Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
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: 10265705
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 28 of 49
Found at i:5905296 original size:17 final size:18
Alignment explanation
Indices: 5905274--5905313 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
5905264 AAAAAATACA
5905274 AATAAAAATATA-ATTAT
1 AATAAAAATATATATTAT
*
5905291 AATAAAAATATATTTTAT
1 AATAAAAATATATATTAT
5905309 AATAA
1 AATAA
5905314 CTTACTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AATAAAAATATATATTAT
Found at i:5908863 original size:39 final size:39
Alignment explanation
Indices: 5908789--5908864 Score: 93
Period size: 39 Copynumber: 1.9 Consensus size: 39
5908779 AATAACTTTT
*
5908789 ACTATTTTTATAAGAAAAGAAAACAAGATAAAAGAAGTC
1 ACTATTTTTATAAGAAAAGAAAACAAGAGAAAAGAAGTC
* *
5908828 ACTATTTTTGTAA-AAAA-AAAAGAAGAAGAAGAAGAAG
1 ACTATTTTTATAAGAAAAGAAAACAAG-AGAA-AAGAAG
5908865 ATGTATTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 7 0.22
38 7 0.22
39 18 0.56
ACGTcount: A:0.58, C:0.05, G:0.16, T:0.21
Consensus pattern (39 bp):
ACTATTTTTATAAGAAAAGAAAACAAGAGAAAAGAAGTC
Found at i:5912314 original size:12 final size:13
Alignment explanation
Indices: 5912297--5912330 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
5912287 TTCATATGTA
5912297 ATTTAAGT-ATTT
1 ATTTAAGTGATTT
5912309 ATTTAAGTGATTT
1 ATTTAAGTGATTT
*
5912322 AATTAAGTG
1 ATTTAAGTG
5912331 CATCTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (13 bp):
ATTTAAGTGATTT
Found at i:5913096 original size:2 final size:2
Alignment explanation
Indices: 5913082--5913122 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
5913072 AAAACACTAA
*
5913082 AT AT AT -T AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5913123 GAAGCTCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5916650 original size:18 final size:20
Alignment explanation
Indices: 5916609--5916650 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
5916599 TTGATTAACG
*
5916609 GAATGTAAGATTATCAGTGA
1 GAATGTAAGATTATCAGAGA
5916629 GAATGTAAGATTA-CA-AGA
1 GAATGTAAGATTATCAGAGA
5916647 GAAT
1 GAAT
5916651 ATGATTACTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 2 0.10
20 13 0.62
ACGTcount: A:0.45, C:0.05, G:0.24, T:0.26
Consensus pattern (20 bp):
GAATGTAAGATTATCAGAGA
Found at i:5916843 original size:37 final size:36
Alignment explanation
Indices: 5916802--5916875 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 36
5916792 GTTAGAAAAT
*
5916802 ATTTATAT-ATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATAATTTT-TTTAAAAAATTTAAAAT-ATAAA
*
5916839 ATTTATATAATTTTTTTATAAAATTTAAAATATAAA
1 ATTTATATAATTTTTTTAAAAAATTTAAAATATAAA
5916875 A
1 A
5916876 ATGTTTAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
36 6 0.18
37 23 0.68
38 5 0.15
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (36 bp):
ATTTATATAATTTTTTTAAAAAATTTAAAATATAAA
Found at i:5918098 original size:6 final size:6
Alignment explanation
Indices: 5918087--5918124 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
5918077 TCAAGGCTTG
5918087 AGGGCA AGGGCA AGGGCA AGGGCA AGGGCA AGGGCA AG
1 AGGGCA AGGGCA AGGGCA AGGGCA AGGGCA AGGGCA AG
5918125 CCCCATCTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.34, C:0.16, G:0.50, T:0.00
Consensus pattern (6 bp):
AGGGCA
Found at i:5919052 original size:13 final size:13
Alignment explanation
Indices: 5919034--5919058 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5919024 TAGTTAAACA
5919034 GTCTTCATATGCG
1 GTCTTCATATGCG
5919047 GTCTTCATATGC
1 GTCTTCATATGC
5919059 ACGTCTGTAT
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:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (13 bp):
GTCTTCATATGCG
Found at i:5919606 original size:182 final size:182
Alignment explanation
Indices: 5919299--5919662 Score: 728
Period size: 182 Copynumber: 2.0 Consensus size: 182
5919289 ACAGAAACGT
5919299 GTATAAAGTAGAAGTCATGGAAATTACTACAAATGCATTATAAAGAAGACAGAGAAGTTACACCC
1 GTATAAAGTAGAAGTCATGGAAATTACTACAAATGCATTATAAAGAAGACAGAGAAGTTACACCC
5919364 TATGGCTGTGAACCGCACTACTCGGCTACCCTGGTCTTAAGTCTCCATACTTTCCTATCAGAGGT
66 TATGGCTGTGAACCGCACTACTCGGCTACCCTGGTCTTAAGTCTCCATACTTTCCTATCAGAGGT
5919429 CATGTCCTCAGTAAGGGCTAATTCCTTCAAATCAGATTTCAAGCAGTCTTCC
131 CATGTCCTCAGTAAGGGCTAATTCCTTCAAATCAGATTTCAAGCAGTCTTCC
5919481 GTATAAAGTAGAAGTCATGGAAATTACTACAAATGCATTATAAAGAAGACAGAGAAGTTACACCC
1 GTATAAAGTAGAAGTCATGGAAATTACTACAAATGCATTATAAAGAAGACAGAGAAGTTACACCC
5919546 TATGGCTGTGAACCGCACTACTCGGCTACCCTGGTCTTAAGTCTCCATACTTTCCTATCAGAGGT
66 TATGGCTGTGAACCGCACTACTCGGCTACCCTGGTCTTAAGTCTCCATACTTTCCTATCAGAGGT
5919611 CATGTCCTCAGTAAGGGCTAATTCCTTCAAATCAGATTTCAAGCAGTCTTCC
131 CATGTCCTCAGTAAGGGCTAATTCCTTCAAATCAGATTTCAAGCAGTCTTCC
5919663 CACTTCCGCC
Statistics
Matches: 182, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
182 182 1.00
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.27
Consensus pattern (182 bp):
GTATAAAGTAGAAGTCATGGAAATTACTACAAATGCATTATAAAGAAGACAGAGAAGTTACACCC
TATGGCTGTGAACCGCACTACTCGGCTACCCTGGTCTTAAGTCTCCATACTTTCCTATCAGAGGT
CATGTCCTCAGTAAGGGCTAATTCCTTCAAATCAGATTTCAAGCAGTCTTCC
Found at i:5927065 original size:29 final size:30
Alignment explanation
Indices: 5927009--5927066 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
5926999 AAATTATACA
5927009 TTTAACACCTAAATTATCAGTTTATTTCAT
1 TTTAACACCTAAATTATCAGTTTATTTCAT
* * *
5927039 TTTAATACCTAAATTTTCA-TTTGTTTCA
1 TTTAACACCTAAATTATCAGTTTATTTCA
5927067 AAATTGTACT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.31, C:0.16, G:0.03, T:0.50
Consensus pattern (30 bp):
TTTAACACCTAAATTATCAGTTTATTTCAT
Found at i:5930140 original size:25 final size:28
Alignment explanation
Indices: 5930088--5930141 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
5930078 TTTCTTAGAT
* *
5930088 ATGGACTTGCAACAAGAGATTAATTATG
1 ATGGACTTACAACAAGAGATTAAATATG
5930116 ATGGACTTACAACAA-A-A-TAAATATG
1 ATGGACTTACAACAAGAGATTAAATATG
5930141 A
1 A
5930142 ATAAAATGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 8 0.33
26 1 0.04
27 1 0.04
28 14 0.58
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.26
Consensus pattern (28 bp):
ATGGACTTACAACAAGAGATTAAATATG
Found at i:5931546 original size:2 final size:2
Alignment explanation
Indices: 5931534--5931564 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
5931524 TTAGTTTAAC
5931534 AT AT A- 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
5931565 TGTGGTAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5938370 original size:32 final size:32
Alignment explanation
Indices: 5938329--5938395 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 32
5938319 GTATTTGATT
* *
5938329 TGGGTTAA-TTCAGTAG-TTGTCAGCTTAGCTG
1 TGGGTTAATTTCAGTAGCTT-TCAGCTCAACTG
5938360 TGGGTTTAATTTCAGTAGCTTTCAGCTCAACTG
1 TGGG-TTAATTTCAGTAGCTTTCAGCTCAACTG
5938393 TGG
1 TGG
5938396 ATGGAGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 4 0.13
32 4 0.13
33 21 0.68
34 2 0.06
ACGTcount: A:0.19, C:0.15, G:0.27, T:0.39
Consensus pattern (32 bp):
TGGGTTAATTTCAGTAGCTTTCAGCTCAACTG
Found at i:5949302 original size:48 final size:50
Alignment explanation
Indices: 5949224--5949338 Score: 130
Period size: 48 Copynumber: 2.3 Consensus size: 50
5949214 TTATGAATTT
5949224 AATATTAATAAAATATTTTAATATCATTTTAATCAA-AATATTA-ATTATTAA
1 AATA-TAAT-AAATATTTTAATATCATTTTAAT-AATAATATTATATTATTAA
* * *
5949275 AATAT-TTAAATATTTTATTAT-ATTTTTAATAATAATATTATATTTTTAA
1 AATATAATAAATATTTTAATATCA-TTTTAATAATAATATTATATTATTAA
*
5949324 TATATAATAAATATT
1 AATATAATAAATATT
5949339 ATATAATAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
47 3 0.05
48 27 0.49
49 12 0.22
50 9 0.16
51 4 0.07
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (50 bp):
AATATAATAAATATTTTAATATCATTTTAATAATAATATTATATTATTAA
Found at i:5949313 original size:20 final size:20
Alignment explanation
Indices: 5949290--5949399 Score: 98
Period size: 20 Copynumber: 5.3 Consensus size: 20
5949280 TTAAATATTT
5949290 TATTATATTTTTAATAATAA
1 TATTATATTTTTAATAATAA
5949310 TATTATATTTTTAATATATAA
1 TATTATATTTTTAATA-ATAA
* * *
5949331 TA-AATATTATATAATAATTA
1 TATTATATT-TTTAATAATAA
*
5949351 TATTATTTATATTTAATAAATAA
1 TATTA--TATTTTTAAT-AATAA
* *
5949374 TATTAAATTTAATAA-AATAA
1 TATTATATTT-TTAATAATAA
5949394 TATTAT
1 TATTAT
5949400 TTTATATTAA
Statistics
Matches: 72, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
20 36 0.50
21 16 0.22
22 8 0.11
23 12 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTATATTTTTAATAATAA
Found at i:5949410 original size:43 final size:47
Alignment explanation
Indices: 5949322--5949421 Score: 120
Period size: 43 Copynumber: 2.2 Consensus size: 47
5949312 TTATATTTTT
*
5949322 AATATATAATAAATATTATATAATAATTATATTATTTATATTTAAT-A
1 AATA-ATAATAAATATTATATAATAATAATATTATTTATATTTAATCA
*
5949369 AATAATATTAAAT-TTA-ATAA-AATAATATTATTT-TATATTAATCA
1 AATAATAATAAATATTATATAATAATAATATTATTTATAT-TTAATCA
*
5949413 ATTAATAAT
1 AATAATAAT
5949422 CTAATAATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
42 3 0.06
43 17 0.36
44 12 0.26
45 3 0.06
46 8 0.17
47 4 0.09
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (47 bp):
AATAATAATAAATATTATATAATAATAATATTATTTATATTTAATCA
Found at i:5949596 original size:19 final size:20
Alignment explanation
Indices: 5949566--5949618 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
5949556 TAAAACAATT
5949566 ATAAAAATAATATTTTAATA
1 ATAAAAATAATATTTTAATA
5949586 ATAAAAA-AATATTTTAATA
1 ATAAAAATAATATTTTAATA
*
5949605 TTTTAAAAATAATA
1 --ATAAAAATAATA
5949619 ATAGTAAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 12 0.41
20 7 0.24
21 6 0.21
22 4 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATAAAAATAATATTTTAATA
Found at i:5950276 original size:21 final size:20
Alignment explanation
Indices: 5950190--5950347 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
5950180 AAATGACCAA
**
5950190 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
5950209 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
5950229 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
5950249 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
5950270 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
5950291 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* * *
5950311 CCAGAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
5950332 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
5950348 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 40 0.39
21 46 0.45
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:5950376 original size:20 final size:20
Alignment explanation
Indices: 5950315--5950501 Score: 207
Period size: 20 Copynumber: 9.3 Consensus size: 20
5950305 GATTTTCCAG
* ** *
5950315 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
5950335 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
5950355 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
5950375 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
5950395 AATAGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
5950415 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
5950435 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
5950455 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
5950475 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
5950495 AATCGCA
1 AATCGCA
5950502 TATAATCCGT
Statistics
Matches: 142, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
19 2 0.01
20 138 0.97
21 2 0.01
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:5951242 original size:24 final size:24
Alignment explanation
Indices: 5951203--5951249 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
5951193 AAATTTGGTC
5951203 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
5951227 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
5951250 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:5953436 original size:53 final size:54
Alignment explanation
Indices: 5953373--5953654 Score: 256
Period size: 53 Copynumber: 5.2 Consensus size: 54
5953363 GCAACGAGAG
*
5953373 AATCGCAATGCGAAATGAAAATCCCAA-C-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAAGCAATGAAAATCGCAATGC-GAAATGAA
*
5953426 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAAAATCGCAA-GC--AATGAAAATCGCAATGCGAAATGAA
*
5953478 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAA-GC--AATGAAAATCGCAATGCGAAATGAA
5953531 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGC-GAAATGAAAATCGCAA-GC--AATGAAAATCGCAATGCGAAATGAA
*
5953589 AATCGCAA--CG--A-GAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA-GC---AATGAAAATCGCAATGCGAAATGAA
*
5953642 AATCGCATTGCGA
1 AATCGCAATGCGA
5953655 TTCTCTCGTT
Statistics
Matches: 209, Mismatches: 5, Indels: 27
0.87 0.02 0.11
Matches are distributed among these distances:
52 26 0.12
53 150 0.72
55 7 0.03
56 2 0.01
57 1 0.00
58 23 0.11
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (54 bp):
AATCGCAATGCGAAATGAAAATCGCAAGCAATGAAAATCGCAATGCGAAATGAA
Found at i:5953466 original size:72 final size:72
Alignment explanation
Indices: 5953401--5953654 Score: 363
Period size: 72 Copynumber: 3.5 Consensus size: 72
5953391 AAATCCCAAC
* *
5953401 ATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGA-AAT-GAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-A
5953464 AAT-CGCAA
64 AATGCGCAA
*
5953472 CGA-GAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG
1 --ATGAAAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG
* *
5953536 CAATGCGGAA
63 AAATGCGCAA
*
5953546 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGAAA
*
5953611 TGCGGAA
66 TGCGCAA
*
5953618 ATGAAAATCGCAATGCGAAATGAAAATCGCATTGCGA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGA
5953655 TTCTCTCGTT
Statistics
Matches: 170, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
72 145 0.85
73 20 0.12
74 5 0.03
ACGTcount: A:0.45, C:0.17, G:0.24, T:0.15
Consensus pattern (72 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGAAA
TGCGCAA
Found at i:5953688 original size:53 final size:52
Alignment explanation
Indices: 5953625--5953740 Score: 160
Period size: 53 Copynumber: 2.2 Consensus size: 52
5953615 GAAATGAAAA
*
5953625 TCGCAATGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
** ** **
5953677 TCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 T-CGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
5953730 TCGCATTGCGA
1 TCGCATTGCGA
5953741 TTTCATTTCC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 11 0.20
53 45 0.80
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (52 bp):
TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:5953703 original size:19 final size:19
Alignment explanation
Indices: 5953663--5953760 Score: 127
Period size: 19 Copynumber: 5.4 Consensus size: 19
5953653 GATTCTCTCG
5953663 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
5953683 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
5953702 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
5953716 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
5953735 TTGCGA-TTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
5953754 TTGCGAT
1 TTGCGAT
5953761 AGTCATTTTT
Statistics
Matches: 69, Mismatches: 2, Indels: 14
0.81 0.02 0.16
Matches are distributed among these distances:
14 6 0.09
16 7 0.10
17 7 0.10
18 8 0.12
19 26 0.38
20 15 0.22
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:5953707 original size:125 final size:125
Alignment explanation
Indices: 5953373--5953648 Score: 518
Period size: 125 Copynumber: 2.2 Consensus size: 125
5953363 GCAACGAGAG
* *
5953373 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAAAATCGCAATGC
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGCGGAAATGAAAATCGCAATGC
5953437 GAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
65 GAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
5953498 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCG
5953563 AAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
66 AAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
5953623 AATCGCAATGCGAAATGAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCA
5953649 TTGCGATTCT
Statistics
Matches: 148, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
125 147 0.99
126 1 0.01
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (125 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCG
AAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
Found at i:5953892 original size:14 final size:14
Alignment explanation
Indices: 5953863--5953902 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
5953853 TTCGCATCAA
5953863 TTACACAATCAACTT
1 TTACA-AATCAACTT
*
5953878 TTACAAATCATCTT
1 TTACAAATCAACTT
5953892 TTACAAATCAA
1 TTACAAATCAA
5953903 TTAAACAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 18 0.78
15 5 0.22
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (14 bp):
TTACAAATCAACTT
Found at i:5955854 original size:19 final size:19
Alignment explanation
Indices: 5955812--5955915 Score: 127
Period size: 19 Copynumber: 5.4 Consensus size: 19
5955802 TAGTTTACTT
* *
5955812 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
** *
5955832 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAACCAAAA
*
5955851 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
5955870 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
5955889 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
5955908 TCGCAACG
1 TCGCAACG
5955916 ACAGAATCGC
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
19 61 0.84
20 12 0.16
ACGTcount: A:0.46, C:0.26, G:0.18, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:5957904 original size:20 final size:20
Alignment explanation
Indices: 5957873--5957936 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
5957863 TTTTGGTTGA
5957873 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
5957893 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
5957913 AAATGAAAATCGCAACGAGAG
1 -AATGAAAATCGCAACGAGAG
5957934 AAT
1 AAT
5957937 CGCAACGCGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 20 0.54
21 17 0.46
ACGTcount: A:0.47, C:0.16, G:0.25, T:0.12
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:5957925 original size:21 final size:21
Alignment explanation
Indices: 5957871--5957935 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
5957861 TCTTTTGGTT
5957871 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
5957892 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
5957912 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
5957933 GAA
1 GAA
5957936 TCGCAACGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:5957939 original size:14 final size:14
Alignment explanation
Indices: 5957917--5957981 Score: 67
Period size: 14 Copynumber: 4.3 Consensus size: 14
5957907 CGAGAGAAAT
5957917 GAAAATCGCAACGA
1 GAAAATCGCAACGA
*
5957931 GAGAATCGCAACGCGAAA
1 GAAAATCGCAA--CG--A
5957949 TGAAAATCGCAACGA
1 -GAAAATCGCAACGA
*
5957964 GAAAATCGCAACGC
1 GAAAATCGCAACGA
5957978 GAAA
1 GAAA
5957982 TGAAAATCGC
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
14 27 0.63
15 1 0.02
16 2 0.05
17 2 0.05
18 1 0.02
19 10 0.23
ACGTcount: A:0.48, C:0.22, G:0.23, T:0.08
Consensus pattern (14 bp):
GAAAATCGCAACGA
Found at i:5957952 original size:33 final size:33
Alignment explanation
Indices: 5957871--5957993 Score: 156
Period size: 33 Copynumber: 3.5 Consensus size: 33
5957861 TCTTTTGGTT
*
5957871 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAAC--GC
5957912 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
5957945 GAAATGAAAATCGCAACGAGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
5957978 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
5957994 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
33 49 0.61
35 7 0.09
38 1 0.01
40 1 0.01
41 22 0.28
ACGTcount: A:0.47, C:0.19, G:0.24, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:5957958 original size:19 final size:19
Alignment explanation
Indices: 5957871--5957998 Score: 96
Period size: 19 Copynumber: 7.1 Consensus size: 19
5957861 TCTTTTGGTT
*
5957871 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*** *
5957890 GAGAATGACTGTCGCAACGAGA
1 GA-AATGAAAATCGCAAC--GC
5957912 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
5957929 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
5957945 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
5957962 G--A-GAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
5957978 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
5957997 GA
1 GA
5957999 TTTTGGTTTC
Statistics
Matches: 86, Mismatches: 10, Indels: 26
0.70 0.08 0.21
Matches are distributed among these distances:
14 21 0.24
15 2 0.02
16 4 0.05
17 3 0.03
18 2 0.02
19 27 0.31
20 12 0.14
21 11 0.13
22 4 0.05
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:5958029 original size:14 final size:14
Alignment explanation
Indices: 5958010--5958066 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
5958000 TTTGGTTTCG
5958010 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
5958024 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
5958043 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
5958057 CGTTGCGATT
1 CGTTGCGATT
5958067 TTCATTTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:5958042 original size:33 final size:33
Alignment explanation
Indices: 5957994--5958073 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
5957984 AAAATCGCAA
**
5957994 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
5958027 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
5958060 TGCGATTTTCATTT
1 TGCGATTTTCATTT
5958074 TTCTCGTTGC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.09, C:0.21, G:0.23, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:5958079 original size:21 final size:21
Alignment explanation
Indices: 5958054--5958127 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
5958044 GTTGCGATTC
5958054 TCTCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCATTTT
**
5958075 TCTCGTTGCAGATAGTCA-TTT
1 TCTCGTTGC-GATTTTCATTTT
* *
5958096 TCACGTTGCGATTTTCATTTC
1 TCTCGTTGCGATTTTCATTTT
5958117 TCTCGTTGCGA
1 TCTCGTTGCGA
5958128 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.14
21 32 0.73
22 6 0.14
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTT
Found at i:5958292 original size:12 final size:12
Alignment explanation
Indices: 5958267--5958307 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
5958257 CAAACTAAAT
* *
5958267 GTTGCGATTTTC
1 GTTGCTATTCTC
5958279 GTTGCTATTCTC
1 GTTGCTATTCTC
5958291 GTTGCTATTCTC
1 GTTGCTATTCTC
5958303 GTTGC
1 GTTGC
5958308 GATTTTCAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.07, C:0.22, G:0.22, T:0.49
Consensus pattern (12 bp):
GTTGCTATTCTC
Found at i:5958883 original size:20 final size:20
Alignment explanation
Indices: 5958858--5958899 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
5958848 TTCAGAAACA
5958858 GAAGTAGGATTCTGCGTTAG
1 GAAGTAGGATTCTGCGTTAG
* *
5958878 GAAGTAGGATTTTGTGTTAG
1 GAAGTAGGATTCTGCGTTAG
5958898 GA
1 GA
5958900 GTGCAACCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.26, C:0.05, G:0.36, T:0.33
Consensus pattern (20 bp):
GAAGTAGGATTCTGCGTTAG
Found at i:5964251 original size:25 final size:25
Alignment explanation
Indices: 5964202--5964251 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
5964192 TTTTTGGTCC
* *
5964202 ACCCGACCCGATATATAACTTAAAA
1 ACCCGACCCGAAATATAACTAAAAA
5964227 ACCCGACCCGAAATAATAA-TAAAAA
1 ACCCGACCCGAAAT-ATAACTAAAAA
5964252 TATTATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.50, C:0.26, G:0.08, T:0.16
Consensus pattern (25 bp):
ACCCGACCCGAAATATAACTAAAAA
Found at i:5968286 original size:19 final size:19
Alignment explanation
Indices: 5968225--5968304 Score: 94
Period size: 19 Copynumber: 4.3 Consensus size: 19
5968215 GATGGCTCAA
5968225 AGATTGTGTGGTATATGTT
1 AGATTGTGTGGTATATGTT
* * *
5968244 AGATT-TACTGGGT-CAT-TA
1 AGATTGT-GT-GGTATATGTT
5968262 AGATTGTGTGGTATATGTT
1 AGATTGTGTGGTATATGTT
5968281 AGATTGTGTGGTATATGTT
1 AGATTGTGTGGTATATGTT
5968300 AGATT
1 AGATT
5968305 TATTGGGTGG
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
17 3 0.06
18 10 0.20
19 34 0.68
20 3 0.06
ACGTcount: A:0.24, C:0.03, G:0.29, T:0.45
Consensus pattern (19 bp):
AGATTGTGTGGTATATGTT
Found at i:5968363 original size:2 final size:2
Alignment explanation
Indices: 5968356--5968399 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
5968346 TTGATAAATA
5968356 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5968398 AT
1 AT
5968400 TAAGTATCGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5968454 original size:21 final size:21
Alignment explanation
Indices: 5968404--5968455 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
5968394 ATATATTAAG
5968404 TATCGATACTTAACTTTATGA
1 TATCGATACTTAACTTTATGA
* *
5968425 TATCAATACTTAATTTTATGA
1 TATCGATACTTAACTTTATGA
*
5968446 TATTGATACT
1 TATCGATACT
5968456 CTTTAAAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.46
Consensus pattern (21 bp):
TATCGATACTTAACTTTATGA
Found at i:5970764 original size:155 final size:156
Alignment explanation
Indices: 5970482--5970793 Score: 617
Period size: 155 Copynumber: 2.0 Consensus size: 156
5970472 AGTCGTTGAG
5970482 ATTATATAGTATCTTTTGAAAGATGTCCAAAATATACAACGTCTTATAACATTAGCTTCTGTGTT
1 ATTATATAGTATCTTTTGAAAGATGTCCAAAATATACAACGTCTTATAACATTAGCTTCTGTGTT
5970547 TGCCTTTTTCGTCTTTCAAGCATCACAAATGATGCACACATTAAATCATGCGCCTTTCGCTACAA
66 TGCCTTTTTCGTCTTTCAAGCATCACAAATGATGCACACATTAAATCATGCGCCTTTCGCTACAA
5970612 CAAACGTCACC-AAATCCTCGAAAAA
131 CAAACGTCACCAAAATCCTCGAAAAA
5970637 ATTATATAGTATCTTTTGAAAGATGTCCAAAATATACAACGTCTTATAACATTAGCTTCTGTGTT
1 ATTATATAGTATCTTTTGAAAGATGTCCAAAATATACAACGTCTTATAACATTAGCTTCTGTGTT
5970702 TGCCTTTTTCGTCTTTCAAGCATCACAAATGATGCACACATTAAATCATGCGCCTTTCGCTACAA
66 TGCCTTTTTCGTCTTTCAAGCATCACAAATGATGCACACATTAAATCATGCGCCTTTCGCTACAA
5970767 CAAACGTCACCAAAATCCTCGAAAAA
131 CAAACGTCACCAAAATCCTCGAAAAA
5970793 A
1 A
5970794 ATTGGCCAGT
Statistics
Matches: 156, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
155 141 0.90
156 15 0.10
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.32
Consensus pattern (156 bp):
ATTATATAGTATCTTTTGAAAGATGTCCAAAATATACAACGTCTTATAACATTAGCTTCTGTGTT
TGCCTTTTTCGTCTTTCAAGCATCACAAATGATGCACACATTAAATCATGCGCCTTTCGCTACAA
CAAACGTCACCAAAATCCTCGAAAAA
Found at i:5971714 original size:30 final size:29
Alignment explanation
Indices: 5971679--5971744 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
5971669 ATCTTTAATA
** *
5971679 AAATATATTCATATTTTATAAAAATAAAT
1 AAATATATAAATATATTATAAAAATAAAT
*
5971708 ACAATATATAAATATATTATTAAAATAAAT
1 A-AATATATAAATATATTATAAAAATAAAT
5971738 AAATATA
1 AAATATA
5971745 AGCTTGACAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 7 0.22
30 25 0.78
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (29 bp):
AAATATATAAATATATTATAAAAATAAAT
Found at i:5973707 original size:3 final size:3
Alignment explanation
Indices: 5973699--5973799 Score: 202
Period size: 3 Copynumber: 33.7 Consensus size: 3
5973689 AAACCTGAAT
5973699 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
5973747 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
5973795 GAA GA
1 GAA GA
5973800 GTTAAACAGT
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 98 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:5973971 original size:30 final size:30
Alignment explanation
Indices: 5973898--5973963 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
5973888 ATTAACGTCG
* * *
5973898 AGTGACTATTTTATAACAAACGATAACGTA
1 AGTGACAATTTTGTAACAAACGATAACATA
* *
5973928 AGTGACAATTTTGTAACAAATGATAACATT
1 AGTGACAATTTTGTAACAAACGATAACATA
5973958 AGTGAC
1 AGTGAC
5973964 CGATTTGTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (30 bp):
AGTGACAATTTTGTAACAAACGATAACATA
Found at i:5974235 original size:16 final size:16
Alignment explanation
Indices: 5974214--5974246 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
5974204 TAATAAATAA
5974214 ACGAACATAAACAAAC
1 ACGAACATAAACAAAC
*
5974230 ACGAACATAAACGAAC
1 ACGAACATAAACAAAC
5974246 A
1 A
5974247 AAATTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.24, G:0.09, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACAAAC
Found at i:5974327 original size:10 final size:10
Alignment explanation
Indices: 5974312--5974341 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
5974302 CATTTAAATG
5974312 ATAAACGAAC
1 ATAAACGAAC
5974322 ATAAACGAAC
1 ATAAACGAAC
*
5974332 ACAAACGAAC
1 ATAAACGAAC
5974342 GAACATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.60, C:0.23, G:0.10, T:0.07
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:5974347 original size:24 final size:23
Alignment explanation
Indices: 5974312--5974427 Score: 101
Period size: 23 Copynumber: 5.0 Consensus size: 23
5974302 CATTTAAATG
5974312 ATAAACGAACATAAACGAACACA
1 ATAAACGAACATAAACGAACACA
* *
5974335 A-ACGAACGAACATAAATGAACATA
1 ATA--AACGAACATAAACGAACACA
* *
5974359 ATAAATGGACATAAACGAACACA
1 ATAAACGAACATAAACGAACACA
* *
5974382 ATAAACGAACA-ACACAAACACA
1 ATAAACGAACATAAACGAACACA
* * * **
5974404 AAAAACAAACTTATTCGAACACA
1 ATAAACGAACATAAACGAACACA
5974427 A
1 A
5974428 CAAATGAATG
Statistics
Matches: 73, Mismatches: 16, Indels: 8
0.75 0.16 0.08
Matches are distributed among these distances:
22 18 0.25
23 35 0.48
24 19 0.26
25 1 0.01
ACGTcount: A:0.59, C:0.21, G:0.09, T:0.11
Consensus pattern (23 bp):
ATAAACGAACATAAACGAACACA
Found at i:5974630 original size:14 final size:14
Alignment explanation
Indices: 5974611--5974645 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
5974601 TCTTGAAATG
5974611 AATGAACGAACATA
1 AATGAACGAACATA
*
5974625 AATGAATGAACATA
1 AATGAACGAACATA
*
5974639 AACGAAC
1 AATGAAC
5974646 ATATAATCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.14
Consensus pattern (14 bp):
AATGAACGAACATA
Found at i:5977917 original size:15 final size:14
Alignment explanation
Indices: 5977897--5977930 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 14
5977887 AAATATTTTT
5977897 ATATTTAGTTTTAAA
1 ATATTTA-TTTTAAA
5977912 ATATTTTATTTTAAA
1 ATA-TTTATTTTAAA
5977927 ATAT
1 ATAT
5977931 AAATAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.06
15 13 0.72
16 4 0.22
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
ATATTTATTTTAAA
Found at i:5979098 original size:2 final size:2
Alignment explanation
Indices: 5979091--5979169 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
5979081 GTATTATACA
5979091 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5979133 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5979170 AACAATTAAC
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5979445 original size:58 final size:57
Alignment explanation
Indices: 5979309--5979445 Score: 134
Period size: 59 Copynumber: 2.3 Consensus size: 57
5979299 GGTTAAGTAC
* *
5979309 ACAAATGGTCCCCCAACTATAGAGTACTATTTTATTAAGTCCTTGATTATTAAAAGTT
1 ACAAATGGT-CCCCAACTATAGAGTACTATTTTATTAAGTCCTTAACTATTAAAAGTT
* ** * **
5979367 ATGAAATGGTCCCTTGACTATGGAGTGTTGATTTT-TT-AGTCCTTCAACTATTAAAAGTT
1 A-CAAATGGTCCC-CAACTATAGAGTACT-ATTTTATTAAGTCCTT-AACTATTAAAAGTT
5979426 ACAAATGGTCACCCAACTAT
1 ACAAATGGTC-CCCAACTAT
5979446 TCATTATGTT
Statistics
Matches: 63, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
58 24 0.38
59 34 0.54
60 5 0.08
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.36
Consensus pattern (57 bp):
ACAAATGGTCCCCAACTATAGAGTACTATTTTATTAAGTCCTTAACTATTAAAAGTT
Found at i:5987001 original size:139 final size:141
Alignment explanation
Indices: 5986735--5987015 Score: 485
Period size: 139 Copynumber: 2.0 Consensus size: 141
5986725 TTTTTTCTTC
* *
5986735 AAAAAAGTTATTATAGCCTTTGAAAAAGTTAAAGGACTTTAAATAAATTTTAGGCTCTTTTTGGT
1 AAAAAAGTTATTATA-CCTTTGAAAAAGTGAAAGGACTTTAAATAAATTTTAGGCTCTTTTTGAT
5986800 TATTGCTTTGGACATAAAAACTAATATTTTGAAGAATTTAGAAATAATAAGATGCATAGATTTAG
65 TATTGCTTTGGACATAAAAACTAATATTTTGAAGAATTTAGAAATAATAAGATGCATAGATTTAG
5986865 TTTTATAAGGTA
130 TTTTATAAGGTA
5986877 AAAAAAGTTATT-T-CCTTTGAAAAAGTGAAAGGACTTTAAATAAATTTTAGGCTCTTTTTGATT
1 AAAAAAGTTATTATACCTTTGAAAAAGTGAAAGGACTTTAAATAAATTTTAGGCTCTTTTTGATT
* * * *
5986940 GTTGCTTTGGACGTAAAAACTAATATTTTGAAGAATTTAGAAGTAATAAGGTGCATAGATTTAGT
66 ATTGCTTTGGACATAAAAACTAATATTTTGAAGAATTTAGAAATAATAAGATGCATAGATTTAGT
5987005 TTTATAAGGTA
131 TTTATAAGGTA
5987016 GAATTTTCTT
Statistics
Matches: 133, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
139 120 0.90
141 1 0.01
142 12 0.09
ACGTcount: A:0.39, C:0.06, G:0.17, T:0.38
Consensus pattern (141 bp):
AAAAAAGTTATTATACCTTTGAAAAAGTGAAAGGACTTTAAATAAATTTTAGGCTCTTTTTGATT
ATTGCTTTGGACATAAAAACTAATATTTTGAAGAATTTAGAAATAATAAGATGCATAGATTTAGT
TTTATAAGGTA
Found at i:6000653 original size:41 final size:41
Alignment explanation
Indices: 6000552--6000663 Score: 111
Period size: 42 Copynumber: 2.7 Consensus size: 41
6000542 GTAAACAATT
* * * * *
6000552 TAAGTCATTCGGGCCATC-AGTAAGTCTTTCGAGCATGATGA
1 TAAGTTATTCGGGCCATCTA-TAAGCCTTTAGAGCAAGATAA
* *
6000593 TAAAATCT-TTCGGGTCATCTATAAGCCTTTAGAGCAAGATAA
1 T-AAGT-TATTCGGGCCATCTATAAGCCTTTAGAGCAAGATAA
6000635 TAAGTTATTCGGGCCATCTATAAGACCTT
1 TAAGTTATTCGGGCCATCTATAAG-CCTT
6000664 CAGGTAGGAT
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
40 1 0.02
41 20 0.35
42 35 0.61
43 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (41 bp):
TAAGTTATTCGGGCCATCTATAAGCCTTTAGAGCAAGATAA
Found at i:6000908 original size:42 final size:42
Alignment explanation
Indices: 6000778--6000914 Score: 168
Period size: 42 Copynumber: 3.3 Consensus size: 42
6000768 TAGTAAGTCC
* * * *
6000778 TTCGGGCCATCAATAAGTCTTGCGAGTATGATGCTTAAATCCA
1 TTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAAT-CA
* * * *
6000821 -TAGGGCCATCAGTAAGTCTTTCGAGCATAATGATGAAATCC
1 TTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCA
*
6000862 TTCGGGTCATCAGTAAGTCTTTCGAGCATGATGATTAAATCA
1 TTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCA
*
6000904 TTCGGGTCATC
1 TTCGGGCCATC
6000915 CATAAGACCT
Statistics
Matches: 80, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
41 1 0.01
42 79 0.99
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.31
Consensus pattern (42 bp):
TTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCA
Found at i:6001356 original size:53 final size:53
Alignment explanation
Indices: 6001292--6001495 Score: 286
Period size: 53 Copynumber: 3.8 Consensus size: 53
6001282 ATCACACCAT
* * *
6001292 AAGATTGTTCGAGTTCTAATCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAG
1 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCAAACCCATAGGCAG
* *
6001345 AAGATTATTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCATAGGCAG
1 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCAAACCCATAGGCAG
* * *
6001398 AAGATTGTTCGAGTTTTATTCCCTGAAGCAAGAGGGAGCAAACCCACT-GATC-G
1 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCAAACCCA-TAG-GCAG
* *
6001451 AAGATTGTTCGAGTTCTACTCCATGAAGCAATAGGGAGCAAACCC
1 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCAAACCC
6001496 TTTTTTTAAA
Statistics
Matches: 137, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
53 135 0.99
54 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (53 bp):
AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCAAACCCATAGGCAG
Found at i:6013055 original size:21 final size:21
Alignment explanation
Indices: 6013029--6013082 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
6013019 GTTTCCAGAT
6013029 TCGCAACGCGAACTTGGACTA
1 TCGCAACGCGAACTTGGACTA
**
6013050 TCGCAACGTTAACTTGGACTA
1 TCGCAACGCGAACTTGGACTA
*
6013071 TCGCAATGCGAA
1 TCGCAACGCGAA
6013083 TATGTAAATC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (21 bp):
TCGCAACGCGAACTTGGACTA
Found at i:6013121 original size:21 final size:21
Alignment explanation
Indices: 6013091--6013130 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6013081 AATATGTAAA
6013091 TCGCAATGCGATAGTCGAAGT
1 TCGCAATGCGATAGTCGAAGT
*
6013112 TCGCATTGCGATAGTCGAA
1 TCGCAATGCGATAGTCGAA
6013131 TTTGGAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (21 bp):
TCGCAATGCGATAGTCGAAGT
Found at i:6013163 original size:21 final size:21
Alignment explanation
Indices: 6013139--6013207 Score: 129
Period size: 21 Copynumber: 3.3 Consensus size: 21
6013129 AATTTGGAAA
6013139 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
*
6013160 ATCGCAATGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
6013181 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
6013202 ATCGCA
1 ATCGCA
6013208 TTGCGATTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.29, C:0.32, G:0.19, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:6013272 original size:21 final size:21
Alignment explanation
Indices: 6013247--6013318 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
6013237 TCCAAGTTAA
6013247 CGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAATT
* * * *
6013268 TGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAAATT
6013287 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGATTTATTCCAAATT
6013310 CGTTGCGAT
1 CGTTGCGAT
6013319 AATCCAAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
19 8 0.21
21 23 0.59
23 8 0.21
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (21 bp):
CGTTGCGATTTATTCCAAATT
Found at i:6013279 original size:42 final size:42
Alignment explanation
Indices: 6013228--6013325 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
6013218 CATATTCGCA
*
6013228 TTGCGATAGTCCAAGTTAACGTTGCGATTTATTCCAAATTTG
1 TTGCGATAGTCCAAGTTAACGTTGCGATTTATTCCAAATTCG
* **
6013270 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTAACGTTGCGATTTATTCCAAATTCG
*
6013312 TTGCGATAATCCAA
1 TTGCGATAGTCCAA
6013326 AATCGCAACG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (42 bp):
TTGCGATAGTCCAAGTTAACGTTGCGATTTATTCCAAATTCG
Found at i:6013463 original size:19 final size:19
Alignment explanation
Indices: 6013439--6013475 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6013429 CACGACCGGA
*
6013439 GATCGCGTTGCGAATTAGC
1 GATCGCATTGCGAATTAGC
*
6013458 GATCGCATTGCGATTTAG
1 GATCGCATTGCGAATTAG
6013476 TTGGTCATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (19 bp):
GATCGCATTGCGAATTAGC
Found at i:6014339 original size:20 final size:20
Alignment explanation
Indices: 6014316--6014355 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6014306 AAAGAGATAG
*
6014316 ATCCTTTCGATAATATATCA
1 ATCCTTTCGATAAAATATCA
*
6014336 ATCCTTTTGATAAAATATCA
1 ATCCTTTCGATAAAATATCA
6014356 TTTTAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (20 bp):
ATCCTTTCGATAAAATATCA
Found at i:6017334 original size:6 final size:6
Alignment explanation
Indices: 6017323--6017365 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
6017313 CAGAAACCTT
* * * *
6017323 CATTGC CATTGC CATTGC CCTTGC CCTTGC CAATGC CACTGC C
1 CATTGC CATTGC CATTGC CATTGC CATTGC CATTGC CATTGC C
6017366 CTAAAGTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.14, C:0.42, G:0.16, T:0.28
Consensus pattern (6 bp):
CATTGC
Found at i:6029287 original size:13 final size:13
Alignment explanation
Indices: 6029269--6029296 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6029259 ATAGTAAAGA
6029269 AATTGGTCAATCC
1 AATTGGTCAATCC
6029282 AATTGGTCAATCC
1 AATTGGTCAATCC
6029295 AA
1 AA
6029297 CTCTTTTACC
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:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (13 bp):
AATTGGTCAATCC
Found at i:6030815 original size:17 final size:17
Alignment explanation
Indices: 6030793--6030829 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
6030783 ATTGTGGAGA
6030793 GCTCGGATGAAGTGGGG
1 GCTCGGATGAAGTGGGG
6030810 GCTCGGATGAAGTGGGG
1 GCTCGGATGAAGTGGGG
6030827 GCT
1 GCT
6030830 GTTAGGGTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.16, C:0.14, G:0.51, T:0.19
Consensus pattern (17 bp):
GCTCGGATGAAGTGGGG
Found at i:6031132 original size:29 final size:29
Alignment explanation
Indices: 6031099--6031158 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
6031089 TCCCCAAGCA
* * *
6031099 TAGGTCGTCATGCCCTCCGGGGGACCTTG
1 TAGGTCGCCATGCACTCCGGGCGACCTTG
*
6031128 TAGGTCGCCATGCACTCCTGGCGACCTTG
1 TAGGTCGCCATGCACTCCGGGCGACCTTG
6031157 TA
1 TA
6031159 CGTCCCCAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.13, C:0.32, G:0.30, T:0.25
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCGGGCGACCTTG
Found at i:6032879 original size:12 final size:12
Alignment explanation
Indices: 6032864--6032889 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6032854 TTCATAATGA
6032864 CCTTAATAACAT
1 CCTTAATAACAT
6032876 CCTTAATAACAT
1 CCTTAATAACAT
6032888 CC
1 CC
6032890 GTTATTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (12 bp):
CCTTAATAACAT
Found at i:6033930 original size:24 final size:22
Alignment explanation
Indices: 6033873--6033924 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
6033863 TAAGTCACTA
*
6033873 TTTTTATTAAATAAAAATATTT
1 TTTTTATTGAATAAAAATATTT
6033895 TTTTTATTGAATAAAAATATTT
1 TTTTTATTGAATAAAAATATTT
6033917 TTTTTATT
1 TTTTTATT
6033925 TCGAATCGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTTTATTGAATAAAAATATTT
Found at i:6035386 original size:14 final size:14
Alignment explanation
Indices: 6035362--6035408 Score: 67
Period size: 14 Copynumber: 3.4 Consensus size: 14
6035352 GCGAGAGCAT
*
6035362 CCGAAGCCATCCGA
1 CCGAGGCCATCCGA
*
6035376 CCGAGGGCATCCGA
1 CCGAGGCCATCCGA
6035390 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
*
6035404 GCGAG
1 CCGAG
6035409 CTATACGAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.23, C:0.38, G:0.32, T:0.06
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:6036270 original size:27 final size:27
Alignment explanation
Indices: 6036215--6036270 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
6036205 GATACTACAG
* *
6036215 ATTTACATATTAATTTCTTTACAATAA
1 ATTTAAATATTAATTTCTTTACAAGAA
* *
6036242 ATTTAAATATTAATTTCTTTTCTAGAA
1 ATTTAAATATTAATTTCTTTACAAGAA
6036269 AT
1 AT
6036271 ACTTTAGTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (27 bp):
ATTTAAATATTAATTTCTTTACAAGAA
Found at i:6045339 original size:18 final size:19
Alignment explanation
Indices: 6045316--6045354 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
6045306 TTAATTTTAG
*
6045316 TTTTTTTTATAAAATT-AA
1 TTTTTTTAATAAAATTGAA
*
6045334 TTTTTTTAATTAAATTGAA
1 TTTTTTTAATAAAATTGAA
6045353 TT
1 TT
6045355 CAAAAAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTTTTAATAAAATTGAA
Found at i:6046941 original size:199 final size:197
Alignment explanation
Indices: 6046547--6047143 Score: 752
Period size: 199 Copynumber: 3.0 Consensus size: 197
6046537 ACAAAGTCTT
* * *
6046547 GATACTTAGAATTTTGAAA-CGTATTACTTTAAATAATACGTAAATTTACAATATAAACGGTAAA
1 GATACTTGGAATTTCGAAACCG-ATTACTTTAAATAATAGGTAAATTTACAATATAAACGGTAAA
* * * *
6046611 AATCTACCGGTTTAATGATAATAGGCGTAGACATAAAGTATTGATACTTATTATATAGGTATCGA
65 AATCTACAGGTTTAATGATAATAGGCGTAAACATCAAGTATTGATACTTTTTATATAGGTATCGA
* *
6046676 TA-TTGTTATTACAATATGCATCTCAAACAATTTGCACGCAAAAAGTATCAATACACATATATAA
130 TACTT-TTATT-CAGTATGCTTCTCAAACAATTTGCACGC-AAAAGTATCAATACACATATATAA
6046740 AGTATC
192 AGTATC
* * * *
6046746 GATACTTGGACTTTGGAAACCGATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACAGTAAA
1 GATACTTGGAATTTCGAAACCGATTACTTTAAA-TAATAGGTAAATTTACAATATAAACGGTAAA
* *
6046811 AATCTACAGGTTTAATGATAATAGGCGTAAACATCAAGTATTAATACTTTTTGTATAGGTATCGA
65 AATCTACAGGTTTAATGATAATAGGCGTAAACATCAAGTATTGATACTTTTTATATAGGTATCGA
* * *
6046876 TACTTTTAGTCTAGTATGCTTCTC-AACAATTTGCACGCACAAAGTATTAATACACATGTATAAA
130 TACTTTTATTC-AGTATGCTTCTCAAACAATTTGCACGCA-AAAGTATCAATACACATATATAAA
6046940 GTATC
193 GTATC
* * *
6046945 GATACGTGGAATTTCAAAACCGATTACTTTAAAATTATAGGTAAATTT-CAATATAAACGGTAAA
1 GATACTTGGAATTTCGAAACCGATTACTTT-AAATAATAGGTAAATTTACAATATAAACGGTAAA
* * * * * * * * * * *
6047009 AGTCTACTGATATATTGATAATAGGCGTAAATACCAAGTATCGATACTGTCTATATAGATATCGA
65 AATCTACAGGTTTAATGATAATAGGCGTAAACATCAAGTATTGATACTTTTTATATAGGTATCGA
** * *
6047074 TACTTTTATTCCAGTATATTTCTCAAACAATTTGCACGTAAAATGTATCGATACACATATATAAA
130 TACTTTTATT-CAGTATGCTTCTCAAACAATTTGCACGCAAAA-GTATCAATACACATATATAAA
6047139 GTATC
193 GTATC
6047144 ACTACTTATA
Statistics
Matches: 345, Mismatches: 44, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
198 89 0.26
199 146 0.42
200 108 0.31
201 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.34
Consensus pattern (197 bp):
GATACTTGGAATTTCGAAACCGATTACTTTAAATAATAGGTAAATTTACAATATAAACGGTAAAA
ATCTACAGGTTTAATGATAATAGGCGTAAACATCAAGTATTGATACTTTTTATATAGGTATCGAT
ACTTTTATTCAGTATGCTTCTCAAACAATTTGCACGCAAAAGTATCAATACACATATATAAAGTA
TC
Found at i:6047581 original size:20 final size:20
Alignment explanation
Indices: 6047536--6047581 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
6047526 GTAAACATCA
* *
6047536 AGTATCGATACTTTTTGTAT
1 AGTATCGATACTTTTAGTAC
*
6047556 AGGTATCGATACTTTTAGTCC
1 A-GTATCGATACTTTTAGTAC
6047577 AGTAT
1 AGTAT
6047582 GCTTCTCAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.43
Consensus pattern (20 bp):
AGTATCGATACTTTTAGTAC
Found at i:6047667 original size:199 final size:199
Alignment explanation
Indices: 6047267--6047910 Score: 635
Period size: 199 Copynumber: 3.2 Consensus size: 199
6047257 GTATCGATAC
* * * * * *
6047267 GTAATAGGTAAATTAACAATGTACATGGTAAATGTTTCTATTGGTATAATGA-AA-ATGCGTAAA
1 GTAATAGGTAAATTTACAATGTAAACGGTAAAAG--TCTATCGGTATAATGATAATAGGCGTAAA
** * * ** * * *
6047330 TGTACAAGTATCAATACTTAT-TATATAGGTATTAATA-TTGTTATTCCAGTATACATCTCAAA-
64 CAT-CAAGTATCGATA-TTGTCTATATAGGTATCGATACTT-TTAGTCCAGTATGCTTCTCAAAC
* * * * *
6047392 ATTTTTGTGCACA-AAAAGTATCGATACACATATATAAAGTATCGATACTTCGACTTTCGAAA-T
126 A--ATT-TGCACACAAAAGTATCAATACACATATATAAAGTATCGATACTTAGAATTTTGAAACT
* *
6047455 CGAATACTTTAAA
188 -GATTATTTTAAA
* * * *
6047468 GTAATATGTAAATTTACAATGTAAACGGTAAAAATATATCGGTTTAATGATAATAGGCGTAAACA
1 GTAATAGGTAAATTTACAATGTAAACGGTAAAAGTCTATCGGTATAATGATAATAGGCGTAAACA
* *
6047533 TCAAGTATCGATACTT-TTTGTATAGGTATCGATACTTTTAGTCCAGTATGCTTCTC-AACAATT
66 TCAAGTATCGATA-TTGTCTATATAGGTATCGATACTTTTAGTCCAGTATGCTTCTCAAACAATT
* * * * *
6047596 TGCACGCACAAAGTATTAATACACATGTATAAAGTATCGGTACGTAGAATTTTGAAACTGATTAT
130 TGCACACA-AAAGTATCAATACACATATATAAAGTATCGATACTTAGAATTTTGAAACTGATTAT
6047661 TTTAAA
194 TTTAAA
* ** * * *
6047667 GTTATAGGTAAATTTACAATGTAAACGGTAAAAGTCTA-CTAATATATTGATAATAGGTGTAAAT
1 GTAATAGGTAAATTTACAATGTAAACGGTAAAAGTCTATC-GGTATAATGATAATAGGCGTAAAC
* *
6047731 ATCAAGTATCGATATTGTCTATATAGGTATCGATACTTTTATTCCAGTATGTTTCTCAAACAATT
65 ATCAAGTATCGATATTGTCTATATAGGTATCGATACTTTTAGTCCAGTATGCTTCTCAAACAATT
* * * *
6047796 TGCACACAAAATGTATCAATACATATATATAATGTATCAATACTTATAATTTTGAAACCT-ATTA
130 TGCACACAAAA-GTATCAATACACATATATAAAGTATCGATACTTAGAATTTTGAAA-CTGATTA
*
6047860 TTGTAAA
193 TTTTAAA
* * * *
6047867 GTAATAGGTTAATTTATAATGAAAATGGTAAAAGTCTATCGGTA
1 GTAATAGGTAAATTTACAATGTAAACGGTAAAAGTCTATCGGTA
6047911 CACATGTATA
Statistics
Matches: 367, Mismatches: 62, Indels: 29
0.80 0.14 0.06
Matches are distributed among these distances:
197 5 0.01
198 6 0.02
199 171 0.47
200 143 0.39
201 42 0.11
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (199 bp):
GTAATAGGTAAATTTACAATGTAAACGGTAAAAGTCTATCGGTATAATGATAATAGGCGTAAACA
TCAAGTATCGATATTGTCTATATAGGTATCGATACTTTTAGTCCAGTATGCTTCTCAAACAATTT
GCACACAAAAGTATCAATACACATATATAAAGTATCGATACTTAGAATTTTGAAACTGATTATTT
TAAA
Found at i:6048166 original size:297 final size:294
Alignment explanation
Indices: 6047615--6048206 Score: 708
Period size: 297 Copynumber: 2.0 Consensus size: 294
6047605 AAAGTATTAA
* * * * * *
6047615 TACACATGTATAAAGTATCGGTACGTAGAATTTTGAAACTGATTATTTTAAAGTTATAGGTAAAT
1 TACACATGTATAAAGTATCGATACATAGAATATTAAAACTGATTACTTTAAAGTAATAGGTAAAT
* * * * *
6047680 TTACAATGTAAACGGTAAAAGTCTACTAATATATTGATAATAGGTGTAAATATCAAGTATCGATA
66 TAACAATGTAAACGGTAAAAGTCTACCAATATAATGAAAATAGGCGTAAATATCAAGTATCGATA
* * ** * *
6047745 TTGTCTATATAGGTATCGATACTTTTATTCCAGTATGTTTCTCAAACAATTTGCACACAAAATGT
131 TCGTCTATATAGGTATCGACACTTTTATTCCAGTATGCATCTCAAACAATTTACACACAAAAAGT
* * * *
6047810 ATCAATACATATATATAATGTATCAATACTTATAATTTTGAAACCTATTATTGTAAAGTAATAGG
196 ATCAATACACATATATAAAGTATCAATACTTAGAATTTCGAAACCTATTATTGTAAAGTAATAGG
* * * * *
6047875 TTAATTTATAATGAAAATGGTAAAAGTCTATCGG
261 TAAATTTACAATGAAAACGGTAAAAATCTACCGG
* * *
6047909 TACACATGTATAAAGTATCGATACAT-GCAATATTAAAACTTATTGCTTTAAAGTAATAGGTGAA
1 TACACATGTATAAAGTATCGATACATAG-AATATTAAAACTGATTACTTTAAAGTAATAGGTAAA
* * ** *
6047973 TTAACAATGTACACGGTAAATATTTCTACCGGTATAATGAAAATAGGCGTAAATGTACAAGTATC
65 TTAACAATGTAAACGGTAAA-A-GTCTACCAATATAATGAAAATAGGCGTAAATAT-CAAGTATC
* *
6048038 GATA-CGTATTATATAGGTATCGACA-TTGTTATTCCAGTATGCATCTCAAACAATTTACACGCA
127 GATATCGT-CTATATAGGTATCGACACTT-TTATTCCAGTATGCATCTCAAACAATTTACACACA
* * * *
6048101 AAAAGTATCGATACACATATATAAAGTATCGATACTTGGACTTTCGAAA-CTAATTACTT-TAAA
190 AAAAGTATCAATACACATATATAAAGTATCAATACTTAGAATTTCGAAACCT-ATTA-TTGTAAA
*
6048164 GTAATAGGTAAATTTACAATGTAAACGGTAAAAATCTACCGG
253 GTAATAGGTAAATTTACAATGAAAACGGTAAAAATCTACCGG
6048206 T
1 T
6048207 CTAATGATAA
Statistics
Matches: 249, Mismatches: 41, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
293 1 0.00
294 71 0.29
295 1 0.00
296 31 0.12
297 143 0.57
298 2 0.01
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (294 bp):
TACACATGTATAAAGTATCGATACATAGAATATTAAAACTGATTACTTTAAAGTAATAGGTAAAT
TAACAATGTAAACGGTAAAAGTCTACCAATATAATGAAAATAGGCGTAAATATCAAGTATCGATA
TCGTCTATATAGGTATCGACACTTTTATTCCAGTATGCATCTCAAACAATTTACACACAAAAAGT
ATCAATACACATATATAAAGTATCAATACTTAGAATTTCGAAACCTATTATTGTAAAGTAATAGG
TAAATTTACAATGAAAACGGTAAAAATCTACCGG
Found at i:6048191 original size:696 final size:683
Alignment explanation
Indices: 6046563--6048358 Score: 2427
Period size: 689 Copynumber: 2.6 Consensus size: 683
6046553 TAGAATTTTG
* * * * * * * *
6046563 AAACGTATTACTTTAAA-TAATACGTAAATTTACAATATAAACGGTAAA-A-ATCTACCGGTTTA
1 AAACTTATTGCTTTAAAGTAATAGGTAAATTAACAATGTACACGGTAAATATTTCTACCGGTATA
* * ** * *
6046625 ATGATAATAGGCGTAGACATA-AAGTATTGATACTTATTATATAGGTATCGATATTGTTATTACA
66 ATGAAAATAGGCGTAAATGTACAAGTATCGATACTTATTATATAGGTATCGATATTGTTATTCCA
* *
6046689 ATATGCATCTCAAACAATTTGCACGCAAAAAGTATCAATACACATATATAAAGTATCGATACTTG
131 GTATGCATCTCAAACAATTTGCACGCAAAAAGTATCGATACACATATATAAAGTATCGATACTTG
* * *
6046754 GACTTTGGAAACCGATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACAGTAAAAATCTACA
196 GACTTTCGAAACCAATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAATCTAC-
6046819 GGTTTAATGATAATAGGCGTAAACATCAAGTATTA-ATACTTTTTGTATAGGTATCGATACTTTT
260 GGTTTAATGATAATAGGCGTAAACATCAAGTA-TAGATACTTTTTGTATAGGTATCGATACTTTT
*
6046883 AGTCTAGTATGCTTCTCAACAATTTGCACGCACAAAGTATTAATACACATGTATAAAGTATCGAT
324 AGTCCAGTATGCTTCTCAACAATTTGCACGCACAAAGTATTAATACACATGTATAAAGTATCGAT
*
6046948 ACGTGGAATTTCAAAACCGATTACTTTAAAATTATAGGTAAATTTCAATATAAACGGTAAAAGTC
389 ACGTAGAATTTCAAAACCGATTACTTTAAAATTATAGGTAAATTTCAATATAAACGGTAAAAGTC
*
6047013 TACTGATATATTGATAATAGGCGTAAATACCAAGTATCGATACTGTCTATATAGATATCGATACT
454 TACTAATATATTGATAATAGGCGTAAATACCAAGTATCGATACTGTCTATATAGATATCGATACT
** *
6047078 TTTATTCCAGTATATTTCTCAAACAATTTGCACGTAAAATGTATCGATACACATATATAAAGTAT
519 TTTATTCCAGTATATTTCTCAAACAATTTGCACACAAAATGTATCAATACACATATATAAAGTAT
*
6047143 CACTACTTATAATTTTGAAAAAAGTAATAGGTTAATTTACAACGAAAATGGGAAAAGTCTACCGG
584 CAATACTTATAATTTTGAAAAAAGTAATAGGTTAATTTACAACGAAAATGGGAAAAGTCTACCGG
*
6047208 TATAATGTTACTATGCTTAAGTAATCAAGTATCGTTAC
649 TACAATGTTACTATGC-TAAGTAATCAAGTA-C-TTAC
* ** * * * * **
6047246 ACACGTATAAAG-TATCGATACGTAATAGGTAAATTAACAATGTACATGGTAAATGTTTCTATTG
1 AAAC-T-TATTGCT-T-TA-AAGTAATAGGTAAATTAACAATGTACACGGTAAATATTTCTACCG
* **
6047310 GTATAATGAAAAT--GCGTAAATGTACAAGTATCAATACTTATTATATAGGTATTAATATTGTTA
61 GTATAATGAAAATAGGCGTAAATGTACAAGTATCGATACTTATTATATAGGTATCGATATTGTTA
* * ** *
6047373 TTCCAGTATACATCTCAAA-ATTTTTGTGCACAAAAAGTATCGATACACATATATAAAGTATCGA
126 TTCCAGTATGCATCTCAAACA-ATTTGCACGCAAAAAGTATCGATACACATATATAAAGTATCGA
* * *
6047437 TACTTCGACTTTCGAAATCGAA-TACTTTAAAGTAATATGTAAATTTACAATGTAAACGGTAAAA
190 TACTTGGACTTTCGAAA-CCAATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAA
* *
6047501 ATATATCGGTTTAATGATAATAGGCGTAAACATCAAGTATCGATACTTTTTGTATAGGTATCGAT
254 ATCTA-CGGTTTAATGATAATAGGCGTAAACATCAAGTATAGATACTTTTTGTATAGGTATCGAT
6047566 ACTTTTAGTCCAGTATGCTTCTCAACAATTTGCACGCACAAAGTATTAATACACATGTATAAAGT
318 ACTTTTAGTCCAGTATGCTTCTCAACAATTTGCACGCACAAAGTATTAATACACATGTATAAAGT
* ** * * * *
6047631 ATCGGTACGTAGAATTTTGAAACTGATTATTTTAAAGTTATAGGTAAATTTACAATGTAAACGGT
383 ATCGATACGTAGAATTTCAAAACCGATTACTTTAAAATTATAGGTAAATTT-CAATATAAACGGT
* * * *
6047696 AAAAGTCTACTAATATATTGATAATAGGTGTAAATATCAAGTATCGATATTGTCTATATAGGTAT
447 AAAAGTCTACTAATATATTGATAATAGGCGTAAATACCAAGTATCGATACTGTCTATATAGATAT
* *
6047761 CGATACTTTTATTCCAGTATGTTTCTCAAACAATTTGCACACAAAATGTATCAATACATATATAT
512 CGATACTTTTATTCCAGTATATTTCTCAAACAATTTGCACACAAAATGTATCAATACACATATAT
* * *
6047826 AATGTATCAATACTTATAATTTTGAAACCTATTATTGTAAAGTAATAGGTTAATTTATAATGAAA
577 AAAGTATCAATACTTATAATTTTG--A---A--A----AAAGTAATAGGTTAATTTACAACGAAA
* * * *
6047891 ATGGTAAAAGTCTATCGGTACACATG-TA-TAAAG-TATCGATACATGCAA-TA-TTA-
631 ATGGGAAAAGTCTACCGGTACA-ATGTTACT-ATGCTA-AG-TA-AT-CAAGTACTTAC
*
6047944 AAACTTATTGCTTTAAAGTAATAGGTGAATTAACAATGTACACGGTAAATATTTCTACCGGTATA
1 AAACTTATTGCTTTAAAGTAATAGGTAAATTAACAATGTACACGGTAAATATTTCTACCGGTATA
* *
6048009 ATGAAAATAGGCGTAAATGTACAAGTATCGATACGTATTATATAGGTATCGACATTGTTATTCCA
66 ATGAAAATAGGCGTAAATGTACAAGTATCGATACTTATTATATAGGTATCGATATTGTTATTCCA
*
6048074 GTATGCATCTCAAACAATTTACACGCAAAAAGTATCGATACACATATATAAAGTATCGATACTTG
131 GTATGCATCTCAAACAATTTGCACGCAAAAAGTATCGATACACATATATAAAGTATCGATACTTG
*
6048139 GACTTTCGAAACTAATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAATCTACC
196 GACTTTCGAAACCAATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAATCTA-C
* * *
6048204 GGTCTAATGATAATAGGCGTAAACATCAAGTATAGATATTTTTTGTATATGTATCGATACTTTTA
260 GGTTTAATGATAATAGGCGTAAACATCAAGTATAGATACTTTTTGTATAGGTATCGATACTTTTA
* ** *
6048269 GTCCAATATGCTTCTCAACAATTTGCACGCACAAAGTATCGATACACATGTATAAAGTATCAATA
325 GTCCAGTATGCTTCTCAACAATTTGCACGCACAAAGTATTAATACACATGTATAAAGTATCGATA
*** *
6048334 CACGGAATTTCGAAACCGATTACTT
390 CGTAGAATTTCAAAACCGATTACTT
6048359 CAATAATGTT
Statistics
Matches: 967, Mismatches: 110, Indels: 59
0.85 0.10 0.05
Matches are distributed among these distances:
683 3 0.00
684 1 0.00
685 3 0.00
686 1 0.00
687 1 0.00
688 36 0.04
689 310 0.32
690 173 0.18
692 1 0.00
694 52 0.05
695 5 0.01
696 307 0.32
697 4 0.00
698 3 0.00
699 5 0.01
700 2 0.00
701 50 0.05
702 7 0.01
703 3 0.00
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (683 bp):
AAACTTATTGCTTTAAAGTAATAGGTAAATTAACAATGTACACGGTAAATATTTCTACCGGTATA
ATGAAAATAGGCGTAAATGTACAAGTATCGATACTTATTATATAGGTATCGATATTGTTATTCCA
GTATGCATCTCAAACAATTTGCACGCAAAAAGTATCGATACACATATATAAAGTATCGATACTTG
GACTTTCGAAACCAATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAATCTACG
GTTTAATGATAATAGGCGTAAACATCAAGTATAGATACTTTTTGTATAGGTATCGATACTTTTAG
TCCAGTATGCTTCTCAACAATTTGCACGCACAAAGTATTAATACACATGTATAAAGTATCGATAC
GTAGAATTTCAAAACCGATTACTTTAAAATTATAGGTAAATTTCAATATAAACGGTAAAAGTCTA
CTAATATATTGATAATAGGCGTAAATACCAAGTATCGATACTGTCTATATAGATATCGATACTTT
TATTCCAGTATATTTCTCAAACAATTTGCACACAAAATGTATCAATACACATATATAAAGTATCA
ATACTTATAATTTTGAAAAAAGTAATAGGTTAATTTACAACGAAAATGGGAAAAGTCTACCGGTA
CAATGTTACTATGCTAAGTAATCAAGTACTTAC
Found at i:6048347 original size:199 final size:203
Alignment explanation
Indices: 6047903--6048358 Score: 564
Period size: 203 Copynumber: 2.3 Consensus size: 203
6047893 GGTAAAAGTC
* * * * *
6047903 TATCGGTACACATGTATAAAGTATCGATACATGCAATATT-AAAACTTATTGCTTTAAAGTAATA
1 TATCGATACACATGTATAAAGTATCGATACATGGAAT-TTCGAAACTAATTACTTTAAAGTAATA
* * * **
6047967 GGTGAATTAACAATGTACACGGTAAATATTTCTACCGGTATAATGAAAATAGGCGTAAATGTACA
65 GGTAAATTAACAATGTAAACGGTAAATATATCTACCGGTATAATGAAAATAGGCGTAAACATACA
* * *
6048032 AGTATCGATACGTATTATATAGGTATCGACATTGTTATTCCAGTATGCATCTCAAACAATTTACA
130 AGTATAGATACGTATTATATAGGTATCGACATTGTTAGTCCAATATGCATCTCAAACAATTTACA
6048097 CGCAAAAAG
195 CGCAAAAAG
* * *
6048106 TATCGATACACATATATAAAGTATCGATACTTGGACTTTCGAAACTAATTACTTTAAAGTAATAG
1 TATCGATACACATGTATAAAGTATCGATACATGGAATTTCGAAACTAATTACTTTAAAGTAATAG
* * *
6048171 GTAAATTTACAATGTAAACGGTAAA-A-ATCTACCGGTCTAATGATAATAGGCGTAAACAT-CAA
66 GTAAATTAACAATGTAAACGGTAAATATATCTACCGGTATAATGAAAATAGGCGTAAACATACAA
** * * * * * *
6048233 GTATAGATATTTTTTGTATATGTATCGATACTT-TTAGTCCAATATGCTTCTC-AACAATTTGCA
131 GTATAGATACGTATTATATAGGTATCGACA-TTGTTAGTCCAATATGCATCTCAAACAATTTACA
*
6048296 CGCACAAAG
195 CGCAAAAAG
* * **
6048305 TATCGATACACATGTATAAAGTATCAATACACGGAATTTCGAAACCGATTACTT
1 TATCGATACACATGTATAAAGTATCGATACATGGAATTTCGAAACTAATTACTT
6048359 CAATAATGTT
Statistics
Matches: 216, Mismatches: 35, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
199 65 0.30
200 42 0.19
201 30 0.14
202 3 0.01
203 76 0.35
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (203 bp):
TATCGATACACATGTATAAAGTATCGATACATGGAATTTCGAAACTAATTACTTTAAAGTAATAG
GTAAATTAACAATGTAAACGGTAAATATATCTACCGGTATAATGAAAATAGGCGTAAACATACAA
GTATAGATACGTATTATATAGGTATCGACATTGTTAGTCCAATATGCATCTCAAACAATTTACAC
GCAAAAAG
Found at i:6049212 original size:29 final size:29
Alignment explanation
Indices: 6049178--6049270 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 29
6049168 GATTTATTGG
* *
6049178 TTAGTCCTTAAACTTTAGGTGTTA-TAGAT
1 TTAGTCCTTAAACTTTAGGT-TTATTACAC
**
6049207 TTAGTCCTTTTACTTTA-GTTTATTTACAC
1 TTAGTCCTTAAACTTTAGGTTTA-TTACAC
* *
6049236 TTAGGTCCTTAAACTTTA-GTTTTTTACAT
1 TTA-GTCCTTAAACTTTAGGTTTATTACAC
6049265 TTAGTC
1 TTAGTC
6049271 TCTGGATTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
27 3 0.06
28 5 0.09
29 29 0.55
30 16 0.30
ACGTcount: A:0.24, C:0.14, G:0.12, T:0.51
Consensus pattern (29 bp):
TTAGTCCTTAAACTTTAGGTTTATTACAC
Found at i:6050865 original size:17 final size:17
Alignment explanation
Indices: 6050843--6050890 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
6050833 TCGATCCGTT
*
6050843 CCATTTTACTCTCTCAA
1 CCATTTTAGTCTCTCAA
* *
6050860 CCATTTTAGTCCCTCAG
1 CCATTTTAGTCTCTCAA
6050877 CCATTTTAGTCTCT
1 CCATTTTAGTCTCT
6050891 TTAATTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.19, C:0.33, G:0.06, T:0.42
Consensus pattern (17 bp):
CCATTTTAGTCTCTCAA
Found at i:6051732 original size:20 final size:20
Alignment explanation
Indices: 6051688--6051853 Score: 133
Period size: 20 Copynumber: 8.2 Consensus size: 20
6051678 AATGACCAAC
* *
6051688 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
*
6051707 AAAATCGCAACGCGGTTTAG
1 AAAATCGCAACGCGATTTAG
**
6051727 AAAATCGCAACGTCGA-AAAG
1 AAAATCGCAACG-CGATTTAG
**
6051747 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TTAG
**
6051767 AAAATCGCAACGCGATATTCC
1 AAAATCGCAACGCGAT-TTAG
* *
6051788 AAGAATCGCAATGCGATTAAG
1 AA-AATCGCAACGCGATTTAG
*
6051809 AGAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
* *
6051829 AAAATCGCAATGCGATTCAG
1 AAAATCGCAACGCGATTTAG
6051849 AAAAT
1 AAAAT
6051854 GAGTAAATTC
Statistics
Matches: 119, Mismatches: 20, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.01
19 16 0.13
20 80 0.67
21 8 0.07
22 14 0.12
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.17
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:6051831 original size:82 final size:79
Alignment explanation
Indices: 6051688--6051838 Score: 205
Period size: 82 Copynumber: 1.9 Consensus size: 79
6051678 AATGACCAAC
* *
6051688 AAAATCGCAACGCGATATCAAAATCGCAACGCGGTTTAGAAAATCGCAACGTCGAAAAGAAAATC
1 AAAATCGCAACGCGATATCAAAATCGCAACGCGATTAAGAAAATCGCAACGTCGAAAAGAAAATC
6051753 GCAACGGTCAAAAG
66 GCAACGGTCAAAAG
* * **
6051767 AAAATCGCAACGCGATATTCCAAGAATCGCAATGCGATTAAGAGAATCGCAACG-CGATTTAGAA
1 AAAATCGCAACGCGATA-T-CAA-AATCGCAACGCGATTAAGAAAATCGCAACGTCGA-AAAGAA
6051831 AATCGCAA
62 AATCGCAA
6051839 TGCGATTCAG
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 17 0.27
80 1 0.02
81 6 0.10
82 38 0.61
ACGTcount: A:0.43, C:0.21, G:0.20, T:0.16
Consensus pattern (79 bp):
AAAATCGCAACGCGATATCAAAATCGCAACGCGATTAAGAAAATCGCAACGTCGAAAAGAAAATC
GCAACGGTCAAAAG
Found at i:6051844 original size:40 final size:40
Alignment explanation
Indices: 6051688--6051853 Score: 151
Period size: 40 Copynumber: 4.1 Consensus size: 40
6051678 AATGACCAAC
* * *
6051688 AAAATCGCAACGCGATAT-CAAAATCGCAACGCGGTTTAG
1 AAAATCGCAACGCGATATACAAAATCGCAATGCGATTAAG
* * * *
6051727 AAAATCGCAACGTCGA-AAAGAAAATCGCAA--CGGTCAAAAG
1 AAAATCGCAACG-CGATATACAAAATCGCAATGCGAT--TAAG
*
6051767 AAAATCGCAACGCGATATTCCAAGAATCGCAATGCGATTAAG
1 AAAATCGCAACGCGATA-TACAA-AATCGCAATGCGATTAAG
* * * *
6051809 AGAATCGCAACGCGATTTAGAAAATCGCAATGCGATTCAG
1 AAAATCGCAACGCGATATACAAAATCGCAATGCGATTAAG
6051849 AAAAT
1 AAAAT
6051854 GAGTAAATTC
Statistics
Matches: 103, Mismatches: 15, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
38 4 0.04
39 16 0.16
40 49 0.48
41 5 0.05
42 26 0.25
44 3 0.03
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.17
Consensus pattern (40 bp):
AAAATCGCAACGCGATATACAAAATCGCAATGCGATTAAG
Found at i:6051959 original size:6 final size:6
Alignment explanation
Indices: 6051948--6051980 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
6051938 AGACACGTAT
6051948 GACCAC GACCAC GACCAC GACCAC GACC-C GACC
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACC
6051981 CGAGACGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.30, C:0.52, G:0.18, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:6052490 original size:6 final size:6
Alignment explanation
Indices: 6052474--6052524 Score: 95
Period size: 6 Copynumber: 8.7 Consensus size: 6
6052464 TCTCGTCTCG
6052474 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
6052521 GGTC
1 GGTC
6052525 ATACGTGTCT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 5 0.11
6 40 0.89
ACGTcount: A:0.00, C:0.18, G:0.51, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:6052656 original size:22 final size:22
Alignment explanation
Indices: 6052628--6052745 Score: 149
Period size: 22 Copynumber: 5.6 Consensus size: 22
6052618 CATTTTCTGA
6052628 ATCGCGTTGCGATTCTTGGAAG
1 ATCGCGTTGCGATTCTTGGAAG
**
6052650 ATCGCGTTGCGATT-TT--CTG
1 ATCGCGTTGCGATTCTTGGAAG
6052669 ATCGCGTTGCGATTCTTGGAAG
1 ATCGCGTTGCGATTCTTGGAAG
*
6052691 ATCGCGTTGCGATT-TT--ATG
1 ATCGCGTTGCGATTCTTGGAAG
*
6052710 AATCGCATTGCGATTCTTGGAAG
1 -ATCGCGTTGCGATTCTTGGAAG
6052733 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
6052746 CTTCTTTTCA
Statistics
Matches: 81, Mismatches: 8, Indels: 14
0.79 0.08 0.14
Matches are distributed among these distances:
19 17 0.21
20 15 0.19
21 6 0.07
22 41 0.51
23 2 0.02
ACGTcount: A:0.18, C:0.19, G:0.29, T:0.35
Consensus pattern (22 bp):
ATCGCGTTGCGATTCTTGGAAG
Found at i:6052728 original size:42 final size:42
Alignment explanation
Indices: 6052619--6052750 Score: 230
Period size: 42 Copynumber: 3.2 Consensus size: 42
6052609 GAATTTACTC
6052619 ATTTTCTGAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCG
6052661 ATTTTCTG-ATCGCGTTGCGATTCTTGGAAGATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCG
* *
6052702 ATTTTATGAATCGCATTGCGATTCTTGGAAGATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCG
*
6052744 ATCTTCT
1 ATTTTCT
6052751 TTTCAACGTT
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
41 40 0.47
42 45 0.53
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.37
Consensus pattern (42 bp):
ATTTTCTGAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCG
Found at i:6054903 original size:40 final size:40
Alignment explanation
Indices: 6054846--6054927 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
6054836 TGCTTTTATC
*
6054846 CTCACTATGTTAGTAACTAGAACTTATTAGTTTGTACAAA
1 CTCACTATGTTAATAACTAGAACTTATTAGTTTGTACAAA
*
6054886 CTCACTATGTTAATAACTAGGACTTATTAGTTTGTACAAA
1 CTCACTATGTTAATAACTAGAACTTATTAGTTTGTACAAA
6054926 CT
1 CT
6054928 GGAGCAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (40 bp):
CTCACTATGTTAATAACTAGAACTTATTAGTTTGTACAAA
Found at i:6064109 original size:2 final size:2
Alignment explanation
Indices: 6064097--6064142 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
6064087 ACAAAAATTT
6064097 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6064138 TA TA T
1 TA TA T
6064143 CTGGGTCTGC
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6072550 original size:18 final size:18
Alignment explanation
Indices: 6072529--6072573 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
6072519 AAATGTTATG
*
6072529 CATTTGAAAAATTGATAT
1 CATTTGAAAAATAGATAT
** *
6072547 CATTTGTTAGATAGATAT
1 CATTTGAAAAATAGATAT
6072565 CATTTGAAA
1 CATTTGAAA
6072574 TAAGTCACAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (18 bp):
CATTTGAAAAATAGATAT
Found at i:6073226 original size:20 final size:20
Alignment explanation
Indices: 6073201--6073248 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
6073191 TTAAAATCAT
*
6073201 TTTTCAAAATTTC-ATTTTGC
1 TTTTCAAAA-TCCAATTTTGC
6073221 TTTTCAAAATCCAATTTTGC
1 TTTTCAAAATCCAATTTTGC
6073241 -TTTCAAAA
1 TTTTCAAAA
6073249 GAGAATCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.31, C:0.17, G:0.04, T:0.48
Consensus pattern (20 bp):
TTTTCAAAATCCAATTTTGC
Found at i:6077882 original size:131 final size:131
Alignment explanation
Indices: 6077638--6078006 Score: 492
Period size: 131 Copynumber: 2.8 Consensus size: 131
6077628 TAAAACTTAA
* * * *
6077638 GAGAGAAAACGATAACATCTATTTATTTCCAATCGAGAATAAATGACATCTCATGCCTTAAAGCA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTATCATGCCTTAAAGC-
* *
6077703 ATA-ATTTATTACTCCAATCGAAGTGAAGAGATATCACTATTTCATCTTAAAATTCAATATTAAT
65 ATACATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTCATCTTAAAAATCAATATTAAT
*
6077767 TT
130 TC
* * * *
6077769 GAGTGAAAACGATAATATCTAATGATTTTCAATAGAGAATAAATGACCTATCATGCCTTAAAGCA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTATCATGCCTTAAAGCA
* * * *
6077834 TACATTTATTACTCCAATCGAAATGAAGATATATCATTA-TTCTGTCTTAAAAATCAATATTGAT
66 TACATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTC-ATCTTAAAAATCAATATTAAT
6077898 TC
130 TC
* * *
6077900 GAGAGAAAACGGTAATATCTAATTATTTCCAATCGAGAATAAATGACCTATCATACCTTAAA-TA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTATCATGCCTTAAAGCA
* * * *
6077964 TGTCATTTATTACTCCAATCGAAACGAAAAGATATTACTATTT
66 T-ACATTTATTACTCCAATCGAAATGAAGAGATATCACTATTT
6078007 TCAATGTCGA
Statistics
Matches: 206, Mismatches: 28, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
130 8 0.04
131 196 0.95
132 2 0.01
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (131 bp):
GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTATCATGCCTTAAAGCA
TACATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTCATCTTAAAAATCAATATTAATT
C
Found at i:6080033 original size:3 final size:3
Alignment explanation
Indices: 6080025--6080050 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6080015 CAAACAAAAG
6080025 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
6080051 GCGGGACGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:6080518 original size:135 final size:134
Alignment explanation
Indices: 6080314--6080678 Score: 403
Period size: 135 Copynumber: 2.7 Consensus size: 134
6080304 AGGAAGATTG
* * * * * *
6080314 AATCTAGAAAGAGAGGGATATGTTCCACTGTTTCTTCAGGGAAAATCAGATCTTGGAGACGTTGA
1 AATCTAGAAATAGAGGGATTTGTTCTACTGTTTCTTCAGGGAAAATCA-AACCTGGAGACATTGA
* * * * *
6080379 TTCATTTCACTGTTCTTCAGGGAAGATTGAATCAATACAGACTTATTCCACTGCTACTCAGGGAA
65 TTCATTTCACTGTTCTTCAAGGAAGATTGAATCAAGACAGACTTATTCCACTACTAATCAAGGAA
* *
6080444 TATCA
130 GAACA
** * * *
6080449 AATCTAGAAATAGAGGGGATTTGTTCTTTTGTTTCTTCAAGGAAAATCAAACCTGGAAACATTTA
1 AATCTAGAAATAGA-GGGATTTGTTCTACTGTTTCTTCAGGGAAAATCAAACCTGGAGACATTGA
* * * * *
6080514 TTCA-TTCTACTATTCTTCAAGGAAGATTGAATCTAGACAGATTTGTTCCACTACTAATTAAGGA
65 TTCATTTC-ACTGTTCTTCAAGGAAGATTGAATCAAGACAGACTTATTCCACTACTAATCAAGGA
6080578 AGAACA
129 AGAACA
* * * * * *
6080584 AATATGGAAAT--AGGGATTTGTTCTGCTATTTCTTCAGGGAAAATCAGATCTGGAGACATTGAT
1 AATCTAGAAATAGAGGGATTTGTTCTACTGTTTCTTCAGGGAAAATCAAACCTGGAGACATTGAT
* *
6080647 TCATTCCACTGTTCTTCATGGAAGATTGAATC
66 TCATTTCACTGTTCTTCAAGGAAGATTGAATC
6080679 GAGTTCAATT
Statistics
Matches: 191, Mismatches: 36, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
132 69 0.36
133 3 0.02
134 3 0.02
135 87 0.46
136 29 0.15
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (134 bp):
AATCTAGAAATAGAGGGATTTGTTCTACTGTTTCTTCAGGGAAAATCAAACCTGGAGACATTGAT
TCATTTCACTGTTCTTCAAGGAAGATTGAATCAAGACAGACTTATTCCACTACTAATCAAGGAAG
AACA
Found at i:6080690 original size:132 final size:134
Alignment explanation
Indices: 6080344--6080692 Score: 400
Period size: 132 Copynumber: 2.6 Consensus size: 134
6080334 TGTTCCACTG
* * *
6080344 TTTCTTCAGGGAAAATCAGATCTTGGAGACGTTGATTCATTTCACTGTTCTTCAGGGAAGATTGA
1 TTTCTTCAGGGAAAATCAGATC-TGGAGACATTGATTCATTCCACTGTTCTTCAAGGAAGATTGA
* * * * * * * * *
6080409 ATCAATACAGACTTATTCCACTGCTACTCAGGGAATATCAAATCTAGAAATAGAGGGGATTTGTT
65 ATCAGTACAGATTTGTTCCACTACTAATCAAGGAAGAACAAATATAGAAATA-AGGGGATTTGTT
** *
6080474 CTTTTG
129 CTGCTA
* * * * * * *
6080480 TTTCTTCAAGGAAAATCAAACCTGGAAACATTTATTCATTCTACTATTCTTCAAGGAAGATTGAA
1 TTTCTTCAGGGAAAATCAGATCTGGAGACATTGATTCATTCCACTGTTCTTCAAGGAAGATTGAA
* *
6080545 TCTAG-ACAGATTTGTTCCACTACTAATTAAGGAAGAACAAATATGGAAAT-A-GGGATTTGTTC
66 TC-AGTACAGATTTGTTCCACTACTAATCAAGGAAGAACAAATATAGAAATAAGGGGATTTGTTC
6080607 TGCTA
130 TGCTA
*
6080612 TTTCTTCAGGGAAAATCAGATCTGGAGACATTGATTCATTCCACTGTTCTTCATGGAAGATTGAA
1 TTTCTTCAGGGAAAATCAGATCTGGAGACATTGATTCATTCCACTGTTCTTCAAGGAAGATTGAA
*
6080677 TCGAGTTCA-ATTTGTT
66 TC-AGTACAGATTTGTT
6080693 TCTCTTGTCT
Statistics
Matches: 177, Mismatches: 34, Indels: 8
0.81 0.16 0.04
Matches are distributed among these distances:
132 81 0.46
133 3 0.02
135 73 0.41
136 20 0.11
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.34
Consensus pattern (134 bp):
TTTCTTCAGGGAAAATCAGATCTGGAGACATTGATTCATTCCACTGTTCTTCAAGGAAGATTGAA
TCAGTACAGATTTGTTCCACTACTAATCAAGGAAGAACAAATATAGAAATAAGGGGATTTGTTCT
GCTA
Found at i:6081916 original size:9 final size:9
Alignment explanation
Indices: 6081890--6081932 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
6081880 TTGAAACCCA
6081890 TTTTATTTAT
1 TTTTATTT-T
*
6081900 TCTTTATTCT
1 T-TTTATTTT
6081910 TTTTATTTT
1 TTTTATTTT
*
6081919 TTTTCTTTT
1 TTTTATTTT
6081928 TTTTA
1 TTTTA
6081933 AATTTTTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
9 19 0.68
10 3 0.11
11 6 0.21
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTATTTT
Found at i:6081929 original size:16 final size:16
Alignment explanation
Indices: 6081895--6081928 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
6081885 ACCCATTTTA
6081895 TTTATTCTTTATTCTT
1 TTTATTCTTTATTCTT
*
6081911 TTTATT-TTTTTTCTT
1 TTTATTCTTTATTCTT
6081926 TTT
1 TTT
6081929 TTTAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTATTCTTTATTCTT
Found at i:6081938 original size:8 final size:8
Alignment explanation
Indices: 6081927--6081963 Score: 74
Period size: 8 Copynumber: 4.6 Consensus size: 8
6081917 TTTTTTCTTT
6081927 TTTTTAAA
1 TTTTTAAA
6081935 TTTTTAAA
1 TTTTTAAA
6081943 TTTTTAAA
1 TTTTTAAA
6081951 TTTTTAAA
1 TTTTTAAA
6081959 TTTTT
1 TTTTT
6081964 TTCTTTTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (8 bp):
TTTTTAAA
Found at i:6089377 original size:20 final size:21
Alignment explanation
Indices: 6089296--6089375 Score: 117
Period size: 21 Copynumber: 3.9 Consensus size: 21
6089286 CAACTCAGTT
*
6089296 TCCAAATTCGCAACGCGAATA
1 TCCAGATTCGCAACGCGAATA
6089317 TCCAGATTCGCAACGCGAATA
1 TCCAGATTCGCAACGCGAATA
* *
6089338 TCCAGATTCGCAACGCGATTG
1 TCCAGATTCGCAACGCGAATA
*
6089359 T-AAGATTCGCAACGCGA
1 TCCAGATTCGCAACGCGA
6089376 TTTTAAAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
20 15 0.27
21 40 0.73
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.20
Consensus pattern (21 bp):
TCCAGATTCGCAACGCGAATA
Found at i:6089406 original size:19 final size:19
Alignment explanation
Indices: 6089382--6089438 Score: 96
Period size: 19 Copynumber: 3.0 Consensus size: 19
6089372 GCGATTTTAA
*
6089382 AAAATGTGTTGTGATAGTT
1 AAAATGTGTTGCGATAGTT
6089401 AAAATGTGTTGCGATAGTT
1 AAAATGTGTTGCGATAGTT
*
6089420 AAAATGTGTTGCGAGAGTT
1 AAAATGTGTTGCGATAGTT
6089439 TGAAAAACGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.32, C:0.04, G:0.28, T:0.37
Consensus pattern (19 bp):
AAAATGTGTTGCGATAGTT
Found at i:6089467 original size:22 final size:19
Alignment explanation
Indices: 6089382--6089467 Score: 82
Period size: 19 Copynumber: 4.2 Consensus size: 19
6089372 GCGATTTTAA
* *
6089382 AAAATGTGTTGTGATAGTT
1 AAAATGTGTTGCGATAGTG
*
6089401 AAAATGTGTTGCGATAGTT
1 AAAATGTGTTGCGATAGTG
*
6089420 AAAATGTGTTGCGAGAGTTTG
1 AAAATGTGTTGCGATAG--TG
6089441 AAAAACGTGTTGTTGCGATAGTG
1 -AAAA--TG-TGTTGCGATAGTG
6089464 AAAA
1 AAAA
6089468 ATCCAAAATA
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
19 34 0.60
21 1 0.02
22 8 0.14
23 2 0.04
24 2 0.04
25 10 0.18
ACGTcount: A:0.34, C:0.05, G:0.28, T:0.34
Consensus pattern (19 bp):
AAAATGTGTTGCGATAGTG
Found at i:6089792 original size:6 final size:6
Alignment explanation
Indices: 6089765--6089812 Score: 75
Period size: 6 Copynumber: 8.5 Consensus size: 6
6089755 TCCCGTCTCG
6089765 GGTCGT -GTCGT -GTCGT -GTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
6089810 GGT
1 GGT
6089813 AATACGTGTC
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 15 0.37
6 26 0.63
ACGTcount: A:0.00, C:0.17, G:0.48, T:0.35
Consensus pattern (6 bp):
GGTCGT
Found at i:6090980 original size:33 final size:34
Alignment explanation
Indices: 6090946--6091016 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 34
6090936 TAATATATTA
* *
6090946 TTATTATGGATTTATCTTAAATATTATTTTTTAT
1 TTATTATGAATTTATCTAAAATATTATTTTTTAT
*
6090980 TTATTGTGAATTTATCTAAAATATTA-TTTTTAT
1 TTATTATGAATTTATCTAAAATATTATTTTTTAT
6091013 TTAT
1 TTAT
6091017 CAATAGATTG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 11 0.32
34 23 0.68
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.61
Consensus pattern (34 bp):
TTATTATGAATTTATCTAAAATATTATTTTTTAT
Found at i:6093230 original size:18 final size:16
Alignment explanation
Indices: 6093191--6093222 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6093181 TTTATCTGTC
6093191 TAAATGTCATGAAAAG
1 TAAATGTCATGAAAAG
*
6093207 TAAATGTCATGGAAAG
1 TAAATGTCATGAAAAG
6093223 CTTAAATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.06, G:0.22, T:0.25
Consensus pattern (16 bp):
TAAATGTCATGAAAAG
Found at i:6093599 original size:20 final size:20
Alignment explanation
Indices: 6093576--6093622 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
6093566 TAACAAGAGG
* *
6093576 AACTAAATTAAATAAATAAA
1 AACTAAAATAAAAAAATAAA
6093596 AACTAAAATAAAAAAATAAA
1 AACTAAAATAAAAAAATAAA
6093616 AA-TAAAA
1 AACTAAAA
6093623 GGAAAACATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (20 bp):
AACTAAAATAAAAAAATAAA
Found at i:6093628 original size:20 final size:20
Alignment explanation
Indices: 6093589--6093628 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
6093579 TAAATTAAAT
*
6093589 AAATAAAAACTAAAATAAAA
1 AAATAAAAACTAAAAGAAAA
*
6093609 AAATAAAAA-TAAAAGGAAA
1 AAATAAAAACTAAAAGAAAA
6093628 A
1 A
6093629 CATTTCAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.80, C:0.03, G:0.05, T:0.12
Consensus pattern (20 bp):
AAATAAAAACTAAAAGAAAA
Found at i:6096429 original size:19 final size:18
Alignment explanation
Indices: 6096407--6096442 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
6096397 TTAAACAAAC
*
6096407 ATAAATAATTAATAAATAA
1 ATAAATAAAT-ATAAATAA
6096426 ATAAATAAATATAAATA
1 ATAAATAAATATAAATA
6096443 TAAATATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAAATAAATATAAATAA
Found at i:6096603 original size:7 final size:7
Alignment explanation
Indices: 6096569--6096605 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
6096559 CCCATTTCCA
6096569 TTTCCTT
1 TTTCCTT
6096576 TTT-CTT
1 TTTCCTT
6096582 TTT-CTT
1 TTTCCTT
*
6096588 TTTCTTT
1 TTTCCTT
6096595 TTTCCTT
1 TTTCCTT
6096602 TTTC
1 TTTC
6096606 AATGTGAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 12 0.44
7 15 0.56
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTCCTT
Found at i:6096797 original size:3 final size:3
Alignment explanation
Indices: 6096789--6096842 Score: 94
Period size: 3 Copynumber: 18.7 Consensus size: 3
6096779 TTATGTGTAT
6096789 ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA AT- ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6096835 ATA ATA AT
1 ATA ATA AT
6096843 TGTTTTAACA
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 4 0.08
3 45 0.92
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:6100240 original size:19 final size:18
Alignment explanation
Indices: 6100216--6100273 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
6100206 TGACGACTGA
6100216 TGCTTCTGGCCGTTGAAAT
1 TGCTTCTGGCCGTTG-AAT
** *
6100235 TGCTTCTGGATGTTGACT
1 TGCTTCTGGCCGTTGAAT
*
6100253 TGCTTTCTGGCCGTTGGAT
1 TGC-TTCTGGCCGTTGAAT
6100272 TG
1 TG
6100274 GGTCAGATCC
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
18 5 0.16
19 26 0.84
ACGTcount: A:0.10, C:0.19, G:0.29, T:0.41
Consensus pattern (18 bp):
TGCTTCTGGCCGTTGAAT
Found at i:6100461 original size:15 final size:14
Alignment explanation
Indices: 6100429--6100457 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6100419 AAAAAAAAAC
6100429 ATAAAAAGAAAATA
1 ATAAAAAGAAAATA
6100443 ATAAAAAGAAAATA
1 ATAAAAAGAAAATA
6100457 A
1 A
6100458 ATAATAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (14 bp):
ATAAAAAGAAAATA
Found at i:6100496 original size:23 final size:22
Alignment explanation
Indices: 6100454--6100497 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
6100444 TAAAAAGAAA
6100454 ATAAATAATAATACTGATATAAT
1 ATAAATAATAATAC-GATATAAT
6100477 ATAAATTATATAATAC-ATATA
1 ATAAA-TA-ATAATACGATATA
6100498 TTTCAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 10 0.53
24 2 0.11
25 7 0.37
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (22 bp):
ATAAATAATAATACGATATAAT
Found at i:6100527 original size:29 final size:29
Alignment explanation
Indices: 6100493--6100618 Score: 87
Period size: 29 Copynumber: 4.1 Consensus size: 29
6100483 TATATAATAC
**
6100493 ATATATTTCAAAAATA-TTTTTTAAACTAT
1 ATATATTTCAAAAA-AGTTTTCAAAACTAT
*
6100522 ATATATTTTAAAAAAGTTTTCAAAACTATAT
1 ATATATTTCAAAAAAGTTTTCAAAAC--TAT
* *
6100553 ATATAGTTTTC-AAAATGTTTT-AAAAATATT
1 ATATA--TTTCAAAAAAGTTTTCAAAACTA-T
* *
6100583 ATATAAGTTTTAAAAAACGTTTTTAAAACTAT
1 ATAT-A-TTTCAAAAAA-GTTTTCAAAACTAT
6100615 ATAT
1 ATAT
6100619 TATATAATTT
Statistics
Matches: 77, Mismatches: 10, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
28 1 0.01
29 23 0.30
30 8 0.10
31 17 0.22
32 19 0.25
33 9 0.12
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (29 bp):
ATATATTTCAAAAAAGTTTTCAAAACTAT
Found at i:6100557 original size:31 final size:31
Alignment explanation
Indices: 6100519--6100618 Score: 123
Period size: 31 Copynumber: 3.2 Consensus size: 31
6100509 TTTTTTAAAC
6100519 TATATATA-TTTTAAAAAAGTTTTCAAAACTA
1 TATATATAGTTTTAAAAAAGTTTT-AAAACTA
* * *
6100550 TATATATAGTTTTCAAAATGTTTTAAAAATA
1 TATATATAGTTTTAAAAAAGTTTTAAAACTA
6100581 T-TATATAAGTTTTAAAAAACGTTTTTAAAACTA
1 TATATAT-AGTTTTAAAAAA-G-TTTTAAAACTA
6100614 TATAT
1 TATAT
6100619 TATATAATTT
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
30 5 0.09
31 25 0.43
32 14 0.24
33 11 0.19
34 3 0.05
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (31 bp):
TATATATAGTTTTAAAAAAGTTTTAAAACTA
Found at i:6100622 original size:37 final size:37
Alignment explanation
Indices: 6100519--6100806 Score: 282
Period size: 38 Copynumber: 8.1 Consensus size: 37
6100509 TTTTTTAAAC
* *
6100519 TATATATA-TTTT-AAAAAAGTTTTCAAAACTATATA-
1 TATATA-AGTTTTCAAAAATGTTTTTAAAACTATATAT
6100554 --TAT-AGTTTTC-AAAATG-TTTT-AAA--A-ATAT
1 TATATAAGTTTTCAAAAATGTTTTTAAAACTATATAT
* *
6100582 TATATAAGTTTTAAAAAACGTTTTTAAAACTATATAT
1 TATATAAGTTTTCAAAAATGTTTTTAAAACTATATAT
* *
6100619 TATATAATTTATTCAAAAATGTTTTTAAAACTACATAT
1 TATATAAGTT-TTCAAAAATGTTTTTAAAACTATATAT
*
6100657 TATATAATTTATTCAAAAATGTTTTTAAAACTATATAT
1 TATATAAGTT-TTCAAAAATGTTTTTAAAACTATATAT
* * * *
6100695 TATATAAGTTTT-TAAAATGATTTTAAAATTATATGT
1 TATATAAGTTTTCAAAAATGTTTTTAAAACTATATAT
* * *
6100731 TATATATA-TTTTCTAAAATGTTTTAAAAACTATATGT
1 TATATA-AGTTTTCAAAAATGTTTTTAAAACTATATAT
* *
6100768 TATAT-AGTTTTCAAAAATATTTTAAAAAACTATATAT
1 TATATAAGTTTTCAAAAATGTTTT-TAAAACTATATAT
6100805 TA
1 TA
6100807 CCCATATTTT
Statistics
Matches: 216, Mismatches: 20, Indels: 32
0.81 0.07 0.12
Matches are distributed among these distances:
27 3 0.01
28 1 0.00
30 6 0.03
31 10 0.05
32 14 0.06
33 7 0.03
34 3 0.01
35 1 0.00
36 45 0.21
37 56 0.26
38 70 0.32
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.46
Consensus pattern (37 bp):
TATATAAGTTTTCAAAAATGTTTTTAAAACTATATAT
Found at i:6100822 original size:37 final size:35
Alignment explanation
Indices: 6100483--6100827 Score: 193
Period size: 38 Copynumber: 9.8 Consensus size: 35
6100473 TAATATAAAT
* * **
6100483 TATATAATACATATATTTCAAAAATATTTTTTAAAC
1 TATATATTACATAT-TTTCAAAAATGTTTTAAAAAC
* *
6100519 --TATA-T--ATATTTT-AAAAAAGTTTTCAAAAC
1 TATATATTACATATTTTCAAAAATGTTTTAAAAAC
6100548 TATATA-T--ATAGTTTTC-AAAATGTTTTAAAAA-
1 TATATATTACATA-TTTTCAAAAATGTTTTAAAAAC
* * * *
6100579 TAT-TATATA-A-GTTTTAAAAAACGTTTTTAAAAC
1 TATATAT-TACATATTTTCAAAAATGTTTTAAAAAC
* *
6100612 TATATATTATATAATTTATTCAAAAATGTTTTTAAAAC
1 TATATATTACAT-A-TT-TTCAAAAATGTTTTAAAAAC
* * *
6100650 TACATATTATATAATTTATTCAAAAATGTTTTTAAAAC
1 TATATATTACAT-A-TT-TTCAAAAATGTTTTAAAAAC
* * *
6100688 TATATATTATATAAGTTTT-TAAAATGATTTT-AAAAT
1 TATATATTACAT-A-TTTTCAAAAATG-TTTTAAAAAC
* * *
6100724 TATATGTTATATATATTTTCTAAAATGTTTTAAAAAC
1 TATAT-AT-TACATATTTTCAAAAATGTTTTAAAAAC
* * *
6100761 TATATGTTATATAGTTTTCAAAAATATTTTAAAAAAC
1 TATATATTACATA-TTTTCAAAAATGTTTT-AAAAAC
6100798 TATATATTACCCATATTTTC-AAAATGTTTT
1 TATATATTA--CATATTTTCAAAAATGTTTT
6100828 CTTTTTTTAA
Statistics
Matches: 259, Mismatches: 26, Indels: 47
0.78 0.08 0.14
Matches are distributed among these distances:
29 13 0.05
30 5 0.02
31 19 0.07
32 31 0.12
33 7 0.03
34 8 0.03
35 6 0.02
36 38 0.15
37 49 0.19
38 80 0.31
39 3 0.01
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (35 bp):
TATATATTACATATTTTCAAAAATGTTTTAAAAAC
Found at i:6101832 original size:163 final size:163
Alignment explanation
Indices: 6101486--6102509 Score: 1707
Period size: 163 Copynumber: 6.3 Consensus size: 163
6101476 TTGAATATAA
* * * * * *
6101486 TCGAACTCGAAGGTCTT--T-AGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
1 TCGAACTCGAAGGTCTTGGTCA-CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTG
* * * * * ** * * * *
6101548 -CCTTGGAGCTGAGCGGAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGA
65 CCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC-TTTGG---CAGATAGCCCTTCTCGACTTAA
* * * * * *
6101612 GTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAA
126 GCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAG
6101651 TCGAACTCGAAGGTCTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
1 TCGAACTCGAAGGTCTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
6101716 CCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
66 CCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
6101781 GCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
131 GCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
6101814 TCGAACTCGAAGGTCTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
1 TCGAACTCGAAGGTCTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
6101879 CCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
66 CCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
6101944 GCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
131 GCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
6101977 TCGAACTCGAAGGTCTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
1 TCGAACTCGAAGGTCTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
6102042 CCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
66 CCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
6102107 GCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
131 GCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
6102140 TCGAACTCGAAGGTCTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
1 TCGAACTCGAAGGTCTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
6102205 CCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
66 CCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
6102270 GCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
131 GCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
6102303 TCGAACTCGAAGGTCTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTG-
1 TCGAACTCGAAGGTCTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
6102367 CCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
66 CCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
6102432 GCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
131 GCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
** * * *
6102465 TCGAACTCGAAGGTCTTGGTGGCAGGTAGCCCTTCTGGCCTTGAG
1 TCGAACTCGAAGGTCTTGGTCACAGATAACCCTTCTAGCCTTGAG
6102510 CTAAGCTGCA
Statistics
Matches: 827, Mismatches: 28, Indels: 11
0.95 0.03 0.01
Matches are distributed among these distances:
162 138 0.17
163 567 0.69
164 36 0.04
165 17 0.02
167 42 0.05
168 27 0.03
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (163 bp):
TCGAACTCGAAGGTCTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
CCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
GCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
Found at i:6108708 original size:19 final size:18
Alignment explanation
Indices: 6108684--6108741 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
6108674 TGACGACTGA
6108684 TGCTTCTGGCCGTTGAAAT
1 TGCTTCTGGCCGTTG-AAT
** *
6108703 TGCTTCTGGATGTTGACT
1 TGCTTCTGGCCGTTGAAT
*
6108721 TGCTTTCTGGCCGTTGGAT
1 TGC-TTCTGGCCGTTGAAT
6108740 TG
1 TG
6108742 GGTCAGATCC
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
18 5 0.16
19 26 0.84
ACGTcount: A:0.10, C:0.19, G:0.29, T:0.41
Consensus pattern (18 bp):
TGCTTCTGGCCGTTGAAT
Found at i:6108928 original size:15 final size:15
Alignment explanation
Indices: 6108885--6108929 Score: 60
Period size: 14 Copynumber: 3.2 Consensus size: 15
6108875 GTTTGGACCC
*
6108885 TAAAAA-AAAA-ACA
1 TAAAAAGAAAATAAA
6108898 TAAAAAGAAAAT-AA
1 TAAAAAGAAAATAAA
6108912 TAAAAAGAAAATAAA
1 TAAAAAGAAAATAAA
6108927 TAA
1 TAA
6108930 TAATAATACT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 6 0.21
14 17 0.61
15 5 0.18
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.13
Consensus pattern (15 bp):
TAAAAAGAAAATAAA
Found at i:6109002 original size:32 final size:31
Alignment explanation
Indices: 6108986--6109097 Score: 104
Period size: 33 Copynumber: 3.5 Consensus size: 31
6108976 AATATTTTTT
6108986 AAACTATATATTATATTTAAAAAAGTTTTCA
1 AAACTATATATTATATTTAAAAAAGTTTTCA
* *
6109017 AAACTATAT-TATATAGTTTTCAAAATGTTTT-A
1 AAACTATATAT-TATA--TTTAAAAAAGTTTTCA
* * *
6109049 AAAATATTATATAAGT-TTTAAAAAACGTTTTTA
1 AAACTA-TATATTA-TATTTAAAAAA-GTTTTCA
6109082 AAACTATATATTATAT
1 AAACTATATATTATAT
6109098 AATTTATTCA
Statistics
Matches: 64, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
30 1 0.02
31 21 0.33
32 18 0.28
33 22 0.34
34 2 0.03
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.44
Consensus pattern (31 bp):
AAACTATATATTATATTTAAAAAAGTTTTCA
Done.