Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 262 of 362
Found at i:88435918 original size:17 final size:20
Alignment explanation
Indices: 88435876--88435915 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
88435866 ATTTTATATT
88435876 TAAAATTATTTAAAAAAATA
1 TAAAATTATTTAAAAAAATA
*
88435896 TAAAATTATTTAAAATAATA
1 TAAAATTATTTAAAAAAATA
88435916 AATAATCACG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAAATTATTTAAAAAAATA
Found at i:88436006 original size:20 final size:19
Alignment explanation
Indices: 88435943--88436044 Score: 63
Period size: 18 Copynumber: 5.5 Consensus size: 19
88435933 ATAAAATTAA
88435943 TAAAAA-ATAAAAAAATTT
1 TAAAAATATAAAAAAATTT
* *
88435961 GCAAAATTTATGAAAAAAA-TT
1 -TAAAA-ATAT-AAAAAAATTT
88435982 T-AAAATATAAAAAAATTAT
1 TAAAAATATAAAAAAATT-T
* * *
88436001 TAAAAATAT--AGAAAGTG
1 TAAAAATATAAAAAAATTT
* *
88436018 CAAAAATAT-AGAAAATTT
1 TAAAAATATAAAAAAATTT
88436036 TAAAAATAT
1 TAAAAATAT
88436045 TATTACAAAT
Statistics
Matches: 63, Mismatches: 13, Indels: 15
0.69 0.14 0.16
Matches are distributed among these distances:
17 15 0.24
18 21 0.33
19 9 0.14
20 7 0.11
21 4 0.06
22 7 0.11
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (19 bp):
TAAAAATATAAAAAAATTT
Found at i:88436040 original size:17 final size:17
Alignment explanation
Indices: 88435975--88436040 Score: 51
Period size: 17 Copynumber: 3.7 Consensus size: 17
88435965 AATTTATGAA
* *
88435975 AAAAATTTAAAATATAAA
1 AAAATTTTAAAATAT-AG
88435993 AAAATTATTAAAAATATAG
1 AAAATT-TT-AAAATATAG
* ***
88436012 AAAGTGCAAAAATATAG
1 AAAATTTTAAAATATAG
88436029 AAAATTTTAAAA
1 AAAATTTTAAAA
88436041 ATATTATTAC
Statistics
Matches: 36, Mismatches: 10, Indels: 5
0.71 0.20 0.10
Matches are distributed among these distances:
17 17 0.47
18 5 0.14
19 7 0.19
20 7 0.19
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (17 bp):
AAAATTTTAAAATATAG
Found at i:88436075 original size:21 final size:21
Alignment explanation
Indices: 88436018--88436077 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
88436008 ATAGAAAGTG
*
88436018 CAAAAAT-ATAGAAAATT-TT
1 CAAAAATAATATAAAATTATT
*
88436037 -AAAAATATTATTACAAATTATT
1 CAAAAATAATA-TA-AAATTATT
88436059 CAAAAATAATATAAAATTA
1 CAAAAATAATATAAAATTA
88436078 AAAATAAAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
18 6 0.18
19 2 0.06
20 1 0.03
21 11 0.33
22 4 0.12
23 9 0.27
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (21 bp):
CAAAAATAATATAAAATTATT
Found at i:88436414 original size:10 final size:10
Alignment explanation
Indices: 88436396--88436458 Score: 51
Period size: 10 Copynumber: 6.4 Consensus size: 10
88436386 TAAGCGTCTA
*
88436396 ATAACATTTT
1 ATAATATTTT
88436406 ATAATATTTT
1 ATAATATTTT
*
88436416 -TAAAATTTTT
1 ATAATA-TTTT
88436426 ATAA-ATTTT
1 ATAATATTTT
*
88436435 TTAATAATTTT
1 ATAAT-ATTTT
*
88436446 -CAATATTTT
1 ATAATATTTT
88436455 ATAA
1 ATAA
88436459 AATCATAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
9 16 0.37
10 19 0.44
11 8 0.19
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (10 bp):
ATAATATTTT
Found at i:88436427 original size:20 final size:21
Alignment explanation
Indices: 88436402--88436445 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
88436392 TCTAATAACA
88436402 TTTTAT-AATATTTTTAA-AAT
1 TTTTATAAAT-TTTTTAATAAT
88436422 TTTTATAAATTTTTTAATAAT
1 TTTTATAAATTTTTTAATAAT
88436443 TTT
1 TTT
88436446 CAATATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTATAAATTTTTTAATAAT
Found at i:88436433 original size:29 final size:29
Alignment explanation
Indices: 88436396--88436459 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
88436386 TAAGCGTCTA
*
88436396 ATAACATTTTATAATATTTTTAAA-ATTTTT
1 ATAA-ATTTTATAATAATTTTAAATA-TTTT
* *
88436426 ATAAATTTTTTAATAATTTTCAATATTTT
1 ATAAATTTTATAATAATTTTAAATATTTT
88436455 ATAAA
1 ATAAA
88436460 ATCATAATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 25 0.83
30 5 0.17
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (29 bp):
ATAAATTTTATAATAATTTTAAATATTTT
Found at i:88437099 original size:29 final size:29
Alignment explanation
Indices: 88437066--88437131 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
88437056 ATTTTAGAAA
88437066 ATTTTTAAAATTTTAACTTTTTAATATAT
1 ATTTTTAAAATTTTAACTTTTTAATATAT
* * *
88437095 A-TTTTATAATTTTTAATTTTTTTATATAT
1 ATTTTTA-AAATTTTAACTTTTTAATATAT
88437124 -TTTTTAAA
1 ATTTTTAAA
88437132 TATAAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 7 0.22
29 25 0.78
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (29 bp):
ATTTTTAAAATTTTAACTTTTTAATATAT
Found at i:88437139 original size:27 final size:27
Alignment explanation
Indices: 88437090--88437158 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
88437080 AACTTTTTAA
* * *
88437090 TATATATTTTATAATTTTTAATTTTTT
1 TATATATTTTATAAATATAAATTTTTT
*
88437117 TATATATTTTTTAAATATAAA--TTTT
1 TATATATTTTATAAATATAAATTTTTT
88437142 TAT-T-TTTTATAAATATA
1 TATATATTTTATAAATATA
88437159 TTGAATTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 12 0.32
24 1 0.03
25 7 0.19
27 17 0.46
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (27 bp):
TATATATTTTATAAATATAAATTTTTT
Found at i:88437359 original size:18 final size:19
Alignment explanation
Indices: 88437322--88437359 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
88437312 AAATCGAGTT
*
88437322 ATTTGAGTAGACTCAAATA
1 ATTTGAATAGACTCAAATA
*
88437341 ATTTGAATA-ACTTAAATA
1 ATTTGAATAGACTCAAATA
88437359 A
1 A
88437360 CTCAATTCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (19 bp):
ATTTGAATAGACTCAAATA
Found at i:88438787 original size:13 final size:13
Alignment explanation
Indices: 88438769--88438793 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88438759 ATTAGCTTGA
88438769 ATGAAACATGTTC
1 ATGAAACATGTTC
88438782 ATGAAACATGTT
1 ATGAAACATGTT
88438794 TCTGGTTGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGAAACATGTTC
Found at i:88442077 original size:26 final size:26
Alignment explanation
Indices: 88442047--88442106 Score: 120
Period size: 26 Copynumber: 2.3 Consensus size: 26
88442037 TTCTTTTCGG
88442047 TCTAATTTCATTAAACATCCTCGACC
1 TCTAATTTCATTAAACATCCTCGACC
88442073 TCTAATTTCATTAAACATCCTCGACC
1 TCTAATTTCATTAAACATCCTCGACC
88442099 TCTAATTT
1 TCTAATTT
88442107 AAAATATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.30, C:0.28, G:0.03, T:0.38
Consensus pattern (26 bp):
TCTAATTTCATTAAACATCCTCGACC
Found at i:88451138 original size:38 final size:38
Alignment explanation
Indices: 88451079--88451257 Score: 205
Period size: 38 Copynumber: 4.7 Consensus size: 38
88451069 GATACAATTA
* * * *
88451079 CACCAGCACAAAGCCTACTAGGCACATAGCCCAAATAT
1 CACCGGCACAAAGCCTGCTAGGCACAAAGCCCGAATAT
* *
88451117 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGAATAT
1 CACCGGCACAAAGCCTGCTAGGCACAAAGCCCGAATAT
* * *
88451155 CAACGACACAAAGCCTGCTAGGCACAAAGCCCGAATAC
1 CACCGGCACAAAGCCTGCTAGGCACAAAGCCCGAATAT
** ** * *
88451193 CATTGGCACAAAATCTACTAGGCACAAAGCCTGAATAT
1 CACCGGCACAAAGCCTGCTAGGCACAAAGCCCGAATAT
* *
88451231 CACCAGTACAAAGCCTGCTAGGCACAA
1 CACCGGCACAAAGCCTGCTAGGCACAA
88451258 TGTAACATCC
Statistics
Matches: 115, Mismatches: 26, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 115 1.00
ACGTcount: A:0.38, C:0.31, G:0.17, T:0.14
Consensus pattern (38 bp):
CACCGGCACAAAGCCTGCTAGGCACAAAGCCCGAATAT
Found at i:88451186 original size:76 final size:76
Alignment explanation
Indices: 88451079--88451257 Score: 234
Period size: 76 Copynumber: 2.4 Consensus size: 76
88451069 GATACAATTA
* * * * * *
88451079 CACCAGCACAAAGCCTACTAGGCACATAGCCCAAATATCACCGGCACAAAGCCTGCTAGGCATAA
1 CACCAGCACAAAGCCTGCTAGGCACAAAGCCCAAATACCACCGGCACAAAACCTACTAGGCACAA
88451144 AGCCTGAATAT
66 AGCCTGAATAT
* * ** *
88451155 CAAC-GACACAAAGCCTGCTAGGCACAAAGCCCGAATACCATTGGCACAAAATCTACTAGGCACA
1 CACCAG-CACAAAGCCTGCTAGGCACAAAGCCCAAATACCACCGGCACAAAACCTACTAGGCACA
88451219 AAGCCTGAATAT
65 AAGCCTGAATAT
*
88451231 CACCAGTACAAAGCCTGCTAGGCACAA
1 CACCAGCACAAAGCCTGCTAGGCACAA
88451258 TGTAACATCC
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
75 1 0.01
76 86 0.98
77 1 0.01
ACGTcount: A:0.38, C:0.31, G:0.17, T:0.14
Consensus pattern (76 bp):
CACCAGCACAAAGCCTGCTAGGCACAAAGCCCAAATACCACCGGCACAAAACCTACTAGGCACAA
AGCCTGAATAT
Found at i:88452369 original size:17 final size:16
Alignment explanation
Indices: 88452329--88452370 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
88452319 TGAATGTTGT
88452329 ATTGTATG-TAATGTG
1 ATTGTATGTTAATGTG
88452344 ATT-TATGTTAATGTG
1 ATTGTATGTTAATGTG
*
88452359 CCTTGTATGTTA
1 -ATTGTATGTTA
88452371 TGATAGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 4 0.17
15 10 0.43
16 2 0.09
17 7 0.30
ACGTcount: A:0.24, C:0.05, G:0.21, T:0.50
Consensus pattern (16 bp):
ATTGTATGTTAATGTG
Found at i:88460827 original size:19 final size:19
Alignment explanation
Indices: 88460803--88460843 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
88460793 TCATATTGGA
88460803 AGAATGAATTTACCCGAAG
1 AGAATGAATTTACCCGAAG
88460822 AGAATGAATTTACCCGAAG
1 AGAATGAATTTACCCGAAG
88460841 AGA
1 AGA
88460844 TTAAGGATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.20
Consensus pattern (19 bp):
AGAATGAATTTACCCGAAG
Found at i:88464243 original size:142 final size:138
Alignment explanation
Indices: 88463977--88464245 Score: 316
Period size: 142 Copynumber: 1.9 Consensus size: 138
88463967 TTAGGTGATA
* * * * *
88463977 TGTGTTCTAGTGTAAGACATGTCTGAGACATGCATCGGCCATATTATGGGAGCCAGTGTAAGACA
1 TGTGTTCTAGTGTAAGACATGCCTGAGACATGCATCGACCATATGATGAGAGCCAGTGCAAGACA
88464042 TGTCTGGGAGATGCATCGACCTCGAGATATACAAGCTAGTGTAAAACCTGTCTGAGACATGGCGT
66 TGTCTGGGAGATGCATCGACCTCGAGATATACAAGCTAGTGTAAAACCTGTCTGAGACATGGCGT
88464107 TAGCTTGT
131 TAGCTTGT
*
88464115 TGTGTGTC-AGTGTAAGACCTGCCTGAGACATGGCATCGACACCGATA-GATGAGAGCCAGTGCA
1 TGTGT-TCTAGTGTAAGACATGCCTGAGACAT-GCATCG--ACC-ATATGATGAGAGCCAGTGCA
* * * *
88464178 AGACCTGTCTGGGATATGACATC-AGCCTCGATATATGA-AAG-TCAGTGTAAGACCTGTCT-AG
61 AGACATGTCTGGGAGATG-CATCGA-CCTCGAGATAT-ACAAGCT-AGTGTAAAACCTGTCTGA-
88464239 GACATGG
121 GACATGG
88464246 AATCGATTTT
Statistics
Matches: 111, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
138 26 0.23
139 8 0.07
141 34 0.31
142 42 0.38
143 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (138 bp):
TGTGTTCTAGTGTAAGACATGCCTGAGACATGCATCGACCATATGATGAGAGCCAGTGCAAGACA
TGTCTGGGAGATGCATCGACCTCGAGATATACAAGCTAGTGTAAAACCTGTCTGAGACATGGCGT
TAGCTTGT
Found at i:88466054 original size:22 final size:22
Alignment explanation
Indices: 88466029--88466072 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
88466019 TTATGGGCAA
88466029 GATGAAGGCTTGGAAAATAGCC
1 GATGAAGGCTTGGAAAATAGCC
88466051 GATGAAGGCTTGGAAAATAGCC
1 GATGAAGGCTTGGAAAATAGCC
88466073 TAAGTGTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.32, T:0.18
Consensus pattern (22 bp):
GATGAAGGCTTGGAAAATAGCC
Found at i:88467379 original size:14 final size:14
Alignment explanation
Indices: 88467336--88467371 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
88467326 CCCTACTCCC
*
88467336 TTAATAAAAAGATA
1 TTAATGAAAAGATA
88467350 TTAATGAAAAGATA
1 TTAATGAAAAGATA
88467364 TTAATGAA
1 TTAATGAA
88467372 TGAATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.31
Consensus pattern (14 bp):
TTAATGAAAAGATA
Found at i:88469914 original size:46 final size:44
Alignment explanation
Indices: 88469811--88469918 Score: 137
Period size: 44 Copynumber: 2.4 Consensus size: 44
88469801 TATCTTTGAC
** * *
88469811 ATGGACTTACATGAATTATTCCTGTCTCCAATACCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAATACCATATATAAT
*
88469855 ATGGACTTACATGGCTCAATCCTGTCTCCAA-AGCCATATTTGTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAATA-CCATA--TATAAT
88469901 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
88469919 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 32 0.57
46 23 0.41
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAATACCATATATAAT
Found at i:88479833 original size:29 final size:29
Alignment explanation
Indices: 88479791--88479848 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
88479781 AGCCATACGG
88479791 AATGTACCTCTTATTTATTCAAAATCCTT
1 AATGTACCTCTTATTTATTCAAAATCCTT
88479820 AATGTACCTCTTATTTATTCAAAATCCTT
1 AATGTACCTCTTATTTATTCAAAATCCTT
88479849 TCTAGGACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.21, G:0.03, T:0.45
Consensus pattern (29 bp):
AATGTACCTCTTATTTATTCAAAATCCTT
Found at i:88480724 original size:25 final size:25
Alignment explanation
Indices: 88480696--88480745 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
88480686 TGAGATAATT
* *
88480696 CACCACAA-AGGCTTTTCAAATGATA
1 CACCACAAGA-GCTTTCCAAAGGATA
88480721 CACCACAAGAGCTTTCCAAAGGATA
1 CACCACAAGAGCTTTCCAAAGGATA
88480746 TTCCATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.40, C:0.26, G:0.14, T:0.20
Consensus pattern (25 bp):
CACCACAAGAGCTTTCCAAAGGATA
Found at i:88480758 original size:25 final size:24
Alignment explanation
Indices: 88480730--88480795 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 24
88480720 ACACCACAAG
* *
88480730 AGCTTTCCAAAGGATATT-CCATAA
1 AGCTTCCCAAAGAAT-TTGCCATAA
88480754 TAGCTTCCCAAAGAATTTGCCATAA
1 -AGCTTCCCAAAGAATTTGCCATAA
88480779 AGGCTTCCCAAAGAATT
1 A-GCTTCCCAAAGAATT
88480796 CACCACAATG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
24 3 0.08
25 34 0.92
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (24 bp):
AGCTTCCCAAAGAATTTGCCATAA
Found at i:88512829 original size:13 final size:13
Alignment explanation
Indices: 88512811--88512838 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
88512801 GTTATTCATA
88512811 ATTAATATGAATT
1 ATTAATATGAATT
88512824 ATTAATATGAATT
1 ATTAATATGAATT
88512837 AT
1 AT
88512839 AGACTTGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
ATTAATATGAATT
Found at i:88513109 original size:17 final size:17
Alignment explanation
Indices: 88513087--88513125 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
88513077 CTGACTCCAT
*
88513087 TTTTAT-TTTCTAGTTTA
1 TTTTATATTT-TAGTATA
88513104 TTTTATATTTTAGTATA
1 TTTTATATTTTAGTATA
88513121 TTTTA
1 TTTTA
88513126 CATCTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (17 bp):
TTTTATATTTTAGTATA
Found at i:88513317 original size:15 final size:17
Alignment explanation
Indices: 88513297--88513328 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
88513287 TCATTTCATT
88513297 TATAT-AAT-CATAAAA
1 TATATAAATGCATAAAA
88513312 TATATAAATGCATAAAA
1 TATATAAATGCATAAAA
88513329 AGATTTTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 3 0.20
17 7 0.47
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.31
Consensus pattern (17 bp):
TATATAAATGCATAAAA
Found at i:88518720 original size:43 final size:42
Alignment explanation
Indices: 88518663--88518764 Score: 159
Period size: 43 Copynumber: 2.4 Consensus size: 42
88518653 TCCAGTTTTG
*
88518663 ACACGGCCTGGACACACGGGCGTGTCTACTGGTCATGTGTGAC
1 ACACGGCCT-GACACACGAGCGTGTCTACTGGTCATGTGTGAC
*
88518706 ACACGGCCTAGACACACGAGCGTGTCTACTGGTCGTGTGTGAC
1 ACACGGCCT-GACACACGAGCGTGTCTACTGGTCATGTGTGAC
*
88518749 ACACGGGCTGACACAC
1 ACACGGCCTGACACAC
88518765 AGGCCTCCTT
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
42 7 0.13
43 48 0.87
ACGTcount: A:0.22, C:0.29, G:0.30, T:0.19
Consensus pattern (42 bp):
ACACGGCCTGACACACGAGCGTGTCTACTGGTCATGTGTGAC
Found at i:88532332 original size:46 final size:46
Alignment explanation
Indices: 88532279--88532454 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
88532269 TGGTTGAGCA
88532279 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
88532325 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
88532370 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
88532418 -CCCAAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAA-CTCATTGAGTTGAGTCCGAGTTCACTTATGG
88532455 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 7 0.07
46 56 0.53
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:88532435 original size:93 final size:93
Alignment explanation
Indices: 88532276--88532447 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
88532266 GGATGGTTGA
* * ** *
88532276 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCATTGAGT
88532341 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
88532369 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCATTGAG
1 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCATTGAG
88532433 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
88532448 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 3 0.04
93 69 0.96
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:88535227 original size:47 final size:45
Alignment explanation
Indices: 88535123--88535247 Score: 139
Period size: 45 Copynumber: 2.7 Consensus size: 45
88535113 TGCACCGATT
* **
88535123 CCATGTCCCAGACATAGTCTTACACTGACACATCTCG-TAGCGGAT-
1 CCATGTCCCAGACATAGTCTTACACTGACTC-TCTCGAT-GTTGATG
*
88535168 TCATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTCGATGTTGATG
1 CCATGTCCCAGACATAGTCTTACACT-G-ACTC-TCTCGATGTTGATG
*
88535215 CCATGTCCCAGACATGGTCTTACACTGACTCTC
1 CCATGTCCCAGACATAGTCTTACACTGACTCTC
88535248 ATAATGTGAT
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
44 10 0.14
45 17 0.25
46 16 0.23
47 16 0.23
48 10 0.14
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (45 bp):
CCATGTCCCAGACATAGTCTTACACTGACTCTCTCGATGTTGATG
Found at i:88546309 original size:13 final size:13
Alignment explanation
Indices: 88546291--88546317 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
88546281 CTCAGATCGA
88546291 ACAGCCGTATCAG
1 ACAGCCGTATCAG
88546304 ACAGCCGTATCAG
1 ACAGCCGTATCAG
88546317 A
1 A
88546318 AGTCCCTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.30, G:0.22, T:0.15
Consensus pattern (13 bp):
ACAGCCGTATCAG
Found at i:88553779 original size:46 final size:44
Alignment explanation
Indices: 88553692--88553913 Score: 200
Period size: 46 Copynumber: 4.8 Consensus size: 44
88553682 TATATCTATA
* *
88553692 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTA-G
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCATCT-GTAGG
*
88553738 TCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCG-AGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGC-T-CATCT-GTAGG
* * *
88553784 CCGATGCATGTCCCAAACATGTCTTACACTAGGGCTCGTCT-TAATG
1 CCGATGCATGTCCCAGACATGTCTTACACT--GGCTCATCTGT-AGG
* *
88553830 CCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATAATGT-GG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGG--CTCAT-CTGTAGG
* *
88553878 TCGATGCATGTCCCAGACATGTCTTACACTAGCTCA
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTCA
88553914 CACAAGTGGC
Statistics
Matches: 148, Mismatches: 15, Indels: 28
0.77 0.08 0.15
Matches are distributed among these distances:
44 16 0.11
45 15 0.10
46 66 0.45
47 26 0.18
48 23 0.16
49 1 0.01
50 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (44 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCTCATCTGTAGG
Found at i:88553856 original size:94 final size:92
Alignment explanation
Indices: 88553739--88553909 Score: 247
Period size: 94 Copynumber: 1.8 Consensus size: 92
88553729 ATCTCGTAGT
*
88553739 CGATGCATGTCCCAGACATGTCTTACACTGGCT-TACAT-CTCGAGGCCGATGCATGTCCCAAAC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATAAT-GAGGCCGATGCATGTCCCAAAC
88553802 ATGTCTTACACTAGGGCTCGTCTTAATGC
64 ATGTCTTACACTAGGGCTCGTCTTAATGC
* * * *
88553831 CGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATAATGTGGTCGATGCATGTCCCAGAC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCCAAAC
88553896 ATGTCTTACACTAG
64 ATGTCTTACACTAG
88553910 CTCACACAAG
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
92 5 0.07
93 13 0.19
94 50 0.71
95 2 0.03
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (92 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCCAAACAT
GTCTTACACTAGGGCTCGTCTTAATGC
Found at i:88559908 original size:89 final size:89
Alignment explanation
Indices: 88559757--88559937 Score: 317
Period size: 89 Copynumber: 2.0 Consensus size: 89
88559747 ACATAGAAAG
*
88559757 AAGGCATCGATTACAATAAGACCTTCTCTCCAGTAGCCATGCTCAAGTTTATCTGTGTACTATTA
1 AAGGCATCAATTACAATAAGACCTTCTCTCCAGTAGCCATGCTCAAGTTTATCTGTGTACTATTA
88559822 TCCATTACCATTGCTCTCGATTAC
66 TCCATTACCATTGCTCTCGATTAC
* * *
88559846 AAGGCATCAATTATAATAAGACCTTTTCTCCAGTAGCCATGCTCAATTTTATCTGTGTACTATTA
1 AAGGCATCAATTACAATAAGACCTTCTCTCCAGTAGCCATGCTCAAGTTTATCTGTGTACTATTA
*
88559911 TCCATTACCATTGCTCTTGATTAC
66 TCCATTACCATTGCTCTCGATTAC
88559935 AAG
1 AAG
88559938 ATTTGGCAAA
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
89 87 1.00
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (89 bp):
AAGGCATCAATTACAATAAGACCTTCTCTCCAGTAGCCATGCTCAAGTTTATCTGTGTACTATTA
TCCATTACCATTGCTCTCGATTAC
Found at i:88564208 original size:20 final size:20
Alignment explanation
Indices: 88564169--88564209 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
88564159 CCCCTGCAAT
*
88564169 CTAAAATTTTCAAATTTTTC
1 CTAAAATTTTCAAATGTTTC
88564189 CTAAAA-TTTCATAATGTTTC
1 CTAAAATTTTCA-AATGTTTC
88564209 C
1 C
88564210 GATTTAATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.34, C:0.17, G:0.02, T:0.46
Consensus pattern (20 bp):
CTAAAATTTTCAAATGTTTC
Found at i:88566771 original size:25 final size:25
Alignment explanation
Indices: 88566742--88566824 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
88566732 GAATAAAAAC
*
88566742 TCACCACAACAGCTTTCCAAATAAT
1 TCACCACAAAAGCTTTCCAAATAAT
** *
88566767 TCACCGTAAAAGCTTTCCAAATGAT
1 TCACCACAAAAGCTTTCCAAATAAT
* ** *
88566792 ACACCACAAGGGC-TTCCAAAAGAAT
1 TCACCACAAAAGCTTTCC-AAATAAT
88566817 TCACCACA
1 TCACCACA
88566825 TAGGGTTTCT
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
24 4 0.09
25 41 0.91
ACGTcount: A:0.40, C:0.30, G:0.10, T:0.20
Consensus pattern (25 bp):
TCACCACAAAAGCTTTCCAAATAAT
Found at i:88566838 original size:25 final size:25
Alignment explanation
Indices: 88566793--88566843 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
88566783 CCAAATGATA
88566793 CACCACAAGGGCTTCCAAAAGAATT
1 CACCACAAGGGCTTCCAAAAGAATT
* *
88566818 CACCACATAGGG-TTTCTAAAGAATT
1 CACCACA-AGGGCTTCCAAAAGAATT
88566843 C
1 C
88566844 TTGATTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (25 bp):
CACCACAAGGGCTTCCAAAAGAATT
Found at i:88574182 original size:16 final size:18
Alignment explanation
Indices: 88574142--88574182 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
88574132 TTATCTCGAT
*
88574142 AATCAATTCAAATATGTC
1 AATCAACTCAAATATGTC
88574160 AATCAACTCAAATA-GTC
1 AATCAACTCAAATATGTC
88574177 -ATCAAC
1 AATCAAC
88574183 AACTTACCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.27
17 3 0.14
18 13 0.59
ACGTcount: A:0.46, C:0.22, G:0.05, T:0.27
Consensus pattern (18 bp):
AATCAACTCAAATATGTC
Found at i:88576090 original size:8 final size:8
Alignment explanation
Indices: 88576066--88576095 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
88576056 CGGTGTAGTT
88576066 ATATATAC
1 ATATATAC
88576074 ATATA-AC
1 ATATATAC
88576081 ATATATAC
1 ATATATAC
88576089 ATATATA
1 ATATATA
88576096 TGAGTAATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (8 bp):
ATATATAC
Found at i:88608626 original size:14 final size:13
Alignment explanation
Indices: 88608608--88608632 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88608598 GATTTTGAAA
88608608 AAAAAATAGGCTC
1 AAAAAATAGGCTC
88608621 AAAAAATAGGCT
1 AAAAAATAGGCT
88608633 TGGACAAGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.12, G:0.16, T:0.16
Consensus pattern (13 bp):
AAAAAATAGGCTC
Found at i:88609108 original size:6 final size:6
Alignment explanation
Indices: 88609097--88609123 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
88609087 TGATGTATTA
88609097 TATTTT TATTTT TATTTT TATTTT TAT
1 TATTTT TATTTT TATTTT TATTTT TAT
88609124 GTAAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:88609680 original size:23 final size:24
Alignment explanation
Indices: 88609621--88609687 Score: 61
Period size: 24 Copynumber: 2.8 Consensus size: 24
88609611 GCGCAAATGA
88609621 TTATTTTATATT--AAT-TTTTTTG
1 TTATTTT-TATTAAAATATTTTTTG
* *
88609643 TTTTTTTTAAATAAAATATTTTTT-
1 TTATTTTT-ATTAAAATATTTTTTG
88609667 TTATTTTTATTAAAAATATTT
1 TTATTTTTATT-AAAATATTT
88609688 AAATATATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
21 1 0.03
22 8 0.22
23 2 0.06
24 19 0.53
25 6 0.17
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.67
Consensus pattern (24 bp):
TTATTTTTATTAAAATATTTTTTG
Found at i:88609976 original size:121 final size:121
Alignment explanation
Indices: 88609762--88610002 Score: 482
Period size: 121 Copynumber: 2.0 Consensus size: 121
88609752 TGTTGGATAA
88609762 TCGCGCCTGGTAGATAGGCACAAATGGGCAGCCCGAACAGTGCACCTCCAGCTGCTGCATGATGC
1 TCGCGCCTGGTAGATAGGCACAAATGGGCAGCCCGAACAGTGCACCTCCAGCTGCTGCATGATGC
88609827 CCGAGCAGTCCCTCCCTGCAGCTGTATGCATGCCCCCCTTCCCAGCTCCACAGACT
66 CCGAGCAGTCCCTCCCTGCAGCTGTATGCATGCCCCCCTTCCCAGCTCCACAGACT
88609883 TCGCGCCTGGTAGATAGGCACAAATGGGCAGCCCGAACAGTGCACCTCCAGCTGCTGCATGATGC
1 TCGCGCCTGGTAGATAGGCACAAATGGGCAGCCCGAACAGTGCACCTCCAGCTGCTGCATGATGC
88609948 CCGAGCAGTCCCTCCCTGCAGCTGTATGCATGCCCCCCTTCCCAGCTCCACAGAC
66 CCGAGCAGTCCCTCCCTGCAGCTGTATGCATGCCCCCCTTCCCAGCTCCACAGAC
88610003 CAGCAGTTGT
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
121 120 1.00
ACGTcount: A:0.20, C:0.38, G:0.24, T:0.18
Consensus pattern (121 bp):
TCGCGCCTGGTAGATAGGCACAAATGGGCAGCCCGAACAGTGCACCTCCAGCTGCTGCATGATGC
CCGAGCAGTCCCTCCCTGCAGCTGTATGCATGCCCCCCTTCCCAGCTCCACAGACT
Found at i:88610143 original size:23 final size:23
Alignment explanation
Indices: 88610109--88610172 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
88610099 TCTATACCGA
* *
88610109 AAGAGAGAAAAAAAAATAGAGAA-
1 AAGAAAGAAAAAAAAAGA-AGAAG
*
88610132 AGGAGAAGAAAAAAAGAAGAAGAAG
1 AAGA-AAGAAAAAAA-AAGAAGAAG
88610157 AAGAAAGAAAAAAAAA
1 AAGAAAGAAAAAAAAA
88610173 AGGTAATGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
23 5 0.15
24 23 0.68
25 6 0.18
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (23 bp):
AAGAAAGAAAAAAAAAGAAGAAG
Found at i:88610414 original size:60 final size:61
Alignment explanation
Indices: 88610322--88610455 Score: 191
Period size: 60 Copynumber: 2.2 Consensus size: 61
88610312 TGAATGTAAT
* * * *
88610322 TTTTTTGTTTTTTATAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTA-AAA
1 TTTTTTG-TGTTTATAATTATTTTAAAATTAATTTATTAGTAAATTAGGATTAAGTTATAAA
*
88610383 TTTTTTGTGTTTGTAATTATTTTAAAATTAATTTATTAGTAAATTAGGATTAAGTTATAAA
1 TTTTTTGTGTTTATAATTATTTTAAAATTAATTTATTAGTAAATTAGGATTAAGTTATAAA
*
88610444 -TTGTTGTGTTTA
1 TTTTTTGTGTTTA
88610456 GTTTAGTATT
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
60 55 0.85
61 10 0.15
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (61 bp):
TTTTTTGTGTTTATAATTATTTTAAAATTAATTTATTAGTAAATTAGGATTAAGTTATAAA
Found at i:88613725 original size:33 final size:33
Alignment explanation
Indices: 88613660--88613754 Score: 84
Period size: 33 Copynumber: 2.9 Consensus size: 33
88613650 CATCCTGACT
* * * * **
88613660 CGTATCCACCTCAGCACTCCGCTCCTTTCGGCC
1 CGTATCCACCACCGTACTCCACTCCTCCCGGCC
88613693 CGTATCCACCACCGTACTCCACTCCTCCCGGCC
1 CGTATCCACCACCGTACTCCACTCCTCCCGGCC
* * * *
88613726 CATAT-CATTCGCCGTACTCCACTTCTCCC
1 CGTATCCA-CCACCGTACTCCACTCCTCCC
88613755 AGCTCAAGTT
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
32 2 0.04
33 49 0.96
ACGTcount: A:0.15, C:0.49, G:0.12, T:0.24
Consensus pattern (33 bp):
CGTATCCACCACCGTACTCCACTCCTCCCGGCC
Found at i:88619025 original size:20 final size:21
Alignment explanation
Indices: 88618979--88619025 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
88618969 AACGATATAT
*
88618979 AAATATATACGTATATGTATTA
1 AAATATATACGTATA-GTAATA
88619001 AAATATATACGTA-A-TAATA
1 AAATATATACGTATAGTAATA
88619020 AGAATA
1 A-AATA
88619026 AAAAGTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 5 0.22
20 4 0.17
21 1 0.04
22 13 0.57
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.34
Consensus pattern (21 bp):
AAATATATACGTATAGTAATA
Found at i:88619052 original size:27 final size:26
Alignment explanation
Indices: 88619000--88619052 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
88618990 TATATGTATT
* *
88619000 AAAATATATACGTAATAATAAGAATA
1 AAAATATATACATAATAATAAAAATA
* *
88619026 AAAAGTATATACATAGTATTAAAAATA
1 AAAA-TATATACATAATAATAAAAATA
88619053 TGTACATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (26 bp):
AAAATATATACATAATAATAAAAATA
Found at i:88619053 original size:47 final size:49
Alignment explanation
Indices: 88618961--88619103 Score: 131
Period size: 47 Copynumber: 3.0 Consensus size: 49
88618951 ATAACTAATA
*
88618961 ATAATAATAACGATATATAAATATATACGTATATGTATTAAAATATATAC
1 ATAATAATAACGATATAAAAATATATACG-ATATGTATTAAAATATATAC
* *
88619011 GTAATAATAA-GA-ATAAAAAGTATATAC-ATA-GTATTAAAAATATGTAC
1 ATAATAATAACGATATAAAAA-TATATACGATATGTATT-AAAATATATAC
* * *
88619058 ATAAT-ATAATG-T-TAAAAATACATAC-ATAATATAGTTAAAATATATA
1 ATAATAATAACGATATAAAAATATATACGAT-ATGTA-TTAAAATATATA
88619104 TATATACATA
Statistics
Matches: 79, Mismatches: 7, Indels: 17
0.77 0.07 0.17
Matches are distributed among these distances:
45 8 0.10
46 16 0.20
47 29 0.37
48 8 0.10
49 9 0.11
50 9 0.11
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.34
Consensus pattern (49 bp):
ATAATAATAACGATATAAAAATATATACGATATGTATTAAAATATATAC
Found at i:88619072 original size:25 final size:23
Alignment explanation
Indices: 88618979--88619447 Score: 145
Period size: 25 Copynumber: 19.7 Consensus size: 23
88618969 AACGATATAT
* *
88618979 AAATATATACGT-ATAT-GTATTA
1 AAATATATACATAATATAGT-TAA
* *
88619001 AAATATATACGTAATAATAAGAATAA
1 AAATATATACATAAT-AT-AG-TTAA
*
88619027 AAAGTATATACAT-A-GTA-TTAA
1 AAA-TATATACATAATATAGTTAA
*
88619048 AAATATGTACATAATATAATGTTAA
1 AAATATATACATAATAT-A-GTTAA
*
88619073 AAATACATACATAATATAGTTAA
1 AAATATATACATAATATAGTTAA
* *
88619096 AATATATATATATACATA-AGAT-A
1 AA-ATATATACATA-ATATAGTTAA
* * * * *
88619119 ATATGTA-AGAAAAAATA-TATAA
1 AAATATATACATAATATAGT-TAA
* * *
88619141 ATAATATAGTA-TTAAAATATTTACA
1 A-AATATA-TACATAATATAGTTA-A
* * * **
88619166 TAATATATACATATTAGAAATAA
1 AAATATATACATAATATAGTTAA
*
88619189 AAA-A-ATGACTATTAATAATA-CTACA
1 AAATATAT-AC-A-TAAT-ATAGTTA-A
*
88619214 TAAATATATGCATATATATA-TTAA
1 -AAATATATACATA-ATATAGTTAA
* *
88619238 AGATAAATACATAATAATA-TTAA
1 AAATATATACATAAT-ATAGTTAA
* *
88619261 AAGTATGTACATAATATAGTGTTAA
1 AAATATATACATAATATA--GTTAA
*
88619286 AAATACATACATAATATAGTTATTAAA
1 AAATATATACATAATATAG---TT-AA
* *
88619313 AAATATATACATAAGATAATATAA
1 AAATATATACATAATATAGT-TAA
88619337 AAATATATACATGAA-ATAGTATAAA
1 AAATATATACAT-AATATAGT-T-AA
88619362 AAATATATA-ACTAATAATA-TTAA
1 AAATATATACA-TAAT-ATAGTTAA
88619385 AAATATATACATAA-ATA-TATAA
1 AAATATATACATAATATAGT-TAA
* * *
88619407 AAACATATACGATATATATATATTAG
1 AAATATATAC-ATA-ATATA-GTTAA
88619433 AAATA-ATA-ATAATAT
1 AAATATATACATAATAT
88619448 GAAAAAAACT
Statistics
Matches: 343, Mismatches: 52, Indels: 104
0.69 0.10 0.21
Matches are distributed among these distances:
20 10 0.03
21 18 0.05
22 43 0.13
23 72 0.21
24 69 0.20
25 76 0.22
26 24 0.07
27 29 0.08
28 2 0.01
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (23 bp):
AAATATATACATAATATAGTTAA
Found at i:88619356 original size:76 final size:71
Alignment explanation
Indices: 88619231--88619446 Score: 203
Period size: 76 Copynumber: 3.0 Consensus size: 71
88619221 ATGCATATAT
* * * * * *
88619231 ATATTAAAGATAAATACAT-AATAATATTAAAAGTATGTACATAATATAGTGTTAAAAATACAT-
1 ATATTAAAAATATATACATAAATAATA-TAAAAATATATACATAATATAGTATAAAAAATACATA
88619294 ACATAATA
65 AC-TAATA
88619302 TAGTTATTAAAAAATATATACATAAGATAATATAAAAATATATACATGAA-ATAGTATAAAAAAT
1 -A--TATT-AAAAATATATACATAA-ATAATATAAAAATATATACAT-AATATAGTATAAAAAAT
*
88619366 ATATAACTAATA
60 ACATAACTAATA
* * *
88619378 ATATTAAAAATATATACATAAAT-ATATAAAAACATATACGATATATATA-TATTAGAAATA-AT
1 ATATTAAAAATATATACATAAATAATATAAAAATATATAC-ATA-ATATAGTATAAAAAATACAT
88619440 AA-TAATA
64 AACTAATA
88619447 TGAAAAAAAC
Statistics
Matches: 124, Mismatches: 10, Indels: 23
0.79 0.06 0.15
Matches are distributed among these distances:
69 5 0.04
70 20 0.16
71 14 0.11
72 20 0.16
73 4 0.03
74 4 0.03
75 13 0.10
76 34 0.27
77 10 0.08
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (71 bp):
ATATTAAAAATATATACATAAATAATATAAAAATATATACATAATATAGTATAAAAAATACATAA
CTAATA
Found at i:88619367 original size:23 final size:23
Alignment explanation
Indices: 88619215--88619416 Score: 144
Period size: 23 Copynumber: 8.4 Consensus size: 23
88619205 AATACTACAT
* *
88619215 AAATATATGCATATAT-ATATTAA
1 AAATATATACATAAATAATA-TAA
* *
88619238 AGATAAATACAT-AATAATATTAA
1 AAATATATACATAAATAATA-TAA
* * * *
88619261 AAGTATGTACATAATATAGTGTTAA
1 AAATATATACATAA-ATAAT-ATAA
* *
88619286 AAATACATACATAATATAGTTATTAAA
1 AAATATATACATAA-ATA-ATA-T-AA
88619313 AAATATATACATAAGATAATATAA
1 AAATATATACATAA-ATAATATAA
*
88619337 AAATATATACATGAAATAGTATAAA
1 AAATATATACAT-AAATAATAT-AA
88619362 AAATATATA-ACT-AATAATATTAA
1 AAATATATACA-TAAATAATA-TAA
88619385 AAATATATACATAAAT-ATATAA
1 AAATATATACATAAATAATATAA
*
88619407 AAACATATAC
1 AAATATATAC
88619417 GATATATATA
Statistics
Matches: 145, Mismatches: 21, Indels: 27
0.75 0.11 0.14
Matches are distributed among these distances:
22 14 0.10
23 45 0.31
24 27 0.19
25 37 0.26
26 4 0.03
27 18 0.12
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.32
Consensus pattern (23 bp):
AAATATATACATAAATAATATAA
Found at i:88619425 original size:23 final size:22
Alignment explanation
Indices: 88619311--88619428 Score: 96
Period size: 24 Copynumber: 5.0 Consensus size: 22
88619301 ATAGTTATTA
*
88619311 AAAAATATATACATAAGATAATAT
1 AAAAACATATACATAA-AT-ATAT
*
88619335 AAAAATATATACATGAAATAGTAT
1 AAAAACATATACAT-AAATA-TAT
*
88619359 AAAAA-ATATATA-ACTAATAATATT
1 AAAAACATATACATA--AAT-ATA-T
*
88619383 AAAAATATATACATAAATATAT
1 AAAAACATATACATAAATATAT
*
88619405 AAAAACATATACGATATATATAT
1 AAAAACATATAC-ATAAATATAT
88619428 A
1 A
88619429 TTAGAAATAA
Statistics
Matches: 81, Mismatches: 4, Indels: 19
0.78 0.04 0.18
Matches are distributed among these distances:
21 1 0.01
22 12 0.15
23 25 0.31
24 34 0.42
25 8 0.10
26 1 0.01
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (22 bp):
AAAAACATATACATAAATATAT
Found at i:88619430 original size:48 final size:48
Alignment explanation
Indices: 88619215--88619444 Score: 208
Period size: 48 Copynumber: 4.8 Consensus size: 48
88619205 AATACTACAT
* * * *
88619215 AAATATATGCAT-ATATATATTAAAGATAAATACAT-AATAATATTAA
1 AAATATATACATAATATATATTAAAAATATATACATAAATAGTATTAA
* * * *
88619261 AAGTATGTACATAATATAGTGTTAAAAATACATACATAATATAGTTATTAAA
1 AAATATATACATAATATA-TATTAAAAATATATACATAA-ATAG-TATT-AA
* *
88619313 AAATATATACATAAGATA-ATATAAAAATATATACATGAAATAGTATAAA
1 AAATATATACATAATATATAT-TAAAAATATATACAT-AAATAGTATTAA
88619362 AAATATATA-ACTAATA-ATATTAAAAATATATACATAAATA-TA-TAA
1 AAATATATACA-TAATATATATTAAAAATATATACATAAATAGTATTAA
* *
88619407 AAACATATACGATATATATATATTAGAAATA-ATA-ATAA
1 AAATATATAC-ATA-ATATATATTAAAAATATATACATAA
88619445 TATGAAAAAA
Statistics
Matches: 153, Mismatches: 17, Indels: 28
0.77 0.09 0.14
Matches are distributed among these distances:
45 10 0.07
46 17 0.11
47 17 0.11
48 43 0.28
49 18 0.12
50 7 0.05
51 22 0.14
52 19 0.12
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (48 bp):
AAATATATACATAATATATATTAAAAATATATACATAAATAGTATTAA
Found at i:88619558 original size:18 final size:18
Alignment explanation
Indices: 88619531--88619568 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
88619521 CTAGTACTAC
* *
88619531 TAATATTAATAATAGATA
1 TAATAATAATAATAAATA
88619549 TAATAATAATAATAAATA
1 TAATAATAATAATAAATA
88619567 TA
1 TA
88619569 TATGCATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (18 bp):
TAATAATAATAATAAATA
Found at i:88619634 original size:26 final size:26
Alignment explanation
Indices: 88619605--88619662 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 26
88619595 ACATTTAAAA
88619605 AATATAACTAAAT-ATAAT-ATAACAAT
1 AATATAA--AAATAATAATGATAACAAT
*
88619631 AATATAAAAATAATAGTGATAACAAT
1 AATATAAAAATAATAATGATAACAAT
88619657 AATATA
1 AATATA
88619663 TATAACATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 4 0.14
25 4 0.14
26 21 0.72
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.29
Consensus pattern (26 bp):
AATATAAAAATAATAATGATAACAAT
Found at i:88619667 original size:15 final size:15
Alignment explanation
Indices: 88619606--88619669 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 15
88619596 CATTTAAAAA
*
88619606 ATATAACTA-AATAT
1 ATATAACAATAATAT
88619620 AATATAACAAT-A-AT
1 -ATATAACAATAATAT
88619634 ATA-AA-AATAATAGT
1 ATATAACAATAATA-T
*
88619648 -GATAACAATAATAT
1 ATATAACAATAATAT
88619662 ATATAACA
1 ATATAACA
88619670 TGAATAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
11 3 0.08
12 3 0.08
13 5 0.13
14 6 0.15
15 22 0.56
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (15 bp):
ATATAACAATAATAT
Found at i:88621416 original size:44 final size:46
Alignment explanation
Indices: 88621312--88621421 Score: 136
Period size: 44 Copynumber: 2.5 Consensus size: 46
88621302 TCGTTGTGAT
* * * *
88621312 CTGCTCTTCTGCAACTTCA-GAGAGATGAGATCTGGTATCTTCAAT
1 CTGCTCTGCTGCAACTTCAGGAGAGATGAGAACTGGTAACTTCAAC
* * *
88621357 CTACTCTGCTACAACTTCAGGA-AGATGA-AACTTGTAACTTCAAC
1 CTGCTCTGCTGCAACTTCAGGAGAGATGAGAACTGGTAACTTCAAC
88621401 CTGCTCTGCTGCAACTTCAGG
1 CTGCTCTGCTGCAACTTCAGG
88621422 CAGGCAAAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
44 31 0.56
45 22 0.40
46 2 0.04
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (46 bp):
CTGCTCTGCTGCAACTTCAGGAGAGATGAGAACTGGTAACTTCAAC
Found at i:88621457 original size:44 final size:45
Alignment explanation
Indices: 88621409--88621497 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 45
88621399 ACCTGCTCTG
* *
88621409 CTGCAACTTCAGGCAGGCAAAATCT-GTATCTTCGATCAGCTCCA
1 CTGCAACTTCAGGAAGGAAAAATCTGGTATCTTCGATCAGCTCCA
* *
88621453 CTGCAACTTCAGGAAGGAAAAATTTGGTGTCTTCGATCAGCTCCA
1 CTGCAACTTCAGGAAGGAAAAATCTGGTATCTTCGATCAGCTCCA
88621498 ACCTTTATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 22 0.55
45 18 0.45
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (45 bp):
CTGCAACTTCAGGAAGGAAAAATCTGGTATCTTCGATCAGCTCCA
Found at i:88621745 original size:29 final size:29
Alignment explanation
Indices: 88621693--88621748 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
88621683 AATAGAAAAT
* *
88621693 ACCTCAGCGTGTGATCCGAGGCTCAACTC
1 ACCTCAGCGTATGATCCGAAGCTCAACTC
88621722 ACCTCAGCGTATGA-CCTGAAGCTCAAC
1 ACCTCAGCGTATGATCC-GAAGCTCAAC
88621749 ACATCTCTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.25, C:0.34, G:0.21, T:0.20
Consensus pattern (29 bp):
ACCTCAGCGTATGATCCGAAGCTCAACTC
Found at i:88621873 original size:89 final size:89
Alignment explanation
Indices: 88621722--88621884 Score: 200
Period size: 89 Copynumber: 1.8 Consensus size: 89
88621712 GGCTCAACTC
* * * * *** *
88621722 ACCTCAGCGTATGACCTGAAGCTCAACACATCTCTCGTAATATGAGTTGATTTTTTTGAAACATA
1 ACCTCAGCGTATGACCTGAAGCTCAACACACCTCTCGCAATACGAGTTGACTTTTAAAAAACAGA
88621787 AATTGAAAAATAGAAATTGAAAAT
66 AATTGAAAAATAGAAATTGAAAAT
* * * * * *
88621811 ACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGACTTTTAAAAAACAGG
1 ACCTCAGCGTATGACCTGAAGCTCAACACACCTCTCGCAATACGAGTTGACTTTTAAAAAACAGA
88621876 AATTGAAAA
66 AATTGAAAA
88621885 TACCTAGCGT
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
89 60 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.27
Consensus pattern (89 bp):
ACCTCAGCGTATGACCTGAAGCTCAACACACCTCTCGCAATACGAGTTGACTTTTAAAAAACAGA
AATTGAAAAATAGAAATTGAAAAT
Found at i:88621919 original size:74 final size:75
Alignment explanation
Indices: 88621792--88621958 Score: 228
Period size: 74 Copynumber: 2.2 Consensus size: 75
88621782 ACATAAATTG
* * *
88621792 AAAAATAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAG
88621857 TTGACTTTTA
66 TTGACTTTTA
* * *
88621867 AAAAACAGGAATTGAAAATACCT-AGCGTGTGACCTGAGGCTCAGCTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAG
* *
88621931 TTGATTTTTT
66 TTGACTTTTA
** *
88621941 TGAAACATAAATTGAAAA
1 AAAAACAGAAATTGAAAA
88621959 ACGGAAATTG
Statistics
Matches: 80, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
74 59 0.74
75 21 0.26
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (75 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAG
TTGACTTTTA
Found at i:88621970 original size:88 final size:89
Alignment explanation
Indices: 88621867--88622028 Score: 220
Period size: 89 Copynumber: 1.8 Consensus size: 89
88621857 TTGACTTTTA
* * * * * *
88621867 AAAAACAGGAATTGAAAATACCT-AGCGTGTGACCTGAGGCTCAGCTCACCTCTCGCAATATGAG
1 AAAAACAGGAATTGAAAATACCTCAACATGTAACCCGAGGCTCAACTCACCTCTCGCAATACGAG
*
88621931 TTGATTTTTTTGAAACATAAATTG
66 TTGACTTTTTTGAAACATAAATTG
* *
88621955 AAAAAC-GGAAATTGAAAATACCTCAACATGTAACCCGAGGCTCAACTCGCCTCTTGCAATACGA
1 AAAAACAGG-AATTGAAAATACCTCAACATGTAACCCGAGGCTCAACTCACCTCTCGCAATACGA
88622019 GTTGACTTTT
65 GTTGACTTTT
88622029 AAAAAACGAG
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
87 2 0.03
88 20 0.32
89 41 0.65
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.27
Consensus pattern (89 bp):
AAAAACAGGAATTGAAAATACCTCAACATGTAACCCGAGGCTCAACTCACCTCTCGCAATACGAG
TTGACTTTTTTGAAACATAAATTG
Found at i:88622003 original size:163 final size:165
Alignment explanation
Indices: 88621722--88622422 Score: 842
Period size: 163 Copynumber: 4.3 Consensus size: 165
88621712 GGCTCAACTC
* * * * * *
88621722 ACCTCAGCGTATGACCTGAAGCTCAACACATCTCTCGTAATATGAGTTGATTTTTTTGAAACATA
1 ACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATA
* * * * * *
88621787 AATTGAAAAATAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAAT
66 AATTGAAAAACAGAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACCTCTCGCAAT
88621852 ACGAGTTGA-CTTTTAAAAAACAGGAA-TTGAAAAT
131 ACGAGTTGATCTTTTAAAAAACA-GAATTTGAAAAT
* *
88621886 ACCT-AGCGTGTGACCTGAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATA
1 ACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATA
* * * *
88621950 AATTGAAAAACGGAAATTGAAAATACCTCAACATGTAACCCGAGGCTCAACTCGCCTCTTGCAAT
66 AATTGAAAAACAGAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACCTCTCGCAAT
88622015 ACGAGTTGA-CTTTTAAAAAACGAGAA-TTGAAAAT
131 ACGAGTTGATCTTTTAAAAAAC-AGAATTTGAAAAT
* * * * *
88622049 ACCTCAGCATGTAACCTGTGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGAAAGAGA
1 ACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATA
* * * * *
88622114 AATTGAAAAACAGAAATTAAAAATACCTCGACACGTAACCCAAGGTTCAACTCACCTCTCACAAT
66 AATTGAAAAACAGAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACCTCTCGCAAT
* * * *
88622179 ATGAGTTGATTTTTTTGAAAAATAGAATTTGAAAAT
131 ACGAGTTGA-TCTTTTAAAAAACAGAATTTGAAAAT
* * * *
88622215 ACCTCGGCATGTGACCCGAGGCTCAACTTACCTCCCGCAATATGAGTTGA--TTTTT----C---
1 ACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATA
* * *
88622271 ---TGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
66 AATTGAAAAACAGAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACCTCTCGCAAT
* * *
88622333 ATGAGTTGATTTTTTGAAAAACAGAATTTGAAAAT
131 ACGAGTTGATCTTTTAAAAAACAGAATTTGAAAAT
* * * *
88622368 ATCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT
1 ACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
88622423 GAAAAACAGA
Statistics
Matches: 475, Mismatches: 55, Indels: 23
0.86 0.10 0.04
Matches are distributed among these distances:
153 71 0.15
154 63 0.13
155 3 0.01
163 147 0.31
164 127 0.27
165 4 0.01
166 60 0.13
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (165 bp):
ACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATA
AATTGAAAAACAGAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACCTCTCGCAAT
ACGAGTTGATCTTTTAAAAAACAGAATTTGAAAAT
Found at i:88622118 original size:75 final size:76
Alignment explanation
Indices: 88621955--88622122 Score: 216
Period size: 75 Copynumber: 2.2 Consensus size: 76
88621945 ACATAAATTG
* *
88621955 AAAAACG-GAAATTGAAAATACCTCAACATGTAACCCGAGGCTCAACTCGCCTCTTGCAATACGA
1 AAAAACGAGAAATTGAAAATACCTCAACATGTAACCCGAGGCTCAACTCACCTCTCGCAATACGA
*
88622019 GTTGACTTTTA
66 GTTAACTTTTA
* * * *
88622030 AAAAACGAG-AATTGAAAATACCTCAGCATGTAACCTGTGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACGAGAAATTGAAAATACCTCAACATGTAACCCGAGGCTCAACTCACCTCTCGCAATACGA
* *
88622094 GTTAATTTTTT
66 GTTAACTTTTA
**
88622105 TGAAA-GAGAAATTGAAAA
1 AAAAACGAGAAATTGAAAA
88622123 ACAGAAATTA
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
74 3 0.04
75 76 0.95
76 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (76 bp):
AAAAACGAGAAATTGAAAATACCTCAACATGTAACCCGAGGCTCAACTCACCTCTCGCAATACGA
GTTAACTTTTA
Found at i:88622396 original size:76 final size:76
Alignment explanation
Indices: 88622116--88622433 Score: 494
Period size: 77 Copynumber: 4.2 Consensus size: 76
88622106 GAAAGAGAAA
* * * * * * *
88622116 TTGAAAAACAGAAATTAAAAATACCTCGACACGTAACCCAAGGTTCAACTCACCTCTCACAATAT
1 TTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCACAATAT
88622181 GAGTTGATTTTT
66 GAGTTGA-TTTT
* * * *
88622193 TTGAAAAATAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTTACCTCCCGCAATAT
1 TTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCACAATAT
88622258 GAGTTGATTTT
66 GAGTTGATTTT
*
88622269 TCTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
1 T-TGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCACAATA
88622334 TGAGTTGATTTT
65 TGAGTTGATTTT
*
88622346 TTGAAAAACAGAATTTGAAAATATCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCACAATAT
1 TTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCACAATAT
88622411 GAGTTGA-TTT
66 GAGTTGATTTT
88622421 TTGAAAAACAGAA
1 TTGAAAAACAGAA
88622434 ATTAAAACAT
Statistics
Matches: 224, Mismatches: 16, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
75 16 0.07
76 74 0.33
77 134 0.60
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.27
Consensus pattern (76 bp):
TTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCACAATAT
GAGTTGATTTT
Found at i:88622401 original size:153 final size:152
Alignment explanation
Indices: 88622116--88622440 Score: 508
Period size: 153 Copynumber: 2.1 Consensus size: 152
88622106 GAAAGAGAAA
*
88622116 TTGAAAAACAGAAATTAAAAATACCTCGACACGTAACCCAAGGTTCAACTCACCTCTCACAATAT
1 TTGAAAAACAGAAATTAAAAATACCTCGACACGTAACCCAAGGCTCAACTCACCTCTCACAATAT
* *
88622181 GAGTTGATTTTTTTGAAAAATAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTTAC
66 GAGTTGATTTTTTTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCAC
*
88622246 CTCCCGCAATATGAGTTGATTTT
131 CTCCCACAATATGAGTTGA-TTT
* * * * * * *
88622269 TCTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
1 T-TGAAAAACAGAAATTAAAAATACCTCGACACGTAACCCAAGGCTCAACTCACCTCTCACAATA
*
88622334 TGAGTTGA-TTTTTTGAAAAACAGAATTTGAAAATATCTCGGCATGTGACCCGAGGCTCAACTCA
65 TGAGTTGATTTTTTTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCA
*
88622398 CCTCTCACAATATGAGTTGATTT
130 CCTCCCACAATATGAGTTGATTT
88622421 TTGAAAAACAGAAATTAAAA
1 TTGAAAAACAGAAATTAAAA
88622441 CATCAAAGTA
Statistics
Matches: 156, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
151 17 0.11
152 4 0.03
153 72 0.46
154 63 0.40
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (152 bp):
TTGAAAAACAGAAATTAAAAATACCTCGACACGTAACCCAAGGCTCAACTCACCTCTCACAATAT
GAGTTGATTTTTTTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCAC
CTCCCACAATATGAGTTGATTT
Found at i:88634631 original size:20 final size:21
Alignment explanation
Indices: 88634585--88634631 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
88634575 AACGATATAT
*
88634585 AAATATATACGTATATCTATTA
1 AAATATATACGTATA-CTAATA
88634607 AAATATATACGTA-A-TAATA
1 AAATATATACGTATACTAATA
88634626 AGAATA
1 A-AATA
88634632 AAAAGTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 5 0.22
20 4 0.17
21 1 0.04
22 13 0.57
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (21 bp):
AAATATATACGTATACTAATA
Found at i:88634658 original size:27 final size:26
Alignment explanation
Indices: 88634606--88634658 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
88634596 TATATCTATT
* *
88634606 AAAATATATACGTAATAATAAGAATA
1 AAAATATATACATAATAATAAAAATA
* *
88634632 AAAAGTATATACATAGTATTAAAAATA
1 AAAA-TATATACATAATAATAAAAATA
88634659 TGTACATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (26 bp):
AAAATATATACATAATAATAAAAATA
Found at i:88634672 original size:25 final size:24
Alignment explanation
Indices: 88634644--88634711 Score: 82
Period size: 25 Copynumber: 2.8 Consensus size: 24
88634634 AAGTATATAC
*
88634644 ATAGTATTAAAAATATGTACATAAT
1 ATAGT-TTAAAAATATATACATAAT
* *
88634669 ATAGCGTTAAAAATACATACATAAT
1 ATAG-TTTAAAAATATATACATAAT
*
88634694 ATAGTTAAAAAATATATA
1 ATAGTTTAAAAATATATA
88634712 TATACGTAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
24 11 0.31
25 25 0.69
ACGTcount: A:0.54, C:0.06, G:0.07, T:0.32
Consensus pattern (24 bp):
ATAGTTTAAAAATATATACATAAT
Found at i:88634817 original size:14 final size:14
Alignment explanation
Indices: 88634798--88634827 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
88634788 TAGAAATAAA
88634798 AAACGACTATTAAT
1 AAACGACTATTAAT
88634812 AAACGACTATTAAT
1 AAACGACTATTAAT
88634826 AA
1 AA
88634828 TACTACATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (14 bp):
AAACGACTATTAAT
Found at i:88634917 original size:25 final size:25
Alignment explanation
Indices: 88634848--88635056 Score: 174
Period size: 23 Copynumber: 8.6 Consensus size: 25
88634838 ATATATGTAT
* *
88634848 ATATA-TATTAAAGATAAATACATA
1 ATATAGTATTAAAAATATATACATA
* *
88634872 ATA-A-TATTAAAAGTATGTACATA
1 ATATAGTATTAAAAATATATACATA
* *
88634895 ATATAGTGTTAAAAATACATACATA
1 ATATAGTATTAAAAATATATACATA
88634920 ATATAGTTATTAAAAATATATATACATA
1 ATATAG-TATT-AAAA-ATATATACATA
* *
88634948 AGATAATA-TAAAAATATATACATGA
1 ATATAGTATTAAAAATATATACAT-A
88634973 A-ATAGTA-TAAAAATATATA-ACTA
1 ATATAGTATTAAAAATATATACA-TA
88634996 ATA-A-TATTAAAAATATATACATA
1 ATATAGTATTAAAAATATATACATA
* *
88635019 ACATA-TA-TAAAAACATATACGAT-
1 ATATAGTATTAAAAATATATAC-ATA
*
88635042 ATATA-TATTAGAAAT
1 ATATAGTATTAAAAAT
88635057 GATAATAATA
Statistics
Matches: 154, Mismatches: 18, Indels: 26
0.78 0.09 0.13
Matches are distributed among these distances:
22 2 0.01
23 57 0.37
24 44 0.29
25 27 0.18
26 4 0.03
27 6 0.04
28 14 0.09
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (25 bp):
ATATAGTATTAAAAATATATACATA
Found at i:88634966 original size:28 final size:28
Alignment explanation
Indices: 88634905--88635037 Score: 75
Period size: 24 Copynumber: 5.3 Consensus size: 28
88634895 ATATAGTGTT
* * * *
88634905 AAAA-ATACATACATAATATAGTTATTA
1 AAAATATATATACATAAGATAGATATAA
88634932 AAAATATATATACATAAGATA-ATAT--
1 AAAATATATATACATAAGATAGATATAA
88634957 AAAA-ATATATACATGAA-ATAG-TAT-A
1 AAAATATATATACAT-AAGATAGATATAA
*
88634982 AAAATATATA-AC-T-A-ATA-ATAT-T
1 AAAATATATATACATAAGATAGATATAA
*
88635004 AAAA-ATATATACATAACAT--ATATAA
1 AAAATATATATACATAAGATAGATATAA
88635029 AAACATATA
1 AAA-ATATA
88635038 CGATATATAT
Statistics
Matches: 88, Mismatches: 5, Indels: 26
0.74 0.04 0.22
Matches are distributed among these distances:
21 5 0.06
22 13 0.15
23 1 0.01
24 22 0.25
25 17 0.19
26 6 0.07
27 10 0.11
28 14 0.16
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (28 bp):
AAAATATATATACATAAGATAGATATAA
Found at i:88635177 original size:15 final size:15
Alignment explanation
Indices: 88635157--88635186 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
88635147 CTAATAATAT
*
88635157 TAATAATAGATATAA
1 TAATAATAAATATAA
88635172 TAATAATAAATATAA
1 TAATAATAAATATAA
88635187 ATGCATATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
TAATAATAAATATAA
Found at i:88638551 original size:10 final size:10
Alignment explanation
Indices: 88638515--88638571 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
88638505 TAAAAAAATT
*
88638515 AATTTTTTTA
1 AATTTTTTAA
*
88638525 ACTTTATTTACA
1 AATTT-TTTA-A
*
88638537 CATTTTTTAA
1 AATTTTTTAA
88638547 AATTTTTTAA
1 AATTTTTTAA
* *
88638557 AATTATTTAG
1 AATTTTTTAA
88638567 AATTT
1 AATTT
88638572 GTTGTAATTT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
10 26 0.70
11 7 0.19
12 4 0.11
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:88644010 original size:25 final size:25
Alignment explanation
Indices: 88643970--88644097 Score: 111
Period size: 25 Copynumber: 5.1 Consensus size: 25
88643960 CATTATTTAT
* *
88643970 CTCTTATGAGCATCCC-ACTATATGG
1 CTCTCATGAGCTTCCCGA-TATATGG
** *
88643995 CTCTCACAAGCTTCCCGATATTTGG
1 CTCTCATGAGCTTCCCGATATATGG
*
88644020 CACTCATGAGCTTCCCGAT-TAATGG
1 CTCTCATGAGCTTCCCGATAT-ATGG
88644045 CTCTCATGAGCTTCCCGATA-ATTGG
1 CTCTCATGAGCTTCCCGATATA-TGG
* * *
88644070 CT-TGCAAGAGCTTCCCGTTACATGG
1 CTCT-CATGAGCTTCCCGATATATGG
88644095 CTC
1 CTC
88644098 GGAAGAGCTT
Statistics
Matches: 84, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
24 3 0.04
25 79 0.94
26 2 0.02
ACGTcount: A:0.21, C:0.30, G:0.19, T:0.30
Consensus pattern (25 bp):
CTCTCATGAGCTTCCCGATATATGG
Found at i:88644045 original size:50 final size:50
Alignment explanation
Indices: 88643991--88644097 Score: 137
Period size: 50 Copynumber: 2.1 Consensus size: 50
88643981 ATCCCACTAT
* *
88643991 ATGGCTCTCACAAGCTTCCCGATATTTGGCACT-CATGAGCTTCCCGATTA-
1 ATGGCTCTCACAAGCTTCCCGATAATTGGC-CTGCAAGAGCTTCCCG-TTAC
** *
88644041 ATGGCTCTCATGAGCTTCCCGATAATTGGCTTGCAAGAGCTTCCCGTTAC
1 ATGGCTCTCACAAGCTTCCCGATAATTGGCCTGCAAGAGCTTCCCGTTAC
88644091 ATGGCTC
1 ATGGCTC
88644098 GGAAGAGCTT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
49 4 0.08
50 46 0.92
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.30
Consensus pattern (50 bp):
ATGGCTCTCACAAGCTTCCCGATAATTGGCCTGCAAGAGCTTCCCGTTAC
Found at i:88644103 original size:25 final size:25
Alignment explanation
Indices: 88644027--88644115 Score: 101
Period size: 25 Copynumber: 3.6 Consensus size: 25
88644017 TGGCACTCAT
* *
88644027 GAGCTTCCCGATTAATGGCTCTCAT
1 GAGCTTCCCGATTAATGGCTCGCAA
*
88644052 GAGCTTCCCGA-TAATTGGCTTGCAA
1 GAGCTTCCCGATTAA-TGGCTCGCAA
*
88644077 GAGCTTCCCG-TTACATGGCTCGGAA
1 GAGCTTCCCGATTA-ATGGCTCGCAA
*
88644102 GAGCTTCCTGATTA
1 GAGCTTCCCGATTA
88644116 CATGCTCATA
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
24 3 0.06
25 47 0.87
26 4 0.07
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (25 bp):
GAGCTTCCCGATTAATGGCTCGCAA
Found at i:88644106 original size:50 final size:50
Alignment explanation
Indices: 88644003--88644109 Score: 128
Period size: 50 Copynumber: 2.1 Consensus size: 50
88643993 GGCTCTCACA
* * * *
88644003 AGCTTCCCGATATTTGGCACTCATGAGCTTCCCGATTAATGGCTCTCATG
1 AGCTTCCCGATAATTGGCACTCAAGAGCTTCCCGATTAATGGCTCGCAAG
* *
88644053 AGCTTCCCGATAATTGGC-TTGCAAGAGCTTCCCG-TTACATGGCTCGGAAG
1 AGCTTCCCGATAATTGGCACT-CAAGAGCTTCCCGATTA-ATGGCTCGCAAG
88644103 AGCTTCC
1 AGCTTCC
88644110 TGATTACATG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
49 4 0.08
50 45 0.92
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (50 bp):
AGCTTCCCGATAATTGGCACTCAAGAGCTTCCCGATTAATGGCTCGCAAG
Found at i:88646719 original size:48 final size:48
Alignment explanation
Indices: 88646616--88646800 Score: 229
Period size: 46 Copynumber: 3.9 Consensus size: 48
88646606 TGTGTGCTAA
* * * *
88646616 TGTAAGACATGTCTGGGACATGCATTGGCCAT-A-TTATGA-GAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATAT-ACAAGCCAG
* *
88646662 TGTAAGACATGTTTGGGATATGCATCGGCCTTGAGATATACAAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAAGCCAG
* * *
88646710 TGTAAGACATGTCTGGGACATGCATCGGCATTGAGAT-GA-AAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAAGCCAG
88646756 TGTAAGACATGTCTGGGACATGCATCGGCCTCT-AGATATACAAGC
1 TGTAAGACATGTCTGGGACATGCATCGGCCT-TGAGATATACAAGC
88646801 TAATGAAAAA
Statistics
Matches: 120, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
46 68 0.57
47 5 0.04
48 47 0.39
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (48 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAAGCCAG
Found at i:88646719 original size:94 final size:93
Alignment explanation
Indices: 88646616--88646800 Score: 266
Period size: 94 Copynumber: 2.0 Consensus size: 93
88646606 TGTGTGCTAA
* * * *
88646616 TGTAAGACATGTCTGGGACATGCATTGGCCA-TATTATGAGAGCCAGTGTAAGACATGTTTGGGA
1 TGTAAGACATGTCTGGGACATGCATCGG-CATTA-GATGAAAGCCAGTGTAAGACATGTCTGGGA
*
88646680 TATGCATCGGCCT-TGAGATATACAAGCCAG
64 CATGCATCGGCCTCT-AGATATACAAGCCAG
*
88646710 TGTAAGACATGTCTGGGACATGCATCGGCATTGAGATGAAAGCTAGTGTAAGACATGTCTGGGAC
1 TGTAAGACATGTCTGGGACATGCATCGGCATT-AGATGAAAGCCAGTGTAAGACATGTCTGGGAC
88646775 ATGCATCGGCCTCTAGATATACAAGC
65 ATGCATCGGCCTCTAGATATACAAGC
88646801 TAATGAAAAA
Statistics
Matches: 82, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
93 2 0.02
94 78 0.95
95 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (93 bp):
TGTAAGACATGTCTGGGACATGCATCGGCATTAGATGAAAGCCAGTGTAAGACATGTCTGGGACA
TGCATCGGCCTCTAGATATACAAGCCAG
Found at i:88646821 original size:94 final size:94
Alignment explanation
Indices: 88646622--88646825 Score: 252
Period size: 94 Copynumber: 2.2 Consensus size: 94
88646612 CTAATGTAAG
* * * * *
88646622 ACATGTCTGGGACATGCATTGGCCA-T-ATTATGAGAGCCAGTGTAAGACATGTTTGGGATATGC
1 ACATGTCTGGGACATGCATCGG-CATTGA-GATGAAAGCCAGTGTAAGACATGTCTGGGACATGC
* * *
88646685 ATCGGCCTTGAGATATACAAGCCAGTGTAAG
64 ATCGGCCTTGAGATATACAAGCCAATGAAAA
*
88646716 ACATGTCTGGGACATGCATCGGCATTGAGATGAAAGCTAGTGTAAGACATGTCTGGGACATGCAT
1 ACATGTCTGGGACATGCATCGGCATTGAGATGAAAGCCAGTGTAAGACATGTCTGGGACATGCAT
*
88646781 CGGCCTCT-AGATATACAAGCTAATGAAAA
66 CGGCCT-TGAGATATACAAGCCAATGAAAA
* *
88646810 ACCTGTTTGGGACATG
1 ACATGTCTGGGACATG
88646826 GCGTCATCTT
Statistics
Matches: 95, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
93 2 0.02
94 91 0.96
95 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (94 bp):
ACATGTCTGGGACATGCATCGGCATTGAGATGAAAGCCAGTGTAAGACATGTCTGGGACATGCAT
CGGCCTTGAGATATACAAGCCAATGAAAA
Found at i:88646824 original size:48 final size:48
Alignment explanation
Indices: 88646611--88646825 Score: 226
Period size: 46 Copynumber: 4.6 Consensus size: 48
88646601 TGATATGTGT
* * * * *
88646611 GCTAATGTAAGACATGTCTGGGACATGCATTGGCCAT-A-TTATGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATAT-ACAA
* * *
88646657 GCCAGTGTAAGACATGTTTGGGATATGCATCGGCCTTGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAA
* * *
88646705 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAT-GA-AA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAA
88646751 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCT-AGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-TGAGATATACAA
* * * * *
88646799 GCTAATGAAAAACCTGTTTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
88646826 GCGTCATCTT
Statistics
Matches: 143, Mismatches: 20, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
46 71 0.50
47 5 0.03
48 67 0.47
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAA
Found at i:88646973 original size:49 final size:48
Alignment explanation
Indices: 88646616--88646973 Score: 220
Period size: 46 Copynumber: 7.6 Consensus size: 48
88646606 TGTGTGCTAA
* * *
88646616 TGTAAGACATGTCTGGGACATGCATTGGCCAT-AT-TATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTTGATATATGAAAGCCAG
* * *
88646662 TGTAAGACATGTTTGGGATATGCATCGGCCTTGAGATAT-ACAAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTTGATATATGA-AAGCCAG
* * *
88646710 TGTAAGACATGTCTGGGACATGCATCGGCATTG--AGATGAAAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTTGATATATGAAAGCCAG
* * *
88646756 TGTAAGACATGTCTGGGACATGCATCGGCCTCTAGATATA--CAAGCTAA
1 TGTAAGACATGTCTGGGACATGCATCGGCCT-T-GATATATGAAAGCCAG
* * * * * ** * * *
88646804 TGAAAAACCTGTTTGGGACATGGCGTC-ATCTTG-T-TGTG--TGTCAG
1 TGTAAGACATGTCTGGGACAT-GCATCGGCCTTGATATATGAAAGCCAG
** * * * * * * *
88646848 TGTAAGATTTGTCTAGGATATTGCATTGACAC-CGATAGATGAGAGCCAG
1 TGTAAGACATGTCTGGGACA-TGCATCGGC-CTTGATATATGAAAGCCAG
* * * *
88646897 TGTAAGACCTGTCTAGGACACAGCATCGGCCTTGATATATGAAAGTCAG
1 TGTAAGACATGTCTGGGACA-TGCATCGGCCTTGATATATGAAAGCCAG
* *
88646946 TGTAAGACCTGTCTAGGACATGACATCG
1 TGTAAGACATGTCTGGGACATG-CATCG
88646974 ACTTTGATGT
Statistics
Matches: 238, Mismatches: 54, Indels: 37
0.72 0.16 0.11
Matches are distributed among these distances:
44 19 0.08
45 4 0.02
46 70 0.29
47 7 0.03
48 67 0.28
49 69 0.29
50 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (48 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCTTGATATATGAAAGCCAG
Found at i:88646981 original size:49 final size:48
Alignment explanation
Indices: 88646886--88647023 Score: 138
Period size: 49 Copynumber: 2.9 Consensus size: 48
88646876 ACACCGATAG
* * *
88646886 ATGAGAGCCAGTGTAAGACCTGTCTAGGACA-CAGCATCGGCCTTGATAT
1 ATGAAAGCCAGTGTAAGACCTGTCTAGGACATGAGCATCGACCTTG--AT
* *
88646935 ATGAAAGTCAGTGTAAGACCTGTCTAGGACATGA-CATCGACTTTGAT
1 ATGAAAGCCAGTGTAAGACCTGTCTAGGACATGAGCATCGACCTTGAT
* ** * *
88646982 GTGCTAGCCAATGTAAGACCATGTCTAGGACATG-GCGTCGAC
1 ATGAAAGCCAGTGTAAGACC-TGTCTAGGACATGAGCATCGAC
88647024 ATCTTATCCC
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
47 17 0.23
48 19 0.25
49 38 0.51
50 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (48 bp):
ATGAAAGCCAGTGTAAGACCTGTCTAGGACATGAGCATCGACCTTGAT
Found at i:88658050 original size:27 final size:27
Alignment explanation
Indices: 88658020--88658292 Score: 317
Period size: 27 Copynumber: 10.3 Consensus size: 27
88658010 GTAATGACCA
88658020 AAATACCCCCATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGATCG
*
88658047 AAATA-CCCCA-AGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGATCG
*
88658072 AAATA-CCCTATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGATCG
* *
88658098 AAATACCCACATAGGGTAAAAT-AACTG
1 AAATACCCCCATAGGGTAAAATGATC-G
* *
88658125 AAATACCCCTATAGGATAAAATGA-CTG
1 AAATACCCCCATAGGGTAAAATGATC-G
*
88658152 AAATACCCCCATAGGATAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGATCG
* * * * * * * *
88658179 AAATGCTCCAATATGATAAAATAACCA
1 AAATACCCCCATAGGGTAAAATGATCG
* *
88658206 AAATACCCCCATAGGG-AAAATGACCA
1 AAATACCCCCATAGGGTAAAATGATCG
88658232 AAATA-CCCCATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGATCG
*
88658258 AAATACCCCCATAGGGTAAAATGATCA
1 AAATACCCCCATAGGGTAAAATGATCG
88658285 AAATACCC
1 AAATACCC
88658293 TTGTAAGGTA
Statistics
Matches: 213, Mismatches: 26, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
25 33 0.15
26 53 0.25
27 125 0.59
28 2 0.01
ACGTcount: A:0.45, C:0.21, G:0.15, T:0.18
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGATCG
Found at i:88658691 original size:18 final size:18
Alignment explanation
Indices: 88658668--88658710 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
88658658 CGTTTACTGC
88658668 TACTGCACTGTATACCGT
1 TACTGCACTGTATACCGT
88658686 TACTGCACTGTATACCGT
1 TACTGCACTGTATACCGT
88658704 TACTGCA
1 TACTGCA
88658711 AAGGGCAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (18 bp):
TACTGCACTGTATACCGT
Found at i:88661826 original size:27 final size:27
Alignment explanation
Indices: 88661487--88661815 Score: 451
Period size: 27 Copynumber: 12.2 Consensus size: 27
88661477 GGGCCGAAGT
*
88661487 AATGACCGAAATACCCCCGTAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
* * * *
88661514 AATAATCGAAGTACCCCTATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
* *
88661541 AATGACCGAAGTACCCCTATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
88661568 AATGACCGAAATACCCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
* * *
88661595 AATGATCAAAATACCCCCATAAGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
** *
88661622 AATGATTGAAATACCCCCATAAGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
* * *
88661649 AATGATCGAAATTCTCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
*
88661676 AATGACCAAAATACCCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
* * *
88661703 AATGATCGAAATACCCCTATAGGATAA
1 AATGACCGAAATACCCCCATAGGGTAA
* *
88661730 AATGACCAAAATACCCCCATAGGATAA
1 AATGACCGAAATACCCCCATAGGGTAA
*
88661757 AATGACCGAAATACCCCTATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
88661784 AATGACCGAAATACCCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
88661811 AATGA
1 AATGA
88661816 TTGTAATACC
Statistics
Matches: 269, Mismatches: 33, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 269 1.00
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (27 bp):
AATGACCGAAATACCCCCATAGGGTAA
Found at i:88666613 original size:42 final size:41
Alignment explanation
Indices: 88666566--88666720 Score: 195
Period size: 42 Copynumber: 3.7 Consensus size: 41
88666556 AATCATTCCA
*
88666566 ATGCCATATTCCAGATATGGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACAT-GGATCTCATATCG
* *
88666608 ATGCCAATAGCCCAGCTATGGTCTTACAT-GATTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGGA-TCTCATATCG
* * * *
88666650 ATGCCATATCCCAGACATGGTCTTACACGAAATCTCATAACG
1 ATGCCATATCCCAGATATGGTCTTACATG-GATCTCATATCG
*
88666692 AGGCCATATCCCAGATATGGTCTTACATG
1 ATGCCATATCCCAGATATGGTCTTACATG
88666721 TAAACTCATA
Statistics
Matches: 97, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
41 21 0.22
42 55 0.57
43 21 0.22
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACATGGATCTCATATCG
Found at i:88666729 original size:84 final size:84
Alignment explanation
Indices: 88666566--88666730 Score: 215
Period size: 84 Copynumber: 2.0 Consensus size: 84
88666556 AATCATTCCA
* * * ** * * *
88666566 ATGCCATATTCCAGATATGGTCTTACATGGGATCTCATATCGATGCCAATAGCCCAGCTATGGTC
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCTCATAACGAGGCCAATAGCCCAGATATGGTC
**
88666631 TTACATGATTCTCATATCG
66 TTACATGAAACTCATATCG
*
88666650 ATGCCATATCCCAGACATGGTCTTACACGAAATCTCATAACGAGGCC-ATATCCCAGATATGGTC
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCTCATAACGAGGCCAATAGCCCAGATATGGTC
88666714 TTACATGTAAACTCATA
66 TTACATG-AAACTCATA
88666731 ACCCTAATAC
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
83 22 0.32
84 47 0.68
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (84 bp):
ATGCCATATCCCAGACATGGTCTTACACGAAATCTCATAACGAGGCCAATAGCCCAGATATGGTC
TTACATGAAACTCATATCG
Found at i:88673684 original size:47 final size:46
Alignment explanation
Indices: 88673608--88673924 Score: 244
Period size: 47 Copynumber: 6.8 Consensus size: 46
88673598 AGGGTGTAAC
88673608 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-CATCAA
* * * *
88673655 GTCGATGCCATGTCCCAGACATGGACTTACACTGACT-ATCGAAATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC---ATC-AA
* * *
88673704 GCCAACGCCATGTCCCAGACATGGT-TTACACTAGCTC-TCA-CATATA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATC--A-A
* * * *
88673750 CGTGCCAATGCCATATCCCAAACATGGTCTTACACTGGCACATC-TCATA
1 ---GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCA-A
* * *
88673799 GCTGATG-CATGTCCCAGAAAT-GTCTTACACTGGCTTACATC-TCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCATC-AA
* *
88673845 GCCGATG-CATGTCCCATACAT-GTCTTACACTAGCTC-TCATCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCA--TCAA
88673890 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTGG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGG
88673925 TACACAAATA
Statistics
Matches: 218, Mismatches: 31, Indels: 42
0.75 0.11 0.14
Matches are distributed among these distances:
43 2 0.01
44 15 0.07
45 16 0.07
46 52 0.24
47 59 0.27
48 14 0.06
49 47 0.22
50 10 0.05
51 3 0.01
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCAA
Found at i:88673888 original size:145 final size:144
Alignment explanation
Indices: 88673612--88673924 Score: 346
Period size: 145 Copynumber: 2.2 Consensus size: 144
88673602 TGTAACGCCG
* * * *
88673612 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGATGCCATGTCCCAGACAT
1 ATGCCATATCCCAAACATGGTCTTACACTGGCACATCCAT-AAGTCGATGCCATGTCCCAGAAAT
88673677 GGACTTACACTGACTATCGAAATCGAGGCCAACGCCATGTCCCAGACATGGTTTACACTAGCTCT
65 GGACTTACACTGACTATCGAAATCGAGGCCAACGCCATGTCCCAGACATGGTTTACACTAGCTCT
88673742 CACATATACGTGCCA
130 CACATATACGTGCCA
88673757 ATGCCATATCCCAAACATGGTCTTACACTGGCACATCTCAT-AG-CTGATG-CATGTCCCAGAAA
1 ATGCCATATCCCAAACATGGTCTTACACTGGCACATC-CATAAGTC-GATGCCATGTCCCAGAAA
* * ** * * *
88673819 T-GTCTTACACTGGCT-TAC-ATCTCGAGGCCGATG-CATGTCCCATACAT-GTCTTACACTAGC
64 TGGACTTACACTGACTAT-CGAAATCGAGGCCAACGCCATGTCCCAGACATGGT-TTACACTAGC
*
88673879 TCTCATC-TCA-A--TGCCG
127 TCTCA-CAT-ATACGTGCCA
* *
88673895 ATGCCATGTCCCAGACAT-GTCTTACACTGG
1 ATGCCATATCCCAAACATGGTCTTACACTGG
88673925 TACACAAATA
Statistics
Matches: 148, Mismatches: 14, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
137 12 0.08
138 20 0.14
139 2 0.01
140 30 0.20
141 14 0.09
142 13 0.09
143 14 0.09
144 6 0.04
145 34 0.23
146 3 0.02
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.26
Consensus pattern (144 bp):
ATGCCATATCCCAAACATGGTCTTACACTGGCACATCCATAAGTCGATGCCATGTCCCAGAAATG
GACTTACACTGACTATCGAAATCGAGGCCAACGCCATGTCCCAGACATGGTTTACACTAGCTCTC
ACATATACGTGCCA
Found at i:88682645 original size:6 final size:6
Alignment explanation
Indices: 88682640--88682720 Score: 87
Period size: 6 Copynumber: 13.8 Consensus size: 6
88682630 ATGATGTTTA
* * * *
88682640 ATTTT- ATTTT- ATCTTT- ATTTTT ATTTTT ATTTTT ATTTTT ATTTTC
1 ATTTTC ATTTTC AT-TTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC
*
88682686 ATTTTC ATTTTC ATTTTC ATTTTA ATTTTC ATTTT
1 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTT
88682721 ATGTTTTTAT
Statistics
Matches: 71, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
5 10 0.14
6 61 0.86
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (6 bp):
ATTTTC
Found at i:88682663 original size:12 final size:12
Alignment explanation
Indices: 88682636--88682731 Score: 95
Period size: 12 Copynumber: 8.0 Consensus size: 12
88682626 GATGATGATG
*
88682636 TTTAATTTTA-T
1 TTTATTTTTATT
*
88682647 TTTATCTTTATT
1 TTTATTTTTATT
88682659 TTTATTTTTATT
1 TTTATTTTTATT
88682671 TTTATTTTTATT
1 TTTATTTTTATT
* *
88682683 TTCATTTTCATT
1 TTTATTTTTATT
* *
88682695 TTCATTTTCATT
1 TTTATTTTTATT
* *
88682707 TTAATTTTCATT
1 TTTATTTTTATT
*
88682719 TTATGTTTTTATT
1 TT-TATTTTTATT
88682732 AATTTCACCT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
11 8 0.11
12 59 0.80
13 7 0.09
ACGTcount: A:0.19, C:0.06, G:0.01, T:0.74
Consensus pattern (12 bp):
TTTATTTTTATT
Found at i:88684782 original size:13 final size:13
Alignment explanation
Indices: 88684764--88684803 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
88684754 GAAGTAATCA
88684764 CACACGGGCGTGT
1 CACACGGGCGTGT
*
88684777 CACACGGGCGTGC
1 CACACGGGCGTGT
*
88684790 CACATGGGCGTGT
1 CACACGGGCGTGT
88684803 C
1 C
88684804 CCTACAGAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.15, C:0.33, G:0.38, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:88695381 original size:40 final size:39
Alignment explanation
Indices: 88695344--88695528 Score: 232
Period size: 40 Copynumber: 4.6 Consensus size: 39
88695334 GCTACTCGTT
*
88695344 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTA-CCCGGATT-TAGTAACTCGCA
88695384 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTT-ACCCGGATTTAGTAACTCGCA
88695424 CAAATGCCTTCGGGACTTACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTACCCGGATTTAGTAACTCGCA
* * * * *
88695463 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTA-CCCGGATTTAGTAAC-TCGCA
88695504 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTA-CCCGGA
88695529 CATCATTCAA
Statistics
Matches: 132, Mismatches: 7, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
38 3 0.02
39 36 0.27
40 79 0.60
41 14 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTACCCGGATTTAGTAACTCGCA
Found at i:88695459 original size:79 final size:82
Alignment explanation
Indices: 88695344--88695528 Score: 256
Period size: 79 Copynumber: 2.3 Consensus size: 82
88695334 GCTACTCGTT
*
88695344 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
88695407 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
**
88695424 CAAATGCCTTCGGGACTTA-CCCGGATT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
88695487 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
88695504 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
88695529 CATCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.61
80 34 0.36
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:88703495 original size:40 final size:40
Alignment explanation
Indices: 88703390--88703535 Score: 181
Period size: 40 Copynumber: 3.6 Consensus size: 40
88703380 GCTACTCGTT
*
88703390 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
88703430 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
88703470 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
88703511 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
88703536 CATCATTCAA
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 3 0.03
40 77 0.83
41 13 0.14
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:88712046 original size:47 final size:47
Alignment explanation
Indices: 88711985--88712108 Score: 131
Period size: 47 Copynumber: 2.6 Consensus size: 47
88711975 GTGCGAATAA
* * ** * * * *
88711985 TACCTTGAGTTGGCTACGGGCCATGATTTAGGTATTTTGTGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGATATACATACTTCGGGAGAAGT
* * *
88712032 TACCTTGATTTGGCTATGGGCCATGGTATACATACTTCGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGATATACATACTTCGGGAGAAGT
* *
88712079 TACCTTGATTTGGCTACAGGCCATGGTATA
1 TACCTTGATTTGGCTACGGGCCATGATATA
88712109 GGTTCTTATC
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 64 1.00
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGATATACATACTTCGGGAGAAGT
Found at i:88713797 original size:46 final size:46
Alignment explanation
Indices: 88713646--88713806 Score: 177
Period size: 46 Copynumber: 3.5 Consensus size: 46
88713636 CATATGTAGC
* *
88713646 GACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCG
1 GACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCG
* * * *
88713692 GACTCAACTCAATGAGCTCGGATGCCTAGTT-ACAT-C-TCA-CGAACTCG
1 GACTCAACTCAACGAGCTCGGA---C-A-TTCGCATCCATAAGTGAACTCG
*
88713739 GACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCG
1 GACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCG
*
88713785 GACTCAACTCAACGAGTTCGGA
1 GACTCAACTCAACGAGCTCGGA
88713807 TGCCCAAATA
Statistics
Matches: 95, Mismatches: 11, Indels: 18
0.77 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 49 0.52
47 27 0.28
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
GACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCG
Found at i:88713825 original size:46 final size:45
Alignment explanation
Indices: 88713682--88713812 Score: 131
Period size: 47 Copynumber: 2.8 Consensus size: 45
88713672 CGCATCCATA
* * *
88713682 AGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-C
* * * * *
88713730 A-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCC
88713775 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA
88713813 AATATCCCAG
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
44 5 0.07
45 1 0.01
46 28 0.41
47 30 0.43
48 1 0.01
49 4 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCC
Found at i:88719268 original size:93 final size:93
Alignment explanation
Indices: 88719155--88719325 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
88719145 CCCATAAGGA
* *
88719155 AACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
88719220 GAGCTCGGATGCCTAGTTACATCTCACG
66 GAGCTCGGATGCCTAGTTACATCTCACG
* * *
88719248 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
*
88719313 GAGTTCGGATGCC
66 GAGCTCGGATGCC
88719326 CAAATATCCA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCACG
Found at i:88719321 original size:46 final size:46
Alignment explanation
Indices: 88719146--88719321 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
88719136 TGTAACCCGC
* *
88719146 CCATAAG-GAAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTG-AACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
*
88719192 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * * *
88719242 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
88719285 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGA
88719322 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:88729069 original size:17 final size:16
Alignment explanation
Indices: 88729047--88729092 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
88729037 TAATTATATA
88729047 TATTAAATATATAAAAT
1 TATTAAATAT-TAAAAT
*
88729064 TATTAATTATTAAAAT
1 TATTAAATATTAAAAT
88729080 CTA-TAAA-ATTAAA
1 -TATTAAATATTAAA
88729093 CTTTAATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 6 0.23
16 9 0.35
17 11 0.42
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (16 bp):
TATTAAATATTAAAAT
Found at i:88729201 original size:30 final size:30
Alignment explanation
Indices: 88729167--88729234 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
88729157 ATTAAATTTG
*
88729167 TATATTACTAATAC-ATAAAATAATAATATA
1 TATATTACTAATACTA-AAAATAATAATACA
* * *
88729197 TATATAACTATTACTAAAAATATTAATACA
1 TATATTACTAATACTAAAAATAATAATACA
88729227 TATGATTA
1 TAT-ATTA
88729235 GTATTAATAC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
30 27 0.87
31 4 0.13
ACGTcount: A:0.53, C:0.07, G:0.01, T:0.38
Consensus pattern (30 bp):
TATATTACTAATACTAAAAATAATAATACA
Found at i:88729753 original size:22 final size:22
Alignment explanation
Indices: 88729732--88729778 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
88729722 TAATGAAATA
*
88729732 ATATAT-TTTATAAGTATTAAT
1 ATATATATTTATAACTATTAAT
*
88729753 ATATATATTTATAACTATTATT
1 ATATATATTTATAACTATTAAT
88729775 ATAT
1 ATAT
88729779 TATAGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
ATATATATTTATAACTATTAAT
Found at i:88731996 original size:3 final size:3
Alignment explanation
Indices: 88731988--88732023 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
88731978 CACATATTTG
88731988 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
88732024 ATTTTTTTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:88736492 original size:47 final size:46
Alignment explanation
Indices: 88736439--88736701 Score: 240
Period size: 47 Copynumber: 5.6 Consensus size: 46
88736429 TGGGGTAAAG
88736439 TGCCGATGCTATGTCCCAGACATGGTCTTACACTAGCTCAT-ATCTC-A
1 TGCCGATGC-ATGTCCCAGACATGGTCTTACACT-GCTC-TCATCTCAA
* *
88736486 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTC-G
1 TGCCGATG-CATGTCCCAGACATGGTCTTACACTG-CTCTCATCTCAA
* *
88736533 TAGCCGATGCATGTCCCAGACAT-GTCTTACACTGACT-TCTGTCTCGA
1 T-GCCGATGCATGTCCCAGACATGGTCTTACACTG-CTCTC-ATCTCAA
* * * *
88736580 GGCCGATGCATGTCTCAGACAT-GTCTTACACTAGCACTCGTCTCAA
1 TGCCGATGCATGTCCCAGACATGGTCTTACACT-GCTCTCATCTCAA
*
88736626 TACCGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCA--T-AA
1 TGCCGATG-CATGTCCCAGACATGGTCTTACACT-GCTCTCATCTCAA
*
88736671 TGTGGCCGATGCATGTCTCAGACAT-GTCTTA
1 --T-GCCGATGCATGTCCCAGACATGGTCTTA
88736702 AAATAGCTCA
Statistics
Matches: 187, Mismatches: 16, Indels: 27
0.81 0.07 0.12
Matches are distributed among these distances:
45 4 0.02
46 70 0.37
47 84 0.45
48 29 0.16
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
TGCCGATGCATGTCCCAGACATGGTCTTACACTGCTCTCATCTCAA
Found at i:88736686 original size:94 final size:91
Alignment explanation
Indices: 88736440--88736701 Score: 275
Period size: 94 Copynumber: 2.8 Consensus size: 91
88736430 GGGGTAAAGT
* * * *
88736440 GCCGATGCTATGTCCCAGACATGGTCTTACACTAG--CTCATATCTCATGCCGATGCCATGTCCC
1 GCCGATGC-ATGTCCCAGACATGGTCTTACACTGGCTCTCATATGT--GGCCGATG-CATGTCTC
*
88736503 AGACATGGTCTTACACTGACTATCATCTCGTA
62 AGACAT-GTCTTACACTGAC-ATCATCTCATA
* * * *
88736535 GCCGATGCATGTCCCAGACAT-GTCTTACACTGACT-TCTGTCTCGAGGCCGATGCATGTCTCAG
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATAT-GTGGCCGATGCATGTCTCAG
*
88736598 ACATGTCTTACACT-AGCACTCGTCTCAATA
64 ACATGTCTTACACTGA-CA-TCATCTC-ATA
88736628 -CCGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCTCAG
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATGTGGCCGATGCATGTCTCAG
88736692 ACATGTCTTA
64 ACATGTCTTA
88736702 AAATAGCTCA
Statistics
Matches: 142, Mismatches: 14, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
91 2 0.01
92 23 0.16
93 39 0.27
94 65 0.46
95 13 0.09
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (91 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTCTCATATGTGGCCGATGCATGTCTCAGAC
ATGTCTTACACTGACATCATCTCATA
Found at i:88736701 original size:140 final size:141
Alignment explanation
Indices: 88736440--88736701 Score: 379
Period size: 140 Copynumber: 1.9 Consensus size: 141
88736430 GGGGTAAAGT
* *
88736440 GCCGATGCTATGTCCCAGACATGGTCTTACACTAGCTCATATCTCATGCCGATGCCATGTCCCAG
1 GCCGATGCTATGTCCCAGACATGGTCTTACACTAGCACATATCTCATACCGATGCCATGTCCCAG
*
88736505 ACATGGTCTTACACTGACTATCATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGACT
66 ACATGGTCTTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGACT
88736570 TCTGTCTCGAG
131 TCTGTCTCGAG
* * *
88736581 GCCGATGC-ATGTCTCAGACAT-GTCTTACACTAGCAC-TCGTCTCAATACCGATGTCATGTCCC
1 GCCGATGCTATGTCCCAGACATGGTCTTACACTAGCACAT-ATCTC-ATACCGATGCCATGTCCC
* * * *
88736643 AGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCATGTCTCAGACATGTCTTA
64 AGACATGGTCTTACACTGACTATCAT-ATCGTAGCCGATGCATGTCCCAGACATGTCTTA
88736702 AAATAGCTCA
Statistics
Matches: 108, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
138 1 0.01
139 18 0.17
140 80 0.74
141 9 0.08
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (141 bp):
GCCGATGCTATGTCCCAGACATGGTCTTACACTAGCACATATCTCATACCGATGCCATGTCCCAG
ACATGGTCTTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGACT
TCTGTCTCGAG
Found at i:88738548 original size:21 final size:21
Alignment explanation
Indices: 88738523--88738589 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
88738513 ATTTTATGTA
88738523 ATTATATTATTATCATACATT
1 ATTATATTATTATCATACATT
* *
88738544 TTTATATTATT-TCAT-TATT
1 ATTATATTATTATCATACATT
* *
88738563 ATTATCATTATTATCATATAGT
1 ATTAT-ATTATTATCATACATT
88738585 ATTAT
1 ATTAT
88738590 TAATTGAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
19 7 0.18
20 10 0.26
21 14 0.36
22 8 0.21
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.57
Consensus pattern (21 bp):
ATTATATTATTATCATACATT
Found at i:88752678 original size:94 final size:93
Alignment explanation
Indices: 88752543--88753151 Score: 593
Period size: 94 Copynumber: 6.5 Consensus size: 93
88752533 ATCAAAGTTT
88752543 CAATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCT
1 CAATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCC-
* *
88752608 TGAAGTTGCAATAGTTTGAAATAAAATTA
65 TGAAGTTGCAATAGGTTGAAATGAAATTA
* * * * *
88752637 CAATAGCAAATCTTATCTCCCTAAAGTTGCAATGAAACAAGATGAAGCTACAAATCCTATATCCC
1 CAATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATA-CCC
* * * * * **
88752702 AGAAGTTGCAGT-GGGTCAGATTGAAGCTA
65 TGAAGTTGCAATAGGTTGA-AATGAAATTA
*
88752731 CAATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATAAAGCTACAAAT-CTCATACCC
1 CAATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCT-ATACCC
* * *
88752795 T-ATAGTTGCAGTGGGTTGGAATG-AATCTA
65 TGA-AGTTGCAATAGGTTGAAATGAAAT-TA
* ** * *
88752824 CAATAGTGAATCTTATCTCCCTGAAGTTATAGTGGAACAAGATTAAGCTACAAATCCTATACCAC
1 CAATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACC-C
** *
88752889 TGAAGTTGCTGTAGG-TCAGAATG-AATCTA
65 TGAAGTTGCAATAGGTTGA-AATGAAAT-TA
** * * * * *
88752918 CCGTAGCGAATCTTATCTCTCTGAAGTTGTAGTGGAACAAGATAAAGCTACAAATTCTATACCCC
1 CAATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATA-CCC
* *
88752983 TGAAGTTTCAATAGGTTGGAATGAAATTA
65 TGAAGTTGCAATAGGTTGAAATGAAATTA
* * * * * * *
88753012 CAATGGCAAACCTTATCTCACTGAAGTTGCAATGGAGCAAGAAGAAGTTACAAATCCTATATCCC
1 CAATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATA-CCC
* * * *
88753077 TGAAGTTGCAAT-GGAATGGATTGAAACTA
65 TGAAGTTGCAATAGG-TTGAAATGAAATTA
** * * * *
88753106 CAATAGTAAATCTTATCTCCTTGAAGCTGCAATTGAGCAAGATGAA
1 CAATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAA
88753152 ACTGTAACAC
Statistics
Matches: 427, Mismatches: 74, Indels: 28
0.81 0.14 0.05
Matches are distributed among these distances:
92 2 0.00
93 80 0.19
94 335 0.78
95 10 0.02
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.27
Consensus pattern (93 bp):
CAATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCT
GAAGTTGCAATAGGTTGAAATGAAATTA
Found at i:88752689 original size:50 final size:50
Alignment explanation
Indices: 88752635--88752783 Score: 134
Period size: 50 Copynumber: 3.1 Consensus size: 50
88752625 GAAATAAAAT
* *
88752635 TACAATAGCAAATCTTATCTCCCTAAAGTTGCAATGAAACAAGATGAAG-
1 TACAATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAACAAGATGAAGC
* * **
88752684 --C--TA-CAAATCCTATATCCC-AGAAGTTGCAGTGGGTC-AGATTGAAGC
1 TACAATAGCAAATCTTATCTCCCTA-AAGTTGCAGTGGAACAAGA-TGAAGC
* * * *
88752729 TACAATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATAAAGC
1 TACAATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAACAAGATGAAGC
88752779 TACAA
1 TACAA
88752784 ATCTCATACC
Statistics
Matches: 77, Mismatches: 13, Indels: 19
0.71 0.12 0.17
Matches are distributed among these distances:
43 4 0.05
44 29 0.38
45 2 0.03
47 2 0.03
49 2 0.03
50 35 0.45
51 3 0.04
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (50 bp):
TACAATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAACAAGATGAAGC
Found at i:88753029 original size:281 final size:282
Alignment explanation
Indices: 88752543--88753131 Score: 688
Period size: 281 Copynumber: 2.1 Consensus size: 282
88752533 ATCAAAGTTT
* * *
88752543 CAATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCT
1 CAATAGTGAATCTTATCTCCCTGAAGTTACAGTGGAACAAGATGAAGCTACAAATCCTATACCCT
**
88752608 TGAAGTTGCAATAGTTTGAAATAAAATTACAATAGCAAATCTTATCTCCCTAAAGTTGCAATGAA
66 TGAAGTTGCAATAGTCAGAAATAAAATTACAATAGCAAATCTTATCTCCCTAAAGTTGCAATGAA
* * * * * *
88752673 ACAAGATGAAGCTACAAATCCTATATCCCAGAAGTTGCAGTGGGTCAGATTGAAGCTACAATAGC
131 ACAAGATAAAGCTACAAATCCTATACCCCAGAAGTTGCAATAGGTCAGAATGAAACTACAATAGC
* * * *
88752738 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATA-AAGCTACAAAT-CTCATA-CCCT-ATA
196 AAACCTTATCTCACTGAAGTTGCAATGGAGCAAGA-AGAAGCTACAAATCCT-ATATCCCTGA-A
* ** *
88752799 GTTGCAGTGGGTTGGAATGAATCTA
258 GTTGCAATGGAATGGAATGAAACTA
* *
88752824 CAATAGTGAATCTTATCTCCCTGAAGTTATAGTGGAACAAGATTAAGCTACAAATCCTATACCAC
1 CAATAGTGAATCTTATCTCCCTGAAGTTACAGTGGAACAAGATGAAGCTACAAATCCTATACC-C
** * ** * * * * *
88752889 -TGAAGTTGCTGTAGGTCAG-AAT-GAATCTACCGTAGCGAATCTTATCTCTCTGAAGTTGTAGT
65 TTGAAGTTGCAATA-GTCAGAAATAAAAT-TACAATAGCAAATCTTATCTCCCTAAAGTTGCAAT
* * * * ** *
88752951 GGAACAAGATAAAGCTACAAATTCTATACCCCTGAAGTTTCAATAGGTTGGAATGAAATTACAAT
128 GAAACAAGATAAAGCTACAAATCCTATACCCCAGAAGTTGCAATAGGTCAGAATGAAACTACAAT
* *
88753016 GGCAAACCTTATCTCACTGAAGTTGCAATGGAGCAAGAAGAAGTTACAAATCCTATATCCCTGAA
193 AGCAAACCTTATCTCACTGAAGTTGCAATGGAGCAAGAAGAAGCTACAAATCCTATATCCCTGAA
*
88753081 GTTGCAATGGAATGGATTGAAACTA
258 GTTGCAATGGAATGGAATGAAACTA
* *
88753106 CAATAGTAAATCTTATCTCCTTGAAG
1 CAATAGTGAATCTTATCTCCCTGAAG
88753132 CTGCAATTGA
Statistics
Matches: 258, Mismatches: 43, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
280 4 0.02
281 198 0.77
282 55 0.21
283 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (282 bp):
CAATAGTGAATCTTATCTCCCTGAAGTTACAGTGGAACAAGATGAAGCTACAAATCCTATACCCT
TGAAGTTGCAATAGTCAGAAATAAAATTACAATAGCAAATCTTATCTCCCTAAAGTTGCAATGAA
ACAAGATAAAGCTACAAATCCTATACCCCAGAAGTTGCAATAGGTCAGAATGAAACTACAATAGC
AAACCTTATCTCACTGAAGTTGCAATGGAGCAAGAAGAAGCTACAAATCCTATATCCCTGAAGTT
GCAATGGAATGGAATGAAACTA
Found at i:88753084 original size:188 final size:188
Alignment explanation
Indices: 88752507--88753148 Score: 726
Period size: 188 Copynumber: 3.4 Consensus size: 188
88752497 AGTGACTCTC
* * * *
88752507 ATATCCCTGAAGATGCAGT-GGATCAG-ATCAAAGTTTCAATAGCGAATCTTATCTCCCTGAAGT
1 ATATCCCTGAAGTTGCAGTAGG-TCAGAAT-GAAGCTACAATAGCGAATCTTATCTCCCTGAAGT
* * * * * *
88752570 TGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCTTGAAGTTGCAATAGTTTGAAATAAAAT
64 TGCAGTGGAGCAAGATAAAGCTACAAATTCTATACCCCTGAAGTTGCAATAGGTTGGAATGAAAT
* *
88752635 TACAATAGCAAATCTTATCTCCCTAAAGTTGCAATGAAACAAGATGAAGCTACAAATCCT
129 TACAATAGCAAATCTTATCTCCCTGAAGTTGCAATGGAACAAGATGAAGCTACAAATCCT
* * *
88752695 ATATCCCAGAAGTTGCAGTGGGTCAGATTGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTG
1 ATATCCCTGAAGTTGCAGTAGGTCAGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTG
* *
88752760 CAGTGGAGCAAGATAAAGCTACAAA-TCTCATA-CCCT-ATAGTTGCAGTGGGTTGGAATG-AAT
66 CAGTGGAGCAAGATAAAGCTACAAATTCT-ATACCCCTGA-AGTTGCAATAGGTTGGAATGAAAT
** ** * *
88752821 CTACAATAGTGAATCTTATCTCCCTGAAGTTATAGTGGAACAAGATTAAGCTACAAATCCT
129 -TACAATAGCAAATCTTATCTCCCTGAAGTTGCAATGGAACAAGATGAAGCTACAAATCCT
* * ** *
88752882 ATA-CCACTGAAGTTGCTGTAGGTCAGAATGAATCTACCGTAGCGAATCTTATCTCTCTGAAGTT
1 ATATCC-CTGAAGTTGCAGTAGGTCAGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTT
* * *
88752946 GTAGTGGAACAAGATAAAGCTACAAATTCTATACCCCTGAAGTTTCAATAGGTTGGAATGAAATT
65 GCAGTGGAGCAAGATAAAGCTACAAATTCTATACCCCTGAAGTTGCAATAGGTTGGAATGAAATT
* * * * * *
88753011 ACAATGGCAAACCTTATCTCACTGAAGTTGCAATGGAGCAAGAAGAAGTTACAAATCCT
130 ACAATAGCAAATCTTATCTCCCTGAAGTTGCAATGGAACAAGATGAAGCTACAAATCCT
* * * * ** * *
88753070 ATATCCCTGAAGTTGCAAT-GGAAT-GGATTGAAACTACAATAGTAAATCTTATCTCCTTGAAGC
1 ATATCCCTGAAGTTGCAGTAGG--TCAGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGT
* *
88753133 TGCAATTGAGCAAGAT
64 TGCAGTGGAGCAAGAT
88753149 GAAACTGTAA
Statistics
Matches: 378, Mismatches: 63, Indels: 26
0.81 0.13 0.06
Matches are distributed among these distances:
186 6 0.02
187 154 0.41
188 208 0.55
189 10 0.03
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.27
Consensus pattern (188 bp):
ATATCCCTGAAGTTGCAGTAGGTCAGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTG
CAGTGGAGCAAGATAAAGCTACAAATTCTATACCCCTGAAGTTGCAATAGGTTGGAATGAAATTA
CAATAGCAAATCTTATCTCCCTGAAGTTGCAATGGAACAAGATGAAGCTACAAATCCT
Found at i:88753847 original size:6 final size:6
Alignment explanation
Indices: 88753836--88753868 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
88753826 TTAAATTTCA
88753836 AAAAAT AAAAAT --AAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
88753869 ACAAAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 4 0.16
6 21 0.84
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:88753855 original size:16 final size:16
Alignment explanation
Indices: 88753836--88753866 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
88753826 TTAAATTTCA
88753836 AAAAATAAAAATAAAT
1 AAAAATAAAAATAAAT
88753852 AAAAATAAAAATAAA
1 AAAAATAAAAATAAA
88753867 AAACAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAAATAAAAATAAAT
Found at i:88753876 original size:12 final size:12
Alignment explanation
Indices: 88753836--88753868 Score: 52
Period size: 10 Copynumber: 2.9 Consensus size: 12
88753826 TTAAATTTCA
88753836 AAAAATAAAAAT
1 AAAAATAAAAAT
88753848 --AAATAAAAAT
1 AAAAATAAAAAT
88753858 AAAAATAAAAA
1 AAAAATAAAAA
88753869 ACAAAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 10 0.53
12 9 0.47
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAAATAAAAAT
Found at i:88754074 original size:21 final size:21
Alignment explanation
Indices: 88754049--88754115 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
88754039 ATTTTATGTA
88754049 ATTATATTATTATCATACATT
1 ATTATATTATTATCATACATT
* *
88754070 TTTATATTATT-TCAT-TATT
1 ATTATATTATTATCATACATT
* *
88754089 ATTATCATTATTATCATATAGT
1 ATTAT-ATTATTATCATACATT
88754111 ATTAT
1 ATTAT
88754116 TAATTGAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
19 7 0.18
20 10 0.26
21 14 0.36
22 8 0.21
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.57
Consensus pattern (21 bp):
ATTATATTATTATCATACATT
Found at i:88756855 original size:33 final size:35
Alignment explanation
Indices: 88756795--88756865 Score: 85
Period size: 33 Copynumber: 2.1 Consensus size: 35
88756785 CTCGTAGTGC
* *
88756795 CATAACCCAGTTATGGTCTTTTCATTAAA-A-TGT
1 CATAACCCAGCTATGGTCTTTACATTAAATATTGT
*
88756828 CATATCCCAGCTATGGTC-TTACAATTAAATATTGT
1 CATAACCCAGCTATGGTCTTTAC-ATTAAATATTGT
88756863 CAT
1 CAT
88756866 GGTCCAACCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 3 0.09
33 22 0.69
34 1 0.03
35 6 0.19
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (35 bp):
CATAACCCAGCTATGGTCTTTACATTAAATATTGT
Done.