Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 174 of 199
Found at i:50641089 original size:15 final size:15
Alignment explanation
Indices: 50641069--50641101 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
50641059 CCCCGGTAAA
50641069 GTTTTT-TTTGTTTTT
1 GTTTTTATTT-TTTTT
50641084 GTTTTTATTTTTTTT
1 GTTTTTATTTTTTTT
50641099 GTT
1 GTT
50641102 GCCTCCACTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 14 0.82
16 3 0.18
ACGTcount: A:0.03, C:0.00, G:0.12, T:0.85
Consensus pattern (15 bp):
GTTTTTATTTTTTTT
Found at i:50645832 original size:13 final size:12
Alignment explanation
Indices: 50645810--50645857 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
50645800 AAAATAAAAT
50645810 CAATAATAATAA
1 CAATAATAATAA
50645822 CAATGAATAATAA
1 CAAT-AATAATAA
* *
50645835 CAGTAATAACAA
1 CAATAATAATAA
*
50645847 TAATAA-AATAA
1 CAATAATAATAA
50645858 ACACATAACA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
11 4 0.13
12 15 0.50
13 11 0.37
ACGTcount: A:0.65, C:0.08, G:0.04, T:0.23
Consensus pattern (12 bp):
CAATAATAATAA
Found at i:50646008 original size:3 final size:3
Alignment explanation
Indices: 50646002--50646030 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
50645992 CATAATAATA
50646002 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
50646031 AATGGTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:50646375 original size:15 final size:15
Alignment explanation
Indices: 50646350--50646384 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
50646340 GACTCTATTT
*
50646350 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
50646364 TAATTAATATTAAGA
1 TAATTAATATTAAGA
50646379 TAATTA
1 TAATTA
50646385 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:50650343 original size:5 final size:5
Alignment explanation
Indices: 50650313--50650393 Score: 80
Period size: 5 Copynumber: 16.4 Consensus size: 5
50650303 TCAACCCAAT
*
50650313 TTTTA TTTT- TATTA TTATTA -TTTA TTTTA TTTTA TTTTA TTTTA -TTTA
1 TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
* *
50650361 -TTTA CTTTA TTTATTA CTTTA TTTTA TTTTA TT
1 TTTTA TTTTA -TT-TTA TTTTA TTTTA TTTTA TT
50650394 ATTTATTACT
Statistics
Matches: 65, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
4 14 0.22
5 43 0.66
6 5 0.08
7 3 0.05
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:50650352 original size:25 final size:25
Alignment explanation
Indices: 50650313--50650408 Score: 98
Period size: 24 Copynumber: 4.1 Consensus size: 25
50650303 TCAACCCAAT
*
50650313 TTTTATTTT-TATTATTATTATTTA
1 TTTTATTTTATTTTATTATTATTTA
50650337 TTTTATTTTATTTTATT-TTATTTA
1 TTTTATTTTATTTTATTATTATTTA
* *
50650361 -TTTACTTTA-TTTATTA--CTTTA
1 TTTTATTTTATTTTATTATTATTTA
* *
50650382 TTTTATTTTATTAT-TTATTACTTA
1 TTTTATTTTATTTTATTATTATTTA
50650406 TTT
1 TTT
50650409 GGATCTTAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
21 4 0.07
22 17 0.29
23 10 0.17
24 22 0.37
25 6 0.10
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (25 bp):
TTTTATTTTATTTTATTATTATTTA
Found at i:50650371 original size:40 final size:37
Alignment explanation
Indices: 50650314--50650408 Score: 114
Period size: 35 Copynumber: 2.7 Consensus size: 37
50650304 CAACCCAATT
*
50650314 TTTATTTTTATTA-TTATTA-TTTA-TT-TTATTTTAT
1 TTTA-TTTTATTATTTATTACTTTATTTATTACTTTAT
*
50650348 TTTATTTTATT-TAT-TTACTTTATTTATTACTTTAT
1 TTTATTTTATTATTTATTACTTTATTTATTACTTTAT
50650383 TTTATTTTATTATTTATTAC-TTATTT
1 TTTATTTTATTATTTATTACTTTATTT
50650409 GGATCTTAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
32 3 0.06
33 12 0.23
34 6 0.12
35 19 0.37
36 8 0.15
37 4 0.08
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (37 bp):
TTTATTTTATTATTTATTACTTTATTTATTACTTTAT
Found at i:50651745 original size:15 final size:15
Alignment explanation
Indices: 50651712--50651763 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
50651702 TATAAATAAT
**
50651712 AAATAAATCAAAATCA
1 AAATAAAT-AAAAAGA
50651728 AAATAAATAAAAAGA
1 AAATAAATAAAAAGA
* *
50651743 AAAAAAAGAAAAAGA
1 AAATAAATAAAAAGA
*
50651758 ATATAA
1 AAATAA
50651764 TTTGGGGACT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 22 0.73
16 8 0.27
ACGTcount: A:0.77, C:0.04, G:0.06, T:0.13
Consensus pattern (15 bp):
AAATAAATAAAAAGA
Found at i:50651746 original size:16 final size:16
Alignment explanation
Indices: 50651712--50651758 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
50651702 TATAAATAAT
* **
50651712 AAATAAATCAAAATCA
1 AAATAAATAAAAAGAA
50651728 AAATAAATAAAAAGAA
1 AAATAAATAAAAAGAA
*
50651744 AAA-AAAGAAAAAGAA
1 AAATAAATAAAAAGAA
50651759 TATAATTTGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
15 11 0.41
16 16 0.59
ACGTcount: A:0.79, C:0.04, G:0.06, T:0.11
Consensus pattern (16 bp):
AAATAAATAAAAAGAA
Found at i:50652341 original size:15 final size:15
Alignment explanation
Indices: 50652316--50652350 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
50652306 AACTCTATTT
*
50652316 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
50652330 TAATTAATATTAAGA
1 TAATTAATATTAAGA
50652345 TAATTA
1 TAATTA
50652351 TTCAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:50654892 original size:2 final size:2
Alignment explanation
Indices: 50654881--50654913 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
50654871 TCTATAAAAT
50654881 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
50654914 CACACACACA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:50659070 original size:58 final size:58
Alignment explanation
Indices: 50658980--50659101 Score: 228
Period size: 58 Copynumber: 2.1 Consensus size: 58
50658970 GATGTATTCT
50658980 ATTGTTTGATTTATACTTTTATGCAATAAAACATTAGTTTCTTTGTTTTCAATTATGA
1 ATTGTTTGATTTATACTTTTATGCAATAAAACATTAGTTTCTTTGTTTTCAATTATGA
*
50659038 ATTGTTTGATTTATATTTTTATGCAATAAAACATTAGTTTCTTTGTTTTCAATTATGA
1 ATTGTTTGATTTATACTTTTATGCAATAAAACATTAGTTTCTTTGTTTTCAATTATGA
50659096 A-TGTTT
1 ATTGTTT
50659102 AATTGTTCTT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
57 5 0.08
58 58 0.92
ACGTcount: A:0.29, C:0.07, G:0.11, T:0.53
Consensus pattern (58 bp):
ATTGTTTGATTTATACTTTTATGCAATAAAACATTAGTTTCTTTGTTTTCAATTATGA
Found at i:50660089 original size:20 final size:18
Alignment explanation
Indices: 50660047--50660089 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
50660037 AATTTGGAAT
*
50660047 TTTTTATAAATATTTTAA
1 TTTTTAAAAATATTTTAA
*
50660065 ATTTTAAAAATTACTTTTAA
1 TTTTTAAAAA-TA-TTTTAA
50660085 TTTTT
1 TTTTT
50660090 TTAATTTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 8 0.40
19 2 0.10
20 10 0.50
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTTAAAAATATTTTAA
Found at i:50660771 original size:76 final size:74
Alignment explanation
Indices: 50660657--50660814 Score: 212
Period size: 76 Copynumber: 2.1 Consensus size: 74
50660647 CAACTTTTTC
50660657 AAAAAAAGCAATTAAGCCCTTCCTCTTCTTTTTTTTTTTTTGCACTCAATT-GAGCACTTGAACT
1 AAAAAAAGCAATTAAG--CTTCCTCTTCTTTTTTTTTTTTTGCACTCAATTGGA-CACTTGAACT
50660721 TTCAAAATGCAT
63 TTCAAAATGCAT
* * *
50660733 AAAAAAAGCAATTAAG-TTCTCTTTTTTTTTTCCTTTTTTTTGCACTCAATTGGATACTTGAACT
1 AAAAAAAGCAATTAAGCTTC-CTCTTCTTTTT--TTTTTTTTGCACTCAATTGGACACTTGAACT
50660797 TTCAAAATGCAT
63 TTCAAAATGCAT
*
50660809 CAAAAA
1 AAAAAA
50660815 GACCCTTAAA
Statistics
Matches: 74, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
73 3 0.04
74 9 0.12
76 60 0.81
77 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (74 bp):
AAAAAAAGCAATTAAGCTTCCTCTTCTTTTTTTTTTTTTGCACTCAATTGGACACTTGAACTTTC
AAAATGCAT
Found at i:50660903 original size:19 final size:18
Alignment explanation
Indices: 50660879--50660936 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
50660869 TAAAAGCAAA
50660879 TAAATTTTAGATAAATTAT
1 TAAATTTTA-ATAAATTAT
*
50660898 TAAATTTTAATAAAATAT
1 TAAATTTTAATAAATTAT
* *
50660916 AAAATTTTAA-AATTTAT
1 TAAATTTTAATAAATTAT
50660933 TAAA
1 TAAA
50660937 AATTAGAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
17 8 0.24
18 17 0.50
19 9 0.26
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
TAAATTTTAATAAATTAT
Found at i:50660975 original size:29 final size:29
Alignment explanation
Indices: 50660916--50661014 Score: 85
Period size: 29 Copynumber: 3.4 Consensus size: 29
50660906 AATAAAATAT
* * *
50660916 AAAATTTTAAAATTTATTAAAAATTAGAA
1 AAAATTTTAAAAATTATAAAAAAGTAGAA
*
50660945 AAAATTTTATAAAATTGTAAAAAAGTA-AA
1 AAAATTTTA-AAAATTATAAAAAAGTAGAA
* * * *
50660974 AAAATTGTAAAATTTTATAAAAAA-CATAA
1 AAAATTTTAAAA-ATTATAAAAAAGTAGAA
*
50661003 AAAATTATAAAA
1 AAAATTTTAAAA
50661015 TACATCAAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
28 4 0.07
29 41 0.71
30 13 0.22
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (29 bp):
AAAATTTTAAAAATTATAAAAAAGTAGAA
Found at i:50660995 original size:19 final size:19
Alignment explanation
Indices: 50660916--50660996 Score: 67
Period size: 19 Copynumber: 4.2 Consensus size: 19
50660906 AATAAAATAT
*
50660916 AAAATTTTAAAA-TTTATTA
1 AAAATTGTAAAATTTTA-TA
*
50660935 AAAATTAGAAAAAATTTTAT-
1 AAAATT-G-TAAAATTTTATA
*** *
50660955 AAAATTGTAAAAAAGTAAA
1 AAAATTGTAAAATTTTATA
50660974 AAAATTGTAAAATTTTATA
1 AAAATTGTAAAATTTTATA
50660993 AAAA
1 AAAA
50660997 ACATAAAAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
18 6 0.13
19 26 0.55
20 6 0.13
21 5 0.11
22 4 0.09
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (19 bp):
AAAATTGTAAAATTTTATA
Found at i:50661003 original size:19 final size:19
Alignment explanation
Indices: 50660988--50661027 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
50660978 TTGTAAAATT
50660988 TTATAAAAAACATAAAAAA
1 TTATAAAAAACATAAAAAA
*
50661007 TTATAAAATACATCAAAAAA
1 TTATAAAAAACAT-AAAAAA
50661027 T
1 T
50661028 CCTTTTAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (19 bp):
TTATAAAAAACATAAAAAA
Found at i:50661012 original size:10 final size:10
Alignment explanation
Indices: 50660924--50661014 Score: 69
Period size: 10 Copynumber: 9.3 Consensus size: 10
50660914 ATAAAATTTT
* *
50660924 AAAATTTATT
1 AAAAATTATA
*
50660934 AAAAATTAGA
1 AAAAATTATA
*
50660944 AAAAATTTTA
1 AAAAATTATA
* *
50660954 TAAAATTGTA
1 AAAAATTATA
*
50660964 AAAAAGTA-A
1 AAAAATTATA
*
50660973 AAAAATTGTA
1 AAAAATTATA
**
50660983 AAATTTTATA
1 AAAAATTATA
*
50660993 AAAAA-CATA
1 AAAAATTATA
50661002 AAAAATTATA
1 AAAAATTATA
50661012 AAA
1 AAA
50661015 TACATCAAAA
Statistics
Matches: 60, Mismatches: 19, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
9 15 0.25
10 45 0.75
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (10 bp):
AAAAATTATA
Found at i:50661280 original size:29 final size:30
Alignment explanation
Indices: 50661247--50661316 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
50661237 TTACATTTTG
50661247 TATAATTTTCTTT-TGA-CTTTATAAAATTT
1 TATAATTTT-TTTATGATCTTTATAAAATTT
*
50661276 TATAATTTTTTTATGATTTTTATAAAATTT
1 TATAATTTTTTTATGATCTTTATAAAATTT
*
50661306 TACAATTTTTT
1 TATAATTTTTT
50661317 ATATTTTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 3 0.08
29 12 0.32
30 22 0.59
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.61
Consensus pattern (30 bp):
TATAATTTTTTTATGATCTTTATAAAATTT
Found at i:50665409 original size:43 final size:43
Alignment explanation
Indices: 50665359--50665625 Score: 349
Period size: 43 Copynumber: 6.2 Consensus size: 43
50665349 AGAAAAGAAT
* *
50665359 GCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTTCCAAAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCACAAAC
* *
50665402 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTGCCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCACAAAC
* *
50665445 GCCGCTAAAGACCAAGACCTTTAGCGGCGGTTTTCCCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCACAAAC
* * *
50665488 GCCGCTATAGACCAAGACCTTTAGCGGCGCTTTTCCCGA-AAGC
1 GCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCC-ACAAAC
* **
50665531 GCCGCTATAGACCACTACCTTTAGCGACGCTTTTCCCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCACAAAC
* ** **
50665574 GCCGCTATAGACCACTACCTTTAGC-AGCGCTTTTATCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGA-CGCTTTTCCCACAAAC
50665617 GCCGCTAAA
1 GCCGCTAAA
50665626 AATATAACCT
Statistics
Matches: 206, Mismatches: 15, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
42 2 0.01
43 203 0.99
44 1 0.00
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (43 bp):
GCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCACAAAC
Found at i:50665973 original size:24 final size:24
Alignment explanation
Indices: 50665939--50666001 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
50665929 TAATACATAT
50665939 GAAAAATTAAAACACAGACAGTAAC
1 GAAAAA-TAAAACACAGACAGTAAC
*
50665964 GAAAACTAAAACACAGACAGTAAC
1 GAAAAATAAAACACAGACAGTAAC
*
50665988 GAAAAATTAAACAC
1 GAAAAATAAAACAC
50666002 CACACAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
24 30 0.86
25 5 0.14
ACGTcount: A:0.60, C:0.17, G:0.11, T:0.11
Consensus pattern (24 bp):
GAAAAATAAAACACAGACAGTAAC
Found at i:50668271 original size:68 final size:68
Alignment explanation
Indices: 50668162--50668333 Score: 326
Period size: 68 Copynumber: 2.5 Consensus size: 68
50668152 CAAGTGATTA
*
50668162 AAAAGTTGCACATTACCCACATCCAAGCCGATTAAAAGTTAAAAAGGATAAGCTATTAAAAGTTA
1 AAAAGTTGCACATTACCCACATCCAAGCCGATTAAAAGTTAAAAAAGATAAGCTATTAAAAGTTA
50668227 AAT
66 AAT
*
50668230 AAAAGTTGCACATTACCCACATCCAAGCCGATTAAAAGTTAAAAAAGATAAGCTCTTAAAAGTTA
1 AAAAGTTGCACATTACCCACATCCAAGCCGATTAAAAGTTAAAAAAGATAAGCTATTAAAAGTTA
50668295 AAT
66 AAT
50668298 AAAAGTTGCACATTACCCACATCCAAGCCGATTAAA
1 AAAAGTTGCACATTACCCACATCCAAGCCGATTAAA
50668334 TTATACTTAA
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 102 1.00
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (68 bp):
AAAAGTTGCACATTACCCACATCCAAGCCGATTAAAAGTTAAAAAAGATAAGCTATTAAAAGTTA
AAT
Found at i:50669618 original size:5 final size:5
Alignment explanation
Indices: 50669608--50669633 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
50669598 TGAGCATTCG
50669608 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
50669634 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:50670429 original size:31 final size:30
Alignment explanation
Indices: 50670394--50670453 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
50670384 GGAGGTGGGA
*
50670394 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* * *
50670425 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
50670454 TAAAAAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:50670682 original size:9 final size:9
Alignment explanation
Indices: 50670668--50670704 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
50670658 TATAGTTTGA
50670668 TATTCGAAT
1 TATTCGAAT
50670677 TATTCGAAT
1 TATTCGAAT
**
50670686 TATTCGAGC
1 TATTCGAAT
50670695 TATTCGAAT
1 TATTCGAAT
50670704 T
1 T
50670705 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.43
Consensus pattern (9 bp):
TATTCGAAT
Found at i:50670775 original size:9 final size:9
Alignment explanation
Indices: 50670758--50670788 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
50670748 TCGAGTTGAT
50670758 TCGAATAAC
1 TCGAATAAC
*
50670767 TCGATTAAC
1 TCGAATAAC
50670776 TCGAATAAC
1 TCGAATAAC
50670785 TCGA
1 TCGA
50670789 TTCATTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:50672704 original size:21 final size:22
Alignment explanation
Indices: 50672680--50672720 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
50672670 CACTAACTCT
*
50672680 TAACCCCAAACCCC-AAACCCA
1 TAACCACAAACCCCTAAACCCA
*
50672701 TAACCACTAACCCCTAAACC
1 TAACCACAAACCCCTAAACC
50672721 TTATTTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.41, C:0.49, G:0.00, T:0.10
Consensus pattern (22 bp):
TAACCACAAACCCCTAAACCCA
Found at i:50672801 original size:33 final size:32
Alignment explanation
Indices: 50672759--50672825 Score: 89
Period size: 33 Copynumber: 2.1 Consensus size: 32
50672749 AATTAATCTA
* *
50672759 AATCCTAAACCCTAACCCGACCCTAAATCTCT
1 AATCCTAAACCCTAACCCAACCCTAAATCCCT
* *
50672791 AATCCTTAAACCCTAACTCAACCCTGAATCCCT
1 AATCC-TAAACCCTAACCCAACCCTAAATCCCT
50672824 AA
1 AA
50672826 CCCCTAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 5 0.17
33 25 0.83
ACGTcount: A:0.36, C:0.39, G:0.03, T:0.22
Consensus pattern (32 bp):
AATCCTAAACCCTAACCCAACCCTAAATCCCT
Found at i:50672959 original size:14 final size:14
Alignment explanation
Indices: 50672942--50672971 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
50672932 ACCCCTAACC
50672942 CATAAACCTTAAAT
1 CATAAACCTTAAAT
*
50672956 CATAACCCTTAAAT
1 CATAAACCTTAAAT
50672970 CA
1 CA
50672972 GAATCCCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (14 bp):
CATAAACCTTAAAT
Found at i:50676460 original size:41 final size:41
Alignment explanation
Indices: 50676403--50676680 Score: 364
Period size: 41 Copynumber: 6.8 Consensus size: 41
50676393 TTTTATTATT
* ** *
50676403 ATTAGCGACGCTTTTTCAAAAACGATGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGC
* *
50676444 ATTAGCGGCGCTTTTTCAAAAACGCCACTAAAGGCCAAAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGC
*
50676485 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGC
* * *
50676526 GTTAGCGGCGCTTTAAT-AAAAACGTCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTT-TTCAAAAACGCCGCTAAAGGCCAGAGC
* *
50676567 ATTAGCGGCACTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGC
* *
50676608 GTTAGCGGCGCTTTAAT-AAAAACGCCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTT-TTCAAAAACGCCGCTAAAGGCCAGAGC
* *
50676649 ATTAGCGGTGCTTTAAT-AAAAACGCCGCTAAA
1 ATTAGCGGCGCTTT-TTCAAAAACGCCGCTAAA
50676681 TGCCCCAAAA
Statistics
Matches: 210, Mismatches: 24, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
40 1 0.00
41 207 0.99
42 2 0.01
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.20
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGC
Found at i:50676547 original size:82 final size:82
Alignment explanation
Indices: 50676403--50676685 Score: 426
Period size: 82 Copynumber: 3.5 Consensus size: 82
50676393 TTTTATTATT
* ** * *
50676403 ATTAGCGACGCTTTTTCAAAAACGATGCTAAAGGCCCGAGCATTAGCGGCGCTTT-TTCAAAAAC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCGTTAGCGGCGCTTTAAT-AAAAAC
* *
50676467 GCCACTAAAGGCCAAAGC
65 GCCGCTAAAGGCCAGAGC
50676485 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCGTTAGCGGCGCTTTAATAAAAACG
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCGTTAGCGGCGCTTTAATAAAAACG
*
50676550 TCGCTAAAGGCCAGAGC
66 CCGCTAAAGGCCAGAGC
*
50676567 ATTAGCGGCACTTTTTCAAAAACGCCGCTAAAGGCCCGAGCGTTAGCGGCGCTTTAATAAAAACG
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCGTTAGCGGCGCTTTAATAAAAACG
50676632 CCGCTAAAGGCCAGAGC
66 CCGCTAAAGGCCAGAGC
* * *
50676649 ATTAGCGGTGCTTTAAT-AAAAACGCCGCTAAATGCCC
1 ATTAGCGGCGCTTT-TTCAAAAACGCCGCTAAAGGCCC
50676686 CAAAAACTCA
Statistics
Matches: 185, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
82 183 0.99
83 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.20
Consensus pattern (82 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCGTTAGCGGCGCTTTAATAAAAACG
CCGCTAAAGGCCAGAGC
Found at i:50676855 original size:40 final size:41
Alignment explanation
Indices: 50676749--50676855 Score: 139
Period size: 40 Copynumber: 2.7 Consensus size: 41
50676739 AAAAATGCCA
*
50676749 CTAATGCTT-ATTTTTAGCGGCG-TTTTACAAAAAGCGCTG
1 CTAATGCTTGATTTTTAGCGGCGTTTTTACAAAAAGCGCCG
* ** *
50676788 CTAATGCTCGACCTTTAGCGGCGTTTTTA-TAAAAGCGCCG
1 CTAATGCTTGATTTTTAGCGGCGTTTTTACAAAAAGCGCCG
*
50676828 CTAATGCTTGATTTTTAGTGGCGTTTTT
1 CTAATGCTTGATTTTTAGCGGCGTTTTT
50676856 TTGTCCAAAC
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
39 8 0.14
40 44 0.77
41 5 0.09
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (41 bp):
CTAATGCTTGATTTTTAGCGGCGTTTTTACAAAAAGCGCCG
Found at i:50676879 original size:12 final size:12
Alignment explanation
Indices: 50676862--50676887 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
50676852 TTTTTTGTCC
50676862 AAACGCCGCTAA
1 AAACGCCGCTAA
50676874 AAACGCCGCTAA
1 AAACGCCGCTAA
50676886 AA
1 AA
50676888 GCATGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:50677623 original size:86 final size:86
Alignment explanation
Indices: 50677533--50677719 Score: 230
Period size: 86 Copynumber: 2.2 Consensus size: 86
50677523 CGCTTCGACC
* * * **
50677533 ACAAACGCCACTAAAGAACCAAATCTTTAGCGGCGCTTTCCCCACAAATGCCGCTAAAGACCATG
1 ACAAACGCCACTAAAGAACCAAATCTTTAGCGGCGCTTTCACCAAAAACGCCGCTAAAGACCAAC
*
50677598 ATCTTTAGTGGCGCTTTTTCT
66 ACCTTTAGTGGCGCTTTTTCT
* * ** * * *
50677619 ACAAACGCCGCTAAAGACCCTTATCTTTAGCGGCGCTTTTATCAAAAACGCCGCTAAAGGCCAAC
1 ACAAACGCCACTAAAGAACCAAATCTTTAGCGGCGCTTTCACCAAAAACGCCGCTAAAGACCAAC
* *
50677684 ACCTTTAGTGGCGTTTTTTTT
66 ACCTTTAGTGGCGCTTTTTCT
*
50677705 AAAAACGCCACTAAA
1 ACAAACGCCACTAAA
50677720 TTTGGCAGAT
Statistics
Matches: 84, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
86 84 1.00
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (86 bp):
ACAAACGCCACTAAAGAACCAAATCTTTAGCGGCGCTTTCACCAAAAACGCCGCTAAAGACCAAC
ACCTTTAGTGGCGCTTTTTCT
Found at i:50677690 original size:43 final size:42
Alignment explanation
Indices: 50677513--50677719 Score: 173
Period size: 43 Copynumber: 4.8 Consensus size: 42
50677503 AAGATTAGGG
** * *
50677513 TCTTTAGCGGCGCTTCGACCACAAACGCCACTAAAGAACCAAA
1 TCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAG-ACCAAA
*** * *
50677556 TCTTTAGCGGCGCTTTCCCCACAAATGCCGCTAAAGACCATGA
1 TCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGACCA-AA
* **
50677599 TCTTTAGTGGCGCTTTT-TCTACAAACGCCGCTAAAGACCCTTA
1 TCTTTAGCGGCGCTTTTATC-ACAAACGCCGCTAAAGA-CCAAA
* *
50677642 TCTTTAGCGGCGCTTTTATCAAAAACGCCGCTAAAGGCCAACA
1 TCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGACCAA-A
* * * * * * *
50677685 CCTTTAGTGGCGTTTTTTTTAAAAACGCCACTAAA
1 TCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAA
50677720 TTTGGCAGAT
Statistics
Matches: 136, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
42 7 0.05
43 125 0.92
44 4 0.03
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (42 bp):
TCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGACCAAA
Found at i:50678120 original size:21 final size:21
Alignment explanation
Indices: 50678025--50678117 Score: 105
Period size: 21 Copynumber: 4.4 Consensus size: 21
50678015 TTTGACGCTG
50678025 CTCTACTTCCCTCGCTGCAGC
1 CTCTACTTCCCTCGCTGCAGC
**
50678046 CTCTACTTCCCTCGCTATAGC
1 CTCTACTTCCCTCGCTGCAGC
* *
50678067 CTCTGCTTCCCTCGCTGTAGC
1 CTCTACTTCCCTCGCTGCAGC
* * * *
50678088 CTGTACCTCTCTCGCTGCCGC
1 CTCTACTTCCCTCGCTGCAGC
*
50678109 CTCTGCTTC
1 CTCTACTTC
50678118 TCTTGTTGCC
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.08, C:0.45, G:0.15, T:0.32
Consensus pattern (21 bp):
CTCTACTTCCCTCGCTGCAGC
Found at i:50678224 original size:66 final size:65
Alignment explanation
Indices: 50678128--50678278 Score: 198
Period size: 66 Copynumber: 2.3 Consensus size: 65
50678118 TCTTGTTGCC
* * * *
50678128 GCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATA-CTTTCATTGAACCTCAGCTTCTCTCGCTG
1 GCATCTCCTTTAAGTTG-TGCTGGAATTCTTCATATCTTT-ATTGAACCTCAGCTTCTCTCGATG
50678192 TT
64 TT
*
50678194 GCATCTCCTTTAAGTTGTAGCTGGAATTCTTCATATCTTTTTTGAACCTCAGCTTCTCTCGATGT
1 GCATCTCCTTTAAGTTGT-GCTGGAATTCTTCATATCTTTATTGAACCTCAGCTTCTCTCGATGT
50678259 T
65 T
*
50678260 GCCTC-CGCTTTAAGTTGTG
1 GCATCTC-CTTTAAGTTGTG
50678279 TAATTTGCTC
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
65 3 0.04
66 69 0.91
67 4 0.05
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.41
Consensus pattern (65 bp):
GCATCTCCTTTAAGTTGTGCTGGAATTCTTCATATCTTTATTGAACCTCAGCTTCTCTCGATGTT
Found at i:50683817 original size:9 final size:9
Alignment explanation
Indices: 50683768--50684127 Score: 238
Period size: 9 Copynumber: 42.8 Consensus size: 9
50683758 AATTGCACAG
50683768 GTAAGTTAT
1 GTAAGTTAT
50683777 GT-A-TTAT
1 GTAAGTTAT
*
50683784 GTAAGCTAT
1 GTAAGTTAT
*
50683793 GTAAGTTGT
1 GTAAGTTAT
50683802 GT-A-TTAT
1 GTAAGTTAT
50683809 GTAAGTTAT
1 GTAAGTTAT
50683818 -T-A-TTAT
1 GTAAGTTAT
50683824 GTAAGTTAT
1 GTAAGTTAT
*
50683833 GTAAGTAAT
1 GTAAGTTAT
50683842 GT-A-TTAT
1 GTAAGTTAT
*
50683849 GTAAGTTGT
1 GTAAGTTAT
*
50683858 GT-A-TAAT
1 GTAAGTTAT
*
50683865 GTTAGTTAT
1 GTAAGTTAT
**
50683874 CAAAGTTAT
1 GTAAGTTAT
50683883 GT-A-TTAT
1 GTAAGTTAT
50683890 GTAAGTTAT
1 GTAAGTTAT
*
50683899 TTAAGTTAT
1 GTAAGTTAT
*
50683908 GTAAGTTGT
1 GTAAGTTAT
50683917 GT-A-TTAT
1 GTAAGTTAT
50683924 GTAAGTTAT
1 GTAAGTTAT
*
50683933 GTAAGTTGT
1 GTAAGTTAT
50683942 GT-A-TTAT
1 GTAAGTTAT
50683949 GTAAGTTAT
1 GTAAGTTAT
* *
50683958 GTAGGCTAT
1 GTAAGTTAT
* *
50683967 GTATGTTAA
1 GTAAGTTAT
* *
50683976 GCAAGTCAT
1 GTAAGTTAT
50683985 GT-A-TTAT
1 GTAAGTTAT
* *
50683992 GCAAGTTGT
1 GTAAGTTAT
*
50684001 GT-A-TAAT
1 GTAAGTTAT
*
50684008 GTTAGTTAT
1 GTAAGTTAT
**
50684017 CAAAGTTAT
1 GTAAGTTAT
50684026 GT-A-TTAT
1 GTAAGTTAT
50684033 GTAAGTTAT
1 GTAAGTTAT
*
50684042 TTAAGTTAT
1 GTAAGTTAT
*
50684051 GTAAGTTGT
1 GTAAGTTAT
50684060 GT-A-TTAT
1 GTAAGTTAT
50684067 GTAAGTTAT
1 GTAAGTTAT
50684076 GT-AGTCTAT
1 GTAAGT-TAT
50684085 GT-A-TTAT
1 GTAAGTTAT
50684092 GTAAGTTAT
1 GTAAGTTAT
*
50684101 -TATGTTATTAT
1 GTAAG---TTAT
50684112 GTAAGTTAT
1 GTAAGTTAT
*
50684121 GCAAGTT
1 GTAAGTT
50684128 TATATATAAG
Statistics
Matches: 269, Mismatches: 50, Indels: 64
0.70 0.13 0.17
Matches are distributed among these distances:
6 4 0.01
7 62 0.23
8 32 0.12
9 164 0.61
11 4 0.01
12 3 0.01
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:50683852 original size:25 final size:25
Alignment explanation
Indices: 50683774--50684127 Score: 143
Period size: 25 Copynumber: 14.0 Consensus size: 25
50683764 ACAGGTAAGT
*
50683774 TATGTATTATGTAAGCTATGTAAGT
1 TATGTATTATGTAAGTTATGTAAGT
*
50683799 TGTGTATTATGTAAGTTAT-T-A-T
1 TATGTATTATGTAAGTTATGTAAGT
*
50683821 TATGTAAGTTATGTAAGTAATGT-A-T
1 TATGT-A-TTATGTAAGTTATGTAAGT
* * *
50683846 TATGTAAGTTGTGT-A-TAATGTTAGT
1 TATGT-A-TTATGTAAGTTATGTAAGT
**
50683871 TATCAAAGTTATGT-A-TTATGTAAGT
1 TAT-GTA-TTATGTAAGTTATGTAAGT
* *
50683896 TATTTAAGTTATGTAAGTTGTGT-A-T
1 TATGT-A-TTATGTAAGTTATGTAAGT
*
50683921 TATGTAAGTTATGTAAGTTGTGT-A-T
1 TATGT-A-TTATGTAAGTTATGTAAGT
* * *
50683946 TATGTAAGTTATGTAGGCTATGTATGT
1 TATGT-A-TTATGTAAGTTATGTAAGT
* * * *
50683973 TAAGCAAGTCATGT-A-TTATGCAAGT
1 TATG-TA-TTATGTAAGTTATGTAAGT
* * * **
50683998 TGTGTATAATGTTAGTTATCAAAGT
1 TATGTATTATGTAAGTTATGTAAGT
*
50684023 TATGTATTATGTAAGTTATTTAAGT
1 TATGTATTATGTAAGTTATGTAAGT
*
50684048 TATGTAAGTTGTGT-A-TTATGTAAGT
1 TATGT-A-TTATGTAAGTTATGTAAGT
50684073 TATGTAGTCTATGT-A-TTATGTAAGTTAT
1 TATGTA-T-TATGTAAGTTATGTAAG---T
*
50684101 TATGTTATTATGTAAGTTATGCAAGT
1 TATG-TATTATGTAAGTTATGTAAGT
50684127 T
1 T
50684128 TATATATAAG
Statistics
Matches: 266, Mismatches: 40, Indels: 45
0.76 0.11 0.13
Matches are distributed among these distances:
22 5 0.02
23 13 0.05
24 20 0.08
25 179 0.67
26 6 0.02
27 26 0.10
28 7 0.03
29 10 0.04
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.47
Consensus pattern (25 bp):
TATGTATTATGTAAGTTATGTAAGT
Found at i:50683860 original size:16 final size:16
Alignment explanation
Indices: 50683790--50684121 Score: 155
Period size: 16 Copynumber: 20.8 Consensus size: 16
50683780 TTATGTAAGC
*
50683790 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
50683806 TATGTAAGTTAT-TAT
1 TATGTAAGTTATGTAT
50683821 TATGTAAGTTATGTAAGT
1 TATGTAAGTTATGT-A-T
*
50683839 AATGT-A-TTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
50683855 TGTGT-A-TAATGTTAGT
1 TATGTAAGTTATG-TA-T
**
50683871 TATCAAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
50683887 TATGTAAGTTATTTAAGT
1 TATGTAAGTTATGT-A-T
*
50683905 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
50683921 TATGTAAGTTATGTAAGT
1 TATGTAAGTTATGT-A-T
*
50683939 TGTGT-A-TTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
50683955 TATGTAGGCTATGTATGT
1 TATGTAAGTTATGTA--T
* * *
50683973 TAAGCAAGTCATGTAT
1 TATGTAAGTTATGTAT
* *
50683989 TATGCAAGTTGTGTA-
1 TATGTAAGTTATGTAT
*
50684004 TA---ATGTTA-G--T
1 TATGTAAGTTATGTAT
**
50684014 TATCAAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
50684030 TATGTAAGTTATTTAAGT
1 TATGTAAGTTATGT-A-T
*
50684048 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
50684064 TATGTAAGTTATGTAGT
1 TATGTAAGTTATGTA-T
50684081 CTATGT-A-TTATGTA-
1 -TATGTAAGTTATGTAT
*
50684095 -A-GTTA-TTATGTTAT
1 TATGTAAGTTATG-TAT
50684109 TATGTAAGTTATG
1 TATGTAAGTTATG
50684122 CAAGTTTATA
Statistics
Matches: 249, Mismatches: 37, Indels: 59
0.72 0.11 0.17
Matches are distributed among these distances:
10 2 0.01
11 3 0.01
12 11 0.04
13 7 0.03
14 1 0.00
15 18 0.07
16 125 0.50
17 20 0.08
18 62 0.25
ACGTcount: A:0.30, C:0.02, G:0.20, T:0.47
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:50684025 original size:143 final size:140
Alignment explanation
Indices: 50683768--50684102 Score: 546
Period size: 143 Copynumber: 2.4 Consensus size: 140
50683758 AATTGCACAG
* * * *
50683768 GTAAGTTATGTATTATGTAAGCTATGTAAGTTGTGTATTATGTAAGTTATTATTATGTAAGTTAT
1 GTAAGTTGTGTATTATGTAAGTTATGTAAGTTGTGTATTATGTAAGTTATTACTATGTAAGTTAA
* *
50683833 GTAAGTAATGTATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTATTATGTAAGTTA
66 GCAAGTAATGTATTATGCAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTATTATGTAAGTTA
50683898 TTTAAGTTAT
131 TTTAAGTTAT
*
50683908 GTAAGTTGTGTATTATGTAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTAGGCTATGTATGT
1 GTAAGTTGTGTATTATGTAAGTTATGTAAGTTGTGTATTATGTAAGTTAT-TA--CTATGTAAGT
*
50683973 TAAGCAAGTCATGTATTATGCAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTATTATGTAAG
63 TAAGCAAGTAATGTATTATGCAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTATTATGTAAG
50684038 TTATTTAAGTTAT
128 TTATTTAAGTTAT
*
50684051 GTAAGTTGTGTATTATGTAAGTTATGT-AGTCTATGTATTATGTAAGTTATTA
1 GTAAGTTGTGTATTATGTAAGTTATGTAAGT-TGTGTATTATGTAAGTTATTA
50684103 TGTTATTATG
Statistics
Matches: 182, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
140 48 0.26
141 2 0.01
142 5 0.03
143 127 0.70
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.46
Consensus pattern (140 bp):
GTAAGTTGTGTATTATGTAAGTTATGTAAGTTGTGTATTATGTAAGTTATTACTATGTAAGTTAA
GCAAGTAATGTATTATGCAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTATTATGTAAGTTA
TTTAAGTTAT
Found at i:50684086 original size:34 final size:34
Alignment explanation
Indices: 50683773--50684153 Score: 155
Period size: 34 Copynumber: 11.3 Consensus size: 34
50683763 CACAGGTAAG
* *
50683773 TTATGT-A-TTATGTAAGCTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATGTA
50683805 TTATGTAAGTTAT-T-A-TTATGTAAGTTATGTAA
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATGT-A
* * *
50683837 GTAATGT-A-TTATGTAAGTTGTGT-A-TAATGTTA
1 -TTATGTAAGTTATGTAAGTTATGTAAGTTATG-TA
** *
50683869 GTTATCAAAGTTATGT-A-TTATGTAAGTTATTTAA
1 -TTATGTAAGTTATGTAAGTTATGTAAGTTATGT-A
*
50683903 GTTATGTAAGTTGTGT-A-TTATGTAAGTTATGTAA
1 -TTATGTAAGTTATGTAAGTTATGTAAGTTATGT-A
* * *
50683937 GTTGTGT-A-TTATGTAAGTTATGTAGGCTATGTA
1 -TTATGTAAGTTATGTAAGTTATGTAAGTTATGTA
* * * * *
50683970 TGTTAAGCAAGTCATGT-A-TTATGCAAGTTGTGTA
1 --TTATGTAAGTTATGTAAGTTATGTAAGTTATGTA
* * **
50684004 TAATGTTAGTTATCAAAGTTATGT-A-TTATGTAA
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATGT-A
* *
50684037 GTTATTTAAGTTATGTAAGTTGTGT-A-TTATGTAA
1 -TTATGTAAGTTATGTAAGTTATGTAAGTTATGT-A
50684071 GTTATGT-AGTCTATGT-A-TTATGTAAGTTATTATGTTA
1 -TTATGTAAGT-TATGTAAGTTATGTAAG---TTATG-TA
* * *
50684108 TTATGTAAGTTATGCAAGTTTATATATAAGTT-TATA
1 TTATGTAAGTTATGTAAG--T-TATGTAAGTTATGTA
50684144 TTATGTAAGT
1 TTATGTAAGT
50684154 ATTTCACTTT
Statistics
Matches: 267, Mismatches: 47, Indels: 66
0.70 0.12 0.17
Matches are distributed among these distances:
31 17 0.06
32 47 0.18
33 25 0.09
34 127 0.48
35 2 0.01
36 27 0.10
37 11 0.04
38 3 0.01
40 1 0.00
41 7 0.03
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (34 bp):
TTATGTAAGTTATGTAAGTTATGTAAGTTATGTA
Found at i:50684088 original size:59 final size:59
Alignment explanation
Indices: 50683790--50684153 Score: 147
Period size: 59 Copynumber: 6.2 Consensus size: 59
50683780 TTATGTAAGC
* **
50683790 TATGTAAGTTGTGTA-TTATGTAAGTTAT-T-A-TTATGTAAGTTATGTAAGTAATGTAT
1 TATGTAAGTTATGTAGTTATGT-AGTTATGTAAGTTATGTAAGTTATGTAAGTTGTGTAT
* * ** * *
50683846 TATGTAAGTTGTGTA-TAATGTTAGTTATCAAAGTTATGT-A-TTATGTAAGTTATTTAAGT
1 TATGTAAGTTATGTAGTTATG-TAGTTATGTAAGTTATGTAAGTTATGTAAGTTGTGT-A-T
* * * *
50683905 TATGTAAGTTGTGTA-TTATGTAAGTTATGTAAGTTGTGT-A-TTATGTAAGTTATGTAGGC
1 TATGTAAGTTATGTAGTTATGT-AGTTATGTAAGTTATGTAAGTTATGTAAGTTGTGTA--T
* * * * * * * *
50683964 TATGTATGTTAAGCAAGTCATGTA-TTATGCAAGTTGTGTATAATGTTAGTTATCAAAGTTATGT
1 TATGTAAGTTATG-TAGTTATGTAGTTATGTAAGTTATG--TAA-GTTA--TGT--AAGTTGTGT
50684028 AT
58 AT
* * *
50684030 TATGTAAGTTATTTAAGTTATGTAAGTTGTGT-A-TTATGTAAGTTATGT-AGTCTATGTAT
1 TATGTAAGTTATGT-AGTTATGT-AGTTATGTAAGTTATGTAAGTTATGTAAGT-TGTGTAT
* * * *
50684089 TATGTAAGTTAT-TA--TGT-TA-TTATGTAAGTTATGCAAGTTTATATATAAGTT-TATAT
1 TATGTAAGTTATGTAGTTATGTAGTTATGTAAGTTATGTAAG--T-TATGTAAGTTGTGTAT
50684145 TATGTAAGT
1 TATGTAAGT
50684154 ATTTCACTTT
Statistics
Matches: 247, Mismatches: 32, Indels: 58
0.73 0.09 0.17
Matches are distributed among these distances:
52 5 0.02
53 2 0.01
54 9 0.04
55 2 0.01
56 39 0.16
57 20 0.08
58 12 0.05
59 98 0.40
60 2 0.01
61 8 0.03
62 1 0.00
63 4 0.02
64 6 0.02
66 23 0.09
67 2 0.01
68 14 0.06
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (59 bp):
TATGTAAGTTATGTAGTTATGTAGTTATGTAAGTTATGTAAGTTATGTAAGTTGTGTAT
Found at i:50684589 original size:13 final size:13
Alignment explanation
Indices: 50684541--50684631 Score: 68
Period size: 13 Copynumber: 6.9 Consensus size: 13
50684531 GTAAGTCATG
50684541 TATTTAAGT-ATA
1 TATTTAAGTAATA
50684553 TATTTAAGTAA-A
1 TATTTAAGTAATA
*
50684565 T-TCTAGTAAGTAATG
1 TAT-T--TAAGTAATA
50684580 TATTTAAGTAATA
1 TATTTAAGTAATA
50684593 TATTTAAAGTAA-A
1 TATTT-AAGTAATA
50684606 T-TTT-AGTAATTATA
1 TATTTAAGT-A--ATA
50684620 TATTTAAGTAAT
1 TATTTAAGTAAT
50684632 GTAAGTTATA
Statistics
Matches: 64, Mismatches: 2, Indels: 25
0.70 0.02 0.27
Matches are distributed among these distances:
10 3 0.05
11 2 0.03
12 15 0.23
13 19 0.30
14 15 0.23
15 6 0.09
16 4 0.06
ACGTcount: A:0.43, C:0.01, G:0.10, T:0.46
Consensus pattern (13 bp):
TATTTAAGTAATA
Found at i:50684602 original size:27 final size:29
Alignment explanation
Indices: 50684572--50684634 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 29
50684562 AAATTCTAGT
50684572 AAGTAATGTATTTAAGTAA-TATAT-TTA
1 AAGTAATGTATTTAAGTAATTATATATTA
* *
50684599 AAGTAA---ATTTTAGTAATTATATATTT
1 AAGTAATGTATTTAAGTAATTATATATTA
50684625 AAGTAATGTA
1 AAGTAATGTA
50684635 AGTTATAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
24 9 0.31
25 5 0.17
26 8 0.28
27 6 0.21
29 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (29 bp):
AAGTAATGTATTTAAGTAATTATATATTA
Found at i:50684624 original size:40 final size:40
Alignment explanation
Indices: 50684524--50684631 Score: 157
Period size: 39 Copynumber: 2.7 Consensus size: 40
50684514 NNNNNNNNTT
*
50684524 AATTTTAGTAAGTCATGTATTTAAGT-ATATATTTAAGTA
1 AATTTTAGTAAGTAATGTATTTAAGTAATATATTTAAGTA
*
50684563 AATTCTAGTAAGTAATGTATTTAAGTAATATATTTAAAGTA
1 AATTTTAGTAAGTAATGTATTTAAGTAATATATTT-AAGTA
* *
50684604 AATTTTAGTAA-TTATATATTTAAGTAAT
1 AATTTTAGTAAGTAATGTATTTAAGTAAT
50684632 GTAAGTTATA
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
39 24 0.39
40 23 0.37
41 15 0.24
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.45
Consensus pattern (40 bp):
AATTTTAGTAAGTAATGTATTTAAGTAATATATTTAAGTA
Found at i:50687861 original size:2 final size:2
Alignment explanation
Indices: 50687856--50687885 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
50687846 TTAAGTGATC
50687856 TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
50687886 CTCTAATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:50688297 original size:7 final size:7
Alignment explanation
Indices: 50688285--50688398 Score: 68
Period size: 7 Copynumber: 15.4 Consensus size: 7
50688275 CTTAATTGAC
50688285 ACCCTAA
1 ACCCTAA
50688292 ACCCTAA
1 ACCCTAA
50688299 ATCCCTAA
1 A-CCCTAA
50688307 ATCCCTAA
1 A-CCCTAA
*
50688315 CCCCTAA
1 ACCCTAA
*
50688322 CCCCTAA
1 ACCCTAA
*
50688329 ATCTCCTAG
1 A-C-CCTAA
*
50688338 CCCCTAA
1 ACCCTAA
*
50688345 ATTCCTAA
1 A-CCCTAA
*
50688353 CCCCT-A
1 ACCCTAA
50688359 ACTCCTAA
1 AC-CCTAA
*
50688367 CCCCTAA
1 ACCCTAA
*
50688374 ATCTCTAA
1 A-CCCTAA
*
50688382 CCCCTAA
1 ACCCTAA
*
50688389 CCCCTAA
1 ACCCTAA
50688396 ACC
1 ACC
50688399 TTATATCTCA
Statistics
Matches: 84, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
6 2 0.02
7 50 0.60
8 28 0.33
9 4 0.05
ACGTcount: A:0.32, C:0.46, G:0.01, T:0.21
Consensus pattern (7 bp):
ACCCTAA
Found at i:50688306 original size:15 final size:15
Alignment explanation
Indices: 50688286--50688388 Score: 111
Period size: 15 Copynumber: 6.9 Consensus size: 15
50688276 TTAATTGACA
*
50688286 CCCTAAACCCTAAAT
1 CCCTAACCCCTAAAT
* *
50688301 CCCTAAATCCCT-AAC
1 CCCT-AACCCCTAAAT
50688316 CCCTAACCCCTAAAT
1 CCCTAACCCCTAAAT
*
50688331 CTCCTAGCCCCTAAAT
1 C-CCTAACCCCTAAAT
* *
50688347 TCCTAACCCCTAACT
1 CCCTAACCCCTAAAT
50688362 -CCTAACCCCTAAAT
1 CCCTAACCCCTAAAT
*
50688376 CTCTAACCCCTAA
1 CCCTAACCCCTAA
50688389 CCCCTAAACC
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
14 19 0.26
15 36 0.49
16 19 0.26
ACGTcount: A:0.32, C:0.45, G:0.01, T:0.22
Consensus pattern (15 bp):
CCCTAACCCCTAAAT
Found at i:50688326 original size:22 final size:22
Alignment explanation
Indices: 50688286--50688396 Score: 116
Period size: 22 Copynumber: 5.0 Consensus size: 22
50688276 TTAATTGACA
* *
50688286 CCCTAAACCCTAAATCCCTAAAT
1 CCCTAACCCCT-AACCCCTAAAT
50688309 CCCTAACCCCTAACCCCTAAAT
1 CCCTAACCCCTAACCCCTAAAT
* ** *
50688331 CTCCTAGCCCCTAAATTCCT-AAC
1 C-CCTAACCCCT-AACCCCTAAAT
*
50688354 CCCTAACTCCTAACCCCTAAAT
1 CCCTAACCCCTAACCCCTAAAT
*
50688376 CTCTAACCCCTAACCCCTAAA
1 CCCTAACCCCTAACCCCTAAA
50688397 CCTTATATCT
Statistics
Matches: 72, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
21 5 0.07
22 40 0.56
23 22 0.31
24 5 0.07
ACGTcount: A:0.32, C:0.45, G:0.01, T:0.22
Consensus pattern (22 bp):
CCCTAACCCCTAACCCCTAAAT
Found at i:50688367 original size:45 final size:45
Alignment explanation
Indices: 50688288--50688398 Score: 145
Period size: 45 Copynumber: 2.5 Consensus size: 45
50688278 AATTGACACC
* *
50688288 CTAAACCCTAAATCCCTAAATCCCTAACCCCTAACCCCTAAATCT
1 CTAACCCCTAAATCCCTAAACCCCTAACCCCTAACCCCTAAATCT
* * *
50688333 CCTAGCCCCTAAATTCCT-AACCCCTAACTCCTAACCCCTAAATCT
1 -CTAACCCCTAAATCCCTAAACCCCTAACCCCTAACCCCTAAATCT
*
50688378 CTAACCCCT-AACCCCTAAACC
1 CTAACCCCTAAATCCCTAAACC
50688399 TTATATCTCA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
43 5 0.09
44 12 0.21
45 25 0.45
46 14 0.25
ACGTcount: A:0.32, C:0.45, G:0.01, T:0.22
Consensus pattern (45 bp):
CTAACCCCTAAATCCCTAAACCCCTAACCCCTAACCCCTAAATCT
Found at i:50688406 original size:29 final size:29
Alignment explanation
Indices: 50688339--50688413 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
50688329 ATCTCCTAGC
* *
50688339 CCCTAAAT-TCCTAACCCCTAACTCCTAAC
1 CCCTAAATCT-CTAACCCCTAACCCCTAAA
50688368 CCCTAAATCTCTAACCCCTAACCCCTAAA
1 CCCTAAATCTCTAACCCCTAACCCCTAAA
* * *
50688397 CCTTATATCTCAAACCC
1 CCCTAAATCTCTAACCC
50688414 TAATAATCAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 39 0.98
30 1 0.03
ACGTcount: A:0.32, C:0.44, G:0.00, T:0.24
Consensus pattern (29 bp):
CCCTAAATCTCTAACCCCTAACCCCTAAA
Found at i:50689493 original size:42 final size:41
Alignment explanation
Indices: 50689403--50689614 Score: 130
Period size: 41 Copynumber: 5.1 Consensus size: 41
50689393 TATTTTTTTT
*
50689403 GCGGCGCTTCA-ACAAAAACGCCGCT-AAAACCCTAACATTA
1 GCGGCGCTT-ATATAAAAACGCCGCTAAAAACCCTAACATTA
* * * * *
50689443 GCGGCGCTTATCATAGAATCGCCGCTAAAAATCTTAACTTTA
1 GCGGCGCTTAT-ATAAAAACGCCGCTAAAAACCCTAACATTA
* * * * *
50689485 GCGTCGCTTATATAAAAACGCCGCTAGAAGA-CCAAATATTC
1 GCGGCGCTTATATAAAAACGCCGCTA-AAAACCCTAACATTA
* * * *
50689526 GCGGCGCTTCA-A-AGAAATCGCCGCTAAATACCTTAACTTTA
1 GCGGCGCTT-ATATA-AAAACGCCGCTAAAAACCCTAACATTA
* * * * * *
50689567 GCGGCGGTTGAT-TAAAAATGCCACTAAAACCCCCGACCATTA
1 GCGGCGCTT-ATATAAAAACGCCGCTAAAA-ACCCTAACATTA
50689609 GCGGCG
1 GCGGCG
50689615 AGAGCCTAAA
Statistics
Matches: 128, Mismatches: 34, Indels: 18
0.71 0.19 0.10
Matches are distributed among these distances:
39 1 0.01
40 13 0.10
41 74 0.58
42 40 0.31
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.21
Consensus pattern (41 bp):
GCGGCGCTTATATAAAAACGCCGCTAAAAACCCTAACATTA
Found at i:50689507 original size:82 final size:81
Alignment explanation
Indices: 50689416--50689598 Score: 210
Period size: 82 Copynumber: 2.2 Consensus size: 81
50689406 GCGCTTCAAC
* * *
50689416 AAAAACGCCGCTAAAACCCTAACATTAGCGGCGCTTATCATAG-AATCGCCGCTAAAAATCTTAA
1 AAAAACGCCGCTAAAACCCAAACATTAGCGGCGC-T-TCAAAGAAATCGCCGCTAAAAACCTTAA
*
50689480 CTTTAGCGTCGCTT-ATAT
64 CTTTAGCGGCGCTTGAT-T
* * *
50689498 AAAAACGCCGCTAGAAGA-CCAAATATTCGCGGCGCTTCAAAGAAATCGCCGCTAAATACCTTAA
1 AAAAACGCCGCTA-AA-ACCCAAACATTAGCGGCGCTTCAAAGAAATCGCCGCTAAAAACCTTAA
*
50689562 CTTTAGCGGCGGTTGATT
64 CTTTAGCGGCGCTTGATT
* *
50689580 AAAAATGCCACTAAAACCC
1 AAAAACGCCGCTAAAACCC
50689599 CCGACCATTA
Statistics
Matches: 86, Mismatches: 10, Indels: 11
0.80 0.09 0.10
Matches are distributed among these distances:
80 1 0.01
81 9 0.10
82 57 0.66
83 18 0.21
84 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (81 bp):
AAAAACGCCGCTAAAACCCAAACATTAGCGGCGCTTCAAAGAAATCGCCGCTAAAAACCTTAACT
TTAGCGGCGCTTGATT
Found at i:50694265 original size:31 final size:31
Alignment explanation
Indices: 50694207--50694265 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
50694197 CTATTGCGTA
*
50694207 ATAAATGTGAAAATTTGAATGACTATAGAGT
1 ATAAATGTGAAAAATTGAATGACTATAGAGT
* *
50694238 ATAAATGT-ATAAAATTGATTGATTATAG
1 ATAAATGTGA-AAAATTGAATGACTATAG
50694266 GGATGATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 23 0.96
ACGTcount: A:0.46, C:0.02, G:0.17, T:0.36
Consensus pattern (31 bp):
ATAAATGTGAAAAATTGAATGACTATAGAGT
Found at i:50694940 original size:22 final size:20
Alignment explanation
Indices: 50694915--50694955 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
50694905 ATGCGAGATT
50694915 TTCTTTCTTTTTCCTTTCTCCC
1 TTCTTTC-TTTTCC-TTCTCCC
50694937 TTCTTTCTTTTCCTTCTCC
1 TTCTTTCTTTTCCTTCTCC
50694956 TTTATTCACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.32
21 6 0.32
22 7 0.37
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (20 bp):
TTCTTTCTTTTCCTTCTCCC
Found at i:50700055 original size:2 final size:2
Alignment explanation
Indices: 50700048--50700077 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
50700038 GTTTCTATTG
50700048 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50700078 GAAAGTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50700769 original size:24 final size:25
Alignment explanation
Indices: 50700702--50700803 Score: 84
Period size: 24 Copynumber: 4.2 Consensus size: 25
50700692 AGCATTCTGT
**
50700702 TTATAGGCTCTTTGTGAGCTTCCCG
1 TTATAGGCTCTTTGAAAGCTTCCCG
* * * *
50700727 TTAAAGGCTCCTCG-GAGCTTCCCG
1 TTATAGGCTCTTTGAAAGCTTCCCG
*
50700751 TTA-AGTGCTCTTT-AAAGCTACCCG
1 TTATAG-GCTCTTTGAAAGCTTCCCG
* **
50700775 ATATAGGCTCTTTGTGAGCTTCCCG
1 TTATAGGCTCTTTGAAAGCTTCCCG
50700800 TTAT
1 TTAT
50700804 TAAGCCTGGA
Statistics
Matches: 61, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
23 2 0.03
24 35 0.57
25 24 0.39
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (25 bp):
TTATAGGCTCTTTGAAAGCTTCCCG
Found at i:50703413 original size:20 final size:19
Alignment explanation
Indices: 50703380--50703419 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
50703370 AAGACAACAT
50703380 CTTATTTTTATTTTATTTA
1 CTTATTTTTATTTTATTTA
*
50703399 CTTAGTTTTTCTTTTATTTA
1 CTTA-TTTTTATTTTATTTA
50703419 C
1 C
50703420 CAATTTACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.17, C:0.10, G:0.03, T:0.70
Consensus pattern (19 bp):
CTTATTTTTATTTTATTTA
Found at i:50708342 original size:39 final size:41
Alignment explanation
Indices: 50708287--50708373 Score: 124
Period size: 39 Copynumber: 2.2 Consensus size: 41
50708277 TCAAGAATAT
* **
50708287 AGCTGTCGATCAGAACGTAGC-AGTCAGT-CTACTCACACA
1 AGCTGTCCATCAGAACGTAGCTACACAGTGCTACTCACACA
*
50708326 AGCTGTCCATCGGAACGTAGCTACACAGTGCTACTCACACA
1 AGCTGTCCATCAGAACGTAGCTACACAGTGCTACTCACACA
50708367 AGCTGTC
1 AGCTGTC
50708374 AAGTAACTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 19 0.45
40 5 0.12
41 18 0.43
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (41 bp):
AGCTGTCCATCAGAACGTAGCTACACAGTGCTACTCACACA
Found at i:50716251 original size:2 final size:2
Alignment explanation
Indices: 50716244--50716273 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
50716234 AGTATGAGGT
50716244 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
50716274 AATGTGTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:50716539 original size:41 final size:41
Alignment explanation
Indices: 50716494--50716638 Score: 236
Period size: 41 Copynumber: 3.5 Consensus size: 41
50716484 GACTATACGT
* *
50716494 CTAGCAGGCTAAGTGCCGGTGATCTGATTCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGTTATAAAC
50716535 CTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGTTATAAAC
* * *
50716576 CTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGCTATGAGC
1 CTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGTTATAAAC
*
50716617 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCAGTGA
50716639 ATCTATTAAA
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 98 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGTTATAAAC
Found at i:50719263 original size:8 final size:8
Alignment explanation
Indices: 50719250--50719274 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
50719240 TATACTAAAC
50719250 AATAAAAT
1 AATAAAAT
50719258 AATAAAAT
1 AATAAAAT
50719266 AATAAAAT
1 AATAAAAT
50719274 A
1 A
50719275 TTATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:50720639 original size:15 final size:15
Alignment explanation
Indices: 50720619--50720649 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
50720609 GTTATGTAAG
50720619 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
50720634 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
50720649 T
1 T
50720650 ATGTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:50724906 original size:15 final size:15
Alignment explanation
Indices: 50724886--50724916 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
50724876 GTTATGTAAG
50724886 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
50724901 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
50724916 T
1 T
50724917 ATGTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:50730387 original size:30 final size:29
Alignment explanation
Indices: 50730353--50730424 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
50730343 AAATTTAAAA
50730353 AAAAATCTAATTAAATTTTCTAAAAGTTCT
1 AAAAATCTAATTAAA-TTTCTAAAAGTTCT
* * * *
50730383 AAAAATTTCAAGTAAATTTCTAAAATTTTT
1 AAAAATCT-AATTAAATTTCTAAAAGTTCT
50730413 AAAAACTCTAAT
1 AAAAA-TCTAAT
50730425 CTTCTTAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
30 26 0.76
31 8 0.24
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.39
Consensus pattern (29 bp):
AAAAATCTAATTAAATTTCTAAAAGTTCT
Found at i:50732308 original size:22 final size:22
Alignment explanation
Indices: 50732275--50732335 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
50732265 GCCCGGCCCG
* *
50732275 TTTTTAATTAAAATTAAAATTAT
1 TTTTTAA-TAAAATTAAAACTAA
50732298 TTTTTAATAAAATTAAAACTAA
1 TTTTTAATAAAATTAAAACTAA
* *
50732320 TTGTTATTAAAATTAA
1 TTTTTAATAAAATTAA
50732336 TTGTTAGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 27 0.79
23 7 0.21
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TTTTTAATAAAATTAAAACTAA
Found at i:50732348 original size:16 final size:16
Alignment explanation
Indices: 50732311--50732350 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
50732301 TTAATAAAAT
* *
50732311 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
50732327 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
50732343 TAAAATTA
1 TAAAATTA
50732351 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:50732436 original size:59 final size:59
Alignment explanation
Indices: 50732368--50732537 Score: 313
Period size: 59 Copynumber: 2.9 Consensus size: 59
50732358 ATTAATTATT
* *
50732368 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAAAATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
50732427 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
*
50732486 AATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAA
50732538 ACAAACTTGA
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 108 1.00
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:50732644 original size:22 final size:24
Alignment explanation
Indices: 50732604--50732647 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
50732594 AAATAAACTT
50732604 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
50732628 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
50732648 AATATTTTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:50735362 original size:17 final size:17
Alignment explanation
Indices: 50735340--50735373 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
50735330 TGTCTCCTAT
50735340 ATTTAATATATTAAAGG
1 ATTTAATATATTAAAGG
50735357 ATTTAATATATTAAAGG
1 ATTTAATATATTAAAGG
50735374 GTTAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (17 bp):
ATTTAATATATTAAAGG
Found at i:50736871 original size:20 final size:19
Alignment explanation
Indices: 50736813--50736881 Score: 54
Period size: 20 Copynumber: 3.7 Consensus size: 19
50736803 TTCAAATATT
*
50736813 AAAAATTAGAAAAA--ATA
1 AAAAATTATAAAAATCATA
* *
50736830 TAAAA-TATAAAAAATCGTA
1 AAAAATTAT-AAAAATCATA
**
50736849 AAATTTTATAAAAATCATAA
1 AAAAATTATAAAAATCAT-A
50736869 AAAAATTATAAAA
1 AAAAATTATAAAA
50736882 TATATAGAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 7
0.70 0.17 0.13
Matches are distributed among these distances:
16 2 0.05
17 9 0.24
19 12 0.32
20 15 0.39
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (19 bp):
AAAAATTATAAAAATCATA
Found at i:50736873 original size:73 final size:73
Alignment explanation
Indices: 50736736--50736884 Score: 160
Period size: 73 Copynumber: 2.0 Consensus size: 73
50736726 CCTCTATTTT
* * * **
50736736 TATTAAAAATTAGAAAAAACTAAAAAAAATTAAAAGTTATAAATATTATTAAATTTTAATAAAAA
1 TATTAAAAATTAGAAAAAACTAAAAAAAATAAAAAATTATAAATATTATAAAATCATAATAAAAA
* *
50736801 TTTTCAAA
66 TTATAAAA
* * *
50736809 TATTAAAAATTAGAAAAAA-TATAAAATATAAAAAATCGTA-AAATTTTATAAAAATCATAA-AA
1 TATTAAAAATTAGAAAAAACTAAAAAAAATAAAAAAT--TATAAATATTAT-AAAATCATAATAA
50736871 AAATTATAAAA
63 AAATTATAAAA
50736882 TAT
1 TAT
50736885 ATAGAAATAT
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
72 13 0.21
73 41 0.65
74 9 0.14
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (73 bp):
TATTAAAAATTAGAAAAAACTAAAAAAAATAAAAAATTATAAATATTATAAAATCATAATAAAAA
TTATAAAA
Found at i:50736910 original size:10 final size:10
Alignment explanation
Indices: 50736892--50736917 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
50736882 TATATAGAAA
50736892 TATAAAATTT
1 TATAAAATTT
50736902 TATAAAATTT
1 TATAAAATTT
50736912 TATAAA
1 TATAAA
50736918 GTTGTAAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TATAAAATTT
Found at i:50737175 original size:20 final size:20
Alignment explanation
Indices: 50737150--50737190 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
50737140 TGTTAAAGAG
50737150 ATTTTTTGATGCA-TTTTATA
1 ATTTTTTGATG-ATTTTTATA
*
50737170 ATTTTTTTATGATTTTTATA
1 ATTTTTTGATGATTTTTATA
50737190 A
1 A
50737191 AATTTTACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.63
Consensus pattern (20 bp):
ATTTTTTGATGATTTTTATA
Found at i:50737240 original size:37 final size:37
Alignment explanation
Indices: 50737172--50737242 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
50737162 ATTTTATAAT
** **
50737172 TTTTTTATGATTTTTATAAAATTTTACAATTTTTTAC
1 TTTTTTACAATTTTTATAAAAAATTACAATTTTTTAC
50737209 TTTTTTACAATTTTTATAAAAAATT-CTAATTTTT
1 TTTTTTACAATTTTTATAAAAAATTAC-AATTTTT
50737243 AATAAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 1 0.03
37 28 0.97
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (37 bp):
TTTTTTACAATTTTTATAAAAAATTACAATTTTTTAC
Found at i:50737396 original size:90 final size:94
Alignment explanation
Indices: 50737300--50737501 Score: 265
Period size: 89 Copynumber: 2.2 Consensus size: 94
50737290 AGAGCAGGGC
* * * *
50737300 CTTAATTGTTTTTTTTTTGAA-AAATTTTGAGGGTCATTTTGATACATTTTGAAAGTTCAAGT-A
1 CTTAATTGTTTTTTTTTTGAAGAAA-TTTGAGGGCCATTTTAATACATTTTAAAAGTTCAAGTGC
50737363 TCCAATTGAGTGCAAAAAAAA-A-AGGA-A-
65 T-CAATTGAGTGCAAAAAAAAGAGAGGAGAG
* * *
50737390 CTTAATTG-CTTTTTTTTGAAGAAATTTGAGGGCCTTTTTAATGCATTTTAAAAGTTCAAGTGCT
1 CTTAATTGTTTTTTTTTTGAAGAAATTTGAGGGCCATTTTAATACATTTTAAAAGTTCAAGTGCT
50737454 CAATTGAGTGCAAAAAAAAGAGAGGAGGAG
66 CAATTGAGTGCAAAAAAAAGAGAGGA-GAG
50737484 CTTAATTGTTTTTTTTTT
1 CTTAATTGTTTTTTTTTT
50737502 TTTTTGAAGT
Statistics
Matches: 96, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
89 62 0.65
90 13 0.14
91 4 0.04
93 1 0.01
94 8 0.08
95 8 0.08
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.40
Consensus pattern (94 bp):
CTTAATTGTTTTTTTTTTGAAGAAATTTGAGGGCCATTTTAATACATTTTAAAAGTTCAAGTGCT
CAATTGAGTGCAAAAAAAAGAGAGGAGAG
Found at i:50738325 original size:31 final size:32
Alignment explanation
Indices: 50738266--50738326 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
50738256 TATCATTTCA
* *
50738266 ACTCTTTTTCAAAACGTTGATGGTCAAATTCG
1 ACTCTTTTTCAAAACATTGAGGGTCAAATTCG
*
50738298 ACTCTTTTT-AAAATATTGAGGGTCAAATT
1 ACTCTTTTTCAAAACATTGAGGGTCAAATT
50738327 TAGTTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 17 0.65
32 9 0.35
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (32 bp):
ACTCTTTTTCAAAACATTGAGGGTCAAATTCG
Found at i:50738603 original size:2 final size:2
Alignment explanation
Indices: 50738596--50738675 Score: 160
Period size: 2 Copynumber: 40.0 Consensus size: 2
50738586 TATGAATGTT
50738596 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
50738638 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
50738676 CACATATACA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 78 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:50738832 original size:24 final size:24
Alignment explanation
Indices: 50738803--50738851 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
50738793 GTGAGAAAAT
* * *
50738803 GAGTGATTGTTAGTTTGTGTGTGA
1 GAGTGAGTGTGAGTGTGTGTGTGA
*
50738827 GAGTGAGTGTGGGTGTGTGTGTGA
1 GAGTGAGTGTGAGTGTGTGTGTGA
50738851 G
1 G
50738852 CGAGTGAGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.47, T:0.39
Consensus pattern (24 bp):
GAGTGAGTGTGAGTGTGTGTGTGA
Found at i:50739999 original size:6 final size:6
Alignment explanation
Indices: 50739988--50740030 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
50739978 ATCCAACTAA
*
50739988 TTCTTT TTCTTT TTCTTT CTT-TTT TCCTTCT TTCTTT TTCTTT
1 TTCTTT TTCTTT TTCTTT -TTCTTT TTCTT-T TTCTTT TTCTTT
50740031 CTTTTTTCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 1 0.03
6 24 0.75
7 7 0.22
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (6 bp):
TTCTTT
Found at i:50740008 original size:4 final size:4
Alignment explanation
Indices: 50739999--50740064 Score: 63
Period size: 4 Copynumber: 18.0 Consensus size: 4
50739989 TCTTTTTCTT
* *
50739999 TTTC TTTC TTT- TTTC CTTC TTTC -TT- TTTC TTTC TTT- TTTC CTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
*
50740043 -TTC TTCC TTTC TTTC TTT- TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC
50740065 ATCTTCTCAA
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
3 16 0.31
4 35 0.69
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTC
Found at i:50740018 original size:15 final size:16
Alignment explanation
Indices: 50740000--50740061 Score: 63
Period size: 17 Copynumber: 3.7 Consensus size: 16
50739990 CTTTTTCTTT
50740000 TTCTTTCTTTT-TTCC
1 TTCTTTCTTTTCTTCC
*
50740015 TTCTTTCTTTTTCTTTC
1 TTCTTTC-TTTTCTTCC
*
50740032 TTTTTTCCTTCTTCTTCC
1 TTCTTT-CTT-TTCTTCC
50740050 TTTCTTTCTTTT
1 -TTCTTTCTTTT
50740062 TTCATCTTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
15 7 0.18
16 4 0.11
17 12 0.32
18 10 0.26
19 5 0.13
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (16 bp):
TTCTTTCTTTTCTTCC
Found at i:50740024 original size:25 final size:25
Alignment explanation
Indices: 50739993--50740064 Score: 119
Period size: 25 Copynumber: 2.8 Consensus size: 25
50739983 ACTAATTCTT
50739993 TTTCTTTTTCTTTCTTTTTTCCTTC
1 TTTCTTTTTCTTTCTTTTTTCCTTC
50740018 TTTCTTTTTCTTTCTTTTTTCCTTC
1 TTTCTTTTTCTTTCTTTTTTCCTTC
50740043 -TTCTTCCTTTCTTTCTTTTTTC
1 TTTCTT--TTTCTTTCTTTTTTC
50740065 ATCTTCTCAA
Statistics
Matches: 45, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
24 5 0.11
25 25 0.56
26 15 0.33
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTCTTTTTCTTTCTTTTTTCCTTC
Found at i:50740044 original size:36 final size:35
Alignment explanation
Indices: 50739993--50740062 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 35
50739983 ACTAATTCTT
* *
50739993 TTTCTTTTTCTTTCTTTTTTCC-TTCTTTCTTTTTC
1 TTTCTTTTTCCTTC-TTCTTCCTTTCTTTCTTTTTC
50740028 TTTCTTTTTTCCTTCTTCTTCCTTTCTTTCTTTTT
1 TTTC-TTTTTCCTTCTTCTTCCTTTCTTTCTTTTT
50740063 TCATCTTCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
35 10 0.32
36 21 0.68
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (35 bp):
TTTCTTTTTCCTTCTTCTTCCTTTCTTTCTTTTTC
Found at i:50740046 original size:14 final size:14
Alignment explanation
Indices: 50740004--50740047 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
50739994 TTCTTTTTCT
50740004 TTCTTTTTTCCTTC
1 TTCTTTTTTCCTTC
50740018 TT-TCTTTTT-C-T-
1 TTCT-TTTTTCCTTC
50740029 TTCTTTTTTCCTTC
1 TTCTTTTTTCCTTC
50740043 TTCTT
1 TTCTT
50740048 CCTTTCTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
11 7 0.28
12 3 0.12
13 3 0.12
14 12 0.48
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (14 bp):
TTCTTTTTTCCTTC
Found at i:50740064 original size:11 final size:11
Alignment explanation
Indices: 50739993--50740056 Score: 58
Period size: 11 Copynumber: 5.6 Consensus size: 11
50739983 ACTAATTCTT
50739993 TTTC-TTTTTC
1 TTTCTTTTTTC
50740003 TTTCTTTTTTCC
1 TTTCTTTTTT-C
*
50740015 TTCTTTCTTTTTC
1 TT-TCT-TTTTTC
50740028 TTTCTTTTTTC
1 TTTCTTTTTTC
* * *
50740039 CTTCTTCTTCC
1 TTTCTTTTTTC
50740050 TTTCTTT
1 TTTCTTT
50740057 CTTTTTTCAT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
10 4 0.09
11 24 0.56
12 5 0.12
13 5 0.12
14 5 0.12
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:50740069 original size:22 final size:22
Alignment explanation
Indices: 50740002--50740070 Score: 59
Period size: 22 Copynumber: 3.0 Consensus size: 22
50739992 TTTTCTTTTT
* *
50740002 CTTTCTTTTTTCCTTCTTTCTTTTT
1 CTTTCTTTTTTCCTTC-ATC--TTC
*
50740027 CTTTCTTTTTTCCTTCTTCTTC
1 CTTTCTTTTTTCCTTCATCTTC
*
50740049 CTTTCTTTCTTT-TTTCATCTTC
1 CTTTCTTT-TTTCCTTCATCTTC
50740071 TCAAACCTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
22 18 0.45
23 3 0.08
24 3 0.08
25 16 0.40
ACGTcount: A:0.01, C:0.28, G:0.00, T:0.71
Consensus pattern (22 bp):
CTTTCTTTTTTCCTTCATCTTC
Found at i:50740855 original size:30 final size:30
Alignment explanation
Indices: 50740819--50740896 Score: 95
Period size: 30 Copynumber: 2.5 Consensus size: 30
50740809 GTCAAGGGGT
50740819 CAAAATGTAATTTTAAGAAAAA-CTGAGAGC
1 CAAAATGTAATTTTAAGAAAAATCTG-GAGC
* * *
50740849 CAAAATGTAATTTTAGGAAAAATTTTGGGGC
1 CAAAATGTAATTTTAAGAAAAA-TCTGGAGC
50740880 CAAAATGTAAATTTTAA
1 CAAAATGT-AATTTTAA
50740897 ATTTTTGTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
30 21 0.51
31 11 0.27
32 9 0.22
ACGTcount: A:0.46, C:0.08, G:0.17, T:0.29
Consensus pattern (30 bp):
CAAAATGTAATTTTAAGAAAAATCTGGAGC
Found at i:50741366 original size:151 final size:150
Alignment explanation
Indices: 50741206--50741823 Score: 758
Period size: 151 Copynumber: 4.1 Consensus size: 150
50741196 TCTATTTTTT
* * * * * *
50741206 TTTTTGAAAAACAGAAATCGAAAATAGCTCAGCGTGCGATCCAAAGTTCAACTCACATATCAGAT
1 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGCGACCCAAGGCTCAACTCACCTATCAGAT
* * * * * * *
50741271 TCTGAATTGATCTTTGAAAAATAGAATTTGAAAATACCTCAGCGTGTGACTCGAGGCTCAACTCA
66 TATGAGTTGATTTTTGAAAAATAGAAATTGAAAATACATCAGCGTGCGACCCGAGGCTCAACTCA
50741336 CCTCTCGGATTATGAATTGA
131 CCTCTCGGATTATGAATTGA
* * ** * * * * *
50741356 TTTTTGGAAAAACAAAAATTGAAAATAGCTCATTGTGTGACCCATGGCTTAACTCACCTCTCGGA
1 TTTTT-GAAAAACAGAAATTGAAAATACCTCAGCGTGCGACCCAAGGCTCAACTCACCTATCAGA
* * *
50741421 TTATGATTTGATTTTTGAAAACTAGAAATTGAAAATACATCAGCGTGCGACCCGAGGCTTAACTC
65 TTATGAGTTGATTTTTGAAAAATAGAAATTGAAAATACATCAGCGTGCGACCCGAGGCTCAACTC
*
50741486 ACCTCTCGAATTAT-AAGTTGA
130 ACCTCTCGGATTATGAA-TTGA
* * * * *
50741507 TTTTTGAAAAAAAAGAAATTAAAAATACCTCAGCGTACGACCCGAGGCTCAACTCACCTCTC-GA
1 TTTTTG-AAAAACAGAAATTGAAAATACCTCAGCGTGCGACCCAAGGCTCAACTCACCTATCAG-
* * * *
50741571 ATTATGAGTTGATTTTTGAAAATTAGAAATTGAAAATACCTCAACGTGCGACCTGAGGCTCAACT
64 ATTATGAGTTGATTTTTGAAAAATAGAAATTGAAAATACATCAGCGTGCGACCCGAGGCTCAACT
*
50741636 CACCTCTCGGATTATGAGTTGA
129 CACCTCTCGGATTATGAATTGA
* * * **
50741658 -TTTTGAAAAACATAAATTGAAAACACCTCAGCTTGCGACCTGAGGCTCAACTCACCTATCAGAT
1 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGCGACCCAAGGCTCAACTCACCTATCAGAT
*
50741722 TATGAGTTGATTTTTG-AAAATCTGAAATTGAAAATACATCAGCGTGCGACCCGAGGCTCAACTC
66 TATGAGTTGATTTTTGAAAAAT-AGAAATTGAAAATACATCAGCGTGCGACCCGAGGCTCAACTC
** *
50741786 ACCTCTTAGATTATGAGTTGA
130 ACCTCTCGGATTATGAATTGA
50741807 TTTTTGAAAAACAGAAA
1 TTTTTGAAAAACAGAAA
50741824 AAGAAGTGGT
Statistics
Matches: 402, Mismatches: 58, Indels: 16
0.84 0.12 0.03
Matches are distributed among these distances:
148 4 0.01
149 122 0.30
150 30 0.07
151 245 0.61
152 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (150 bp):
TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGCGACCCAAGGCTCAACTCACCTATCAGAT
TATGAGTTGATTTTTGAAAAATAGAAATTGAAAATACATCAGCGTGCGACCCGAGGCTCAACTCA
CCTCTCGGATTATGAATTGA
Found at i:50741394 original size:76 final size:74
Alignment explanation
Indices: 50741206--50741823 Score: 727
Period size: 75 Copynumber: 8.2 Consensus size: 74
50741196 TCTATTTTTT
* * * * * * * *
50741206 TTTTTGAAAAACAGAAATCGAAAATAGCTCAGCGTGCGATCCAAAGTTCAACTCACATATCAGAT
1 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGCGA-CCGAGGCTCAACTCACCTCTCGGAT
* *
50741271 TCTGAATTGA
65 TATGAGTTGA
* * * *
50741281 TCTTTGAAAAATAGAATTTGAAAATACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGGAT
1 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGCGAC-CGAGGCTCAACTCACCTCTCGGAT
*
50741346 TATGAATTGA
65 TATGAGTTGA
* * ** * * *
50741356 TTTTTGGAAAAACAAAAATTGAAAATAGCTCATTGTGTGACCCATGGCTTAACTCACCTCTCGGA
1 TTTTT-GAAAAACAGAAATTGAAAATACCTCAGCGTGCGACCGA-GGCTCAACTCACCTCTCGGA
*
50741421 TTATGATTTGA
64 TTATGAGTTGA
* * *
50741432 TTTTTG-AAAACTAGAAATTGAAAATACATCAGCGTGCGACCCGAGGCTTAACTCACCTCTCGAA
1 TTTTTGAAAAAC-AGAAATTGAAAATACCTCAGCGTGCGA-CCGAGGCTCAACTCACCTCTCGGA
*
50741496 TTATAAGTTGA
64 TTATGAGTTGA
* * * *
50741507 TTTTTGAAAAAAAAGAAATTAAAAATACCTCAGCGTACGACCCGAGGCTCAACTCACCTCTCGAA
1 TTTTTG-AAAAACAGAAATTGAAAATACCTCAGCGTGCGA-CCGAGGCTCAACTCACCTCTCGGA
50741572 TTATGAGTTGA
64 TTATGAGTTGA
** *
50741583 TTTTTGAAAATTAGAAATTGAAAATACCTCAACGTGCGACCTGAGGCTCAACTCACCTCTCGGAT
1 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGCGACC-GAGGCTCAACTCACCTCTCGGAT
50741648 TATGAGTTGA
65 TATGAGTTGA
* * * * *
50741658 -TTTTGAAAAACATAAATTGAAAACACCTCAGCTTGCGACCTGAGGCTCAACTCACCTATCAGAT
1 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGCGACC-GAGGCTCAACTCACCTCTCGGAT
50741722 TATGAGTTGA
65 TATGAGTTGA
* * * **
50741732 TTTTTGAAAATCTGAAATTGAAAATACATCAGCGTGCGACCCGAGGCTCAACTCACCTCTTAGAT
1 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGCGA-CCGAGGCTCAACTCACCTCTCGGAT
50741797 TATGAGTTGA
65 TATGAGTTGA
50741807 TTTTTGAAAAACAGAAA
1 TTTTTGAAAAACAGAAA
50741824 AAGAAGTGGT
Statistics
Matches: 470, Mismatches: 63, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
74 74 0.16
75 260 0.55
76 132 0.28
77 4 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (74 bp):
TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGCGACCGAGGCTCAACTCACCTCTCGGATT
ATGAGTTGA
Found at i:50747192 original size:22 final size:20
Alignment explanation
Indices: 50747164--50747212 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
50747154 ATCTATTGTG
*
50747164 CAATTTAACTAAGTAACCTAAT
1 CAATTTAACTAA--AACATAAT
*
50747186 CAATTTATCTAAAACATAAT
1 CAATTTAACTAAAACATAAT
50747206 CAATTTA
1 CAATTTA
50747213 TCTCATATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 14 0.56
22 11 0.44
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (20 bp):
CAATTTAACTAAAACATAAT
Found at i:50750189 original size:102 final size:98
Alignment explanation
Indices: 50750050--50750246 Score: 270
Period size: 98 Copynumber: 2.0 Consensus size: 98
50750040 AAATGTGAAG
* * * *
50750050 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTTGTGGTTGCTAAGTGCTGATCCCACCGTAT-TT
1 GGGGTTACTAAGTGCTGATTCCCCGAATCATTGGTGG-T--T--GTGCTGATCCCACCATATCTT
*
50750114 TAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCTAA
61 TAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCTAA
* * *
50750152 GGGGTTACTATGTGCTGATTCCCCGAATCATTGGTGGTTGTGCTGATTCCACCATATCTTTGAAT
1 GGGGTTACTAAGTGCTGATTCCCCGAATCATTGGTGGTTGTGCTGATCCCACCATATCTTTAAAT
50750217 GTGAAAGGGGTTGCTAAGTGCTGATTCCCC
66 GTGAAAGGGGTTGCTAAGTGCTGATTCCCC
50750247 GAATCACTGG
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
97 16 0.19
98 35 0.41
99 1 0.01
101 1 0.01
102 33 0.38
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.34
Consensus pattern (98 bp):
GGGGTTACTAAGTGCTGATTCCCCGAATCATTGGTGGTTGTGCTGATCCCACCATATCTTTAAAT
GTGAAAGGGGTTGCTAAGTGCTGATTCCCCTAA
Found at i:50750536 original size:23 final size:23
Alignment explanation
Indices: 50750505--50750557 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
50750495 GTGGAAAATG
*
50750505 AATTAGAGGTTGAATAATATATGA
1 AATT-GAGGTTGAATAATACATGA
50750529 AATTGAGGTTGAATAATACATGA
1 AATTGAGGTTGAATAATACATGA
50750552 AATTGA
1 AATTGA
50750558 AGCTGAATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 24 0.86
24 4 0.14
ACGTcount: A:0.45, C:0.02, G:0.21, T:0.32
Consensus pattern (23 bp):
AATTGAGGTTGAATAATACATGA
Found at i:50750564 original size:23 final size:23
Alignment explanation
Indices: 50750515--50750565 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
50750505 AATTAGAGGT
* * *
50750515 TGAATAATATATGAAATTGAGGT
1 TGAATAATACATGAAATTGAAGC
50750538 TGAATAATACATGAAATTGAAGC
1 TGAATAATACATGAAATTGAAGC
50750561 TGAAT
1 TGAAT
50750566 GAGTCTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.45, C:0.04, G:0.20, T:0.31
Consensus pattern (23 bp):
TGAATAATACATGAAATTGAAGC
Found at i:50751556 original size:18 final size:18
Alignment explanation
Indices: 50751533--50751571 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
50751523 TACAATTGAG
* *
50751533 AATGAAAATAACACAATT
1 AATGAAAATAAAAAAATT
*
50751551 AATGAATATAAAAAAATT
1 AATGAAAATAAAAAAATT
50751569 AAT
1 AAT
50751572 ATACTATCTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (18 bp):
AATGAAAATAAAAAAATT
Found at i:50754933 original size:22 final size:24
Alignment explanation
Indices: 50754908--50754964 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 24
50754898 TGTTCTCAAT
50754908 TAATTTATATATT-TAATATCA-G
1 TAATTTATATATTATAATATCACG
* *
50754930 TAATTT-TTTATTATAATATTACG
1 TAATTTATATATTATAATATCACG
50754953 TAATTATATATA
1 TAATT-TATATA
50754965 ATTTGAAGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 5 0.18
22 13 0.46
23 6 0.21
24 1 0.04
25 3 0.11
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (24 bp):
TAATTTATATATTATAATATCACG
Found at i:50757711 original size:21 final size:21
Alignment explanation
Indices: 50757685--50757726 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
50757675 CCCATCCTAA
*
50757685 CAACACCTCTAATATTTTTGT
1 CAACACCTCTAATATTATTGT
50757706 CAACACCTCTAATATTATTGT
1 CAACACCTCTAATATTATTGT
50757727 TTTGTTAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.40
Consensus pattern (21 bp):
CAACACCTCTAATATTATTGT
Found at i:50763249 original size:46 final size:45
Alignment explanation
Indices: 50763182--50763590 Score: 453
Period size: 46 Copynumber: 9.6 Consensus size: 45
50763172 TTTGAGTACT
* *
50763182 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
50763228 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
50763264 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
50763310 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* * *
50763346 TCTAATTAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
50763382 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
50763428 TCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
50763474 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
50763520 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
50763566 TCTGAT-TAGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
50763591 ATCATACGTA
Statistics
Matches: 325, Mismatches: 17, Indels: 44
0.84 0.04 0.11
Matches are distributed among these distances:
36 90 0.28
37 2 0.01
38 1 0.00
39 1 0.00
40 6 0.02
42 6 0.02
43 2 0.01
44 13 0.04
45 7 0.02
46 196 0.60
47 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.30
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:50763259 original size:36 final size:36
Alignment explanation
Indices: 50763218--50763408 Score: 229
Period size: 36 Copynumber: 5.0 Consensus size: 36
50763208 GGTAGCTTTA
50763218 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
50763254 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
50763299 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* * *
50763336 GCTATACTTATCTAATTAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
50763372 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
50763408 G
1 G
50763409 TTAGCTTTAG
Statistics
Matches: 135, Mismatches: 10, Indels: 20
0.82 0.06 0.12
Matches are distributed among these distances:
36 97 0.72
37 2 0.01
40 2 0.01
42 2 0.01
45 2 0.01
46 30 0.22
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:50763319 original size:82 final size:86
Alignment explanation
Indices: 50763182--50763571 Score: 438
Period size: 82 Copynumber: 4.6 Consensus size: 86
50763172 TTTGAGTACT
* * *
50763182 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGT
50763247 GAT-A-AG-T-GCTACACTTA
66 GATAAGAGCTAGCTACACTTA
* *
50763264 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
50763329 GAT-A-AG-T-GCTATACTTA
66 GATAAGAGCTAGCTACACTTA
* * * *
50763346 TCTAATTAAGTGAAAAAGTGATAA---GT-G-C-TA--T--ACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGT
50763401 GATAAGTGTTAGCTTTAGCTACACTTA
66 GATAA--G--AGC--TAGCTACACTTA
* *
50763428 TCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGT
50763493 GATAAGTGGTAGCCTTAGCTACACTTA
66 GATAA---G-AG-C-TAGCTACACTTA
50763520 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGAT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGAT
50763572 TAGGGACAAG
Statistics
Matches: 270, Mismatches: 16, Indels: 34
0.84 0.05 0.11
Matches are distributed among these distances:
72 26 0.10
73 1 0.00
74 1 0.00
76 2 0.01
78 3 0.01
79 2 0.01
81 1 0.00
82 129 0.48
85 2 0.01
86 1 0.00
87 1 0.00
88 2 0.01
90 1 0.00
92 96 0.36
93 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.30
Consensus pattern (86 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGAGCTAGCTACACTTA
Found at i:50763431 original size:118 final size:120
Alignment explanation
Indices: 50763216--50763571 Score: 446
Period size: 118 Copynumber: 2.8 Consensus size: 120
50763206 GTGGTAGCTT
* * *
50763216 TAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAA
1 TAGCTATACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTATACTTATCTGATCAAGTGACAAA
50763281 GTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAA-G
66 GTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGG
* *
50763335 T-GCTATACTTATCTAATTAAGTGAAAAAGTGATAAGTGCTATACTTATCTGATCAAGTGACAAA
1 TAGCTATACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTATACTTATCTGATCAAGTGACAAA
* **
50763399 GTGATAAGTGTTAGCTTTAGCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGG
66 GTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAA--GG
*
50763456 TAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTAT
1 TAG-C-TA--T--ACTTATCTGATCAAGTGAAAAAGTGATAA---GT-G-C-TA--T--ACTTAT
*
50763521 CTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGAT
50 CTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
50763572 TAGGGACAAG
Statistics
Matches: 204, Mismatches: 13, Indels: 21
0.86 0.05 0.09
Matches are distributed among these distances:
118 108 0.53
119 1 0.00
121 2 0.01
122 1 0.00
123 1 0.00
124 2 0.01
126 1 0.00
128 26 0.13
131 2 0.01
132 1 0.00
133 1 0.00
134 2 0.01
136 1 0.00
138 55 0.27
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (120 bp):
TAGCTATACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTATACTTATCTGATCAAGTGACAAA
GTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGG
Found at i:50765085 original size:20 final size:18
Alignment explanation
Indices: 50765037--50765085 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 18
50765027 CATAACTCAA
50765037 TCCATAATTTCATTCCATT
1 TCCAT-ATTTCATTCCATT
50765056 TCACATATTTCACTTCCATT
1 TC-CATATTTCA-TTCCATT
50765076 TCCATCATTT
1 TCCAT-ATTT
50765086 ACCATTTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.47
Consensus pattern (18 bp):
TCCATATTTCATTCCATT
Found at i:50768209 original size:11 final size:11
Alignment explanation
Indices: 50768193--50768219 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
50768183 CAATTAGGAT
50768193 ATACAGAACAA
1 ATACAGAACAA
50768204 ATACAGAACAA
1 ATACAGAACAA
50768215 ATACA
1 ATACA
50768220 AAGGATATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.63, C:0.19, G:0.07, T:0.11
Consensus pattern (11 bp):
ATACAGAACAA
Found at i:50777679 original size:22 final size:22
Alignment explanation
Indices: 50777654--50777699 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
50777644 AACTATCAAT
50777654 AGCTCCTCCCAACATTTAAATA
1 AGCTCCTCCCAACATTTAAATA
50777676 AGCTCCTCCCAACATTTAAATA
1 AGCTCCTCCCAACATTTAAATA
50777698 AG
1 AG
50777700 AGGATAATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.30, G:0.07, T:0.26
Consensus pattern (22 bp):
AGCTCCTCCCAACATTTAAATA
Found at i:50782706 original size:59 final size:59
Alignment explanation
Indices: 50782615--50782753 Score: 239
Period size: 59 Copynumber: 2.4 Consensus size: 59
50782605 ATTACAAAAT
50782615 CATAT-AT-TCTAAGATTGCAT-TATCATATCTAAGATTATATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTATATATCATATCTAAGATTG
* *
50782671 CATATCATATCTAAGATTGCATATATCATATCTAAGATTGTATATCATATCTAGGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTATATATCATATCTAAGATTG
50782730 CATATCATATCTAAGATTGCATAT
1 CATATCATATCTAAGATTGCATAT
50782754 CCTCAAAAAT
Statistics
Matches: 78, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
56 5 0.06
57 2 0.03
58 13 0.17
59 58 0.74
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.40
Consensus pattern (59 bp):
CATATCATATCTAAGATTGCATATATCATATCTAAGATTATATATCATATCTAAGATTG
Found at i:50782748 original size:19 final size:19
Alignment explanation
Indices: 50782622--50782754 Score: 203
Period size: 19 Copynumber: 6.8 Consensus size: 19
50782612 AATCATATAT
50782622 TCTAAGATTGCATTATCATA
1 TCTAAGATTGCA-TATCATA
**
50782642 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
50782661 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
50782680 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
*
50782701 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
*
50782720 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
50782739 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
50782755 CTCAAAAATT
Statistics
Matches: 103, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
19 75 0.73
20 10 0.10
21 18 0.17
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:50783063 original size:43 final size:44
Alignment explanation
Indices: 50782958--50783152 Score: 112
Period size: 44 Copynumber: 4.4 Consensus size: 44
50782948 TGAGCTAGTG
50782958 CTTCAATCTATTCCACTGCAACTGCAGGGAGATAAGACTTACAAT
1 CTTCAATCTATTCCACTGCAAC-GCAGGGAGATAAGACTTACAAT
* * * * *
50783003 CTTCAACCTATTACACTGCTGAC-CAGGGAGATAGGA-TTACTGA-
1 CTTCAATCTATTCCACTGC-AACGCAGGGAGATAAGACTTAC-AAT
* * * * * * *
50783046 CTTCAATGTATTCCACTGTAACCACAGGGAGGTAA-AATCCACCAT
1 CTTCAATCTATTCCACTGCAA-CGCAGGGAGATAAGACT-TACAAT
* * * ** ** *
50783091 CTTCGATCTACTCCACTACTGCTTAGGGAGATAAGA-TCTAAAAT
1 CTTCAATCTATTCCACTGCAACGCAGGGAGATAAGACT-TACAAT
*
50783135 CTTCAATATATTCCACTG
1 CTTCAATCTATTCCACTG
50783153 TTGTCCAGGG
Statistics
Matches: 111, Mismatches: 31, Indels: 17
0.70 0.19 0.11
Matches are distributed among these distances:
42 1 0.01
43 21 0.19
44 53 0.48
45 34 0.31
46 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (44 bp):
CTTCAATCTATTCCACTGCAACGCAGGGAGATAAGACTTACAAT
Found at i:50783224 original size:132 final size:132
Alignment explanation
Indices: 50782983--50783654 Score: 1082
Period size: 132 Copynumber: 5.1 Consensus size: 132
50782973 CTGCAACTGC
* * * * * * *
50782983 AGGGAGATAAGA-CTTACAATCTTCAACCTATTACACTGCTGACCAGGG-AGATAGGATTACTGA
1 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTGTCCAGGGAAG-TAGAATTACTGG
* * * *
50783046 CTTCAATGTATTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACT
64 CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACT
50783111 GCTT
129 GCTT
* *
50783115 AGGGAGATAAGATCTAAAATCTTCAATATATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
* * * * *
50783180 TTAATGTACTCCACTGTAACCACAAGGAGGTAAAATCCGTCATCTTCGATCTACTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
50783245 TT
131 TT
** *
50783247 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTGTAGGGAAGTAGAATTACTAGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
*
50783312 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTTC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
50783377 TT
131 TT
*
50783379 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAA-T-CTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
50783442 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
50783507 TT
131 TT
50783509 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
*
50783574 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
50783639 TT
131 TT
50783641 AGGGAGATAAGATC
1 AGGGAGATAAGATC
50783655 GGTTTTAACC
Statistics
Matches: 505, Mismatches: 31, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
130 126 0.25
131 2 0.00
132 372 0.74
133 5 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (132 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
TT
Found at i:50783276 original size:44 final size:44
Alignment explanation
Indices: 50783221--50783545 Score: 152
Period size: 44 Copynumber: 7.4 Consensus size: 44
50783211 AAAATCCGTC
*
50783221 ATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
* ** *
50783265 ATCTTCAATCTATTCCACTGTTG-TGTAGGGA-AGT-AGAAT-T-ACT
1 ATCTTCAATCTACTCCACTACTGCT-TAGGGAGA-TAAG-ATCTGA-A
* * * ** * * * **
50783308 AGCTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCACTACT--GCTTAGGGAGATAAGATCTGAA
* * *
50783353 ATCTTCGATCTGCTCCACTACTTCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
* ** **
50783397 ATCTTCAATCTATTCCACTGTTGCCCAGGGA-AGT-AGAATCTG--
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGA-TAAG-ATCTGAA
* * * ** * * * **
50783439 -GCTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCACTACT--GCTTAGGGAGATAAGATCTGAA
* *
50783483 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
*
50783527 ATCTTCAATCTATTCCACT
1 ATCTTCAATCTACTCCACT
50783546 GTTGTCCAGG
Statistics
Matches: 198, Mismatches: 61, Indels: 44
0.65 0.20 0.15
Matches are distributed among these distances:
40 1 0.01
41 15 0.08
42 14 0.07
43 25 0.13
44 109 0.55
45 32 0.16
46 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (44 bp):
ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
Found at i:50783559 original size:262 final size:263
Alignment explanation
Indices: 50782983--50783654 Score: 1082
Period size: 262 Copynumber: 2.6 Consensus size: 263
50782973 CTGCAACTGC
* * * * * *
50782983 AGGGAGATAAGA-CTTACAATCTTCAACCTATTACACTGCTGACCAGGG-AGATAGGATTACTGA
1 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTGTCCAGGGAAG-TAGAATTACTG-
* * *
50783046 CTTCAATGTATTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACT
63 CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACT
*
50783111 GCTTAGGGAGATAAGATCTAAAATCTTCAATATATTCCACTGTTGTCCAGGGAAGTAGAATTACT
128 GCTTAGGGAGATAAGATCTAAAATCTTCAATATATTCCACTGTTGCCCAGGGAAGTAGAATTACT
* * *
50783176 GGCTTTAATGTACTCCACTGTAACCACAAGGAGGTAAAATCCGTCATCTTCGATCTACTCCACTA
193 GGCTTCAATGTACTCCACTATAACCACAAGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTA
50783241 CTGCTT
258 CTGCTT
**
50783247 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTGTAGGGAAGTAGAATTACTAGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACT-GCT
* *
50783312 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTTC
65 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGC
* *
50783377 TTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAA-T-CTGG
130 TTAGGGAGATAAGATCTAAAATCTTCAATATATTCCACTGTTGCCCAGGGAAGTAGAATTACTGG
* *
50783440 CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACT
195 CTTCAATGTACTCCACTATAACCACAAGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACT
50783505 GCTT
260 GCTT
50783509 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACT-GCT
50783574 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGC
65 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGC
50783639 TTAGGGAGATAAGATC
130 TTAGGGAGATAAGATC
50783655 GGTTTTAACC
Statistics
Matches: 379, Mismatches: 26, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
262 209 0.55
263 1 0.00
264 163 0.43
265 6 0.02
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (263 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGCTT
CAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGCT
TAGGGAGATAAGATCTAAAATCTTCAATATATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGC
TTCAATGTACTCCACTATAACCACAAGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTG
CTT
Found at i:50783715 original size:44 final size:44
Alignment explanation
Indices: 50783667--50783953 Score: 211
Period size: 44 Copynumber: 6.7 Consensus size: 44
50783657 TTTTAACCCA
*
50783667 CTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTG
* * * ** *
50783711 CTCCACTGCAACTTCAGAGAGATAAGA-T-TCGCCATCTTGGGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTGGC-T-TT-AATCTG
* ** *
50783756 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGTTTAC-TTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGA-TTATTGGCTTTAATCTG
** * * *
50783800 CTCCACTGCAACTTCAGGGAGATAAGACCA---GATGTGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTG
** * * *
50783841 CT-CTTTGCAACTTCAGAGAGATAAG---ATCGGCTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTG
* * *
50783881 CTCCACTGCAACTTCAAGGAGATAGGATCATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTG
*
50783925 CTCCACTGCAACTTTAGGGAGATAAGATT
1 CTCCACTGCAACTTCAGGGAGATAAGATT
50783954 TGCCATCTTC
Statistics
Matches: 186, Mismatches: 39, Indels: 36
0.71 0.15 0.14
Matches are distributed among these distances:
37 1 0.01
40 29 0.16
41 25 0.13
42 3 0.02
43 2 0.01
44 93 0.50
45 30 0.16
47 1 0.01
48 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTG
Found at i:50783782 original size:262 final size:262
Alignment explanation
Indices: 50782958--50783782 Score: 945
Period size: 262 Copynumber: 3.1 Consensus size: 262
50782948 TGAGCTAGTG
* * * * * * * *
50782958 CTTCAATCTATTCCACTGCAACTGCAGGGAGATAAGA-CTTACAATCTTCAACCTATTACACTGC
1 CTTCGATCTACTCCACTACAACT-TAGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGT
* * * * *
50783022 TGACCAGGG-AGATAGGATTACTGACTTCAATGTATTCCACTGTAACCACAGGGAGGTAAAATCC
64 TGTCCAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCC
* * *
50783086 ACCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTAAAATCTTCAATATATTCCAC
128 ACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC--AGATCTTCAATCTATTCCAC
** * *
50783151 TGTTGTCCAGGGAAGTAGAATTACTGGCTTTAATGTACTCCACTGTAACCACA-AGGAGGTAAAA
191 TGTACTCCAGGGAAGTAGGATTATTGGCTTTAATGTACTCCACTGTAACCACAGA-GAGGTAAAA
*
50783215 TCCGTCAT
255 TCCGCCAT
**
50783223 CTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG
1 CTTCGATCTACTCCACTACAACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG
** * *
50783288 TGTAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCC
66 TCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACC
* *
50783353 ATCTTCGATCTGCTCCACTACTTCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGT
131 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC--AGATCTTCAATCTATTCCACTG-
* * * *
50783418 TGC-CCAGGGAAGTA-GA--ATCTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATC
193 TACTCCAGGGAAGTAGGATTAT-TGGCTTTAATGTACTCCACTGTAACCACAGAGAGGTAAAATC
50783479 CGCCAT
257 CGCCAT
* **
50783485 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG
1 CTTCGATCTACTCCACTACAACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG
50783550 TCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACC
66 TCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACC
* * * * * *
50783615 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC-GGT-TTTAACCCACTCCACTGCAA
131 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCAGATCTTCAATCTATTCCACTG-TA
* * * * ** * * *
50783678 CTTCAGGG-AGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCG
195 CTCCAGGGAAG-TAGGATTATTGGCTTTAATGTACTCCACTGTAACCACAGAGAGGTAAAATCCG
50783742 CCAT
259 CCAT
* * *
50783746 CTTGGGTCTAC-CTCACTGCAACTTCA-GGAGGATAAGA
1 CTTCGATCTACTC-CACTACAACTT-AGGGA-GATAAGA
50783783 CTTGTTTACT
Statistics
Matches: 483, Mismatches: 64, Indels: 29
0.84 0.11 0.05
Matches are distributed among these distances:
258 16 0.03
259 8 0.02
260 3 0.01
261 57 0.12
262 217 0.45
263 1 0.00
264 157 0.33
265 24 0.05
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (262 bp):
CTTCGATCTACTCCACTACAACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG
TCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACC
ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCAGATCTTCAATCTATTCCACTGTAC
TCCAGGGAAGTAGGATTATTGGCTTTAATGTACTCCACTGTAACCACAGAGAGGTAAAATCCGCC
AT
Found at i:50786652 original size:26 final size:25
Alignment explanation
Indices: 50786596--50786643 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
50786586 GAAGAAAATC
50786596 CAAAAGAATGAAAGAACAATTATTT
1 CAAAAGAATGAAAGAACAATTATTT
50786621 CAAAAAGAATGAAA-AA-AATTATT
1 C-AAAAGAATGAAAGAACAATTATT
50786644 GGCTCAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.60, C:0.06, G:0.10, T:0.23
Consensus pattern (25 bp):
CAAAAGAATGAAAGAACAATTATTT
Found at i:50791295 original size:19 final size:19
Alignment explanation
Indices: 50791271--50791383 Score: 163
Period size: 19 Copynumber: 5.8 Consensus size: 19
50791261 AATCATATAT
50791271 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
50791290 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
50791309 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
50791330 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
50791349 TCTAGGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
50791368 TCTAAGATTGTATATC
1 TCTAAGATTGCATATC
50791384 CTCAAAAATT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
19 64 0.77
21 19 0.23
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:50791338 original size:59 final size:59
Alignment explanation
Indices: 50791271--50791382 Score: 197
Period size: 59 Copynumber: 1.9 Consensus size: 59
50791261 AATCATATAT
*
50791271 TCTAAGATTGCATATCATATCTAAGATTATATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTGCATATATCATA
* *
50791330 TCTAAGATTGCATATCATATCTAGGATTACATATCATATCTAAGATTGTATAT
1 TCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTGCATAT
50791383 CCTCAAAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (59 bp):
TCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTGCATATATCATA
Found at i:50795256 original size:19 final size:19
Alignment explanation
Indices: 50795232--50795269 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
50795222 GATTTATGGT
50795232 GTTGACACCATTTTTTGGA
1 GTTGACACCATTTTTTGGA
50795251 GTTGACACCATTTTTTGGA
1 GTTGACACCATTTTTTGGA
50795270 TGAAAACGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (19 bp):
GTTGACACCATTTTTTGGA
Found at i:50796257 original size:2 final size:2
Alignment explanation
Indices: 50796250--50796306 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
50796240 TGTATGCATG
50796250 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
50796292 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
50796307 GTTTTGAAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:50796426 original size:2 final size:2
Alignment explanation
Indices: 50796421--50796495 Score: 61
Period size: 2 Copynumber: 39.0 Consensus size: 2
50796411 GTGTGTACAC
* * * *
50796421 AT AT AT GT AT AT AT AT AT AT A- AG GT AT AT A- AA AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50796460 AT A- AGT AT GA- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT A-T AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50796496 GACAAAATGT
Statistics
Matches: 60, Mismatches: 6, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
1 5 0.08
2 53 0.88
3 2 0.03
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.43
Consensus pattern (2 bp):
AT
Done.