47348401 original size:15 final size:15
Alignment explanation
Indices: 47348377--47348408 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
47348367 TATGCATGTA
*
47348377 AAATATAAAAGACAT
1 AAATACAAAAGACAT
47348392 AAATACAAAAGACAT
1 AAATACAAAAGACAT
47348407 AA
1 AA
47348409 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:47360041 original size:24 final size:24
Alignment explanation
Indices: 47360002--47360048 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
47359992 GTGATTTGAT
*
47360002 AAAAAAATATAAATTTAAAAATTA
1 AAAAAAACATAAATTTAAAAATTA
* *
47360026 AAAAAAACATATATTTTAAAATT
1 AAAAAAACATAAATTTAAAAATT
47360049 GGAGGGTCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
AAAAAAACATAAATTTAAAAATTA
Found at i:47371412 original size:24 final size:25
Alignment explanation
Indices: 47371385--47371438 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
47371375 TAATTATTAG
* * * *
47371385 AATTAAATCTGAAATAA-AAAATAA
1 AATTAAAACTAAAAAAAGAAAAGAA
47371409 AATTAAAACTAAAAAAAGAAAAGAA
1 AATTAAAACTAAAAAAAGAAAAGAA
47371434 AATTA
1 AATTA
47371439 CTTTAACAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.70, C:0.04, G:0.06, T:0.20
Consensus pattern (25 bp):
AATTAAAACTAAAAAAAGAAAAGAA
Found at i:47373691 original size:20 final size:21
Alignment explanation
Indices: 47373661--47373699 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
47373651 CAATCCATGT
47373661 ATAATTCATAAAAATTTAAAA
1 ATAATTCATAAAAATTTAAAA
*
47373682 ATAA-TCATAAATATTTAA
1 ATAATTCATAAAAATTTAA
47373700 TCAACAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (21 bp):
ATAATTCATAAAAATTTAAAA
Found at i:47374730 original size:3 final size:3
Alignment explanation
Indices: 47374722--47374749 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
47374712 CACCAAGATG
47374722 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
47374750 ATCAATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:47375223 original size:3 final size:3
Alignment explanation
Indices: 47375215--47375256 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
47375205 GTATAAACAT
* * *
47375215 ATA ATA ATA TTA CTA ATA ATA ATA ATA ATA ATA ATA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
47375257 GATTAATTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:47376460 original size:9 final size:9
Alignment explanation
Indices: 47376446--47376477 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
47376436 TAATTCAGGT
47376446 TTGGGCTAA
1 TTGGGCTAA
47376455 TTGGGCTAA
1 TTGGGCTAA
47376464 TTGGGCTAA
1 TTGGGCTAA
47376473 TTGGG
1 TTGGG
47376478 TTTTAAATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.19, C:0.09, G:0.38, T:0.34
Consensus pattern (9 bp):
TTGGGCTAA
Found at i:47376980 original size:45 final size:44
Alignment explanation
Indices: 47376907--47376993 Score: 111
Period size: 45 Copynumber: 2.0 Consensus size: 44
47376897 AGATTCGCTA
* * * *
47376907 TTCTCAGTCTGCCCCACCGTAACTTCAGGGGGGATAAGACTTGCT
1 TTCTCAGTCTGCACCACCGCAACCTCA-GGGAGATAAGACTTGCT
* *
47376952 TTCTCAGTCTGCACCGCTGCAACCTCAGGGAGATAAGACTTG
1 TTCTCAGTCTGCACCACCGCAACCTCAGGGAGATAAGACTTG
47376994 ATGCAATTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 14 0.39
45 22 0.61
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (44 bp):
TTCTCAGTCTGCACCACCGCAACCTCAGGGAGATAAGACTTGCT
Found at i:47377201 original size:88 final size:88
Alignment explanation
Indices: 47377104--47377357 Score: 267
Period size: 88 Copynumber: 2.9 Consensus size: 88
47377094 TCATTGCCAA
* * * * * *
47377104 TACAAGAAGGCAAGATCTGGTGTTTTCAGCCTGCTCCACTGCAAACTAGGGAGGCAAGGCTAGTG
1 TACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCACTGCAAACCAAGGAGGCAAGGCTAGTG
*
47377169 TCTTCAATCTGCTTCGCTGTTGG
66 TCTTCAATCTGCTTCGCTGTCGG
* * * * *
47377192 TACAGGAAGGCAAAATTTGCTATTTTCAACCTGCTCCACTGTAACCCAAGGAGGCAAGGTTAGTG
1 TACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCACTGCAAACCAAGGAGGCAAGGCTAGTG
**
47377257 TCTTTGATCTGCTTCGCTGTCGG
66 TCTTCAATCTGCTTCGCTGTCGG
* * ** * *** * *
47377280 TGCAGGAAGGCAAGATCTG-TAATCTTCAACCTATTCCACTACTGTCCAGGGAGGCAAGGCTGGT
1 TACAGGAAGGCAAGATCTGCT-ATTTTCAACCTGCTCCACTGCAAACCAAGGAGGCAAGGCTAGT
*
47377344 GTCTTCGATCTGCT
65 GTCTTCAATCTGCT
47377358 CCACTACTGT
Statistics
Matches: 136, Mismatches: 29, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
87 1 0.01
88 135 0.99
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (88 bp):
TACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCACTGCAAACCAAGGAGGCAAGGCTAGTG
TCTTCAATCTGCTTCGCTGTCGG
Found at i:47377335 original size:44 final size:44
Alignment explanation
Indices: 47377282--47377463 Score: 118
Period size: 44 Copynumber: 4.2 Consensus size: 44
47377272 GCTGTCGGTG
*
47377282 CAGGAAGGCAAGATCTGTAATCTTCAACCTATTCCACTACTGTC
1 CAGGGAGGCAAGATCTGTAATCTTCAACCTATTCCACTACTGTC
* * * * ** *
47377326 CAGGGAGGCAAG-GCTGGT-GTCTTCGATCTGCTCCACTACTGTT
1 CAGGGAGGCAAGATCT-GTAATCTTCAACCTATTCCACTACTGTC
* * ** ** * *
47377369 TAAGGAGATAAGATCTGTAATCTTTGACCTATTCTACTGCTGTC
1 CAGGGAGGCAAGATCTGTAATCTTCAACCTATTCCACTACTGTC
* * * ** * *
47377413 CAGAGAGAG-AGGATTTACAATTTTCAACCTATTCCACTGCTGTC
1 CAGGGAG-GCAAGATCTGTAATCTTCAACCTATTCCACTACTGTC
47377457 CAGGGAG
1 CAGGGAG
47377464 ATAGGACTTA
Statistics
Matches: 100, Mismatches: 34, Indels: 8
0.70 0.24 0.06
Matches are distributed among these distances:
43 31 0.31
44 69 0.69
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (44 bp):
CAGGGAGGCAAGATCTGTAATCTTCAACCTATTCCACTACTGTC
Found at i:47377908 original size:44 final size:44
Alignment explanation
Indices: 47377636--47377907 Score: 323
Period size: 44 Copynumber: 6.2 Consensus size: 44
47377626 TGCTGCTTAA
** *
47377636 GGAGATAGAATTCTA-AATCTTCAATCTATTCCACTATTGTCCAG
1 GGAGATAGAATTC-ACAATCTTCAATCTATTCCACTGCTGACCAG
*
47377680 GGAGATAGAATTCACAATCTTCAATCTATTCCACTGCTGCCCAG
1 GGAGATAGAATTCACAATCTTCAATCTATTCCACTGCTGACCAG
* * * *
47377724 AGAGATAGAATTCTCAATCTTTAATCTATTCCACTGTTGACCAG
1 GGAGATAGAATTCACAATCTTCAATCTATTCCACTGCTGACCAG
* * *
47377768 GGAGATAGGATTCACAACCTTCAATCTATTCCACTGTTG-CACAG
1 GGAGATAGAATTCACAATCTTCAATCTATTCCACTGCTGAC-CAG
* * * *
47377812 AGAGATAGAATTCTCAATTTTCAACCTATTCCACTGCTGACCAG
1 GGAGATAGAATTCACAATCTTCAATCTATTCCACTGCTGACCAG
* * * * * *
47377856 GGATATAGGATTCACAACCTTCAACCTATTCCACTACTGTCCAG
1 GGAGATAGAATTCACAATCTTCAATCTATTCCACTGCTGACCAG
47377900 GGAGATAG
1 GGAGATAG
47377908 GGCTGGGGTC
Statistics
Matches: 196, Mismatches: 29, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
43 2 0.01
44 193 0.98
45 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (44 bp):
GGAGATAGAATTCACAATCTTCAATCTATTCCACTGCTGACCAG
Found at i:47379351 original size:50 final size:52
Alignment explanation
Indices: 47379288--47379386 Score: 139
Period size: 51 Copynumber: 1.9 Consensus size: 52
47379278 TTTTGATTTA
* *
47379288 TTTTTTTAATTTTTTAG-ACTCAAAGTGCCTTTTGCAGGTTTTCACCTTGGTC
1 TTTTTTT-ATTTTTTAGAAATCAAAGTGCCCTTTGCAGGTTTTCACCTTGGTC
* *
47379340 TTTTTTT-TTTTTTAGAAATCAAGGTGCCCTTTGCGGGTTTTCACCTT
1 TTTTTTTATTTTTTAGAAATCAAAGTGCCCTTTGCAGGTTTTCACCTT
47379387 AGTCCCTTCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
50 8 0.19
51 27 0.64
52 7 0.17
ACGTcount: A:0.16, C:0.17, G:0.16, T:0.51
Consensus pattern (52 bp):
TTTTTTTATTTTTTAGAAATCAAAGTGCCCTTTGCAGGTTTTCACCTTGGTC
Found at i:47380278 original size:7 final size:7
Alignment explanation
Indices: 47380261--47380305 Score: 65
Period size: 7 Copynumber: 6.4 Consensus size: 7
47380251 TCTCCTTTTC
47380261 TTTTC-T
1 TTTTCTT
47380267 TTTTCTT
1 TTTTCTT
47380274 TTTTCTTT
1 TTTTC-TT
47380282 TTTTCTT
1 TTTTCTT
47380289 TTTTCTT
1 TTTTCTT
*
47380296 CTTTCTT
1 TTTTCTT
47380303 TTT
1 TTT
47380306 CTCTCATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
6 5 0.14
7 23 0.66
8 7 0.20
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTCTT
Found at i:47380286 original size:15 final size:14
Alignment explanation
Indices: 47380261--47380305 Score: 65
Period size: 15 Copynumber: 3.2 Consensus size: 14
47380251 TCTCCTTTTC
47380261 TTTTC-TTTTTCTT
1 TTTTCTTTTTTCTT
47380274 TTTTCTTTTTTTCTT
1 TTTTC-TTTTTTCTT
*
47380289 TTTTCTTCTTTCTT
1 TTTTCTTTTTTCTT
47380303 TTT
1 TTT
47380306 CTCTCATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 5 0.17
14 11 0.38
15 13 0.45
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTCTTTTTTCTT
Found at i:47380294 original size:22 final size:21
Alignment explanation
Indices: 47380261--47380305 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
47380251 TCTCCTTTTC
*
47380261 TTTTCTTTTTCTTTTTTCTTT
1 TTTTCTTTTTCTTCTTTCTTT
47380282 TTTTCTTTTTTCTTCTTTCTTT
1 TTTTC-TTTTTCTTCTTTCTTT
47380304 TT
1 TT
47380306 CTCTCATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (21 bp):
TTTTCTTTTTCTTCTTTCTTT
Found at i:47387307 original size:7 final size:7
Alignment explanation
Indices: 47387295--47387335 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
47387285 TACAAACTAC
47387295 TTTTATA
1 TTTTATA
47387302 TTTTATA
1 TTTTATA
47387309 TTTTATA
1 TTTTATA
*
47387316 TTTTAAA
1 TTTTATA
*
47387323 TTATATTA
1 TTTTA-TA
47387331 TTTTA
1 TTTTA
47387336 AACTTTCGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
7 24 0.83
8 5 0.17
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
TTTTATA
Found at i:47387381 original size:5 final size:5
Alignment explanation
Indices: 47387371--47387401 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
47387361 TGAGCATTCG
47387371 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
47387402 AATTTTCGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:47387886 original size:9 final size:9
Alignment explanation
Indices: 47387872--47387900 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
47387862 TAAACAATTC
47387872 AATAATATA
1 AATAATATA
47387881 AATAATATA
1 AATAATATA
47387890 AATAATATA
1 AATAATATA
47387899 AA
1 AA
47387901 ATGTGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AATAATATA
Found at i:47388194 original size:30 final size:31
Alignment explanation
Indices: 47388155--47388214 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
47388145 GGAGGTGGGA
*
47388155 TGGGAAGGGAATAAAAGTTTTAGGG-GAAAAG
1 TGGGAAGGGAATAAAAATTTT-GGGAGAAAAG
*
47388186 TGGG-AGGGAGTAAAAATTTTGGGAGAAAA
1 TGGGAAGGGAATAAAAATTTTGGGAGAAAA
47388215 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 19 0.73
31 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGGGAGAAAAG
Found at i:47388442 original size:9 final size:9
Alignment explanation
Indices: 47388428--47388464 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
47388418 TATAGTTTGA
47388428 TATTCGAAT
1 TATTCGAAT
47388437 TATTCGAAT
1 TATTCGAAT
*
47388446 TATTCGAGT
1 TATTCGAAT
47388455 TATTCGAAT
1 TATTCGAAT
47388464 T
1 T
47388465 TGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:47388534 original size:9 final size:9
Alignment explanation
Indices: 47388517--47388547 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
47388507 TCAAGTTGAT
47388517 TCGAATAAC
1 TCGAATAAC
*
47388526 TCGATTAAC
1 TCGAATAAC
47388535 TCGAATAAC
1 TCGAATAAC
47388544 TCGA
1 TCGA
47388548 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:47388873 original size:20 final size:20
Alignment explanation
Indices: 47388850--47388887 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
47388840 ATTTTAAAAA
47388850 ATAAAAAT-TATTATAAAAGT
1 ATAAAAATATATT-TAAAAGT
47388870 ATAAAAATATATTTAAAA
1 ATAAAAATATATTTAAAA
47388888 AAAAAGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (20 bp):
ATAAAAATATATTTAAAAGT
Found at i:47390575 original size:16 final size:16
Alignment explanation
Indices: 47390556--47390595 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
47390546 TCCCACGTTA
*
47390556 GGTTTTTGGATTTTAG
1 GGTTTTGGGATTTTAG
* *
47390572 GGTTTAGGGTTTTTAG
1 GGTTTTGGGATTTTAG
47390588 GGTTTTGG
1 GGTTTTGG
47390596 AGAAAAAAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.10, C:0.00, G:0.38, T:0.53
Consensus pattern (16 bp):
GGTTTTGGGATTTTAG
Found at i:47390706 original size:28 final size:28
Alignment explanation
Indices: 47390675--47390731 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
47390665 ATTTCGAGTT
47390675 GACGTTTCTGAGCAAATAGTATAAAATC
1 GACGTTTCTGAGCAAATAGTATAAAATC
47390703 GACGTTTCTGAGCAAATAGTATAAAATC
1 GACGTTTCTGAGCAAATAGTATAAAATC
47390731 G
1 G
47390732 CTTCTAGCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (28 bp):
GACGTTTCTGAGCAAATAGTATAAAATC
Found at i:47390997 original size:124 final size:125
Alignment explanation
Indices: 47390703--47391051 Score: 601
Period size: 124 Copynumber: 2.8 Consensus size: 125
47390693 GTATAAAATC
* *
47390703 GACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTGTTTGATAAGAATTTGTGAA
1 GACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAA
47390768 ATCGCGCCCTCGTGGACGTGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGACTT
66 ATCGCGCCCTCGTGGACGTGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGACTT
* *
47390828 GACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTAAGAAGAATTTATGAA
1 GACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAA
* * *
47390893 ATTGCACCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAA-AAATAATTTCGACTT
66 ATCGCGCCCTCGTGGACGTGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGACTT
* *
47390952 GACGTTTCTGAGCAAATAATATAAAATCGTTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAA
1 GACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAA
*
47391017 ATCGTGCCCTCGTGGACGTGCTTTTGCTACAGTAG
66 ATCGCGCCCTCGTGGACGTGCTTTTGCTACAGTAG
47391052 CATGTTTGGG
Statistics
Matches: 209, Mismatches: 15, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
124 107 0.51
125 102 0.49
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (125 bp):
GACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAA
ATCGCGCCCTCGTGGACGTGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGACTT
Found at i:47396277 original size:21 final size:22
Alignment explanation
Indices: 47396218--47396281 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
47396208 CAGAAGCAGT
* *
47396218 ATACAACACATAAAGTGCCTGA
1 ATACGACACATATAGTGCCTGA
** *
47396240 A-ACGACACACGTGGTGCCT-A
1 ATACGACACATATAGTGCCTGA
47396260 ATACGACACATATAGTGCCTGA
1 ATACGACACATATAGTGCCTGA
47396282 TCGGCAAAGC
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
20 2 0.06
21 28 0.88
22 2 0.06
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.19
Consensus pattern (22 bp):
ATACGACACATATAGTGCCTGA
Found at i:47397293 original size:17 final size:16
Alignment explanation
Indices: 47397273--47397328 Score: 62
Period size: 17 Copynumber: 3.5 Consensus size: 16
47397263 TGTCTTTATT
*
47397273 TAATTTATTTCTTAATA
1 TAATTTATTT-ATAATA
47397290 TAA--TATTTATAATA
1 TAATTTATTTATAATA
*
47397304 TAATTAATTTAATAATA
1 TAATTTATTT-ATAATA
47397321 TAATTTAT
1 TAATTTAT
47397329 AATTAATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 8 0.24
15 5 0.15
16 4 0.12
17 16 0.48
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (16 bp):
TAATTTATTTATAATA
Found at i:47397304 original size:14 final size:14
Alignment explanation
Indices: 47397285--47397335 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
47397275 ATTTATTTCT
47397285 TAATATAATATTTA
1 TAATATAATATTTA
47397299 TAATATAATTAATTTAA
1 TAATATAA-T-ATTT-A
47397316 TAATAT-A-ATTTA
1 TAATATAATATTTA
47397328 TAAT-TAAT
1 TAATATAAT
47397336 TTATATATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
11 1 0.03
12 6 0.19
13 4 0.12
14 8 0.25
15 1 0.03
16 5 0.16
17 7 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TAATATAATATTTA
Found at i:47397308 original size:31 final size:28
Alignment explanation
Indices: 47397272--47397353 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 28
47397262 TTGTCTTTAT
**
47397272 TTAATTTATTTCTTAATATAATATTTATAA
1 TTAATTTATTTAATAATAT-A-ATTTATAA
*
47397302 TATAATTAATTTAATAATATAATTTATAA
1 T-TAATTTATTTAATAATATAATTTATAA
* * *
47397331 TTAATTTATATATTTATATAATT
1 TTAATTTATTTAATAATATAATT
47397354 AAATCATGTA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
28 18 0.41
29 9 0.20
30 2 0.05
31 15 0.34
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (28 bp):
TTAATTTATTTAATAATATAATTTATAA
Found at i:47397337 original size:11 final size:11
Alignment explanation
Indices: 47397302--47397340 Score: 60
Period size: 11 Copynumber: 3.4 Consensus size: 11
47397292 ATATTTATAA
47397302 TATAATTAATT
1 TATAATTAATT
47397313 TAATAATATAATT
1 T-ATAAT-TAATT
47397326 TATAATTAATT
1 TATAATTAATT
47397337 TATA
1 TATA
47397341 TATTTATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 10 0.38
12 10 0.38
13 6 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
TATAATTAATT
Found at i:47403256 original size:12 final size:11
Alignment explanation
Indices: 47403229--47403266 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
47403219 GAAAATAGTC
47403229 AAAATTAATA-
1 AAAATTAATAT
47403239 AAAATTAACTAT
1 AAAATTAA-TAT
47403251 AAAATTAAT-T
1 AAAATTAATAT
47403261 AAAATT
1 AAAATT
47403267 CTTCATGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.58
11 3 0.12
12 8 0.31
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAATTAATAT
Found at i:47412555 original size:18 final size:16
Alignment explanation
Indices: 47412526--47412559 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
47412516 TATTTTTAAC
47412526 ATAATTTTATTATTTT
1 ATAATTTTATTATTTT
47412542 ATAATATTTAATTATTTT
1 ATAAT-TTT-ATTATTTT
47412560 TCAACAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 3 0.19
18 8 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATAATTTTATTATTTT
Found at i:47414013 original size:21 final size:21
Alignment explanation
Indices: 47413984--47414062 Score: 61
Period size: 21 Copynumber: 3.6 Consensus size: 21
47413974 TTTTATATTG
47413984 TGTTATTTAATAAAATAAAAGT
1 TGTT-TTTAATAAAATAAAAGT
* *
47414006 TGTTTTTAATATATTAATAGTAATT
1 TGTTTTTAATA-A--AATA-AAAGT
*
47414031 TATTTTTAAT-AAATAAAAGT
1 TGTTTTTAATAAAATAAAAGT
* *
47414051 TCTTTTGAATAA
1 TGTTTTTAATAA
47414063 GGCAATAGAA
Statistics
Matches: 45, Mismatches: 7, Indels: 11
0.71 0.11 0.17
Matches are distributed among these distances:
20 11 0.24
21 12 0.27
22 5 0.11
23 1 0.02
24 4 0.09
25 12 0.27
ACGTcount: A:0.43, C:0.01, G:0.08, T:0.48
Consensus pattern (21 bp):
TGTTTTTAATAAAATAAAAGT
Found at i:47417452 original size:125 final size:126
Alignment explanation
Indices: 47417093--47418285 Score: 1578
Period size: 125 Copynumber: 9.5 Consensus size: 126
47417083 TAAGGCCAAA
* * * * *
47417093 CAGGAACTACTGTAGAAAAAGAACGTCCACGTGGGAGATTTTTTTAGTAATTTTGCTGACAGTAC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * * * * *
47417158 ATCCTGATTGATGTGTTTTTGACACCATTTGTTCAAAACCATCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * * * * * * * * * *
47417219 CAAGAACTACTCTAGAAAAATAACGTACACGTGGGAGTTTTTTTCAATAATTTTACTGACAATAC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* *
47417284 ATCCTGCTTGAAGCGTTTTTGACACCATTTGTTCAAAACCGTCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * * * *
47417345 CAAGAACTAATGTAGAAAAAGAGCGTTCACGTGGGAGCTTTTTTCAGCAATTTT-CTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* *
47417409 ATCCTGTTTGAAGCGTTTTTGACACTATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
* ** *
47417470 CAGGAACTATTACAGAAAAAAAGCGTCCACATGGGAGCTTTTTT-AGTAATTTTGCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* *
47417534 ATCCTGCTTGAAGCGTATTTGACACTATTT-TTCTAGAACCGTTTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTC-AGAACCGTCTTCTCAAAATTATTTTTT
* * * * *
47417595 CAAGAACTACTATAGAAAAATAGCGTCCACATGGGAGCTTTTTTCACTAATTTTGTTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * *
47417660 ATCCTGCTTGACGCGTTTTTTACAGTATTTGTTCAGAACCGTCTTCTCAAAATTA-TTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * *
47417720 CAAGAACTACTGTAGAAAAAGAGCTTCCACATGGAAGCTTTTTT-AGTAATTTTGCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * *
47417784 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACAGTCTTCTCAAAATTATTTTCT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
* ** * * *
47417845 CAGGAACTACTGTAG-AAAAGAGTGTCCACATTAGAGCTTTTTTCACTAATTTTGCTAACAATGC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * *
47417909 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACAGTCTTCTCAAAATTATTTTCT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
* ** * * *
47417970 CAGGAACTACTGTAG-AAAAGAGTGTCCACATTAGAGCTTTTTTCACTAATTTTGCTAACAATGC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* *
47418034 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAATCGTCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * *** * * *
47418095 CAGGAACTACTATAGAAAAAGAGCGTTCGTGTGGGAGCATTTTTCAATAATTTT-CTGACAGTGT
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * *
47418159 ATCCTGCTTTAAGCGTTTTTGACACTATTTGTTCAGAATCGTCTTCTAAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
*
47418220 CAGGAACTACTGTAGAAAGAA-AGCGTCCACATGGGAGATTTTTT-AGTAATTTTGCTGACAGTG
1 CAGGAACTACTGTAGAAA-AAGAGCGTCCACATGGGAGCTTTTTTCAGTAATTTTGCTGACAGTG
47418283 CAT
65 CAT
47418286 TCTGAAGATT
Statistics
Matches: 957, Mismatches: 101, Indels: 19
0.89 0.09 0.02
Matches are distributed among these distances:
124 110 0.11
125 590 0.62
126 254 0.27
127 3 0.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (126 bp):
CAGGAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
Found at i:47419015 original size:126 final size:126
Alignment explanation
Indices: 47418543--47419939 Score: 2103
Period size: 126 Copynumber: 11.1 Consensus size: 126
47418533 GGCCAAACAA
* * *
47418543 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTT-AGTAATTTTGCTAACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCACTAATTTTGCTGACAGTGCATC
* * * *
47418607 CTGATTGAAGTGTTTTTGACACCATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAA
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
* * * * * * *
47418668 GAACTACTGTAGGAAAAGAGCATTCGCGTAGGAGCTTTTTTTAGC-AATTTT-CTGACAGTGCAT
1 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCA-CTAATTTTGCTGACAGTGCAT
* * * * *
47418731 -CTGCTTGAAGCATTTTTTACACTATTTGTTCAGAACCATCTTGTCAAAATTATTTTTTCAA
65 CCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
* * * *
47418792 GAATTACTGTAGAAAAAAAGTGTCCACATGGGAGCTTTTTT-AGTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCACTAATTTTGCTGACAGTGCATC
* * *
47418856 CTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTTTTCTCAAAATTATTTTCTCAG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
47418917 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCACTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCACTAATTTTGCTGACAGTGCATC
* * *
47418982 CTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTTTTCTCAAAATTATTTTCTCAG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
47419043 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCACTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCACTAATTTTGCTGACAGTGCATC
* * *
47419108 CTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTTTTCTCAAAATTATTTTCTCAG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
47419169 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCACTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCACTAATTTTGCTGACAGTGCATC
* * * *
47419234 CTGCTTGAAGCGTTTTTGACATTATTTGTTCAAAATCGTCTTCTCAAAATTATTTTTTCAA
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
47419295 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCACTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCACTAATTTTGCTGACAGTGCATC
* * * *
47419360 CTGCTTGAAGCGTTTTTGACATTATTTGTTCAAAATCGTCTTCTCAAAATTATTTTTTCAA
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
* * * * * * *
47419421 GAACTACTGTAGAAAAAGAGCGTTCGCGTAGGAGCTTTTTTCAGTAATTTT-ATGATAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCACTAATTTTGCTGACAGTGCATC
* * * * *
47419485 CTGCTTGAAGCATTTTTGACACTATTTTTTTAGAATCGTCTTCTCAAAATTATTTTTTTAG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
* * *
47419546 GAACTACTGTAGAAAAATAGCGTCCACATGAGAGCTTTTTTCACTAATTTTGCTGACAATGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCACTAATTTTGCTGACAGTGCATC
*
47419611 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTT-AG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
* * *
47419671 GAACTACTGTAGAAAAATAGCGTCCACATGAGAGCTTTTTTCACTAATTTTGCTGACAATGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCACTAATTTTGCTGACAGTGCATC
*
47419736 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTT-AG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
* * *
47419796 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTTACATAATTTTGCTGACAATGCAT
1 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAC-TAATTTTGCTGACAGTGCAT
* *
47419861 CCTACTTGAAGCGTTTTTGACATTACCTTT-TT-AGAACCGTCTTCTCAAAATTATTTTTTCAG
65 CCTGCTTGAAGCGTTTTTGACACTA--TTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
47419923 GAACTACTGTAGAAAAA
1 GAACTACTGTAGAAAAA
47419940 ACAATTTTTT
Statistics
Matches: 1184, Mismatches: 77, Indels: 20
0.92 0.06 0.02
Matches are distributed among these distances:
123 7 0.01
124 98 0.08
125 414 0.35
126 641 0.54
127 21 0.02
128 3 0.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCACTAATTTTGCTGACAGTGCATC
CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
Found at i:47419639 original size:251 final size:252
Alignment explanation
Indices: 47418543--47419939 Score: 2105
Period size: 251 Copynumber: 5.6 Consensus size: 252
47418533 GGCCAAACAA
* * *
47418543 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTT-AGTAATTTTGCTAACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCACTAATTTTGCTGACAGTGCATC
* * * *
47418607 CTGATTGAAGTGTTTTTGACACCATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAAGAAC
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGGAAC
* * * * * *
47418672 TACTGTAGGAAAAGAGCATTCGCGTAGGAGCTTTTTTTAGC-AATTTT-CTGACAGTGCAT-CTG
131 TACTGTAGAAAAAGAGCGTCCACATAGGAGCTTTTTTCA-CTAATTTTGCTGACAGTGCATCCTG
* * * * * *
47418734 CTTGAAGCATTTTTTACACTATTTGTTCAGAACCATCTTGTCAAAATTATTTTTTCAA
195 CTTGAAGCGTTTTTGACACTATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTTCAG
* * * *
47418792 GAATTACTGTAGAAAAAAAGTGTCCACATGGGAGCTTTTTT-AGTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCACTAATTTTGCTGACAGTGCATC
* * *
47418856 CTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTTTTCTCAAAATTATTTTCTCAGGAAC
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGGAAC
*
47418921 TACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCACTAATTTTGCTGACAGTGCATCCTGC
131 TACTGTAGAAAAAGAGCGTCCACATAGGAGCTTTTTTCACTAATTTTGCTGACAGTGCATCCTGC
* * * *
47418986 TTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTTTTCTCAAAATTATTTTCTCAG
196 TTGAAGCGTTTTTGACACTATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTTCAG
47419043 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCACTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCACTAATTTTGCTGACAGTGCATC
* * *
47419108 CTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTTTTCTCAAAATTATTTTCTCAGGAAC
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGGAAC
*
47419173 TACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCACTAATTTTGCTGACAGTGCATCCTGC
131 TACTGTAGAAAAAGAGCGTCCACATAGGAGCTTTTTTCACTAATTTTGCTGACAGTGCATCCTGC
* * *
47419238 TTGAAGCGTTTTTGACATTATTTGTTCAAAATCGTCTTCTCAAAATTATTTTTTCAA
196 TTGAAGCGTTTTTGACACTATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTTCAG
47419295 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCACTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCACTAATTTTGCTGACAGTGCATC
* * * *
47419360 CTGCTTGAAGCGTTTTTGACATTATTTGTTCAAAATCGTCTTCTCAAAATTATTTTTTCAAGAAC
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGGAAC
* * * * * *
47419425 TACTGTAGAAAAAGAGCGTTCGCGTAGGAGCTTTTTTCAGTAATTTT-ATGATAGTGCATCCTGC
131 TACTGTAGAAAAAGAGCGTCCACATAGGAGCTTTTTTCACTAATTTTGCTGACAGTGCATCCTGC
* * * *
47419489 TTGAAGCATTTTTGACACTATTTTTTTAGAATCGTCTTCTCAAAATTATTTTTTTAG
196 TTGAAGCGTTTTTGACACTATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTTCAG
* * *
47419546 GAACTACTGTAGAAAAATAGCGTCCACATGAGAGCTTTTTTCACTAATTTTGCTGACAATGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCACTAATTTTGCTGACAGTGCATC
*
47419611 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTT-AGGAAC
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGGAAC
* *
47419675 TACTGTAGAAAAATAGCGTCCACAT-GAGAGCTTTTTTCACTAATTTTGCTGACAATGCATCCTG
131 TACTGTAGAAAAAGAGCGTCCACATAG-GAGCTTTTTTCACTAATTTTGCTGACAGTGCATCCTG
47419739 CTTGAAGCGTTTTTGACACTATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTT-AG
195 CTTGAAGCGTTTTTGACACTATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTTCAG
* * *
47419796 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTTACATAATTTTGCTGACAATGCAT
1 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAC-TAATTTTGCTGACAGTGCAT
* *
47419861 CCTACTTGAAGCGTTTTTGACATTACCTTT-TT-AGAACCGTCTTCTCAAAATTATTTTTTCAGG
65 CCTGCTTGAAGCGTTTTTGACACTA--TTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGG
47419924 AACTACTGTAGAAAAA
128 AACTACTGTAGAAAAA
47419940 ACAATTTTTT
Statistics
Matches: 1055, Mismatches: 83, Indels: 17
0.91 0.07 0.01
Matches are distributed among these distances:
248 1 0.00
249 156 0.15
250 99 0.09
251 408 0.39
252 388 0.37
253 3 0.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (252 bp):
GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCACTAATTTTGCTGACAGTGCATC
CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGGAAC
TACTGTAGAAAAAGAGCGTCCACATAGGAGCTTTTTTCACTAATTTTGCTGACAGTGCATCCTGC
TTGAAGCGTTTTTGACACTATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTTCAG
Found at i:47420088 original size:33 final size:35
Alignment explanation
Indices: 47420012--47420100 Score: 114
Period size: 33 Copynumber: 2.6 Consensus size: 35
47420002 TTTAAAAAAT
*
47420012 AAACCATAATTTAATTAATTT-TCTTAAAAACCCTA
1 AAACC-TAATTTAATTAATTTATCTTAAAAACCCAA
47420047 AAACCTAATTTAATT-ATTTAT-TT-AAAACCCAAA
1 AAACCTAATTTAATTAATTTATCTTAAAAACCC-AA
*
47420080 AAATCTAATTTAATTAATTTA
1 AAACCTAATTTAATTAATTTA
47420101 AAAAAAAAAC
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
32 7 0.14
33 21 0.43
34 16 0.33
35 5 0.10
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.39
Consensus pattern (35 bp):
AAACCTAATTTAATTAATTTATCTTAAAAACCCAA
Found at i:47420914 original size:17 final size:18
Alignment explanation
Indices: 47420892--47420926 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
47420882 TAAATATGGA
47420892 AAAAATAAG-AATCAATG
1 AAAAATAAGAAATCAATG
*
47420909 AAAAATGAGAAATCAATG
1 AAAAATAAGAAATCAATG
47420927 TTATCGTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.63, C:0.06, G:0.14, T:0.17
Consensus pattern (18 bp):
AAAAATAAGAAATCAATG
Found at i:47422383 original size:19 final size:18
Alignment explanation
Indices: 47422349--47422399 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
47422339 AACGATAAAA
47422349 ATAAATTTTAGAAAAAT-T
1 ATAAATTTTA-AAAAATAT
47422367 ATTAAATTTTAATAAAATAT
1 A-TAAATTTTAA-AAAATAT
*
47422387 AAAAATTTTAAAA
1 ATAAATTTTAAAA
47422400 TTTAATAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 4 0.14
19 23 0.79
20 2 0.07
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (18 bp):
ATAAATTTTAAAAAATAT
Found at i:47422407 original size:19 final size:19
Alignment explanation
Indices: 47422385--47422476 Score: 62
Period size: 19 Copynumber: 4.8 Consensus size: 19
47422375 TTAATAAAAT
*
47422385 ATAAAAATTTTAAAATTTA
1 ATAAAAATTATAAAATTTA
* *
47422404 ATAAAAATTAGAAATTATTTT
1 ATAAAAATTATAAA--ATTTA
** *
47422425 ATAAAAATCGTAAAA--AA
1 ATAAAAATTATAAAATTTA
* *
47422442 ATAAAAAATTCTAAAATTTT
1 AT-AAAAATTATAAAATTTA
*
47422462 ATAAAAATCATAAAA
1 ATAAAAATTATAAAA
47422477 AAATTAACAA
Statistics
Matches: 54, Mismatches: 14, Indels: 10
0.69 0.18 0.13
Matches are distributed among these distances:
17 2 0.04
18 11 0.20
19 24 0.44
20 2 0.04
21 15 0.28
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (19 bp):
ATAAAAATTATAAAATTTA
Found at i:47422418 original size:26 final size:27
Alignment explanation
Indices: 47422360--47422422 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 27
47422350 TAAATTTTAG
*
47422360 AAAAATTATTAAATTTTAATAAAATAT
1 AAAAATTATTAAAATTTAATAAAATAT
47422387 AAAAATT-TTAAAATTTAATAAAA-ATT
1 AAAAATTATTAAAATTTAATAAAATA-T
*
47422413 AGAAATTATT
1 AAAAATTATT
47422423 TTATAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 1 0.03
26 22 0.69
27 9 0.28
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (27 bp):
AAAAATTATTAAAATTTAATAAAATAT
Found at i:47422445 original size:38 final size:37
Alignment explanation
Indices: 47422406--47422480 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
47422396 AAAATTTAAT
*
47422406 AAAAATTAGAAATTATTTTATAAAAATCGTAAAAAAATA
1 AAAAATTAGAAA--ATTTTATAAAAATCATAAAAAAATA
**
47422445 AAAAATTCTAAAATTTTATAAAAATCATAAAAAAAT
1 AAAAATTAGAAAATTTTATAAAAATCATAAAAAAAT
47422481 TAACAACCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 23 0.70
39 10 0.30
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.31
Consensus pattern (37 bp):
AAAAATTAGAAAATTTTATAAAAATCATAAAAAAATA
Found at i:47422682 original size:47 final size:46
Alignment explanation
Indices: 47422631--47422758 Score: 127
Period size: 47 Copynumber: 2.7 Consensus size: 46
47422621 TTTTTTTACG
47422631 AAATTTATAGTTCTTTATATTTTTTATAATTTTCTTATGA-CTTTATA
1 AAATTTATAGTT-TTTATATTTTTTATAATTTT-TTATGATCTTTATA
* * * * *
47422678 AAATTTTATAATTTTTTTATATTTCTAT-ATATTTTATGATTTTTATA
1 AAA-TTTATAGTTTTTATAT-TTTTTATAATTTTTTATGATCTTTATA
*
47422725 AAATTT-TACGATTTTTATATTTTTTCTAATTTTT
1 AAATTTATA-G-TTTTTATATTTTTTATAATTTTT
47422759 AATAAATTTT
Statistics
Matches: 65, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
45 2 0.03
46 14 0.22
47 35 0.54
48 14 0.22
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (46 bp):
AAATTTATAGTTTTTATATTTTTTATAATTTTTTATGATCTTTATA
Found at i:47422701 original size:18 final size:18
Alignment explanation
Indices: 47422680--47422747 Score: 52
Period size: 19 Copynumber: 3.7 Consensus size: 18
47422670 ACTTTATAAA
* *
47422680 ATTTTATAATTTTTTTAT
1 ATTTTATAATTTTATGAT
47422698 ATTTCTATATATTTTATGAT
1 ATTT-TATA-ATTTTATGAT
*
47422718 -TTTTATAAAATTTTACGAT
1 ATTTTAT--AATTTTATGAT
47422737 -TTTTAT-ATTTT
1 ATTTTATAATTTT
47422748 TTCTAATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
16 5 0.12
18 7 0.16
19 22 0.51
20 9 0.21
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (18 bp):
ATTTTATAATTTTATGAT
Found at i:47422706 original size:29 final size:28
Alignment explanation
Indices: 47422643--47422721 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
47422633 ATTTATAGTT
** *
47422643 CTTTATATTTTTTATAATTTTCTTATGA
1 CTTTATAAATTTTATAATTTTTTTATGA
47422671 CTTTATAAAATTTTATAATTTTTTTAT-A
1 CTTTAT-AAATTTTATAATTTTTTTATGA
* * *
47422699 TTTCTATATATTTTATGATTTTT
1 CTT-TATAAATTTTATAATTTTT
47422722 ATAAAATTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
28 23 0.53
29 20 0.47
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.65
Consensus pattern (28 bp):
CTTTATAAATTTTATAATTTTTTTATGA
Found at i:47422744 original size:37 final size:38
Alignment explanation
Indices: 47422698--47422770 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
47422688 ATTTTTTTAT
*
47422698 ATTTCTATATATTTTATGATTTTT-ATAAAATTTTACG
1 ATTTCTATATATTTTATAATTTTTAATAAAATTTTACG
* * * *
47422735 ATTTTTATATTTTTTCTAATTTTTAATAAATTTTTA
1 ATTTCTATATATTTTATAATTTTTAATAAAATTTTA
47422771 ATATTTGAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 20 0.67
38 10 0.33
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.62
Consensus pattern (38 bp):
ATTTCTATATATTTTATAATTTTTAATAAAATTTTACG
Found at i:47422749 original size:9 final size:9
Alignment explanation
Indices: 47422634--47422840 Score: 73
Period size: 9 Copynumber: 22.4 Consensus size: 9
47422624 TTTTACGAAA
*
47422634 TTTATAGTT
1 TTTATAATT
*
47422643 CTTTATATTT
1 -TTTATAATT
47422653 TTTATAATTT
1 TTTATAA-TT
* *
47422663 TCTTATGA-C
1 T-TTATAATT
*
47422672 TTTATAAAAT
1 TTTAT-AATT
47422682 TTTATAATT
1 TTTATAATT
*
47422691 TTTTTATATT
1 TTTATA-ATT
*
47422701 TCTAT-ATAT
1 TTTATAAT-T
*
47422710 TTTATGATT
1 TTTATAATT
*
47422719 TTTATAAAAT
1 TTTAT-AATT
**
47422729 TTTACGATT
1 TTTATAATT
*
47422738 TTTATATTT
1 TTTATAATT
*
47422747 TTTCTAATT
1 TTTATAATT
*
47422756 TTTAATAAAT
1 TTT-ATAATT
*
47422766 TTT-TAATA
1 TTTATAATT
*
47422774 TTT-GAATT
1 TTTATAATT
*
47422782 TTTATTAAAAT
1 TTTA-T-AATT
* *
47422793 TTAATAATA
1 TTTATAATT
**
47422802 TTTATAGCT
1 TTTATAATT
**
47422811 TTTATAGCT
1 TTTATAATT
*
47422820 TTTA-ATTT
1 TTTATAATT
47422828 TTTATAATT
1 TTTATAATT
47422837 TTTA
1 TTTA
47422841 ATAAATGCAG
Statistics
Matches: 145, Mismatches: 39, Indels: 27
0.69 0.18 0.13
Matches are distributed among these distances:
8 24 0.17
9 72 0.50
10 38 0.26
11 11 0.08
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.61
Consensus pattern (9 bp):
TTTATAATT
Found at i:47422781 original size:26 final size:28
Alignment explanation
Indices: 47422752--47422804 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
47422742 TATTTTTTCT
*
47422752 AATTTTTAAT-AAATTT-TTAATATTTG
1 AATTTTTAATAAAATTTAATAATATTTG
*
47422778 AATTTTTATTAAAATTTAATAATATTT
1 AATTTTTAATAAAATTTAATAATATTT
47422805 ATAGCTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 9 0.39
27 6 0.26
28 8 0.35
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (28 bp):
AATTTTTAATAAAATTTAATAATATTTG
Found at i:47423022 original size:105 final size:106
Alignment explanation
Indices: 47422876--47423070 Score: 286
Period size: 105 Copynumber: 1.8 Consensus size: 106
47422866 TCTTGAAAAA
* * **
47422876 GTTTGAGGGTCTTTTAGATGGATTTTAAAAGTTCAAGTACCCAATTGAGTGCAAAAA-AAAGTAG
1 GTTTGAGGGTCTTTTAGATGGATTTTAAAAGTTCAAGTACCCAAATGAGTACAAAAATAAAACAG
* * *
47422940 GGGCTTAATTGCTTTTTTTTAAAAAAAAAAAAAAGAAGAAG
66 GAGCTTAATTGCTTATTTTGAAAAAAAAAAAAAAGAAGAAG
* *
47422981 GTTTGAGGGTCCTTTT-GATGTATTTTGAAAGTTCAAGTACCCAAATGAGTACAAAAATAAAACA
1 GTTTGAGGGT-CTTTTAGATGGATTTTAAAAGTTCAAGTACCCAAATGAGTACAAAAATAAAACA
47423045 GGAGCTTAATTGCTTATTTTGAAAAA
65 GGAGCTTAATTGCTTATTTTGAAAAA
47423071 GTTTGAGGGC
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
105 47 0.59
106 32 0.41
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (106 bp):
GTTTGAGGGTCTTTTAGATGGATTTTAAAAGTTCAAGTACCCAAATGAGTACAAAAATAAAACAG
GAGCTTAATTGCTTATTTTGAAAAAAAAAAAAAAGAAGAAG
Found at i:47423484 original size:9 final size:9
Alignment explanation
Indices: 47423470--47423499 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
47423460 TATAAAAAGG
47423470 TTTTAAAAT
1 TTTTAAAAT
47423479 TTTTAAAA-
1 TTTTAAAAT
47423487 TTTTAAAAT
1 TTTTAAAAT
47423496 TTTT
1 TTTT
47423500 TATTAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:47423642 original size:16 final size:14
Alignment explanation
Indices: 47423609--47423643 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
47423599 CTTAATAAAA
47423609 AATTTATATTTTAT
1 AATTTATATTTTAT
47423623 AATTTATAATTTTCAT
1 AATTTAT-ATTTT-AT
47423639 AATTT
1 AATTT
47423644 TTTTATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.37
15 5 0.26
16 7 0.37
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (14 bp):
AATTTATATTTTAT
Found at i:47424700 original size:19 final size:18
Alignment explanation
Indices: 47424678--47424729 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
47424668 CGTTTATTGC
47424678 TATTTTTACAAATTAAATA
1 TATTTTTA-AAATTAAATA
*
47424697 TATTATTAAAATTTAAATA
1 TATTTTTAAAA-TTAAATA
* *
47424716 GATATTTAAAATTA
1 TATTTTTAAAATTA
47424730 TAAATAATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
18 6 0.21
19 22 0.79
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (18 bp):
TATTTTTAAAATTAAATA
Found at i:47428877 original size:5 final size:5
Alignment explanation
Indices: 47428864--47428898 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
47428854 TAAAAGAGGG
*
47428864 AAAAA AAAAC AAAAC AAAAAC AAAAC AAAAC AAAA
1 AAAAC AAAAC AAAAC -AAAAC AAAAC AAAAC AAAA
47428899 AAACTAGCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:47428888 original size:16 final size:15
Alignment explanation
Indices: 47428864--47428901 Score: 67
Period size: 16 Copynumber: 2.5 Consensus size: 15
47428854 TAAAAGAGGG
47428864 AAAAAAAAACAAAAC
1 AAAAAAAAACAAAAC
47428879 AAAAACAAAACAAAAC
1 AAAAA-AAAACAAAAC
47428895 AAAAAAA
1 AAAAAAA
47428902 CTAGCTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAAAACAAAAC
Found at i:47432331 original size:16 final size:16
Alignment explanation
Indices: 47432293--47432331 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
47432283 ATTGTTTTAA
*
47432293 TATTAAAGATTAAATAT
1 TATT-AAGATTAAATAC
*
47432310 TTTTAAGATTAAATAC
1 TATTAAGATTAAATAC
47432326 TATTAA
1 TATTAA
47432332 TATAACCAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.44
Consensus pattern (16 bp):
TATTAAGATTAAATAC
Found at i:47435699 original size:6 final size:6
Alignment explanation
Indices: 47435684--47435729 Score: 65
Period size: 6 Copynumber: 7.5 Consensus size: 6
47435674 ACACTTGTTT
* *
47435684 ATATATA ATAATA ATATTA TTATTA ATATTA ATATTA ATATTA ATA
1 ATAT-TA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATA
47435730 GAGTTAAGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
6 32 0.91
7 3 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATATTA
Found at i:47436876 original size:20 final size:20
Alignment explanation
Indices: 47436843--47436893 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
47436833 TTCGGGGTTC
*
47436843 ATTTTGAAACAAAACA-GAAA
1 ATTTTGAAA-AAAAAATGAAA
47436863 ATTTTGAAAAAAAAATTGAAA
1 ATTTTGAAAAAAAAA-TGAAA
47436884 ATTTT-AAAAA
1 ATTTTGAAAAA
47436894 TAAGGGTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 5 0.18
20 14 0.50
21 9 0.32
ACGTcount: A:0.61, C:0.04, G:0.08, T:0.27
Consensus pattern (20 bp):
ATTTTGAAAAAAAAATGAAA
Found at i:47438979 original size:10 final size:10
Alignment explanation
Indices: 47438964--47438990 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
47438954 CAACTTAATC
47438964 TTTTTTTTCT
1 TTTTTTTTCT
47438974 TTTTTTTTCT
1 TTTTTTTTCT
47438984 TTTTTTT
1 TTTTTTT
47438991 GTGCATGGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:47443830 original size:24 final size:24
Alignment explanation
Indices: 47443803--47443876 Score: 87
Period size: 24 Copynumber: 3.0 Consensus size: 24
47443793 TTTCGGGTAT
*
47443803 AGTGCTCTTCGGAGCTTCCCGTTA
1 AGTGCTTTTCGGAGCTTCCCGTTA
* *
47443827 AGTGCTTTTCAGAGCTACCCGTTAA
1 AGTGCTTTTCGGAGCTTCCCGTT-A
*
47443852 AG-GCTTTTTGTGAGCTTCCCGTTA
1 AGTGCTTTTCG-GAGCTTCCCGTTA
47443876 A
1 A
47443877 TAAGCCTAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
24 28 0.67
25 14 0.33
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (24 bp):
AGTGCTTTTCGGAGCTTCCCGTTA
Found at i:47454859 original size:23 final size:23
Alignment explanation
Indices: 47454831--47454874 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
47454821 CTTTCTTACT
* *
47454831 GTAGTAATTTTCGGGGTATTATA
1 GTAGTAATTTTCAGGATATTATA
47454854 GTAGTAATTTTCAGGATATTA
1 GTAGTAATTTTCAGGATATTA
47454875 CATTTCTCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.23, T:0.43
Consensus pattern (23 bp):
GTAGTAATTTTCAGGATATTATA
Found at i:47456497 original size:50 final size:50
Alignment explanation
Indices: 47456418--47456693 Score: 383
Period size: 50 Copynumber: 5.5 Consensus size: 50
47456408 AATGCCATAC
* * ** * * ***
47456418 CCCAGATATGGTCTTATATGGGAGTTCTCATATTGGTGCCCGTGCCATGT
1 CCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGT
** *
47456468 CCCAGACATGGAT-TTACGGGGGACCTCTCATCTCGGTGCCAACACCATGT
1 CCCAGACATGG-TCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGT
47456518 CCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGT
1 CCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGT
* * *
47456568 CACAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAATGCCATGT
1 CCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGT
*
47456618 CCCAGACATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGT
1 CCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGT
*
47456668 CCTAGACATGGTCTTACATGGGACCT
1 CCCAGACATGGTCTTACATGGGACCT
47456694 TTTATAATCT
Statistics
Matches: 200, Mismatches: 24, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
49 1 0.00
50 198 0.99
51 1 0.00
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
CCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGT
Found at i:47456772 original size:106 final size:98
Alignment explanation
Indices: 47456462--47456741 Score: 312
Period size: 100 Copynumber: 2.8 Consensus size: 98
47456452 GGTGCCCGTG
* ** * * * **
47456462 CCATGTCCCAGACATGGAT-TTACGGGGGACCTCTCATCTCGGTGCCAACACCATGTCCCAGACA
1 CCATGTCACAGACATGG-TCTTACATGGGACCTATAATCTCAGTGCCAATGCCATGTCCCAGACA
* *
47456526 TGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
65 TGGTCTTACATGAGA-CTCACATCTCGGTGCCAAC
* *
47456561 GCCATGTCACAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAATGCCATGTCCCAGACA
1 -CCATGTCACAGACATGGTCTTACATGGGACCTATAATCTCAGTGCCAATGCCATGTCCCAGACA
*
47456626 TGGTCTTACATGAGACCTCTCATCTCGGTGCCAAC
65 TGGTCTTACATGAGA-CTCACATCTCGGTGCCAAC
47456661 GCCATGTC-CTAGACATGGTCTTACATGGGACCTTTTATAATCTCAATGATGCCAATGCCATGTC
1 -CCATGTCAC-AGACATGGTCTTACATGGGACC---TATAATCTC-A-G-TGCCAATGCCATGTC
*
47456725 CCATACATGGTCTTACA
58 CCAGACATGGTCTTACA
47456742 CTGGCTCACA
Statistics
Matches: 162, Mismatches: 10, Indels: 10
0.89 0.05 0.05
Matches are distributed among these distances:
99 2 0.01
100 120 0.74
103 7 0.04
104 1 0.01
105 1 0.01
106 31 0.19
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (98 bp):
CCATGTCACAGACATGGTCTTACATGGGACCTATAATCTCAGTGCCAATGCCATGTCCCAGACAT
GGTCTTACATGAGACTCACATCTCGGTGCCAAC
Found at i:47467146 original size:23 final size:22
Alignment explanation
Indices: 47467119--47467203 Score: 95
Period size: 21 Copynumber: 4.0 Consensus size: 22
47467109 GGCTTTGCCG
* *
47467119 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTCATGTGTCGT-T
*
47467142 ATCAGGCACCTCGTGTGTCG-T
1 ATCAGGCACCTCATGTGTCGTT
*
47467163 ATCAGGCACCTCGTGTGTCGTT
1 ATCAGGCACCTCATGTGTCGTT
*
47467185 -TCAGGCA-CTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
47467204 ATACTGATCA
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
20 10 0.18
21 28 0.50
22 1 0.02
23 17 0.30
ACGTcount: A:0.16, C:0.24, G:0.26, T:0.34
Consensus pattern (22 bp):
ATCAGGCACCTCATGTGTCGTT
Found at i:47467165 original size:21 final size:21
Alignment explanation
Indices: 47467132--47467205 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
47467122 AGGCACTTTA
47467132 TGTGTCGTATATCAGGCACCTCG
1 TGTGTCG--TATCAGGCACCTCG
47467155 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* **
47467176 TGTGTCGTTTCAGGCA-CTTA
1 TGTGTCGTATCAGGCACCTCG
47467196 TGTGTCGTAT
1 TGTGTCGTAT
47467206 ACTGATCAGG
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
20 11 0.23
21 29 0.62
23 7 0.15
ACGTcount: A:0.15, C:0.23, G:0.27, T:0.35
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:47474921 original size:32 final size:32
Alignment explanation
Indices: 47474885--47475041 Score: 82
Period size: 32 Copynumber: 5.2 Consensus size: 32
47474875 ATTTTCGCCA
47474885 TCATCGTACATGGTAAATATTGCTACATACAT
1 TCATCGTACATGGTAAATATTGCTACATACAT
** *** * **
47474917 TCATCCGT-TTTTCAAAATATT--TTC-GCCA-
1 TCAT-CGTACATGGTAAATATTGCTACATACAT
47474945 TCATCGTACATGGTAAATATTGCTACATACAT
1 TCATCGTACATGGTAAATATTGCTACATACAT
** *** * **
47474977 TCATCCGT-TTTTCAAAATATT--TTC-GCCA-
1 TCAT-CGTACATGGTAAATATTGCTACATACAT
47475005 TCATCGTACATGGTAAATATTGCTACATACAT
1 TCATCGTACATGGTAAATATTGCTACATACAT
47475037 TCATC
1 TCATC
47475042 TGTTTTTCAA
Statistics
Matches: 81, Mismatches: 32, Indels: 24
0.59 0.23 0.18
Matches are distributed among these distances:
27 6 0.07
28 24 0.30
29 4 0.05
30 8 0.10
31 4 0.05
32 29 0.36
33 6 0.07
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.38
Consensus pattern (32 bp):
TCATCGTACATGGTAAATATTGCTACATACAT
Found at i:47474966 original size:60 final size:60
Alignment explanation
Indices: 47474873--47475109 Score: 422
Period size: 60 Copynumber: 4.0 Consensus size: 60
47474863 TGTTAATATC
47474873 ATATTTTCGCCATCATCGTACATGGTAAATATTGCTACATACATTCATCCGTTTTTCAAA
1 ATATTTTCGCCATCATCGTACATGGTAAATATTGCTACATACATTCATCCGTTTTTCAAA
47474933 ATATTTTCGCCATCATCGTACATGGTAAATATTGCTACATACATTCATCCGTTTTTCAAA
1 ATATTTTCGCCATCATCGTACATGGTAAATATTGCTACATACATTCATCCGTTTTTCAAA
* *
47474993 ATATTTTCGCCATCATCGTACATGGTAAATATTGCTACATACATTCATCTGTTTTTCAAC
1 ATATTTTCGCCATCATCGTACATGGTAAATATTGCTACATACATTCATCCGTTTTTCAAA
* *
47475053 ATATTTTCGCCATCATCGTACATTGTAAATATTG-TCACATACATTCATCCATTTTTC
1 ATATTTTCGCCATCATCGTACATGGTAAATATTGCT-ACATACATTCATCCGTTTTTC
47475110 GGTGAAAACA
Statistics
Matches: 171, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
59 1 0.01
60 170 0.99
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (60 bp):
ATATTTTCGCCATCATCGTACATGGTAAATATTGCTACATACATTCATCCGTTTTTCAAA
Found at i:47478601 original size:216 final size:217
Alignment explanation
Indices: 47478192--47478614 Score: 663
Period size: 216 Copynumber: 1.9 Consensus size: 217
47478182 TCAGCTTTAA
* * *
47478192 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAAATATGATCTGCTTTTTGTAACTTTAGAGAG
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGACTAAATATGATCTGCTCTTTGCAACTTTAGAGAG
* **
47478257 ATAAGATCCAAGGTTTTAATCCACTCCACTTACAACTTCAGGAAGATAGGATTATCGGCTTTAAT
66 ATAAGATCCAAGGTTTTAATCCACTCCACTTA-AACTTCAGGAAGATAGGATTACCAACTTTAAT
* *
47478322 CTGTTCCACTGCAACTTCAGGGAGATAAGATTTTCCATCTTCAGTCTGCCTCACTGCAACTTCAG
130 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAG
47478387 GAGGATAAGACTTGCCCACTTAG
195 GAGGATAAGACTTGCCCACTTAG
* *
47478410 TCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGTGATCTGCTCTTTGCAACTTTAGAGAG
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGACTAAATATGATCTGCTCTTTGCAACTTTAGAGAG
* * * *
47478475 ATAGGATCTAAGGTTTTAATCCGCT-CACTGT-AACTTTAGCG-AGATAGGATTACCAACTTTAA
66 ATAAGATCCAAGGTTTTAATCCACTCCACT-TAAACTTCAG-GAAGATAGGATTACCAACTTTAA
47478537 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCA
129 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCA
*
47478602 GGTGGATAAGACT
194 GGAGGATAAGACT
47478615 AGATGCGATC
Statistics
Matches: 188, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
216 100 0.53
217 5 0.03
218 83 0.44
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (217 bp):
TCTGCTCCACTGCAACTTCAAGGAGATAAGACTAAATATGATCTGCTCTTTGCAACTTTAGAGAG
ATAAGATCCAAGGTTTTAATCCACTCCACTTAAACTTCAGGAAGATAGGATTACCAACTTTAATC
TGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGG
AGGATAAGACTTGCCCACTTAG
Found at i:47478612 original size:172 final size:171
Alignment explanation
Indices: 47478074--47478958 Score: 1008
Period size: 172 Copynumber: 5.1 Consensus size: 171
47478064 CCACTCCTGG
*
47478074 TGCAACTTCAGGGAGATAAGACTAAAT-TCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
1 TGCAACTTCAGGG-GATAAGACTAGATGT-GATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
* * *
47478138 AAGGTTTTAATCCACTCCACTGTAACTTCAG-GAAGATAGGATTATCAGCTTTAATCTGCTCCAC
64 AAGGTTTTAATCCGCT-CACTGCAACTTCAGCG-AGATAGGATTACCAGCTTTAATCTGCTCCAC
* ** * * ***
47478202 TGCAACTTCAGGGAGATAAGA-CT-AAAT-ATGA-TCTG-CTTTT
127 TGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCAC
* * * * * * * ** * * *
47478242 TGTAACTTTAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTTACAACTTCAG-GAAGATAG
1 TGCAACTTCAG-GGGATAAGA--CTA-GATGTGATCTGCT-CTC-TGCAACTTCAGAG-AGATAA
* * * * * * * * * *
47478306 GAT-TATCGGCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTTCCATCTTCAGTCTG
59 GATCTA-AGGTTTTAATCCGCT-CACTGCAACTTCAGCGAGATAGGA-TTACCAGCTTTAATCTG
*
47478370 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGCCCA-CTT-AGTCTG-CTCCAC
121 CTC-CACTGCAACTTCAGGGA-GATAAGATTTG-CCATCTTCAGTCTGCCT-CAC
* * * *
47478420 TGCAACTTCAAGGAGATAAGACTAGATGTGATCTGCTCTTTGCAACTTTAGAGAGATAGGATCTA
1 TGCAACTTC-AGGGGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTA
* * *
47478485 AGGTTTTAATCCGCTCACTGTAACTTTAGCGAGATAGGATTACCAACTTTAATCTGCTCCACTGC
65 AGGTTTTAATCCGCTCACTGCAACTTCAGCGAGATAGGATTACCAGCTTTAATCTGCTCCACTGC
47478550 AACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCAC
130 AACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCAC
*
47478592 TGCAACTTCAGGTGGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTA
1 TGCAACTTCAGG-GGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTA
* *
47478657 AGGTTTTAATCCGCTCACTGCAACTTCAACGAGATAGGATTACCGGCTTTAATCTGCTCCACTGC
65 AGGTTTTAATCCGCTCACTGCAACTTCAGCGAGATAGGATTACCAGCTTTAATCTGCTCCACTGC
*
47478722 AACTTTAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCAC
130 AACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCAC
* * *
47478764 TGCAACTTTAGGAGGATAAGACTAGATGCT-ATCTACTCTCTGCAACTTTAGAGAGATAAGATCT
1 TGCAACTTCAGG-GGATAAGACTAGATG-TGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
*
47478828 AAGGTTTTAATCCGCTCACTGCAACTTCAGCGAGATAGGATTACCGGCTTTAATCTGCTCCACTG
64 AAGGTTTTAATCCGCTCACTGCAACTTCAGCGAGATAGGATTACCAGCTTTAATCTGCTCCACTG
47478893 CAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCAC
129 CAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCAC
47478936 TGCAACTTCAGGAGGATAAGACT
1 TGCAACTTCAGG-GGATAAGACT
47478959 TGCCTACTTA
Statistics
Matches: 613, Mismatches: 75, Indels: 54
0.83 0.10 0.07
Matches are distributed among these distances:
168 16 0.03
169 1 0.00
170 5 0.01
171 49 0.08
172 382 0.62
173 84 0.14
174 38 0.06
175 9 0.01
176 3 0.00
177 8 0.01
178 16 0.03
179 2 0.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (171 bp):
TGCAACTTCAGGGGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAA
GGTTTTAATCCGCTCACTGCAACTTCAGCGAGATAGGATTACCAGCTTTAATCTGCTCCACTGCA
ACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCAC
Found at i:47478728 original size:216 final size:214
Alignment explanation
Indices: 47478192--47478784 Score: 583
Period size: 216 Copynumber: 2.7 Consensus size: 214
47478182 TCAGCTTTAA
* * * * * *** * *
47478192 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAAATATGATCTGCTTTTTGTAACTTTAGAGAG
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGTAATCCGCTCACTGCAACTTCAGAGAG
* * * * * * * **
47478257 ATAAGATCCAAGGTTTTAATCCACTCCACTTACAACTTCAG-GAAGATAGGATTATCGGCTTTAA
66 ATAGGATCTAAGGCTTTAATCCGCT-CAC-TGCAACTTTAGCG-AGATAGGATTACCAACTTTAA
* *
47478321 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTTCCATCTTCAGTCTGCCTCACTGCAACTTCA
128 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCA
* *
47478386 GGAGGATAAGACTTGCCCACTTAG
193 GGAGGATAAGACTAG--CACTGAG
* * ** *
47478410 TCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGTGATCTGCTCTTTGCAACTTTAGAGAG
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGTAATCCGCTCACTGCAACTTCAGAGAG
* *
47478475 ATAGGATCTAAGGTTTTAATCCGCTCACTGTAACTTTAGCGAGATAGGATTACCAACTTTAATCT
66 ATAGGATCTAAGGCTTTAATCCGCTCACTGCAACTTTAGCGAGATAGGATTACCAACTTTAATCT
*
47478540 GCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGT
131 GCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGA
*
47478605 GGATAAGACTAG-A-TGCG
196 GGATAAGACTAGCACTGAG
* * *
47478622 ATCTGCT-CTCTGCAACTTC-AGAGAGATAAGATCTAAGGTTTTAATCCGCTCACTGCAACTTCA
1 -TCTGCTCCACTGCAACTTCAAG-GAGATAAGA-CT-A-GATGTAATCCGCTCACTGCAACTTCA
* * * * * *
47478685 -ACGAGATAGGAT-TACCGGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCCAT
61 GA-GAGATAGGATCTA-AGGCTTTAATCCGCT-CACTGCAACTTTAGCGAGATAGGA-TTACCAA
* * *
47478748 CTTCAGTCTGC-CTCACTGCAACTTTA-GGAGGATAAGA
122 CTTTAATCTGCTC-CACTGCAACTTCAGGGA-GATAAGA
47478785 CTAGATGCTA
Statistics
Matches: 324, Mismatches: 39, Indels: 25
0.84 0.10 0.06
Matches are distributed among these distances:
211 2 0.01
212 22 0.07
213 9 0.03
214 4 0.01
215 41 0.13
216 127 0.39
217 37 0.11
218 82 0.25
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (214 bp):
TCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGTAATCCGCTCACTGCAACTTCAGAGAG
ATAGGATCTAAGGCTTTAATCCGCTCACTGCAACTTTAGCGAGATAGGATTACCAACTTTAATCT
GCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGA
GGATAAGACTAGCACTGAG
Found at i:47478998 original size:44 final size:45
Alignment explanation
Indices: 47478321--47479002 Score: 255
Period size: 45 Copynumber: 15.7 Consensus size: 45
47478311 TCGGCTTTAA
* * * *
47478321 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTTCCATCTTCAG
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGCCATCTTCAG
*
47478366 TCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCCCA-CTT-AG
1 TCTGCTC-CACTGCAACTTTAGGGA-GATAAGACTTG-CCATCTTCAG
* * * * *
47478410 TCTGCTCCACTGCAACTTCAAGGAGATAAGACTAG--AT-GTGA-
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGCCATCTTCAG
** * * * * * *
47478451 TCTGCT-CTTTGCAACTTTAGAGAGATAGGATCTAAG--GT-TTTAA
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGA-CT-TGCCATCTTCAG
* * * * * * * *
47478494 TCCGCT-CACTGTAACTTTAGCGAGATAGGA-TTACCAACTTTAA
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGCCATCTTCAG
* *
47478537 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAG
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGCCATCTTCAG
* * *
47478582 TCTGC-CTCACTGCAACTTCAGGTG-GATAAGACTAG--A--TGC-G
1 TCTGCTC-CACTGCAACTTTAGG-GAGATAAGACTTGCCATCTTCAG
* * * * * * *
47478622 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTAAG--GT-TTTAA
1 -TCTGCTCCACTGCAACTTTAGGGAGATAAGA-CT-TGCCATCTTCAG
* * ** * * ** * *
47478666 TCCGCT-CACTGCAACTTCAACGAGATAGGA-TTACCGGCTTTAA
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGCCATCTTCAG
*
47478709 TCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCCATCTTCAG
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGCCATCTTCAG
*
47478754 TCTGC-CTCACTGCAACTTTA-GGAGGATAAGACTAG--ATGC-T-A-
1 TCTGCTC-CACTGCAACTTTAGGGA-GATAAGACTTGCCAT-CTTCAG
* * * * * * *
47478795 TCTACT-CTCTGCAACTTTAGAGAGATAAGATCTAAG--GT-TTTAA
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGA-CT-TGCCATCTTCAG
* * * * * ** * *
47478838 TCCGCT-CACTGCAACTTCAGCGAGATAGGA-TTACCGGCTTTAA
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGCCATCTTCAG
* *
47478881 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAG
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGCCATCTTCAG
*
47478926 TCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCC-TACTT-AG
1 TCTGCTC-CACTGCAACTTTAGGGA-GATAAGACTTGCCAT-CTTCAG
* *
47478970 TCTGCTCCACTGGAACTTTTGGGAGATAAGACT
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGACT
47479003 CGATCTATTA
Statistics
Matches: 502, Mismatches: 86, Indels: 99
0.73 0.13 0.14
Matches are distributed among these distances:
39 1 0.00
40 58 0.12
41 31 0.06
42 15 0.03
43 109 0.22
44 133 0.26
45 151 0.30
46 4 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGCCATCTTCAG
Found at i:47481337 original size:26 final size:26
Alignment explanation
Indices: 47481308--47481359 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
47481298 ATCTAAGACA
47481308 TAGTCAATAGCTAGTCTCCTCAATGT
1 TAGTCAATAGCTAGTCTCCTCAATGT
47481334 TAGTCAATAGCTAGTCTCCTCAATGT
1 TAGTCAATAGCTAGTCTCCTCAATGT
47481360 CCTCTTATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (26 bp):
TAGTCAATAGCTAGTCTCCTCAATGT
Found at i:47491045 original size:2 final size:2
Alignment explanation
Indices: 47491038--47491062 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
47491028 CAAGCTTAAA
47491038 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
47491063 AAATAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:47495305 original size:21 final size:21
Alignment explanation
Indices: 47495281--47495336 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
47495271 AATAGCAATG
*
47495281 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
47495302 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
47495323 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
47495337 AACAATGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:47505067 original size:13 final size:13
Alignment explanation
Indices: 47505051--47505080 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
47505041 ATTGTCATGT
*
47505051 AATTGTTTTTCTG
1 AATTGATTTTCTG
47505064 AATTGATTTTCTG
1 AATTGATTTTCTG
47505077 AATT
1 AATT
47505081 TAGCTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.07, G:0.13, T:0.57
Consensus pattern (13 bp):
AATTGATTTTCTG
Found at i:47505860 original size:18 final size:17
Alignment explanation
Indices: 47505832--47505866 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
47505822 ATTATTAAAA
*
47505832 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
47505849 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
47505867 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:47506123 original size:16 final size:16
Alignment explanation
Indices: 47506102--47506169 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
47506092 GATTTGCTAT
47506102 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
47506118 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
47506134 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
47506150 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
47506166 TACA
1 TACA
47506170 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:47517514 original size:14 final size:15
Alignment explanation
Indices: 47517495--47517551 Score: 75
Period size: 14 Copynumber: 3.9 Consensus size: 15
47517485 TATCTTTGTC
47517495 TTTAAT-TTTAATAT
1 TTTAATATTTAATAT
47517509 TTTAATATTTAATA-
1 TTTAATATTTAATAT
47517523 TTTAATATTTAATAT
1 TTTAATATTTAATAT
*
47517538 TATTTAT-TTTAATA
1 T-TTAATATTTAATA
47517552 AAAAGGGTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
14 20 0.51
15 15 0.38
16 4 0.10
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTAATATTTAATAT
Found at i:47517545 original size:7 final size:7
Alignment explanation
Indices: 47517495--47517538 Score: 72
Period size: 7 Copynumber: 6.3 Consensus size: 7
47517485 TATCTTTGTC
47517495 TTTAAT-
1 TTTAATA
47517501 TTTAATA
1 TTTAATA
47517508 TTTTAATA
1 -TTTAATA
47517516 TTTAATA
1 TTTAATA
47517523 TTTAATA
1 TTTAATA
47517530 TTTAATA
1 TTTAATA
47517537 TT
1 TT
47517539 ATTTATTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.17
7 23 0.64
8 7 0.19
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TTTAATA
Found at i:47519725 original size:43 final size:43
Alignment explanation
Indices: 47519637--47519750 Score: 144
Period size: 43 Copynumber: 2.7 Consensus size: 43
47519627 TGAGATTACT
* *
47519637 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGACTTTG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGACTTTG
*
47519679 TGTAAGACCATGTCTGGGACATTGGCATCGATATGTGA-TTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGACTTT-G
* *
47519722 TGTAAGACCATGGCTAGG-CTATTGGCATC
1 TGTAAGACCATGTCTGGGAC-ATTGGCATC
47519751 AATACAAGAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
42 23 0.36
43 41 0.64
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGACTTTG
Found at i:47522051 original size:28 final size:28
Alignment explanation
Indices: 47522019--47522075 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
47522009 AGTAGTACAA
* *
47522019 TGTGGGCCTTAGCCCATTTCAGTAACAG
1 TGTGGGCCTTAGCCCAATACAGTAACAG
*
47522047 TGTGGGCCTTGGCCCAATACAGTAACAG
1 TGTGGGCCTTAGCCCAATACAGTAACAG
47522075 T
1 T
47522076 ACAATGCAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.26
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATACAGTAACAG
Found at i:47522186 original size:26 final size:26
Alignment explanation
Indices: 47522147--47522219 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
47522137 GATAAAATTG
* * *
47522147 GCAAAGCTGTCAGTAATAGTGATGCA
1 GCAAAGCTGCCAGTAATAGTAACGCA
* *
47522173 GCAACGCTGCCAGTAACAGTAACGCA
1 GCAAAGCTGCCAGTAATAGTAACGCA
*
47522199 GCAAAGCTGCCGGTAATAGTA
1 GCAAAGCTGCCAGTAATAGTA
47522220 TATGTGGCAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.18
Consensus pattern (26 bp):
GCAAAGCTGCCAGTAATAGTAACGCA
Found at i:47522453 original size:27 final size:27
Alignment explanation
Indices: 47522422--47522886 Score: 569
Period size: 27 Copynumber: 17.2 Consensus size: 27
47522412 TATTTCGATT
** *
47522422 ATTTTACCCTTCGAGGGTATTTTGGTT
1 ATTTTACCCTTCGAGGGTATTTCAGTC
* *
47522449 GTTTTACCCTT-TAGGGGTATTTCAGTC
1 ATTTTACCCTTCGA-GGGTATTTCAGTC
47522476 ATTTTACCCTTCGAGGGTATTTCAGTC
1 ATTTTACCCTTCGAGGGTATTTCAGTC
* * *
47522503 ATTTTACCTTTTGAGGGTATTTTAGTC
1 ATTTTACCCTTCGAGGGTATTTCAGTC
47522530 ATTTTACCCTTCGAGGGTATTTCAGTC
1 ATTTTACCCTTCGAGGGTATTTCAGTC
* *
47522557 ATTTTACCCTTTGAGGGTATTTTAGTC
1 ATTTTACCCTTCGAGGGTATTTCAGTC
*
47522584 ATTTTACCCTTTGAGGGTATTTC-GATC
1 ATTTTACCCTTCGAGGGTATTTCAG-TC
* * **
47522611 ATTTTACACTT-AAGGGGTATTTTGGTC
1 ATTTTACCCTTCGA-GGGTATTTCAGTC
* * * *
47522638 ATTTTACCTTTTGGGGGTGTTTCAGTC
1 ATTTTACCCTTCGAGGGTATTTCAGTC
47522665 ATTTTACCCTTCGAGGGTATTTCAGTC
1 ATTTTACCCTTCGAGGGTATTTCAGTC
* *
47522692 ATTTTACCCTTCAAGGGTATTTCGGTC
1 ATTTTACCCTTCGAGGGTATTTCAGTC
* * *
47522719 ATTTTACGCTTCGATGGTATTTTAGTC
1 ATTTTACCCTTCGAGGGTATTTCAGTC
* *
47522746 ATTTTACCCTTCAAAGGTATTTCAGTC
1 ATTTTACCCTTCGAGGGTATTTCAGTC
*
47522773 ATTTTACCCATCGAGGGTATTTCAGTC
1 ATTTTACCCTTCGAGGGTATTTCAGTC
*
47522800 ATTTTACCCTTCGAGGGTATAT-AGGTC
1 ATTTTACCCTTCGAGGGTATTTCA-GTC
* * **
47522827 ATTTTACCCTTCGATGGCATTTTGGTC
1 ATTTTACCCTTCGAGGGTATTTCAGTC
*
47522854 ATTTTACCCTTCGAGGGTATTTCGGTC
1 ATTTTACCCTTCGAGGGTATTTCAGTC
47522881 ATTTTA
1 ATTTTA
47522887 AGCCCATTAC
Statistics
Matches: 377, Mismatches: 53, Indels: 16
0.85 0.12 0.04
Matches are distributed among these distances:
26 4 0.01
27 371 0.98
28 2 0.01
ACGTcount: A:0.18, C:0.18, G:0.19, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCAGTC
Found at i:47529212 original size:14 final size:14
Alignment explanation
Indices: 47529193--47529220 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
47529183 TAAAGTTATA
47529193 TTTAATAATTCATT
1 TTTAATAATTCATT
47529207 TTTAATAATTCATT
1 TTTAATAATTCATT
47529221 AATAAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAATAATTCATT
Found at i:47539649 original size:14 final size:14
Alignment explanation
Indices: 47539630--47539657 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
47539620 TAAAGTTATA
47539630 TTTAATAATTCATT
1 TTTAATAATTCATT
47539644 TTTAATAATTCATT
1 TTTAATAATTCATT
47539658 AATAAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAATAATTCATT
Found at i:47545558 original size:43 final size:43
Alignment explanation
Indices: 47545419--47545566 Score: 158
Period size: 43 Copynumber: 3.5 Consensus size: 43
47545409 TAAGGTTACC
* *
47545419 GAGATTACGTGTAAGACCATATCTGGGATA-TGGCATCGATAT
1 GAGATTACGTGTAAGACCATGTCTGGGCTATTGGCATCGATAT
*
47545461 GAGACTT-CGTGTAAGACCATGTCTAGGAC-ATTGGCATCGATAT
1 GAGA-TTACGTGTAAGACCATGTCT-GGGCTATTGGCATCGATAT
* ** * * *
47545504 GTGATTTTGTGTAAGACCATGGCTGGGCTATTGGCATCAATAC
1 GAGATTACGTGTAAGACCATGTCTGGGCTATTGGCATCGATAT
* *
47545547 AAGATTATGTGTAAGACCAT
1 GAGATTACGTGTAAGACCAT
47545567 ATTTGGGATA
Statistics
Matches: 89, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
42 26 0.29
43 63 0.71
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (43 bp):
GAGATTACGTGTAAGACCATGTCTGGGCTATTGGCATCGATAT
Found at i:47550923 original size:18 final size:18
Alignment explanation
Indices: 47550875--47550923 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
47550865 TTTTGCTTTT
47550875 GCAT-AATAAAATAGCAA
1 GCATGAATAAAATAGCAA
* **
47550892 ACATGTTTAAAATAGCAA
1 GCATGAATAAAATAGCAA
*
47550910 GCATGAATAGAATA
1 GCATGAATAAAATA
47550924 AACTCAATGC
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.53, C:0.10, G:0.14, T:0.22
Consensus pattern (18 bp):
GCATGAATAAAATAGCAA
Found at i:47560653 original size:18 final size:18
Alignment explanation
Indices: 47560626--47560662 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
47560616 TCACGTTAGC
47560626 AATTAAATATTT-TTTTA
1 AATTAAATATTTATTTTA
47560643 AATTAAAATATTTATTTTA
1 AATT-AAATATTTATTTTA
47560662 A
1 A
47560663 TTTTATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 8 0.44
19 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AATTAAATATTTATTTTA
Found at i:47560664 original size:18 final size:17
Alignment explanation
Indices: 47560626--47560675 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
47560616 TCACGTTAGC
47560626 AATTAAATATTTTTTTA
1 AATTAAATATTTTTTTA
47560643 AATTAAAATATTTATTTT-
1 AATT-AAATATTT-TTTTA
**
47560661 AATTTTATATTTTTT
1 AATTAAATATTTTTT
47560676 AATAATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 3 0.10
17 10 0.34
18 12 0.41
19 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
AATTAAATATTTTTTTA
Found at i:47560681 original size:18 final size:19
Alignment explanation
Indices: 47560660--47560712 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 19
47560650 ATATTTATTT
*
47560660 TAATTTTATATTTTT-TAA
1 TAATTTTATATTTTTAAAA
*
47560678 TAA-TTTAAATTTTTAAAA
1 TAATTTTATATTTTTAAAA
47560696 TAATGTTTATAATTTTT
1 TAAT-TTTAT-ATTTTT
47560713 GTGAATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 10 0.36
18 8 0.29
20 4 0.14
21 6 0.21
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
TAATTTTATATTTTTAAAA
Found at i:47563518 original size:16 final size:15
Alignment explanation
Indices: 47563489--47563517 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
47563479 AAAATTTTCT
47563489 TTCACTTTATTTTTG
1 TTCACTTTATTTTTG
47563504 TTCACTTTATTTTT
1 TTCACTTTATTTTT
47563518 TCAATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.03, T:0.69
Consensus pattern (15 bp):
TTCACTTTATTTTTG
Found at i:47566246 original size:33 final size:33
Alignment explanation
Indices: 47566197--47566267 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
47566187 ATACTCAGTC
*
47566197 ACCCTTCCGAACACTTTTGCTAAATCAATCAAA
1 ACCCTTCCAAACACTTTTGCTAAATCAATCAAA
* * *
47566230 ACCCTTCCAAAGACTTTTTCTAAATCAATTAAA
1 ACCCTTCCAAACACTTTTGCTAAATCAATCAAA
47566263 ACCCT
1 ACCCT
47566268 AACTTCTTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.37, C:0.30, G:0.04, T:0.30
Consensus pattern (33 bp):
ACCCTTCCAAACACTTTTGCTAAATCAATCAAA
Found at i:47570729 original size:25 final size:26
Alignment explanation
Indices: 47570681--47570736 Score: 105
Period size: 25 Copynumber: 2.2 Consensus size: 26
47570671 AAATATTAGC
47570681 AAAAATTATTTATTAAAACTTTATA-
1 AAAAATTATTTATTAAAACTTTATAT
47570706 AAAAATTATTTATTAAAACTTTATAT
1 AAAAATTATTTATTAAAACTTTATAT
47570732 AAAAA
1 AAAAA
47570737 GAAATAGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 25 0.83
26 5 0.17
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (26 bp):
AAAAATTATTTATTAAAACTTTATAT
Found at i:47594065 original size:12 final size:13
Alignment explanation
Indices: 47594041--47594069 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
47594031 GGGCTATAAC
47594041 TATTGCATTTATT
1 TATTGCATTTATT
47594054 TATTGC-TTTATT
1 TATTGCATTTATT
47594066 TATT
1 TATT
47594070 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:47600354 original size:39 final size:40
Alignment explanation
Indices: 47600259--47600520 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
47600249 TTGAATGATG
*
47600259 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
47600297 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
47600338 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
47600377 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
47600416 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
47600455 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
47600494 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
47600521 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:47612959 original size:13 final size:14
Alignment explanation
Indices: 47612941--47612969 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
47612931 GTTACCCAGT
47612941 TATTTTTCT-TTTC
1 TATTTTTCTCTTTC
47612954 TATTTTTCTCTTTC
1 TATTTTTCTCTTTC
47612968 TA
1 TA
47612970 CTGAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.72
Consensus pattern (14 bp):
TATTTTTCTCTTTC
Found at i:47615347 original size:45 final size:44
Alignment explanation
Indices: 47615296--47615380 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 44
47615286 CTATGGATAT
**
47615296 ATTAGTATCGTTGAATCACATGACAT-GATAAACCAGAAGTTCTAC
1 ATTAGTATCGTCAAATCACATG-CATAG-TAAACCAGAAGTTCTAC
* *
47615341 ATTAGTATTGTCAAATCACGTGCATAGTAAACCAGAAGTT
1 ATTAGTATCGTCAAATCACATGCATAGTAAACCAGAAGTT
47615381 TACTAGTCCA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
44 16 0.46
45 19 0.54
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.29
Consensus pattern (44 bp):
ATTAGTATCGTCAAATCACATGCATAGTAAACCAGAAGTTCTAC
Found at i:47615719 original size:12 final size:12
Alignment explanation
Indices: 47615702--47615726 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47615692 AGTTGGTGAG
47615702 ATTATTTGTTTA
1 ATTATTTGTTTA
47615714 ATTATTTGTTTA
1 ATTATTTGTTTA
47615726 A
1 A
47615727 GAAAAAAAAA
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:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (12 bp):
ATTATTTGTTTA
Found at i:47621972 original size:20 final size:20
Alignment explanation
Indices: 47621922--47621972 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
47621912 TTTCTAACAG
47621922 TAAACCCTAAACCTAAACCC
1 TAAACCCTAAACCTAAACCC
* ** * *
47621942 CAAACTGTAAACCTATATCC
1 TAAACCCTAAACCTAAACCC
47621962 TAAACCCTAAA
1 TAAACCCTAAA
47621973 TATATATATT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.45, C:0.33, G:0.02, T:0.20
Consensus pattern (20 bp):
TAAACCCTAAACCTAAACCC
Found at i:47624811 original size:41 final size:41
Alignment explanation
Indices: 47624766--47624873 Score: 171
Period size: 41 Copynumber: 2.6 Consensus size: 41
47624756 TTACTTTTTT
*
47624766 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCACGATCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCACGACCTATA
* * *
47624807 GCGGCATTTTTCCAAGAGCGCCGCTAAAACCTCGACCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCACGACCTATA
*
47624848 GCAGCGTTTTTCCAAAAGCGCCGCTA
1 GCGGCGTTTTTCCAAAAGCGCCGCTA
47624874 TTGTTCAGTT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (41 bp):
GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCACGACCTATA
Found at i:47624904 original size:41 final size:41
Alignment explanation
Indices: 47624859--47624937 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
47624849 CAGCGTTTTT
* *
47624859 CCAAAAGCGCCGCTATTGTTCAGTTTTTAGCGGCGTTTGGA
1 CCAAAAACGCCGCTATTGCTCAGTTTTTAGCGGCGTTTGGA
47624900 CCAAAAACGCCGCTATTGCTCAGTTTTTAGCGGCGTTT
1 CCAAAAACGCCGCTATTGCTCAGTTTTTAGCGGCGTTT
47624938 TATTGCAAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (41 bp):
CCAAAAACGCCGCTATTGCTCAGTTTTTAGCGGCGTTTGGA
Found at i:47624999 original size:12 final size:12
Alignment explanation
Indices: 47624984--47625008 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47624974 TTTTTTGTTC
47624984 AAACGCCACTAA
1 AAACGCCACTAA
47624996 AAACGCCACTAA
1 AAACGCCACTAA
47625008 A
1 A
47625009 GCCCTATTTT
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:0.52, C:0.32, G:0.08, T:0.08
Consensus pattern (12 bp):
AAACGCCACTAA
Found at i:47625242 original size:20 final size:20
Alignment explanation
Indices: 47625204--47625251 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
47625194 TAAATTCTAA
* **
47625204 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
47625224 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
47625244 AAA-ATAAA
1 AAAGATAAA
47625252 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:47625348 original size:5 final size:5
Alignment explanation
Indices: 47625300--47625329 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
47625290 TAATTATCCT
47625300 AATATA AATAA AATAA AATAA AATAA AATA
1 AATA-A AATAA AATAA AATAA AATAA AATA
47625330 GAGTGTTCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AATAA
Found at i:47630676 original size:43 final size:43
Alignment explanation
Indices: 47630615--47630700 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
47630605 AAACCAAATC
47630615 TGCAATGTAAAATGTAATAGCGAGCATTCACCATCTCATCTAA
1 TGCAATGTAAAATGTAATAGCGAGCATTCACCATCTCATCTAA
47630658 TGCAATGTAAAATGTAATAGCGAGCATTCACCATCTCATCTAA
1 TGCAATGTAAAATGTAATAGCGAGCATTCACCATCTCATCTAA
47630701 CTTCAAACAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (43 bp):
TGCAATGTAAAATGTAATAGCGAGCATTCACCATCTCATCTAA
Found at i:47641087 original size:12 final size:13
Alignment explanation
Indices: 47641070--47641106 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
47641060 GAACCGGACA
47641070 CGAACCGAA-CTC
1 CGAACCGAAGCTC
47641082 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
47641094 CGAACCGTAGCTC
1 CGAACCGAAGCTC
47641107 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:47646772 original size:101 final size:101
Alignment explanation
Indices: 47646639--47646836 Score: 279
Period size: 101 Copynumber: 2.0 Consensus size: 101
47646629 GGTTACAATC
* *
47646639 TTAAATCAGCTAACACAAATAAAAATTATTCATGATTTTAAATCTAATGAACTTAGGTTGCAATC
1 TTAAATCAGCTAACACAAATAAAAATTATTCATGATCTTAAATCAAATGAACTTAGGTTGCAATC
**
47646704 TTAAATCAGTAAACGTTAATAACATCAGTTGCGATT
66 TTAAATCAACAAACGTTAATAACATCAGTTGCGATT
* * * * * *
47646740 TTAAATCTGCTAACTCAAATAAAAATTGTTCATGATCTTAAATCAAATGAACTTAGTTTTCGATC
1 TTAAATCAGCTAACACAAATAAAAATTATTCATGATCTTAAATCAAATGAACTTAGGTTGCAATC
* * *
47646805 TTAAATCAACAAACTTTAATAATATCATTTGC
66 TTAAATCAACAAACGTTAATAACATCAGTTGC
47646837 AAGCTTAAAT
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 84 1.00
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (101 bp):
TTAAATCAGCTAACACAAATAAAAATTATTCATGATCTTAAATCAAATGAACTTAGGTTGCAATC
TTAAATCAACAAACGTTAATAACATCAGTTGCGATT
Done.