Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 98 of 344
Found at i:32948228 original size:43 final size:43
Alignment explanation
Indices: 32948160--32948290 Score: 149
Period size: 43 Copynumber: 3.0 Consensus size: 43
32948150 ACATTTCGTA
* ** *
32948160 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATAT
1 CAATGCCAACTTCAAAGAAGTGGTCTTACATGTAATCACATAT
*
32948203 CAATGCC-ACTGTCAAAGACAG-GGTCTTACACGTAATCACATAT
1 CAATGCCAACT-TCAAAGA-AGTGGTCTTACATGTAATCACATAT
* ** *
32948246 CGATGCCAACTTCCCAGATGTGGTCTTACATGTAATCACATAT
1 CAATGCCAACTTCAAAGAAGTGGTCTTACATGTAATCACATAT
32948289 CA
1 CA
32948291 GAAATCCTAT
Statistics
Matches: 73, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
42 3 0.04
43 66 0.90
44 4 0.05
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (43 bp):
CAATGCCAACTTCAAAGAAGTGGTCTTACATGTAATCACATAT
Found at i:32951259 original size:29 final size:29
Alignment explanation
Indices: 32951224--32951289 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
32951214 CTAAACCCAC
*
32951224 TAACCCA-AAACAAGACCCAATTACCCATT
1 TAACCCATAAACAA-AACCAATTACCCATT
***
32951253 TAACCCATCCTCAAAACCAATTACCCATT
1 TAACCCATAAACAAAACCAATTACCCATT
32951282 TAACCCAT
1 TAACCCAT
32951290 CTTCAAACCC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 29 0.91
30 3 0.09
ACGTcount: A:0.41, C:0.36, G:0.02, T:0.21
Consensus pattern (29 bp):
TAACCCATAAACAAAACCAATTACCCATT
Found at i:32951290 original size:29 final size:29
Alignment explanation
Indices: 32951240--32951301 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
32951230 AAAACAAGAC
32951240 CCAATTACCCATTTAACCCATCCTCAAAA
1 CCAATTACCCATTTAACCCATCCTCAAAA
* *
32951269 CCAATTACCCATTTAACCCATCTTCAAAC
1 CCAATTACCCATTTAACCCATCCTCAAAA
32951298 CCAA
1 CCAA
32951302 ACTAAACCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.37, C:0.39, G:0.00, T:0.24
Consensus pattern (29 bp):
CCAATTACCCATTTAACCCATCCTCAAAA
Found at i:32952571 original size:12 final size:12
Alignment explanation
Indices: 32952530--32952571 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
32952520 GTGTATGTTT
32952530 TATTATATAT-G
1 TATTATATATAG
*
32952541 TATGTATATATAT
1 TAT-TATATATAG
*
32952554 TTTTATATATAG
1 TATTATATATAG
32952566 TATTAT
1 TATTAT
32952572 TTTAATTACT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
11 3 0.12
12 20 0.80
13 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (12 bp):
TATTATATATAG
Found at i:32952703 original size:23 final size:22
Alignment explanation
Indices: 32952654--32952709 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
32952644 ATTAGTAGTA
* * *
32952654 GTATATGTTTTATTATATATGC
1 GTATATATTTAATTATATATAC
* *
32952676 ATATATCTTTAATATATATATAC
1 GTATATATTTAAT-TATATATAC
32952699 GTATATATTTA
1 GTATATATTTA
32952710 GGTAGTATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 10 0.37
23 17 0.63
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (22 bp):
GTATATATTTAATTATATATAC
Found at i:32953091 original size:47 final size:46
Alignment explanation
Indices: 32953035--32953226 Score: 157
Period size: 47 Copynumber: 4.1 Consensus size: 46
32953025 GGTATATAGG
32953035 TATATATTTTATATATATTATGTATATATTTTTAATATTATTA-GTTA
1 TATATATTTTATATATATTATGTATATATTTTTAATA-TATTATG-TA
*
32953082 TATATATTTT-TATACTATTTCATGTATATA-TTTTATTATATTATGTA
1 TATATATTTTATATA-TA-TT-ATGTATATATTTTTAATATATTATGTA
* * *
32953129 TATAT-TTTAATAACTATATTATGTATGTATTTTTAATGCTATTTTATGTA
1 TATATATTTTAT-A-TATATTATGTATATATTTTTAA---TATATTATGTA
* * *
32953179 TATA-CTTTTA-ATATTATTATGCATTTA-TTTTAATATA-TATGTA
1 TATATATTTTATATA-TATTATGTATATATTTTTAATATATTATGTA
*
32953222 CATAT
1 TATAT
32953227 TTATGTAGTA
Statistics
Matches: 121, Mismatches: 10, Indels: 31
0.75 0.06 0.19
Matches are distributed among these distances:
43 9 0.07
44 3 0.02
46 15 0.12
47 40 0.33
48 25 0.21
49 11 0.09
50 18 0.15
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.57
Consensus pattern (46 bp):
TATATATTTTATATATATTATGTATATATTTTTAATATATTATGTA
Found at i:32953147 original size:25 final size:23
Alignment explanation
Indices: 32953034--32953354 Score: 188
Period size: 25 Copynumber: 13.9 Consensus size: 23
32953024 AGGTATATAG
32953034 GTATATATTTT-ATATATATTAT
1 GTATATATTTTAATATATATTAT
32953056 GTATATATTTTTAATAT-TATTAGTT
1 GTATATA-TTTTAATATATATTA--T
* *
32953081 ATATATATTTTTATACTAT-TTCAT
1 GTATATATTTTAATA-TATATT-AT
32953105 GTATATATTTT-AT-TATATTAT
1 GTATATATTTTAATATATATTAT
32953126 GTATATATTTTAATAACTATATTAT
1 GTATATATTTTAAT-A-TATATTAT
* * *
32953151 GTATGTATTTTTAATGCTATTTTAT
1 GTATATA-TTTTAAT-ATATATTAT
32953176 GTATATACTTTTAATAT-TATTAT
1 GTATATA-TTTTAATATATATTAT
* *
32953199 GCATTTATTTT-A-ATATA-TAT
1 GTATATATTTTAATATATATTAT
* *
32953219 GTACATA-TTT-ATGTAGTATTAT
1 GTATATATTTTAATATA-TATTAT
* *
32953241 -TAATATATATT-ATTTATATTAT
1 GT-ATATATTTTAATATATATTAT
* *
32953263 -TAGTAT-TTCTAATATATATTGT
1 GTA-TATATTTTAATATATATTAT
* *
32953285 ATATGTTCATTTT-ATATATATTAT
1 GTAT-AT-ATTTTAATATATATTAT
* * *
32953309 GTACATATATTTATTATTATTATTAC
1 GTATATAT-TTTAATA-TA-TATTAT
* *
32953335 GTACATACTTTAATATATAT
1 GTATATATTTTAATATATAT
32953355 ATAGCACTAT
Statistics
Matches: 236, Mismatches: 34, Indels: 57
0.72 0.10 0.17
Matches are distributed among these distances:
19 4 0.02
20 11 0.05
21 25 0.11
22 44 0.19
23 37 0.16
24 39 0.17
25 55 0.23
26 21 0.09
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.56
Consensus pattern (23 bp):
GTATATATTTTAATATATATTAT
Found at i:32953181 original size:95 final size:89
Alignment explanation
Indices: 32953027--32953228 Score: 219
Period size: 95 Copynumber: 2.2 Consensus size: 89
32953017 CGAATATAGG
* * *
32953027 TATATAGGTATATATTTTATATATATTATGTATATATTTTTAATATTATTAGTTATATATATTTT
1 TATATATGTATATATTTTATATATATTATGTATATATTTTTAATACTATTA-TTATATATACTTT
* *
32953092 TATACTATT-TCATGTATATATTTTAT
65 TA-A-TATTATCATGCATATATTTTAA
* *
32953118 TATATTATGTATATATTTTAATAACTATATTATGTATGTATTTTTAATGCTATT-TTATGTATAT
1 TATA-TATGTATATATTTT-AT-A-TATATTATGTATATATTTTTAATACTATTATTA--TATAT
* *
32953182 ACTTTTAATATTATTATGCATTTATTTTAA
60 ACTTTTAATATTATCATGCATATATTTTAA
*
32953212 TATATATGTACATATTT
1 TATATATGTATATATTT
32953229 ATGTAGTATT
Statistics
Matches: 94, Mismatches: 10, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
91 4 0.04
92 13 0.14
93 21 0.22
94 19 0.20
95 37 0.39
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (89 bp):
TATATATGTATATATTTTATATATATTATGTATATATTTTTAATACTATTATTATATATACTTTT
AATATTATCATGCATATATTTTAA
Found at i:32953276 original size:31 final size:30
Alignment explanation
Indices: 32953204--32953282 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 30
32953194 ATTATGCATT
32953204 TATTTTAATATATATGTACATATTTATGTAG
1 TATTTTAATATATAT-TACATATTTATGTAG
**
32953235 TATTATTAATATATATTATTTATATTAT-TAG
1 TATT-TTAATATATATTACATAT-TTATGTAG
32953266 TATTTCTAATATATATT
1 TATTT-TAATATATATT
32953283 GTATATGTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
30 1 0.02
31 27 0.63
32 15 0.35
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.56
Consensus pattern (30 bp):
TATTTTAATATATATTACATATTTATGTAG
Found at i:32953325 original size:26 final size:25
Alignment explanation
Indices: 32953296--32953356 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
32953286 TATGTTCATT
*
32953296 TTATATATATTATGTACATATATTTA
1 TTATATATATTACGTACATA-ATTTA
*
32953322 TTAT-TATTATTACGTACATACTTTA
1 TTATATA-TATTACGTACATAATTTA
*
32953347 ATATATATAT
1 TTATATATAT
32953357 AGCACTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 12 0.40
26 18 0.60
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (25 bp):
TTATATATATTACGTACATAATTTA
Found at i:32955741 original size:75 final size:74
Alignment explanation
Indices: 32955618--32955993 Score: 334
Period size: 75 Copynumber: 4.9 Consensus size: 74
32955608 CAAGACACGT
* * * *
32955618 TGAGGTATTTTCAAATTCTGTCTT--TAAAAAATCAACTCATATTGCGAGAGGGGAGTTGAGCCT
1 TGAGGTATTTTCAATTTATGT-TTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
32955681 CAAGT-CACAC
65 C-AGTACACAC
* *
32955691 TGAGGTATTCTCAATTTATGTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCT
1 TGAGGTATTTTCAATTTATGTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
**
32955756 CAG-ACATGC
65 CAGTACACAC
* **
32955765 CGAGGTATTTTCAAATTT-TGTTTTTCAGTTTTTGTTTCAAAAATCAACTCATATTGCGAGAGGT
1 TGAGGTATTTTC-AATTTATG--TTTCA---------AAAAAAATCAACTCATATTGCGAGAGGT
*
32955829 GAGTTGAGCCTCAAATCACACAC
54 GAGTTGAGCCTC-AGT-ACACAC
* * * *
32955852 TAAGGTATTTTCAATTTATGATTC-AAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCTTC
1 TGAGGTATTTTCAATTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
32955916 AGATCACACAC
66 AG-T-ACACAC
* *
32955927 TGAGGTATTATTTTAATTTATGTTTTTC-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAG
1 TGAGGTA-T-TTTCAATTTATG--TTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
32955991 CCT
62 CCT
32955994 TGGGTCACAT
Statistics
Matches: 248, Mismatches: 30, Indels: 44
0.77 0.09 0.14
Matches are distributed among these distances:
72 2 0.01
73 18 0.07
74 18 0.07
75 93 0.38
76 5 0.02
77 11 0.04
79 39 0.16
84 37 0.15
85 4 0.02
86 5 0.02
87 16 0.06
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (74 bp):
TGAGGTATTTTCAATTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
AGTACACAC
Found at i:32956032 original size:14 final size:13
Alignment explanation
Indices: 32956013--32956048 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
32956003 TGTTGAGGTA
32956013 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
32956026 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
32956040 TTTTCAAAA
1 TTTTCAAAA
32956049 ATCAACTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:32956118 original size:88 final size:87
Alignment explanation
Indices: 32955957--32956166 Score: 226
Period size: 88 Copynumber: 2.4 Consensus size: 87
32955947 TGTTTTTCAA
* * * * *
32955957 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGTCACATGTTGAGGTATTTTCAAAA
1 AAAAATCAACTCAGATTGCGAGAAGTGAGTTGAGCCTTGGCTCACATGCTAAGCTATTTTCAAAA
*
32956022 TCTGTTTTTCAAAT-TCTGTTTTC
66 TCTATTTTT--AATGTCTGTTTTC
* * * **
32956045 AAAAATCAACTTAGATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTAAGCTATTTTCAATT
1 AAAAATCAACTCAGATTGCGAGAAGTGAGTTGAGCCTTGGCTCACATGCTAAGCTATTTTCAAAA
*
32956110 TTTATTTTTAATGTCTGTTTT-
66 TCTATTTTTAATGTCTGTTTTC
* * * * *
32956131 AAAGAGTCAATTCATATTGCAAGAAATGAGTTGAGC
1 AAA-AATCAACTCAGATTGCGAGAAGTGAGTTGAGC
32956167 TCAGGATCAC
Statistics
Matches: 101, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
86 6 0.06
87 33 0.33
88 62 0.61
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.37
Consensus pattern (87 bp):
AAAAATCAACTCAGATTGCGAGAAGTGAGTTGAGCCTTGGCTCACATGCTAAGCTATTTTCAAAA
TCTATTTTTAATGTCTGTTTTC
Found at i:32956729 original size:29 final size:29
Alignment explanation
Indices: 32956697--32956760 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
32956687 CTAAAACAAG
32956697 ACCCAATTACCCATTTAACCCATCCTCAA
1 ACCCAATTACCCATTTAACCCATCCTCAA
*
32956726 ACCCAATTACCCATTTAACCCATCTTCAA
1 ACCCAATTACCCATTTAACCCATCCTCAA
32956755 ACCCAA
1 ACCCAA
32956761 ACTAAACCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.36, C:0.41, G:0.00, T:0.23
Consensus pattern (29 bp):
ACCCAATTACCCATTTAACCCATCCTCAA
Found at i:32957499 original size:6 final size:6
Alignment explanation
Indices: 32957481--32957600 Score: 68
Period size: 6 Copynumber: 19.3 Consensus size: 6
32957471 AAGAAACATT
* * *
32957481 ATCAGA A-CTAGA ATCAGA ACCAGA ATCAAA ATTAG- ATGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
32957530 ATCAGA ATCAGT ATCAGGTA A-CTGA ATCAAA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
32957581 A-CAGA ATCAAAA ATCAGA AT
1 ATCAGA ATC-AGA ATCAGA AT
32957601 GTGAATGCAA
Statistics
Matches: 86, Mismatches: 16, Indels: 24
0.68 0.13 0.19
Matches are distributed among these distances:
5 7 0.08
6 62 0.72
7 13 0.15
8 4 0.05
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:32957557 original size:31 final size:31
Alignment explanation
Indices: 32957465--32957600 Score: 132
Period size: 31 Copynumber: 4.4 Consensus size: 31
32957455 TAACCCATTA
* * *
32957465 CAGAATAAGAAACATTATCA-G-AACTAGAAT
1 CAGAATCAGAATCAGTATCAGGTAAC-AGAAT
* ** * * *
32957495 CAGAACCAGAATCAAAATTAGATGACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
*
32957526 CAGAATCAGAATCAGTATCAGGTAACTGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
*
32957557 CAAAATCAGAATCAGTATCAGGTAACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
*
32957588 CAAAAATCAGAAT
1 C-AGAATCAGAAT
32957601 GTGAATGCAA
Statistics
Matches: 86, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
30 14 0.16
31 59 0.69
32 13 0.15
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.19
Consensus pattern (31 bp):
CAGAATCAGAATCAGTATCAGGTAACAGAAT
Found at i:32957767 original size:27 final size:27
Alignment explanation
Indices: 32957737--32957838 Score: 118
Period size: 27 Copynumber: 3.8 Consensus size: 27
32957727 GATCAGTTAT
* * *
32957737 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGAGA
32957764 CAGATATTGTGGCAGAGCCACCA-AGA
1 CAGATATTGTGGCAGAGCCACCAGAGA
*
32957790 CAGATATTTGTGGCATAGCCACCAGAAGA
1 CAGATA-TTGTGGCAGAGCCACCAG-AGA
* *
32957819 -AGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
32957839 TTAGTAGAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.12
27 50 0.76
28 5 0.08
29 3 0.05
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGAGA
Found at i:32958024 original size:22 final size:22
Alignment explanation
Indices: 32957996--32958060 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
32957986 GCAAATACGT
*
32957996 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
32958018 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
32958040 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
32958061 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:32958545 original size:27 final size:27
Alignment explanation
Indices: 32958505--32958735 Score: 311
Period size: 27 Copynumber: 8.6 Consensus size: 27
32958495 TACCCCATAA
* * * *
32958505 GGTATCTCGATAATTCCACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
**
32958532 GGTATTTTAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
32958559 GGTATTTCGGTAATTCTACCTTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
32958586 GGTATTGT-GATAATTCTACCCAACAGG
1 GGTATT-TCGGTAATTCTACCCTACAGG
32958613 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
32958640 TGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
32958667 GGTATTTCGGTATTTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
32958694 GGTATTTCGGTATTTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
32958721 GGTATCTCAGTAATT
1 GGTATTTCGGTAATT
32958736 TTATAAATCG
Statistics
Matches: 181, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 179 0.99
28 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:32958804 original size:27 final size:27
Alignment explanation
Indices: 32958755--32959306 Score: 378
Period size: 27 Copynumber: 20.3 Consensus size: 27
32958745 GAGGGTAAAA
*
32958755 TGGTAATTCTGTA-AAT-TAGGGGTACTT
1 TGGTAATT-T-TACAATCTAGGGGTATTT
*
32958782 TGGTAATTTTACAAGTCGA-GGGTATTT
1 TGGTAATTTTACAA-TCTAGGGGTATTT
*** * *
32958809 CAATAATTTTACAGGT-TAAGGGTATTT
1 TGGTAATTTTACA-ATCTAGGGGTATTT
** *
32958836 CAGTAATTTCACAAATC-AGGGGTATTT
1 TGGTAATTTTAC-AATCTAGGGGTATTT
*
32958863 TGGTAATTTTACAAACTAGGGGTATTT
1 TGGTAATTTTACAATCTAGGGGTATTT
* *
32958890 TAGTAATTTCACAAAT-TAGGGGTATTT
1 TGGTAATTTTAC-AATCTAGGGGTATTT
*
32958917 TGGTAATTTTACAAACTAGGGGTATTT
1 TGGTAATTTTACAATCTAGGGGTATTT
* * * * *
32958944 TGGTAATTTTATAAACAAAGGGTCTTT
1 TGGTAATTTTACAATCTAGGGGTATTT
* *
32958971 TAGTAATTTTACAAACTAGGGGTATTT
1 TGGTAATTTTACAATCTAGGGGTATTT
** * **
32958998 TGGTAATTTTGTAAACTAATGGTATTT
1 TGGTAATTTTACAATCTAGGGGTATTT
* * *
32959025 TGGTAATTTTACAAACCAGTGGTATTT
1 TGGTAATTTTACAATCTAGGGGTATTT
* * * * * *
32959052 TGGTGATTTTATAAACCAAGGGTATTC
1 TGGTAATTTTACAATCTAGGGGTATTT
* * * *
32959079 TAGTAATTTTACAAACCAAGGGTATTTT
1 TGGTAATTTTACAATCTAGGGGTA-TTT
** * * **
32959107 TGGTAATTTTGTAAACCAATGGTATTT
1 TGGTAATTTTACAATCTAGGGGTATTT
* * *
32959134 TAGTAATTTTACAAACCAGGGGTATTT
1 TGGTAATTTTACAATCTAGGGGTATTT
* * * *
32959161 TGGTAATTTTATAAACCAAGGGTATTT
1 TGGTAATTTTACAATCTAGGGGTATTT
* * *
32959188 TAGTAATTTTACAAACCAGGGGTATTT
1 TGGTAATTTTACAATCTAGGGGTATTT
** * * *
32959215 TGGTAATTTTGTAAACCAAGGGTATTT
1 TGGTAATTTTACAATCTAGGGGTATTT
* * **
32959242 TAGTAATTTTACAAACCGGGGGTATTT
1 TGGTAATTTTACAATCTAGGGGTATTT
* * *
32959269 TGGTAAAATTTTACAAACCAGGGATATTT
1 TGGT--AATTTTACAATCTAGGGGTATTT
32959298 TGGTAATTT
1 TGGTAATTT
32959307 AGTAAACTAA
Statistics
Matches: 437, Mismatches: 75, Indels: 26
0.81 0.14 0.05
Matches are distributed among these distances:
25 2 0.00
26 9 0.02
27 375 0.86
28 26 0.06
29 25 0.06
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
TGGTAATTTTACAATCTAGGGGTATTT
Found at i:32959313 original size:27 final size:26
Alignment explanation
Indices: 32958827--32959306 Score: 483
Period size: 27 Copynumber: 17.7 Consensus size: 26
32958817 TTACAGGTTA
** * *
32958827 AGGGTATTTCAGTAATTTCACAAATC
1 AGGGTATTTTGGTAATTTTACAAACC
*
32958853 AGGGGTATTTTGGTAATTTTACAAACT
1 A-GGGTATTTTGGTAATTTTACAAACC
* * **
32958880 AGGGGTATTTTAGTAATTTCACAAATT
1 A-GGGTATTTTGGTAATTTTACAAACC
*
32958907 AGGGGTATTTTGGTAATTTTACAAACT
1 A-GGGTATTTTGGTAATTTTACAAACC
* *
32958934 AGGGGTATTTTGGTAATTTTATAAACAA
1 A-GGGTATTTTGGTAATTTTACAAAC-C
* * *
32958962 AGGGTCTTTTAGTAATTTTACAAACT
1 AGGGTATTTTGGTAATTTTACAAACC
** *
32958988 AGGGGTATTTTGGTAATTTTGTAAACTA
1 A-GGGTATTTTGGTAATTTTACAAAC-C
*
32959016 ATGGTATTTTGGTAATTTTACAAACC
1 AGGGTATTTTGGTAATTTTACAAACC
* *
32959042 AGTGGTATTTTGGTGATTTTATAAACC
1 AG-GGTATTTTGGTAATTTTACAAACC
* *
32959069 AAGGGTATTCTAGTAATTTTACAAACC
1 -AGGGTATTTTGGTAATTTTACAAACC
**
32959096 AAGGGTATTTTTGGTAATTTTGTAAACC
1 -AGGGTA-TTTTGGTAATTTTACAAACC
* *
32959124 AATGGTATTTTAGTAATTTTACAAACC
1 -AGGGTATTTTGGTAATTTTACAAACC
*
32959151 AGGGGTATTTTGGTAATTTTATAAACC
1 A-GGGTATTTTGGTAATTTTACAAACC
*
32959178 AAGGGTATTTTAGTAATTTTACAAACC
1 -AGGGTATTTTGGTAATTTTACAAACC
**
32959205 AGGGGTATTTTGGTAATTTTGTAAACC
1 A-GGGTATTTTGGTAATTTTACAAACC
*
32959232 AAGGGTATTTTAGTAATTTTACAAACC
1 -AGGGTATTTTGGTAATTTTACAAACC
*
32959259 GGGGGTATTTTGGTAAAATTTTACAAACC
1 -AGGGTATTTTGGT--AATTTTACAAACC
32959288 AGGGATATTTTGGTAATTT
1 AGGG-TATTTTGGTAATTT
32959307 AGTAAACTAA
Statistics
Matches: 384, Mismatches: 56, Indels: 27
0.82 0.12 0.06
Matches are distributed among these distances:
26 5 0.01
27 326 0.85
28 31 0.08
29 22 0.06
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (26 bp):
AGGGTATTTTGGTAATTTTACAAACC
Found at i:32959706 original size:20 final size:22
Alignment explanation
Indices: 32959663--32959707 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
32959653 CTCATTATAC
**
32959663 TTTTAATATTATTATGTATTTA
1 TTTTAATATTATTATGTACATA
32959685 TTTTAATA-TA-TATGTACATA
1 TTTTAATATTATTATGTACATA
32959705 TTT
1 TTT
32959708 ATGTAGTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
21 2 0.10
22 8 0.38
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (22 bp):
TTTTAATATTATTATGTACATA
Found at i:32959706 original size:24 final size:22
Alignment explanation
Indices: 32959663--32959730 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
32959653 CTCATTATAC
**
32959663 TTTTAATATTATTATGTATTTA
1 TTTTAATATTATTACATATTTA
32959685 TTTTAATATATATGTACATATTTA
1 TTTTAATAT-TAT-TACATATTTA
* * *
32959709 -TGTAGTATTATTA-ATATATA
1 TTTTAATATTATTACATATTTA
32959729 TT
1 TT
32959731 ATTTATGTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
20 6 0.16
21 3 0.08
22 12 0.32
23 9 0.24
24 8 0.21
ACGTcount: A:0.35, C:0.01, G:0.06, T:0.57
Consensus pattern (22 bp):
TTTTAATATTATTACATATTTA
Found at i:32959755 original size:31 final size:30
Alignment explanation
Indices: 32959668--32959770 Score: 108
Period size: 31 Copynumber: 3.5 Consensus size: 30
32959658 TATACTTTTA
32959668 ATATTAT-TATG-TATT--TATTTTAATAT
1 ATATTATATATGTTATTAGTATTTTAATAT
*
32959694 ATATGTACATAT-TTATGTAGTATTATTAATAT
1 ATAT-TATATATGTTAT-TAGTATT-TTAATAT
*
32959726 ATATTATTTATGTTATTAGTATTTCTAATAT
1 ATATTATATATGTTATTAGTATTT-TAATAT
*
32959757 ATATTGTATATGTT
1 ATATTATATATGTT
32959771 CATTTTATAA
Statistics
Matches: 63, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
26 4 0.06
27 2 0.03
28 6 0.10
29 1 0.02
30 1 0.02
31 34 0.54
32 15 0.24
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.56
Consensus pattern (30 bp):
ATATTATATATGTTATTAGTATTTTAATAT
Found at i:32964618 original size:79 final size:81
Alignment explanation
Indices: 32964509--32964691 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
32964499 TACTCGTTCA
* * *
32964509 AATGCTTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
32964572 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
32964589 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
32964652 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
32964668 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
32964692 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 27 0.30
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:32964691 original size:40 final size:40
Alignment explanation
Indices: 32964488--32964691 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
32964478 CAGAATTTAA
** * *
32964488 CCGGATATAGCT-ACTCGTTCAAATGCTTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
32964528 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
32964568 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
32964607 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
32964647 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
32964687 CCGGA
1 CCGGA
32964692 CATCATTCGA
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 93 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:32977446 original size:40 final size:40
Alignment explanation
Indices: 32977400--32977583 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 40
32977390 ACTACTCGTT
* * *
32977400 CAAATGCTTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGTTATAGTAACTCGCA
32977440 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-TTATAGTAACTCGCA
* *
32977480 CCAATGCCTTCGGG-CTTAACCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGTTA-TAGTAACTCGCA
** * * ** *
32977519 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCGCTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGTTATAGTAAC-TCGCA
*
32977560 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACCCGG
32977584 ACATCATTCG
Statistics
Matches: 122, Mismatches: 14, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 74 0.61
41 14 0.11
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGTTATAGTAACTCGCA
Found at i:32977510 original size:39 final size:40
Alignment explanation
Indices: 32977400--32977531 Score: 187
Period size: 40 Copynumber: 3.3 Consensus size: 40
32977390 ACTACTCGTT
* * * *
32977400 CAAATGCTTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAAT-TAGTAACTCGCA
*
32977440 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
*
32977480 CCAATGCCTTCGGG-CTTAACCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
32977519 CAAATGCCTTCGG
1 CAAATGCCTTCGG
32977532 ATCTTAGTCC
Statistics
Matches: 85, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
39 36 0.42
40 47 0.55
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
Found at i:32977568 original size:79 final size:80
Alignment explanation
Indices: 32977428--32977584 Score: 194
Period size: 79 Copynumber: 2.0 Consensus size: 80
32977418 AGCCCGGTTA
* * *
32977428 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCGG
32977493 G-CTTAACCCGGAAT
66 GACTTAACCCGGAAT
** * **
32977507 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCGCTTAGCA-CAAAGCCTTC
1 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCACCAAAGCCTTC
*
32977570 GGGACTTAGCCCGGA
64 GGGACTTAACCCGGA
32977585 CATCATTCGA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
78 3 0.05
79 49 0.74
80 14 0.21
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCGG
GACTTAACCCGGAAT
Found at i:32997954 original size:13 final size:13
Alignment explanation
Indices: 32997936--32997962 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32997926 AAATAGACTT
32997936 AGACTATTACTCA
1 AGACTATTACTCA
32997949 AGACTATTACTCA
1 AGACTATTACTCA
32997962 A
1 A
32997963 TCAAAACCGA
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:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (13 bp):
AGACTATTACTCA
Found at i:33005544 original size:25 final size:25
Alignment explanation
Indices: 33005515--33005566 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
33005505 AAGAATAATT
**
33005515 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCCGATATTGCCTAATAAA
* *
33005540 TGAATATCCGATATTGCTTAGTAAA
1 TGAATATCCGATATTGCCTAATAAA
33005565 TG
1 TG
33005567 TCAAGCCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (25 bp):
TGAATATCCGATATTGCCTAATAAA
Found at i:33011658 original size:15 final size:15
Alignment explanation
Indices: 33011638--33011668 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33011628 CATAACATAT
33011638 AACCAAAACAACCAC
1 AACCAAAACAACCAC
*
33011653 AACCAAAACATCCAC
1 AACCAAAACAACCAC
33011668 A
1 A
33011669 CATGGATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.39, G:0.00, T:0.03
Consensus pattern (15 bp):
AACCAAAACAACCAC
Found at i:33012407 original size:50 final size:50
Alignment explanation
Indices: 33012323--33012759 Score: 503
Period size: 50 Copynumber: 8.9 Consensus size: 50
33012313 GGTAAAATGT
*
33012323 CGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGC
* * *
33012373 TGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATATATTGGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGC
* *
33012423 TGATGCTATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGC
* * *
33012473 CAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGGGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGC
* * *
33012523 CGATGCCATATCCCAGACATGGTATTACACTGGCTCTCATATATTGGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGC
* **
33012573 CGATGCCATGTCCCAAACATGGTCTTACACTGGCT-TACATA-A-CAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATATATCGGTGC
* * * *
33012621 CGATGCCATGTTCCAAACATGGTCTTAAACTGGCTCACATAT-T-GAG-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCG-GTGC
* ** ** * ** *
33012669 CGATGTCATGTCCCAGATGTGGTCTTACACTAACCCTCATA-A-CAATGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGC
* * * * *
33012717 CAATGCCATGTTCCAAACATGGTCTTACACTAGCTCGCATATA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATA
33012760 ACCCTAGTAT
Statistics
Matches: 327, Mismatches: 51, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
48 106 0.32
49 3 0.01
50 218 0.67
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (50 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGC
Found at i:33014089 original size:28 final size:29
Alignment explanation
Indices: 33014047--33014102 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
33014037 TGCAAAAAAA
* *
33014047 AAAAGAAAGCCTTTGTGGTGATTTATGAT
1 AAAAGAAAGCCTTTGTGGCGATCTATGAT
*
33014076 AAAAG-AAGCGTTTGTGGCGATCTATGA
1 AAAAGAAAGCCTTTGTGGCGATCTATGA
33014103 AGGGAATGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (29 bp):
AAAAGAAAGCCTTTGTGGCGATCTATGAT
Found at i:33016083 original size:2 final size:2
Alignment explanation
Indices: 33016076--33016130 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
33016066 ACATCGTCAG
33016076 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
33016118 AC AC AC AC AC AC A
1 AC AC AC AC AC AC A
33016131 TATATATACC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:33018946 original size:16 final size:18
Alignment explanation
Indices: 33018927--33018959 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
33018917 AATAATATGT
33018927 ATAATAT-T-TAAAATAA
1 ATAATATATGTAAAATAA
33018943 ATAATATATGTAAAATA
1 ATAATATATGTAAAATA
33018960 TTTAAAATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
ATAATATATGTAAAATAA
Found at i:33018959 original size:27 final size:27
Alignment explanation
Indices: 33018847--33018985 Score: 110
Period size: 27 Copynumber: 5.2 Consensus size: 27
33018837 AACATATAAG
* *
33018847 AAAT-TTTAAATTAAATAATATACACGTA
1 AAATATTTAAAATAAATAATAT--ATGTA
* *
33018875 TAATAGTTTAAAATAAA-AGATATAT-AA
1 AAATA-TTTAAAATAAATA-ATATATGTA
*
33018902 AAAAATTTCAAAATAAAT-A-ATATGTA
1 AAATATTT-AAAATAAATAATATATGTA
*
33018928 TAATATTTAAAATAAATAATATATGTA
1 AAATATTTAAAATAAATAATATATGTA
** *
33018955 AAATATTTAAAATCTATAATA-ATTTA
1 AAATATTTAAAATAAATAATATATGTA
33018981 AAATA
1 AAATA
33018986 CATAAGACGT
Statistics
Matches: 90, Mismatches: 13, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
25 13 0.14
26 21 0.23
27 37 0.41
28 4 0.04
29 1 0.01
30 14 0.16
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.36
Consensus pattern (27 bp):
AAATATTTAAAATAAATAATATATGTA
Found at i:33019796 original size:20 final size:21
Alignment explanation
Indices: 33019762--33019805 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
33019752 TTAAAAAAAG
*
33019762 AAAATCCATGAATAAACATAAA
1 AAAATCCAT-AATAAACAGAAA
33019784 AAAATCCAT-ATAAACAGAAA
1 AAAATCCATAATAAACAGAAA
33019804 AA
1 AA
33019806 TGAAAGAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.57
22 9 0.43
ACGTcount: A:0.66, C:0.14, G:0.05, T:0.16
Consensus pattern (21 bp):
AAAATCCATAATAAACAGAAA
Found at i:33020603 original size:45 final size:45
Alignment explanation
Indices: 33020548--33020710 Score: 168
Period size: 45 Copynumber: 3.6 Consensus size: 45
33020538 TCAATCTGCC
* *
33020548 CCACTGCAACTTCATGGAGATAAGATTTGCTACCTTCAGCTTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTAACTTCAGCTTGCT
* * * * * * *
33020593 CTATTGCAACTTTAGGGAGATAAGATTCGCCATCTTCAG-TCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTAACTTCAGCT-TGCT
* * * *
33020638 CCACTGCAACTTCAGGGAGATAAGACTTG-TAACTTCAACCTGTT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTAACTTCAGCTTGCT
* *
33020682 CCACTGCAACTTCAGGAAGATAAGGTTTG
1 CCACTGCAACTTCAGGGAGATAAGATTTG
33020711 TGATTTGTAG
Statistics
Matches: 94, Mismatches: 22, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
44 35 0.37
45 59 0.63
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (45 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGCTAACTTCAGCTTGCT
Found at i:33020898 original size:44 final size:43
Alignment explanation
Indices: 33020772--33020988 Score: 111
Period size: 44 Copynumber: 5.0 Consensus size: 43
33020762 TGTCTTCAAT
* *
33020772 TGCTCTAATGCCATTTCAAGGAGAAGAGATTTGTAGCTTCGATA-
1 TGCTCCAATGCCATTTCAGGGAGAAGAGA-TTGTAGCTTCGA-AC
* *** * * * *
33020816 TACTCTGTTG-AACTTCAAGGAGATA-AGAATTGTGGCTTCGAAC
1 TGCTCCAATGCCATTTCAGGGAGA-AGAG-ATTGTAGCTTCGAAC
*
33020859 TGCTCCAATGTCATTTCAGGGAGAAGAGATCTGTAGCTTC-AATC
1 TGCTCCAATGCCATTTCAGGGAGAAGAGAT-TGTAGCTTCGAA-C
* *** ** * * *
33020903 TACTCTGCTGGAACTTCAAGGAGATA-AGAATTGTGGCTTCGAAC
1 TGCTCCAATGCCATTTCAGGGAGA-AGAG-ATTGTAGCTTCGAAC
* * *
33020947 CGCTCCAATGCCATTTCAGAGAGAAGAGATTTGTAACTTCGA
1 TGCTCCAATGCCATTTCAGGGAGAAGAGA-TTGTAGCTTCGA
33020989 TCTACTCCGC
Statistics
Matches: 126, Mismatches: 35, Indels: 24
0.68 0.19 0.13
Matches are distributed among these distances:
42 1 0.01
43 37 0.29
44 83 0.66
45 5 0.04
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (43 bp):
TGCTCCAATGCCATTTCAGGGAGAAGAGATTGTAGCTTCGAAC
Found at i:33020952 original size:88 final size:88
Alignment explanation
Indices: 33020712--33021032 Score: 416
Period size: 88 Copynumber: 3.7 Consensus size: 88
33020702 TAAGGTTTGT
* * * * * * *
33020712 GATTTGTAGCTTCAATCTGC-CTCACTGCAATTTCAGGGAGATAA-AATTGGTGTCTTC-AATTG
1 GATTTGTAGCTTCAATCTACTCT-GCTGGAACTTCAAGGAGATAAGAATT-GTGGCTTCGAACTG
* *
33020774 CTCTAATGCCATTTCAAGGAGAAGA
64 CTCCAATGCCATTTCAGGGAGAAGA
* * *
33020799 GATTTGTAGCTTCGATATACTCTG-TTGAACTTCAAGGAGATAAGAATTGTGGCTTCGAACTGCT
1 GATTTGTAGCTTCAATCTACTCTGCTGGAACTTCAAGGAGATAAGAATTGTGGCTTCGAACTGCT
*
33020863 CCAATGTCATTTCAGGGAGAAGA
66 CCAATGCCATTTCAGGGAGAAGA
* *
33020886 GATCTGTAGCTTCAATCTACTCTGCTGGAACTTCAAGGAGATAAGAATTGTGGCTTCGAACCGCT
1 GATTTGTAGCTTCAATCTACTCTGCTGGAACTTCAAGGAGATAAGAATTGTGGCTTCGAACTGCT
*
33020951 CCAATGCCATTTCAGAGAGAAGA
66 CCAATGCCATTTCAGGGAGAAGA
* * * *
33020974 GATTTGTAACTTCGATCTACTCCGCTGGAACTTTAAGGAGATAAGAATTGTGGCTTCGA
1 GATTTGTAGCTTCAATCTACTCTGCTGGAACTTCAAGGAGATAAGAATTGTGGCTTCGA
33021033 GTCGCTCCCA
Statistics
Matches: 205, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
86 22 0.11
87 68 0.33
88 115 0.56
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (88 bp):
GATTTGTAGCTTCAATCTACTCTGCTGGAACTTCAAGGAGATAAGAATTGTGGCTTCGAACTGCT
CCAATGCCATTTCAGGGAGAAGA
Found at i:33021079 original size:88 final size:88
Alignment explanation
Indices: 33020743--33021067 Score: 329
Period size: 88 Copynumber: 3.7 Consensus size: 88
33020733 TCACTGCAAT
* * ** * *
33020743 TTCAGGGAGATAA-AATTGGTGTCTTC-AATTGCTCTAATGCCATTTCA-AGGAGAAGAGATTTG
1 TTCAAGGAGATAAGAATT-GTGGCTTCGAACCGCTCCAATGCCACTTCAGA-GAGAAGAGATTTG
* * * * *
33020805 TAGCTTCGATATACTCTG-TTGAAC
64 CAACTTCGATCTACTCCGCTGGAAC
* * * * * *
33020829 TTCAAGGAGATAAGAATTGTGGCTTCGAACTGCTCCAATGTCATTTCAGGGAGAAGAGATCTGTA
1 TTCAAGGAGATAAGAATTGTGGCTTCGAACCGCTCCAATGCCACTTCAGAGAGAAGAGATTTGCA
* * *
33020894 GCTTCAATCTACTCTGCTGGAAC
66 ACTTCGATCTACTCCGCTGGAAC
* *
33020917 TTCAAGGAGATAAGAATTGTGGCTTCGAACCGCTCCAATGCCATTTCAGAGAGAAGAGATTTGTA
1 TTCAAGGAGATAAGAATTGTGGCTTCGAACCGCTCCAATGCCACTTCAGAGAGAAGAGATTTGCA
33020982 ACTTCGATCTACTCCGCTGGAAC
66 ACTTCGATCTACTCCGCTGGAAC
* ** * **
33021005 TTTAAGGAGATAAGAATTGTGGCTTCGAGTCGCTCCCATGCTGCTT-AGAGAGACA-AGATTTGC
1 TTCAAGGAGATAAGAATTGTGGCTTCGAACCGCTCCAATGCCACTTCAGAGAGA-AGAGATTTGC
33021068 CATATTTGAT
Statistics
Matches: 209, Mismatches: 25, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
86 19 0.09
87 64 0.31
88 126 0.60
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (88 bp):
TTCAAGGAGATAAGAATTGTGGCTTCGAACCGCTCCAATGCCACTTCAGAGAGAAGAGATTTGCA
ACTTCGATCTACTCCGCTGGAAC
Found at i:33021102 original size:44 final size:44
Alignment explanation
Indices: 33021045--33021154 Score: 123
Period size: 44 Copynumber: 2.5 Consensus size: 44
33021035 CGCTCCCATG
* * * *
33021045 CTGCTTAGAGAGACAAGATTTGCCATATTT-GATCTGCTCCACTA
1 CTGCTTAGGGAGACAAGATTTGCAATATTTAG-CCTACTCCACTA
* * *
33021089 CTGCTTAGGGAGACAAGATCTACAATCTTTAGCCTACTCCACTA
1 CTGCTTAGGGAGACAAGATTTGCAATATTTAGCCTACTCCACTA
* *
33021133 CTGCTTAGGGAGATAGGATTTG
1 CTGCTTAGGGAGACAAGATTTG
33021155 TGAATTTACT
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 53 0.98
45 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
CTGCTTAGGGAGACAAGATTTGCAATATTTAGCCTACTCCACTA
Found at i:33024246 original size:55 final size:55
Alignment explanation
Indices: 33024187--33024363 Score: 255
Period size: 55 Copynumber: 3.2 Consensus size: 55
33024177 ATATTAAGTC
* *
33024187 CGCACACTTAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
33024242 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
33024297 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
33024353 CGCACACTTAG
1 CGCACACTTAG
33024364 CGCCAATCTC
Statistics
Matches: 110, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
55 94 0.85
56 16 0.15
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:33024251 original size:28 final size:27
Alignment explanation
Indices: 33024187--33024338 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
33024177 ATATTAAGTC
*
33024187 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
33024214 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
33024242 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
33024269 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
33024297 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
33024324 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33024339 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 67 0.56
28 52 0.44
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:33042108 original size:12 final size:12
Alignment explanation
Indices: 33042091--33042117 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
33042081 CCACTTCGGT
33042091 CTCGACCACGGC
1 CTCGACCACGGC
33042103 CTCGACCACGGC
1 CTCGACCACGGC
33042115 CTC
1 CTC
33042118 TTCCTCGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.52, G:0.22, T:0.11
Consensus pattern (12 bp):
CTCGACCACGGC
Found at i:33043603 original size:27 final size:27
Alignment explanation
Indices: 33043573--33043749 Score: 169
Period size: 27 Copynumber: 6.5 Consensus size: 27
33043563 TATTGAGCCT
* *
33043573 GCACACTCAGTGCTATATAATCAACTC
1 GCACACTTAGTGCTACATAATCAACTC
* * *
33043600 GCACACTTAGTGCCACGTAATCAAATC
1 GCACACTTAGTGCTACATAATCAACTC
*
33043627 GCACACTTAGTGCTACATAGTCAGACTC
1 GCACACTTAGTGCTACATAATCA-ACTC
** ** *
33043655 GCACACTTAGTGCCGCATGGTCAATTC
1 GCACACTTAGTGCTACATAATCAACTC
* **
33043682 GCACACTTAGTGC-ATCATATTCATTTC
1 GCACACTTAGTGCTA-CATAATCAACTC
* *
33043709 GCACACTTAGTGCAACATAGTCGAA-TC
1 GCACACTTAGTGCTACATAATC-AACTC
33043736 GCACACTTAGTGCT
1 GCACACTTAGTGCT
33043750 GTACAATTTA
Statistics
Matches: 126, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 101 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
GCACACTTAGTGCTACATAATCAACTC
Found at i:33043711 original size:82 final size:81
Alignment explanation
Indices: 33043593--33043748 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
33043583 TGCTATATAA
* * *
33043593 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
33043658 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
33043675 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
33043739 CACTTAGTGC
65 CACTTAGTGC
33043749 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:33051597 original size:27 final size:26
Alignment explanation
Indices: 33051567--33051742 Score: 156
Period size: 27 Copynumber: 6.6 Consensus size: 26
33051557 ATATTGAGCC
*
33051567 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTA-ATAATCAACT
* *
33051594 CGCACACTTAGTGCTAGTAATCAAAT
1 CGCACACTTAGTGCTAATAATCAACT
*
33051620 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTA-ATAATCAACT
** ** *
33051647 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTG-CTAATAATCAACT
* * **
33051674 CGCACACTTAGTGCATCATATTCATTT
1 CGCACACTTAGTGC-TAATAATCAACT
* *
33051701 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTA-ATAATC-AACT
33051728 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33051743 GTACAATTTA
Statistics
Matches: 125, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
26 25 0.20
27 98 0.78
28 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (26 bp):
CGCACACTTAGTGCTAATAATCAACT
Found at i:33051704 original size:54 final size:53
Alignment explanation
Indices: 33051567--33051742 Score: 194
Period size: 54 Copynumber: 3.3 Consensus size: 53
33051557 ATATTGAGCC
* * * * * *
33051567 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTA-GTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCAACATAGTC-AAT
** *
33051620 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCAACATAGTCAA-T
* **
33051674 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGCAACATAGTC-AAT
33051728 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33051743 GTACAATTTA
Statistics
Matches: 104, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
53 41 0.39
54 61 0.59
55 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (53 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCAACATAGTCAAT
Found at i:33051731 original size:81 final size:80
Alignment explanation
Indices: 33051588--33051741 Score: 222
Period size: 81 Copynumber: 1.9 Consensus size: 80
33051578 TGCTATATAA
*
33051588 TCAACTCGCACACTTAGTGCTAGTAATCAAATCGCACACTTAGTGCTACATAGTCAACTCGCACA
1 TCAACTCGCACACTTAGTGCTAGTAATCAAATCGCACACTTAGTGCAACATAGTCAACTCGCACA
33051653 CTTAGTGCCGCATGG
66 CTTAGTGCCGCATGG
* * **
33051668 TCAATTCGCACACTTAGTGCATCA-TATTCATTTCGCACACTTAGTGCAACATAGTCGAA-TCGC
1 TCAACTCGCACACTTAGTGC-T-AGTAATCAAATCGCACACTTAGTGCAACATAGTC-AACTCGC
33051731 ACACTTAGTGC
63 ACACTTAGTGC
33051742 TGTACAATTT
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
80 19 0.29
81 44 0.67
82 3 0.05
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (80 bp):
TCAACTCGCACACTTAGTGCTAGTAATCAAATCGCACACTTAGTGCAACATAGTCAACTCGCACA
CTTAGTGCCGCATGG
Found at i:33055502 original size:40 final size:40
Alignment explanation
Indices: 33055470--33055734 Score: 395
Period size: 40 Copynumber: 6.6 Consensus size: 40
33055460 CCAGCATGAT
* * * * *
33055470 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * * *
33055510 TGCTCTTCGGGGTTTAGCACGGATATATCACTGGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
33055550 TGTTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
33055590 TGCTCTTCGGGACTTAGTCCGGATACACCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
33055630 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
33055670 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
33055710 TGCTCTTCGGGACCTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATA
33055735 TATATAACTC
Statistics
Matches: 203, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 203 1.00
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:33057075 original size:37 final size:37
Alignment explanation
Indices: 33057016--33057161 Score: 247
Period size: 37 Copynumber: 3.9 Consensus size: 37
33057006 AGCTCAGACG
* *
33057016 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
33057053 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
33057090 TAATCTCTACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
33057127 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
33057162 ATATATTTCC
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:33057443 original size:47 final size:47
Alignment explanation
Indices: 33057364--33057557 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
33057354 CATACATATT
* * * *
33057364 TCACATTAGTCATTCGGCTTTACCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
33057411 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
33057458 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
33057505 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
33057552 TCACAT
1 TCACAT
33057558 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:33057484 original size:22 final size:22
Alignment explanation
Indices: 33057457--33057528 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
33057447 GCTCACATTC
33057457 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
33057479 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
33057503 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
33057526 ATC
1 ATC
33057529 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:33078069 original size:55 final size:53
Alignment explanation
Indices: 33077942--33078134 Score: 178
Period size: 55 Copynumber: 3.6 Consensus size: 53
33077932 TTGGTAAGAC
* * * *
33077942 AAGGATACCATGTTAGACCATGCCAAGGCATGGCATTGAT-AAGTTCTATAAGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTGAA-TTC-ATAAGG-A
*
33077997 AAGAAATA--ATGTAAGACCATGTCAAGACATGGCATTGGTGAATTACTATAAGGAA
1 AAG-GATACCATGTAAGACCATGTCAAGACATGGCATTGGTGAATT-C-ATAAGG-A
* * * * * * *
33078052 AATG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATGAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTGAATTCATAAGGA
*
33078104 AAGGATACCACGTAAGACCATGTCAAGACAT
1 AAGGATACCATGTAAGACCATGTCAAGACAT
33078135 AGAAATGGTA
Statistics
Matches: 113, Mismatches: 19, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
52 3 0.03
53 28 0.25
54 30 0.27
55 49 0.43
56 3 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTGAATTCATAAGGA
Found at i:33090161 original size:14 final size:14
Alignment explanation
Indices: 33090142--33090177 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
33090132 CCTCTTTTCG
33090142 GCCTTCTAACATCA
1 GCCTTCTAACATCA
33090156 GCCTTCTAACATCA
1 GCCTTCTAACATCA
33090170 GCCTTCTA
1 GCCTTCTA
33090178 CTACTACTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.25, C:0.36, G:0.08, T:0.31
Consensus pattern (14 bp):
GCCTTCTAACATCA
Found at i:33101556 original size:13 final size:13
Alignment explanation
Indices: 33101538--33101565 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
33101528 ATACTTTGCA
33101538 GGTCTATCTGATT
1 GGTCTATCTGATT
33101551 GGTCTATCTGATT
1 GGTCTATCTGATT
33101564 GG
1 GG
33101566 ATCCTTTCTC
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:0.14, C:0.14, G:0.29, T:0.43
Consensus pattern (13 bp):
GGTCTATCTGATT
Found at i:33102015 original size:14 final size:15
Alignment explanation
Indices: 33101996--33102026 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
33101986 AGAGAACTCC
33101996 GAAAG-CCCCTGAAT
1 GAAAGCCCCCTGAAT
33102010 GAAAGCCCCCTGAAT
1 GAAAGCCCCCTGAAT
33102025 GA
1 GA
33102027 GTCGGATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.35, C:0.29, G:0.23, T:0.13
Consensus pattern (15 bp):
GAAAGCCCCCTGAAT
Found at i:33103868 original size:19 final size:19
Alignment explanation
Indices: 33103836--33103877 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
33103826 AATGATGATC
33103836 TTTTAATTTAAATTATTTA
1 TTTTAATTTAAATTATTTA
33103855 TTTTGAATTT-AATTATTTA
1 TTTT-AATTTAAATTATTTA
33103874 TTTT
1 TTTT
33103878 CTTCATCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTAATTTAAATTATTTA
Found at i:33104637 original size:15 final size:15
Alignment explanation
Indices: 33104617--33104645 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
33104607 TGAGACTTAG
33104617 GTTATAAGTCTTGAA
1 GTTATAAGTCTTGAA
33104632 GTTATAAGTCTTGA
1 GTTATAAGTCTTGA
33104646 GGTTTAGCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (15 bp):
GTTATAAGTCTTGAA
Found at i:33106470 original size:40 final size:40
Alignment explanation
Indices: 33106426--33106618 Score: 235
Period size: 40 Copynumber: 4.8 Consensus size: 40
33106416 CTGGGGTACT
33106426 AAAGTACAAAAAGGGGCACGTATGTGCATTCAAGGGTATC
1 AAAGTACAAAAAGGGGCACGTATGTGCATTCAAGGGTATC
* * * * * *
33106466 AAAGTACAATCAA-GGGCATGAATGTCCATTTAGGGGTATC
1 AAAGTACAA-AAAGGGGCACGTATGTGCATTCAAGGGTATC
* * * **
33106506 GAAGTACAAAAAGGGGCACGTATGTGCATTTAGGGGTGCC
1 AAAGTACAAAAAGGGGCACGTATGTGCATTCAAGGGTATC
*
33106546 AAAGTACAAAAAGGGGCACGTATATGCATTCAAGGGTATC
1 AAAGTACAAAAAGGGGCACGTATGTGCATTCAAGGGTATC
* * *
33106586 GAAGTACAAACAGGGGCATGTATGTGCATTCAA
1 AAAGTACAAAAAGGGGCACGTATGTGCATTCAA
33106619 ACAATAATTA
Statistics
Matches: 128, Mismatches: 23, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
39 2 0.02
40 124 0.97
41 2 0.02
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21
Consensus pattern (40 bp):
AAAGTACAAAAAGGGGCACGTATGTGCATTCAAGGGTATC
Found at i:33109436 original size:19 final size:19
Alignment explanation
Indices: 33109412--33109449 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
33109402 TTCTTTCCTC
*
33109412 CCTTTTCTTT-CTCCTCTTT
1 CCTTTT-TTTACTCCCCTTT
33109431 CCTTTTTTTACTCCCCTTT
1 CCTTTTTTTACTCCCCTTT
33109450 TCACTCCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.03, C:0.37, G:0.00, T:0.61
Consensus pattern (19 bp):
CCTTTTTTTACTCCCCTTT
Found at i:33125843 original size:26 final size:29
Alignment explanation
Indices: 33125784--33125841 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 29
33125774 AACACCACTT
*
33125784 CATCCACCCTGCACACCACATATAGTAAGCC
1 CATCCACCCTACACACCACA-ATAGTAA-CC
33125815 CATCCACCCTACACACCAC-ATAG-AACC
1 CATCCACCCTACACACCACAATAGTAACC
33125842 ATGATATGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 2 0.08
28 2 0.08
29 4 0.15
31 18 0.69
ACGTcount: A:0.34, C:0.45, G:0.07, T:0.14
Consensus pattern (29 bp):
CATCCACCCTACACACCACAATAGTAACC
Found at i:33130478 original size:47 final size:47
Alignment explanation
Indices: 33130409--33130535 Score: 154
Period size: 47 Copynumber: 2.7 Consensus size: 47
33130399 GTATAATGCC
*
33130409 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAA-GT-T
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCAAT-AATGTGT
* *
33130456 GATGCCATGTCCCAGACATGGTCTTAAACTGGCTCTCAATAATGTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAATAATGT-G-T
*
33130505 GATG-CATGTCCCAGACAT-ATCTTACACTAGC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGC
33130536 ACACAAATAA
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
45 2 0.03
46 6 0.09
47 43 0.61
48 14 0.20
49 5 0.07
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAATAATGTGT
Found at i:33138186 original size:48 final size:50
Alignment explanation
Indices: 33138068--33138194 Score: 145
Period size: 50 Copynumber: 2.6 Consensus size: 50
33138058 TGAAATCAAG
* * * *
33138068 GCCGATGCCATGTCGCAGACATGGTCTTTCATTAGCTCTCATATATCTGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACATGAGCCCTCATATATCTGT
* * *
33138118 GTCGATGCCATGTCCTAGACATGGTCTTAGACTGA-CACCTC-TATA-C-GT
1 GCCGATGCCATGTCCCAGACATGGTCTTACA-TGAGC-CCTCATATATCTGT
33138166 GCCGATGCCATGTCCCAGACATGGTCTTA
1 GCCGATGCCATGTCCCAGACATGGTCTTA
33138195 TGCCATGTCC
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
48 29 0.44
49 1 0.02
50 31 0.47
51 5 0.08
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (50 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACATGAGCCCTCATATATCTGT
Found at i:33138202 original size:24 final size:24
Alignment explanation
Indices: 33138170--33138242 Score: 128
Period size: 24 Copynumber: 3.0 Consensus size: 24
33138160 ATACGTGCCG
*
33138170 ATGCCATGTCCCAGACATGGTCTT
1 ATGCCATGTCCTAGACATGGTCTT
33138194 ATGCCATGTCCTAGACATGGTCTT
1 ATGCCATGTCCTAGACATGGTCTT
*
33138218 ATGCCATATCCTAGACATGGTCTT
1 ATGCCATGTCCTAGACATGGTCTT
33138242 A
1 A
33138243 CACTGACACA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (24 bp):
ATGCCATGTCCTAGACATGGTCTT
Found at i:33138312 original size:46 final size:44
Alignment explanation
Indices: 33138230--33138342 Score: 129
Period size: 46 Copynumber: 2.5 Consensus size: 44
33138220 GCCATATCCT
* * *
33138230 AGACATGGTCTTACACTGACACATCTTGTAGTCGATGCATGTCTC
1 AGACAT-GTCTTACACTAACACATCTTGTAGCCGATGCATGTCCC
33138275 AGACATGTCTTACACTAACTTACATCTTG-AGGCCGATGCATGTCCC
1 AGACATGTCTTACACTAAC--ACATCTTGTA-GCCGATGCATGTCCC
* * *
33138321 AAACATGTATTACACTAGCACA
1 AGACATGTCTTACACTAACACA
33138343 CAAATAACCC
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
44 15 0.25
45 7 0.12
46 37 0.63
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (44 bp):
AGACATGTCTTACACTAACACATCTTGTAGCCGATGCATGTCCC
Found at i:33140084 original size:21 final size:21
Alignment explanation
Indices: 33140060--33140107 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
33140050 GAGTCTAAGT
* *
33140060 CGTGTGAAGGAGGGACACGCC
1 CGTGTGAAAGAGGCACACGCC
* *
33140081 CGTGTGAAAGAGGCACATGGC
1 CGTGTGAAAGAGGCACACGCC
33140102 CGTGTG
1 CGTGTG
33140108 GTGGAGACAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.21, G:0.42, T:0.15
Consensus pattern (21 bp):
CGTGTGAAAGAGGCACACGCC
Found at i:33145369 original size:16 final size:15
Alignment explanation
Indices: 33145335--33145365 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
33145325 ATTTGATTTG
33145335 TATTTTTTGAAACCC
1 TATTTTTTGAAACCC
33145350 TATTTTTTGAAACCC
1 TATTTTTTGAAACCC
33145365 T
1 T
33145366 TATTGTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.48
Consensus pattern (15 bp):
TATTTTTTGAAACCC
Found at i:33146296 original size:24 final size:27
Alignment explanation
Indices: 33146245--33146307 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 27
33146235 ACATTACGTG
33146245 AAAAACTAAATA-AAAGTTGAATTAAA
1 AAAAACTAAATATAAAGTTGAATTAAA
*
33146271 AAAAACTAAATATATAGTT-AA-TAAA
1 AAAAACTAAATATAAAGTTGAATTAAA
*
33146296 AAGAA-TAAATAT
1 AAAAACTAAATAT
33146308 TAAGCTTACA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 7 0.21
25 8 0.24
26 14 0.41
27 5 0.15
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.25
Consensus pattern (27 bp):
AAAAACTAAATATAAAGTTGAATTAAA
Found at i:33148465 original size:26 final size:24
Alignment explanation
Indices: 33148431--33148502 Score: 72
Period size: 26 Copynumber: 2.8 Consensus size: 24
33148421 TTGTGCAAGT
*
33148431 ATATTAAAATCAAATAATAATAAA
1 ATATAAAAATCAAATAATAATAAA
* *
33148455 AGTATCAAAAATCAATTAATAGTAAA
1 A-TAT-AAAAATCAAATAATAATAAA
*
33148481 ATCTAAACATATCAAATAATAA
1 ATATAAA-A-ATCAAATAATAA
33148503 AGAAATTCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
24 4 0.11
25 6 0.16
26 28 0.74
ACGTcount: A:0.61, C:0.08, G:0.03, T:0.28
Consensus pattern (24 bp):
ATATAAAAATCAAATAATAATAAA
Found at i:33148816 original size:2 final size:2
Alignment explanation
Indices: 33148809--33148846 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
33148799 TAGGGGGATA
*
33148809 AT AT AT AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33148847 TCATTTGACT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33154106 original size:25 final size:25
Alignment explanation
Indices: 33154076--33154137 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
33154066 CAGCTAGTAT
* * *
33154076 GAGCTTACCGTTATTCAGCTTGGAG
1 GAGCTTACCATTAATCAGCTCGGAG
*
33154101 GTGCTTACCATTAATCAGCTCGGAG
1 GAGCTTACCATTAATCAGCTCGGAG
33154126 GAGCTTACCATT
1 GAGCTTACCATT
33154138 TACAACTCGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.31
Consensus pattern (25 bp):
GAGCTTACCATTAATCAGCTCGGAG
Found at i:33155845 original size:43 final size:43
Alignment explanation
Indices: 33155744--33155867 Score: 128
Period size: 43 Copynumber: 2.9 Consensus size: 43
33155734 GGAACTAAGA
* * * *
33155744 CATCCGAGCTCGTTGAGTGGTCCGAGTTCATGAGAT--ATGTG-G
1 CATCCGAGCTCATTGAGAGATCCGAGTTCAT-A-ATGGATGAGAG
* * *
33155786 CATCCGAGCTCGTTGAGATATCCGAGTTCATTATGGATGAGAG
1 CATCCGAGCTCATTGAGAGATCCGAGTTCATAATGGATGAGAG
* *
33155829 CATCTGAGCTCATTGAGAGGTCCGAGTTCATAATGGATG
1 CATCCGAGCTCATTGAGAGATCCGAGTTCATAATGGATG
33155868 CGATTCATGT
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
40 2 0.03
42 32 0.46
43 35 0.51
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (43 bp):
CATCCGAGCTCATTGAGAGATCCGAGTTCATAATGGATGAGAG
Found at i:33157248 original size:13 final size:13
Alignment explanation
Indices: 33157230--33157254 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33157220 TAGGCCGTTG
33157230 AGGGACACGGGCC
1 AGGGACACGGGCC
33157243 AGGGACACGGGC
1 AGGGACACGGGC
33157255 GTGTGCTCGG
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:0.24, C:0.28, G:0.48, T:0.00
Consensus pattern (13 bp):
AGGGACACGGGCC
Found at i:33159161 original size:43 final size:44
Alignment explanation
Indices: 33159096--33159228 Score: 124
Period size: 51 Copynumber: 2.9 Consensus size: 44
33159086 GAGATATGTG
* * *
33159096 GCATCCGAGCTTGTAGAAAGGTCCGAGTTCATTATGGATACA-A
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATACATA
* * *
33159139 GCATCCAAGCTCGTTGAGAGGTCTGAGTTCATAATGGATGCGATTCATGTA
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCAT--T--ATG-GATACA--TA
* *
33159190 ACATCCGAGCTCGTTGAGAGGTCCAAGTTCATTATGGAT
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGAT
33159229 GTGTTACATA
Statistics
Matches: 72, Mismatches: 10, Indels: 13
0.76 0.11 0.14
Matches are distributed among these distances:
43 27 0.38
45 1 0.01
46 3 0.04
47 6 0.08
48 5 0.07
49 1 0.01
51 29 0.40
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (44 bp):
GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATACATA
Found at i:33160695 original size:23 final size:23
Alignment explanation
Indices: 33160659--33160717 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
33160649 GTCCCAATGA
33160659 ACACGGGCGTGTGCATTGCCTCC
1 ACACGGGCGTGTGCATTGCCTCC
* *
33160682 ACATGGGTGTGTGCATTGCCTCC
1 ACACGGGCGTGTGCATTGCCTCC
33160705 ACACGGGCGTGTG
1 ACACGGGCGTGTG
33160718 AGGTTGAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.14, C:0.29, G:0.34, T:0.24
Consensus pattern (23 bp):
ACACGGGCGTGTGCATTGCCTCC
Found at i:33161211 original size:27 final size:27
Alignment explanation
Indices: 33161181--33161235 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
33161171 TTTTACAACA
33161181 TTTAGAAAATTTTTACCAAAATAGGGG
1 TTTAGAAAATTTTTACCAAAATAGGGG
*
33161208 TTTAGAAAATTTTTGCCAAAATAGGGG
1 TTTAGAAAATTTTTACCAAAATAGGGG
33161235 T
1 T
33161236 CACACGCCCG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (27 bp):
TTTAGAAAATTTTTACCAAAATAGGGG
Found at i:33163662 original size:49 final size:49
Alignment explanation
Indices: 33163584--33163828 Score: 303
Period size: 49 Copynumber: 4.9 Consensus size: 49
33163574 TAGCCAAAAC
* *
33163584 TATCTGGTACACATAGTAGCCTACACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * * *
33163633 TATCCGGTACACGTAGTGGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * *
33163683 TATCTGATACACGTAGTAGCCTGCACTTA-TAACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGT-ACTACACACGCGA-CCAA-T
* * **
33163734 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
*
33163783 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
33163829 TCACAACAGA
Statistics
Matches: 166, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
49 83 0.50
50 46 0.28
51 36 0.22
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:33163774 original size:26 final size:26
Alignment explanation
Indices: 33163745--33163821 Score: 65
Period size: 26 Copynumber: 3.1 Consensus size: 26
33163735 ATCGGGTACG
33163745 CATAGTAGCCTGCACTTAGTACTACA
1 CATAGTAGCCTGCACTTAGTACTACA
* * **
33163771 CATACG-A--C--CAATTATCTGGTACA
1 CATA-GTAGCCTGCACTTA-GTACTACA
33163794 CATAGTAGCCTGCACTTAGTACTACA
1 CATAGTAGCCTGCACTTAGTACTACA
33163820 CA
1 CA
33163822 CGTGACCTCA
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 1 0.03
25 1 0.03
26 12 0.33
27 6 0.17
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.26
Consensus pattern (26 bp):
CATAGTAGCCTGCACTTAGTACTACA
Found at i:33177901 original size:29 final size:29
Alignment explanation
Indices: 33177821--33177999 Score: 175
Period size: 29 Copynumber: 6.1 Consensus size: 29
33177811 GTGTGCTAAA
* * *
33177821 CGATAGTCGAAACCATCCCTTTTCTTTAATT
1 CGATGGTCGAAACCATCCTTTTTC-AT-ATT
* *
33177852 -GATGGTCAAAACTATCC-TTTTCATATT
1 CGATGGTCGAAACCATCCTTTTTCATATT
** *
33177879 CGATGGTCGTCACCATCCTTTTTCACAATT
1 CGATGGTCGAAACCATCCTTTTTCA-TATT
* *
33177909 -GATGGTCGAAACCATCCTTTTTCTTTAAT
1 CGATGGTCGAAACCATCCTTTTTC-ATATT
* *
33177938 CGATGGTCGAAGCCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCTTTTTCATATT
* *
33177967 CGATAGTCGAAACCATCCTCTTTCATATT
1 CGATGGTCGAAACCATCCTTTTTCATATT
33177996 CGAT
1 CGAT
33178000 AGGTGTCGAT
Statistics
Matches: 121, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.02
28 14 0.12
29 66 0.55
30 38 0.31
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (29 bp):
CGATGGTCGAAACCATCCTTTTTCATATT
Found at i:33177961 original size:59 final size:56
Alignment explanation
Indices: 33177821--33177999 Score: 171
Period size: 59 Copynumber: 3.1 Consensus size: 56
33177811 GTGTGCTAAA
* * * * *
33177821 CGATAGTCGAAACCATCCCTTTTCTTTAATTGATGGTCAAAACTATCC-TTTTCATATT
1 CGATGGTCG-AACCATCCCTTTTC--AAATTGATGGTCGAAACCATCCTTTTTCATAAT
* * *
33177879 CGATGGTCGTCACCATCCTTTTTCACAATTGATGGTCGAAACCATCCTTTTTCTTTAAT
1 CGATGGTCG-AACCATCCCTTTTCA-AATTGATGGTCGAAACCATCCTTTTTC-ATAAT
* * * *
33177938 CGATGGTCGAAGCCATCCCTTTTCATATTCGATAGTCGAAACCATCCTCTTTCATATT
1 CGATGGTCGAA-CCATCCCTTTTCAAATT-GATGGTCGAAACCATCCTTTTTCATAAT
33177996 CGAT
1 CGAT
33178000 AGGTGTCGAT
Statistics
Matches: 100, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
57 19 0.19
58 36 0.36
59 45 0.45
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (56 bp):
CGATGGTCGAACCATCCCTTTTCAAATTGATGGTCGAAACCATCCTTTTTCATAAT
Found at i:33180655 original size:26 final size:27
Alignment explanation
Indices: 33180626--33180679 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
33180616 TCACACAAGT
*
33180626 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
33180652 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
33180679 T
1 T
33180680 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:33180768 original size:27 final size:27
Alignment explanation
Indices: 33180680--33180768 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
33180670 GGGGCAAAAT
* * * *
33180680 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33180707 GGTATTTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33180734 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
33180761 GGTAATTC
1 GGTAATTC
33180769 AACAACTTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:33186337 original size:27 final size:26
Alignment explanation
Indices: 33186290--33186340 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
33186280 CGAGGCTGCT
*
33186290 AGATATTGTGACGAAGTCACCAGAAC
1 AGATATTGTGACGAAGCCACCAGAAC
* *
33186316 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
33186341 TTGCAACGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAC
Found at i:33187069 original size:27 final size:27
Alignment explanation
Indices: 33186995--33187138 Score: 146
Period size: 27 Copynumber: 5.4 Consensus size: 27
33186985 GGGCAAAATG
* * * *
33186995 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* * * *
33187022 GCAATTTTTCCCTA-TAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
33187048 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
33187075 GTGATTCTATCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
33187102 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
33187129 GTAATTCTAC
1 GTAATTCTAC
33187139 AACTTATCCC
Statistics
Matches: 96, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
26 19 0.20
27 77 0.80
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:33187110 original size:54 final size:54
Alignment explanation
Indices: 33186995--33187137 Score: 182
Period size: 54 Copynumber: 2.7 Consensus size: 54
33186985 GGGCAAAATG
* * * * * *
33186995 GTAATTTTACCCCACAAGGGTATCTCGGCAATT-TTTCCCTATAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTATCCCTACAGGGTATTTCA
* *
33187048 GTATTTCTACCCTACAAGGGTATTTCGGTGATTCTAT-CCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTATCCCTACA-GGGTATTTCA
*
33187102 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTA
33187138 CAACTTATCC
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
53 32 0.42
54 45 0.58
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTATCCCTACAGGGTATTTCA
Found at i:33192509 original size:41 final size:41
Alignment explanation
Indices: 33192437--33192532 Score: 140
Period size: 41 Copynumber: 2.4 Consensus size: 41
33192427 AGTTTGTGCT
* *
33192437 CAAGCCACCTGTAA-TGCAGATAAACTATCAGTATTGTGGA
1 CAAGCCACCAGTAATTGCAGATAAACTATCAGTATTGTAGA
* * *
33192477 CAAGCCACCAATAATTGTAGATAAACTGTCAGTATTGTAGA
1 CAAGCCACCAGTAATTGCAGATAAACTATCAGTATTGTAGA
33192518 CAAGCCACCAGTAAT
1 CAAGCCACCAGTAAT
33192533 ATGTTGTCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
40 12 0.24
41 37 0.76
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (41 bp):
CAAGCCACCAGTAATTGCAGATAAACTATCAGTATTGTAGA
Found at i:33192529 original size:20 final size:20
Alignment explanation
Indices: 33192465--33192559 Score: 64
Period size: 20 Copynumber: 4.6 Consensus size: 20
33192455 GATAAACTAT
*
33192465 CAGTATTGTGGACAAGCCAC
1 CAGTATTGTAGACAAGCCAC
* * * ***
33192485 CAATAATTGTAGATAAACTGT
1 CAGT-ATTGTAGACAAGCCAC
33192506 CAGTATTGTAGACAAGCCAC
1 CAGTATTGTAGACAAGCCAC
* *
33192526 CAGTAATATGTTGTCAAGCCAC
1 CAGT-AT-TGTAGACAAGCCAC
* *
33192548 AAGTGTTGTAGA
1 CAGTATTGTAGA
33192560 AAAGTTGCCA
Statistics
Matches: 53, Mismatches: 19, Indels: 6
0.68 0.24 0.08
Matches are distributed among these distances:
20 22 0.42
21 16 0.30
22 15 0.28
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (20 bp):
CAGTATTGTAGACAAGCCAC
Found at i:33197585 original size:48 final size:48
Alignment explanation
Indices: 33197530--33197757 Score: 234
Period size: 48 Copynumber: 4.8 Consensus size: 48
33197520 AGGGTGAATT
33197530 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCT-TGCATGTCGA-G
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCT-CATGTC-ATG
* * * * * * *
33197578 GCCGATGCCATGTCCCAGACATGGTCTTACAATAGCTCTCGTCTCATT
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATGTCATG
* * *
33197626 GCCGATGCCATGTCCCAAACATGGTTTTACACTGGCTCTCATGAT-GTG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATG-TCATG
* * * *
33197674 GCGGATGCCATG-TCCTAGACATGGTCTTACACTGGCTCTCACAG-CATC
1 GCCGATGCCATGTTCC-AAACATGGTCTTACACTGGCTCTCA-TGTCATG
33197722 GCCGATGCCATG-TCTCAAACATGGTCTTACACTGGC
1 GCCGATGCCATGTTC-CAAACATGGTCTTACACTGGC
33197758 ATGCATATCA
Statistics
Matches: 149, Mismatches: 24, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
47 3 0.02
48 142 0.95
49 4 0.03
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATGTCATG
Found at i:33197694 original size:96 final size:96
Alignment explanation
Indices: 33197527--33197763 Score: 318
Period size: 96 Copynumber: 2.5 Consensus size: 96
33197517 AAGAGGGTGA
*
33197527 ATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTTGCATGTCGAGGCCGATGCCATGTC
1 ATTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTTGCATGTCGAGGCCGATGCCATGTC
* *
33197592 CCAGACATGGTCTTACAATAGCTCTCGTC-TC
66 CCAGACATGGTCTTACAATAGCTCTC-ACAGC
* * *
33197623 ATTGCCGATGCCATGTCCCAAACATGGTTTTACACTGGCTCT-CATGAT-GTGGCGGATGCCATG
1 ATTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCT-TGCATG-TCGAGGCCGATGCCATG
* * *
33197686 TCCTAGACATGGTCTTACACTGGCTCTCACAGC
64 TCCCAGACATGGTCTTACAATAGCTCTCACAGC
* * *
33197719 ATCGCCGATGCCATGTCTCAAACATGGTCTTACACTGGCATGCAT
1 ATTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTTGCAT
33197764 ATCACCCAAA
Statistics
Matches: 124, Mismatches: 13, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
95 2 0.02
96 120 0.97
97 2 0.02
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.28
Consensus pattern (96 bp):
ATTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTTGCATGTCGAGGCCGATGCCATGTC
CCAGACATGGTCTTACAATAGCTCTCACAGC
Found at i:33200567 original size:14 final size:14
Alignment explanation
Indices: 33200548--33200578 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
33200538 AGTCAATTAC
33200548 TAACTCATAGTATT
1 TAACTCATAGTATT
33200562 TAACTCATAGTATT
1 TAACTCATAGTATT
33200576 TAA
1 TAA
33200579 TCAACTCCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (14 bp):
TAACTCATAGTATT
Found at i:33202799 original size:48 final size:48
Alignment explanation
Indices: 33202744--33202970 Score: 228
Period size: 48 Copynumber: 4.7 Consensus size: 48
33202734 GGGTGAATTA
* * *
33202744 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATGTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTCGAGG
* * * **
33202792 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTC-ATTA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTCGA-GG
* * *
33202840 CCGATGCCATGTCCCAGACATGGTCTTACATTGGATCTCATGAT-GTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATG-TCGAGG
* * * * * *
33202888 CTGATGCCATGTCCCAGACATGGTCTTACACTAGCAT-ACATAT-TAGTA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATGTCGAG-G
*
33202936 TCGATGCCATGTCCCAGACATGGTCTTACACTGGC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGC
33202971 ACACATATCA
Statistics
Matches: 146, Mismatches: 28, Indels: 10
0.79 0.15 0.05
Matches are distributed among these distances:
47 3 0.02
48 141 0.97
49 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTCGAGG
Found at i:33202904 original size:96 final size:96
Alignment explanation
Indices: 33202740--33202969 Score: 311
Period size: 96 Copynumber: 2.4 Consensus size: 96
33202730 AAGAGGGTGA
* * *
33202740 ATTACCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATGTCGAGGCCGATGCCATGTC
1 ATTACCGATGCCATGTCCCAGACATGGTCTTACACTGGATCGCATGTCGAGGCCGATGCCATGTC
* * *
33202805 CCAGACATGGTCTTACACTAGC-TCTCGTCTC
66 CCAGACATGGTCTTACACTAGCAT-ACATATC
* * * *
33202836 ATTACCGATGCCATGTCCCAGACATGGTCTTACATTGGATCTCATGAT-GTGGCTGATGCCATGT
1 ATTACCGATGCCATGTCCCAGACATGGTCTTACACTGGATCGCATG-TCGAGGCCGATGCCATGT
*
33202900 CCCAGACATGGTCTTACACTAGCATACATATT
65 CCCAGACATGGTCTTACACTAGCATACATATC
* *
33202932 AGTATCGATGCCATGTCCCAGACATGGTCTTACACTGG
1 ATTACCGATGCCATGTCCCAGACATGGTCTTACACTGG
33202970 CACACATATC
Statistics
Matches: 118, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
96 116 0.98
97 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (96 bp):
ATTACCGATGCCATGTCCCAGACATGGTCTTACACTGGATCGCATGTCGAGGCCGATGCCATGTC
CCAGACATGGTCTTACACTAGCATACATATC
Found at i:33207336 original size:17 final size:17
Alignment explanation
Indices: 33207314--33207346 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
33207304 TTTTTTACGA
33207314 AAATTCTATTTCTATTT
1 AAATTCTATTTCTATTT
*
33207331 AAATTCTATTTTTATT
1 AAATTCTATTTCTATT
33207347 AATATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (17 bp):
AAATTCTATTTCTATTT
Found at i:33209598 original size:33 final size:32
Alignment explanation
Indices: 33209492--33209599 Score: 103
Period size: 32 Copynumber: 3.3 Consensus size: 32
33209482 AGAAGTATTA
* * ** *
33209492 TTATCATTTAACAAAATGCTAGTTGATATTTA
1 TTATAATTTCACAAAATGAAAGTTGATATTTG
*
33209524 TTATAAGTTT-ACAAAATTAAAGTTG-TAATTTG
1 TTATAA-TTTCACAAAATGAAAGTTGAT-ATTTG
*
33209556 TTATAATTTCACAAAATGAAAAGATGATATTTG
1 TTATAATTTCACAAAATG-AAAGTTGATATTTG
*
33209589 TTATCATTTCA
1 TTATAATTTCA
33209600 TAGAACTGCA
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
31 4 0.06
32 34 0.54
33 24 0.38
34 1 0.02
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (32 bp):
TTATAATTTCACAAAATGAAAGTTGATATTTG
Found at i:33214094 original size:10 final size:9
Alignment explanation
Indices: 33214073--33214113 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
33214063 TTAATTTTTT
33214073 AAATT-TAA
1 AAATTATAA
33214081 AAATTATAA
1 AAATTATAA
*
33214090 AAAAT-TAA
1 AAATTATAA
33214098 AAATTATAA
1 AAATTATAA
33214107 AAATTAT
1 AAATTAT
33214114 TTTAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 12 0.41
9 17 0.59
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
AAATTATAA
Found at i:33214097 original size:17 final size:17
Alignment explanation
Indices: 33214077--33214109 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
33214067 TTTTTTAAAT
33214077 TTAAAAATTATAAAAAA
1 TTAAAAATTATAAAAAA
33214094 TTAAAAATTATAAAAA
1 TTAAAAATTATAAAAA
33214110 TTATTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TTAAAAATTATAAAAAA
Found at i:33217711 original size:140 final size:140
Alignment explanation
Indices: 33217506--33217830 Score: 429
Period size: 140 Copynumber: 2.3 Consensus size: 140
33217496 AAACATGTCA
* * *
33217506 ACATATGCTTTGGCCAACTATTTG-ATAAGAGTCGAGATATGCATGCCTAAGGCAACACTTAAAT
1 ACATACGCTTTGGCCAACTCTTTGTATAAGAGTCGAGATATACATGCCTAAGGCAACACTTAAAT
33217570 AAGAGTCGACTTTATCCAACACTATGCCAACACTTTTGAGCCGACACTTTCCTAACTATTGGGAT
66 AAGAGTCGACTTTATCCAACACTATGCCAACACTTTTGAGCCGACACTTTCCTAACTATTGGGAT
33217635 AGACCTGCCG
131 AGACCTGCCG
* * *
33217645 ACATACGCTTTGGCCAACTCTTTGTATAA-ATGTTGGGATATACATGCCTAAGGCAACACTTCAA
1 ACATACGCTTTGGCCAACTCTTTGTATAAGA-GTCGAGATATACATGCCTAAGGCAACACTTAAA
* * * ** * * * * * *
33217709 TAATAGTCGATTTTCTCCAACACTATGCTGATACTTTTGGGCCTATACTTTCCTAAGTGTTGGGA
65 TAAGAGTCGACTTTATCCAACACTATGCCAACACTTTTGAGCCGACACTTTCCTAACTATTGGGA
*
33217774 TAGACTTGCCG
130 TAGACCTGCCG
* * * *
33217785 ACATACGCTTTGGCTAACTCTTTGTATAAGGGTTGAGATATGCATG
1 ACATACGCTTTGGCCAACTCTTTGTATAAGAGTCGAGATATACATG
33217831 TGGAATGATG
Statistics
Matches: 161, Mismatches: 22, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
139 23 0.14
140 138 0.86
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (140 bp):
ACATACGCTTTGGCCAACTCTTTGTATAAGAGTCGAGATATACATGCCTAAGGCAACACTTAAAT
AAGAGTCGACTTTATCCAACACTATGCCAACACTTTTGAGCCGACACTTTCCTAACTATTGGGAT
AGACCTGCCG
Found at i:33222181 original size:27 final size:27
Alignment explanation
Indices: 33222151--33222328 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
33222141 ATATTGAGCC
* * * *
33222151 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
33222178 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
33222205 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
33222233 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
33222260 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
33222287 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
33222314 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33222329 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:33222290 original size:82 final size:81
Alignment explanation
Indices: 33222172--33222327 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
33222162 TGCTATATAA
* *
33222172 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
33222237 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
33222254 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
33222318 CACTTAGTGC
65 CACTTAGTGC
33222328 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:33224662 original size:27 final size:26
Alignment explanation
Indices: 33224629--33224768 Score: 118
Period size: 27 Copynumber: 5.2 Consensus size: 26
33224619 AAAAACAGTT
*
33224629 ATTTTACCATACAGGGGTATTTCGGCA
1 ATTTTA-CATACAGGGGTATTTCGGTA
*
33224656 ATTTTACACTACAAGGGTATTTCGGTA
1 ATTTTACA-TACAGGGGTATTTCGGTA
* * *
33224683 ATTTTACAAACTGGGGGTATTTCAGTA
1 ATTTTACATAC-AGGGGTATTTCGGTA
* * * **
33224710 ATTTTATAAACTGGGGGTATTTTAGTA
1 ATTTTACATAC-AGGGGTATTTCGGTA
* * *
33224737 ATTTTACAAACTGGGGGTATTTCGATA
1 ATTTTACATAC-AGGGGTATTTCGGTA
33224764 ATTTT
1 ATTTT
33224769 TAAATCAGGG
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
26 4 0.04
27 95 0.96
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (26 bp):
ATTTTACATACAGGGGTATTTCGGTA
Found at i:33224728 original size:54 final size:53
Alignment explanation
Indices: 33224670--33224772 Score: 163
Period size: 54 Copynumber: 1.9 Consensus size: 53
33224660 TACACTACAA
*
33224670 GGGTATTTCGGTAATTTTACAAACTGGGGGTATTTC-AGTAATTTTATAAACTGG
1 GGGTATTTCAGTAATTTTACAAACTGGGGGTATTTCGA-TAATTTT-TAAACTGG
*
33224724 GGGTATTTTAGTAATTTTACAAACTGGGGGTATTTCGATAATTTTTAAA
1 GGGTATTTCAGTAATTTTACAAACTGGGGGTATTTCGATAATTTTTAAA
33224773 TCAGGGTCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
53 4 0.09
54 41 0.89
55 1 0.02
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (53 bp):
GGGTATTTCAGTAATTTTACAAACTGGGGGTATTTCGATAATTTTTAAACTGG
Found at i:33228544 original size:27 final size:27
Alignment explanation
Indices: 33228509--33228575 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
33228499 AGGGGCAAAA
* *
33228509 CAGTTATTTTACCCTAC-AGGGATATTT
1 CAGTAATTTTACACTACAAGGG-TATTT
*
33228536 TAGTAATTTTACACTACAAGGGTATTT
1 CAGTAATTTTACACTACAAGGGTATTT
*
33228563 CGGTAATTTTACA
1 CAGTAATTTTACA
33228576 AACTGAGGGT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 30 0.88
28 4 0.12
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (27 bp):
CAGTAATTTTACACTACAAGGGTATTT
Found at i:33228584 original size:27 final size:26
Alignment explanation
Indices: 33228554--33228715 Score: 175
Period size: 27 Copynumber: 6.0 Consensus size: 26
33228544 TTACACTACA
* *
33228554 AGGGTATTTCGGTAATTTTACAAACTG
1 AGGGTATTTCGATAATTTTACAAA-TC
* *
33228581 AGGGTATTTTGATAATTTTGCAAATC
1 AGGGTATTTCGATAATTTTACAAATC
* *
33228607 AGAGGTATTTTGGTAATTTTACAAA-C
1 AG-GGTATTTCGATAATTTTACAAATC
33228633 TAGGGGTATTTCGATAATTTTACAAATC
1 -A-GGGTATTTCGATAATTTTACAAATC
*
33228661 AGGTGTATTT-TAGTAATTTTACAAATC
1 AGG-GTATTTCGA-TAATTTTACAAATC
*
33228688 GGGGGTATTTCGATAATTTTACAAATC
1 -AGGGTATTTCGATAATTTTACAAATC
33228715 A
1 A
33228716 AGGTCTTAAC
Statistics
Matches: 115, Mismatches: 12, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
26 7 0.06
27 103 0.90
28 5 0.04
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (26 bp):
AGGGTATTTCGATAATTTTACAAATC
Found at i:33228589 original size:54 final size:53
Alignment explanation
Indices: 33228556--33228719 Score: 206
Period size: 54 Copynumber: 3.1 Consensus size: 53
33228546 ACACTACAAG
*
33228556 GGTATTTCGGTAATTTTACAAACTGAGGGTATTTTGATAATTTTGCAAATCAGA
1 GGTATTTCGGTAATTTTACAAACT-AGGGTATTTTGATAATTTTACAAATCAGA
* *
33228610 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGATAATTTTACAAATCAG-
1 GGTATTTCGGTAATTTTACAAACTA-GGGTATTTTGATAATTTTACAAATCAGA
** ** *
33228663 GTGTATTTTAGTAATTTTACAAATCGGGGGTATTTCGATAATTTTACAAATCA-A
1 G-GTATTTCGGTAATTTTACAAA-CTAGGGTATTTTGATAATTTTACAAATCAGA
33228717 GGT
1 GGT
33228720 CTTAACGATC
Statistics
Matches: 100, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
53 4 0.04
54 95 0.95
55 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (53 bp):
GGTATTTCGGTAATTTTACAAACTAGGGTATTTTGATAATTTTACAAATCAGA
Found at i:33228651 original size:81 final size:80
Alignment explanation
Indices: 33228531--33228718 Score: 227
Period size: 81 Copynumber: 2.3 Consensus size: 80
33228521 CCTACAGGGA
* * * *
33228531 TATTTTAGTAATTTTACACTACAAGGGTATTTCGGTAATTTTACAAACTGAGG-GTATTTT-GAT
1 TATTTTGGTAATTTTACA-AACAAGGGTATTTCGATAATTTTACAAA-TCAGGTGTATTTTAG-T
*
33228594 AATTTTGCAAATCAGAGG
63 AATTTTACAAATCAGAGG
*
33228612 TATTTTGGTAATTTTACAAACTAGGGGTATTTCGATAATTTTACAAATCAGGTGTATTTTAGTAA
1 TATTTTGGTAATTTTACAAAC-AAGGGTATTTCGATAATTTTACAAATCAGGTGTATTTTAGTAA
* *
33228677 TTTTACAAATCGGGGG
65 TTTTACAAATCAGAGG
* *
33228693 TATTTCGATAATTTTACAAATCAAGG
1 TATTTTGGTAATTTTACAAA-CAAGG
33228719 TCTTAACGAT
Statistics
Matches: 92, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
80 6 0.07
81 84 0.91
82 2 0.02
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (80 bp):
TATTTTGGTAATTTTACAAACAAGGGTATTTCGATAATTTTACAAATCAGGTGTATTTTAGTAAT
TTTACAAATCAGAGG
Found at i:33230269 original size:24 final size:24
Alignment explanation
Indices: 33230224--33230269 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
33230214 CCTAAAATCC
*
33230224 CTCCATGATTTCCTCCCCAATCTT
1 CTCCATGATTTCCTCCACAATCTT
* * *
33230248 CTCCTTGATTTTCTCCATAATC
1 CTCCATGATTTCCTCCACAATC
33230270 CATTCTTTGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.17, C:0.37, G:0.04, T:0.41
Consensus pattern (24 bp):
CTCCATGATTTCCTCCACAATCTT
Found at i:33245616 original size:23 final size:22
Alignment explanation
Indices: 33245569--33245621 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
33245559 AGAATTAGAA
*
33245569 AATAAAATAAAATTTTAAATTGT
1 AATAAAATAAAATTCTAAA-TGT
33245592 AATAAAAGTAAAATTGCTAAA-GT
1 AATAAAA-TAAAATT-CTAAATGT
33245615 AATAAAA
1 AATAAAA
33245622 ATCTAGTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 16 0.59
24 7 0.26
25 4 0.15
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (22 bp):
AATAAAATAAAATTCTAAATGT
Found at i:33247777 original size:46 final size:46
Alignment explanation
Indices: 33247734--33247861 Score: 168
Period size: 46 Copynumber: 2.7 Consensus size: 46
33247724 TCATCTCGTA
* * * *
33247734 GCCGACGCATATCCCAGACATGTCTTACACTTGC-TTACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACT-CGTCTCGAG
* *
33247780 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCGAG
33247826 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGC
33247862 TCTCACAAAT
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
46 45 0.62
47 15 0.21
48 13 0.18
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.25
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCGAG
Found at i:33248091 original size:9 final size:9
Alignment explanation
Indices: 33248077--33248104 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
33248067 ATGTGGCGAC
33248077 TAGTCAATT
1 TAGTCAATT
33248086 TAGTCAATT
1 TAGTCAATT
33248095 TAGTCAATT
1 TAGTCAATT
33248104 T
1 T
33248105 GCTTGGCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TAGTCAATT
Found at i:33253342 original size:13 final size:13
Alignment explanation
Indices: 33253309--33253342 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
33253299 CAGGGACACT
33253309 CCCGTGTGGCACG
1 CCCGTGTGGCACG
*
33253322 CCCATGTGGCACG
1 CCCGTGTGGCACG
*
33253335 CTCGTGTG
1 CCCGTGTG
33253343 AATCGTGCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.09, C:0.35, G:0.35, T:0.21
Consensus pattern (13 bp):
CCCGTGTGGCACG
Found at i:33258246 original size:39 final size:40
Alignment explanation
Indices: 33258151--33258452 Score: 372
Period size: 39 Copynumber: 7.7 Consensus size: 40
33258141 TTGAATGATG
*
33258151 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
33258189 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
33258230 TCCGGGCTAAG-CCCGAAGGCATTTGTGTGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
33258269 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
33258308 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * * *
33258347 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
33258387 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
33258426 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
33258453 AACGAGGAGC
Statistics
Matches: 239, Mismatches: 15, Indels: 17
0.88 0.06 0.06
Matches are distributed among these distances:
39 130 0.54
40 97 0.41
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:33265358 original size:39 final size:40
Alignment explanation
Indices: 33265263--33265564 Score: 365
Period size: 39 Copynumber: 7.7 Consensus size: 40
33265253 TTGAATGATG
*
33265263 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
33265301 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
33265342 TCCGGGCTAAG-CCCGAAGGCATTTGTTCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
33265381 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
33265420 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACT-AAT
* * *
33265460 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
33265499 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTA-AT
*
33265540 T-CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33265565 AACGAGGAGC
Statistics
Matches: 240, Mismatches: 12, Indels: 21
0.88 0.04 0.08
Matches are distributed among these distances:
39 127 0.53
40 98 0.41
41 14 0.06
42 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:33269698 original size:5 final size:5
Alignment explanation
Indices: 33269688--33269715 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
33269678 TAATAATAAT
33269688 ATTAA ATTAA ATTAA ATTAA ATTAA ATT
1 ATTAA ATTAA ATTAA ATTAA ATTAA ATT
33269716 GTAAGGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
ATTAA
Found at i:33273787 original size:10 final size:10
Alignment explanation
Indices: 33273740--33273796 Score: 53
Period size: 10 Copynumber: 5.5 Consensus size: 10
33273730 GAACATGTTG
*
33273740 AATTTTAATT
1 AATTTTGATT
33273750 AATTTT-ATAT
1 AATTTTGAT-T
33273760 CAAATTTTGATT
1 --AATTTTGATT
33273772 AATTTTGATT
1 AATTTTGATT
* *
33273782 ATTTTTGATA
1 AATTTTGATT
33273792 AATTT
1 AATTT
33273797 GCACAAAGGG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 2 0.05
10 29 0.73
12 7 0.17
13 2 0.05
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (10 bp):
AATTTTGATT
Found at i:33280749 original size:107 final size:107
Alignment explanation
Indices: 33280508--33280757 Score: 247
Period size: 107 Copynumber: 2.3 Consensus size: 107
33280498 CGTTAGATGT
* * * *
33280508 GTCTATCCTAATCTTTTTAAGGTTAG-TTTAGACAAGTCTATCCCAACCTGTTTTAAAGGTTGCT
1 GTCTATCTTAATCTTTTTAAGGTT-GTTTTAGAC-GGCCTATCCCAACCTGTTTTAAAAGTTGCT
* * * * *
33280572 TTAGACATGTCTATTTTAACCTTTTTAAGGTTATTTTAGACAAG
64 TTAAAAAGGTCTATTTCAACCTTTTTAAGGTTATCTTAGACAAG
* * ** ** *
33280616 GTTTAT-TCCAA-CTTTTCTAAGGTTGTTTTAGACGGCCTATCTTAATTTTTTTTAAAAGTTGCT
1 GTCTATCT-TAATCTTTT-TAAGGTTGTTTTAGACGGCCTATCCCAACCTGTTTTAAAAGTTGCT
* * *
33280679 TTAAATAAGGTCTATTTCAACTTTTTTAAGGTTGTCTTAGAC-GG
64 TTAAA-AAGGTCTATTTCAACCTTTTTAAGGTTATCTTAGACAAG
*
33280723 GTCTATCTTAATCTTTTTAAGGTTGTTTCAGACGG
1 GTCTATCTTAATCTTTTTAAGGTTGTTTTAGACGG
33280758 GTTTATCTCA
Statistics
Matches: 114, Mismatches: 22, Indels: 13
0.77 0.15 0.09
Matches are distributed among these distances:
107 57 0.50
108 57 0.50
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.45
Consensus pattern (107 bp):
GTCTATCTTAATCTTTTTAAGGTTGTTTTAGACGGCCTATCCCAACCTGTTTTAAAAGTTGCTTT
AAAAAGGTCTATTTCAACCTTTTTAAGGTTATCTTAGACAAG
Found at i:33280756 original size:35 final size:34
Alignment explanation
Indices: 33280508--33280775 Score: 166
Period size: 35 Copynumber: 7.5 Consensus size: 34
33280498 CGTTAGATGT
* * *
33280508 GTCTATCCTAATCTTTTTAAGGTTAGTTTAGACAA
1 GTCTATCTTAACCTTTTTAAGGTT-GTTTAGACAG
** *
33280543 GTCTATCCCAACCTGTTTTAAAGGTTGCTTTAGACAT
1 GTCTATCTTAACCT-TTTT-AAGGTTG-TTTAGACAG
* *
33280580 GTCTATTTTAACCTTTTTAAGGTTATTTTAGACAAG
1 GTCTATCTTAACCTTTTTAAGGTT-GTTTAGAC-AG
* *
33280616 GTTTAT-TCCAA-CTTTTCTAAGGTTGTTTTAGAC-G
1 GTCTATCT-TAACCTTTT-TAAGGTTG-TTTAGACAG
* ** * * *
33280650 GCCTATCTTAATTTTTTTTAAAAGTTGCTTTAAATAAG
1 GTCTATCTTAA-CCTTTTT-AAGGTTG-TTTAGA-CAG
* *
33280688 GTCTAT-TTCAACTTTTTTAAGGTTGTCTTAGACGG
1 GTCTATCTT-AACCTTTTTAAGGTTGT-TTAGACAG
* *
33280723 GTCTATCTTAATCTTTTTAAGGTTGTTTCAGACGG
1 GTCTATCTTAACCTTTTTAAGGTTGTTT-AGACAG
* *
33280758 GTTTATCTCAACCTTTTT
1 GTCTATCTTAACCTTTTT
33280776 TAAATGTCGG
Statistics
Matches: 185, Mismatches: 30, Indels: 36
0.74 0.12 0.14
Matches are distributed among these distances:
34 9 0.05
35 77 0.42
36 58 0.31
37 33 0.18
38 8 0.04
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (34 bp):
GTCTATCTTAACCTTTTTAAGGTTGTTTAGACAG
Found at i:33280776 original size:72 final size:68
Alignment explanation
Indices: 33280508--33280778 Score: 222
Period size: 72 Copynumber: 3.8 Consensus size: 68
33280498 CGTTAGATGT
* * * *
33280508 GTCTATCCTAATCTTTTTAAGGTTAGTTTAGACAAGTCTATCCCAACCTGTTTTAAAGGTTG-CT
1 GTCTATCTTAATCTTTTTAAGGTT-GTTTAGACAGGTCTATCTCAA-CT-TTTTTAAGGTTGTC-
*
33280572 TTAGACAT
62 TTAGAC-G
* * * * * *
33280580 GTCTATTTTAACCTTTTTAAGGTTATTTTAGACAAGGTTTAT-TCCAACTTTTCTAAGGTTGTTT
1 GTCTATCTTAATCTTTTTAAGGTT-GTTTAGAC-AGGTCTATCT-CAACTTTTTTAAGGTTGTCT
33280644 TAGACG
63 TAGACG
* * * * * *
33280650 GCCTATCTTAATTTTTTTTAAAAGTTGCTTTAAATAAGGTCTATTTCAACTTTTTTAAGGTTGTC
1 GTCTATCTTAA-TCTTTTT-AAGGTTG-TTTAGA-CAGGTCTATCTCAACTTTTTTAAGGTTGTC
33280715 TTAGACGG
62 TTAGAC-G
* *
33280723 GTCTATCTTAATCTTTTTAAGGTTGTTTCAGACGGGTTTATCTCAACCTTTTTTAA
1 GTCTATCTTAATCTTTTTAAGGTTGTTT-AGACAGGTCTATCTCAA-CTTTTTTAA
33280779 ATGTCGGCAT
Statistics
Matches: 158, Mismatches: 30, Indels: 23
0.75 0.14 0.11
Matches are distributed among these distances:
70 22 0.14
71 38 0.24
72 77 0.49
73 21 0.13
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (68 bp):
GTCTATCTTAATCTTTTTAAGGTTGTTTAGACAGGTCTATCTCAACTTTTTTAAGGTTGTCTTAG
ACG
Done.