Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 73 of 163
Found at i:19322442 original size:11 final size:11
Alignment explanation
Indices: 19322400--19322442 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
19322390 CCAGGTAGGA
19322400 AAAAGAAAAAG
1 AAAAGAAAAAG
* *
19322411 AAAAGGAGAAG
1 AAAAGAAAAAG
19322422 AAAATG-AAAAG
1 AAAA-GAAAAAG
19322433 AAAAGAAAAA
1 AAAAGAAAAA
19322443 AGGTACAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 1 0.04
11 25 0.93
12 1 0.04
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:19323349 original size:12 final size:12
Alignment explanation
Indices: 19323332--19323369 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
19323322 AAATGGGAGA
19323332 TGAAGAAGATAG
1 TGAAGAAGATAG
*
19323344 TGAAGATGA-AG
1 TGAAGAAGATAG
19323355 ATGAAGAAGATAG
1 -TGAAGAAGATAG
19323368 TG
1 TG
19323370 TGGCGGCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 2 0.09
12 18 0.82
13 2 0.09
ACGTcount: A:0.47, C:0.00, G:0.34, T:0.18
Consensus pattern (12 bp):
TGAAGAAGATAG
Found at i:19323428 original size:17 final size:17
Alignment explanation
Indices: 19323386--19323427 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
19323376 CTAGGTAGGA
19323386 AAAAGAAAATGAAAAGG
1 AAAAGAAAATGAAAAGG
*
19323403 AGAAGAAAATGAAAA-G
1 AAAAGAAAATGAAAAGG
19323419 AAAAGAAAA
1 AAAAGAAAA
19323428 AAGGTACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (17 bp):
AAAAGAAAATGAAAAGG
Found at i:19324307 original size:26 final size:24
Alignment explanation
Indices: 19324260--19324307 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
19324250 ATAAATAATA
* *
19324260 ATATATTTTTGAATATTTTAAAAC
1 ATATATTTTTGAAAATTATAAAAC
19324284 ATATATTTTTTGAAAATCTATAAA
1 ATATA-TTTTTGAAAAT-TATAAA
19324308 GTATTGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 10 0.50
26 5 0.25
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (24 bp):
ATATATTTTTGAAAATTATAAAAC
Found at i:19336682 original size:11 final size:11
Alignment explanation
Indices: 19336666--19336691 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
19336656 TAGCTGTCAA
19336666 ATATCTTGTAG
1 ATATCTTGTAG
19336677 ATATCTTGTAG
1 ATATCTTGTAG
19336688 ATAT
1 ATAT
19336692 ATATTTTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (11 bp):
ATATCTTGTAG
Found at i:19337739 original size:16 final size:16
Alignment explanation
Indices: 19337716--19337787 Score: 126
Period size: 16 Copynumber: 4.5 Consensus size: 16
19337706 CGTTTGGTTC
19337716 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
19337732 GGTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
19337748 ACTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
19337764 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
19337780 GCTGTAAT
1 GCTGTAAT
19337788 CAGTAATTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.38, C:0.06, G:0.31, T:0.26
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:19337828 original size:46 final size:44
Alignment explanation
Indices: 19337769--19337862 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
19337759 ATAGAGCTGT
* *
19337769 AATGGAATAGAGCTGTAATCAGTAATTCAAT-TGTTTGGTTGATTGG
1 AATGGAATAGAGCTGTAAT-AAT-ATTC-ATGTGTTTGGTTGAATGG
*
19337815 AATGGAATAGAGCTGTAATAATATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGCTGTAATAATATTCATGTGTTTGGTTGAATGG
19337859 AATG
1 AATG
19337863 ATGCTGTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 22 0.50
45 2 0.05
46 19 0.43
ACGTcount: A:0.31, C:0.05, G:0.27, T:0.37
Consensus pattern (44 bp):
AATGGAATAGAGCTGTAATAATATTCATGTGTTTGGTTGAATGG
Found at i:19338026 original size:58 final size:56
Alignment explanation
Indices: 19337957--19338102 Score: 179
Period size: 58 Copynumber: 2.5 Consensus size: 56
19337947 AATTTTAATG
*
19337957 ATTATTATTAAATATAATTTAATAAAAATAT-TAATTTATTTAATTATATTTTAACATA
1 ATTATTATTAAATATAATTTAATAAAAATATGTAATTTA-ATAA-TAT-TTTTAACATA
* *
19338015 ATTATTATTAAATACAATTTAATAAAATAATATGTAATTTAATAATATTTTTAATATA
1 ATTATTATTAAATATAATTTAAT-AAA-AATATGTAATTTAATAATATTTTTAACATA
*
19338073 ATTATTATTAAAATATGAA-TTAGTAAAAAT
1 ATTATTATT-AAATAT-AATTTAATAAAAAT
19338103 TATAATATAT
Statistics
Matches: 78, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
57 3 0.04
58 43 0.55
59 15 0.19
60 10 0.13
61 7 0.09
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (56 bp):
ATTATTATTAAATATAATTTAATAAAAATATGTAATTTAATAATATTTTTAACATA
Found at i:19341312 original size:31 final size:31
Alignment explanation
Indices: 19341257--19341335 Score: 117
Period size: 31 Copynumber: 2.6 Consensus size: 31
19341247 TAACATAGGT
* *
19341257 ACTTATTTAACTACAA-A-AATAATTTAAGA
1 ACTTATTTAAATAAAATATAATAATTTAAGA
19341286 ACTTATTTAAATAAAATATAATAATTTAAGA
1 ACTTATTTAAATAAAATATAATAATTTAAGA
*
19341317 ACTTATTTAAATAATATAT
1 ACTTATTTAAATAAAATAT
19341336 TAGCCATTGG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
29 14 0.31
30 1 0.02
31 30 0.67
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (31 bp):
ACTTATTTAAATAAAATATAATAATTTAAGA
Found at i:19341636 original size:10 final size:10
Alignment explanation
Indices: 19341609--19341643 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
19341599 ATCATCAAAA
19341609 TTCACATAAT
1 TTCACATAAT
19341619 TTCAACATAAT
1 TTC-ACATAAT
19341630 TTCACATAAT
1 TTCACATAAT
19341640 TTCA
1 TTCA
19341644 GATTAAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (10 bp):
TTCACATAAT
Found at i:19344667 original size:22 final size:22
Alignment explanation
Indices: 19344637--19344680 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
19344627 CTTTCATTCA
19344637 TGTTAAAATCTAGTGTGGTAGG
1 TGTTAAAATCTAGTGTGGTAGG
* * *
19344659 TGTTGAAATCTGGTGTGTTAGG
1 TGTTAAAATCTAGTGTGGTAGG
19344681 AAATAAAATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.05, G:0.34, T:0.39
Consensus pattern (22 bp):
TGTTAAAATCTAGTGTGGTAGG
Found at i:19351418 original size:31 final size:31
Alignment explanation
Indices: 19351353--19351418 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
19351343 AATAGTTTAT
*
19351353 ATTTTTATAATTTTTAAAAAAATTAAATTAA
1 ATTTTTATAATTTTTAAAAAAATTAAAGTAA
* * *
19351384 ATTTTTATTATTTTT-GAAATATTAAAGTACA
1 ATTTTTATAATTTTTAAAAAAATTAAAGTA-A
19351415 ATTT
1 ATTT
19351419 CATCATAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 11 0.37
31 19 0.63
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (31 bp):
ATTTTTATAATTTTTAAAAAAATTAAAGTAA
Found at i:19352134 original size:25 final size:23
Alignment explanation
Indices: 19352087--19352134 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
19352077 AAAATGTTAA
*
19352087 ATATATTTTTATTAAATTGATTT
1 ATATATTTTTATTAAATTAATTT
19352110 ATATATTTTTAGTTAAATTTAATTT
1 ATATATTTTTA-TTAAA-TTAATTT
19352135 TTATGAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 11 0.50
24 5 0.23
25 6 0.27
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (23 bp):
ATATATTTTTATTAAATTAATTT
Found at i:19352329 original size:15 final size:17
Alignment explanation
Indices: 19352299--19352331 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
19352289 CAAATAATTC
19352299 AAAAACTATAAGAATAA
1 AAAAACTATAAGAATAA
19352316 AAAAAC-ATAA-AATAA
1 AAAAACTATAAGAATAA
19352331 A
1 A
19352332 TCATAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 4 0.25
17 6 0.38
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (17 bp):
AAAAACTATAAGAATAA
Found at i:19352530 original size:31 final size:32
Alignment explanation
Indices: 19352470--19352536 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 32
19352460 AATTATTTTT
* * *
19352470 ATTATTTTTAAAAAGATTGATGATCAAATTTG
1 ATTACTTTTAAAAAGATTGAAGATCAAATTTA
* *
19352502 ATTACTTTT-AAAAGGTTGAAGATTAAATTTA
1 ATTACTTTTAAAAAGATTGAAGATCAAATTTA
19352533 ATTA
1 ATTA
19352537 AAAAATAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 22 0.73
32 8 0.27
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.43
Consensus pattern (32 bp):
ATTACTTTTAAAAAGATTGAAGATCAAATTTA
Found at i:19353293 original size:23 final size:21
Alignment explanation
Indices: 19353244--19353296 Score: 97
Period size: 22 Copynumber: 2.5 Consensus size: 21
19353234 TAATTAATTA
19353244 AATTTTTTTTTAAACAGGTCT
1 AATTTTTTTTTAAACAGGTCT
19353265 AATTTTTATTTTAAACAGGTCT
1 AATTTTT-TTTTAAACAGGTCT
19353287 AATTTTTTTT
1 AATTTTTTTT
19353297 CTCAAGCTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 10 0.32
22 21 0.68
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.57
Consensus pattern (21 bp):
AATTTTTTTTTAAACAGGTCT
Found at i:19359597 original size:21 final size:21
Alignment explanation
Indices: 19359573--19359613 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
19359563 TTAAACCTCT
19359573 TTCTCACTTCTATTCAAAATA
1 TTCTCACTTCTATTCAAAATA
*
19359594 TTCTCACTTTTATTCAAAAT
1 TTCTCACTTCTATTCAAAAT
19359614 GGACCAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.22, G:0.00, T:0.46
Consensus pattern (21 bp):
TTCTCACTTCTATTCAAAATA
Found at i:19367872 original size:15 final size:15
Alignment explanation
Indices: 19367854--19367916 Score: 54
Period size: 15 Copynumber: 4.2 Consensus size: 15
19367844 TCACAACGGG
19367854 AGTGTTCGCAACATC
1 AGTGTTCGCAACATC
* * *
19367869 AGTGTTCGCATCGTG
1 AGTGTTCGCAACATC
* *
19367884 TGTGTTCGCAACATG
1 AGTGTTCGCAACATC
* * *
19367899 AGTGCTCACAACACC
1 AGTGTTCGCAACATC
19367914 AGT
1 AGT
19367917 CCTCGCATCT
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (15 bp):
AGTGTTCGCAACATC
Found at i:19372235 original size:21 final size:21
Alignment explanation
Indices: 19372209--19372250 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
19372199 TCTGACCAAG
19372209 GCTCAATTTTAACAAAAAATT
1 GCTCAATTTTAACAAAAAATT
19372230 GCTCAATTTTAACAAAAAATT
1 GCTCAATTTTAACAAAAAATT
19372251 ACCTCAAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (21 bp):
GCTCAATTTTAACAAAAAATT
Found at i:19372256 original size:22 final size:21
Alignment explanation
Indices: 19372210--19372257 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 21
19372200 CTGACCAAGG
*
19372210 CTCAATTTTAACAAAAAATTG
1 CTCAATTTTAACAAAAAATTC
19372231 CTCAATTTTAACAAAAAATTAC
1 CTCAATTTTAACAAAAAATT-C
19372253 CTCAA
1 CTCAA
19372258 GTGCACCCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.48, C:0.19, G:0.02, T:0.31
Consensus pattern (21 bp):
CTCAATTTTAACAAAAAATTC
Found at i:19381687 original size:14 final size:14
Alignment explanation
Indices: 19381665--19381713 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
19381655 AAAAATAAAT
19381665 AAAAA-AGAAAGAA
1 AAAAAGAGAAAGAA
19381678 AAAAAGAG-AAG--
1 AAAAAGAGAAAGAA
* *
19381689 AAAAAGAAAAATAA
1 AAAAAGAGAAAGAA
19381703 AAAAAGAGAAA
1 AAAAAGAGAAA
19381714 AGAGGAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
11 7 0.24
12 2 0.07
13 8 0.28
14 12 0.41
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (14 bp):
AAAAAGAGAAAGAA
Found at i:19381692 original size:23 final size:22
Alignment explanation
Indices: 19381666--19381726 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
19381656 AAAATAAATA
19381666 AAAAAGAAAGAAAAAAAGAGAAG
1 AAAAAGAAAGAAAAAAAGA-AAG
*
19381689 AAAAAGAAA-AATAAAA-AAAG
1 AAAAAGAAAGAAAAAAAGAAAG
*
19381709 AGAAAAG-AGGAAAAAAAG
1 A-AAAAGAAAGAAAAAAAG
19381727 GAAAAAGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 5 0.16
21 12 0.38
22 6 0.19
23 9 0.28
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.02
Consensus pattern (22 bp):
AAAAAGAAAGAAAAAAAGAAAG
Found at i:19381716 original size:40 final size:38
Alignment explanation
Indices: 19381652--19381737 Score: 104
Period size: 39 Copynumber: 2.2 Consensus size: 38
19381642 CGATTCGATG
19381652 AAGAAAAATAAATAAAAAAGAAAGA-AAAAAAGAGAAGAAA
1 AAGAAAAATAAATAAAAAAGAAAGAGAAAAAA-AG--GAAA
*
19381692 AAGAAAAATAAA-AAAAGAGAAAAGAGGAAAAAAAGGAAA
1 AAGAAAAATAAATAAAAAAG-AAAGA-GAAAAAAAGGAAA
19381731 AAGAAAA
1 AAGAAAA
19381738 GGAGAGGTCG
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
39 17 0.40
40 17 0.40
41 2 0.05
42 6 0.14
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.03
Consensus pattern (38 bp):
AAGAAAAATAAATAAAAAAGAAAGAGAAAAAAAGGAAA
Found at i:19382845 original size:49 final size:49
Alignment explanation
Indices: 19382572--19383093 Score: 319
Period size: 49 Copynumber: 10.7 Consensus size: 49
19382562 TTGAGAAAAT
* ** *
19382572 ATGAAGATATGAAGGGAAAGGTTGAGGTTGCAACGGCGAACCTGATACC
1 ATGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCTGGTACC
* * * * *
19382621 TTAGAA-ATGTGACGGGAAAGGTTGAGGCCGCAAAGGTGAATCTGGTACC
1 AT-GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCTGGTACC
* * * * * *
19382670 ATGAATATTTAAAAGGAAAGGTTGAGCCCACAACGGCGAACCTGGTACC
1 ATGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCTGGTACC
* * * * *
19382719 -TCAAAAGATGTGATGGGAAAGATTGAGGCCACAACGGCAAATCC-GGTACC
1 AT--GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAA-CCTGGTACC
* * * * * *
19382769 ATG-ATATGTGATGGGAAAGGTTGAGGCCGCAATGGCAAACCCGATACC
1 ATGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCTGGTACC
* * ** ** * *
19382817 ATGAAGATTTGAAGGGAAAGGTTAAGGCCATAACGATGAACCTAGCACC
1 ATGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCTGGTACC
* * * * * * **
19382866 TTAGAAGATGTGATGGGAAAGATTGAGGCCGTAATGACGAATTTGGTACC
1 AT-GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCTGGTACC
* * * * * *
19382916 ATGAA-ATGTGATGGGAAAGGTTGAGGCTGTAACGACAAACCTGATACC
1 ATGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCTGGTACC
* * * *
19382964 TTAAAAGATGTGATGGG-AAGGATTGAGGCCGC-A--GCGAACCCGGTACC
1 AT-GAAGATGTGAAGGGAAAGG-TTGAGGCCGCAACGGCGAACCTGGTACC
* * * * ***
19383011 TTAAAAGATGTG-ATGGAAAGGATTGAGGCCGCAATGGCGAACCCAATACC
1 AT-GAAGATGTGAAGGGAAAGG-TTGAGGCCGCAACGGCGAACCTGGTACC
* * *
19383061 ATAAAGA-GTTGAAGGAAAAGGTTGAGGTCGCAA
1 ATGAAGATG-TGAAGGGAAAGGTTGAGGCCGCAA
19383094 AGATGAACCT
Statistics
Matches: 371, Mismatches: 84, Indels: 36
0.76 0.17 0.07
Matches are distributed among these distances:
46 2 0.01
47 39 0.11
48 83 0.22
49 131 0.35
50 113 0.30
51 3 0.01
ACGTcount: A:0.35, C:0.16, G:0.30, T:0.19
Consensus pattern (49 bp):
ATGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCTGGTACC
Found at i:19382858 original size:147 final size:147
Alignment explanation
Indices: 19382624--19382942 Score: 395
Period size: 147 Copynumber: 2.2 Consensus size: 147
19382614 TGATACCTTA
* ** * * * *
19382624 GAAATGTGACGGGAAAGGTTGAGGCCGCAAAGGTGAATCTGGTACCATGAATATTTAAAAGGAAA
1 GAAATGTGATGGGAAAGGTTGAGGCCGCAAAGGCAAACCCGATACCATGAAGATTTAAAAGGAAA
* * * *
19382689 GGTTGAGCCCACAACGGCGAACCTGGTACCTCAAAAGATGTGATGGGAAAGATTGAGGCCACAAC
66 GGTTAAGCCCACAACGACGAACCTAGCACCTCAAAAGATGTGATGGGAAAGATTGAGGCCACAAC
*
19382754 GGCAAATCCGGTACCAT
131 GACAAATCCGGTACCAT
* * * *
19382771 GATATGTGATGGGAAAGGTTGAGGCCGCAATGGCAAACCCGATACCATGAAGATTTGAAGGGAAA
1 GAAATGTGATGGGAAAGGTTGAGGCCGCAAAGGCAAACCCGATACCATGAAGATTTAAAAGGAAA
* * * * * ** *
19382836 GGTTAAGGCCATAACGATGAACCTAGCACCTTAGAAGATGTGATGGGAAAGATTGAGGCCGTAAT
66 GGTTAAGCCCACAACGACGAACCTAGCACCTCAAAAGATGTGATGGGAAAGATTGAGGCCACAAC
* **
19382901 GACGAATTTGGTACCAT
131 GACAAATCCGGTACCAT
19382918 GAAATGTGATGGGAAAGGTTGAGGC
1 GAAATGTGATGGGAAAGGTTGAGGC
19382943 TGTAACGACA
Statistics
Matches: 144, Mismatches: 28, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
147 144 1.00
ACGTcount: A:0.34, C:0.16, G:0.31, T:0.19
Consensus pattern (147 bp):
GAAATGTGATGGGAAAGGTTGAGGCCGCAAAGGCAAACCCGATACCATGAAGATTTAAAAGGAAA
GGTTAAGCCCACAACGACGAACCTAGCACCTCAAAAGATGTGATGGGAAAGATTGAGGCCACAAC
GACAAATCCGGTACCAT
Found at i:19383515 original size:45 final size:47
Alignment explanation
Indices: 19383342--19383521 Score: 239
Period size: 47 Copynumber: 4.0 Consensus size: 47
19383332 TAAAACTGCA
*
19383342 ATCATTCCAATCTTTTACCCCT-AGTCAAGAGGGGTAGATTGAA--C
1 ATCATTCCAATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGAAGCC
* *
19383386 A-CATTTCAATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGAAACC
1 ATCATTCCAATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGAAGCC
* * *
19383432 AT-ATTCCAATATTTTACCCCTAAGTTGAAGAGGAGCAGATTGAAGCC
1 ATCATTCCAATCTTTTACCCCTAAG-TCAAGAGGGGCAGATTGAAGCC
*
19383479 ATCA-TCCAATTTTTTACCCCTAA-TCAAGAGGGGCAGATTGAAG
1 ATCATTCCAATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGAAG
19383522 ATTCCAATCT
Statistics
Matches: 120, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
43 19 0.16
44 21 0.17
45 18 0.15
46 22 0.18
47 39 0.32
48 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (47 bp):
ATCATTCCAATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGAAGCC
Found at i:19383633 original size:39 final size:39
Alignment explanation
Indices: 19383553--19383648 Score: 97
Period size: 39 Copynumber: 2.5 Consensus size: 39
19383543 CATGAAAAAA
* * * * *
19383553 ATTACAGCCACCCGATTTTTTACCCTGATCATGAGGCAG
1 ATTACAGCCATCCAATCTTTTACCCTGATAATAAGGCAG
*
19383592 ATTACAGCCATCCAATCTTTTACCCCT-ATAATAAGGTAG
1 ATTACAGCCATCCAATCTTTTA-CCCTGATAATAAGGCAG
*
19383631 ATTGCCA-CCATCCAATCT
1 ATT-ACAGCCATCCAATCT
19383649 AATCATGGGG
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
39 42 0.88
40 6 0.12
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.29
Consensus pattern (39 bp):
ATTACAGCCATCCAATCTTTTACCCTGATAATAAGGCAG
Found at i:19384051 original size:86 final size:85
Alignment explanation
Indices: 19383902--19384061 Score: 196
Period size: 86 Copynumber: 1.9 Consensus size: 85
19383892 CATCTTTCTG
* * * ** *
19383902 ATGAGATACTGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCTGTTGAGATACAGAGAAGT
1 ATGAGATACAGAGAAGTGGATCAAAACAATAAAGCGGTCATCTTCCTCATGAGATACAAAGAAGT
*
19383967 GGACCAAATTCGTCTTCCTA
66 AGACCAAATTCGTCTTCCTA
* * *
19383987 ATGAGATACAGAGAAGTGGATTAAAACAA-ATGAGACGGTCATCTTCCTCATGAGATATAAAGAA
1 ATGAGATACAGAGAAGTGGATCAAAACAATA-AAG-CGGTCATCTTCCTCATGAGATACAAAGAA
*
19384051 GTAGACTAAAT
64 GTAGACCAAAT
19384062 CAATAAAGCG
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
84 1 0.02
85 27 0.44
86 34 0.55
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (85 bp):
ATGAGATACAGAGAAGTGGATCAAAACAATAAAGCGGTCATCTTCCTCATGAGATACAAAGAAGT
AGACCAAATTCGTCTTCCTA
Found at i:19384246 original size:85 final size:85
Alignment explanation
Indices: 19384103--19384260 Score: 210
Period size: 85 Copynumber: 1.9 Consensus size: 85
19384093 TCAAACCCCA
* *
19384103 TCTTCTTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCAGTCATCTTCCTGATGAGATAT
1 TCTTCTTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGCAGTCATCTTCCTGATGAGATAC
19384168 AGAGAAGTGAACCAAGTTCG
66 AGAGAAGTGAACCAAGTTCG
* * * * ** **
19384188 TCTTCTTGATGAGATACAAAGAAGTGGATTGAAA-CAATGAGGTGGTCATCTTTTTGATGAGATA
1 TCTTCTTGATGAGATACAAAGAAGTGG-GTCAAAGCAATAAAGCAGTCATCTTCCTGATGAGATA
19384252 CAGAGAAGT
65 CAGAGAAGT
19384261 AGACCAGATT
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
85 58 0.94
86 4 0.06
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (85 bp):
TCTTCTTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGCAGTCATCTTCCTGATGAGATAC
AGAGAAGTGAACCAAGTTCG
Found at i:19384347 original size:208 final size:209
Alignment explanation
Indices: 19383731--19384475 Score: 987
Period size: 208 Copynumber: 3.6 Consensus size: 209
19383721 TTAAGTGGTT
* * * * * * * *
19383731 ATCTTCCTAACGAGATGCAGAGAAGTGAACTAAATCCGTTTTCCTGATAAGATACAGAGAAGTGA
1 ATCTTCCTGATGAGATACAGAGAAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAAGTGG
*
19383796 ATTAAAACAAAT-AAATCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCGATGAAG
66 ATTAAAACAAATGAAAT-GGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAG
* * * *
19383860 CAAAGCTCAAT--GTAAGTGAAACTTCAAACCCCCATCTTTCTGATGAGATACTGAGAAGTGGGT
130 CGAAGCTCAATACG-AA-TGAGACTTCAAA-CCCCATCTTCCTGATGAGATACAGAGAAGTGGGT
19383923 CAAAGCAATAAAGCGGTC
192 CAAAGCAATAAAGCGGTC
* * *
19383941 ATCTTCCTGTTGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTAATGAGATACAGAGAAGTGG
1 ATCTTCCTGATGAGATACAGAGAAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAAGTGG
* * * * * * *
19384006 ATTAAAACAAATGAGACGGTCATCTTCCTCATGAGATATAAAGAAGTAGACTAAATCAATAAAGC
66 ATTAAAACAAATGAAATGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGC
*
19384071 GAAGCTCAATACGAATGAGACTTCAAACCCCATCTTCTTGATGAGATACAGAGAAGTGGGTCAAA
131 GAAGCTCAATACGAATGAGACTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAA
*
19384136 GCAATAAAGCAGTC
196 GCAATAAAGCGGTC
* * * *
19384150 ATCTTCCTGATGAGATATAGAGAAGTGAACCAAGTTCGTCTTCTTGATGAGATACAAAGAAGTGG
1 ATCTTCCTGATGAGATACAGAGAAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAAGTGG
* ** ** * * *
19384215 ATTGAAAC-AATGAGGTGGTCATCTTTTTGATGAGATACAGAGAAGTAGACCAGATTAATGAGGC
66 ATTAAAACAAATGAAATGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGC
* * * *
19384279 GAAGCTCAATACGAATGAGACTTCAAACCCCATCTTCCTGATAAGATACAGAGAAATGAGTTAAA
131 GAAGCTCAATACGAATGAGACTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAA
*
19384344 GCAATAAAGTGGTC
196 GCAATAAAGCGGTC
* * *
19384358 ATCTTCCTGATGAGATGCAGAGAAGTGAACCAAATTCGTCTTCTTGATGAGATACAGAGAAGTAG
1 ATCTTCCTGATGAGATACAGAGAAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAAGTGG
* * *
19384423 ATCAAAAC-AATGAAGTGGTCATCTTCCTAATGAGATACAGAGAAGTAGACCAA
66 ATTAAAACAAATGAAATGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAA
19384476 GAAATGAAGT
Statistics
Matches: 468, Mismatches: 64, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
208 222 0.47
209 113 0.24
210 128 0.27
211 4 0.01
212 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (209 bp):
ATCTTCCTGATGAGATACAGAGAAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAAGTGG
ATTAAAACAAATGAAATGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGC
GAAGCTCAATACGAATGAGACTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAA
GCAATAAAGCGGTC
Found at i:19384475 original size:85 final size:85
Alignment explanation
Indices: 19384311--19384468 Score: 228
Period size: 85 Copynumber: 1.9 Consensus size: 85
19384301 TCAAACCCCA
* * * *
19384311 TCTTCCTGATAAGATACAGAGAAATGAGTTAAAGCAATAAAGTGGTCATCTTCCTGATGAGATGC
1 TCTTCCTGATAAGATACAGAGAAATGAGTCAAAACAATAAAGTGGTCATCTTCCTAATGAGATAC
19384376 AGAGAAGTGAACCAAATTCG
66 AGAGAAGTGAACCAAATTCG
* * * *
19384396 TCTTCTTGATGAGATACAGAGAAGT-AGATCAAAACAATGAAGTGGTCATCTTCCTAATGAGATA
1 TCTTCCTGATAAGATACAGAGAAATGAG-TCAAAACAATAAAGTGGTCATCTTCCTAATGAGATA
19384460 CAGAGAAGT
65 CAGAGAAGT
19384469 AGACCAAGAA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
84 2 0.03
85 62 0.97
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (85 bp):
TCTTCCTGATAAGATACAGAGAAATGAGTCAAAACAATAAAGTGGTCATCTTCCTAATGAGATAC
AGAGAAGTGAACCAAATTCG
Found at i:19386318 original size:30 final size:30
Alignment explanation
Indices: 19386284--19386571 Score: 314
Period size: 30 Copynumber: 9.6 Consensus size: 30
19386274 ATTTGGTTTA
* * * *
19386284 AAAATTACATTCTAATCCCTAAAATTTTCC
1 AAAATCACATTTTAACCCCTAAACTTTTCC
* *
19386314 AAAATTACATTTTAACCCCTAAACTTTTCT
1 AAAATCACATTTTAACCCCTAAACTTTTCC
* * *
19386344 GAAATCACATTTTGACCCCTAAACTTTTCT
1 AAAATCACATTTTAACCCCTAAACTTTTCC
*
19386374 AAAATCACATTTTAAGCCCTAAACTTTTCC
1 AAAATCACATTTTAACCCCTAAACTTTTCC
* *
19386404 AAAATCACATTTTGACCCCTAAACCTTTT-T
1 AAAATCACATTTTAACCCCTAAA-CTTTTCC
* *
19386434 AAAATCACATTTTAACCCTTAAACCTTTCC
1 AAAATCACATTTTAACCCCTAAACTTTTCC
* *
19386464 AAAATCACATTTTGACTCCC-AAACCTTTCC
1 AAAATCACATTTTAAC-CCCTAAACTTTTCC
19386494 AAAATCACATTTTAACCCC-AAAC-TTTCC
1 AAAATCACATTTTAACCCCTAAACTTTTCC
* * * *
19386522 TAAAATTATATTTTTGACCCCTAAATTTTTCC
1 -AAAATCACA-TTTTAACCCCTAAACTTTTCC
* *
19386554 AAAATTACATTTTGACCC
1 AAAATCACATTTTAACCC
19386572 GAAATTCTTT
Statistics
Matches: 225, Mismatches: 26, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
28 5 0.02
29 18 0.08
30 179 0.80
31 18 0.08
32 5 0.02
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.36
Consensus pattern (30 bp):
AAAATCACATTTTAACCCCTAAACTTTTCC
Found at i:19386394 original size:90 final size:89
Alignment explanation
Indices: 19386284--19386571 Score: 346
Period size: 90 Copynumber: 3.2 Consensus size: 89
19386274 ATTTGGTTTA
* * * * *
19386284 AAAATTACATTCTAATCCCTAAAATTTTCCAAAATTACATTTTAACCCCTAAACTTTTCTGAAAT
1 AAAATCACATTTTAA-CCCTAAACTTTTCCAAAATCACATTTTAACCCCTAAACTTTTCTAAAAT
*
19386349 CACATTTTGACCCCTAAACTTTTCT
65 CACATTTTGACCCCTAAACTTTTCC
*
19386374 AAAATCACATTTTAAGCCCTAAACTTTTCCAAAATCACATTTTGACCCCTAAACCTTTT-TAAAA
1 AAAATCACATTTTAA-CCCTAAACTTTTCCAAAATCACATTTTAACCCCTAAA-CTTTTCTAAAA
* * *
19386438 TCACATTTTAACCCTTAAACCTTTCC
64 TCACATTTTGACCCCTAAACTTTTCC
* * * *
19386464 AAAATCACATTTTGACTCCCAAACCTTTCCAAAATCACATTTTAACCCC-AAACTTTCCTAAAAT
1 AAAATCACATTTTAAC-CCTAAACTTTTCCAAAATCACATTTTAACCCCTAAACTTTTCTAAAAT
* * *
19386528 TATATTTTTGACCCCTAAATTTTTCC
65 CACA-TTTTGACCCCTAAACTTTTCC
* *
19386554 AAAATTACATTTTGACCC
1 AAAATCACATTTTAACCC
19386572 GAAATTCTTT
Statistics
Matches: 171, Mismatches: 23, Indels: 9
0.84 0.11 0.04
Matches are distributed among these distances:
88 4 0.02
89 14 0.08
90 148 0.87
91 5 0.03
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.36
Consensus pattern (89 bp):
AAAATCACATTTTAACCCTAAACTTTTCCAAAATCACATTTTAACCCCTAAACTTTTCTAAAATC
ACATTTTGACCCCTAAACTTTTCC
Found at i:19388991 original size:36 final size:36
Alignment explanation
Indices: 19388950--19389058 Score: 112
Period size: 39 Copynumber: 2.9 Consensus size: 36
19388940 CAAAAAGCTC
19388950 CATTCAGAA-AACAAATAGCAAATAAAGAACCCATCA
1 CATTCA-AAGAACAAATAGCAAATAAAGAACCCATCA
* * * *
19388986 CATTCAAAGAAAAAATAACAAACAATAAAGAACACAACA
1 CATTCAAAGAACAAATAGC--A-AATAAAGAACCCATCA
* * *
19389025 CATTCAAAGAACAAACAGCAAACAAAGACCCCAT
1 CATTCAAAGAACAAATAGCAAATAAAGAACCCAT
19389059 AACCTTAAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
35 2 0.03
36 24 0.41
37 1 0.02
38 1 0.02
39 30 0.52
ACGTcount: A:0.59, C:0.23, G:0.07, T:0.11
Consensus pattern (36 bp):
CATTCAAAGAACAAATAGCAAATAAAGAACCCATCA
Found at i:19389027 original size:39 final size:39
Alignment explanation
Indices: 19388970--19389049 Score: 115
Period size: 39 Copynumber: 2.1 Consensus size: 39
19388960 ACAAATAGCA
* * *
19388970 AATAAAGAACCCATCACATTCAAAGAAAAAATAACAAAC
1 AATAAAGAACACAACACATTCAAAGAAAAAACAACAAAC
* *
19389009 AATAAAGAACACAACACATTCAAAGAACAAACAGCAAAC
1 AATAAAGAACACAACACATTCAAAGAAAAAACAACAAAC
19389048 AA
1 AA
19389050 AGACCCCATA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.62, C:0.21, G:0.06, T:0.10
Consensus pattern (39 bp):
AATAAAGAACACAACACATTCAAAGAAAAAACAACAAAC
Found at i:19391078 original size:28 final size:29
Alignment explanation
Indices: 19391012--19391078 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 29
19391002 GGACTCTCGG
*
19391012 GGGGTAAAAATGGCAATTTTGGGAAATTTT
1 GGGGTAAAAATGGCAATTTT-GGAAATTTA
*
19391042 GGGCTAAAAAT-G-ATATTTT-GAACATTTA
1 GGGGTAAAAATGGCA-ATTTTGGAA-ATTTA
19391070 GGGGTAAAA
1 GGGGTAAAA
19391079 CGGTATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
27 3 0.09
28 13 0.41
29 6 0.19
30 10 0.31
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.31
Consensus pattern (29 bp):
GGGGTAAAAATGGCAATTTTGGAAATTTA
Found at i:19391137 original size:29 final size:28
Alignment explanation
Indices: 19391104--19391338 Score: 119
Period size: 30 Copynumber: 8.0 Consensus size: 28
19391094 GTCTCAAGGT
*
19391104 TAAAAAAGGAATTTTTAGAAGTTTGGGGG
1 TAAAAAA-TAATTTTTAGAAGTTTGGGGG
* * *
19391133 TAAAAACATAATTTTTGGAAGTTTTAGGGT
1 TAAAAA-ATAATTTTTAGAAG-TTTGGGGG
* *
19391163 TAAAAATGTAATTTTTGGAAGTTTGGGGG
1 TAAAAA-ATAATTTTTAGAAGTTTGGGGG
* * *
19391192 TTAAAATATAATTTTTAGAAGTTTTAGGGT
1 -TAAAAAATAATTTTTAGAAG-TTTGGGGG
** * * * *
19391222 TAAAATGTAATTCTTGGAAGTTCGAGGG
1 TAAAAAATAATTTTTAGAAGTTTGGGGG
* * * * *
19391250 TCAAAATATAATTTTCAAAAGTTTTGGTGT
1 T-AAAAAATAATTTTTAGAAG-TTTGGGGG
* * * ** *
19391280 TAAAAATGTCATTTTTGGAAGTTTCAAGGT
1 TAAAAA-ATAATTTTTAGAAGTTT-GGGGG
* *
19391310 TAAAAATGTAATTTTTGGAAGTTTGGGGG
1 TAAAAA-ATAATTTTTAGAAGTTTGGGGG
19391339 ACAGTTTAGA
Statistics
Matches: 156, Mismatches: 42, Indels: 16
0.73 0.20 0.07
Matches are distributed among these distances:
28 5 0.03
29 75 0.48
30 76 0.49
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.39
Consensus pattern (28 bp):
TAAAAAATAATTTTTAGAAGTTTGGGGG
Found at i:19391148 original size:59 final size:59
Alignment explanation
Indices: 19391085--19391207 Score: 165
Period size: 59 Copynumber: 2.1 Consensus size: 59
19391075 AAAACGGTAT
19391085 TTTTTGCAAGTCTCAAGGTTAAAAAAGGAATTTTTAGAAGTTTGGGGGTAAAAACATAA
1 TTTTTGCAAGTCTCAAGGTTAAAAAAGGAATTTTTAGAAGTTTGGGGGTAAAAACATAA
* * * * * * * * *
19391144 TTTTTGGAAGTTTTAGGGTTAAAAATGTAATTTTTGGAAGTTTGGGGGTTAAAATATAA
1 TTTTTGCAAGTCTCAAGGTTAAAAAAGGAATTTTTAGAAGTTTGGGGGTAAAAACATAA
19391203 TTTTT
1 TTTTT
19391208 AGAAGTTTTA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.34, C:0.03, G:0.23, T:0.40
Consensus pattern (59 bp):
TTTTTGCAAGTCTCAAGGTTAAAAAAGGAATTTTTAGAAGTTTGGGGGTAAAAACATAA
Found at i:19391175 original size:30 final size:30
Alignment explanation
Indices: 19391101--19391333 Score: 224
Period size: 29 Copynumber: 7.9 Consensus size: 30
19391091 CAAGTCTCAA
* * * *
19391101 GGTTAAAAAAGGAATTTTTAGAAG-TTTGG
1 GGTTAAAAATGTAATTTTTGGAAGTTTTAG
* **
19391130 GGGTAAAAACATAATTTTTGGAAGTTTTAG
1 GGTTAAAAATGTAATTTTTGGAAGTTTTAG
**
19391160 GGTTAAAAATGTAATTTTTGGAAGTTTGGG
1 GGTTAAAAATGTAATTTTTGGAAGTTTTAG
* *
19391190 GGTT-AAAATATAATTTTTAGAAGTTTTAG
1 GGTTAAAAATGTAATTTTTGGAAGTTTTAG
* **
19391219 GGTT-AAAATGTAATTCTTGGAAGTTCGAG
1 GGTTAAAAATGTAATTTTTGGAAGTTTTAG
* * ***
19391248 GG-TCAAAATATAATTTTCAAAAGTTTT-G
1 GGTTAAAAATGTAATTTTTGGAAGTTTTAG
* * *
19391276 GTGTTAAAAATGTCATTTTTGGAAGTTTCAA
1 G-GTTAAAAATGTAATTTTTGGAAGTTTTAG
19391307 GGTTAAAAATGTAATTTTTGGAAGTTT
1 GGTTAAAAATGTAATTTTTGGAAGTTT
19391334 GGGGGACAGT
Statistics
Matches: 163, Mismatches: 36, Indels: 9
0.78 0.17 0.04
Matches are distributed among these distances:
28 3 0.02
29 83 0.51
30 76 0.47
31 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.23, T:0.39
Consensus pattern (30 bp):
GGTTAAAAATGTAATTTTTGGAAGTTTTAG
Found at i:19391213 original size:59 final size:59
Alignment explanation
Indices: 19391101--19391333 Score: 272
Period size: 59 Copynumber: 3.9 Consensus size: 59
19391091 CAAGTCTCAA
* * * * * * *
19391101 GGTTAAAAAAGGAATTTTTAGAAGTTTGGGGGTAAAAACATAATTTTTGGAAGTTTTAG
1 GGTTAAAAATGTAATTTTTGGAAGTTTGAGGGTTAAAATATAATTTTTAGAAGTTTTAG
*
19391160 GGTTAAAAATGTAATTTTTGGAAGTTTGGGGGTTAAAATATAATTTTTAGAAGTTTTAG
1 GGTTAAAAATGTAATTTTTGGAAGTTTGAGGGTTAAAATATAATTTTTAGAAGTTTTAG
* * * * *
19391219 GGTT-AAAATGTAATTCTTGGAAGTTCGAGGGTCAAAATATAATTTTCAAAAGTTTT-G
1 GGTTAAAAATGTAATTTTTGGAAGTTTGAGGGTTAAAATATAATTTTTAGAAGTTTTAG
* * * * *
19391276 GTGTTAAAAATGTCATTTTTGGAAGTTTCAAGGTTAAAAATGTAATTTTTGGAAGTTT
1 G-GTTAAAAATGTAATTTTTGGAAGTTTGAGGGTT-AAAATATAATTTTTAGAAGTTT
19391334 GGGGGACAGT
Statistics
Matches: 149, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
57 2 0.01
58 49 0.33
59 80 0.54
60 18 0.12
ACGTcount: A:0.35, C:0.03, G:0.23, T:0.39
Consensus pattern (59 bp):
GGTTAAAAATGTAATTTTTGGAAGTTTGAGGGTTAAAATATAATTTTTAGAAGTTTTAG
Found at i:19392535 original size:17 final size:18
Alignment explanation
Indices: 19392500--19392540 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
19392490 GATCTTTAGG
19392500 TTTAAATTCATTATTAAA
1 TTTAAATTCATTATTAAA
*
19392518 TTTAAATTTATT-TTAAA
1 TTTAAATTCATTATTAAA
19392535 TTTAAA
1 TTTAAA
19392541 AATATTTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTAAATTCATTATTAAA
Found at i:19392546 original size:17 final size:17
Alignment explanation
Indices: 19392513--19392552 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
19392503 AAATTCATTA
**
19392513 TTAAATTTAAATTTATT
1 TTAAATTTAAAAATATT
19392530 TTAAATTTAAAAATATT
1 TTAAATTTAAAAATATT
*
19392547 TGAAAT
1 TTAAAT
19392553 AGATTTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TTAAATTTAAAAATATT
Found at i:19394450 original size:162 final size:161
Alignment explanation
Indices: 19394079--19394576 Score: 793
Period size: 162 Copynumber: 3.1 Consensus size: 161
19394069 GGTTTTCAAT
* * *
19394079 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCATGTGTCACTTTTTTGGCTTATTTATGT
1 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCCGCCACGTGTCAC-TTTTTGGTTTATTTATGT
*
19394144 ATCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAA--CTA
65 ATCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTCAA
* * * *
19394207 CATTGGCCCTATAATTTTTCAAGGTTTATAAA
130 AATTGGCCCAAGAATTTTTCAAGATTTATAAA
*
19394239 TTAGTCCTTTGACTGTTTGACTGCACCAAAGGCCGCCACGTGTCACTTTTTGGTTTATTTATGTA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCCGCCACGTGTCACTTTTTGGTTTATTTATGTA
19394304 TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTGCAA
66 TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATT-CAA
*
19394369 AATTGGCCCAAGAATTTTTCAAGATGTATAAA
130 AATTGGCCCAAGAATTTTTCAAGATTTATAAA
19394401 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCCGCCACGTGTCACTTTTTGGTTTATTTATGTA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCCGCCACGTGTCACTTTTTGGTTTATTTATGTA
* **
19394466 TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTGCTTAATTACAA
66 TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATT-CAA
* * * *
19394531 AATTGACCCGAGAATTTTTTAAGATTTACAAA
130 AATTGGCCCAAGAATTTTTCAAGATTTATAAA
*
19394563 TTCGTCCTTTGACT
1 TTAGTCCTTTGACT
19394577 TCTGGATGCC
Statistics
Matches: 314, Mismatches: 21, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
159 77 0.25
160 43 0.14
162 194 0.62
ACGTcount: A:0.25, C:0.18, G:0.13, T:0.44
Consensus pattern (161 bp):
TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCCGCCACGTGTCACTTTTTGGTTTATTTATGTA
TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTCAAA
ATTGGCCCAAGAATTTTTCAAGATTTATAAA
Found at i:19394693 original size:29 final size:29
Alignment explanation
Indices: 19394651--19394936 Score: 177
Period size: 29 Copynumber: 9.7 Consensus size: 29
19394641 GACTGTCCAA
*
19394651 AAAATTACCA-TTTTATCCCCGAACTTTCC
1 AAAATT-CCATTTTTAACCCCGAACTTTCC
* * *
19394680 AAAATTCTATTTTTAACCTC--AGTTTCACC
1 AAAATTCCATTTTTAACCCCGAACTTT--CC
* * *
19394709 AAAAATCACCA-TTTTACCCCCCGAACCTTCC
1 -AAAAT-TCCATTTTTA-ACCCCGAACTTTCC
19394740 AAAATTCCATTTTTAACCCCG-A-TTTCACC
1 AAAATTCCATTTTTAACCCCGAACTTT--CC
* * *
19394769 AAAATTACCA-TTTTACCCCCAAACATTCC
1 AAAATT-CCATTTTTAACCCCGAACTTTCC
*
19394798 AAAATTCCATTTTTAACCCC--AGTTTCACC
1 AAAATTCCATTTTTAACCCCGAACTTT--CC
19394827 AAAATTACCA-TTTT-ACCCTCGAACTTTCC
1 AAAATT-CCATTTTTAACCC-CGAACTTTCC
* *
19394856 AAAATTCCATTTTTTTAACCCTG--GTTTCACC
1 AAAATTCCA--TTTTTAACCCCGAACTTT--CC
* *
19394887 AAAATTACCA-TTTTACCCCCGAACATTCC
1 AAAATT-CCATTTTTAACCCCGAACTTTCC
19394916 AAAATTCCATTTTTAACCCCG
1 AAAATTCCATTTTTAACCCCG
19394937 GTTTCACAAA
Statistics
Matches: 199, Mismatches: 27, Indels: 62
0.69 0.09 0.22
Matches are distributed among these distances:
27 9 0.05
28 16 0.08
29 109 0.55
30 27 0.14
31 28 0.14
32 7 0.04
33 3 0.02
ACGTcount: A:0.32, C:0.31, G:0.03, T:0.33
Consensus pattern (29 bp):
AAAATTCCATTTTTAACCCCGAACTTTCC
Found at i:19394734 original size:60 final size:57
Alignment explanation
Indices: 19394651--19394967 Score: 427
Period size: 60 Copynumber: 5.4 Consensus size: 57
19394641 GACTGTCCAA
* * *
19394651 AAAATTACCATTTTATCCCCGAACTTTCCAAAATTCTATTTTTAACCTCAGTTTCACC
1 AAAATTACCATTTTACCCCCGAACATTCCAAAATTCCATTTTTAACC-CAGTTTCACC
* * *
19394709 AAAAATCACCATTTTACCCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCACC
1 -AAAATTACCATTTTA-CCCCCGAACATTCCAAAATTCCATTTTTAACCCAG-TTTCACC
*
19394769 AAAATTACCATTTTACCCCCAAACATTCCAAAATTCCATTTTTAACCCCAGTTTCACC
1 AAAATTACCATTTTACCCCCGAACATTCCAAAATTCCATTTTTAA-CCCAGTTTCACC
* * *
19394827 AAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTTTAACCCTGGTTTCACC
1 AAAATTACCATTTTACCCCCGAACATTCCAAAATTCCA--TTTTTAACCC-AGTTTCACC
* *
19394887 AAAATTACCATTTTACCCCCGAACATTCCAAAATTCCATTTTTAACCCCGGTTTCACAA
1 AAAATTACCATTTTACCCCCGAACATTCCAAAATTCCATTTTTAA-CCCAGTTTCAC-C
*
19394946 AAAATTACCATTTTATCCCCGA
1 AAAATTACCATTTTACCCCCGA
19394968 TCTAACCAAA
Statistics
Matches: 233, Mismatches: 17, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
58 85 0.36
59 61 0.26
60 87 0.37
ACGTcount: A:0.32, C:0.31, G:0.04, T:0.33
Consensus pattern (57 bp):
AAAATTACCATTTTACCCCCGAACATTCCAAAATTCCATTTTTAACCCAGTTTCACC
Found at i:19394809 original size:58 final size:58
Alignment explanation
Indices: 19394651--19394967 Score: 431
Period size: 58 Copynumber: 5.4 Consensus size: 58
19394641 GACTGTCCAA
* * * *
19394651 AAAATTACCATTTTATCCCCGAACTTTCCAAAATTCTATTTTTAACCTC-AGTTTCACC
1 AAAATTACCATTTTACCCCCGAACATTCCAAAATTCCATTTTTAACCCCGA-TTTCACC
* *
19394709 AAAAATCACCATTTTACCCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCACC
1 -AAAATTACCATTTTA-CCCCCGAACATTCCAAAATTCCATTTTTAACCCCGATTTCACC
*
19394769 AAAATTACCATTTTACCCCCAAACATTCCAAAATTCCATTTTTAACCCC-AGTTTCACC
1 AAAATTACCATTTTACCCCCGAACATTCCAAAATTCCATTTTTAACCCCGA-TTTCACC
* * * *
19394827 AAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTTTAACCCTGGTTTCACC
1 AAAATTACCATTTTACCCCCGAACATTCCAAAATTCCA--TTTTTAACCCCGATTTCACC
* *
19394887 AAAATTACCATTTTACCCCCGAACATTCCAAAATTCCATTTTTAACCCCGGTTTCACAA
1 AAAATTACCATTTTACCCCCGAACATTCCAAAATTCCATTTTTAACCCCGATTTCAC-C
*
19394946 AAAATTACCATTTTATCCCCGA
1 AAAATTACCATTTTACCCCCGA
19394968 TCTAACCAAA
Statistics
Matches: 233, Mismatches: 18, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
57 1 0.00
58 92 0.39
59 49 0.21
60 90 0.39
61 1 0.00
ACGTcount: A:0.32, C:0.31, G:0.04, T:0.33
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCCGAACATTCCAAAATTCCATTTTTAACCCCGATTTCACC
Found at i:19394871 original size:118 final size:117
Alignment explanation
Indices: 19394651--19394965 Score: 470
Period size: 118 Copynumber: 2.7 Consensus size: 117
19394641 GACTGTCCAA
* * * * *
19394651 AAAATTACCATTTTATCCCCGAACTTTCCAAAATTCTATTTTTAACCTCAGTTTCACCAAAAATC
1 AAAATTACCATTTTACCCCCGAACATTCCAAAATTCCATTTTTAACCCCAGTTTCACC-AAAATT
19394716 ACCATTTTACCCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCACC
65 ACCATTTTACCCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCACC
*
19394769 AAAATTACCATTTTACCCCCAAACATTCCAAAATTCCATTTTTAACCCCAGTTTCACCAAAATTA
1 AAAATTACCATTTTACCCCCGAACATTCCAAAATTCCATTTTTAACCCCAGTTTCACCAAAATTA
* * * *
19394834 CCATTTTA-CCCTCGAACTTTCCAAAATTCCATTTTTTTAACCCTGGTTTCACC
66 CCATTTTACCCCCCGAACCTTCCAAAATTCCA--TTTTTAACCCCGATTTCACC
* *
19394887 AAAATTACCATTTTACCCCCGAACATTCCAAAATTCCATTTTTAACCCCGGTTTCACAAAAAATT
1 AAAATTACCATTTTACCCCCGAACATTCCAAAATTCCATTTTTAACCCCAGTTTCAC-CAAAATT
*
19394952 ACCATTTTATCCCC
65 ACCATTTTACCCCC
19394966 GATCTAACCA
Statistics
Matches: 179, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
116 21 0.12
117 14 0.08
118 126 0.70
119 15 0.08
120 3 0.02
ACGTcount: A:0.32, C:0.31, G:0.03, T:0.33
Consensus pattern (117 bp):
AAAATTACCATTTTACCCCCGAACATTCCAAAATTCCATTTTTAACCCCAGTTTCACCAAAATTA
CCATTTTACCCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCACC
Found at i:19396935 original size:17 final size:17
Alignment explanation
Indices: 19396915--19396975 Score: 79
Period size: 17 Copynumber: 3.5 Consensus size: 17
19396905 ATTTTAAACC
*
19396915 AAATTTAAACTTAAGAT
1 AAATTTAAACTTAAAAT
19396932 AAATTTAAA-TTCAAAAT
1 AAATTTAAACTT-AAAAT
*
19396949 AAATTTAATCTTAAAAT
1 AAATTTAAACTTAAAAT
19396966 AAATCTTAAA
1 AAAT-TTAAA
19396976 AATGGGTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
16 2 0.05
17 30 0.79
18 6 0.16
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.36
Consensus pattern (17 bp):
AAATTTAAACTTAAAAT
Found at i:19397674 original size:206 final size:206
Alignment explanation
Indices: 19397310--19398192 Score: 1302
Period size: 206 Copynumber: 4.3 Consensus size: 206
19397300 TCTGGTTTCA
* * * ** *
19397310 TTGATTTGGTCTTCTCCTCATTATCTCATCAGGAAGATGATCGCATCACTTGTTTTGATCCACTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTT
* * * * * * *
19397375 CTCTATGTTTCATCAGGAAAACGAATTTGGTTCACTTCTCCGTATCTCATCAGGAAGCTAACCAT
66 CTCTGTATCTCATCAGGAAGACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
19397440 TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGAGGTTCAAAGATTTGCTCACAT
131 TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGAGGTTCAAAGATTTGCTCACAT
*
19397505 CGAGCTTGGGT
196 CGAGCGTGGGT
* * * * *
19397516 TTGATCTGGTCTTCTTCTCAGTATCTCATCAAGAAGATGACCGCATTACTTGTTTCAATCTGTTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTT
* * *
19397581 CTCTGTATCTCATCAGGAAGACGAATTTGGTCTACTTCTCCGTATCTCATCAGGAAGCTAACCAT
66 CTCTGTATCTCATCAGGAAGACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
* * * *
19397646 TTTATTTCTTCAACCTGCTTCCCAGTATCTCATCAAGAAGCTGAGGTTCGAAGATTTGCTCACAT
131 TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGAGGTTCAAAGATTTGCTCACAT
*
19397711 TGAGCGTGGGT
196 CGAGCGTGGGT
* * * *
19397722 TTGATTTGGTCTTCTTCTCAGTATCTCATCAAGAAGATAACCGCATCACTTGTTTTAATTCGCTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTT
19397787 CTCTGTATCTCATCAGGAAGACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
66 CTCTGTATCTCATCAGGAAGACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
* * * *
19397852 TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCGCAT
131 TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGAGGTTCAAAGATTTGCTCACAT
**
19397917 CGAGCGTCAGT
196 CGAGCGTGGGT
* * ***
19397928 TTGATTTGGTCTTCTTCTCTA-TATCTCATTAGGAAGATGACCGCGTTGTTTGTTTCAATCCGCT
1 TTGATTTGGTCTTCTTCTC-AGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCT
* *
19397992 TCTCTGTATCTCATCAGAAAGACAAATTTGGTCCACTTCTCAATATCTCATCAGGAAGCTAACCA
65 TCTCTGTATCTCATCAGGAAGACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCA
* *
19398057 TTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCT-AGGGTTCAAAGATTTGCTCAT
130 TTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGA-GGTTCAAAGATTTGCTCAC
19398121 ATCGAGCGTGGGT
194 ATCGAGCGTGGGT
**
19398134 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCGTTTGTTTCAAT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAAT
19398193 AATCGTAATC
Statistics
Matches: 612, Mismatches: 62, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
205 1 0.00
206 610 1.00
207 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (206 bp):
TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTT
CTCTGTATCTCATCAGGAAGACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGAGGTTCAAAGATTTGCTCACAT
CGAGCGTGGGT
Found at i:19398360 original size:39 final size:38
Alignment explanation
Indices: 19398317--19398402 Score: 136
Period size: 39 Copynumber: 2.2 Consensus size: 38
19398307 GTTGATAATG
*
19398317 ATCTGCCCTAGGCTCGGGGTAAAAGATCAAATGGCTGCA
1 ATCTGCCCT-GACTCGGGGTAAAAGATCAAATGGCTGCA
*
19398356 ATCTGCCCCTGACTCGGGGTAAAAGATCAAATGGCTTCA
1 ATCTG-CCCTGACTCGGGGTAAAAGATCAAATGGCTGCA
19398395 ATCTGCCC
1 ATCTGCCC
19398403 CTTGCTCGAG
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
38 3 0.07
39 37 0.84
40 4 0.09
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (38 bp):
ATCTGCCCTGACTCGGGGTAAAAGATCAAATGGCTGCA
Found at i:19398403 original size:39 final size:39
Alignment explanation
Indices: 19398329--19398404 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
19398319 CTGCCCTAGG
19398329 CTCGGGGTAAAAGATCAAATGGCTGCAATCTGCCCCTGA
1 CTCGGGGTAAAAGATCAAATGGCTGCAATCTGCCCCTGA
*
19398368 CTCGGGGTAAAAGATCAAATGGCTTCAATCTGCCCCT
1 CTCGGGGTAAAAGATCAAATGGCTGCAATCTGCCCCT
19398405 TGCTCGAGGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (39 bp):
CTCGGGGTAAAAGATCAAATGGCTGCAATCTGCCCCTGA
Found at i:19398416 original size:39 final size:38
Alignment explanation
Indices: 19398328--19398416 Score: 142
Period size: 39 Copynumber: 2.3 Consensus size: 38
19398318 TCTGCCCTAG
19398328 GCTCGGGGTAAAAGATCAAATGGCTGCAATCTGCCCCT
1 GCTCGGGGTAAAAGATCAAATGGCTGCAATCTGCCCCT
*
19398366 GACTCGGGGTAAAAGATCAAATGGCTTCAATCTGCCCCTT
1 G-CTCGGGGTAAAAGATCAAATGGCTGCAATCTGCCCC-T
*
19398406 GCTCGAGGTAA
1 GCTCGGGGTAA
19398417 GGGATCTGAA
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
38 1 0.02
39 44 0.94
40 2 0.04
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (38 bp):
GCTCGGGGTAAAAGATCAAATGGCTGCAATCTGCCCCT
Found at i:19400595 original size:29 final size:28
Alignment explanation
Indices: 19400544--19400606 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
19400534 AAACGGGACT
*
19400544 TTTTGGATACCCGAGGGCAAAATGATAA
1 TTTTGGATACCCGAGGGCAAAATGACAA
* * *
19400572 TTTTGGATTCTCGAGGGCAAAAATGGCAA
1 TTTTGGATACCCGAGGGC-AAAATGACAA
19400601 TTTTGG
1 TTTTGG
19400607 GAAATTTTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 16 0.53
29 14 0.47
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (28 bp):
TTTTGGATACCCGAGGGCAAAATGACAA
Found at i:19400778 original size:29 final size:29
Alignment explanation
Indices: 19400719--19400996 Score: 165
Period size: 30 Copynumber: 9.4 Consensus size: 29
19400709 AAACGATAAT
* * * * *
19400719 TTTTGTAAGTCTTAAGGTTAAAAATGGAA
1 TTTTGGAAGTTTTGAGGGTAAAAATGTAA
* *
19400748 TTTGTAGAAG-TTCGAGGGTAAAAATGTAA
1 TTT-TGGAAGTTTTGAGGGTAAAAATGTAA
* *
19400777 TTTTTGGAAGTTTTG-GAGTCAAAAAGGTAA
1 -TTTTGGAAGTTTTGAGGGT-AAAAATGTAA
* * *
19400807 TTCTTGGAAG-TTTGGGGGTTAAAATATAA
1 TT-TTGGAAGTTTTGAGGGTAAAAATGTAA
** *
19400836 TTTTCAAAAGTTTTGAGGTTAAAAATGTAA
1 TTTT-GGAAGTTTTGAGGGTAAAAATGTAA
* * *
19400866 TTCTTGGAAG-TTCGAGGGTCAAAATATAA
1 TT-TTGGAAGTTTTGAGGGTAAAAATGTAA
*
19400895 TTTTTAGAAGTTTTG-GGGTCAAAAATGTAA
1 -TTTTGGAAGTTTTGAGGGT-AAAAATGTAA
* *
19400925 TTTTTGGAAGTTTCGA-GGTCAAAAATATAA
1 -TTTTGGAAGTTTTGAGGGT-AAAAATGTAA
* ** * *
19400955 TTTTTGAAAGTTCAG-GGGTCAAAATATAA
1 -TTTTGGAAGTTTTGAGGGTAAAAATGTAA
19400984 TTTTGGACAGTTT
1 TTTTGGA-AGTTT
19400997 AGGGGGCCTC
Statistics
Matches: 194, Mismatches: 40, Indels: 30
0.73 0.15 0.11
Matches are distributed among these distances:
28 8 0.04
29 81 0.42
30 103 0.53
31 2 0.01
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (29 bp):
TTTTGGAAGTTTTGAGGGTAAAAATGTAA
Found at i:19400807 original size:30 final size:30
Alignment explanation
Indices: 19400767--19400996 Score: 168
Period size: 30 Copynumber: 7.8 Consensus size: 30
19400757 GTTCGAGGGT
19400767 AAAAATGTAATTTTTGGAAGTTTTGGAGTC
1 AAAAATGTAATTTTTGGAAGTTTTGGAGTC
* * * *
19400797 AAAAAGGTAATTCTTGGAAGTTTGGGGGT-
1 AAAAATGTAATTTTTGGAAGTTTTGGAGTC
* * *** *
19400826 TAAAATATAATTTTCAAAAGTTTT-GAGGTT
1 AAAAATGTAATTTTTGGAAGTTTTGGA-GTC
* * *
19400856 AAAAATGTAATTCTTGGAAG-TTCGAGGGTC
1 AAAAATGTAATTTTTGGAAGTTTTG-GAGTC
* * *
19400886 -AAAATATAATTTTTAGAAGTTTTGGGGTC
1 AAAAATGTAATTTTTGGAAGTTTTGGAGTC
*
19400915 AAAAATGTAATTTTTGGAAG-TTTCGAGGTC
1 AAAAATGTAATTTTTGGAAGTTTTGGA-GTC
* * ** *
19400945 AAAAATATAATTTTTGAAAGTTCAGGGGTC
1 AAAAATGTAATTTTTGGAAGTTTTGGAGTC
*
19400975 -AAAATATAA-TTTTGGACAGTTT
1 AAAAATGTAATTTTTGGA-AGTTT
19400997 AGGGGGCCTC
Statistics
Matches: 153, Mismatches: 38, Indels: 19
0.73 0.18 0.09
Matches are distributed among these distances:
28 7 0.05
29 58 0.38
30 85 0.56
31 3 0.02
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.37
Consensus pattern (30 bp):
AAAAATGTAATTTTTGGAAGTTTTGGAGTC
Found at i:19400887 original size:89 final size:88
Alignment explanation
Indices: 19400758--19401002 Score: 255
Period size: 89 Copynumber: 2.7 Consensus size: 88
19400748 TTTGTAGAAG
* * *
19400758 TTCGAGGGTAAAAATGTAATTTTTGGAAGTTTTG-GAGTCAAAA-AGGTAATTCTTGGAAGTTTG
1 TTCGAGGTTAAAAATGTAATTTTTGGAAG-TTCGAGGGTCAAAATA--TAATT-TTGGAAGTTTG
*
19400821 GGGGT-TAAAATATAATTTTCAAAAGT
62 GGGGTCAAAAATATAATTTTCAAAAGT
* * * *
19400847 TTTGAGGTTAAAAATGTAATTCTTGGAAGTTCGAGGGTCAAAATATAATTTTTAGAAGTTTTGGG
1 TTCGAGGTTAAAAATGTAATTTTTGGAAGTTCGAGGGTCAAAATATAA-TTTTGGAAGTTTGGGG
* ***
19400912 GTCAAAAATGTAATTTTTGGAAGT
65 GTCAAAAATATAATTTTCAAAAGT
* * *
19400936 TTCGAGGTCAAAAATATAATTTTTGAAAGTTC-AGGGGTCAAAATATAATTTTGGACAGTTTAGG
1 TTCGAGGTTAAAAATGTAATTTTTGGAAGTTCGA-GGGTCAAAATATAATTTTGGA-AGTTT-GG
19401000 GGG
63 GGG
19401003 CCTCTCGAGC
Statistics
Matches: 130, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
88 27 0.21
89 98 0.75
90 5 0.04
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (88 bp):
TTCGAGGTTAAAAATGTAATTTTTGGAAGTTCGAGGGTCAAAATATAATTTTGGAAGTTTGGGGG
TCAAAAATATAATTTTCAAAAGT
Found at i:19400937 original size:118 final size:118
Alignment explanation
Indices: 19400677--19400958 Score: 329
Period size: 118 Copynumber: 2.4 Consensus size: 118
19400667 AAAATCAAGA
* * ***
19400677 TCAAAAATG-AAGTTTTTGGACA-TTCGGGGG-TAAAACGATAATTTTTGTAAGTCTTAAGGTTA
1 TCAAAAATGTAA-TTTTTGGA-AGTTTGGGGGTTAAAA-TATAATTTTCAAAAGTCTTAAGGTTA
* *
19400739 AAAATGGAATTTGTAGAAGTTCGAGGGTAAAAATGTAATTTTTGGAAGTTTTGGAG
63 AAAATGGAATTTGTAGAAGTTCGAGGGTAAAAATATAATTTTTAGAAGTTTTGGAG
* * * *
19400795 TCAAAAAGGTAATTCTTGGAAGTTTGGGGGTTAAAATATAATTTTCAAAAGTTTTGAGGTTAAAA
1 TCAAAAATGTAATTTTTGGAAGTTTGGGGGTTAAAATATAATTTTCAAAAGTCTTAAGGTTAAAA
* * * *
19400860 ATGTAATTCT-TGGAAGTTCGAGGGTCAAAATATAATTTTTAGAAGTTTTGGGG
66 ATGGAATT-TGTAGAAGTTCGAGGGTAAAAATATAATTTTTAGAAGTTTTGGAG
* * *
19400913 TCAAAAATGTAATTTTTGGAAGTTTCGAGGTCAAAAATATAATTTT
1 TCAAAAATGTAATTTTTGGAAGTTTGGGGGT-TAAAATATAATTTT
19400959 TGAAAGTTCA
Statistics
Matches: 139, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
117 1 0.01
118 117 0.84
119 21 0.15
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.36
Consensus pattern (118 bp):
TCAAAAATGTAATTTTTGGAAGTTTGGGGGTTAAAATATAATTTTCAAAAGTCTTAAGGTTAAAA
ATGGAATTTGTAGAAGTTCGAGGGTAAAAATATAATTTTTAGAAGTTTTGGAG
Found at i:19400979 original size:59 final size:60
Alignment explanation
Indices: 19400677--19400996 Score: 282
Period size: 59 Copynumber: 5.4 Consensus size: 60
19400667 AAAATCAAGA
* ** * * **
19400677 TCAAAAATG-AAGTTTTTGGACA--TTCGGGGGTAAAACGATAATTTTTGTAAGTCTTAAGG
1 TCAAAAATGTAA-TTTTTGGA-AGTTTCGAGGGTAAAAATATAATTTTTGAAAGTTTTGGGG
* * * * * * *
19400736 TTAAAAATGGAATTTGTAGAAG-TTCGAGGGTAAAAATGTAATTTTTGGAAGTTTTGGAG
1 TCAAAAATGTAATTTTTGGAAGTTTCGAGGGTAAAAATATAATTTTTGAAAGTTTTGGGG
* * * * ** *
19400795 TCAAAAAGGTAATTCTTGGAAGTTT-GGGGGTTAAAATATAATTTTCAAAAGTTTTGAGG
1 TCAAAAATGTAATTTTTGGAAGTTTCGAGGGTAAAAATATAATTTTTGAAAGTTTTGGGG
* * *
19400854 TTAAAAATGTAATTCTTGGAAG-TTCGAGGGTCAAAATATAATTTTT-AGAAGTTTTGGGG
1 TCAAAAATGTAATTTTTGGAAGTTTCGAGGGTAAAAATATAATTTTTGA-AAGTTTTGGGG
**
19400913 TCAAAAATGTAATTTTTGGAAGTTTCGA-GGTCAAAAATATAATTTTTGAAAGTTCAGGGG
1 TCAAAAATGTAATTTTTGGAAGTTTCGAGGGT-AAAAATATAATTTTTGAAAGTTTTGGGG
*
19400973 TC-AAAATATAA-TTTTGGACAGTTT
1 TCAAAAATGTAATTTTTGGA-AGTTT
19400997 AGGGGGCCTC
Statistics
Matches: 214, Mismatches: 38, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
58 11 0.05
59 168 0.79
60 34 0.16
61 1 0.00
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.36
Consensus pattern (60 bp):
TCAAAAATGTAATTTTTGGAAGTTTCGAGGGTAAAAATATAATTTTTGAAAGTTTTGGGG
Found at i:19402125 original size:3 final size:3
Alignment explanation
Indices: 19402117--19402173 Score: 60
Period size: 3 Copynumber: 18.3 Consensus size: 3
19402107 TTCGGCTTTC
* * * *
19402117 ATT ATT ATT ATT ATT ATT AATT AAT ATAT ATT ATT AAT AAT AAT ATT
1 ATT ATT ATT ATT ATT ATT -ATT ATT AT-T ATT ATT ATT ATT ATT ATT
19402164 ATT ATT ATT A
1 ATT ATT ATT A
19402174 AATGAAATTG
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
3 42 0.88
4 6 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:19402850 original size:6 final size:6
Alignment explanation
Indices: 19402841--19402883 Score: 70
Period size: 6 Copynumber: 7.3 Consensus size: 6
19402831 ATATTAAGTC
*
19402841 TTAAAT TTAAAT TTAAAT TTATAT TTAAAT TT-AAT TTAAAT TT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TT
19402884 TTTTAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (6 bp):
TTAAAT
Found at i:19402894 original size:23 final size:24
Alignment explanation
Indices: 19402841--19402890 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
19402831 ATATTAAGTC
19402841 TTAAATTTAAATTTAAATTTATAT
1 TTAAATTTAAATTTAAATTTATAT
19402865 TTAAATTT-AATTTAAATTT-T-T
1 TTAAATTTAAATTTAAATTTATAT
19402886 TTAAA
1 TTAAA
19402891 AATTAAACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.23
22 1 0.04
23 11 0.42
24 8 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TTAAATTTAAATTTAAATTTATAT
Found at i:19402913 original size:17 final size:17
Alignment explanation
Indices: 19402893--19402949 Score: 71
Period size: 17 Copynumber: 3.3 Consensus size: 17
19402883 TTTTTAAAAA
*
19402893 TTAAACTTAAGATAAAT
1 TTAAACTTAAAATAAAT
19402910 TTAAA-TTCAAAATAAAT
1 TTAAACTT-AAAATAAAT
*
19402927 TTAATCTTAAAATAAAT
1 TTAAACTTAAAATAAAT
19402944 CTTAAA
1 -TTAAA
19402950 AATGGGTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 2 0.06
17 26 0.76
18 6 0.18
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (17 bp):
TTAAACTTAAAATAAAT
Found at i:19407382 original size:62 final size:58
Alignment explanation
Indices: 19407241--19407394 Score: 182
Period size: 58 Copynumber: 2.6 Consensus size: 58
19407231 TGAATTTAAT
* * *
19407241 ATTTTTTCCTAATTTAGTACATAAACTTTTTTTACTCAAATTGGTACCTGATCTTGAC
1 ATTTTTTCCTAATTTGGTACCTAAACTTTTTTTACTCAAATTGGTACCTGAACTTGAC
* * * * * *
19407299 ACTTTTTCTTAATTTGATACCTAAACTTTTTTTGGACTCAATTTTGGTACTTGAACTTGGC
1 ATTTTTTCCTAATTTGGTACCTAAACTTTTTTT--ACTCAA-ATTGGTACCTGAACTTGAC
*
19407360 ATTTTTTTCCTAATTTGGTACCTAAGCTTTTTTTA
1 A-TTTTTTCCTAATTTGGTACCTAAACTTTTTTTA
19407395 AATTAAATTT
Statistics
Matches: 79, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
58 28 0.35
60 7 0.09
61 16 0.20
62 28 0.35
ACGTcount: A:0.24, C:0.16, G:0.10, T:0.49
Consensus pattern (58 bp):
ATTTTTTCCTAATTTGGTACCTAAACTTTTTTTACTCAAATTGGTACCTGAACTTGAC
Found at i:19407406 original size:61 final size:59
Alignment explanation
Indices: 19407241--19407411 Score: 191
Period size: 61 Copynumber: 2.8 Consensus size: 59
19407231 TGAATTTAAT
* * *
19407241 ATTTTTTCCTAATTTAGTACATAAACTTTTTTTACTCAAA-TTGGTACCTGATCTTGAC
1 ATTTTTTCCTAATTTGGTACCTAAACTTTTTTTACTCAAATTTGGTACCTGAACTTGAC
* * * * * *
19407299 ACTTTTTCTTAATTTGATACCTAAACTTTTTTTGGACTCAATTTTGGTACTTGAACTTGGC
1 ATTTTTTCCTAATTTGGTACCTAAACTTTTTTT--ACTCAAATTTGGTACCTGAACTTGAC
* * *
19407360 ATTTTTTTCCTAATTTGGTACCTAAGCTTTTTTTAAATTAAATTTGGTACCT
1 A-TTTTTTCCTAATTTGGTACCTAAACTTTTTTT-ACTCAAATTTGGTACCT
19407412 AAATTTATTG
Statistics
Matches: 91, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
58 28 0.31
60 6 0.07
61 29 0.32
62 28 0.31
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.49
Consensus pattern (59 bp):
ATTTTTTCCTAATTTGGTACCTAAACTTTTTTTACTCAAATTTGGTACCTGAACTTGAC
Found at i:19407428 original size:29 final size:29
Alignment explanation
Indices: 19407371--19407428 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
19407361 TTTTTTTCCT
* * *
19407371 AATTTGGTACCTAAGCTTTTTTTAAATTA
1 AATTTGGTACCTAAGATTTATTGAAATTA
19407400 AATTTGGTACCTAA-ATTTATTGAATATTA
1 AATTTGGTACCTAAGATTTATTGAA-ATTA
19407429 TAAAAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.47
Consensus pattern (29 bp):
AATTTGGTACCTAAGATTTATTGAAATTA
Found at i:19407651 original size:31 final size:31
Alignment explanation
Indices: 19407615--19407694 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 31
19407605 GAAGCCCAAA
* *
19407615 AAGTTTAAGTACCAACTTAAAAAAAAGTGTT
1 AAGTTTAAGTACCAAATTAAAAAAAAGTGTC
* * *
19407646 AAGTTTAGGTACCAAATTAAGAAACAGTGTC
1 AAGTTTAAGTACCAAATTAAAAAAAAGTGTC
*
19407677 AAGTTTGAGTACCAAATT
1 AAGTTTAAGTACCAAATT
19407695 GGACAAAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.29
Consensus pattern (31 bp):
AAGTTTAAGTACCAAATTAAAAAAAAGTGTC
Found at i:19408587 original size:16 final size:15
Alignment explanation
Indices: 19408560--19408591 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
19408550 ATATCGTACT
19408560 TCTTCCTTTCCTTTC
1 TCTTCCTTTCCTTTC
19408575 TCTTCCTTTTCCTTTC
1 TCTTCC-TTTCCTTTC
19408591 T
1 T
19408592 TTTGTTTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (15 bp):
TCTTCCTTTCCTTTC
Found at i:19411990 original size:19 final size:20
Alignment explanation
Indices: 19411942--19411990 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
19411932 ATTTTTGTAC
*
19411942 TTTTTTT-AGTAATTTTTCA
1 TTTTTTTAAATAATTTTTCA
**
19411961 TTTTTAAAAATAATTTTT-A
1 TTTTTTTAAATAATTTTTCA
19411980 TTTTTTTAAAT
1 TTTTTTTAAAT
19411991 TTTAAAAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTTTTAAATAATTTTTCA
Found at i:19420223 original size:30 final size:28
Alignment explanation
Indices: 19420186--19420454 Score: 110
Period size: 30 Copynumber: 9.0 Consensus size: 28
19420176 ATTAGGTCTC
19420186 TAAACTTTTTAGAAATCATATTTTAACCT
1 TAAACTTTTTA-AAATCATATTTTAACCT
* *
19420215 TCAAACTTTTTCAAAATCACATTTTTACCCT
1 T-AAACTTTTT-AAAATCATA-TTTTAACCT
** * *
19420246 TAAATCTTTCCAAAATTATATTTTAACCCC
1 TAAA-CTTTTTAAAATCATATTTTAA-CCT
* * *
19420276 TAAACTTTTCCAAAAT-AGCATTTTAACCCC
1 TAAACTTTT-TAAAATCA-TATTTTAA-CCT
** * *
19420306 TAAACTTCTCCAAAATTACATTTTAACCCT
1 TAAACTT-TTTAAAATCATATTTTAA-CCT
** * * * *
19420336 TAAACCTTTCCAAAATTACATTTTATCCCC
1 TAAA-CTTTTTAAAATCATATTTTA-ACCT
* * * *
19420366 TAAACTTTTCCAAAATAACATTTAAACCCT
1 TAAACTTTT-TAAAATCATATTTTAA-CCT
* * *
19420396 TAAACTTTTCCAAAATTACATTTTAAACCT
1 TAAACTTTT-TAAAATCATATTTT-AACCT
19420426 TAAACTTTTCTAAAATTACAT-TTTTAACC
1 TAAACTTTT-TAAAA-T-CATATTTTAACC
19420455 CCTAAGATTC
Statistics
Matches: 200, Mismatches: 24, Indels: 31
0.78 0.09 0.12
Matches are distributed among these distances:
29 15 0.08
30 158 0.79
31 26 0.13
32 1 0.00
ACGTcount: A:0.37, C:0.23, G:0.01, T:0.39
Consensus pattern (28 bp):
TAAACTTTTTAAAATCATATTTTAACCT
Found at i:19420513 original size:30 final size:30
Alignment explanation
Indices: 19420217--19420706 Score: 521
Period size: 30 Copynumber: 16.4 Consensus size: 30
19420207 TTTAACCTTC
* * * *
19420217 AAACTTTTTCAAAATCACATTTTTACCCTT
1 AAACTTTTCCAAAATTACATTTTAACCCCT
*
19420247 AAA-TCTTTCCAAAATTATATTTTAACCCCT
1 AAACT-TTTCCAAAATTACATTTTAACCCCT
19420277 AAACTTTTCCAAAA-TAGCATTTTAACCCCT
1 AAACTTTTCCAAAATTA-CATTTTAACCCCT
* *
19420307 AAACTTCTCCAAAATTACATTTTAACCCTT
1 AAACTTTTCCAAAATTACATTTTAACCCCT
* *
19420337 AAACCTTTCCAAAATTACATTTTATCCCCT
1 AAACTTTTCCAAAATTACATTTTAACCCCT
* * *
19420367 AAACTTTTCCAAAATAACATTTAAACCCTT
1 AAACTTTTCCAAAATTACATTTTAACCCCT
* *
19420397 AAACTTTTCCAAAATTACATTTTAAACCTT
1 AAACTTTTCCAAAATTACATTTTAACCCCT
*
19420427 AAACTTTTCTAAAATTACATTTTTAACCCCT
1 AAACTTTTCCAAAATTACA-TTTTAACCCCT
* * *
19420458 AAGA-TTCTCTAAAATTACA-TTTGACCCCT
1 AA-ACTTTTCCAAAATTACATTTTAACCCCT
* * * *
19420487 AAACTTTTTCAAAATTTCATTTTGACCCTT
1 AAACTTTTCCAAAATTACATTTTAACCCCT
* * *
19420517 GAACTTCTCCAAAATAACATTTTAA-CCCT
1 AAACTTTTCCAAAATTACATTTTAACCCCT
* *
19420546 CGAACTTTTCCAAAAATACATTTTAA-CCCT
1 -AAACTTTTCCAAAATTACATTTTAACCCCT
* * *
19420576 AAACTTCTCCAAAATCACATTTTAACCCCC
1 AAACTTTTCCAAAATTACATTTTAACCCCT
* * * *
19420606 AAACCTTCCCAAAATTACATTTTGA-CCTT
1 AAACTTTTCCAAAATTACATTTTAACCCCT
* *
19420635 AAACTTCTCTAAAATTACATTTTAA-CCCT
1 AAACTTTTCCAAAATTACATTTTAACCCCT
*
19420664 AAAC-TTTCCTAAAATTACATTTTTACCCCT
1 AAACTTTTCC-AAAATTACATTTTAACCCCT
*
19420694 AAATTTTTCCAAA
1 AAACTTTTCCAAA
19420707 TTTATGTTTT
Statistics
Matches: 385, Mismatches: 62, Indels: 26
0.81 0.13 0.05
Matches are distributed among these distances:
28 4 0.01
29 92 0.24
30 255 0.66
31 33 0.09
32 1 0.00
ACGTcount: A:0.36, C:0.25, G:0.01, T:0.37
Consensus pattern (30 bp):
AAACTTTTCCAAAATTACATTTTAACCCCT
Found at i:19431516 original size:42 final size:42
Alignment explanation
Indices: 19431468--19431586 Score: 130
Period size: 42 Copynumber: 2.8 Consensus size: 42
19431458 AAAAATAAAT
* * * *
19431468 AAAAAGGATTGAGATGAAAACTCGTAAAGGGCGTCTCGATAG
1 AAAAAGGATTGAGATGAAAACTCGCAAAGGGCATCTCGAAAC
* * *
19431510 AAAAAGGATCGAGATGAAAACCCGCAAAGGGCATCTTGAAAC
1 AAAAAGGATTGAGATGAAAACTCGCAAAGGGCATCTCGAAAC
* *
19431552 TAAAAGAGATTTTGAGTTGAAAACTCGCAAAGGGC
1 AAAAAG-GA--TTGAGATGAAAACTCGCAAAGGGC
19431587 TACTCAAATT
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
42 40 0.63
43 2 0.03
45 21 0.33
ACGTcount: A:0.42, C:0.14, G:0.26, T:0.18
Consensus pattern (42 bp):
AAAAAGGATTGAGATGAAAACTCGCAAAGGGCATCTCGAAAC
Found at i:19432757 original size:50 final size:48
Alignment explanation
Indices: 19432634--19432757 Score: 131
Period size: 50 Copynumber: 2.5 Consensus size: 48
19432624 TTCAAAAGCC
* * *
19432634 CATCTTCCTGATGAGATACTGAGAAGTGGGTCAAAGCAATAAAGCGAT
1 CATCTTCCTGATGAGATACAGAGAAGCGGGTCAAAACAATAAAGCGAT
* * * * * * *
19432682 CGTCTTCCTGTTGAGATATAAAGAAGCGGATTCAAAACAAGTGATGCGAT
1 CATCTTCCTGATGAGATACAGAGAAGCGG-GTCAAAACAA-TAAAGCGAT
*
19432732 TATCTTCCTGATGAGATACAGAGAAG
1 CATCTTCCTGATGAGATACAGAGAAG
19432758 TAGACTAAAT
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
48 23 0.39
49 8 0.14
50 28 0.47
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (48 bp):
CATCTTCCTGATGAGATACAGAGAAGCGGGTCAAAACAATAAAGCGAT
Found at i:19432797 original size:174 final size:173
Alignment explanation
Indices: 19432508--19432873 Score: 525
Period size: 174 Copynumber: 2.1 Consensus size: 173
19432498 TGGACCAAAT
* * * *
19432508 TCGTCTTCCTGATGAGATATAGAGAAGTGGATTAAAACAAGTGATGCGGTCATCTTCTTGATGAG
1 TCGTCTTCCTGATGAGATATAAAGAAGCGGATTAAAACAAGTGATGCGATCATCTTCCTGATGAG
* * * ** * *
19432573 ATACATAAAAGTACATTAAATCGATAAAGTAAAGTTAAATGTTAGTGAAACTTCAAAAGCCCATC
66 ATACAGAAAAGTACACTAAATCGATAAAGCAAAACTAAATGTAAGTGAAACTTCAAAACCCCATC
19432638 TTCCTGATGAGATACTGAGAAGTGGGTCAAAGCAATAAAGCGA
131 TTCCTGATGAGATACTGAGAAGTGGGTCAAAGCAATAAAGCGA
* *
19432681 TCGTCTTCCTGTTGAGATATAAAGAAGCGGATTCAAAACAAGTGATGCGATTATCTTCCTGATGA
1 TCGTCTTCCTGATGAGATATAAAGAAGCGGATT-AAAACAAGTGATGCGATCATCTTCCTGATGA
* * * * * *
19432746 GATACAGAGAAGTAGACTAAATCGATGAAGCAAAACTCAATGTAAGTGAAACTTCGAACCCCCAT
65 GATACAGAAAAGTACACTAAATCGATAAAGCAAAACTAAATGTAAGTGAAACTTCAAAACCCCAT
* *
19432811 CTTTCTGATGAGATACTGAGAAGTGGGTCAAAGCAATAAAGCGG
130 CTTCCTGATGAGATACTGAGAAGTGGGTCAAAGCAATAAAGCGA
*
19432855 TTGTCTTCCTGATGAGATA
1 TCGTCTTCCTGATGAGATA
19432874 CAGAGAAATG
Statistics
Matches: 169, Mismatches: 23, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
173 30 0.18
174 139 0.82
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (173 bp):
TCGTCTTCCTGATGAGATATAAAGAAGCGGATTAAAACAAGTGATGCGATCATCTTCCTGATGAG
ATACAGAAAAGTACACTAAATCGATAAAGCAAAACTAAATGTAAGTGAAACTTCAAAACCCCATC
TTCCTGATGAGATACTGAGAAGTGGGTCAAAGCAATAAAGCGA
Found at i:19433044 original size:210 final size:211
Alignment explanation
Indices: 19432681--19433179 Score: 668
Period size: 210 Copynumber: 2.4 Consensus size: 211
19432671 AATAAAGCGA
* * * *
19432681 TCGTCTTCCTGTTGAGATATAAAGAAGCGGATTCAAAACAAGTGATGCGATTATCTTCCTGATGA
1 TCGTCTTCCTGATGAGATACAAAGAAGCGGATTCAAAACAAGTGATACGATCATCTTCCTGATGA
* * *
19432746 GATACAGAGAAGTAGACTAAATCGATGAAGCAAAACTCAATGTAAGTGAAACTTCGAACCCCCAT
66 GATACAAAGAAGTAGACCAAATCGATGAAGCAAAACTCAATGCAAGTGAAACTTCGAACCCCCAT
* ** *
19432811 CTTTCTGATGAGATACTGAGAAGTGGGTCAAAGCAATAAAGCGGTTGTCTTCCTGATGAGATACA
131 CTTTCTGATGAGATACTGAGAAGTGGGTCAAAACAATAAAGCGGTCATCTTCCTAATGAGATACA
19432876 GAGAAATGGACCAAAT
196 GAGAAATGGACCAAAT
*
19432892 TCGTCTTCCTGATGAGATACAAAGAAGCGGATT-AAAACAAGTGATACGATCATCTTCCTGATTA
1 TCGTCTTCCTGATGAGATACAAAGAAGCGGATTCAAAACAAGTGATACGATCATCTTCCTGATGA
* * * * *
19432956 GATATAAAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGCGAGTGAAACTTTGAACCCCCAT
66 GATACAAAGAAGTAGACCAAATCGATGAAGCAAAACTCAATGCAAGTGAAACTTCGAACCCCCAT
* *
19433021 C-TTCTTGATGAGATATTGAGAAGTGGGTCAAAATAATAAAGCGGTCATCTTCCTAATGAGATAC
131 CTTTC-TGATGAGATACTGAGAAGTGGGTCAAAACAATAAAGCGGTCATCTTCCTAATGAGATAC
*
19433085 AGAGAAGTGGACCAAAT
195 AGAGAAATGGACCAAAT
* * ** * * * *
19433102 CCATCTTAATGATGAGATACAGAGAAGTGGA-TCATAATAA-TGA-A-GCAGTCATCTTCCTGAT
1 TCGTCTTCCTGATGAGATACAAAGAAGCGGATTCAAAACAAGTGATACG-A-TCATCTTCCTGAT
*
19433163 GAGATACAGAGAAGTAG
64 GAGATACAAAGAAGTAG
19433180 GTCGAAACAA
Statistics
Matches: 253, Mismatches: 31, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
207 1 0.00
208 2 0.01
209 34 0.13
210 185 0.73
211 31 0.12
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (211 bp):
TCGTCTTCCTGATGAGATACAAAGAAGCGGATTCAAAACAAGTGATACGATCATCTTCCTGATGA
GATACAAAGAAGTAGACCAAATCGATGAAGCAAAACTCAATGCAAGTGAAACTTCGAACCCCCAT
CTTTCTGATGAGATACTGAGAAGTGGGTCAAAACAATAAAGCGGTCATCTTCCTAATGAGATACA
GAGAAATGGACCAAAT
Found at i:19433090 original size:48 final size:48
Alignment explanation
Indices: 19433018--19433225 Score: 186
Period size: 48 Copynumber: 4.6 Consensus size: 48
19433008 TTTGAACCCC
* **
19433018 CATCTTCTTGATGAGATATTGAGAAGTGGGTCAAAATAATAAAGCGGT
1 CATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAATAATAAAGCGGT
* **
19433066 CATCTTCCTAATGAGATACAGAGAAGT-GG--ACCA-AAT----C---
1 CATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAATAATAAAGCGGT
** * * * *
19433103 CATCTTAATGATGAGATACAGAGAAGTGGATCATAATAATGAAGCAGT
1 CATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAATAATAAAGCGGT
* * *
19433151 CATCTTCCTGATGAGATACAGAGAAGTAGGTCGAAACAATAAAGCGGT
1 CATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAATAATAAAGCGGT
* *
19433199 CATCTTCTTGATGAGATACAAAGAAGT
1 CATCTTCCTGATGAGATACAGAGAAGT
19433226 AGACCAAGGG
Statistics
Matches: 126, Mismatches: 23, Indels: 22
0.74 0.13 0.13
Matches are distributed among these distances:
37 24 0.19
38 1 0.01
40 3 0.02
41 3 0.02
44 3 0.02
45 3 0.02
47 2 0.02
48 87 0.69
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (48 bp):
CATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAATAATAAAGCGGT
Found at i:19433165 original size:85 final size:85
Alignment explanation
Indices: 19433017--19433177 Score: 241
Period size: 85 Copynumber: 1.9 Consensus size: 85
19433007 CTTTGAACCC
** ** * *
19433017 CCATCTTCTTGATGAGATATTGAGAAGTGGGTCAAAATAATAAAGCGGTCATCTTCCTAATGAGA
1 CCATCTTAATGATGAGATACAGAGAAGTGGATCAAAATAATAAAGCAGTCATCTTCCTAATGAGA
19433082 TACAGAGAAGTGGACCAAAT
66 TACAGAGAAGTGGACCAAAT
* * *
19433102 CCATCTTAATGATGAGATACAGAGAAGTGGATCATAATAATGAAGCAGTCATCTTCCTGATGAGA
1 CCATCTTAATGATGAGATACAGAGAAGTGGATCAAAATAATAAAGCAGTCATCTTCCTAATGAGA
19433167 TACAGAGAAGT
66 TACAGAGAAGT
19433178 AGGTCGAAAC
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
85 67 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.25
Consensus pattern (85 bp):
CCATCTTAATGATGAGATACAGAGAAGTGGATCAAAATAATAAAGCAGTCATCTTCCTAATGAGA
TACAGAGAAGTGGACCAAAT
Found at i:19434487 original size:30 final size:30
Alignment explanation
Indices: 19434461--19434961 Score: 436
Period size: 30 Copynumber: 17.0 Consensus size: 30
19434451 TAAAAATCAT
* * *
19434461 ATTTCAACCCCTAAACTTTTCCAAAATCAT
1 ATTTTAACCCCTAAACTTTTCCAAAATTAC
*
19434491 ATTTT-A-CCCTCAAA-TGTTTCTAAAATTAC
1 ATTTTAACCCCT-AAACT-TTTCCAAAATTAC
* *
19434520 ATTTTAACCCTTAAACTTTT-AAAAATTAC
1 ATTTTAACCCCTAAACTTTTCCAAAATTAC
* * *
19434549 ATTATAACCCCTAAACTTATCCAAAATTAT
1 ATTTTAACCCCTAAACTTTTCCAAAATTAC
* * *
19434579 ATTTTAA-CCCTCATACCTTTCTAAAATTAC
1 ATTTTAACCCCT-AAACTTTTCCAAAATTAC
* * *
19434609 A-TTTAACCCTTAAACTTCTCCAAAATAAC
1 ATTTTAACCCCTAAACTTTTCCAAAATTAC
* * * *
19434638 ATTTAAACCCTTGAAC-TTTCCAAAATTAT
1 ATTTTAACCCCTAAACTTTTCCAAAATTAC
** *
19434667 ATTTTAACCCCTAATTTTTTCCAAAATTGC
1 ATTTTAACCCCTAAACTTTTCCAAAATTAC
* * *
19434697 ATTTTAACCCCTAAACTTCTCTAAAATTGC
1 ATTTTAACCCCTAAACTTTTCCAAAATTAC
* * *
19434727 ATTTTAAGCCCC-AAGCTTTTCTAAAATTAT
1 ATTTTAA-CCCCTAAACTTTTCCAAAATTAC
* * * *
19434757 ATTTTAACCCTTAAACTTCTCTAAAATAAC
1 ATTTTAACCCCTAAACTTTTCCAAAATTAC
* * *
19434787 ATTTTAACCCTTAAACTTTTCTAAAAGTAC
1 ATTTTAACCCCTAAACTTTTCCAAAATTAC
* * *
19434817 ACTTTAACCCCTAAACTTCTCCAAAATCAC
1 ATTTTAACCCCTAAACTTTTCCAAAATTAC
* * *
19434847 ATTTT-ATCCCTAAAACTTCTT--AAAATCAA
1 ATTTTAACCCCT-AAACTT-TTCCAAAATTAC
* * *
19434876 ATTTTAACCTC-AAACTTCTCTAAAATTAC
1 ATTTTAACCCCTAAACTTTTCCAAAATTAC
19434905 ATTTTAA-CCCTAAACTTTTCCAAAATTAC
1 ATTTTAACCCCTAAACTTTTCCAAAATTAC
* *
19434934 ATTTTTACCTC-AAACTTTTCCAAAATTA
1 ATTTTAACCCCTAAACTTTTCCAAAATTA
19434962 TGTTTTGATC
Statistics
Matches: 381, Mismatches: 71, Indels: 39
0.78 0.14 0.08
Matches are distributed among these distances:
27 1 0.00
28 13 0.03
29 160 0.42
30 198 0.52
31 9 0.02
ACGTcount: A:0.37, C:0.24, G:0.01, T:0.38
Consensus pattern (30 bp):
ATTTTAACCCCTAAACTTTTCCAAAATTAC
Found at i:19451808 original size:20 final size:21
Alignment explanation
Indices: 19451769--19451808 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
19451759 ACAATCCAGC
*
19451769 TGTGCACTTACATAGATCTGG
1 TGTGAACTTACATAGATCTGG
*
19451790 TGTGAACTT-CATGGATCTG
1 TGTGAACTTACATAGATCTG
19451809 CAGGTTATCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (21 bp):
TGTGAACTTACATAGATCTGG
Found at i:19454171 original size:21 final size:21
Alignment explanation
Indices: 19454142--19454199 Score: 82
Period size: 21 Copynumber: 2.7 Consensus size: 21
19454132 GCCATGAATC
*
19454142 TCTTTATTTTCTTCTCCTTTCT
1 TCTTAATTTTCTTCTCCTTT-T
19454164 TC-TAATTTTCTTCTCCTTTT
1 TCTTAATTTTCTTCTCCTTTT
19454184 TCTTAATTCTTCTTCT
1 TCTTAATT-TTCTTCT
19454200 ATTCTCACCT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 3 0.09
21 21 0.64
22 9 0.27
ACGTcount: A:0.09, C:0.26, G:0.00, T:0.66
Consensus pattern (21 bp):
TCTTAATTTTCTTCTCCTTTT
Found at i:19454884 original size:28 final size:28
Alignment explanation
Indices: 19454853--19454939 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 28
19454843 ATGTATGTTT
19454853 ATATGTTACTTTAATGATTAAATCGATA
1 ATATGTTACTTTAATGATTAAATCGATA
* * *
19454881 ATATGTGA---TAA-G-TGAAATCTTGATT
1 ATATGTTACTTTAATGATTAAATC--GATA
*
19454906 ATATGTTACTTTAATGATTAAATCAATA
1 ATATGTTACTTTAATGATTAAATCGATA
19454934 ATATGT
1 ATATGT
19454940 GATAAGTGAA
Statistics
Matches: 45, Mismatches: 7, Indels: 14
0.68 0.11 0.21
Matches are distributed among these distances:
23 6 0.13
24 1 0.02
25 13 0.29
28 18 0.40
29 1 0.02
30 6 0.13
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.43
Consensus pattern (28 bp):
ATATGTTACTTTAATGATTAAATCGATA
Found at i:19454914 original size:53 final size:53
Alignment explanation
Indices: 19454851--19454961 Score: 213
Period size: 53 Copynumber: 2.1 Consensus size: 53
19454841 TTATGTATGT
*
19454851 TTATATGTTACTTTAATGATTAAATCGATAATATGTGATAAGTGAAATCTTGA
1 TTATATGTTACTTTAATGATTAAATCAATAATATGTGATAAGTGAAATCTTGA
19454904 TTATATGTTACTTTAATGATTAAATCAATAATATGTGATAAGTGAAATCTTGA
1 TTATATGTTACTTTAATGATTAAATCAATAATATGTGATAAGTGAAATCTTGA
19454957 TTATA
1 TTATA
19454962 AGAGAGTCGT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 57 1.00
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.42
Consensus pattern (53 bp):
TTATATGTTACTTTAATGATTAAATCAATAATATGTGATAAGTGAAATCTTGA
Found at i:19454990 original size:12 final size:12
Alignment explanation
Indices: 19454973--19455000 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
19454963 GAGAGTCGTG
19454973 CTTTATATGTTA
1 CTTTATATGTTA
19454985 CTTTATATGTTA
1 CTTTATATGTTA
19454997 CTTT
1 CTTT
19455001 TGATGAAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.11, G:0.07, T:0.61
Consensus pattern (12 bp):
CTTTATATGTTA
Found at i:19457421 original size:18 final size:19
Alignment explanation
Indices: 19457398--19457440 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
19457388 TTAGGCATGG
19457398 GAATGAAGAGA-GAATTGA-
1 GAATGAAGAGATG-ATTGAT
19457416 GAATG-AGAGATGATTGAT
1 GAATGAAGAGATGATTGAT
19457434 GAATGAA
1 GAATGAA
19457441 AGGACGGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 10 0.45
18 11 0.50
19 1 0.05
ACGTcount: A:0.47, C:0.00, G:0.33, T:0.21
Consensus pattern (19 bp):
GAATGAAGAGATGATTGAT
Found at i:19457858 original size:23 final size:23
Alignment explanation
Indices: 19457832--19457879 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
19457822 GGTTAAATTA
** *
19457832 AATAATTAATTAACCCAATTTAT
1 AATAATTAACCAACCCAATTAAT
*
19457855 AATATTTAACCAACCCAATTAAT
1 AATAATTAACCAACCCAATTAAT
19457878 AA
1 AA
19457880 AATAATACAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (23 bp):
AATAATTAACCAACCCAATTAAT
Found at i:19460067 original size:69 final size:69
Alignment explanation
Indices: 19459924--19460265 Score: 307
Period size: 69 Copynumber: 5.0 Consensus size: 69
19459914 AGCATTCGTG
* * * * ** * *
19459924 TCATATTAGGGTTCGCAGGTGAAGAGCCACAACCTCCAATACAGTTAGTAAGAGCAATGTTACCT
1 TCATATTAAGGTTCGCAGGCGAAGAGTCACAACCTCTAATACAGTTAGCGAGAGCAAAGCT-CCT
*
19459989 -G-TT
65 AGCTA
* *
19459992 TCCATATTAAGGTTCACAGGCGAAGAGTCACAACCTCTAATACAATTAGCGAGAGCAAAGCT-CT
1 T-CATATTAAGGTTCGCAGGCGAAGAGTCACAACCTCTAATACAGTTAGCGAGAGCAAAGCTCCT
19460056 CAGCTA
65 -AGCTA
* * * * ** * *
19460062 TCATATTAAGGTTCGTAGGCGAATAGCCACAACCT-TCAATATAGTTAATGGGAGCAAAGCTTCT
1 TCATATTAAGGTTCGCAGGCGAAGAGTCACAACCTCT-AATACAGTTAGCGAGAGCAAAGCTCCT
* *
19460126 GGCTG
65 AGCTA
* * * *
19460131 TCATATTAAGGTTCGCATGCAAAAAGTCACAACCTCCAATACAGTTA-CTGAGAGCAAAGCTCCT
1 TCATATTAAGGTTCGCAGGCGAAGAGTCACAACCTCTAATACAGTTAGC-GAGAGCAAAGCTCCT
*
19460195 AACTA
65 AGCTA
* ** ** * *
19460200 TCATATTAATGTTCATAGGTAAAGAGTCGCAACCTCTAATACAGTTAGCAAGAGCAAAGCTCCTA
1 TCATATTAAGGTTCGCAGGCGAAGAGTCACAACCTCTAATACAGTTAGCGAGAGCAAAGCTCCTA
19460265 G
66 G
19460266 TTGTCCTTTT
Statistics
Matches: 220, Mismatches: 45, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
67 2 0.01
68 2 0.01
69 211 0.96
70 5 0.02
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (69 bp):
TCATATTAAGGTTCGCAGGCGAAGAGTCACAACCTCTAATACAGTTAGCGAGAGCAAAGCTCCTA
GCTA
Found at i:19460604 original size:246 final size:246
Alignment explanation
Indices: 19460170--19460659 Score: 721
Period size: 246 Copynumber: 2.0 Consensus size: 246
19460160 CAACCTCCAA
* * *
19460170 TACAGTTACTGAGAGCAAAGCTCCTAACTATCATATTAATGTTCATAGGTAAAGAGTCGCAACCT
1 TACAGTTACTGAGAGCAAAGCTCCCAACTATCATATTAAGGTTCATAGGCAAAGAGTCGCAACCT
* * * *
19460235 CTAATACAGTTAGCAAGAGCAAAGCTCCTAGTTGTCCTTTTCAAAAATTTCCACAAGTATAAAAG
66 CCAATACAGTTAGCAAGAGCAAAGCTCCTAGCTGTCATTTTCAAAAATTTCCACAAGTATAAAAC
* * *
19460300 TGCTCATGGATCCACATCCCAATTTATTGTTTTAGAAATATTCACAAGTGTAAAACAGCTCGTGG
131 AGCTCATGGATCCACATCCCAATTGATTATTTTAGAAATATTCACAAGTGTAAAACAGCTCGTGG
19460365 ATTCACATCTAAAATGATTATCTTACAAAATTTTCACAAGTATAAAACAAC
196 ATTCACATCTAAAATGATTATCTTACAAAATTTTCACAAGTATAAAACAAC
* * * **
19460416 TACAGTTACTGGGAGTAAAGCTCCCAACTATCATATTAAGGTTCGTAGGCAAAGAGTCTTAACCT
1 TACAGTTACTGAGAGCAAAGCTCCCAACTATCATATTAAGGTTCATAGGCAAAGAGTCGCAACCT
* * * *
19460481 CCAATACAGTTAGTGAA-AGCAAAGGTCTTAGCTGTCATTTTCAAAAATTTCCATAAGTATAAAA
66 CCAATACAGTTAG-CAAGAGCAAAGCTCCTAGCTGTCATTTTCAAAAATTTCCACAAGTATAAAA
* * * *
19460545 CAGCTCATGGATCCATATCCCAGTTGATTATTTTAGAAATATTCACTAGTGTAAAACAGCTTGTG
130 CAGCTCATGGATCCACATCCCAATTGATTATTTTAGAAATATTCACAAGTGTAAAACAGCTCGTG
* * * *
19460610 GATTTATATCTAAATTGATTATCTTAGAAAATTTTCACAAGTATAAAACA
195 GATTCACATCTAAAATGATTATCTTACAAAATTTTCACAAGTATAAAACA
19460660 GCTCACGAAT
Statistics
Matches: 216, Mismatches: 27, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
246 214 0.99
247 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (246 bp):
TACAGTTACTGAGAGCAAAGCTCCCAACTATCATATTAAGGTTCATAGGCAAAGAGTCGCAACCT
CCAATACAGTTAGCAAGAGCAAAGCTCCTAGCTGTCATTTTCAAAAATTTCCACAAGTATAAAAC
AGCTCATGGATCCACATCCCAATTGATTATTTTAGAAATATTCACAAGTGTAAAACAGCTCGTGG
ATTCACATCTAAAATGATTATCTTACAAAATTTTCACAAGTATAAAACAAC
Found at i:19460612 original size:56 final size:56
Alignment explanation
Indices: 19460525--19460774 Score: 257
Period size: 56 Copynumber: 4.4 Consensus size: 56
19460515 TCATTTTCAA
* * * * *
19460525 AAATTTCCATAAGTATAAAACAGCTCATGGATCCATATCCCAGTTGATTATTTTAG
1 AAATTTTCACAAGTATAAAACAGCTCGTGGATCCACATCCCAATTGATTATTTTAG
* * * * ** * ** *
19460581 AAATATTCACTAGTGTAAAACAGCTTGTGGATTTATATCTAAATTGATTATCTTAG
1 AAATTTTCACAAGTATAAAACAGCTCGTGGATCCACATCCCAATTGATTATTTTAG
** * * * *
19460637 AAAATTTTCACAAGTATAAAACAGCTCACGAATCCACATTCCAACTGATTGTTTTAG
1 -AAATTTTCACAAGTATAAAACAGCTCGTGGATCCACATCCCAATTGATTATTTTAG
* * *
19460694 AAATTTTGACAAGTATAAAACAGATCGTGGATCCACATCCCAATTGATTGTTTTAG
1 AAATTTTCACAAGTATAAAACAGCTCGTGGATCCACATCCCAATTGATTATTTTAG
* *
19460750 AAATTTCCACAAGTGTAAAACAGCT
1 AAATTTTCACAAGTATAAAACAGCT
19460775 TGCAGATTCA
Statistics
Matches: 153, Mismatches: 40, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
56 113 0.74
57 40 0.26
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (56 bp):
AAATTTTCACAAGTATAAAACAGCTCGTGGATCCACATCCCAATTGATTATTTTAG
Found at i:19460724 original size:113 final size:113
Alignment explanation
Indices: 19460524--19460774 Score: 288
Period size: 113 Copynumber: 2.2 Consensus size: 113
19460514 GTCATTTTCA
* * * * **
19460524 AAAATTTCCATAAGTATAAAACAGCTCATGGATCCATATCCCAGTTGATTATTTTAGAAATATTC
1 AAAATTTCCACAAGTATAAAACAGCTCACGAATCCACATCCCAACTGATTATTTTAGAAATATTC
* * * * ** * *
19460589 ACTAGTGTAAAACAGCTTGTGGATTTATATCTAAATTGATTATCTTAG
66 ACAAGTATAAAACAGATCGTGGATCCACATCCAAATTGATTATCTTAG
* * * * *
19460637 AAAATTTTCACAAGTATAAAACAGCTCACGAATCCACATTCCAACTGATTGTTTTAGAAATTTTG
1 AAAATTTCCACAAGTATAAAACAGCTCACGAATCCACATCCCAACTGATTATTTTAGAAATATTC
* * *
19460702 ACAAGTATAAAACAGATCGTGGATCCACATCCCAATTGATTGTTTTAG
66 ACAAGTATAAAACAGATCGTGGATCCACATCCAAATTGATTATCTTAG
*
19460750 -AAATTTCCACAAGTGTAAAACAGCT
1 AAAATTTCCACAAGTATAAAACAGCT
19460775 TGCAGATTCA
Statistics
Matches: 114, Mismatches: 24, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
112 23 0.20
113 91 0.80
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (113 bp):
AAAATTTCCACAAGTATAAAACAGCTCACGAATCCACATCCCAACTGATTATTTTAGAAATATTC
ACAAGTATAAAACAGATCGTGGATCCACATCCAAATTGATTATCTTAG
Found at i:19467124 original size:21 final size:21
Alignment explanation
Indices: 19467099--19467138 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
19467089 AACCCTAAAC
* *
19467099 CCGAACCCTAAATCTAAAATA
1 CCGAACACTAAATCAAAAATA
19467120 CCGAACACTAAATCAAAAA
1 CCGAACACTAAATCAAAAA
19467139 CATAAAACCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.28, G:0.05, T:0.15
Consensus pattern (21 bp):
CCGAACACTAAATCAAAAATA
Found at i:19467312 original size:14 final size:14
Alignment explanation
Indices: 19467289--19467326 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
19467279 CTTAAATTCA
19467289 AATCTTAAACC-AT
1 AATCTTAAACCTAT
*
19467302 GAATCTCAAACCTAT
1 -AATCTTAAACCTAT
19467317 AATCTTAAAC
1 AATCTTAAAC
19467327 TTTTAAACCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 19 0.90
15 2 0.10
ACGTcount: A:0.45, C:0.24, G:0.03, T:0.29
Consensus pattern (14 bp):
AATCTTAAACCTAT
Found at i:19469765 original size:20 final size:19
Alignment explanation
Indices: 19469728--19469767 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
19469718 AAATAATAAC
* *
19469728 AAAAATAAAAGTAGATCAA
1 AAAAATAAAAGAAAATCAA
19469747 AAAAATAAAAGAAAAATCAA
1 AAAAATAAAAG-AAAATCAA
19469767 A
1 A
19469768 GTTTTTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.75, C:0.05, G:0.07, T:0.12
Consensus pattern (19 bp):
AAAAATAAAAGAAAATCAA
Found at i:19472759 original size:22 final size:22
Alignment explanation
Indices: 19472730--19472788 Score: 102
Period size: 22 Copynumber: 2.7 Consensus size: 22
19472720 TTTTATATAG
*
19472730 AATT-TTGAATTAAAGAATTTT
1 AATTATTGAATTAAAAAATTTT
19472751 AATTATTGAATTAAAAAATTTT
1 AATTATTGAATTAAAAAATTTT
19472773 AATTATTGAATTAAAA
1 AATTATTGAATTAAAA
19472789 GTTAGTATCA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
21 4 0.11
22 32 0.89
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (22 bp):
AATTATTGAATTAAAAAATTTT
Found at i:19474810 original size:193 final size:195
Alignment explanation
Indices: 19474468--19474827 Score: 469
Period size: 193 Copynumber: 1.9 Consensus size: 195
19474458 GAAACCGACA
*
19474468 CGATGACTGAGGTACCGCATATGTAGCGAGTCCTCGACAACTCGTGTGAGCAGAATCGTGGGTCG
1 CGATGACTGAGGTACCGCATATGTAGCGAGTCCTCGACAACTCGTGTGAGCAGAATCGTGAGTCG
** *
19474533 GGAAATGAGAAATGAATCCAAGATTTGGATTACAGGCCCTACGATGGCTGAGATTTATGCATAAG
66 AAAAAAGAGAAATGAATCCAAGA-TTGGATTACAGGCCCTACGATGGCTGAGATTTATGCATAAG
*
19474598 TGCATATTCTTGACAGCTCGTATGAGCAACATCGTTAAGGAACTGTTATATGCATAAATACCATA
130 TGCATATTCTCGACAGCTCGTATGAGCAACATCGTTAAGGAACTGTTATATGCATAAATACCATA
19474663 T
195 T
* * * * * * * *
19474664 CGATGGCTGGGGTACCGCATATGTTGCTAGTCC-CTGATAGCTTGTGTGAGCAGCATCGTGAGTC
1 CGATGACTGAGGTACCGCATATGTAGCGAGTCCTC-GACAACTCGTGTGAGCAGAATCGTGAGTC
* * * *
19474728 -AAAAAAGAGATATGAATCCTAA-A-TGGATTATAGGCCCTATGATGGCT-AGGATTTATGCTTA
65 GAAAAAAGAGAAATGAATCC-AAGATTGGATTACAGGCCCTACGATGGCTGA-GATTTATGCATA
* * *
19474789 ATTGCATATTCTCGACAGCTCGTGTGAGCAGCATCGTTA
128 AGTGCATATTCTCGACAGCTCGTATGAGCAACATCGTTA
19474828 GGGGACAGTT
Statistics
Matches: 141, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
192 1 0.01
193 68 0.48
195 17 0.12
196 55 0.39
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.28
Consensus pattern (195 bp):
CGATGACTGAGGTACCGCATATGTAGCGAGTCCTCGACAACTCGTGTGAGCAGAATCGTGAGTCG
AAAAAAGAGAAATGAATCCAAGATTGGATTACAGGCCCTACGATGGCTGAGATTTATGCATAAGT
GCATATTCTCGACAGCTCGTATGAGCAACATCGTTAAGGAACTGTTATATGCATAAATACCATAT
Found at i:19479864 original size:193 final size:194
Alignment explanation
Indices: 19479520--19479945 Score: 493
Period size: 193 Copynumber: 2.2 Consensus size: 194
19479510 ATGGCTAAGG
* * * **
19479520 TACCGCATATGTTGCGAGTCCTCAACAACTTGTATGAGCAGCATTGTGAGTCAAGAAATGAGAAA
1 TACCGCATATGTTGCGAGTCCTCAACAGCTCGTGTGAGCAGCATCATGAGTCAAGAAATGAGAAA
* *
19479585 TGAATCCAATATTTGGATTACAGGCCCTACGATGGATGGGATTTATGCATAAGTGCATATTGTTG
66 TGAATCCAATA-TTGGATTACAGGCCCTACGATGGATGGGATTTATGCATAAGTGCATATTCTAG
* * * *
19479650 ACAGCTTGTGTAAGCAGCATCGCTAGGAAAC-AGTTATATGCACAGATACCGTATCGATGGCTGG
130 ACAGCTCGTGTAAGCAGCATCGCTAGGAAACAATTTATA-G-ACAGACACCGTACCGATGGCTGG
19479714 GA
193 GA
* * *
19479716 TACCGCATATGTTTCGAGTCCTCAATAGCTCGTGTGAGCAGCATCATGAGTCGAA-AAA-GAGAT
1 TACCGCATATGTTGCGAGTCCTCAACAGCTCGTGTGAGCAGCATCATGAGTC-AAGAAATGAGAA
* * * * * * *
19479779 ATGAATCCTAA-A-TGGATTATAGGCTCTATGATGGCTTGGATTTATGCTTAATTGCATATTCTA
65 ATGAATCC-AATATTGGATTACAGGCCCTACGATGGATGGGATTTATGCATAAGTGCATATTCTA
* * ** * *
19479842 GACAGCTCGTGTGAGCAGCATCGTTAGGGGACAATTTATAGACAGACACCTTACCGATGGTTGGG
129 GACAGCTCGTGTAAGCAGCATCGCTAGGAAACAATTTATAGACAGACACCGTACCGATGGCTGGG
*
19479907 G
194 A
* * *
19479908 TACTGTATATGTTGCGAGTCCTCGACAGCTCGTGTGAG
1 TACCGCATATGTTGCGAGTCCTCAACAGCTCGTGTGAG
19479946 TAATATCGGG
Statistics
Matches: 194, Mismatches: 33, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
192 53 0.27
193 70 0.36
194 6 0.03
195 13 0.07
196 50 0.26
197 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (194 bp):
TACCGCATATGTTGCGAGTCCTCAACAGCTCGTGTGAGCAGCATCATGAGTCAAGAAATGAGAAA
TGAATCCAATATTGGATTACAGGCCCTACGATGGATGGGATTTATGCATAAGTGCATATTCTAGA
CAGCTCGTGTAAGCAGCATCGCTAGGAAACAATTTATAGACAGACACCGTACCGATGGCTGGGA
Found at i:19480501 original size:21 final size:21
Alignment explanation
Indices: 19480475--19480515 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
19480465 ACTTGCTTCG
*
19480475 GTAGAACTCATGCATGTATCA
1 GTAGAACTCATACATGTATCA
* *
19480496 GTAGAAGTCATACTTGTATC
1 GTAGAACTCATACATGTATC
19480516 GATAATATTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (21 bp):
GTAGAACTCATACATGTATCA
Found at i:19485753 original size:16 final size:15
Alignment explanation
Indices: 19485725--19485757 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
19485715 ACGGTTCATA
19485725 AAAGACAGATTTTTT
1 AAAGACAGATTTTTT
*
19485740 AAAGATAGATTTTTT
1 AAAGACAGATTTTTT
19485755 AAA
1 AAA
19485758 AAAATACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.39
Consensus pattern (15 bp):
AAAGACAGATTTTTT
Found at i:19498362 original size:41 final size:37
Alignment explanation
Indices: 19498267--19498380 Score: 113
Period size: 37 Copynumber: 3.0 Consensus size: 37
19498257 CTTCAAACCC
* *
19498267 CCATCTTTCTGATGAGATACAGAGAAGTGAACCAAAT
1 CCATCTTCCTGATGAGATACAGAGAAGTGAACCAAAG
* * **
19498304 CCATCTTCTTGATGAGATACAGAGAAGTGGATTAAAGG
1 CCATCTTCCTGATGAGATACAGAGAAGTGAACCAAA-G
*
19498342 CGGTCATCTTCCTGATGAGATACTGAGAAGTTG-ACCAAA
1 C---CATCTTCCTGATGAGATACAGAGAAG-TGAACCAAA
19498381 TCAATGAAAC
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
37 31 0.50
38 1 0.02
41 28 0.45
42 2 0.03
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (37 bp):
CCATCTTCCTGATGAGATACAGAGAAGTGAACCAAAG
Found at i:19499282 original size:16 final size:15
Alignment explanation
Indices: 19499254--19499286 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
19499244 TAGGTTCATA
*
19499254 AAAGACAGATTTTTT
1 AAAGACAAATTTTTT
19499269 AAAGACAAATTTTTT
1 AAAGACAAATTTTTT
19499284 AAA
1 AAA
19499287 AAAATACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.36
Consensus pattern (15 bp):
AAAGACAAATTTTTT
Found at i:19504474 original size:11 final size:11
Alignment explanation
Indices: 19504460--19504484 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
19504450 TTAAATAAAG
19504460 TTAAAATATTA
1 TTAAAATATTA
19504471 TTAAAATATTA
1 TTAAAATATTA
19504482 TTA
1 TTA
19504485 TATTAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TTAAAATATTA
Found at i:19504853 original size:19 final size:18
Alignment explanation
Indices: 19504825--19504860 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
19504815 TAGTAATAAA
*
19504825 TTTTATAATATATATATG
1 TTTTATAATATAGATATG
19504843 TTTTAATAATATAGATAT
1 TTTT-ATAATATAGATAT
19504861 TAATATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (18 bp):
TTTTATAATATAGATATG
Found at i:19505118 original size:23 final size:22
Alignment explanation
Indices: 19505092--19505134 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
19505082 TACTGAAAAT
19505092 AAATT-TCAAAAAATAATTTTAAA
1 AAATTATC-AAAAAT-ATTTTAAA
19505115 AAATTATCAAAAATATTTTA
1 AAATTATCAAAAATATTTTA
19505135 TACAAAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 11 0.58
24 2 0.11
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (22 bp):
AAATTATCAAAAATATTTTAAA
Found at i:19506670 original size:373 final size:373
Alignment explanation
Indices: 19505941--19507059 Score: 1994
Period size: 373 Copynumber: 3.0 Consensus size: 373
19505931 TTAAAAACAC
*
19505941 ATTTTTAAAGGTTAATTTGA-TTTTT-AAAATTTGTTAAT-A-ATTTTTTTTACCCGTATGCCAA
1 ATTTTTAAAGGTTAATTTGATTTTTTAAAAATTT-TTAATAAGAATTTTTTTACCCGTATGCCAA
* * *
19506002 TATAAAAAGCAAATAAAAAACTTGAAAGAGATAATAAACAAGGGCCTAAAGCCCAAACCCAACAA
65 TATAAAAAGCAAATAAAAAACCTGAAAAAGATAATAAACAAGGGTCTAAAGCCCAAACCCAACAA
*
19506067 CTGCAAACACTAACAAAACTACAAAAGAAAAACCCTAACTACAAGTCAGCAGCCAACGTTGCCGG
130 CTACAAACACTAACAAAACTACAAAAGAAAAACCCTAACTACAAGTCAGCAGCCAACGTTGCCGG
*
19506132 AGGGACAAGCGTCGATTGACGAGAGCATCATGGAGGCCAAAAGTTGGAGGCGAGGTGGATGTAAC
195 AGGGACAAGCGTCGACTGACGAGAGCATCATGGAGGCCAAAAGTTGGAGGCGAGGTGGATGTAAC
**
19506197 CATCACTTCATGTCAGCATGAACGTCTCCGAAGAGACCATGTCGAGATTGATGCCCAAAACGAAC
260 CATCACTTCATGTCAGCATGAACGTCTCCGAAGAGACCATGTCGAGACCGATGCCCAAAACGAAC
**
19506262 CCCGATGGCTGACAAGGTTGCAGGTCGACGAAATGGCGGAATCTTAGAA
325 CCCGATGGCTGACAAGGGAGCAGGTCGACGAAATGGCGGAATCTTAGAA
* *
19506311 ATTTTTAAAGGTTAATTTGATTTTTTAAAAATTTTTAATAAGAATTCTTTTACCTGTATGCCAAT
1 ATTTTTAAAGGTTAATTTGATTTTTTAAAAATTTTTAATAAGAATTTTTTTACCCGTATGCCAAT
19506376 ATAAAAAGCAAATAAAAAACCTGAAAAAGATAATAAACAAGGGTCTAAAGCCCAAACCCAACAAC
66 ATAAAAAGCAAATAAAAAACCTGAAAAAGATAATAAACAAGGGTCTAAAGCCCAAACCCAACAAC
*
19506441 TACAAACATTAACAAAACTACAAAAGAAAAACCCTAACTACAAGTCAGCAGCCAACGTTGCCGGA
131 TACAAACACTAACAAAACTACAAAAGAAAAACCCTAACTACAAGTCAGCAGCCAACGTTGCCGGA
* *
19506506 GGGACAAGCGTCAACTGACGAGAGCATCATGGAGGCCAAAAGTTGGAGGCGAGGTGGATATAACC
196 GGGACAAGCGTCGACTGACGAGAGCATCATGGAGGCCAAAAGTTGGAGGCGAGGTGGATGTAACC
19506571 ATCACTTCATGTCAGCATGAACGTCTCCGAAGAGACCATGTCGAGACCGATGCCCAAAACGAACC
261 ATCACTTCATGTCAGCATGAACGTCTCCGAAGAGACCATGTCGAGACCGATGCCCAAAACGAACC
*
19506636 CCGATGGCTGACAAGGGAGCAGGTCGACGAAATGGCGAAATCTTAGAA
326 CCGATGGCTGACAAGGGAGCAGGTCGACGAAATGGCGGAATCTTAGAA
*
19506684 ATTTTTAAAGGTTAATTTGATTTTTTAAAATTTTTTAATAAGAATTTTTTTACCCGTATGCCAAT
1 ATTTTTAAAGGTTAATTTGATTTTTTAAAAATTTTTAATAAGAATTTTTTTACCCGTATGCCAAT
19506749 ATAAAAAGCAAATAAAAAACCTGAAAAAGATAATAAACAAGGGTCTAAAGCCCAAACCCAACAAC
66 ATAAAAAGCAAATAAAAAACCTGAAAAAGATAATAAACAAGGGTCTAAAGCCCAAACCCAACAAC
* *
19506814 TACAAACACTAACAAAACTACAAAAGAAAAACCCTAACTACAAGTCAGCAGCCAACGTTGTCGAA
131 TACAAACACTAACAAAACTACAAAAGAAAAACCCTAACTACAAGTCAGCAGCCAACGTTGCCGGA
* *
19506879 GGGACAAGCGTCGACTGACGAGAGCATCATGGAGGCCAAAAGTTGGAGGCAAGGTGGATGTATCC
196 GGGACAAGCGTCGACTGACGAGAGCATCATGGAGGCCAAAAGTTGGAGGCGAGGTGGATGTAACC
*
19506944 ATCACTTCATGTCAGCATGAACGTTTCCGAAGAGACCATGTCGAGACCGATGCCCAAAACGAACC
261 ATCACTTCATGTCAGCATGAACGTCTCCGAAGAGACCATGTCGAGACCGATGCCCAAAACGAACC
*
19507009 CCGATGGCTGACAAGGGAGCAAGTCGACGAAATGGCGGAATCTTAGAA
326 CCGATGGCTGACAAGGGAGCAGGTCGACGAAATGGCGGAATCTTAGAA
19507057 ATT
1 ATT
19507060 ATGAAAGCTA
Statistics
Matches: 716, Mismatches: 29, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
370 20 0.03
371 10 0.01
372 8 0.01
373 678 0.95
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (373 bp):
ATTTTTAAAGGTTAATTTGATTTTTTAAAAATTTTTAATAAGAATTTTTTTACCCGTATGCCAAT
ATAAAAAGCAAATAAAAAACCTGAAAAAGATAATAAACAAGGGTCTAAAGCCCAAACCCAACAAC
TACAAACACTAACAAAACTACAAAAGAAAAACCCTAACTACAAGTCAGCAGCCAACGTTGCCGGA
GGGACAAGCGTCGACTGACGAGAGCATCATGGAGGCCAAAAGTTGGAGGCGAGGTGGATGTAACC
ATCACTTCATGTCAGCATGAACGTCTCCGAAGAGACCATGTCGAGACCGATGCCCAAAACGAACC
CCGATGGCTGACAAGGGAGCAGGTCGACGAAATGGCGGAATCTTAGAA
Found at i:19507791 original size:12 final size:12
Alignment explanation
Indices: 19507774--19507798 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19507764 AAACTTTTAT
19507774 AAAAATTATAAA
1 AAAAATTATAAA
19507786 AAAAATTATAAA
1 AAAAATTATAAA
19507798 A
1 A
19507799 TGCATCAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAATTATAAA
Found at i:19508143 original size:28 final size:28
Alignment explanation
Indices: 19508082--19508136 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
19508072 ATTTTATAAC
19508082 TTTTTTTTAATTTTTGATAAAATTTAAA
1 TTTTTTTTAATTTTTGATAAAATTTAAA
* *
19508110 TATTTTTT-ATTTTTTATTAAAATTTAA
1 TTTTTTTTAATTTTTGA-TAAAATTTAA
19508137 TGTTTTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 7 0.29
28 17 0.71
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (28 bp):
TTTTTTTTAATTTTTGATAAAATTTAAA
Found at i:19508916 original size:42 final size:42
Alignment explanation
Indices: 19508859--19508993 Score: 146
Period size: 42 Copynumber: 3.2 Consensus size: 42
19508849 AAAGCAATAA
* *
19508859 CGACGTTTATAGAAAAAACGCCGCTAATGCTCTGACCTTTAG
1 CGACGCTTATAGAAAAAGCGCCGCTAATGCTCTGACCTTTAG
* * * *
19508901 TGACGCTTATAGAAAAAGCACTGCTAATGCTCTGACTTTTAG
1 CGACGCTTATAGAAAAAGCGCCGCTAATGCTCTGACCTTTAG
* ** *
19508943 CGGCGCTTAT-GGGAAAGCGCCGCTAAAATGCTCTGGCCTTTAG
1 CGACGCTTATAGAAAAAGCGCCGCT--AATGCTCTGACCTTTAG
*
19508986 CGGCGCTT
1 CGACGCTT
19508994 TTCTCTGGAC
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
41 10 0.13
42 44 0.57
43 23 0.30
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.27
Consensus pattern (42 bp):
CGACGCTTATAGAAAAAGCGCCGCTAATGCTCTGACCTTTAG
Found at i:19509039 original size:107 final size:106
Alignment explanation
Indices: 19508895--19509092 Score: 272
Period size: 107 Copynumber: 1.9 Consensus size: 106
19508885 ATGCTCTGAC
* * * * * *
19508895 CTTTAGTGACGCTTATAGAAAAAGCACTGCTAATGCTCTGACTTTTAGCGGCGCTTATGGGAAAG
1 CTTTAGCGACACTTATAGAAAAAGCACCGCTAATGCTCTGACCTTTAACAGCGCTTATGGGAAAG
*
19508960 CGCCGCTAAAATGCTCTGGCCTTTAGCGGCGCTTTTCTCTGGA
66 CGCCGCT--AATGCTCTGACCTTTAGCGGCGCTTTTCTCTGGA
* * *
19509003 CTTTAGCGACACTTAT-GGAAAAGCGCCGCTAATGCTCTGGCCTTTAACAGCGCTTATGGGAAAG
1 CTTTAGCGACACTTATAGAAAAAGCACCGCTAATGCTCTGACCTTTAACAGCGCTTATGGGAAAG
*
19509067 TGCCGCTAATGCTCTGACCTTTAGCG
66 CGCCGCTAATGCTCTGACCTTTAGCG
19509093 ACGTTAATGA
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
105 18 0.23
107 47 0.59
108 14 0.18
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (106 bp):
CTTTAGCGACACTTATAGAAAAAGCACCGCTAATGCTCTGACCTTTAACAGCGCTTATGGGAAAG
CGCCGCTAATGCTCTGACCTTTAGCGGCGCTTTTCTCTGGA
Found at i:19509059 original size:41 final size:41
Alignment explanation
Indices: 19509003--19509158 Score: 156
Period size: 41 Copynumber: 3.8 Consensus size: 41
19508993 TTTCTCTGGA
* * *
19509003 CTTTAGCGACACTTATGGAAAAGCGCCGCTAATGCTCTGGC
1 CTTTAACGACGCTTATGGAAAAGCGCCGCTAATGCTCTGAC
* *
19509044 CTTTAAC-AGCGCTTATGGGAAAGTGCCGCTAATGCTCTGAC
1 CTTTAACGA-CGCTTATGGAAAAGCGCCGCTAATGCTCTGAC
* * *
19509085 CTTTAGCGACG-TTAAT-GAGAAAGTGCCGCTAATACTCTGAC
1 CTTTAACGACGCTT-ATGGA-AAAGCGCCGCTAATGCTCTGAC
* * *
19509126 CTTTAACGATGCTTATGGGAAAAACGCTGCTAA
1 CTTTAACGACGCTTAT-GGAAAAGCGCCGCTAA
19509159 AGGTTAAGTA
Statistics
Matches: 95, Mismatches: 13, Indels: 13
0.79 0.11 0.11
Matches are distributed among these distances:
40 4 0.04
41 76 0.80
42 13 0.14
43 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (41 bp):
CTTTAACGACGCTTATGGAAAAGCGCCGCTAATGCTCTGAC
Found at i:19509218 original size:5 final size:5
Alignment explanation
Indices: 19509193--19509232 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
19509183 GCTAACTTAT
* *
19509193 TTAAA TTATA TATATA TTAAA TTAAA TTAAA TTAAA TTAA
1 TTAAA TTAAA T-TAAA TTAAA TTAAA TTAAA TTAAA TTAA
19509233 CTAATAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 27 0.84
6 5 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (5 bp):
TTAAA
Found at i:19509996 original size:167 final size:168
Alignment explanation
Indices: 19509720--19510054 Score: 555
Period size: 167 Copynumber: 2.0 Consensus size: 168
19509710 AACAGCTGGA
** *
19509720 ACAGTAACAATGAAAATGGTTCCCTCTTTAGTGAGATTATATGAACAAGTGCCCGAACCTAAATA
1 ACAGTAACAATGAAAATGGCGCCCTCTTTAGTGAGATTATATGAACAAATGCCCGAACCTAAATA
19509785 TGTTATTGCTATGGGCACATGTACAATTACAGGAGGGATGTTCAGTACTGATTCTTATAGTACTA
66 TGTTATTGCTATGGGCACATGTACAATTACAGGAGGGATGTTCAGTACTGATTCTTATAGTACTA
* *
19509850 TTTGGGGG-TCGATAAGCTAATTCCCGTGGATGTCTAT
131 TTCGGGGGATCGATAAGCTAATTCCCGTAGATGTCTAT
* *
19509887 ACAGTAACAATGAAAATGGCGCTCTCTTTAGTGAGATTATATGAACAAATGCCCGAGCCTAAATA
1 ACAGTAACAATGAAAATGGCGCCCTCTTTAGTGAGATTATATGAACAAATGCCCGAACCTAAATA
* * *
19509952 TGTTATTGCTATGGGCGCGTGTACAATTACAGGAGGGATGTTCAGTACTGATTCTTATAGTACTG
66 TGTTATTGCTATGGGCACATGTACAATTACAGGAGGGATGTTCAGTACTGATTCTTATAGTACTA
* *
19510017 TTCGGGGGATGGATAAGCTAATTCCGGTAGATGTCTAT
131 TTCGGGGGATCGATAAGCTAATTCCCGTAGATGTCTAT
19510055 TTGTCGGGCT
Statistics
Matches: 155, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
167 129 0.83
168 26 0.17
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.31
Consensus pattern (168 bp):
ACAGTAACAATGAAAATGGCGCCCTCTTTAGTGAGATTATATGAACAAATGCCCGAACCTAAATA
TGTTATTGCTATGGGCACATGTACAATTACAGGAGGGATGTTCAGTACTGATTCTTATAGTACTA
TTCGGGGGATCGATAAGCTAATTCCCGTAGATGTCTAT
Found at i:19510131 original size:17 final size:16
Alignment explanation
Indices: 19510109--19510204 Score: 66
Period size: 15 Copynumber: 6.4 Consensus size: 16
19510099 CTAAATAGAG
19510109 TAAATATAAATAATAA
1 TAAATATAAATAATAA
*
19510125 CTAAATAGAAATAATAA
1 -TAAATATAAATAATAA
*
19510142 T---T-TAAATAATATT
1 TAAATATAAATAATA-A
19510155 TAAATA-AAATAATAA
1 TAAATATAAATAATAA
*
19510170 TATATAT-AATAATAGA
1 TAAATATAAATAATA-A
*
19510186 TAGA-AT-AATAA-AA
1 TAAATATAAATAATAA
19510199 TAAATA
1 TAAATA
19510205 ATATAGAAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 19
0.71 0.08 0.21
Matches are distributed among these distances:
12 8 0.12
13 6 0.09
14 2 0.03
15 19 0.30
16 14 0.22
17 15 0.23
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (16 bp):
TAAATATAAATAATAA
Found at i:19510157 original size:11 final size:12
Alignment explanation
Indices: 19510133--19510161 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
19510123 AACTAAATAG
19510133 AAATAATAATTT
1 AAATAATAATTT
19510145 AAATAAT-ATTT
1 AAATAATAATTT
19510156 AAATAA
1 AAATAA
19510162 AATAATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AAATAATAATTT
Found at i:19510180 original size:12 final size:12
Alignment explanation
Indices: 19510163--19510209 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
19510153 TTTAAATAAA
19510163 ATAATAATATAT
1 ATAATAATATAT
*
19510175 ATAATAATAGAT
1 ATAATAATATAT
* *
19510187 AGAATAATA-AA
1 ATAATAATATAT
19510198 ATAAATAATATA
1 AT-AATAATATA
19510210 GAAATATATG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 2 0.07
12 26 0.90
13 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (12 bp):
ATAATAATATAT
Found at i:19515386 original size:43 final size:43
Alignment explanation
Indices: 19515339--19515603 Score: 255
Period size: 43 Copynumber: 6.2 Consensus size: 43
19515329 ATCTGTTAAT
* * *
19515339 TTTAGCGGCCTTTTTTAGGAAAGCACCGTTAAAGACCATGTTC
1 TTTAGCGGCGTTTTTTAGGAAAGCGCCGCTAAAGACCATGTTC
* * *
19515382 TTTAGCGGCGTTATTTAGGAAACCGCCACTAAAGACCATGTTC
1 TTTAGCGGCGTTTTTTAGGAAAGCGCCGCTAAAGACCATGTTC
* * * * *
19515425 TTTAGCAGCGTTTGTGAGGAAAGTGCCGCTAAAGCCCATGTTC
1 TTTAGCGGCGTTTTTTAGGAAAGCGCCGCTAAAGACCATGTTC
* * *
19515468 TATAGCGGCG-TTTGTAGGGAAAGCGCCGCTAAAGGCCATGTTC
1 TTTAGCGGCGTTTTTTA-GGAAAGCGCCGCTAAAGACCATGTTC
* * ** * * *
19515511 TTCAACGATGTTTGTAAGGAAAGCGCCGTTAAAGACCATGTTC
1 TTTAGCGGCGTTTTTTAGGAAAGCGCCGCTAAAGACCATGTTC
* * * * *
19515554 TATAGCGGTG-TTTGTGGGAAAAGCGCCGCTAAAAACCATGTTC
1 TTTAGCGGCGTTTTTTAGG-AAAGCGCCGCTAAAGACCATGTTC
*
19515597 TATAGCG
1 TTTAGCG
19515604 AAGTTTTTCC
Statistics
Matches: 178, Mismatches: 41, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
42 7 0.04
43 168 0.94
44 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTTTTAGGAAAGCGCCGCTAAAGACCATGTTC
Found at i:19515489 original size:86 final size:86
Alignment explanation
Indices: 19515355--19515609 Score: 300
Period size: 86 Copynumber: 3.0 Consensus size: 86
19515345 GGCCTTTTTT
* * * * * *
19515355 AGGAAAGCACCGTTAAAGACCATGTTCTTTAGCGGCGTTATTTA-GGAAACCGCCACTAAAGACC
1 AGGAAAGCGCCGCTAAAGACCATGTTCTATAGCGGCGTT-TGTAGGGAAAGCGCCGCTAAAGACC
*
19515419 ATGTTCTTTAGC-AGCGTTTGTG
65 ATGTTCTTTAGCGA-CGTTTGTA
* * *
19515441 AGGAAAGTGCCGCTAAAGCCCATGTTCTATAGCGGCGTTTGTAGGGAAAGCGCCGCTAAAGGCCA
1 AGGAAAGCGCCGCTAAAGACCATGTTCTATAGCGGCGTTTGTAGGGAAAGCGCCGCTAAAGACCA
* * *
19515506 TGTTCTTCAACGATGTTTGTA
66 TGTTCTTTAGCGACGTTTGTA
* * *
19515527 AGGAAAGCGCCGTTAAAGACCATGTTCTATAGCGGTGTTTGT-GGGAAAAGCGCCGCTAAAAACC
1 AGGAAAGCGCCGCTAAAGACCATGTTCTATAGCGGCGTTTGTAGGG-AAAGCGCCGCTAAAGACC
* *
19515591 ATGTTCTATAGCGAAGTTT
65 ATGTTCTTTAGCGACGTTT
19515610 TTCCTCATAA
Statistics
Matches: 143, Mismatches: 23, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
85 6 0.04
86 136 0.95
87 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (86 bp):
AGGAAAGCGCCGCTAAAGACCATGTTCTATAGCGGCGTTTGTAGGGAAAGCGCCGCTAAAGACCA
TGTTCTTTAGCGACGTTTGTA
Found at i:19523570 original size:18 final size:18
Alignment explanation
Indices: 19523544--19523591 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
19523534 AGTCAAGCTC
* *
19523544 CTTTATTTGCTTTTCTTG
1 CTTTGTTTGCTTTTCTCG
*
19523562 CTTTGTTTGTTTTTCTCG
1 CTTTGTTTGCTTTTCTCG
*
19523580 TTTTGTTTGCTT
1 CTTTGTTTGCTT
19523592 GAGGACAAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.02, C:0.15, G:0.15, T:0.69
Consensus pattern (18 bp):
CTTTGTTTGCTTTTCTCG
Found at i:19524996 original size:24 final size:24
Alignment explanation
Indices: 19524969--19525037 Score: 102
Period size: 24 Copynumber: 2.9 Consensus size: 24
19524959 AGTTTGACTC
* *
19524969 AAACAAATAGACAGAGTTTAATTG
1 AAACAAATAAATAGAGTTTAATTG
*
19524993 AAACCAATAAATAGAGTTTAATTG
1 AAACAAATAAATAGAGTTTAATTG
*
19525017 AAACAATTAAATAGAGTTTAA
1 AAACAAATAAATAGAGTTTAA
19525038 CTAAAAGATT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.52, C:0.07, G:0.13, T:0.28
Consensus pattern (24 bp):
AAACAAATAAATAGAGTTTAATTG
Found at i:19527020 original size:24 final size:24
Alignment explanation
Indices: 19526981--19527048 Score: 111
Period size: 24 Copynumber: 2.9 Consensus size: 24
19526971 AGTTTGACTC
19526981 AAACAAA-AAACAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
19527004 AAACAAATAAACAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
* *
19527028 AAATAATTAAACAGAGTTTAA
1 AAACAAATAAACAGAGTTTAA
19527049 CTAAAAGATT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
23 7 0.17
24 35 0.83
ACGTcount: A:0.56, C:0.07, G:0.12, T:0.25
Consensus pattern (24 bp):
AAACAAATAAACAGAGTTTAATTG
Found at i:19541562 original size:30 final size:29
Alignment explanation
Indices: 19541477--19541758 Score: 348
Period size: 30 Copynumber: 9.4 Consensus size: 29
19541467 TTTGAGGGTG
* * *
19541477 AAATGGTAATTTTTGAAAGTTTCGGGGTAA
1 AAAT-GTAATTTTGGAAAGTTTTGGGGTCA
* *
19541507 AAATGCAATTTTTAGAAAAGTTTTGGGGTCA
1 AAATGTAA-TTTT-GGAAAGTTTTGGGGTCA
*
19541538 AAATGTAATTTTGGAAAGGTTTTGGGGTTA
1 AAATGTAATTTTGGAAA-GTTTTGGGGTCA
* * * *
19541568 AAATGTAATTTTGGGAAGTCTCGAGGTCA
1 AAATGTAATTTTGGAAAGTTTTGGGGTCA
19541597 AAATGTAATTTTGGAAAAGTTTTGGGGTCA
1 AAATGTAATTTTGG-AAAGTTTTGGGGTCA
*
19541627 AAATGTAATTTTGGGAAAGTTTTAGGGTCA
1 AAATGTAATTTT-GGAAAGTTTTGGGGTCA
* *
19541657 AAATGTAATTTTGGGAAAGTTTTAGGGTTA
1 AAATGTAATTTT-GGAAAGTTTTGGGGTCA
19541687 AAATGTAATTTTGGAAAAGTTTTGGGGTCA
1 AAATGTAATTTTGG-AAAGTTTTGGGGTCA
* *
19541717 AAATGTAATTTTGGAAAAGTTTTAGGGTTA
1 AAATGTAATTTTGG-AAAGTTTTGGGGTCA
19541747 AAATGTAATTTT
1 AAATGTAATTTT
19541759 TGGATAATTT
Statistics
Matches: 223, Mismatches: 23, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
29 31 0.14
30 170 0.76
31 22 0.10
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.38
Consensus pattern (29 bp):
AAATGTAATTTTGGAAAGTTTTGGGGTCA
Found at i:19541607 original size:90 final size:87
Alignment explanation
Indices: 19541464--19541758 Score: 385
Period size: 90 Copynumber: 3.3 Consensus size: 87
19541454 GAATTTAAGG
* * * * * * *
19541464 AAGTTTGAGGG-TGAAATGGTAATTTTTGAAAGTTTCGGGGTAAAAATGCAATTTTTAGAAAAGT
1 AAGTTTTAGGGTTAAAAT-GTAATTTTGGGAAG-TTCGAGGTAAAAATGTAA-TTTTGGAAAAGT
19541528 TTTGGGGTCAAAATGTAATTTTGGA
63 TTTGGGGTCAAAATGTAATTTTGGA
* *
19541553 AAGGTTTTGGGGTTAAAATGTAATTTTGGGAAGTCTCGAGGTCAAAATGTAATTTTGGAAAAGTT
1 AA-GTTTTAGGGTTAAAATGTAATTTTGGGAAGT-TCGAGGTAAAAATGTAATTTTGGAAAAGTT
19541618 TTGGGGTCAAAATGTAATTTTGGGA
64 TTGGGGTCAAAATGTAATTTT-GGA
* ** *
19541643 AAGTTTTAGGGTCAAAATGTAATTTTGGGAAAGTTTTAGGGTTAAAATGTAATTTTGGAAAAGTT
1 AAGTTTTAGGGTTAAAATGTAATTTTGGG-AAGTTCGA-GGTAAAAATGTAATTTTGGAAAAGTT
19541708 TTGGGGTCAAAATGTAATTTTGGAA
64 TTGGGGTCAAAATGTAATTTTGG-A
19541733 AAGTTTTAGGGTTAAAATGTAATTTT
1 AAGTTTTAGGGTTAAAATGTAATTTT
19541759 TGGATAATTT
Statistics
Matches: 184, Mismatches: 15, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
89 65 0.35
90 114 0.62
91 5 0.03
ACGTcount: A:0.33, C:0.03, G:0.26, T:0.37
Consensus pattern (87 bp):
AAGTTTTAGGGTTAAAATGTAATTTTGGGAAGTTCGAGGTAAAAATGTAATTTTGGAAAAGTTTT
GGGGTCAAAATGTAATTTTGGA
Found at i:19543384 original size:22 final size:20
Alignment explanation
Indices: 19543344--19543381 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
19543334 CAGGGCATGG
19543344 TGGAGCTTGGTGGTGGCAGA
1 TGGAGCTTGGTGGTGGCAGA
19543364 TGGAGC-TGGTGGTGGCAG
1 TGGAGCTTGGTGGTGGCAG
19543382 CAGCACGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.13, C:0.11, G:0.53, T:0.24
Consensus pattern (20 bp):
TGGAGCTTGGTGGTGGCAGA
Done.