Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 73 of 295
Found at i:21131144 original size:19 final size:19
Alignment explanation
Indices: 21131120--21131157 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
21131110 TTTTATTCAT
21131120 TTATTTATGTACAAGCAAA
1 TTATTTATGTACAAGCAAA
21131139 TTATTTATGTACAAGCAAA
1 TTATTTATGTACAAGCAAA
21131158 CATGTTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (19 bp):
TTATTTATGTACAAGCAAA
Found at i:21137747 original size:10 final size:11
Alignment explanation
Indices: 21137724--21137762 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
21137714 CTAATTTAAC
*
21137724 ATAAAATCAAA
1 ATAAAATAAAA
21137735 ATAAAAT-AAA
1 ATAAAATAAAA
21137745 AT-AAATAAAA
1 ATAAAATAAAA
21137755 ATAAAATA
1 ATAAAATA
21137763 TGATCTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 4 0.15
10 10 0.38
11 12 0.46
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (11 bp):
ATAAAATAAAA
Found at i:21137752 original size:4 final size:5
Alignment explanation
Indices: 21137724--21137762 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
21137714 CTAATTTAAC
21137724 ATAAA ATCAAA ATAAA ATAAA AT-AA ATAAAA ATAAA ATA
1 ATAAA AT-AAA ATAAA ATAAA ATAAA AT-AAA ATAAA ATA
21137763 TGATCTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 4 0.13
5 18 0.58
6 9 0.29
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:21144479 original size:16 final size:16
Alignment explanation
Indices: 21144454--21144492 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
21144444 TTGAATTTTT
21144454 GTTA-TAAGAATATTG
1 GTTATTAAGAATATTG
21144469 GTTATTAAGAATATTG
1 GTTATTAAGAATATTG
*
21144485 ATTATTAA
1 GTTATTAA
21144493 AAATTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (16 bp):
GTTATTAAGAATATTG
Found at i:21144523 original size:18 final size:17
Alignment explanation
Indices: 21144495--21144529 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21144485 ATTATTAAAA
*
21144495 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
21144512 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
21144530 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:21144643 original size:18 final size:17
Alignment explanation
Indices: 21144615--21144649 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21144605 ATTATTAAGA
*
21144615 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
21144632 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
21144650 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:21144687 original size:120 final size:120
Alignment explanation
Indices: 21144470--21144791 Score: 583
Period size: 120 Copynumber: 2.7 Consensus size: 120
21144460 AGAATATTGG
*
21144470 TTAT-TAAGAATATTGATTATTAAAAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
1 TTATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
21144534 TAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAATAAAT
66 TAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAATAAAT
21144589 TTATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
1 TTATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
*
21144654 TAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAAT
66 TAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAATAAAT
* * *
21144709 TGACATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
1 TTATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
21144774 TAATAATTATGTTTAAAT
66 TAATAATTATG-TTAAAT
21144792 ATGATTAAAT
Statistics
Matches: 196, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
119 4 0.02
120 186 0.95
121 6 0.03
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.49
Consensus pattern (120 bp):
TTATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
TAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAATAAAT
Found at i:21144763 original size:18 final size:17
Alignment explanation
Indices: 21144735--21144769 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21144725 ATTATTAAGA
*
21144735 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
21144752 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
21144770 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:21144876 original size:147 final size:149
Alignment explanation
Indices: 21144723--21144997 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
21144713 ATAAGAATAT
*
21144723 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
21144788 AAATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
21144851 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
21144870 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
21144935 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
21144998 CAATAATCAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 91 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:21144910 original size:18 final size:17
Alignment explanation
Indices: 21144882--21144916 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21144872 ATTATTAAGA
*
21144882 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
21144899 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
21144917 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:21145127 original size:44 final size:45
Alignment explanation
Indices: 21145078--21145172 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
21145068 TTACACCTCT
* *
21145078 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
21145122 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
21145167 ATTACA
1 ATTACA
21145173 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:21145172 original size:16 final size:16
Alignment explanation
Indices: 21145153--21145204 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
21145143 GATTTGCTAT
* *
21145153 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
21145169 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
21145185 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
21145201 TACA
1 TACA
21145205 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:21145536 original size:21 final size:20
Alignment explanation
Indices: 21145512--21145550 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
21145502 GAGTATTTTT
21145512 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
21145533 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
21145551 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:21148810 original size:21 final size:21
Alignment explanation
Indices: 21148756--21148811 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
21148746 GTGAAGGTCA
*
21148756 CACACGCCCGTATGGAGAAGG
1 CACACGCCCGTGTGGAGAAGG
* *
21148777 CACACGCCTGTGTGGAGAGGG
1 CACACGCCCGTGTGGAGAAGG
21148798 CACACGCCCGTGTG
1 CACACGCCCGTGTG
21148812 AATAGCCCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.21, C:0.30, G:0.36, T:0.12
Consensus pattern (21 bp):
CACACGCCCGTGTGGAGAAGG
Found at i:21158041 original size:20 final size:20
Alignment explanation
Indices: 21158016--21158059 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
21158006 CCTCAACCTT
*
21158016 AAAAAAAC-ACCAAATCAAGA
1 AAAAAAACGA-CAAACCAAGA
21158036 AAAAAAACGACAAACCAAGA
1 AAAAAAACGACAAACCAAGA
21158056 AAAA
1 AAAA
21158060 TAAAGAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.73, C:0.18, G:0.07, T:0.02
Consensus pattern (20 bp):
AAAAAAACGACAAACCAAGA
Found at i:21158223 original size:25 final size:23
Alignment explanation
Indices: 21158180--21158234 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 23
21158170 ATATATCATG
* **
21158180 TTTATTTTTTGAATTTAATTTAATT
1 TTTATTTTTTAAAAATAATTT-A-T
21158205 TTTATTTTTTAAAAATAATTTAT
1 TTTATTTTTTAAAAATAATTTAT
21158228 TTTATTT
1 TTTATTT
21158235 ATAAAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 8 0.30
24 1 0.04
25 18 0.67
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTATTTTTTAAAAATAATTTAT
Found at i:21162250 original size:22 final size:23
Alignment explanation
Indices: 21162213--21162256 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
21162203 TGTCAAGTAA
21162213 TTTTAAAAATATTAAAATTATTT
1 TTTTAAAAATATTAAAATTATTT
*
21162236 TTTTTAAAATA-TAAAATTATT
1 TTTTAAAAATATTAAAATTATT
21162257 AAGTGCATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TTTTAAAAATATTAAAATTATTT
Found at i:21167490 original size:16 final size:16
Alignment explanation
Indices: 21167469--21167500 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
21167459 GATTATGTAA
21167469 CGAGGTTAACTATTAT
1 CGAGGTTAACTATTAT
21167485 CGAGGTTAACTATTAT
1 CGAGGTTAACTATTAT
21167501 TGTGTCATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (16 bp):
CGAGGTTAACTATTAT
Found at i:21167659 original size:6 final size:6
Alignment explanation
Indices: 21167648--21167682 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
21167638 AGCAAGTTAT
21167648 ATATAA ATATAA ATATAA ATATAA ATATAA ATATA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATA
21167683 TATTTAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAA
Found at i:21170027 original size:26 final size:25
Alignment explanation
Indices: 21169998--21170053 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 25
21169988 ATAATATTGA
21169998 AAAAAAT-ATATATATATATAACATAC
1 AAAAAATCATATATA-ATATAACAT-C
21170024 AAAAAATGCATATATAATATAACATC
1 AAAAAAT-CATATATAATATAACATC
21170050 AAAA
1 AAAA
21170054 CATTTACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 12 0.43
27 9 0.32
28 7 0.25
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.27
Consensus pattern (25 bp):
AAAAAATCATATATAATATAACATC
Found at i:21170027 original size:27 final size:26
Alignment explanation
Indices: 21169997--21170053 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
21169987 AATAATATTG
21169997 AAAAAAAT-ATATATATATATAACAT-
1 AAAAAAATCATATATA-ATATAACATC
21170022 ACAAAAAATGCATATATAATATAACATC
1 A-AAAAAAT-CATATATAATATAACATC
21170050 AAAA
1 AAAA
21170054 CATTTACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
25 1 0.04
26 7 0.25
27 12 0.43
28 8 0.29
ACGTcount: A:0.63, C:0.09, G:0.02, T:0.26
Consensus pattern (26 bp):
AAAAAAATCATATATAATATAACATC
Found at i:21170466 original size:27 final size:28
Alignment explanation
Indices: 21170432--21170488 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
21170422 TAGATAGCTA
21170432 ATAATATT-AAAACATATACATAATAAT
1 ATAATATTAAAAACATATACATAATAAT
* *
21170459 ATAATATTAAAAACATATATATATTAAT
1 ATAATATTAAAAACATATACATAATAAT
21170487 AT
1 AT
21170489 GAAAAATGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (28 bp):
ATAATATTAAAAACATATACATAATAAT
Found at i:21171869 original size:8 final size:8
Alignment explanation
Indices: 21171858--21171887 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
21171848 TGGTTGAATT
21171858 TGGGTTAG
1 TGGGTTAG
21171866 TGGGTTAG
1 TGGGTTAG
21171874 TGGGTTAG
1 TGGGTTAG
21171882 TGGGTT
1 TGGGTT
21171888 TAGTTATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.10, C:0.00, G:0.50, T:0.40
Consensus pattern (8 bp):
TGGGTTAG
Found at i:21172860 original size:149 final size:149
Alignment explanation
Indices: 21172688--21173034 Score: 540
Period size: 149 Copynumber: 2.3 Consensus size: 149
21172678 CATGTGACCC
*
21172688 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAAAAATTGAAATTACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAATTACCTCA
*
21172753 GTGTGTACTAAGGATCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGA
66 GTGTGTACTAAGGATCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGA
* * *
21172818 AAATACTTCAACGTGTCTT
131 AAATACCTCAACATCTCTT
* *
21172837 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACGAACTGAAATTGAAATTACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAATTACCTCA
* * *
21172902 GTGTGTCCTGAGGATCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAGACAGAAATTGA
66 GTGTGTACTAAGGATCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGA
21172967 AAATACCTCAACATCTCTT
131 AAATACCTCAACATCTCTT
** *
21172986 GA-GCTCAAC-CTATTTCTCGCAATATGAGTTGA-ATTTTGA-AAACAGAAAT
1 GAGGCTCAACTC-ACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAAT
21173035 AAAAACATCA
Statistics
Matches: 182, Mismatches: 15, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
146 8 0.04
147 7 0.04
148 26 0.14
149 141 0.77
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (149 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAATTACCTCA
GTGTGTACTAAGGATCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGA
AAATACCTCAACATCTCTT
Found at i:21172994 original size:74 final size:74
Alignment explanation
Indices: 21172688--21173034 Score: 402
Period size: 74 Copynumber: 4.7 Consensus size: 74
21172678 CATGTGACCC
* *
21172688 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAA-ACAAAAATTGAAATTACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAGACAGAAATTGAAAATACCTC
**
21172752 AGTGTGTAC-T
65 AACGTGT-CTT
* * * *
21172762 AAGGATCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATACTTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAGACAGAAATTGAAAATACCTC
21172827 AACGTGTCTT
65 AACGTGTCTT
* * *
21172837 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-ACGAACTGAAATTGAAATTACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAG-ACAGAAATTGAAAATACCTC
** *
21172901 AGTGTGTCCT
65 AACGTGTCTT
* *
21172911 GAGGATCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAGACAGAAATTGAAAATACCTC
* *
21172976 AACATCTCTT
65 AACGTGTCTT
** *
21172986 GA-GCTCAAC-CTATTTCTCGCAATATGAGTTGA-ATTTTGAAA-ACAGAAAT
1 GAGGCTCAACTC-ACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAAT
21173035 AAAAACATCA
Statistics
Matches: 233, Mismatches: 33, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
71 8 0.03
72 8 0.03
73 3 0.01
74 119 0.51
75 93 0.40
76 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (74 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAATACCTCA
ACGTGTCTT
Found at i:21174945 original size:62 final size:62
Alignment explanation
Indices: 21174867--21174999 Score: 230
Period size: 62 Copynumber: 2.1 Consensus size: 62
21174857 CATTTATGAC
* * * *
21174867 ATTTTCGTGCAAAACTAATGCAGTCACTTTCCATTATCAGCCAATAATAACCGAGTCTCATA
1 ATTTTCCTACAAAACTAATACAGTCACTTTCCATCATCAGCCAATAATAACCGAGTCTCATA
21174929 ATTTTCCTACAAAACTAATACAGTCACTTTCCATCATCAGCCAATAATAACCGAGTCTCATA
1 ATTTTCCTACAAAACTAATACAGTCACTTTCCATCATCAGCCAATAATAACCGAGTCTCATA
21174991 ATTTTCCTA
1 ATTTTCCTA
21175000 GCCATAGTAA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 67 1.00
ACGTcount: A:0.35, C:0.26, G:0.08, T:0.32
Consensus pattern (62 bp):
ATTTTCCTACAAAACTAATACAGTCACTTTCCATCATCAGCCAATAATAACCGAGTCTCATA
Found at i:21178266 original size:41 final size:41
Alignment explanation
Indices: 21178200--21178368 Score: 157
Period size: 41 Copynumber: 4.1 Consensus size: 41
21178190 ATAAAGTGAT
* * *
21178200 TGAATGTAATACAGACGTTACGTCTAGCAGGCTTAATGCCGG
1 TGAA-GTAATTCAGACTTTAAGTCTAGCAGGCTTAATGCCGG
*
21178242 TGAAGTAATTCAGACTTTAAGTCTAGCAGGCTTAATGCCAG
1 TGAAGTAATTCAGACTTTAAGTCTAGCAGGCTTAATGCCGG
* *
21178283 TG-A-TACATTTCAGACTATATGTCTAGCAGGC-TAAGTGCCGG
1 TGAAGTA-A-TTCAGACTTTAAGTCTAGCAGGCTTAA-TGCCGG
* * * * **
21178324 TGTACTGAA-TCAGGCTTTAAGCCTAGCAGGCAAAATGCCGG
1 TGAAGT-AATTCAGACTTTAAGTCTAGCAGGCTTAATGCCGG
21178365 TGAA
1 TGAA
21178369 TCTGTTTAAA
Statistics
Matches: 107, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
39 2 0.02
40 5 0.05
41 90 0.84
42 7 0.07
43 2 0.02
44 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (41 bp):
TGAAGTAATTCAGACTTTAAGTCTAGCAGGCTTAATGCCGG
Found at i:21189107 original size:15 final size:14
Alignment explanation
Indices: 21189083--21189136 Score: 54
Period size: 15 Copynumber: 3.7 Consensus size: 14
21189073 GTAACTATAA
*
21189083 TAATAATATATTAG
1 TAATAATATAATAG
*
21189097 TAATAAATATAAGAG
1 TAAT-AATATAATAG
* *
21189112 AAATAAAAATAATAG
1 TAAT-AATATAATAG
21189127 TAATAATATA
1 TAATAATATA
21189137 TAAAAAAAGA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
14 9 0.28
15 23 0.72
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.31
Consensus pattern (14 bp):
TAATAATATAATAG
Found at i:21190303 original size:8 final size:8
Alignment explanation
Indices: 21190292--21190340 Score: 53
Period size: 8 Copynumber: 5.8 Consensus size: 8
21190282 TGGTTGAATT
21190292 TGGGTTAG
1 TGGGTTAG
21190300 TGGGTTAG
1 TGGGTTAG
* *
21190308 TAGGTTAAATT
1 TGGGTT--A-G
21190319 TGGGTTAG
1 TGGGTTAG
21190327 TGGGTTAG
1 TGGGTTAG
21190335 TGGGTT
1 TGGGTT
21190341 TAGTTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 27 0.79
9 1 0.03
10 1 0.03
11 5 0.15
ACGTcount: A:0.16, C:0.00, G:0.43, T:0.41
Consensus pattern (8 bp):
TGGGTTAG
Found at i:21190318 original size:27 final size:27
Alignment explanation
Indices: 21190283--21190340 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
21190273 TTGGGTAATT
*
21190283 GGTTGAATTTGGGTTAGTGGGTTAGTA
1 GGTTAAATTTGGGTTAGTGGGTTAGTA
*
21190310 GGTTAAATTTGGGTTAGTGGGTTAGTG
1 GGTTAAATTTGGGTTAGTGGGTTAGTA
21190337 GGTT
1 GGTT
21190341 TAGTTATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.41, T:0.41
Consensus pattern (27 bp):
GGTTAAATTTGGGTTAGTGGGTTAGTA
Found at i:21197842 original size:18 final size:20
Alignment explanation
Indices: 21197821--21197862 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
21197811 TATTATATAC
21197821 TATAAGATTA-T-TTTATCA
1 TATAAGATTATTATTTATCA
**
21197839 TATATTATTATTATTTATCA
1 TATAAGATTATTATTTATCA
21197859 TATA
1 TATA
21197863 TTATTTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.40
19 1 0.05
20 11 0.55
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (20 bp):
TATAAGATTATTATTTATCA
Found at i:21197855 original size:20 final size:21
Alignment explanation
Indices: 21197827--21197867 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
21197817 ATACTATAAG
21197827 ATTATTTTATCATATATTATT
1 ATTATTTTATCATATATTATT
21197848 ATTA-TTTATCATATATTATT
1 ATTATTTTATCATATATTATT
21197868 TTTCACAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTATTTTATCATATATTATT
Found at i:21197866 original size:17 final size:17
Alignment explanation
Indices: 21197844--21197898 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 17
21197834 TATCATATAT
21197844 TATTATTATTTATCATA
1 TATTATTATTTATCATA
21197861 TATTATT-TTTCA-CA-A
1 TATTATTATTT-ATCATA
21197876 -ATTATTA-TTATCAT-
1 TATTATTATTTATCATA
*
21197890 TATTTTTAT
1 TATTATTAT
21197899 ATAATATTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 13
0.69 0.02 0.29
Matches are distributed among these distances:
13 1 0.03
14 10 0.32
15 7 0.23
16 5 0.16
17 8 0.26
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTATTATTTATCATA
Found at i:21198054 original size:23 final size:23
Alignment explanation
Indices: 21198022--21198077 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
21198012 ATATATTCAA
*
21198022 ATTATATTTTATTATATAACATTT
1 ATTAT-TTTTATTATATAACACTT
* **
21198046 ATTATTTTTATTCTATATTACTT
1 ATTATTTTTATTATATAACACTT
21198069 ATTATTTTT
1 ATTATTTTT
21198078 TATATATGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 23 0.82
24 5 0.18
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.64
Consensus pattern (23 bp):
ATTATTTTTATTATATAACACTT
Found at i:21198115 original size:19 final size:19
Alignment explanation
Indices: 21198091--21198135 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
21198081 ATATGTTATG
21198091 TATATTATATATTA-TCTAT
1 TATATTATATATTATTC-AT
*
21198110 TATATTATTTATTATTCAT
1 TATATTATATATTATTCAT
21198129 TATATTA
1 TATATTA
21198136 CTTAAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 22 0.92
20 2 0.08
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (19 bp):
TATATTATATATTATTCAT
Found at i:21200469 original size:21 final size:20
Alignment explanation
Indices: 21200441--21200483 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
21200431 GTTTTTATAT
21200441 TATTTTTTTGAAATTTAAAA
1 TATTTTTTTGAAATTTAAAA
21200461 TATTTTTTTGAAATTTAAAA
1 TATTTTTTTGAAATTTAAAA
21200481 TAT
1 TAT
21200484 GTAAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
TATTTTTTTGAAATTTAAAA
Found at i:21201142 original size:19 final size:20
Alignment explanation
Indices: 21201089--21201142 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
21201079 TTTTGGCACA
* *
21201089 CCCTCATAAATTTTTGGTATT
1 CCCTCA-AAAGTTTTGATATT
*
21201110 TCCTCAAAAGTTTTGATATT
1 CCCTCAAAAGTTTTGATATT
21201130 CCCTCAAAA-TTTT
1 CCCTCAAAAGTTTT
21201143 CAGTACTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 4 0.14
20 20 0.69
21 5 0.17
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.44
Consensus pattern (20 bp):
CCCTCAAAAGTTTTGATATT
Found at i:21202088 original size:64 final size:64
Alignment explanation
Indices: 21202009--21202137 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
21201999 CCCTGACTTG
21202009 ATGAATGGAAAAGCAATAAATGATACTGAAATAAAAACAGGTAACCTACTTATCTACCCCAGTC
1 ATGAATGGAAAAGCAATAAATGATACTGAAATAAAAACAGGTAACCTACTTATCTACCCCAGTC
21202073 ATGAATGGAAAAGCAATAAATGATACTGAAATAAAAACAGGTAACCTACTTATCTACCCCAGTC
1 ATGAATGGAAAAGCAATAAATGATACTGAAATAAAAACAGGTAACCTACTTATCTACCCCAGTC
21202137 A
1 A
21202138 ATTCAAACGG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.46, C:0.19, G:0.14, T:0.22
Consensus pattern (64 bp):
ATGAATGGAAAAGCAATAAATGATACTGAAATAAAAACAGGTAACCTACTTATCTACCCCAGTC
Found at i:21203519 original size:16 final size:17
Alignment explanation
Indices: 21203490--21203527 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
21203480 TCTATTTAAC
* *
21203490 ATAAAAATATACAACAA
1 ATAAAAATAAACAAAAA
21203507 ATAAAAA-AAACAAAAA
1 ATAAAAATAAACAAAAA
21203523 ATAAA
1 ATAAA
21203528 TTTTTTACCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (17 bp):
ATAAAAATAAACAAAAA
Found at i:21203648 original size:22 final size:22
Alignment explanation
Indices: 21203622--21203668 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
21203612 TGGCCGGATT
21203622 TTCCTTC-CCCCTCCCTTCTCTC
1 TTCCTTCTCCCCTCCC-TCTCTC
* *
21203644 TTCCTTCTCTCTTCCCTCTCTC
1 TTCCTTCTCCCCTCCCTCTCTC
21203666 TTC
1 TTC
21203669 TTTTTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (22 bp):
TTCCTTCTCCCCTCCCTCTCTC
Found at i:21203649 original size:11 final size:11
Alignment explanation
Indices: 21203635--21203668 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
21203625 CTTCCCCCTC
21203635 CCTTCTCTCTT
1 CCTTCTCTCTT
21203646 CCTTCTCTCTT
1 CCTTCTCTCTT
*
21203657 CCCTCTCTCTT
1 CCTTCTCTCTT
21203668 C
1 C
21203669 TTTTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (11 bp):
CCTTCTCTCTT
Found at i:21204152 original size:6 final size:6
Alignment explanation
Indices: 21204152--21204185 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
21204142 TTATTAGTAT
*
21204152 TATTAG TATTAG TATTAC TATTACG TATTAG TAT
1 TATTAG TATTAG TATTAG TATTA-G TATTAG TAT
21204186 ATATTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.32, C:0.06, G:0.12, T:0.50
Consensus pattern (6 bp):
TATTAG
Found at i:21204606 original size:64 final size:64
Alignment explanation
Indices: 21204532--21204663 Score: 164
Period size: 64 Copynumber: 2.1 Consensus size: 64
21204522 GTCGTATTAT
*
21204532 TATATTTTAATATTA-TA-TTATATAATTATA-TA-TACATATATCTTTTATATATATTATCATT
1 TATATTTTAATATTATTAGTTATAT-ATTACACTATTACATATAT-TTTTATA-ATATTAT-ATT
21204593 GTA
62 GTA
* * *
21204596 TATATTTTAATATTATTAGTTATATTTTACACTATTATATATATTTTTCTAATATTATATTGTA
1 TATATTTTAATATTATTAGTTATATATTACACTATTACATATATTTTTATAATATTATATTGTA
21204660 TATA
1 TATA
21204664 CTGTCGTTTA
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
64 25 0.42
65 13 0.22
66 14 0.23
67 8 0.13
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (64 bp):
TATATTTTAATATTATTAGTTATATATTACACTATTACATATATTTTTATAATATTATATTGTA
Found at i:21204638 original size:19 final size:18
Alignment explanation
Indices: 21204594--21204653 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 18
21204584 ATTATCATTG
21204594 TATATATTTTAATATTAT
1 TATATATTTTAATATTAT
21204612 TAGTTATATTTTACACTATTAT
1 TA--TATATTTTA-A-TATTAT
*
21204634 ATATATTTTTCTAATATTAT
1 -TATATATTT-TAATATTAT
21204654 ATTGTATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
18 2 0.06
20 15 0.43
21 8 0.23
22 8 0.23
23 2 0.06
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (18 bp):
TATATATTTTAATATTAT
Found at i:21205097 original size:38 final size:37
Alignment explanation
Indices: 21205013--21205107 Score: 97
Period size: 38 Copynumber: 2.5 Consensus size: 37
21205003 TATACGTACT
*
21205013 TATACATACTTAAATATATTTTTCATATTTCATAATTC
1 TATACATACTTAAATATATTTTGCATATTT-ATAATTC
* *
21205051 T-TATATACTTACATATATTTATGCATATTT-TACA-TC
1 TATACATACTTAAATATATTT-TGCATATTTATA-ATTC
*
21205087 ATATACATACTTATATATATT
1 -TATACATACTTAAATATATT
21205108 CTTTATATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 4 0.08
37 19 0.40
38 25 0.52
ACGTcount: A:0.37, C:0.13, G:0.01, T:0.49
Consensus pattern (37 bp):
TATACATACTTAAATATATTTTGCATATTTATAATTC
Found at i:21209834 original size:22 final size:22
Alignment explanation
Indices: 21209777--21209835 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 22
21209767 TACGAGGGCT
* *
21209777 GTGGAGGTATGGGACTGCTGTA
1 GTGGAGGTATGGGGCCGCTGTA
*
21209799 GTGGGGGTATGGGGCCGCTGTA
1 GTGGAGGTATGGGGCCGCTGTA
21209821 GTGGAGGTATGGGGC
1 GTGGAGGTATGGGGC
21209836 TGTTTCATGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.14, C:0.10, G:0.53, T:0.24
Consensus pattern (22 bp):
GTGGAGGTATGGGGCCGCTGTA
Found at i:21210743 original size:92 final size:88
Alignment explanation
Indices: 21210540--21210843 Score: 332
Period size: 92 Copynumber: 3.4 Consensus size: 88
21210530 ACGTGAGCTA
* * * **
21210540 AGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTTGAAACTTAATTTGAAAAACAGATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTT-GATTTTTTGAAACATAAATTGAAAAACAGAAATT
*
21210605 GAAAATACCTC-GACATGTGACTCG
65 GAAAATACCTCAG-CATGCGACTCG
* *
21210629 AGGCTCAACTTACCTCTCGCAATATGAGTTGATTTTTTGGAAAGCATAAATTGAAAAAACGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-GAAA-CATAAATTG-AAAAAC-AGAA
*
21210694 ATTGAAAATACCTCAGCGTGCGAGC-CG
62 ATTGAAAATACCTCAGCATGCGA-CTCG
* * * *
21210721 AGGCTCAACTCACCTTTAGCAATATGAATTGA-TTTTTGAAAACATAAATTGAAAAACAGAAATG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAACATAAATTGAAAAACAGAAATT
*
21210785 GAAAATACTTCAGCATGTC--CT-G
65 GAAAATACCTCAGCATG-CGACTCG
* * *
21210807 AGGCTCAACTCATCTCTCGCAGTATGAGTTGGTTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
21210844 GCCAAACAGT
Statistics
Matches: 182, Mismatches: 23, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
86 28 0.15
87 4 0.02
88 27 0.15
89 40 0.22
90 17 0.09
91 14 0.08
92 50 0.27
93 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (88 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACATAAATTGAAAAACAGAAATTG
AAAATACCTCAGCATGCGACTCG
Found at i:21210897 original size:73 final size:72
Alignment explanation
Indices: 21210773--21211532 Score: 666
Period size: 73 Copynumber: 10.1 Consensus size: 72
21210763 CATAAATTGA
* * * * * *
21210773 AAAACAGAAATGGAAAATACTTCAGCATGTCCTGAGGCTCAACTCATCTCTCGCAGTATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
21210838 GTTTTTG
66 ATTTTTG
* * * *
21210845 CCAAACAGTAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 -AAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
21210910 GA-TTTAG
65 GATTTTTG
* ** * ** * *
21210917 AAAACAGACATAAAAACAGAAATTGAAAGTGACTCAACACGTGA-GC-CAAGGCTCAACTCACCT
1 AAAACAGAAATTGAAA-A-TACCTCAACGTG--T---C-C-TGAGGCTCAA----C---TCACCT
* *
21210980 TTCACAATATGAGTTGATTTTTTTG
50 CTCGCAATATGAGTTGA--TTTTTG
** * * *
21211005 AAAGTAGAATTTGAAAATACCTC--GGTGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAACAGAAATTGAAAATACCTCAACGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
21211068 GATTTTTG
65 GATTTTTG
* * *
21211076 AAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGACTCAACTCACCTCTCGCAATATGAGTT
1 -AAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
21211141 GATTTTTG
65 GATTTTTG
* *
21211149 AAAAATATAAATTGAACAGGAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCG
1 ---------AA---AACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
21211214 CAATATGAGTTGATTTTCTTG
54 CAATATGAGTTGA-TTT-TTG
* *
21211235 AAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAA-CAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
21211300 GATTTTTTTG
65 GA--TTTTTG
* * **
21211310 ACAACAGAAATTGAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAAACAGAAATTGAAAA-TACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
21211375 GAATTTTG
65 GATTTTTG
* ** *
21211383 AAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTT
1 AAAA-CAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
21211448 GAATTTTG
65 GATTTTTG
* * * **
21211456 AAAACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
21211521 ATTCTTTC
66 ATT-TTTG
21211529 AAAA
1 AAAA
21211533 ACATAATAAT
Statistics
Matches: 575, Mismatches: 70, Indels: 84
0.79 0.10 0.12
Matches are distributed among these distances:
71 17 0.03
72 84 0.15
73 195 0.34
74 32 0.06
75 111 0.19
76 5 0.01
77 2 0.00
78 6 0.01
79 6 0.01
80 6 0.01
81 3 0.01
82 2 0.00
84 62 0.11
85 24 0.04
86 5 0.01
87 1 0.00
88 14 0.02
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (72 bp):
AAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTG
Found at i:21211052 original size:158 final size:159
Alignment explanation
Indices: 21210693--21211614 Score: 511
Period size: 159 Copynumber: 5.9 Consensus size: 159
21210683 AAAAACGAAA
* * * * * *
21210693 AATTGAAAATACCTCAGCGTGCGAGCCGAGGCTCAACTCACCTTTAGCAATATGAATTGATTTTT
1 AATTGAAAATACCTCAGCGTGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTA
* * * * *
21210758 GAAAACATAAATTGAAAAACAGAAATGGAAAATACTTCAGCATGTCCTGAGGCTCAACTCATCTC
64 GAAAACAGAAATTGAAAAACAGAAATGGAAAATACTTCAACATGGCCTAAGGCTCAACTCACCTC
* * *
21210823 TCGCAGTATGAGTTGGTTTTTGCCAAACAGT
129 TCACAATATGAGTTGATTTTTGCCAAACAGT
21210854 AATTGAAAATACCTCAGCGTGT-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAGA
1 AATTGAAAATACCTCAGCGTGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAGA
* * *
21210918 AAACAGACA-T-AAAAACAGAAATTGAAAGTGAC-TCAACACGTGAGCC-AAGGCTCAACTCACC
66 AAACAGAAATTGAAAAACAGAAATGGAAAAT-ACTTCAACA--TG-GCCTAAGGCTCAACTCACC
* *** *
21210979 TTTCACAATATGAGTTGATTTTTTTGAAAGTAG-
127 TCTCACAATATGAGTTGATTTTTGCCAAA-CAGT
21211012 AATTTGAAAATACCTC-G-GTGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT--
1 AA-TTGAAAATACCTCAGCGTGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAG
* * * * * * * *
21211073 ----------TTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGACTCAACTCACCTCT
65 AAAACAGAAATTGAAAAACAGAAATGGAAAATACTTCAACATGGCCTAAGGCTCAACTCACCTCT
* ** *
21211128 CGCAATATGAGTTGATTTTTGAAAAATATAAATTGAACAGG
130 CACAATATGAGTTGATTTTTG--------CCA---AACAGT
* **
21211169 AATTGAAAATACCTCAACGTGT-CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT---
1 AATTGAAAATACCTCAGCGTGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAGA
* * * * ** * * *
21211230 --TC-----TTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTC
66 AAACAGAAATTGAAAAACAGAAATGGAAAATACTTCAACATGGCCTAAGGCTCAACTCACCTCTC
* * *
21211288 GCAATATGAGTTGATTTTTTTGAC-AACAGA
131 ACAATATGAGTTGA--TTTTTGCCAAACAGT
* ** *
21211318 AATTGAAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT--
1 AATTGAAAA-TACCTCAGCGTGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAG
* * * * * * * **
21211380 ----------TTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
65 AAAACAGAAATTGAAAAACAGAAATGGAAAATACTTCAACATGGCCTAAGGCTCAACTCACCTCT
* * *
21211435 CACAATATGAGTTGAATTTTG-AAAACAGA
130 CACAATATGAGTTGATTTTTGCCAAACAGT
* ** ** **
21211464 AATTGAAATTACCTCAATGTGT-CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTCTTT
1 AATTGAAAATACCTCAGCGTGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTT
* * * **** * *
21211528 CA-AAAACATAATAATG-AAAACAGAAATGGAAAATACCTCGGTGTGACCTGAGGCTCAACTCAC
63 -AGAAAACAGAA-ATTGAAAAACAGAAATGGAAAATACTTCAACATGGCCTAAGGCTCAACTCAC
* *
21211591 CTCTCGCAATATGAGTTGTTTTTT
126 CTCTCACAATATGAGTTGATTTTT
21211615 TGAAAAACAG
Statistics
Matches: 640, Mismatches: 74, Indels: 95
0.79 0.09 0.12
Matches are distributed among these distances:
145 48 0.08
146 55 0.09
147 3 0.00
148 90 0.14
149 14 0.02
150 47 0.07
153 1 0.00
154 1 0.00
156 37 0.06
157 48 0.08
158 95 0.15
159 113 0.18
160 59 0.09
161 29 0.05
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (159 bp):
AATTGAAAATACCTCAGCGTGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAGA
AAACAGAAATTGAAAAACAGAAATGGAAAATACTTCAACATGGCCTAAGGCTCAACTCACCTCTC
ACAATATGAGTTGATTTTTGCCAAACAGT
Found at i:21211292 original size:75 final size:73
Alignment explanation
Indices: 21211163--21211532 Score: 537
Period size: 75 Copynumber: 5.0 Consensus size: 73
21211153 ATATAAATTG
* **
21211163 AACAGGAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
21211228 TTTCTTGAA
66 TTT-TTGAA
* **
21211237 AAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
21211302 TTTTTTTGAC
65 -TTTTTTGAA
* *
21211312 AACAGAAATTGAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
21211377 -ATTTTGAA
65 TTTTTTGAA
*
21211385 AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGA
1 AA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
21211450 -ATTTTGAA
65 TTTTTTGAA
* *
21211458 AACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
* *
21211523 TCTTTCAA
66 TTTTTGAA
21211531 AA
1 AA
21211533 ACATAATAAT
Statistics
Matches: 272, Mismatches: 19, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
72 59 0.22
73 71 0.26
74 28 0.10
75 110 0.40
76 4 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (73 bp):
AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
TTTTTGAA
Found at i:21211394 original size:307 final size:307
Alignment explanation
Indices: 21210769--21211791 Score: 904
Period size: 307 Copynumber: 3.3 Consensus size: 307
21210759 AAAACATAAA
* * * * *
21210769 TTGAAAAACAGAAATGGAAAATACTTCAGCATGTCCTGAGGCTCAACTCATCTCTCGCAGTATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* *** * * **
21210834 GTTGGTTTT------TGCCA--AACAGTAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTC
66 GTTGATTTTGAAAAATAAAATTAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTC
** * * * *
21210891 ACCTCTCGCAATATGAGTTGATT-TAGAAAACAGACATAAAAACAGAAATTGAAAGTGA-CTCAA
131 ACCTCTCGCAATATGAGTTGATTCT---TTAC--ATATGAAAACAGAAATGGAAAAT-ACCTC-A
* * * * * *
21210954 CACGTGAGCC-AAGGCTCAACTCACCTTTCACAATATGAGTTGATTTTTTTGA-AAGTAGAATTT
189 -ATGTGA-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAGCAGAAATT
* * *
21211017 GAAAATACCTCG-GTGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
252 GAAAATACCTCGCGTGT-CCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGAATT
* *
21211073 TTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGACTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
21211138 GTTGATTTTTGAAAAATATAAATTGAACAGGAATTGAAAATACCTCAACGTGTCTTGAGGCTCAA
66 GTTGA-TTTTGAAAAATA-AAATT-AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAA
*
21211203 CTCACCTCTCGCAATATGAGTTGA-T-TTT-C-T-TGAAAAGCAGAAATTGAAAATACCTCAATG
128 CTCACCTCTCGCAATATGAGTTGATTCTTTACATATGAAAA-CAGAAATGGAAAATACCTCAATG
* *
21211263 TGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAA-CAGAAATTGAAAA
192 TGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAGCAGAAATTGAAAA
*
21211327 TTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
257 -TACCTC-GCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGAATT
* * * ** *
21211380 TTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* *
21211445 GTTGAATTTTG--------AA--AACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACT
66 GTTG-ATTTTGAAAAATAAAATTAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACT
**
21211500 CATTTCTCGCAATATGAGTTGATTCTTTCAAAAACATAATAATGAAAACAGAAATGGAAAATACC
130 CACCTCTCGCAATATGAGTTGATTCTTT-----AC---AT-ATGAAAACAGAAATGGAAAATACC
** *
21211565 TCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-TTTTTTTGAAAAACAGAAAT
186 TCAATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG----AC---AAG
* * *
21211629 CAAAAGGCTTAATTGAAAATATCTCGGCGTGTGTCCTGAGGCTCAACTAATCTCTCGCAATATGA
244 C---A-G--AAATTGAAAATACCTC-GC--GTGTCCTGAGGCTCAACTCATCTCTCGCAATATGA
*
21211694 GTTGAA-A
300 GTTGAATT
* * * *
21211701 TT-AAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATG
1 TTGAAAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
*
21211765 AGCTGATTTTGAAAAAGTAGAAATTAA
65 AGTTGATTTTGAAAAA-TA-AAATTAA
21211792 AGGTTCAACC
Statistics
Matches: 590, Mismatches: 67, Indels: 96
0.78 0.09 0.13
Matches are distributed among these distances:
295 59 0.10
296 1 0.00
297 3 0.01
298 2 0.00
303 1 0.00
304 63 0.11
305 58 0.10
306 15 0.03
307 127 0.22
308 61 0.10
309 6 0.01
310 1 0.00
311 3 0.01
312 1 0.00
314 4 0.01
315 61 0.10
318 1 0.00
319 1 0.00
320 17 0.03
321 62 0.11
322 39 0.07
330 2 0.00
332 2 0.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (307 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTGAAAAATAAAATTAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTC
ACCTCTCGCAATATGAGTTGATTCTTTACATATGAAAACAGAAATGGAAAATACCTCAATGTGAC
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAGCAGAAATTGAAAATACC
TCGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGAATT
Found at i:21211448 original size:148 final size:148
Alignment explanation
Indices: 21210965--21211522 Score: 637
Period size: 148 Copynumber: 3.7 Consensus size: 148
21210955 ACGTGAGCCA
* * ** *
21210965 AGGCTCAACTCACCTTTCACAATATGAGTTGATTTTTTTGAAAGTAGAATTTGAAAA-TACCTC-
1 AGGCTCAACTCACCTCTCACAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAAATTACCTCA
* ** ** *
21211028 -GGTGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-TT-TTGAAAAACAGAAATTG
64 ACGTGT-CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATATTCTTGAAAAGCAGAAATTG
* * *
21211090 AAATTACCTCAGCGTGTCCTG
128 AAAATACCTCAACGTGTCTTG
* * * * *
21211111 AGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAACAGGAATTGAA
1 AGGCTCAACTCACCTCTCACAATATGAGTTGAATTTTG-AAAACAGAAATTG-A-A--AA-T---
** *
21211176 AATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGC
57 --TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATATTCTTGAAAAGC
*
21211241 AGAAATTGAAAATACCTCAATGTGTCTTG
120 AGAAATTGAAAATACCTCAACGTGTCTTG
* * *
21211270 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAAATTACCTCA
1 AGGCTCAACTCACCTCTCACAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAAATTACCTCA
* *
21211335 GCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATT-TTGAAAAGCAGAAATTGA
64 ACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATATTCTTGAAAAGCAGAAATTGA
21211398 AAATACCTCAACGTGTCTTG
129 AAATACCTCAACGTGTCTTG
** *
21211418 AGGCTCAACTCATTTCTCACAATATGAGTTGAATTTTGAAAACAGAAATTG-AAATTACCTCAAT
1 AGGCTCAACTCACCTCTCACAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATTACCTCAAC
21211482 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
66 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
21211523 TCTTTCAAAA
Statistics
Matches: 361, Mismatches: 32, Indels: 38
0.84 0.07 0.09
Matches are distributed among these distances:
144 6 0.02
145 60 0.17
146 47 0.13
147 1 0.00
148 66 0.18
149 4 0.01
150 45 0.12
155 1 0.00
156 8 0.02
157 35 0.10
158 7 0.02
159 65 0.18
160 10 0.03
161 6 0.02
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (148 bp):
AGGCTCAACTCACCTCTCACAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATTACCTCAAC
GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATATTCTTGAAAAGCAGAAATTGAAA
ATACCTCAACGTGTCTTG
Found at i:21211603 original size:88 final size:86
Alignment explanation
Indices: 21211454--21211698 Score: 276
Period size: 88 Copynumber: 2.8 Consensus size: 86
21211444 AGTTGAATTT
* ** * *
21211454 TGAAAACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGT
21211519 TGATTCTTTCAAAAACATAATAA
66 TGATTCTTTCAAAAACA-AA-AA
* * *
21211542 TGAAAACAGAAATGGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGT
* * * *
21211607 TGTTTTTTTGAAAAACAGAAA
66 TGATTCTTTCAAAAACAAAAA
* ** * *
21211628 TCAAAAGGC-TTAATTGAAAATATCTCGGCGTGTGTCCTGAGGCTCAACTAATCTCTCGCAATAT
1 TGAAAA--CAGAAATTGAAAATACCTC-G-GTGTGTCCTGAGGCTCAACTCATCTCTCGCAATAT
21211692 GAGTTGA
62 GAGTTGA
21211699 AATTAAAACA
Statistics
Matches: 132, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
86 7 0.05
87 14 0.11
88 73 0.55
89 38 0.29
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (86 bp):
TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGT
TGATTCTTTCAAAAACAAAAA
Found at i:21212455 original size:88 final size:87
Alignment explanation
Indices: 21212260--21212505 Score: 298
Period size: 88 Copynumber: 2.8 Consensus size: 87
21212250 TGTTTTAATT
*
21212260 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATTAAGC-
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACA--CCGAGGTATTTTCAATT--TCT
* * *
21212324 CTTTTGATTTCTGTTTTTCAAAAAAA
62 GTTTTCATTTATGTTTTTCAAAAAAA
* *
21212350 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCCATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACCGAGGTATTTTCAATTTCTGTTT
* *
21212415 TCATTATTATGTTTTT-GAAAGAA
66 TCA-T-TTATGTTTTTCAAAAAAA
** * ** *
21212438 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACCGAGGTATTTTCAATTTCTGTTT
21212503 TCA
66 TCA
21212506 AAATTCAACT
Statistics
Matches: 137, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
86 1 0.01
87 5 0.04
88 82 0.60
89 9 0.07
90 40 0.29
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.35
Consensus pattern (87 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACCGAGGTATTTTCAATTTCTGTTT
TCATTTATGTTTTTCAAAAAAA
Found at i:21212622 original size:73 final size:73
Alignment explanation
Indices: 21212424--21213190 Score: 779
Period size: 73 Copynumber: 10.1 Consensus size: 73
21212414 TTCATTATTA
* ** * ** *
21212424 TGTTTTTGAAAGAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAAT
1 TGTTTTTCAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT
21212489 TTCAATTTC
65 TTCAATTTC
* ** * *
21212498 TG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTT
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
21212562 TCAATTTC
66 TCAATTTC
* * ** * *
21212570 TGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTAAGGTAATT
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
21212635 TCAATTTC
66 TCAATTTC
* * * **
21212643 TG-TTGTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTAT
1 TGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAT
21212707 TTTCAATTTC
64 TTTCAATTTC
* *
21212717 TGTTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
1 TGTTTTTC-A-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAT
21212782 TTTCAATTCCTGTTC
64 TTTCAA----T-TTC
21212797 AATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 ------TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
21212862 GTAATTTCAATTTC
60 GTATTTTCAATTTC
* * *
21212876 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTT
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
*
21212941 TCAAATTC
66 TCAATTTC
** * * * *
21212949 T-ACTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT-TGGCTCACG-TGTTGAG
1 TGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTG-AG-G
*
21213011 TCACTTTCAATTTC
61 T-ATTTTCAATTTC
** * *
21213025 TGTTTTTATGTCTGTTTTCTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TG--TTT-T-TC------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
*
21213090 TGAGGTATTTTCAATTAC
56 TGAGGTATTTTCAATTTC
** * * *
21213108 TGTTTGGCAAAAACCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTT
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
*
21213173 TCCATTTC
66 TCAATTTC
21213181 TGTTTTTCAA
1 TGTTTTTCAA
21213191 TTTATGTTTT
Statistics
Matches: 597, Mismatches: 63, Indels: 67
0.82 0.09 0.09
Matches are distributed among these distances:
72 69 0.12
73 211 0.35
74 103 0.17
75 64 0.11
76 11 0.02
79 6 0.01
80 5 0.01
81 5 0.01
83 12 0.02
84 59 0.10
85 40 0.07
86 12 0.02
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (73 bp):
TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
TCAATTTC
Found at i:21212895 original size:306 final size:305
Alignment explanation
Indices: 21212436--21213190 Score: 847
Period size: 306 Copynumber: 2.5 Consensus size: 305
21212426 TTTTTGAAAG
** * *
21212436 AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAA---T-TT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTCTGTT
* ** * *
21212497 C-----TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
66 CAATTTTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
* *
21212557 TATTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACA
131 TATTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACA
* * * * *
21212622 CGCTAAGGTAATTTCAATTTCT-GTTGTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAG
196 CGCCAAGGTAATTTCAAATTCTACTT-TCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAG
*
21212686 CCTCAAG-ACAC-ATTGAGGT-ATTTTCAATTTCTGTTTTTCA-AG-AA
260 CCT-AAGCACACGATTGA-GTCACTTTCAATTTCTGTTTTT-ATAGTAA
21212730 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTCCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT-CTGT
21212795 TCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
65 TCAATTT-TG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
* ** *
21212860 AGGTAATTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
128 AGGTATTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG
* * *
21212925 GCACGCCGAGGTATTTTCAAATTCTACTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTG
193 ACACGCCAAGGTAATTTCAAATTCTACTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTG
** * * * *
21212990 AGCCTTGGCTCACGTGTTGAGTCACTTTCAATTTCTGTTTTTATGTCTGTTTTCTA
258 AGCCTAAGCACACG-ATTGAGTCACTTTCAATTTCTGTTTTTA--T-AG---T-AA
** * *
21213046 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTACTG-
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT-CTGT
* * * *
21213110 -----TTTG---GCAAAAACCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAG
65 TCAATTTTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
21213167 GTATTTTCCATTTCTGTTTTTCAA
130 GTATTTTCAATTTCTGTTTTTCAA
21213191 TTTATGTTTT
Statistics
Matches: 394, Mismatches: 41, Indels: 41
0.83 0.09 0.09
Matches are distributed among these distances:
294 54 0.14
298 1 0.00
299 3 0.01
305 74 0.19
306 170 0.43
307 5 0.01
308 22 0.06
309 2 0.01
310 2 0.01
311 1 0.00
316 60 0.15
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.33
Consensus pattern (305 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTCTGTT
CAATTTTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
TATTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACA
CGCCAAGGTAATTTCAAATTCTACTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGC
CTAAGCACACGATTGAGTCACTTTCAATTTCTGTTTTTATAGTAA
Found at i:21212957 original size:159 final size:153
Alignment explanation
Indices: 21212436--21213188 Score: 641
Period size: 159 Copynumber: 5.0 Consensus size: 153
21212426 TTTTTGAAAG
** ** * ** *
21212436 AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATT-T-C-
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTCTACT
* * ** * *
21212498 -T--GT-TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA
66 TTCAATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
*
21212559 TTTTCAATTTCTGCTTTTC-AAA
131 TTTTCAATTTCTGTTTTTCTAAA
* ** * * * *
21212581 ATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTAAGGTAATTTCAATT-T-CT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTCTACT
* *** * * **
21212644 GT---TGTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTA
66 TTCAATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
*
21212706 TTTTCAATTTCTGTTTTTCAAGAA
131 TTTTCAATTTCTGTTTTTCTA-AA
** * *
21212730 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTC--CT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTCTACT
21212793 GTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
66 -TTC-A---ATG--TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
*
21212858 TGAGGTAATTTCAATTTCTGTTTTTC-AAA
124 TGAGGTATTTTCAATTTCTGTTTTTCTAAA
*
21212887 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTCTAC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTC-AATTCTAC
* * * *
21212952 TTTCAA------AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT-TGGCTCACG-TGTTG
65 TTTCAATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTG-AG
* **
21213009 AGTCACTTTCAATTTCTGTTTTTATGTCTGTTTTCTA
128 -GT-ATTTTCAATTTCTG--TTT-T-TC-----TAAA
21213046 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAA-T-TACT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTCTACT
* * * *
21213109 GTT---TG--GCAAAAACCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGT
66 -TTCAATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
*
21213169 ATTTTCCATTTCTGTTTTTC
130 ATTTTCAATTTCTGTTTTTC
21213189 AATTTATGTT
Statistics
Matches: 516, Mismatches: 52, Indels: 73
0.80 0.08 0.11
Matches are distributed among these distances:
145 57 0.11
146 5 0.01
147 110 0.21
148 3 0.01
149 70 0.14
150 1 0.00
151 3 0.01
152 3 0.01
153 3 0.01
154 3 0.01
155 1 0.00
156 16 0.03
157 60 0.12
158 47 0.09
159 132 0.26
160 2 0.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.33
Consensus pattern (153 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTCTACT
TTCAATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
TTTTCAATTTCTGTTTTTCTAAA
Found at i:21213063 original size:232 final size:232
Alignment explanation
Indices: 21212568--21213174 Score: 789
Period size: 232 Copynumber: 2.6 Consensus size: 232
21212558 ATTTTCAATT
** *
21212568 TCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTAAGGTAA
1 TCTG-TTTTCAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
* *
21212633 TTTCAATTTCTG-TTGTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
64 TTTCAATTTCTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
** * ** * *
21212697 ATTGAGGTATTTTCAATTTCTGTTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
127 GCTGAGGTATTTTCAAATTCTGACTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGC
*
21212762 CTCAAGACACGTTGAGGTATTTTCAATTCCTGTTCAATTTATG
192 CTCAAGACACGTTGAGGTACTTTCAATTCCTGTT--ATTTATG
21212805 --T-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
1 TCTGTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
* * * *
21212867 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCC
65 TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
21212932 GAGGTATTTTCAAATTCT-ACTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT-
130 GAGGTATTTTCAAATTCTGACTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTC
** * *
21212995 TGGCTCACGTGTTGA-GTCACTTTCAATTTCTGTT-TTTATG
195 AAG-ACAC--GTTGAGGT-ACTTTCAATTCCTGTTATTTATG
* * * *
21213035 TCTGTTTTCTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTT
1 TCTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
* * * * *
21213100 TCAATTACTGTTTGGCAAAAACCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTG
66 TCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
21213165 AGGTATTTTC
131 AGGTATTTTC
21213175 CATTTCTGTT
Statistics
Matches: 327, Mismatches: 34, Indels: 23
0.85 0.09 0.06
Matches are distributed among these distances:
230 7 0.02
231 44 0.13
232 179 0.55
233 88 0.27
234 8 0.02
235 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (232 bp):
TCTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
TCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
AGGTATTTTCAAATTCTGACTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCA
AGACACGTTGAGGTACTTTCAATTCCTGTTATTTATG
Found at i:21213208 original size:159 final size:159
Alignment explanation
Indices: 21212866--21213266 Score: 499
Period size: 159 Copynumber: 2.5 Consensus size: 159
21212856 GCTGAGGTAA
21212866 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTCAATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
* * * *
21212931 CGAGGTATTTTCAAATTCTACTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTT
65 TGAGGTATTTTC-AATTCTACTTTCAAAAAAACCAACTCATACTGCGAAAGGTGAGTTGAGCCTA
* *
21212996 GGCTCACGTGTTGAGTCACTTTCAATTTCTGTT
129 GG--CACATGCTGAGTCACTTTCAATTTCTGTT
* *
21213029 TTT--ATGTCTGTTTTC-TAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
* *** *
21213091 GAGGTATTTTCAATTACT-GTTTGGCAAAAACCAACTCATACTGCGAGAGGTGAGTTGAGCCTCA
66 GAGGTATTTTCAATT-CTACTTTCAAAAAAACCAACTCATACTGCGAAAGGTGAGTTGAGCCT-A
* *
21213155 GG-ACATGCTGAGGT-ATTTTCCATTTCTGTT
129 GGCACATGCTGA-GTCACTTTCAATTTCTGTT
* * * * *
21213185 TTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAAAGGTGAGTTGAGCCTCGGCTCGCACG
1 TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GGCACG
21213250 CTGAGGTATTTTCAATT
64 CTGAGGTATTTTCAATT
21213267 TTTCGTTTTT
Statistics
Matches: 208, Mismatches: 22, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
156 24 0.12
157 2 0.01
158 51 0.25
159 95 0.46
160 5 0.02
161 28 0.13
163 3 0.01
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.35
Consensus pattern (159 bp):
TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
GAGGTATTTTCAATTCTACTTTCAAAAAAACCAACTCATACTGCGAAAGGTGAGTTGAGCCTAGG
CACATGCTGAGTCACTTTCAATTTCTGTT
Found at i:21213455 original size:89 final size:90
Alignment explanation
Indices: 21213288--21213455 Score: 232
Period size: 89 Copynumber: 1.9 Consensus size: 90
21213278 CAATTTATGC
* * * * *
21213288 TTTTCAAATTCTACTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
1 TTTTCAAATTCAACTTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCAC
*
21213353 ATGTCGAGGTATTTTCAAAATCTGT
66 ATGTCGAGCTATTTTCAAAATCTGT
* *
21213378 TTTTCAAATT-AAGTTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCAC
1 TTTTCAAATTCAACTTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCAC
*
21213442 GTG-CTGAGCTATTT
66 ATGTC-GAGCTATTT
21213456 CTGTTTTAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
88 1 0.01
89 57 0.84
90 10 0.15
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (90 bp):
TTTTCAAATTCAACTTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCAC
ATGTCGAGCTATTTTCAAAATCTGT
Found at i:21214165 original size:22 final size:22
Alignment explanation
Indices: 21214136--21214198 Score: 99
Period size: 22 Copynumber: 2.9 Consensus size: 22
21214126 GCAACCATGA
21214136 AGCAGCCCCATACCTCCACTAC
1 AGCAGCCCCATACCTCCACTAC
* *
21214158 AGCGGCCCCATACCCCCACTAC
1 AGCAGCCCCATACCTCCACTAC
*
21214180 AGCAGTCCCATACCTCCAC
1 AGCAGCCCCATACCTCCAC
21214199 AGCCCTCGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.25, C:0.51, G:0.11, T:0.13
Consensus pattern (22 bp):
AGCAGCCCCATACCTCCACTAC
Found at i:21228399 original size:123 final size:123
Alignment explanation
Indices: 21228173--21228415 Score: 337
Period size: 122 Copynumber: 2.0 Consensus size: 123
21228163 AAGAAAATCA
* *
21228173 ACTCATATCACGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGC
1 ACTCATATCACGAGAGGTGAGTTAAGCCTTTTAATTTATGTTTTTCAAAAATCAACTCATATTGC
*
21228238 GAGAAGTGAGTTGAGCCTAGGGGCACGCCAAGGTATTTTTAGTTTATGTTTTAAATTG
66 GAGAAGTGAGTTGAGCCTAGGGACACGCCAAGGTATTTTTAGTTTATGTTTTAAATTG
** *
21228296 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTATGTTTTTC-AAAATCAATTCATATTGC
1 ACTCATATCACGAGAGGTGAGTTAAGCCTTTTAATTTATGTTTTTCAAAAATCAACTCATATTGC
* * ** * * *
21228360 TAGAGGTGAGTTGAGCCTCA-GGACACGCTGAGGTAATTTTAATTTCTGTTGTTAAA
66 GAGAAGTGAGTTGAGCCT-AGGGACACGCCAAGGTATTTTTAGTTTATGTT-TTAAA
21228416 AAATCAACTC
Statistics
Matches: 105, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
122 57 0.54
123 48 0.46
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (123 bp):
ACTCATATCACGAGAGGTGAGTTAAGCCTTTTAATTTATGTTTTTCAAAAATCAACTCATATTGC
GAGAAGTGAGTTGAGCCTAGGGACACGCCAAGGTATTTTTAGTTTATGTTTTAAATTG
Found at i:21229422 original size:73 final size:72
Alignment explanation
Indices: 21228328--21229418 Score: 1821
Period size: 72 Copynumber: 15.1 Consensus size: 72
21228318 TAAGCCTTTT
* * * ** * *
21228328 AATTTATGTTTTTCAAAA-TCAATTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
*
21228392 GTAATTTT
65 GTAATTTC
* * * *
21228400 AATTTCTGTTGTTAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTCTGTT-TTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
21228465 GTAATTTC
65 GTAATTTC
* * * *
21228473 AATTTCTATTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
*
21228538 TATTTTC
66 TAATTTC
21228545 AATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
21228610 GTAATTTC
65 GTAATTTC
21228618 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
21228683 TAATTTC
66 TAATTTC
21228690 AATTTCTGTTTTC-AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
*
21228754 TATTTTC
66 TAATTTC
* *
21228761 AATTTCTGTTCTCAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
21228826 TAATTTC
66 TAATTTC
21228833 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
21228898 TAATTTC
66 TAATTTC
21228905 AATTTCTG-TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
*
21228969 TATTTTC
66 TAATTTC
*
21228976 AATTTCTGCTTCTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
21229041 GTAATTTC
65 GTAATTTC
21229049 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
21229114 TAATTTC
66 TAATTTC
21229121 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
*
21229186 TATTTTC
66 TAATTTC
*
21229193 AATTTCTGCTTCTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
21229258 GTAATTTC
65 GTAATTTC
*
21229266 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
*
21229331 TATTTTC
66 TAATTTC
* * *
21229338 AATTTCTGCTTTTCAAAACTT-AACTCATATTGCGAGAGATGAGTTGAGCCTCAAGGCACGCTGA
1 AATTTCTG-TTTTCAAAA-TTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGA
*
21229402 GGTATTTTC
64 GGTAATTTC
21229411 AATTTCTG
1 AATTTCTG
21229419 CTTTACTAAT
Statistics
Matches: 973, Mismatches: 37, Indels: 17
0.95 0.04 0.02
Matches are distributed among these distances:
71 141 0.14
72 500 0.51
73 330 0.34
74 2 0.00
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (72 bp):
AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
TAATTTC
Found at i:21229430 original size:145 final size:144
Alignment explanation
Indices: 21228328--21229418 Score: 1821
Period size: 145 Copynumber: 7.6 Consensus size: 144
21228318 TAAGCCTTTT
* * * ** * *
21228328 AATTTATGTTTTTCAAAA-TCAATTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
* * * *
21228392 GTAATTTTAATTTCTGTTGTTAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGAC
65 GTAATTTCAATTTCTGTT-TTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
*
21228457 ACGCTGAGGTAATTTC
129 ACGTTGAGGTAATTTC
* * * *
21228473 AATTTCTATTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
*
21228538 TATTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
66 TAATTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
21228603 CGTTGAGGTAATTTC
130 CGTTGAGGTAATTTC
21228618 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
21228683 TAATTTCAATTTCTGTTTTC-AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
66 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
*
21228747 GTTGAGGTATTTTC
131 GTTGAGGTAATTTC
* *
21228761 AATTTCTGTTCTCAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
21228826 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
66 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
21228891 GTTGAGGTAATTTC
131 GTTGAGGTAATTTC
21228905 AATTTCTG-TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
* *
21228969 TATTTTCAATTTCTGCTTCTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
66 TAATTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
21229034 CGTTGAGGTAATTTC
130 CGTTGAGGTAATTTC
21229049 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
21229114 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
66 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
*
21229179 GTTGAGGTATTTTC
131 GTTGAGGTAATTTC
*
21229193 AATTTCTGCTTCTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
21229258 GTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
65 GTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
* *
21229323 CATTGAGGTATTTTC
130 CGTTGAGGTAATTTC
* * *
21229338 AATTTCTGCTTTTCAAAACTT-AACTCATATTGCGAGAGATGAGTTGAGCCTCAAGGCACGCTGA
1 AATTTCTG-TTTTCAAAA-TTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGA
*
21229402 GGTATTTTCAATTTCTG
64 GGTAATTTCAATTTCTG
21229419 CTTTACTAAT
Statistics
Matches: 903, Mismatches: 36, Indels: 14
0.95 0.04 0.01
Matches are distributed among these distances:
143 208 0.23
144 220 0.24
145 471 0.52
146 4 0.00
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (144 bp):
AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
GTTGAGGTAATTTC
Found at i:21229524 original size:14 final size:14
Alignment explanation
Indices: 21229502--21229534 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
21229492 TCTTTTCAAA
21229502 TTCTG-TTTTTAAT
1 TTCTGTTTTTTAAT
21229515 TTCTGTTTTTTAAT
1 TTCTGTTTTTTAAT
21229529 TTCTGT
1 TTCTGT
21229535 GTTTCAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.12, C:0.09, G:0.09, T:0.70
Consensus pattern (14 bp):
TTCTGTTTTTTAAT
Found at i:21229524 original size:86 final size:87
Alignment explanation
Indices: 21229333--21229524 Score: 214
Period size: 86 Copynumber: 2.2 Consensus size: 87
21229323 CATTGAGGTA
* * * *
21229333 TTTTCAATTTCTGCTTTTCAAAACTTAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGGCACG
1 TTTTTAATTTCTGTTTTTCAAAACTCAACTCATATTGCAAGAGATGAGTTGAGCCTCAAGGCACG
*
21229398 CTGAGGTATTTTCAATTTCTGC
66 CTGAGGTATTTTCAAATTCTGC
* * * *
21229420 TTTACTAA-TTCTACTTTTTC-AAA-TCAACTCATATTGCAAGAGGTGAGTTGAGTCTC-AGGCC
1 TTT-TTAATTTCT-GTTTTTCAAAACTCAACTCATATTGCAAGAGATGAGTTGAGCCTCAAGG--
*
21229481 ACACGCTGAGGTCTTTTCAAATTCTG-
62 -CACGCTGAGGTATTTTCAAATTCTGC
21229507 TTTTTAATTTCTGTTTTT
1 TTTTTAATTTCTGTTTTT
21229525 TAATTTCTGT
Statistics
Matches: 87, Mismatches: 12, Indels: 13
0.78 0.11 0.12
Matches are distributed among these distances:
85 3 0.03
86 37 0.43
87 17 0.20
88 30 0.34
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (87 bp):
TTTTTAATTTCTGTTTTTCAAAACTCAACTCATATTGCAAGAGATGAGTTGAGCCTCAAGGCACG
CTGAGGTATTTTCAAATTCTGC
Found at i:21229622 original size:53 final size:54
Alignment explanation
Indices: 21229545--21229794 Score: 377
Period size: 53 Copynumber: 4.7 Consensus size: 54
21229535 GTTTCAAAAA
* *
21229545 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTC
21229599 AAAAATCAA-TCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTC
* *
21229652 AAAAACCAACTCATATTGCGAGAAGTGAGTTGAGCC--TT--TTTCTATTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTC
* *
21229702 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTGCAAATTCT-GTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT--AATTTCTATTTTTC
*
21229757 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
21229795 GGCTCACGTG
Statistics
Matches: 180, Mismatches: 9, Indels: 13
0.89 0.04 0.06
Matches are distributed among these distances:
50 46 0.26
52 4 0.02
53 50 0.28
54 34 0.19
55 42 0.23
56 4 0.02
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.36
Consensus pattern (54 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTC
Found at i:21230058 original size:17 final size:16
Alignment explanation
Indices: 21230036--21230073 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
21230026 TTTAATTTTC
21230036 AAAATTTCAAAAAAAAA
1 AAAATTT-AAAAAAAAA
*
21230053 AAAA-TTAAAAAAATA
1 AAAATTTAAAAAAAAA
21230068 AAAATT
1 AAAATT
21230074 GCATTTTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 12 0.63
16 3 0.16
17 4 0.21
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (16 bp):
AAAATTTAAAAAAAAA
Found at i:21230109 original size:30 final size:29
Alignment explanation
Indices: 21230069--21230184 Score: 117
Period size: 30 Copynumber: 3.9 Consensus size: 29
21230059 AAAAAAATAA
* *
21230069 AAATTGCATTTTGACACCTAAACTTTTC-CT
1 AAATTTCATTTTGAC-CCTAAAC-TTTCATT
*
21230099 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCC-TAAACTTTCATT
* *
21230129 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGA-CCCTAAACTTTCATT
* * *
21230159 AAATTTCATTTTAATCCTAAATTTTC
1 AAATTTCATTTTGACCCTAAACTTTC
21230185 TAAAAATTAC
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
29 16 0.22
30 54 0.74
31 3 0.04
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.44
Consensus pattern (29 bp):
AAATTTCATTTTGACCCTAAACTTTCATT
Found at i:21230448 original size:10 final size:10
Alignment explanation
Indices: 21230429--21230478 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
21230419 TTTTTCGAAG
*
21230429 GAAAAAAGAA
1 GAAAAGAGAA
21230439 GAAAAGAGAA
1 GAAAAGAGAA
21230449 GAAAAGAGAA
1 GAAAAGAGAA
* *
21230459 -AGAGGAGAA
1 GAAAAGAGAA
21230468 GAAAAGA-AA
1 GAAAAGAGAA
21230477 GA
1 GA
21230479 GTACCGGCGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAAAGAGAA
Found at i:21230479 original size:17 final size:19
Alignment explanation
Indices: 21230432--21230474 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
21230422 TTCGAAGGAA
21230432 AAAAGAAGAAA-A-GAGAAG
1 AAAAG-AGAAAGAGGAGAAG
21230450 AAAAGAGAAAGAGGAGAAG
1 AAAAGAGAAAGAGGAGAAG
21230469 AAAAGA
1 AAAAGA
21230475 AAGAGTACCG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.22
18 6 0.26
19 12 0.52
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
AAAAGAGAAAGAGGAGAAG
Found at i:21230540 original size:3 final size:3
Alignment explanation
Indices: 21230534--21230579 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
21230524 GCTAGACTTT
*
21230534 GAA GAA GAA GAA GGAA GAA GAA GGAA GAA GAA -AA GAG GAA GAA GAA
1 GAA GAA GAA GAA -GAA GAA GAA -GAA GAA GAA GAA GAA GAA GAA GAA
21230580 AGAAAGAAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:21230552 original size:10 final size:10
Alignment explanation
Indices: 21230537--21230565 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
21230527 AGACTTTGAA
21230537 GAAGAAGAAG
1 GAAGAAGAAG
21230547 GAAGAAGAAG
1 GAAGAAGAAG
21230557 GAAGAAGAA
1 GAAGAAGAA
21230566 AAGAGGAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (10 bp):
GAAGAAGAAG
Found at i:21230552 original size:13 final size:13
Alignment explanation
Indices: 21230534--21230579 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
21230524 GCTAGACTTT
21230534 GAAGAAGAAGAAG
1 GAAGAAGAAGAAG
21230547 GAAGAAGAAGGAA-
1 GAAGAAGAA-GAAG
21230560 GAAGAA-AAG-AG
1 GAAGAAGAAGAAG
21230571 GAAGAAGAA
1 GAAGAAGAA
21230580 AGAAAGAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 7 0.23
12 4 0.13
13 15 0.50
14 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (13 bp):
GAAGAAGAAGAAG
Found at i:21230733 original size:14 final size:15
Alignment explanation
Indices: 21230702--21230740 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
21230692 GAAACAAGCC
*
21230702 CAAAAAAAAATCAAAG
1 CAAAAAAAAAGC-AAG
21230718 CAAAAAAAAAGC-AG
1 CAAAAAAAAAGCAAG
21230732 CAAAAAAAA
1 CAAAAAAAA
21230741 GAAGGGAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
16 11 0.50
ACGTcount: A:0.77, C:0.13, G:0.08, T:0.03
Consensus pattern (15 bp):
CAAAAAAAAAGCAAG
Found at i:21230900 original size:22 final size:22
Alignment explanation
Indices: 21230872--21230948 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 22
21230862 GCAGCCCAGC
21230872 AGAAAAAAAAAGGAAGAAAAAGA
1 AGAAAAAAAAA-GAAGAAAAAGA
*
21230895 AGAAAAAAGAAAAAAGAAAAAAGGA
1 AGAAAAAA-AAAGAAG-AAAAA-GA
*
21230920 AAAAAGAAAAAAGAA-AAAAAGA
1 AGAAA-AAAAAAGAAGAAAAAGA
21230942 AGAAAAA
1 AGAAAAA
21230949 GGGGGTTCAA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
21 2 0.04
22 6 0.13
23 16 0.35
24 8 0.17
25 11 0.24
26 3 0.07
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (22 bp):
AGAAAAAAAAAGAAGAAAAAGA
Found at i:21230906 original size:7 final size:7
Alignment explanation
Indices: 21230889--21230938 Score: 82
Period size: 7 Copynumber: 6.9 Consensus size: 7
21230879 AAAAGGAAGA
21230889 AAAAGAAG
1 AAAA-AAG
21230897 AAAAAAG
1 AAAAAAG
21230904 AAAAAAG
1 AAAAAAG
21230911 AAAAAAGG
1 AAAAAA-G
21230919 AAAAAAG
1 AAAAAAG
21230926 AAAAAAG
1 AAAAAAG
21230933 AAAAAA
1 AAAAAA
21230939 AGAAGAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
7 30 0.73
8 11 0.27
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:21230939 original size:15 final size:15
Alignment explanation
Indices: 21230872--21230947 Score: 93
Period size: 15 Copynumber: 5.1 Consensus size: 15
21230862 GCAGCCCAGC
**
21230872 AGAAAAAAA-AAGGA
1 AGAAAAAAAGAAAAA
21230886 AGAAAAAGAAGAAAAA
1 AGAAAAA-AAGAAAAA
21230902 AG-AAAAAAGAAAAA
1 AGAAAAAAAGAAAAA
*
21230916 AGGAAAAAAGAAAAA
1 AGAAAAAAAGAAAAA
21230931 AGAAAAAAAGAAGAAA
1 AGAAAAAAAGAA-AAA
21230947 A
1 A
21230948 AGGGGGTTCA
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
14 17 0.31
15 29 0.53
16 9 0.16
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AGAAAAAAAGAAAAA
Found at i:21231513 original size:18 final size:18
Alignment explanation
Indices: 21231488--21231545 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
21231478 GAAACTTTCG
**
21231488 AATTTTCGCGTTTTCAAA
1 AATTTTCGCGTTTGAAAA
* *
21231506 AGTTTTCGTGTTTGAAAA
1 AATTTTCGCGTTTGAAAA
21231524 AATTTTCGCGTTT-AAAA
1 AATTTTCGCGTTTGAAAA
21231541 AATTT
1 AATTT
21231546 CTCGTATTTC
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
17 9 0.26
18 25 0.74
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (18 bp):
AATTTTCGCGTTTGAAAA
Found at i:21231559 original size:18 final size:17
Alignment explanation
Indices: 21231488--21231931 Score: 107
Period size: 17 Copynumber: 25.1 Consensus size: 17
21231478 GAAACTTTCG
* *
21231488 AATTTTCGCGTTTTCAAA
1 AATTTTCGTG-TTTAAAA
*
21231506 AGTTTTCGTGTTTGAAAA
1 AATTTTCGTGTTT-AAAA
*
21231524 AATTTTCGCGTTTAAAA
1 AATTTTCGTGTTTAAAA
* *
21231541 AATTTCTCGTATTTCAAA
1 AATTT-TCGTGTTTAAAA
* * * *
21231559 AATTGTCGTTTTTTACA
1 AATTTTCGTGTTTAAAA
* * *
21231576 AA-TTTCGTTCTTTCAAT
1 AATTTTCG-TGTTTAAAA
** *
21231593 AATCCTCGTGCTTTTAAA
1 AATTTTCGTG-TTTAAAA
* * *
21231611 AATTCTCATGTTTCAAA
1 AATTTTCGTGTTTAAAA
* **
21231628 AATCTTCGTGTTTTCAA
1 AATTTTCGTGTTTAAAA
* * *
21231645 AATTCTAGTGTTTCAAA
1 AATTTTCGTGTTTAAAA
*
21231662 AATTTTCTTGTTTTCAAAAAAA
1 AATTTTCGTG-TTT----AAAA
*
21231684 AAATTTCGTGTTTTAAAAAAA
1 AATTTTCGTG-TTT---AAAA
*
21231705 AATATTTCCGTGTTTTAAA
1 AAT-TTT-CGTGTTTAAAA
*
21231724 AATTTT-GTGTTTTAAA
1 AATTTTCGTGTTTAAAA
* **
21231740 AATTCTCGCATTT--AA
1 AATTTTCGTGTTTAAAA
*
21231755 AATTTT--TTTTTAAGAAAA
1 AATTTTCGTGTTT---AAAA
*
21231773 AATTTT-GT-TTCAAAA
1 AATTTTCGTGTTTAAAA
* * * *
21231788 AAATGTCTTGTTTTAAA
1 AATTTTCGTGTTTAAAA
**
21231805 AATTCCCGTGTTTCAAAAA
1 AATTTTCGTGTTT--AAAA
* *
21231824 AAATGTCGTGTTTTAAGAA
1 AATTTTCGTG-TTTAA-AA
* *
21231843 AA-TTTCGTTTTTTTTCAAA
1 AATTTTCG---TGTTTAAAA
**
21231862 AATTTTCGTGTTTCTAA
1 AATTTTCGTGTTTAAAA
* *
21231879 AATATTCGTGTTT-ACA
1 AATTTTCGTGTTTAAAA
* *
21231895 AATTCTCGTGTTTTCAAA
1 AATTTTCGTG-TTTAAAA
* *
21231913 AATTCTCGTATTTAAAA
1 AATTTTCGTGTTTAAAA
21231930 AA
1 AA
21231932 AAACTTTCGT
Statistics
Matches: 319, Mismatches: 76, Indels: 63
0.70 0.17 0.14
Matches are distributed among these distances:
13 3 0.01
15 15 0.05
16 29 0.09
17 116 0.36
18 84 0.26
19 25 0.08
20 12 0.04
21 10 0.03
22 21 0.07
23 4 0.01
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (17 bp):
AATTTTCGTGTTTAAAA
Found at i:21231560 original size:36 final size:36
Alignment explanation
Indices: 21231488--21231560 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
21231478 GAAACTTTCG
* * * *
21231488 AATTTTCGCGTTTTCAAAAGTTTTCGTGTTTGAAAA
1 AATTTTCGCGTTTTAAAAAATTTTCGTATTTCAAAA
21231524 AATTTTCGCG-TTTAAAAAATTTCTCGTATTTCAAAA
1 AATTTTCGCGTTTTAAAAAATTT-TCGTATTTCAAAA
21231560 A
1 A
21231561 TTGTCGTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 10 0.31
36 22 0.69
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (36 bp):
AATTTTCGCGTTTTAAAAAATTTTCGTATTTCAAAA
Found at i:21231657 original size:34 final size:34
Alignment explanation
Indices: 21231586--21231680 Score: 120
Period size: 34 Copynumber: 2.8 Consensus size: 34
21231576 AATTTCGTTC
* * *
21231586 TTTCAATAATCCTCGTGCTTTTAAAAATTCTCATG
1 TTTCAAAAATCTTCGTG-TTTTCAAAATTCTCATG
21231621 TTTCAAAAATCTTCGTGTTTTCAAAATTCT-AGTG
1 TTTCAAAAATCTTCGTGTTTTCAAAATTCTCA-TG
* *
21231655 TTTCAAAAATTTTCTTGTTTTCAAAA
1 TTTCAAAAATCTTCGTGTTTTCAAAA
21231681 AAAAAATTTC
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
33 1 0.02
34 38 0.70
35 15 0.28
ACGTcount: A:0.31, C:0.16, G:0.08, T:0.45
Consensus pattern (34 bp):
TTTCAAAAATCTTCGTGTTTTCAAAATTCTCATG
Found at i:21231660 original size:16 final size:16
Alignment explanation
Indices: 21231609--21231662 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
21231599 CGTGCTTTTA
21231609 AAAATTCTCA-TGTTTC
1 AAAATTCT-AGTGTTTC
* *
21231625 AAAAATCTTCGTGTTTTC
1 AAAATTC-TAGTG-TTTC
21231643 AAAATTCTAGTGTTTC
1 AAAATTCTAGTGTTTC
21231659 AAAA
1 AAAA
21231663 ATTTTCTTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
16 14 0.45
17 7 0.23
18 10 0.32
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (16 bp):
AAAATTCTAGTGTTTC
Found at i:21231686 original size:23 final size:22
Alignment explanation
Indices: 21231659--21231725 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 22
21231649 CTAGTGTTTC
*
21231659 AAAAATTTTCTTGTTTTCAAAAA
1 AAAAATTTTCGTGTTTT-AAAAA
21231682 AAAAA-TTTCGTGTTTTAAAAA
1 AAAAATTTTCGTGTTTTAAAAA
*
21231703 AAAATATTTCCGTGTTTTAAAAA
1 AAAA-ATTTTCGTGTTTTAAAAA
21231726 TTTTGTGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.22
22 11 0.28
23 20 0.50
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (22 bp):
AAAAATTTTCGTGTTTTAAAAA
Found at i:21231690 original size:22 final size:21
Alignment explanation
Indices: 21231659--21231725 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 21
21231649 CTAGTGTTTC
* *
21231659 AAAAATTTTCTTGTTTTCAAAA
1 AAAAAATTTCGTGTTTT-AAAA
21231681 AAAAAATTTCGTGTTTTAAAA
1 AAAAAATTTCGTGTTTTAAAA
21231702 AAAAATATTTCCGTGTTTTAAAA
1 AAAAA-ATTT-CGTGTTTTAAAA
21231725 A
1 A
21231726 TTTTGTGTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
21 9 0.22
22 19 0.46
23 13 0.32
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (21 bp):
AAAAAATTTCGTGTTTTAAAA
Found at i:21231703 original size:17 final size:17
Alignment explanation
Indices: 21231509--21231931 Score: 96
Period size: 18 Copynumber: 24.0 Consensus size: 17
21231499 TTTCAAAAGT
*
21231509 TTTCGTGTTTGAAAAAA
1 TTTCGTGTTTTAAAAAA
*
21231526 TTTTCGCG-TTTAAAAAA
1 -TTTCGTGTTTTAAAAAA
*
21231543 TTTC-TCGTATTTCAAAAA
1 TTTCGT-GT-TTTAAAAAA
* *
21231561 TTGTCGT-TTTTTACAAA
1 TT-TCGTGTTTTAAAAAA
* *
21231578 TTTCGT-TCTTTCAATAA
1 TTTCGTGT-TTTAAAAAA
*
21231595 TCCTCGTGCTTTT-AAAAA
1 T-TTCGTG-TTTTAAAAAA
* *
21231613 TTCTCATG-TTTCAAAAA
1 TT-TCGTGTTTTAAAAAA
*
21231630 TCTTCGTGTTTT-CAAAA
1 T-TTCGTGTTTTAAAAAA
* * *
21231647 TTCTAGTGTTTCAAAAAT
1 TT-TCGTGTTTTAAAAAA
*
21231665 TTTCTTGTTTTCAAAAAAAAAA
1 TTTCGTGTTTT-----AAAAAA
21231687 TTTCGTGTTTTAAAAAAAAATA
1 TTTCGTGTTTT----AAAAA-A
21231709 TTTCCGTGTTTT-AAAAA
1 TTT-CGTGTTTTAAAAAA
*
21231726 TTTTGTGTTTT-AAAAA
1 TTTCGTGTTTTAAAAAA
**
21231742 TTCTCG-CATTT--AAAA
1 TT-TCGTGTTTTAAAAAA
*
21231757 TTT--TTTTTTAAGAAAAAA
1 TTTCGTGTTTT---AAAAAA
*
21231775 TTT--TGTTTCAAAAAAA
1 TTTCGTGTTT-TAAAAAA
* *
21231791 TGTCTTGTTTT-AAAAA
1 TTTCGTGTTTTAAAAAA
* *
21231807 TTCCCGTGTTTCAAAAAAAA
1 TT-TCGTGTTT--TAAAAAA
*
21231827 TGTCGTGTTTTAAGAAAA
1 TTTCGTGTTTTAA-AAAA
* *
21231845 TTTCGTTTTTTTTCAAAAAT
1 TTTCG--TGTTTT-AAAAAA
*
21231865 TTTCGTGTTTCTAAAATA
1 TTTCGTGTTT-TAAAAAA
*
21231883 -TTCGTG-TTT-ACAAA
1 TTTCGTGTTTTAAAAAA
*
21231897 TTCTCGTGTTTTCAAAAA
1 TT-TCGTGTTTTAAAAAA
*
21231915 TTCTCGT-ATTTAAAAAA
1 TT-TCGTGTTTTAAAAAA
21231932 AAACTTTCGT
Statistics
Matches: 308, Mismatches: 52, Indels: 91
0.68 0.12 0.20
Matches are distributed among these distances:
13 3 0.01
14 4 0.01
15 8 0.03
16 52 0.17
17 83 0.27
18 86 0.28
19 13 0.04
20 21 0.07
21 11 0.04
22 19 0.06
23 8 0.03
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.45
Consensus pattern (17 bp):
TTTCGTGTTTTAAAAAA
Found at i:21239445 original size:21 final size:19
Alignment explanation
Indices: 21239403--21239448 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
21239393 TATTGCTTTC
*
21239403 ATTTTTTATAACATTTTAT
1 ATTTTTAATAACATTTTAT
* *
21239422 ATTTTTAATAATACTTTAT
1 ATTTTTAATAACATTTTAT
*
21239441 ATATTTAA
1 ATTTTTAA
21239449 AAAATTATGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTTTAATAACATTTTAT
Found at i:21250098 original size:12 final size:12
Alignment explanation
Indices: 21250081--21250113 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
21250071 TGGCCCGTCC
21250081 ATATTAATTTTT
1 ATATTAATTTTT
21250093 ATATT-ATTTTT
1 ATATTAATTTTT
21250104 ATA-TAATTTT
1 ATATTAATTTT
21250114 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:21250296 original size:12 final size:12
Alignment explanation
Indices: 21250276--21250304 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
21250266 AAAATGTCTT
21250276 TAAAA-TAATAA
1 TAAAATTAATAA
21250287 TAAAATTAATAA
1 TAAAATTAATAA
21250299 TAAAAT
1 TAAAAT
21250305 AAGTTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATTAATAA
Found at i:21250353 original size:22 final size:22
Alignment explanation
Indices: 21250328--21250370 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
21250318 TATCCAAACA
21250328 ATAACA-ACAAAATAGTAGCAAC
1 ATAACAGA-AAAATAGTAGCAAC
*
21250350 ATAATAGAAAAATAGTAGCAA
1 ATAACAGAAAAATAGTAGCAA
21250371 AATAGGGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.60, C:0.12, G:0.12, T:0.16
Consensus pattern (22 bp):
ATAACAGAAAAATAGTAGCAAC
Found at i:21250374 original size:11 final size:11
Alignment explanation
Indices: 21250335--21250375 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
21250325 ACAATAACAA
21250335 CAAAATAGTAG
1 CAAAATAGTAG
* *
21250346 CAACATAATAG
1 CAAAATAGTAG
*
21250357 AAAAATAGTAG
1 CAAAATAGTAG
21250368 CAAAATAG
1 CAAAATAG
21250376 GGAGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.59, C:0.10, G:0.15, T:0.17
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:21250383 original size:22 final size:22
Alignment explanation
Indices: 21250336--21250383 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
21250326 CAATAACAAC
* *
21250336 AAAATAGTAGCAACATAATAGA
1 AAAATAGTAGCAAAATAAGAGA
*
21250358 AAAATAGTAGCAAAATAGGGAGA
1 AAAATAGTAGCAAAATA-AGAGA
21250381 AAA
1 AAA
21250384 CAATAAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.60, C:0.06, G:0.19, T:0.15
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAAGAGA
Found at i:21250707 original size:20 final size:20
Alignment explanation
Indices: 21250682--21250720 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
21250672 TTTGTGTTTT
*
21250682 TGTGTTTTCTTGTCAATCAG
1 TGTGTTTTATTGTCAATCAG
21250702 TGTGTTTTATTGTCAATCA
1 TGTGTTTTATTGTCAATCA
21250721 TTATGTTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.13, G:0.18, T:0.51
Consensus pattern (20 bp):
TGTGTTTTATTGTCAATCAG
Found at i:21250727 original size:20 final size:20
Alignment explanation
Indices: 21250684--21250727 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
21250674 TGTGTTTTTG
* *
21250684 TGTTTTCTTGTCAATCAGTG
1 TGTTTTATTGTCAATCAGTA
*
21250704 TGTTTTATTGTCAATCATTA
1 TGTTTTATTGTCAATCAGTA
21250724 TGTT
1 TGTT
21250728 CTAATCTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.18, C:0.11, G:0.16, T:0.55
Consensus pattern (20 bp):
TGTTTTATTGTCAATCAGTA
Found at i:21252208 original size:22 final size:22
Alignment explanation
Indices: 21252180--21252251 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 22
21252170 AGCTAAAACA
21252180 TAATTATAAATTATTTGAGCTC
1 TAATTATAAATTATTTGAGCTC
* * * *
21252202 TAATTATATAAGCTA---AAAC-A
1 TAATTATA-AA-TTATTTGAGCTC
21252222 TAATTATAAATTATTTGAGCTC
1 TAATTATAAATTATTTGAGCTC
21252244 TAATTATA
1 TAATTATA
21252252 TATGTTAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 12
0.64 0.14 0.21
Matches are distributed among these distances:
18 2 0.06
19 2 0.06
20 8 0.22
21 4 0.11
22 16 0.44
23 2 0.06
24 2 0.06
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (22 bp):
TAATTATAAATTATTTGAGCTC
Found at i:21252216 original size:42 final size:42
Alignment explanation
Indices: 21252169--21252253 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
21252159 AATAGGCGAA
21252169 AAGCTAAAACATAATTATAAATTATTTGAGCTCTAATTATAT
1 AAGCTAAAACATAATTATAAATTATTTGAGCTCTAATTATAT
21252211 AAGCTAAAACATAATTATAAATTATTTGAGCTCTAATTATAT
1 AAGCTAAAACATAATTATAAATTATTTGAGCTCTAATTATAT
21252253 A
1 A
21252254 TGTTAAATTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.38
Consensus pattern (42 bp):
AAGCTAAAACATAATTATAAATTATTTGAGCTCTAATTATAT
Found at i:21267290 original size:19 final size:19
Alignment explanation
Indices: 21267266--21267304 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
21267256 TAAGATAAAT
21267266 ATATATACAAAAT-ATCGAA
1 ATATATA-AAAATAATCGAA
*
21267285 ATATATAATAATAATCGAA
1 ATATATAAAAATAATCGAA
21267304 A
1 A
21267305 AGGAATAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.59, C:0.08, G:0.05, T:0.28
Consensus pattern (19 bp):
ATATATAAAAATAATCGAA
Found at i:21269703 original size:25 final size:26
Alignment explanation
Indices: 21269658--21269711 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
21269648 AAAACTTAAA
*
21269658 AAAGTTTAAAAAAATTAAAAATACAT
1 AAAGTCTAAAAAAATTAAAAATACAT
*
21269684 AAAGTCTATAAAAAA-T-AAAATATAT
1 AAAGTCTA-AAAAAATTAAAAATACAT
21269709 AAA
1 AAA
21269712 AATTATAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 11 0.44
26 8 0.32
27 6 0.24
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.26
Consensus pattern (26 bp):
AAAGTCTAAAAAAATTAAAAATACAT
Found at i:21270518 original size:18 final size:19
Alignment explanation
Indices: 21270495--21270531 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
21270485 TAAAAAAATA
21270495 TTAAAT-TAATTATATATG
1 TTAAATATAATTATATATG
21270513 TTAAATAATAATTATATAT
1 TTAAAT-ATAATTATATAT
21270532 TTATATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
TTAAATATAATTATATATG
Found at i:21270725 original size:39 final size:38
Alignment explanation
Indices: 21270647--21270734 Score: 115
Period size: 39 Copynumber: 2.3 Consensus size: 38
21270637 AAAAATAATA
* *
21270647 TTTAATACAATAAAATATTTATTATATTTATTTGTATTT
1 TTTAATATAATAAAACATTTATTATATTTA-TTGTATTT
*
21270686 TTTAGTATAATAAAACATTTATTATATTTA-TGATAATTT
1 TTTAATATAATAAAACATTTATTATATTTATTG-T-ATTT
21270725 TTTAATATAA
1 TTTAATATAA
21270735 ATATATTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
37 2 0.05
38 1 0.02
39 40 0.93
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.53
Consensus pattern (38 bp):
TTTAATATAATAAAACATTTATTATATTTATTGTATTT
Found at i:21273035 original size:14 final size:15
Alignment explanation
Indices: 21273008--21273036 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21272998 CCAACCTTTA
21273008 TTCAATAATATCTAT
1 TTCAATAATATCTAT
21273023 TTCAATAAT-TCTAT
1 TTCAATAATATCTAT
21273037 ATCCCCAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (15 bp):
TTCAATAATATCTAT
Found at i:21277463 original size:20 final size:18
Alignment explanation
Indices: 21277419--21277470 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
21277409 GAAAAAAAAG
*
21277419 AAAAGAAAAAAAGAGAGA
1 AAAACAAAAAAAGAGAGA
* *
21277437 AACACAAAAAAAGAGGGGAA
1 AAAACAAAAAAAGA-GAG-A
21277457 AAAACAACAAAAAG
1 AAAACAA-AAAAAG
21277471 GATCGTGGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 12 0.44
19 2 0.07
20 7 0.26
21 6 0.22
ACGTcount: A:0.73, C:0.08, G:0.19, T:0.00
Consensus pattern (18 bp):
AAAACAAAAAAAGAGAGA
Found at i:21278929 original size:46 final size:46
Alignment explanation
Indices: 21278853--21279120 Score: 340
Period size: 46 Copynumber: 5.8 Consensus size: 46
21278843 TGATGTCATA
* * * * *
21278853 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATATCAGGTTGCCATG
* *** *
21278899 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGTTGCCATG
* *
21278946 GTATCTTTCAACCATGGTCTTACTCATTTCATATTAGGTTTCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
*
21278992 GTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* * **
21279038 GTATTTTTCAACCATGGTCTTACACATTTCATATCAGGTTTTCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
21279084 GTATCTTTCAACCATGGTCTTACACATTCCATATCAG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
21279121 AGAGCACACT
Statistics
Matches: 198, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
46 159 0.80
47 39 0.20
ACGTcount: A:0.21, C:0.22, G:0.14, T:0.43
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
Found at i:21281684 original size:39 final size:39
Alignment explanation
Indices: 21281640--21281717 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
21281630 GGTCCTCAAG
*
21281640 AAGTTGGTACAGAGAAGCTCAAGCTGCGATGTCTGGGGC
1 AAGTTGGAACAGAGAAGCTCAAGCTGCGATGTCTGGGGC
*
21281679 AAGTTGGAATAGAGAAGCTCAAGCTGCGATGTCTGGGGC
1 AAGTTGGAACAGAGAAGCTCAAGCTGCGATGTCTGGGGC
21281718 GCCTAGTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.27, C:0.17, G:0.36, T:0.21
Consensus pattern (39 bp):
AAGTTGGAACAGAGAAGCTCAAGCTGCGATGTCTGGGGC
Found at i:21282768 original size:64 final size:64
Alignment explanation
Indices: 21282581--21282772 Score: 312
Period size: 64 Copynumber: 3.0 Consensus size: 64
21282571 ACATTCATAA
* * * *
21282581 CACATCTAGTTAGGAGTATTTGATTCATTTCGATCATAGCATCCTAATTATTTAACAGAAGCAT
1 CACATCTAGTTAGGAGCATTTAATTCATTTCGATCATAACATCCTAATTATTTAACATAAGCAT
21282645 CACATCTAGTTAGGAGCATTTAATTCATTTCGATCATAACATCCTAATTATTTAACATAAGCAT
1 CACATCTAGTTAGGAGCATTTAATTCATTTCGATCATAACATCCTAATTATTTAACATAAGCAT
* * **
21282709 CACATCTAGTTAGGAGCATCTAATTCATTTTGATCATAACATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTAATTCATTTCGATCATAACATCCTAATTATTTAACATAAGCAT
21282773 AGATACATGA
Statistics
Matches: 120, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 120 1.00
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTAATTCATTTCGATCATAACATCCTAATTATTTAACATAAGCAT
Found at i:21283110 original size:87 final size:88
Alignment explanation
Indices: 21282866--21283272 Score: 392
Period size: 88 Copynumber: 4.6 Consensus size: 88
21282856 AAGTTGCAGC
21282866 GGAGCAAATCGAAGACAGTAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGTAG
1 GGAGCAAATCGAAGACAGTAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGTAG
* *
21282931 ACCTTGTCTCCTTAAACAGTAGT
66 ATCTTGTCTCCCTAAACAGTAGT
* * ** *
21282954 AGAGCAAATCGAATATGGTAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTATAG
1 GGAGCAAATCGAAGACAGTAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGTAG
21283019 ATCTTGTCTCCCTAAACAGTAGT
66 ATCTTGTCTCCCTAAACAGTAGT
* * * * * * *
21283042 GGAGCAAATTGAAGA-AGCAAGCCATAACCCCCTAAGTAGTAGGGTAACGGGCTAAAGATTGCAA
1 GGAGCAAATCGAAGACAGTAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGTAG
**
21283106 ATCTTGTCTCCC-AGAAGTTGTAGT
66 ATCTTGTCTCCCTA-AA-CAGTAGT
* * * * * ** * * * * **
21283130 GGAACAGATCAAAGACGGTGAGCCTCGACCCTCTAAGCAGTAGGGTAACATGTTG-A-ATTACAG
1 GGAGCAAATCGAAGACAGTAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGTAG
* *
21283193 ATCTTATCTCCCTAAGCAGTAGT
66 ATCTTGTCTCCCTAAACAGTAGT
* ** ** * ** *
21283216 TGAGCGGATAAAAGACAGCGAA-CCTTAACCCCCTAAACAATAGGGTAACAGGCTGAA
1 GGAGCAAATCGAAGACAG-TAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAA
21283273 AATTACAAGT
Statistics
Matches: 257, Mismatches: 56, Indels: 13
0.79 0.17 0.04
Matches are distributed among these distances:
86 45 0.18
87 74 0.29
88 111 0.43
89 27 0.11
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (88 bp):
GGAGCAAATCGAAGACAGTAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGTAG
ATCTTGTCTCCCTAAACAGTAGT
Found at i:21283247 original size:175 final size:175
Alignment explanation
Indices: 21282866--21283269 Score: 411
Period size: 175 Copynumber: 2.3 Consensus size: 175
21282856 AAGTTGCAGC
** * * * *
21282866 GGAGCAAATCGAAGACAGTAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGTAG
1 GGAGCAAATAAAAGA-AGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAGATTGCAA
* * * * * * *
21282931 ACCTTGTCTCCTTAAACAGTAGTAGAGCAAATCGAATATGGTAAGCCTTAACCCCCTAAGTAGTA
65 ACCTTGTCTCCTCAAACAGTAGTAGAACAAATCAAAGACGGTAAGCCTCAACCCCCTAAGCAGTA
* *
21282996 GGGTAACAGGCTGAAGATTATAGATCTTGTCTCCCTAAACAGTAGT
130 GGGTAACAGGCTGAAGATTACAGATCTTATCTCCCTAAACAGTAGT
** * *
21283042 GGAGCAAATTGAAGAAGCAAGCCATAACCCCCTAAGTAGTAGGGTAACGGGCTAAAGATTGCAAA
1 GGAGCAAATAAAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAGATTGCAAA
* ** * * * * *
21283107 TCTTGTCTCC-CAGAAGTTGTAGTGGAACAGATCAAAGACGGTGAGCCTCGACCCTCTAAGCAGT
66 CCTTGTCTCCTCA-AA-CAGTAGTAGAACAAATCAAAGACGGTAAGCCTCAACCCCCTAAGCAGT
* * *
21283171 AGGGTAACATGTTG-A-ATTACAGATCTTATCTCCCTAAGCAGTAGT
129 AGGGTAACAGGCTGAAGATTACAGATCTTATCTCCCTAAACAGTAGT
* ** ** *
21283216 TGAGCGGATAAAAGACAGCGAA-CCTTAACCCCCTAAACAATAGGGTAACAGGCT
1 GGAGCAAATAAAAGA-AGC-AAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCT
21283270 GAAAATTACA
Statistics
Matches: 187, Mismatches: 37, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
174 38 0.20
175 86 0.46
176 63 0.34
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (175 bp):
GGAGCAAATAAAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAGATTGCAAA
CCTTGTCTCCTCAAACAGTAGTAGAACAAATCAAAGACGGTAAGCCTCAACCCCCTAAGCAGTAG
GGTAACAGGCTGAAGATTACAGATCTTATCTCCCTAAACAGTAGT
Found at i:21283491 original size:44 final size:44
Alignment explanation
Indices: 21283351--21283641 Score: 159
Period size: 44 Copynumber: 6.6 Consensus size: 44
21283341 TTCAACGGAA
* * *
21283351 TAGATC-AAGGCTACAAATCTCTTCTCCCTGGAATGGCGTTGGAG
1 TAGATCGAA-GCTACAAATCTCTTCTCCTTGAAATGGCATTGGAG
** * * *
21283395 CGGCTCGAAGCCAC-AAT-TCGTATCTCCTTGAAGTTTCGGCA---GAG
1 TAGATCGAAGCTACAAATCTC-T-TCTCCTTGAA--AT-GGCATTGGAG
21283439 TAGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGCATTGGAG
1 TAGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGCATTGGAG
** * * * * * ** **
21283483 CGGCTCGAAG-TCGCAATTCT-TATCTCGTTGAAGTTCCAGCGGAG
1 TAGATCGAAGCT-ACAAATCTCT-TCTCCTTGAAATGGCATTGGAG
* * *
21283527 TAGATCGAAGCTACAAATTTTTTCTCCCTGAAATGGCATTGGAG
1 TAGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGCATTGGAG
* * * * * ** **
21283571 TGGCTCGAAGCCACAATTCT-TATCTCCTTGAAGTTCCAACGGAG
1 TAGATCGAAGCTACAAATCTCT-TCTCCTTGAAATGGCATTGGAG
21283615 TAGATCGAAGCTACAAATCTCTTCTCC
1 TAGATCGAAGCTACAAATCTCTTCTCC
21283642 CTAAAATTAC
Statistics
Matches: 178, Mismatches: 52, Indels: 34
0.67 0.20 0.13
Matches are distributed among these distances:
41 4 0.02
42 3 0.02
43 7 0.04
44 149 0.84
45 9 0.05
46 3 0.02
47 3 0.02
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (44 bp):
TAGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGCATTGGAG
Found at i:21283669 original size:88 final size:88
Alignment explanation
Indices: 21283328--21283648 Score: 464
Period size: 88 Copynumber: 3.6 Consensus size: 88
21283318 TCAACAGCAG
* * * *
21283328 ATCTCCTTGAAGTTTCAACGGAATAGATC-AAGGCTACAAATCTCTTCTCCCTGGAATGGCGTTG
1 ATCTCCTTGAAGTTCCAACGGAGTAGATCGAA-GCTACAAATCTCTTCTCCCTGAAATGGCATTG
*
21283392 GAGCGGCTCGAAGCCACAATTCGT
65 GAGCGGCTCGAAGCCACAATTCTT
* ** * *
21283416 ATCTCCTTGAAGTTTCGGCAGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGCATTGG
1 ATCTCCTTGAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCATTGG
* *
21283481 AGCGGCTCGAAGTCGCAATTCTT
66 AGCGGCTCGAAGCCACAATTCTT
* * * *
21283504 ATCTCGTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATTTTTTCTCCCTGAAATGGCATTGG
1 ATCTCCTTGAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCATTGG
*
21283569 AGTGGCTCGAAGCCACAATTCTT
66 AGCGGCTCGAAGCCACAATTCTT
*
21283592 ATCTCCTTGAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTAAAAT
1 ATCTCCTTGAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAAT
21283649 TACAATGGAA
Statistics
Matches: 207, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
88 205 0.99
89 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (88 bp):
ATCTCCTTGAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCATTGG
AGCGGCTCGAAGCCACAATTCTT
Found at i:21287419 original size:18 final size:18
Alignment explanation
Indices: 21287382--21287418 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
21287372 ATTTTACAAC
*
21287382 AATTTTTTTATATTTTAA
1 AATTGTTTTATATTTTAA
21287400 AATTGTTTTAT-TTTTAA
1 AATTGTTTTATATTTTAA
21287417 AA
1 AA
21287419 AAAGATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
AATTGTTTTATATTTTAA
Found at i:21287625 original size:112 final size:112
Alignment explanation
Indices: 21287428--21287652 Score: 450
Period size: 112 Copynumber: 2.0 Consensus size: 112
21287418 AAAAGATTTT
21287428 TTTTTGAAATTCTTTTATGTATTTTATTAACAAACTATATTTTTAATATTTTATAAATTTGTTAA
1 TTTTTGAAATTCTTTTATGTATTTTATTAACAAACTATATTTTTAATATTTTATAAATTTGTTAA
21287493 TTAAAAAAACTAAAACCTAGTTGACAAAATTCATAAACATCGAGGAC
66 TTAAAAAAACTAAAACCTAGTTGACAAAATTCATAAACATCGAGGAC
21287540 TTTTTGAAATTCTTTTATGTATTTTATTAACAAACTATATTTTTAATATTTTATAAATTTGTTAA
1 TTTTTGAAATTCTTTTATGTATTTTATTAACAAACTATATTTTTAATATTTTATAAATTTGTTAA
21287605 TTAAAAAAACTAAAACCTAGTTGACAAAATTCATAAACATCGAGGAC
66 TTAAAAAAACTAAAACCTAGTTGACAAAATTCATAAACATCGAGGAC
21287652 T
1 T
21287653 AAGTTTTCCT
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
112 113 1.00
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (112 bp):
TTTTTGAAATTCTTTTATGTATTTTATTAACAAACTATATTTTTAATATTTTATAAATTTGTTAA
TTAAAAAAACTAAAACCTAGTTGACAAAATTCATAAACATCGAGGAC
Found at i:21292245 original size:21 final size:23
Alignment explanation
Indices: 21292200--21292245 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
21292190 AAGAAAGAAA
* *
21292200 ATTCTCTTTAGTGGTATCGCGAT
1 ATTCTCTTTAGTGGTATCACAAT
21292223 ATTCTCTTT-G-GGTATCACAAT
1 ATTCTCTTTAGTGGTATCACAAT
21292244 AT
1 AT
21292246 CCACCTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 11 0.52
22 1 0.05
23 9 0.43
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.43
Consensus pattern (23 bp):
ATTCTCTTTAGTGGTATCACAAT
Found at i:21292584 original size:9 final size:9
Alignment explanation
Indices: 21292570--21292637 Score: 91
Period size: 9 Copynumber: 7.6 Consensus size: 9
21292560 ATAAGTATAA
21292570 AATTAACCG
1 AATTAACCG
21292579 AATTAACCG
1 AATTAACCG
*
21292588 AATTACCCG
1 AATTAACCG
* *
21292597 AATTACCCA
1 AATTAACCG
*
21292606 AATTAACCT
1 AATTAACCG
*
21292615 AATTAACCA
1 AATTAACCG
21292624 AATTAACCG
1 AATTAACCG
21292633 AATTA
1 AATTA
21292638 TTTGTATAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.46, C:0.24, G:0.06, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:21292597 original size:18 final size:18
Alignment explanation
Indices: 21292569--21292637 Score: 102
Period size: 18 Copynumber: 3.8 Consensus size: 18
21292559 AATAAGTATA
21292569 AAATTAACCGAATTAACC
1 AAATTAACCGAATTAACC
* * *
21292587 GAATTACCCGAATTACCC
1 AAATTAACCGAATTAACC
*
21292605 AAATTAACCTAATTAACC
1 AAATTAACCGAATTAACC
21292623 AAATTAACCGAATTA
1 AAATTAACCGAATTA
21292638 TTTGTATAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.46, C:0.23, G:0.06, T:0.25
Consensus pattern (18 bp):
AAATTAACCGAATTAACC
Found at i:21292670 original size:5 final size:6
Alignment explanation
Indices: 21292655--21292697 Score: 59
Period size: 6 Copynumber: 6.8 Consensus size: 6
21292645 AAAATTATAT
*
21292655 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTTTT
21292698 CTTTATTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 24 0.73
7 8 0.24
8 1 0.03
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:21292697 original size:20 final size:20
Alignment explanation
Indices: 21292660--21292696 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
21292650 TATATTTTTT
21292660 ATTTTTATTTTTAGTTTTAG
1 ATTTTTATTTTTAGTTTTAG
21292680 ATTTTTATTTTTA-TTTT
1 ATTTTTATTTTTAGTTTT
21292697 TCTTTATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (20 bp):
ATTTTTATTTTTAGTTTTAG
Found at i:21294891 original size:23 final size:24
Alignment explanation
Indices: 21294855--21294906 Score: 88
Period size: 23 Copynumber: 2.2 Consensus size: 24
21294845 TGTTATTGAA
*
21294855 AGATGTTTTGGGTTATTAAAACTT
1 AGATGTTTTAGGTTATTAAAACTT
21294879 AGAT-TTTTAGGTTATTAAAACTT
1 AGATGTTTTAGGTTATTAAAACTT
21294902 AGATG
1 AGATG
21294907 GGGAATACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.33, C:0.04, G:0.19, T:0.44
Consensus pattern (24 bp):
AGATGTTTTAGGTTATTAAAACTT
Found at i:21295000 original size:16 final size:16
Alignment explanation
Indices: 21294979--21295010 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
21294969 GCTTGCTCCA
21294979 TATTTTATTTGAACCT
1 TATTTTATTTGAACCT
21294995 TATTTTATTTGAACCT
1 TATTTTATTTGAACCT
21295011 ATATGAGTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.06, T:0.56
Consensus pattern (16 bp):
TATTTTATTTGAACCT
Found at i:21297043 original size:21 final size:21
Alignment explanation
Indices: 21297019--21297066 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
21297009 ATGTTATTAC
21297019 AACATATATTTCATTCAATCA
1 AACATATATTTCATTCAATCA
21297040 AACATATATTTCATTCAATCA
1 AACATATATTTCATTCAATCA
21297061 AACATA
1 AACATA
21297067 AGAATACTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (21 bp):
AACATATATTTCATTCAATCA
Found at i:21320509 original size:42 final size:42
Alignment explanation
Indices: 21320463--21320550 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
21320453 TGAATAAACT
* * *
21320463 GAAGCAAATATACCAGCACAAAAGTGCATCATTAGCCAAGTC
1 GAAGCAAATATACCAGCACAAAAGTGCATCATCAGACAAGCC
* *
21320505 GAAGCAAATATACTAGCACATAAGTGCATCATCAGACAAGCC
1 GAAGCAAATATACCAGCACAAAAGTGCATCATCAGACAAGCC
21320547 GAAG
1 GAAG
21320551 TATAAACCCA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.43, C:0.23, G:0.18, T:0.16
Consensus pattern (42 bp):
GAAGCAAATATACCAGCACAAAAGTGCATCATCAGACAAGCC
Done.