Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 116 of 150
Found at i:35848454 original size:10 final size:10
Alignment explanation
Indices: 35848432--35848523 Score: 70
Period size: 10 Copynumber: 9.4 Consensus size: 10
35848422 GTAGTATTTT
35848432 AAAAATTAT-
1 AAAAATTATA
35848441 AAAAATTATAA
1 AAAAATTAT-A
35848452 AAAAATT-TA
1 AAAAATTATA
*
35848461 TAAAAATTATC
1 -AAAAATTATA
*
35848472 AAAACTTATA
1 AAAAATTATA
*
35848482 ATATAATT-TA
1 A-AAAATTATA
35848492 AAAATATT-T-
1 AAAA-ATTATA
35848501 AAAAATTAT-
1 AAAAATTATA
*
35848510 AAAAATCATA
1 AAAAATTATA
35848520 AAAA
1 AAAA
35848524 TTACAACACA
Statistics
Matches: 68, Mismatches: 7, Indels: 15
0.76 0.08 0.17
Matches are distributed among these distances:
8 3 0.04
9 25 0.37
10 28 0.41
11 12 0.18
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAAATTATA
Found at i:35848461 original size:21 final size:20
Alignment explanation
Indices: 35848432--35848526 Score: 92
Period size: 21 Copynumber: 4.8 Consensus size: 20
35848422 GTAGTATTTT
35848432 AAAAATTATAAAAATTATAA
1 AAAAATTATAAAAATTATAA
*
35848452 AAAAATTTATAAAAATTAT-C
1 AAAAA-TTATAAAAATTATAA
*
35848472 AAAACTTATAATATAATT-TAA
1 AAAAATTATAA-A-AATTATAA
*
35848493 AAATATT-TAAAAATTAT--
1 AAAAATTATAAAAATTATAA
*
35848510 AAAAATCATAAAAATTA
1 AAAAATTATAAAAATTA
35848527 CAACACAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
17 5 0.08
18 13 0.21
19 8 0.13
20 14 0.23
21 22 0.35
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAAATTATAAAAATTATAA
Found at i:35859763 original size:18 final size:18
Alignment explanation
Indices: 35859713--35859768 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
35859703 GTAATACCTA
*
35859713 ATAAAAAAAAGTAAATTT
1 ATAAAAAAAATTAAATTT
* * *
35859731 -TTAACAATATATAAATTT
1 ATAAAAAAAAT-TAAATTT
*
35859749 ATAAAAAAAATTAAAATT
1 ATAAAAAAAATTAAATTT
35859767 AT
1 AT
35859769 TTTACATTGA
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
17 6 0.21
18 15 0.54
19 7 0.25
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (18 bp):
ATAAAAAAAATTAAATTT
Found at i:35860537 original size:17 final size:16
Alignment explanation
Indices: 35860506--35860539 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
35860496 TTTTAATTTC
35860506 AAAATAATAATATAAA
1 AAAATAATAATATAAA
*
35860522 AAAATTATATATATAAA
1 AAAATAATA-ATATAAA
35860539 A
1 A
35860540 TTATTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATAATAATATAAA
Found at i:35864091 original size:11 final size:11
Alignment explanation
Indices: 35864064--35864127 Score: 85
Period size: 11 Copynumber: 5.7 Consensus size: 11
35864054 ACTAATCCTA
*
35864064 TCTCAAATTTTC
1 TCTCAAA-TTCC
35864076 TCTCAAATTCC
1 TCTCAAATTCC
35864087 TCTCAAATTCC
1 TCTCAAATTCC
35864098 TCTCAAATTCC
1 TCTCAAATTCC
*
35864109 T-TCCAAATTTC
1 TCT-CAAATTCC
35864120 TCTCAAAT
1 TCTCAAAT
35864128 CCATATTTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
10 1 0.02
11 39 0.81
12 8 0.17
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (11 bp):
TCTCAAATTCC
Found at i:35864103 original size:22 final size:22
Alignment explanation
Indices: 35864064--35864127 Score: 94
Period size: 22 Copynumber: 2.9 Consensus size: 22
35864054 ACTAATCCTA
35864064 TCTCAAATTTTCTCTCAAATTCC
1 TCTCAAA-TTTCTCTCAAATTCC
*
35864087 TCTCAAATTCCTCTCAAATTCC
1 TCTCAAATTTCTCTCAAATTCC
35864109 T-TCCAAATTTCTCTCAAAT
1 TCT-CAAATTTCTCTCAAAT
35864128 CCATATTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
21 1 0.03
22 30 0.79
23 7 0.18
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (22 bp):
TCTCAAATTTCTCTCAAATTCC
Found at i:35866889 original size:30 final size:31
Alignment explanation
Indices: 35866844--35866903 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
35866834 TACATATGTA
* * *
35866844 TATATTTATATTTTTTTCATGAATATTTTTC
1 TATATTTACATTTTTTTAATAAATATTTTTC
35866875 TATATTT-CATTTTTTTAATAAATATTTTT
1 TATATTTACATTTTTTTAATAAATATTTTT
35866904 GTATTTATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (31 bp):
TATATTTACATTTTTTTAATAAATATTTTTC
Found at i:35867257 original size:14 final size:14
Alignment explanation
Indices: 35867237--35867273 Score: 51
Period size: 12 Copynumber: 2.7 Consensus size: 14
35867227 TTTTTTATGC
35867237 ATATTATTTTCGTTT
1 ATATTATTTT-GTTT
35867252 AT-TTA-TTTGTTT
1 ATATTATTTTGTTT
35867264 ATATTATTTT
1 ATATTATTTT
35867274 TATGCCATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 6 0.30
13 6 0.30
14 6 0.30
15 2 0.10
ACGTcount: A:0.22, C:0.03, G:0.05, T:0.70
Consensus pattern (14 bp):
ATATTATTTTGTTT
Found at i:35867303 original size:15 final size:15
Alignment explanation
Indices: 35867280--35867314 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
35867270 TTTTTATGCC
*
35867280 ATTGATGTATTTATT
1 ATTGTTGTATTTATT
35867295 ATTGTTGTATTTATT
1 ATTGTTGTATTTATT
35867310 ATTGT
1 ATTGT
35867315 GGCATTTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.14, T:0.63
Consensus pattern (15 bp):
ATTGTTGTATTTATT
Found at i:35867321 original size:15 final size:15
Alignment explanation
Indices: 35867288--35867321 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
35867278 CCATTGATGT
* *
35867288 ATTTATTATTGTTGT
1 ATTTATTATTGTGGC
35867303 ATTTATTATTGTGGC
1 ATTTATTATTGTGGC
35867318 ATTT
1 ATTT
35867322 GTACATACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.03, G:0.15, T:0.62
Consensus pattern (15 bp):
ATTTATTATTGTGGC
Found at i:35879627 original size:50 final size:50
Alignment explanation
Indices: 35879451--35879627 Score: 140
Period size: 50 Copynumber: 3.5 Consensus size: 50
35879441 ACGGTGGAGT
* * * ** *
35879451 AGATTGAAACCACGACGGTGAATCTTACTCCCCTGACGGTGTAGTGGAAC
1 AGATTGAAGCCACGACGGCGAATCTTACTTCCCTGACATTGAAGTGGAAC
* ** * * ** *
35879501 AGATTGAAGCTACGACGGCGAATCTTGTTTCCTTAACATTGCAA-TTTAAA
1 AGATTGAAGCCACGACGGCGAATCTTACTTCCCTGACATTG-AAGTGGAAC
* * * * * * * *
35879551 AGACTGAAGCCGCGGCGGTGAGTCTTACTTCCCTGGCATTGAAGCGGAGC
1 AGATTGAAGCCACGACGGCGAATCTTACTTCCCTGACATTGAAGTGGAAC
35879601 AGATTGAAGCCACGACGGCGAATCTTA
1 AGATTGAAGCCACGACGGCGAATCTTA
35879628 TCTCCCTAGC
Statistics
Matches: 90, Mismatches: 35, Indels: 4
0.70 0.27 0.03
Matches are distributed among these distances:
49 2 0.02
50 87 0.97
51 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.24
Consensus pattern (50 bp):
AGATTGAAGCCACGACGGCGAATCTTACTTCCCTGACATTGAAGTGGAAC
Found at i:35879744 original size:267 final size:267
Alignment explanation
Indices: 35879306--35879793 Score: 760
Period size: 267 Copynumber: 1.8 Consensus size: 267
35879296 CAACGGCGAA
* * * *
35879306 TCTTATTTCCATGGCATTGTAGCGGAGCAGATTGAAGCCACAACGGCGAATCTTATCTCTCTAGT
1 TCTTACTTCCATGGCATTGAAGCGGAGCAGATTGAAGCCACAACGGCGAATCTTATCTCCCTAGC
*
35879371 ATTAAGGCTTGGATTAGCTGAAGTGGAGTGGATTAAAGCTGTGGGCAGCGAATCCTATCTCGTTA
66 ATTAAGGCTTGGATTAGCTGAAGTGGAGAGGATTAAAGCTGTGGGCAGCGAATCCTATCTCGTTA
* ** * * *
35879436 GTATTACGGTGGAGTAGATTGAAACCACGACGGTGAATCTTACTCCCCTGACGGTGTAGTGGAAC
131 GCATTACAATGGAGCAGATTGAAACCACGACAGTGAATCTTACTCCCCTGACGGTGTAGCGGAAC
* *
35879501 AGATTGAAGCTACGACGGCGAATCTTGTTTCCTTAACATTGCAATTTAAAAGACTGAAGCCGCGG
196 AGATTGAAGCCACGACGGCAAATCTTGTTTCCTTAACATTGCAATTTAAAAGACTGAAGCCGCGG
35879566 CGGTGAG
261 CGGTGAG
* *
35879573 TCTTACTTCCCTGGCATTGAAGCGGAGCAGATTGAAGCCACGACGGCGAATCTTATCTCCCTAGC
1 TCTTACTTCCATGGCATTGAAGCGGAGCAGATTGAAGCCACAACGGCGAATCTTATCTCCCTAGC
* * * *
35879638 GTTAAGGCTTGGATTAGTTGAAGTGGAGAGGATTAAAGCTGTGGGCAGCGAATTCTATCTCTTTA
66 ATTAAGGCTTGGATTAGCTGAAGTGGAGAGGATTAAAGCTGTGGGCAGCGAATCCTATCTCGTTA
* * * * *
35879703 GCATTACAATGGAGCAGATTGAAACCATGACAGTGAATCTTACTTCCCTGGCGTTGTAGCGGAGC
131 GCATTACAATGGAGCAGATTGAAACCACGACAGTGAATCTTACTCCCCTGACGGTGTAGCGGAAC
35879768 AGATTGAAGCCACGACGGCAAATCTT
196 AGATTGAAGCCACGACGGCAAATCTT
35879794 ATCTCCCTGA
Statistics
Matches: 197, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
267 197 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (267 bp):
TCTTACTTCCATGGCATTGAAGCGGAGCAGATTGAAGCCACAACGGCGAATCTTATCTCCCTAGC
ATTAAGGCTTGGATTAGCTGAAGTGGAGAGGATTAAAGCTGTGGGCAGCGAATCCTATCTCGTTA
GCATTACAATGGAGCAGATTGAAACCACGACAGTGAATCTTACTCCCCTGACGGTGTAGCGGAAC
AGATTGAAGCCACGACGGCAAATCTTGTTTCCTTAACATTGCAATTTAAAAGACTGAAGCCGCGG
CGGTGAG
Found at i:35879792 original size:50 final size:50
Alignment explanation
Indices: 35879713--35879822 Score: 123
Period size: 50 Copynumber: 2.2 Consensus size: 50
35879703 GCATTACAAT
* ** ** *
35879713 GGAGCAGATTGAAACCATGACAGTGAATCTTA-CTTCCCTGGCGTTGTAGC
1 GGAGCAGATTGAAACCACGACAGCAAATCTTATC-TCCCTGAAGTTGCAGC
* * *
35879763 GGAGCAGATTGAAGCCACGACGGCAAATCTTATCTCCCTGAAGTTGCAGT
1 GGAGCAGATTGAAACCACGACAGCAAATCTTATCTCCCTGAAGTTGCAGC
35879813 GGAGCAGATT
1 GGAGCAGATT
35879823 AAAAACTTAG
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 49 0.98
51 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (50 bp):
GGAGCAGATTGAAACCACGACAGCAAATCTTATCTCCCTGAAGTTGCAGC
Found at i:35881408 original size:27 final size:27
Alignment explanation
Indices: 35881353--35881411 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
35881343 TTAATTGATA
*
35881353 ATGTAATTATTTTATGTATATATATAT
1 ATGTAATTATTTTATGTATATATACAT
* *
35881380 ATGTAATTATTATTAT-TTTATCTACAT
1 ATGTAATTATT-TTATGTATATATACAT
35881407 ATGTA
1 ATGTA
35881412 TATATTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 24 0.86
28 4 0.14
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.54
Consensus pattern (27 bp):
ATGTAATTATTTTATGTATATATACAT
Found at i:35881453 original size:29 final size:30
Alignment explanation
Indices: 35881412--35881469 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
35881402 TACATATGTA
* * *
35881412 TATATTTATATTTTTTCATGAATATTTTTC
1 TATATTTACATTTTTTAATAAATATTTTTC
35881442 TATATTT-CATTTTTTAATAAATATTTTT
1 TATATTTACATTTTTTAATAAATATTTTT
35881470 GTATTTATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (30 bp):
TATATTTACATTTTTTAATAAATATTTTTC
Found at i:35881872 original size:15 final size:15
Alignment explanation
Indices: 35881847--35881881 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
35881837 TTTTTATGCC
*
35881847 ATTGATGTATTTATT
1 ATTGTTGTATTTATT
*
35881862 GTTGTTGTATTTATT
1 ATTGTTGTATTTATT
35881877 ATTGT
1 ATTGT
35881882 GGCATTTGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.17, T:0.63
Consensus pattern (15 bp):
ATTGTTGTATTTATT
Found at i:35883729 original size:21 final size:20
Alignment explanation
Indices: 35883712--35884012 Score: 164
Period size: 21 Copynumber: 14.4 Consensus size: 20
35883702 ACAAACCTTA
35883712 AACCCTTAACAAAAAACCCT
1 AACCCTTAACAAAAAACCCT
** *
35883732 AACCCTTAATTAGAAACCCT
1 AACCCTTAACAAAAAACCCT
*
35883752 AACCC-TAAAATTAAAAACCCT
1 AACCCTTAACA--AAAAACCCT
*
35883773 AAACCTTAA-ATTAAAAACCCT
1 AACCCTTAACA--AAAAACCCT
* *
35883794 AACCCTTAACTTAAAAACCTT
1 AACCCTTAAC-AAAAAACCCT
* *
35883815 AACCCTTAA-ATTAATAACTCT
1 AACCCTTAACA--AAAAACCCT
* *
35883836 AAACCTTAACTTAAAAACCCT
1 AACCCTTAAC-AAAAAACCCT
* *
35883857 AACCCTTAACTTAAAAACCTT
1 AACCCTTAAC-AAAAAACCCT
*
35883878 AACGCTTAA-ATTAAAAACCCT
1 AACCCTTAACA--AAAAACCCT
* *
35883899 AAACCC-TAACTTAATAACCCT
1 -AACCCTTAAC-AAAAAACCCT
* * *
35883920 AAACCTTAACTTAAAACCCCT
1 AACCCTTAAC-AAAAAACCCT
* *
35883941 AATCCCTTACCTTAAAAACCCT
1 AA-CCCTTAAC-AAAAAACCCT
* *
35883963 AACCCTTAACTTAAAAATCCT
1 AACCCTTAAC-AAAAAACCCT
*
35883984 AATCCTTAA-ATTAAAAACCCT
1 AACCCTTAACA--AAAAACCCT
*
35884005 AAACCTTA
1 AACCCTTA
35884013 NNNNNNNNNN
Statistics
Matches: 225, Mismatches: 38, Indels: 35
0.76 0.13 0.12
Matches are distributed among these distances:
19 3 0.01
20 26 0.12
21 171 0.76
22 25 0.11
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.25
Consensus pattern (20 bp):
AACCCTTAACAAAAAACCCT
Found at i:35883768 original size:42 final size:41
Alignment explanation
Indices: 35883712--35884012 Score: 345
Period size: 42 Copynumber: 7.2 Consensus size: 41
35883702 ACAAACCTTA
* *
35883712 AACCCTTAAC-AAAAAACCCTAACCCTTAATTAGAAACCCT
1 AACCCTTAACTTAAAAACCCTAACCCTTAATTAAAAACCCT
* * *
35883752 AACCCTAAAATTAAAAACCCTAAACCTTAAATTAAAAACCCT
1 AACCCTTAACTTAAAAACCCTAACCCTT-AATTAAAAACCCT
* * *
35883794 AACCCTTAACTTAAAAACCTTAACCCTTAAATTAATAACTCT
1 AACCCTTAACTTAAAAACCCTAACCCTT-AATTAAAAACCCT
* *
35883836 AAACCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCTT
1 AACCCTTAACTTAAAAACCCTAACCCTTAA-TTAAAAACCCT
* * *
35883878 AACGCTTAAATTAAAAACCCTAAACCC-TAACTTAATAACCCT
1 AACCCTTAACTTAAAAACCCT-AACCCTTAA-TTAAAAACCCT
* * *
35883920 AAACCTTAACTTAAAACCCCTAATCCCTTACCTTAAAAACCCT
1 AACCCTTAACTTAAAAACCCTAA-CCCTTA-ATTAAAAACCCT
* *
35883963 AACCCTTAACTTAAAAATCCTAATCCTTAAATTAAAAACCCT
1 AACCCTTAACTTAAAAACCCTAACCCTT-AATTAAAAACCCT
*
35884005 AAACCTTA
1 AACCCTTA
35884013 NNNNNNNNNN
Statistics
Matches: 220, Mismatches: 33, Indels: 14
0.82 0.12 0.05
Matches are distributed among these distances:
40 8 0.04
41 19 0.09
42 155 0.70
43 38 0.17
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.25
Consensus pattern (41 bp):
AACCCTTAACTTAAAAACCCTAACCCTTAATTAAAAACCCT
Found at i:35883826 original size:63 final size:63
Alignment explanation
Indices: 35883704--35884012 Score: 397
Period size: 63 Copynumber: 4.9 Consensus size: 63
35883694 TTTAATTGAC
* * * *
35883704 AAACCTTAAACCCTTAAC-AAAAAACCCTAACCCTTAA-TTAGAAACCCTAACCCTAAAATTAA
1 AAACCCTAAA-CCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAAATTAA
* *
35883766 AAACCCTAAACCTTAAATTAAAAACCCTAACCCTTAACTTAAAAACCTTAACCCTTAAATTAA
1 AAACCCTAAACCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAAATTAA
* * * *
35883829 TAACTCTAAACCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCTTAACGCTTAAATTAA
1 AAACCCTAAACCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAAATTAA
* * * * **
35883892 AAACCCTAAACCCTAACTTAATAACCCTAAACCTTAACTTAAAACCCCTAATCCCTTACCTTAA
1 AAACCCTAAACCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAA-CCCTTAAATTAA
* * * * *
35883956 AAACCCTAACCCTTAACTTAAAAATCCTAATCCTTAAATTAAAAACCCTAAACCTTA
1 AAACCCTAAACCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTA
35884013 NNNNNNNNNN
Statistics
Matches: 216, Mismatches: 28, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
61 6 0.03
62 27 0.12
63 130 0.60
64 53 0.25
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.25
Consensus pattern (63 bp):
AAACCCTAAACCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAAATTAA
Found at i:35884167 original size:21 final size:21
Alignment explanation
Indices: 35884142--35884561 Score: 414
Period size: 21 Copynumber: 19.1 Consensus size: 21
35884132 NNNNNNNNNN
*
35884142 AAAACCCTAACCCTTAACTTA
1 AAAACCCTAACCCTTAAATTA
*
35884163 AAAACCCTAACCCTTAACTTA
1 AAAACCCTAACCCTTAAATTA
*
35884184 AAAAACCTAACCCTT-AATTA
1 AAAACCCTAACCCTTAAATTA
35884204 AAAACCCTAACCCTTAAATTA
1 AAAACCCTAACCCTTAAATTA
* *
35884225 AAAATCTTAAACCCTT-AA-TA
1 AAAACCCT-AACCCTTAAATTA
*
35884245 CAATTATACCCTAAACCTTAAACTTAAA
1 -AA--A-ACCCTAACCCTTAAA-TT--A
*
35884273 ATCCCAAACCCTAACCATTAAATTA
1 A----AAACCCTAACCCTTAAATTA
*
35884298 AAAACCCTAAACCTTAAATTA
1 AAAACCCTAACCCTTAAATTA
*
35884319 AAAACCCTAACCCTTAACTTA
1 AAAACCCTAACCCTTAAATTA
* *
35884340 AAAACTCTAACCCATAAATTA
1 AAAACCCTAACCCTTAAATTA
* * *
35884361 AAAACTCTAAACCTTAACTTA
1 AAAACCCTAACCCTTAAATTA
*
35884382 AAAACCCTAAACCATTAAATTA
1 AAAACCCT-AACCCTTAAATTA
*
35884404 AAAACCCTCACCCTTAAATTA
1 AAAACCCTAACCCTTAAATTA
* *
35884425 ATAACCCTAAACCCTTAACTTA
1 AAAACCCT-AACCCTTAAATTA
* * **
35884447 AAAACCATAAACCTTTACCTTA
1 AAAACCCT-AACCCTTAAATTA
35884469 AAAACCCTAACCCTAACCATTAAATTA
1 AAAACCCTAA--C---CC-TTAAATTA
* *
35884496 AAAACCTTAAACCTTAAATTA
1 AAAACCCTAACCCTTAAATTA
35884517 AAAACCCTAACCCTTAAATTA
1 AAAACCCTAACCCTTAAATTA
35884538 AAAACCCTAACCCTTAAATTA
1 AAAACCCTAACCCTTAAATTA
35884559 AAA
1 AAA
35884562 NNNNNNNNNN
Statistics
Matches: 335, Mismatches: 41, Indels: 46
0.79 0.10 0.11
Matches are distributed among these distances:
20 20 0.06
21 201 0.60
22 63 0.19
23 8 0.02
24 5 0.01
25 2 0.01
26 2 0.01
27 18 0.05
28 14 0.04
29 1 0.00
31 1 0.00
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (21 bp):
AAAACCCTAACCCTTAAATTA
Found at i:35884286 original size:28 final size:29
Alignment explanation
Indices: 35884252--35884315 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 29
35884242 ATACAATTAT
*
35884252 ACCCTAAACC-TTAAACTTAAAATCCC-AA
1 ACCCTAAACCATTAAA-TTAAAAACCCTAA
35884280 ACCCT-AACCATTAAATTAAAAACCCTAA
1 ACCCTAAACCATTAAATTAAAAACCCTAA
*
35884308 ACCTTAAA
1 ACCCTAAA
35884316 TTAAAAACCC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 13 0.42
28 16 0.52
29 2 0.06
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (29 bp):
ACCCTAAACCATTAAATTAAAAACCCTAA
Found at i:35884385 original size:198 final size:197
Alignment explanation
Indices: 35884142--35884561 Score: 612
Period size: 198 Copynumber: 2.1 Consensus size: 197
35884132 NNNNNNNNNN
* * *
35884142 AAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAAACCT-AACCCTT-AATTAA
1 AAAACCCTAACCCTTAAATTAAAAACCCTAAACCTTAACTTAAAAAACCTAAACCATTAAATTAA
* * *
35884205 AAACCCTAACCCTTAAATTAAAAATCTTAAACCCTTAA-TACAATTATACCCTAAACCTTAAACT
66 AAACCCTAACCCTTAAATTAAAAACCCTAAACCCTTAACTA-AA--A-ACCATAAACCTTAAACT
*
35884269 TAAAATCCCAAACCCTAACCATTAAATTAAAAACCCTAAACCTTAAATTAAAAACCCTAACCCTT
127 TAAAAACCCAAACCCTAACCATTAAATTAAAAACCCTAAACCTTAAATTAAAAACCCTAACCCTT
*
35884334 AACTTA
192 AAATTA
* * * *
35884340 AAAACTCTAACCCATAAATTAAAAACTCTAAACCTTAACTTAAAAACCCTAAACCATTAAATTAA
1 AAAACCCTAACCCTTAAATTAAAAACCCTAAACCTTAACTTAAAAAACCTAAACCATTAAATTAA
* * * *
35884405 AAACCCTCACCCTTAAATTAATAACCCTAAACCCTTAACTTAAAAACCATAAACCTTTACCTTAA
66 AAACCCTAACCCTTAAATTAAAAACCCTAAACCCTTAAC-TAAAAACCATAAACCTTAAACTTAA
* *
35884470 AAACCCTAACCCTAACCATTAAATTAAAAACCTTAAACCTTAAATTAAAAACCCTAACCCTTAAA
130 AAACCCAAACCCTAACCATTAAATTAAAAACCCTAAACCTTAAATTAAAAACCCTAACCCTTAAA
35884535 TTA
195 TTA
35884538 AAAACCCTAACCCTTAAATTAAAA
1 AAAACCCTAACCCTTAAATTAAAA
35884562 NNNNNNNNNN
Statistics
Matches: 198, Mismatches: 20, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
198 147 0.74
199 7 0.04
200 40 0.20
201 2 0.01
202 2 0.01
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (197 bp):
AAAACCCTAACCCTTAAATTAAAAACCCTAAACCTTAACTTAAAAAACCTAAACCATTAAATTAA
AAACCCTAACCCTTAAATTAAAAACCCTAAACCCTTAACTAAAAACCATAAACCTTAAACTTAAA
AACCCAAACCCTAACCATTAAATTAAAAACCCTAAACCTTAAATTAAAAACCCTAACCCTTAAAT
TA
Found at i:35884499 original size:49 final size:49
Alignment explanation
Indices: 35884384--35884530 Score: 164
Period size: 43 Copynumber: 3.1 Consensus size: 49
35884374 TTAACTTAAA
* * *
35884384 AACCCTAAACCATTAAATTAAAAACCCTCACCCTTAAATT---AA---T
1 AACCCTAAACCATTAAATTAAAAACCATAAACCTTAAATTAAAAACCCT
* * **
35884427 AACCCTAAACCCTTAACTTAAAAACCATAAACCTTTACCTTAAAAACCCT
1 AACCCTAAACCATTAAATTAAAAACCATAAACC-TTAAATTAAAAACCCT
*
35884477 AACCCT-AACCATTAAATTAAAAACCTTAAACCTTAAATTAAAAACCCT
1 AACCCTAAACCATTAAATTAAAAACCATAAACCTTAAATTAAAAACCCT
35884525 AACCCT
1 AACCCT
35884531 TAAATTAAAA
Statistics
Matches: 85, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
43 28 0.33
44 5 0.06
47 2 0.02
48 20 0.24
49 23 0.27
50 7 0.08
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.24
Consensus pattern (49 bp):
AACCCTAAACCATTAAATTAAAAACCATAAACCTTAAATTAAAAACCCT
Found at i:35884905 original size:27 final size:21
Alignment explanation
Indices: 35884718--35885622 Score: 799
Period size: 21 Copynumber: 42.8 Consensus size: 21
35884708 NNNNNTTAAA
* *
35884718 CCTTAACTTAATAACCCTAAA
1 CCTTAACTTAAAAACCCTAAC
*
35884739 CCTTAACATAAAAACCCTAAC
1 CCTTAACTTAAAAACCCTAAC
* * *
35884760 CCATAACTT-AAAACCTTAAA
1 CCTTAACTTAAAAACCCTAAC
*
35884780 CTTTAA-TTAAAAACCCTAAC
1 CCTTAACTTAAAAACCCTAAC
* * * *
35884800 CCATAAATTAAAATCGCTAAC
1 CCTTAACTTAAAAACCCTAAC
* * * **
35884821 GCTTAGCATAAAAATGCTAAC
1 CCTTAACTTAAAAACCCTAAC
* *
35884842 CCTTAAATTTAAAACCCTAAC
1 CCTTAACTTAAAAACCCTAAC
35884863 CCTTAACTTAAAAACCCTAAC
1 CCTTAACTTAAAAACCCTAAC
**
35884884 CCTTAACTTAAAAACATTAAC
1 CCTTAACTTAAAAACCCTAAC
* * *
35884905 CCTTAAATTAAAAGCCCTAAA
1 CCTTAACTTAAAAACCCTAAC
* * *
35884926 CCTTAGCTTAATAACCCTAAA
1 CCTTAACTTAAAAACCCTAAC
* *
35884947 CCTTAACTTAATAACACTAAAC
1 CCTTAACTTAAAAACCCT-AAC
*
35884969 CTTTAACTTAAAAACCCTAAC
1 CCTTAACTTAAAAACCCTAAC
* *
35884990 TCTTAACTTAAAAATCCTAAC
1 CCTTAACTTAAAAACCCTAAC
* * *
35885011 CCTTAAATTAAAAACCTTAAA
1 CCTTAACTTAAAAACCCTAAC
* *
35885032 CCTTAACTTAATAACCCTAAA
1 CCTTAACTTAAAAACCCTAAC
*
35885053 CCTTAACTT-AAAACCCTAAAG
1 CCTTAACTTAAAAACCCT-AAC
35885074 CCTTAAC-TAAAAACCCTAAC
1 CCTTAACTTAAAAACCCTAAC
*
35885094 CCTTAA-TTAAAAACCGTAAC
1 CCTTAACTTAAAAACCCTAAC
* * * *
35885114 TCTTAAATTAAAATCACTAAC
1 CCTTAACTTAAAAACCCTAAC
*
35885135 CCTTAACTTAAAAACCTTAAC
1 CCTTAACTTAAAAACCCTAAC
* *
35885156 CCTTAA-TTAGAAACCCTAAA
1 CCTTAACTTAAAAACCCTAAC
* *
35885176 CTTTAAATTAAAAACCCTAAC
1 CCTTAACTTAAAAACCCTAAC
* *
35885197 CCTTAA-TTTAAAACTCT-AC
1 CCTTAACTTAAAAACCCTAAC
* *
35885216 CACTTAAATTAAAAACCCTAAA
1 C-CTTAACTTAAAAACCCTAAC
* *
35885238 CCTTAACTTAATAACCCTAAA
1 CCTTAACTTAAAAACCCTAAC
* * *
35885259 TCTTAATTTAAAAACACTAAGC
1 CCTTAACTTAAAAACCCTAA-C
*
35885281 CCTTAACTTAAAAACCTTAAC
1 CCTTAACTTAAAAACCCTAAC
***
35885302 CCTTAACTTAAAAATTATAAC
1 CCTTAACTTAAAAACCCTAAC
* * *
35885323 CCTTAAATTACAAACCCTAAA
1 CCTTAACTTAAAAACCCTAAC
**
35885344 ATTTAACTT-AAAA-CCTAAAC
1 CCTTAACTTAAAAACCCT-AAC
* *
35885364 CCTAAACTTAAAAACACTAAC
1 CCTTAACTTAAAAACCCTAAC
* *
35885385 CCTTAAATTAAAAAACCCAAAC
1 CCTTAACTT-AAAAACCCTAAC
*
35885407 CCTTAA-TAAAATTATACCCTAAAC
1 CCTTAACTTAAA--A-ACCCT-AAC
*
35885431 CTTTAACTT-AAAACCCTAAACC
1 CCTTAACTTAAAAACCCT-AA-C
* * *
35885453 TAACCATTAAATTAAAAATCCTAAA
1 ---CC-TTAACTTAAAAACCCTAAC
* * *
35885478 CATTAAATTAAAAACCCTAAA
1 CCTTAACTTAAAAACCCTAAC
* *
35885499 CTTTAAATTAAAAACCCTAAC
1 CCTTAACTTAAAAACCCTAAC
* *
35885520 CCTTAAATTAAAAACCCTAAA
1 CCTTAACTTAAAAACCCTAAC
*
35885541 CCTTAACTTAATAACCCTAAC
1 CCTTAACTTAAAAACCCTAAC
* *
35885562 ACTTAACTTAAAAACCCTAAAA
1 CCTTAACTTAAAAACCCT-AAC
35885584 CCTTAACTTAAAAAACCCTAAAC
1 CCTTAACTT-AAAAACCCT-AAC
35885607 CCTTAACTTAAAAACC
1 CCTTAACTTAAAAACC
35885623 TTAAGGTTTT
Statistics
Matches: 716, Mismatches: 139, Indels: 57
0.79 0.15 0.06
Matches are distributed among these distances:
19 8 0.01
20 103 0.14
21 479 0.67
22 74 0.10
23 25 0.03
24 10 0.01
25 2 0.00
26 8 0.01
27 7 0.01
ACGTcount: A:0.47, C:0.26, G:0.01, T:0.27
Consensus pattern (21 bp):
CCTTAACTTAAAAACCCTAAC
Found at i:35885830 original size:114 final size:114
Alignment explanation
Indices: 35885630--35885896 Score: 444
Period size: 114 Copynumber: 2.3 Consensus size: 114
35885620 ACCTTAAGGT
35885630 TTTTACTAACCATTAATACAATTATCAGTTAATAATTTTACATTCACATAATGTTAGATTTGGAA
1 TTTTACTAACCATTAATACAATTATCAGTTAATAATTTTACATTCACATAATGTTAGATTTGGAA
**
35885695 AAATGCTTTGACTAGTGCTAACAATTAATAATTTGATATAATTCGATAA
66 AAATGCTTTGACTAGCACTAACAATTAATAATTTGATATAATTCGATAA
* *
35885744 TTTTACTGACCATTAATACAATTATTAGTTAATAATTTTACATTCACATAATGTTAGATTTGGAA
1 TTTTACTAACCATTAATACAATTATCAGTTAATAATTTTACATTCACATAATGTTAGATTTGGAA
* * *
35885809 AAATGTTTTGACTGGCACTAACAATTAATAATTTGATATAATTTGATAA
66 AAATGCTTTGACTAGCACTAACAATTAATAATTTGATATAATTCGATAA
* *
35885858 TTTCACTAACCATTAATACAATTTATCAATTAATAATTT
1 TTTTACTAACCATTAATACAA-TTATCAGTTAATAATTT
35885897 CACAAATATA
Statistics
Matches: 141, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
114 126 0.89
115 15 0.11
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (114 bp):
TTTTACTAACCATTAATACAATTATCAGTTAATAATTTTACATTCACATAATGTTAGATTTGGAA
AAATGCTTTGACTAGCACTAACAATTAATAATTTGATATAATTCGATAA
Found at i:35886184 original size:21 final size:20
Alignment explanation
Indices: 35886153--35886424 Score: 278
Period size: 21 Copynumber: 13.1 Consensus size: 20
35886143 AAAAAACCCT
*
35886153 AACCGTAACCCTTAACTTCAA
1 AACCCTAACCCTTAACTT-AA
*
35886174 AATCCTAACCCTTAA-TTAAA
1 AACCCTAACCCTTAACTT-AA
*
35886194 AACCCTAACCCTTAAATTTAA
1 AACCCTAACCCTT-AACTTAA
* *
35886215 AACTCTAAACCTTAACTTAAA
1 AACCCTAACCCTTAACTT-AA
35886236 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTT-AA
* *
35886257 AACCTTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTT-AA
*
35886278 AACCCTAAACCTTAACTTAA
1 AACCCTAACCCTTAACTTAA
*
35886298 TAACCCTAAACCTTAACTTAA
1 -AACCCTAACCCTTAACTTAA
*
35886319 AACCCTAAACCCTTACCTTAA
1 AACCCT-AACCCTTAACTTAA
35886340 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTT-AA
* * *
35886361 AATCCTAACCCTTAAATGAAA
1 AACCCTAACCCTTAACT-TAA
* *
35886382 AACCTTAAACCTTAACTTAA
1 AACCCTAACCCTTAACTTAA
*
35886402 TAACTCTCAA-CCTTAACTTAA
1 -AACCCT-AACCCTTAACTTAA
35886423 AA
1 AA
35886425 ACCTTAACCN
Statistics
Matches: 215, Mismatches: 27, Indels: 19
0.82 0.10 0.07
Matches are distributed among these distances:
20 43 0.20
21 168 0.78
22 4 0.02
ACGTcount: A:0.44, C:0.29, G:0.01, T:0.27
Consensus pattern (20 bp):
AACCCTAACCCTTAACTTAA
Found at i:35886285 original size:104 final size:103
Alignment explanation
Indices: 35886153--35886433 Score: 359
Period size: 104 Copynumber: 2.7 Consensus size: 103
35886143 AAAAAACCCT
* * * * * *
35886153 AACCGTAACCCTTAACTTCAAAATCCTAACCCTTAA-TTAAAAACCCTAACCCTTAAATTTAAAA
1 AACC-TAACCCTTAAATTAAAAACCCTAAACCTTAACTTAAAAACCCTAAACCTT-AACTTAAAA
*
35886217 CTCTAAA-CCTTAACTTAAAAACCCTAACCCTTAACTTAAA
64 CCCTAAACCCTTAACTT-AAAACCCTAACCCTTAACTTAAA
*
35886257 AACCTTAACCCTTAAATTAAAAACCCTAAACCTTAACTTAATAACCCTAAACCTTAACTTAAAAC
1 AACC-TAACCCTTAAATTAAAAACCCTAAACCTTAACTTAAAAACCCTAAACCTTAACTTAAAAC
*
35886322 CCTAAACCCTTACCTTAAAACCCTAACCCTTAACTTAAA
65 CCTAAACCCTTAACTTAAAACCCTAACCCTTAACTTAAA
* * * * * *
35886361 AATCCTAACCCTTAAATGAAAAACCTTAAACCTTAACTTAATAACTCTCAACCTTAACTTAAAAA
1 AA-CCTAACCCTTAAATTAAAAACCCTAAACCTTAACTTAAAAACCCTAAACCTTAACTTAAAAC
*
35886426 CCTTAACC
65 CCTAAACC
35886434 NNNNNNNNNN
Statistics
Matches: 158, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
104 132 0.84
105 26 0.16
ACGTcount: A:0.43, C:0.29, G:0.01, T:0.27
Consensus pattern (103 bp):
AACCTAACCCTTAAATTAAAAACCCTAAACCTTAACTTAAAAACCCTAAACCTTAACTTAAAACC
CTAAACCCTTAACTTAAAACCCTAACCCTTAACTTAAA
Found at i:35886973 original size:22 final size:22
Alignment explanation
Indices: 35886926--35887312 Score: 331
Period size: 21 Copynumber: 17.9 Consensus size: 22
35886916 NNNNNNCTTA
35886926 AAACCC-TAAATT--AAACCCT
1 AAACCCTTAAATTAAAAACCCT
*
35886945 -AACCCTTAAATTAAAAACCTT
1 AAACCCTTAAATTAAAAACCCT
35886966 AAACCCTT-AA-TACAATTATACCCT
1 AAACCCTTAAATTA-AA--A-ACCCT
*
35886990 AAATCC-TAAATTAAAAA-CCT
1 AAACCCTTAAATTAAAAACCCT
* * *
35887010 TAGCCCTTAACTTAAAAACCCT
1 AAACCCTTAAATTAAAAACCCT
35887032 -AACCCTTAAATTAAAAACCCT
1 AAACCCTTAAATTAAAAACCCT
* *
35887053 AAA-CCTTAACTTAAAAACCTT
1 AAACCCTTAAATTAAAAACCCT
* *
35887074 AAACCATTAAATTAAAAACCAT
1 AAACCCTTAAATTAAAAACCCT
* *
35887096 -CACCCTTAAATTAATAACCCT
1 AAACCCTTAAATTAAAAACCCT
* * *
35887117 AAACCCATAAATTAAAAAGCAT
1 AAACCCTTAAATTAAAAACCCT
* *
35887139 AAACCTTTAACTTAAAAACCCT
1 AAACCCTTAAATTAAAAACCCT
*
35887161 AACCCTAACCATTAAATTAAAAACCCT
1 -A----AACCCTTAAATTAAAAACCCT
35887188 AAA-CCTTAAATTAAAAA-CCT
1 AAACCCTTAAATTAAAAACCCT
* *
35887208 TAACCCTAAAATTAAAAACCCT
1 AAACCCTTAAATTAAAAACCCT
* *
35887230 AAA--CTTAACTTAATAACCCT
1 AAACCCTTAAATTAAAAACCCT
*
35887250 -AACCCTT-ACTTAAAAACCCT
1 AAACCCTTAAATTAAAAACCCT
* * *
35887270 AAAACCTGAACTTAAAAAACCCT
1 AAACCCTTAAATT-AAAAACCCT
*
35887293 AAACCCTTAACTTAAAAACC
1 AAACCCTTAAATTAAAAACC
35887313 TTAAGGTTTT
Statistics
Matches: 299, Mismatches: 42, Indels: 51
0.76 0.11 0.13
Matches are distributed among these distances:
18 5 0.02
19 8 0.03
20 39 0.13
21 110 0.37
22 79 0.26
23 23 0.08
24 13 0.04
25 2 0.01
26 1 0.00
27 19 0.06
ACGTcount: A:0.48, C:0.27, G:0.01, T:0.25
Consensus pattern (22 bp):
AAACCCTTAAATTAAAAACCCT
Found at i:35887044 original size:42 final size:42
Alignment explanation
Indices: 35886938--35887316 Score: 345
Period size: 43 Copynumber: 8.7 Consensus size: 42
35886928 ACCCTAAATT
35886938 AAACCCTAACCCTTAAATTAAAAACCTTAAACCCTTAA--TACA
1 AAACCCTAACCCTTAAATTAAAAACCTTAAA-CCTTAACTTA-A
* **
35886980 ATTATACCCTAAATCC-TAAATTAAAAACCTTAGCCCTTAACTTAA
1 A--A-ACCCT-AACCCTTAAATTAAAAACCTTAAACCTTAACTTAA
*
35887025 AAACCCTAACCCTTAAATTAAAAACCCTAAACCTTAACTTAA
1 AAACCCTAACCCTTAAATTAAAAACCTTAAACCTTAACTTAA
* * * * * *
35887067 AAACCTTAAACCATTAAATTAAAAACCATCACCCTTAAATTAA
1 AAACCCT-AACCCTTAAATTAAAAACCTTAAACCTTAACTTAA
* * * *
35887110 TAACCCTAAACCCATAAATTAAAAAGCATAAACCTTTAACTTAA
1 AAACCCT-AACCCTTAAATTAAAAACCTTAAACC-TTAACTTAA
* *
35887154 AAACCCTAACCCTAACCATTAAATTAAAAACCCTAAACCTTAAATTAA
1 AAACCCTAA--C---CC-TTAAATTAAAAACCTTAAACCTTAACTTAA
* * *
35887202 AAACCTTAACCCTAAAATTAAAAACCCTAAA-CTTAACTTAA
1 AAACCCTAACCCTTAAATTAAAAACCTTAAACCTTAACTTAA
* * * *
35887243 TAACCCTAACCCTT-ACTTAAAAACCCTAAAACCTGAACTTAAA
1 AAACCCTAACCCTTAAATTAAAAA-CCTTAAACCTTAACTT-AA
*
35887286 AAACCCTAAACCCTTAACTTAAAAACCTTAA
1 AAACCCT-AACCCTTAAATTAAAAACCTTAA
35887317 GGTTTTTAGT
Statistics
Matches: 279, Mismatches: 38, Indels: 38
0.79 0.11 0.11
Matches are distributed among these distances:
40 8 0.03
41 29 0.10
42 63 0.23
43 70 0.25
44 33 0.12
45 33 0.12
46 7 0.03
48 18 0.06
49 18 0.06
ACGTcount: A:0.48, C:0.26, G:0.01, T:0.25
Consensus pattern (42 bp):
AAACCCTAACCCTTAAATTAAAAACCTTAAACCTTAACTTAA
Found at i:35887212 original size:27 final size:27
Alignment explanation
Indices: 35887138--35887217 Score: 75
Period size: 27 Copynumber: 3.1 Consensus size: 27
35887128 TTAAAAAGCA
* *
35887138 TAAACCTTTAACTTAAAAACCCTAACCC
1 TAAACCATTAAATTAAAAA-CCTAACCC
35887166 T-AACCATTAAATT--AAA---AACCC
1 TAAACCATTAAATTAAAAACCTAACCC
35887187 TAAACC-TTAAATTAAAAACCTTAACCC
1 TAAACCATTAAATTAAAAACC-TAACCC
35887214 TAAA
1 TAAA
35887218 ATTAAAAACC
Statistics
Matches: 43, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
21 13 0.30
22 4 0.09
23 3 0.07
25 3 0.07
27 19 0.44
28 1 0.02
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (27 bp):
TAAACCATTAAATTAAAAACCTAACCC
Found at i:35887248 original size:62 final size:63
Alignment explanation
Indices: 35887023--35887312 Score: 194
Period size: 65 Copynumber: 4.4 Consensus size: 63
35887013 CCCTTAACTT
* * * *
35887023 AAAAACCCTAACCCTTAAATTAAAAACCCTAAACCTTAACTTAAAAA-CCTTAAACCATTAAATT
1 AAAAACCCTAA-ACTTAACTTAAAAACCCTAAACCTTAA-TTAAAAACCCTAAAACC-TAAAATT
35887087 -
63 A
* ** * * * * * * *
35887087 AAAAACCATCACCCTTAAATTAATAACCCTAAACCCATAAATTAAAAAGCAT-AAACCTTTAACT
1 AAAAACCCT-AAACTTAACTTAAAAACCCTAAA-CC-TTAATTAAAAACCCTAAAACC-TAAAAT
35887151 TAA
62 T-A
* * * *
35887154 AAACCCTAACCCTAACCATTAAATTAAAAACCCTAAACCTTAAATTAAAAA-CCTTAACCCTAAA
1 AAA----AACCCTAAAC-TTAACTTAAAAACCCTAAACCTT-AATTAAAAACCCTAAAACCTAAA
35887218 ATT-
60 ATTA
* * * * *
35887221 AAAAACCCTAAACTTAACTTAATAACCCTAACCCTTACTTAAAAACCCTAAAACCTGAACTTA
1 AAAAACCCTAAACTTAACTTAAAAACCCTAAACCTTAATTAAAAACCCTAAAACCTAAAATTA
35887284 AAAAACCCTAAACCCTTAACTTAAAAACC
1 AAAAACCCTAAA--CTTAACTTAAAAACC
35887313 TTAAGGTTTT
Statistics
Matches: 184, Mismatches: 25, Indels: 33
0.76 0.10 0.14
Matches are distributed among these distances:
61 8 0.04
62 32 0.17
63 21 0.11
64 28 0.15
65 35 0.19
66 5 0.03
67 6 0.03
69 8 0.04
70 18 0.10
71 23 0.12
ACGTcount: A:0.49, C:0.27, G:0.01, T:0.23
Consensus pattern (63 bp):
AAAAACCCTAAACTTAACTTAAAAACCCTAAACCTTAATTAAAAACCCTAAAACCTAAAATTA
Found at i:35887302 original size:40 final size:38
Alignment explanation
Indices: 35887177--35887302 Score: 92
Period size: 41 Copynumber: 3.1 Consensus size: 38
35887167 AACCATTAAA
* * * * *
35887177 TTAAAAACCCTAAACCTTAAATTAAAAACCTTAACCCTAAAA
1 TTAAAAACCCTAAA-CTGAACTTAAAAACCCTAAACCT---C
* * *
35887219 TTAAAAACCCTAAACTTAACTTAATAACCCTAACCCTTAC
1 TTAAAAACCCTAAACTGAACTTAAAAACCCTAAACC-T-C
35887259 TTAAAAACCCTAAAACCTGAACTTAAAAAACCCTAAACC-C
1 TTAAAAACCCT-AAA-CTGAACTT-AAAAACCCTAAACCTC
35887299 TTAA
1 TTAA
35887303 CTTAAAAACC
Statistics
Matches: 73, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
40 17 0.23
41 22 0.30
42 22 0.30
43 12 0.16
ACGTcount: A:0.48, C:0.27, G:0.01, T:0.24
Consensus pattern (38 bp):
TTAAAAACCCTAAACTGAACTTAAAAACCCTAAACCTC
Found at i:35890773 original size:125 final size:124
Alignment explanation
Indices: 35890470--35890987 Score: 838
Period size: 125 Copynumber: 4.2 Consensus size: 124
35890460 CCCAAACATG
* *
35890470 CTACTGTAGCAAAAACGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAACATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * *
35890535 TAGAAGTGATTTTATACTATTTGCTCAGAAATGCCAAGTCAAAATTATTTTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAATGTCAAGTCGAAATTATTTTTCCAGGAC
* *
35890594 CTATTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCATAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
35890659 TAGAAGCGATTTTATACTATTTGCTCAGAAATGTCAAGTCCAAATTATTTCTTTCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAATGTCAAGTCGAAATTATTT-TTCCAGGAC
*
35890719 CTACTGTAGCAAAAGCGCATCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
35890784 TAGAAGCGATTTTATACTATTTGCTCAGAAATGTCAAGTAGAAATTATTTCTTCCAAGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAATGTCAAGTCGAAATTATTT-TTCCAGGAC
* *
35890844 CTACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTATCAAACAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * * * *
35890909 TAGAAGCGATTTTACACTATTTGCTCAGAAACGTCAACTTGAAATTATTTTTTCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAATGTCAAGTCGAAATTATTTTTCCAGGAC
*
35890968 CTACTGTAGCAAAAGTGCGT
1 CTACTGTAGCAAAAGCGCGT
35890988 ATACGTGGGC
Statistics
Matches: 368, Mismatches: 25, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
124 134 0.36
125 234 0.64
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAATGTCAAGTCGAAATTATTTTTCCAGGAC
Found at i:35890965 original size:249 final size:249
Alignment explanation
Indices: 35890470--35890982 Score: 859
Period size: 249 Copynumber: 2.1 Consensus size: 249
35890460 CCCAAACATG
* *
35890470 CTACTGTAGCAAAAACGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAACATCCTGC
1 CTACTGTAGCAAAAGCGCATCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAACATCCTGC
* * *
35890535 TAGAAGTGATTTTATACTATTTGCTCAGAAATGCCAAGTCAAAATTATTTTTCCAGGACCTATTG
66 TAGAAGCGATTTTATACTATTTGCTCAGAAATGCCAAGTCAAAATTATTTTTCCAAGACCTACTG
* * *
35890600 TAGCAAAAGCGCGTCCACGAGGGTGCGATTTCATAAATTCTTCTCAAATAGCATCCTGCTAGAAG
131 TAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTATCAAACAGCATCCTGCTAGAAG
* * *
35890665 CGATTTTATACTATTTGCTCAGAAATGTCAAGTCCAAATTATTTCTTTCAGGAC
196 CGATTTTACACTATTTGCTCAGAAACGTCAACTCCAAATTATTTCTTTCAGGAC
*
35890719 CTACTGTAGCAAAAGCGCATCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCATCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAACATCCTGC
*
35890784 TAGAAGCGATTTTATACTATTTGCTCAGAAATGTCAAGT-AGAAATTATTTCTTCCAAGACCTAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAATGCCAAGTCA-AAATTATTT-TTCCAAGACCTAC
35890848 TGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTATCAAACAGCATCCTGCTAGA
129 TGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTATCAAACAGCATCCTGCTAGA
**
35890913 AGCGATTTTACACTATTTGCTCAGAAACGTCAACTTGAAATTATTT-TTTCAGGAC
194 AGCGATTTTACACTATTTGCTCAGAAACGTCAACTCCAAATTATTTCTTTCAGGAC
35890968 CTACTGTAGCAAAAG
1 CTACTGTAGCAAAAG
35890983 TGCGTATACG
Statistics
Matches: 247, Mismatches: 15, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
248 1 0.00
249 132 0.53
250 114 0.46
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (249 bp):
CTACTGTAGCAAAAGCGCATCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAACATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAATGCCAAGTCAAAATTATTTTTCCAAGACCTACTG
TAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTATCAAACAGCATCCTGCTAGAAG
CGATTTTACACTATTTGCTCAGAAACGTCAACTCCAAATTATTTCTTTCAGGAC
Found at i:35897479 original size:18 final size:19
Alignment explanation
Indices: 35897458--35897506 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
35897448 AATATTTTTT
* *
35897458 AAAATTTTAATTTTTTA-A
1 AAAATTTTAAATTTGTACA
*
35897476 AAAATTATAAATTTGTACA
1 AAAATTTTAAATTTGTACA
35897495 AAAATTATTAAA
1 AAAATT-TTAAA
35897507 ATGTATGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 14 0.56
19 7 0.28
20 4 0.16
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
AAAATTTTAAATTTGTACA
Found at i:35900343 original size:34 final size:35
Alignment explanation
Indices: 35900299--35900365 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
35900289 TAGTAAAATA
*
35900299 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
35900333 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
35900366 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:35902555 original size:16 final size:16
Alignment explanation
Indices: 35902534--35902568 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
35902524 GATTAAGATT
35902534 TTAAAT-GTTGTTAGTA
1 TTAAATAGTT-TTAGTA
35902550 TTAAATAGTTTTAGTA
1 TTAAATAGTTTTAGTA
35902566 TTA
1 TTA
35902569 GGGATTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.51
Consensus pattern (16 bp):
TTAAATAGTTTTAGTA
Found at i:35906484 original size:13 final size:13
Alignment explanation
Indices: 35906466--35906502 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
35906456 AAGACTAATT
35906466 GAAAATCTTAACC
1 GAAAATCTTAACC
35906479 GAAAATCTTAACC
1 GAAAATCTTAACC
35906492 GAAAATCTTAA
1 GAAAATCTTAA
35906503 AAAAATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.49, C:0.19, G:0.08, T:0.24
Consensus pattern (13 bp):
GAAAATCTTAACC
Found at i:35908410 original size:25 final size:24
Alignment explanation
Indices: 35908361--35908413 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
35908351 ACATAATGTC
*
35908361 AATAAATAATTTAAAAATTATAAA
1 AATAAATAAATTAAAAATTATAAA
* *
35908385 AATAAATCAAATTCAAAATTCAAAAA
1 AATAAAT-AAATTAAAAATT-ATAAA
35908411 AAT
1 AAT
35908414 TAGCATGGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 7 0.29
25 10 0.42
26 7 0.29
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (24 bp):
AATAAATAAATTAAAAATTATAAA
Found at i:35910224 original size:4 final size:4
Alignment explanation
Indices: 35910215--35910251 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
35910205 ACATGTAATT
*
35910215 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAA ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
35910252 AAATATTTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.54, C:0.22, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:35928529 original size:2 final size:2
Alignment explanation
Indices: 35928524--35928588 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
35928514 AAAGAAAAGA
35928524 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
35928566 AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG A
35928589 CCTCTGAACC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:35938292 original size:18 final size:18
Alignment explanation
Indices: 35938263--35938331 Score: 93
Period size: 18 Copynumber: 3.8 Consensus size: 18
35938253 AAGGGGATCA
* *
35938263 CATATTAGAACTCCATAT
1 CATATCAGAACTCCACAT
* *
35938281 AATATCATAACTCCACAT
1 CATATCAGAACTCCACAT
35938299 CATATCAGAACTCCACAT
1 CATATCAGAACTCCACAT
*
35938317 CATATTAGAACTCCA
1 CATATCAGAACTCCA
35938332 TACTAAATGT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.41, C:0.28, G:0.04, T:0.28
Consensus pattern (18 bp):
CATATCAGAACTCCACAT
Found at i:35944567 original size:3 final size:3
Alignment explanation
Indices: 35944559--35944611 Score: 72
Period size: 3 Copynumber: 17.7 Consensus size: 3
35944549 ATAATCAAAT
* *
35944559 ATA ATA ATA ATA ACA ATA ATAA ATA GTA A-A ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
35944604 ATA ATA AT
1 ATA ATA AT
35944612 TAAGTGATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 39 0.89
4 3 0.07
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:35944583 original size:24 final size:24
Alignment explanation
Indices: 35944549--35944604 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
35944539 ATAGCTAAAT
35944549 ATAATCAAATA-TAATAATAATAACA
1 ATAAT-AAATAGTAA-AATAATAACA
*
35944574 ATAATAAATAGTAAAATAATAATA
1 ATAATAAATAGTAAAATAATAACA
35944598 ATAATAA
1 ATAATAA
35944605 TAATAATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 21 0.72
25 8 0.28
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.29
Consensus pattern (24 bp):
ATAATAAATAGTAAAATAATAACA
Found at i:35946245 original size:44 final size:44
Alignment explanation
Indices: 35946195--35946469 Score: 365
Period size: 44 Copynumber: 6.3 Consensus size: 44
35946185 ACTACTGCTT
* * * *
35946195 AGGGAGACAGGA-TCTACAATCTTTAACCTATTCCACTGCTGTTT
1 AGGGAGATAGGACT-TACAATCTTCAACCTATTCCACTGCTGGTC
* * * * *
35946239 AGGGAGATAGGACATACAATCTTCCACCTATT-CATTACTGTTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* * *
35946282 AGGGAGATAGGACTTACAATCCTCCACCTATTCCACTGCTGGTT
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* *
35946326 AGGGAGATAGGACTTGCAATCTTCAACCTATTCCACTACTGGTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* *
35946370 AGGGAGATAGGACTTGCAATCTTTAACCTATTCCACTGCTGGTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* *
35946414 AGGGAAATAGGACTTACAATCTTCAACCTATTTCACTGCTGGTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
35946458 AGGGAGATAGGA
1 AGGGAGATAGGA
35946470 TTTGTACCTT
Statistics
Matches: 204, Mismatches: 25, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
43 38 0.19
44 166 0.81
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (44 bp):
AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
Found at i:35946761 original size:44 final size:44
Alignment explanation
Indices: 35946725--35947252 Score: 691
Period size: 44 Copynumber: 12.0 Consensus size: 44
35946715 AGACAGAATC
* * * *
35946725 TACAATCTTCAACCTATTCAACTGTTGTTCAGGGAGATAGGACA
1 TACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACT
* *
35946769 TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGATAGGACT
1 TACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACT
* * * *
35946813 TACAATCTTCCACCTATTCCACTGCTAGCCAGGAAGATAGGACT
1 TACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACT
*
35946857 TACAATCTTCAACCTATTCCACTGTTGGTCAGGGAGATAGGACT
1 TACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACT
* * * *
35946901 TACAATCTTCCACCTATTCCACTGCTAGCCAGGAAGATAGGACT
1 TACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACT
*
35946945 TACAATCTTCAACCTATTCCACTGTTGGTCAGGGAGATAGGACT
1 TACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACT
* * * * *
35946989 TGCAAACTTTAACCTATTTCACTACTGGTCAGGGAGATAGGACT
1 TACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACT
* * *
35947033 TGCAATCTTTAACCTATTCCACTGCTGGTCAGGGAGATAAGACT
1 TACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACT
* *
35947077 TGCAATC--GAACCTATTCCACTGCTGGTCAGGGAGATAGGACT
1 TACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACT
* *
35947119 TACAATCTTCAACCTATTTCACTGCTGGTCAGGGAGATAGGATT
1 TACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACT
** * * * *
35947163 TGTAATTTTCAACCTATTCCAACTGCTGTTCAAGGAGATAGGAAT
1 TACAATCTTCAACCTATTCC-ACTGCTGGTCAGGGAGATAGGACT
** * *
35947208 TGTAATCTTCAACCTATTCCACTACTGTTCAGGGAGATAGGACT
1 TACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACT
35947252 T
1 T
35947253 GTGGTTTTAC
Statistics
Matches: 431, Mismatches: 50, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
42 39 0.09
44 352 0.82
45 40 0.09
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (44 bp):
TACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACT
Found at i:35948445 original size:42 final size:42
Alignment explanation
Indices: 35948335--35948435 Score: 193
Period size: 42 Copynumber: 2.4 Consensus size: 42
35948325 GGTATAACAA
35948335 GATCACCTCATGCCCCAATATGATCAAAATTCGAGTTGCACT
1 GATCACCTCATGCCCCAATATGATCAAAATTCGAGTTGCACT
*
35948377 GATCACCTCATGCCCCAATATGATCAAAATTCGAGTTGTACT
1 GATCACCTCATGCCCCAATATGATCAAAATTCGAGTTGCACT
35948419 GATCACCTCATGCCCCA
1 GATCACCTCATGCCCCA
35948436 TTTCGATCAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.30, C:0.31, G:0.14, T:0.26
Consensus pattern (42 bp):
GATCACCTCATGCCCCAATATGATCAAAATTCGAGTTGCACT
Found at i:35948548 original size:7 final size:7
Alignment explanation
Indices: 35948538--35948580 Score: 77
Period size: 7 Copynumber: 6.0 Consensus size: 7
35948528 CTATTTTTAC
35948538 TTTTTCA
1 TTTTTCA
35948545 TTTTTCA
1 TTTTTCA
35948552 TTTTTCA
1 TTTTTCA
35948559 TTTTTCA
1 TTTTTCA
35948566 TTTTTTCA
1 -TTTTTCA
35948574 TTTTTCA
1 TTTTTCA
35948581 CATTTTTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
7 28 0.80
8 7 0.20
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTTCA
Found at i:35948586 original size:15 final size:15
Alignment explanation
Indices: 35948530--35948587 Score: 84
Period size: 14 Copynumber: 3.9 Consensus size: 15
35948520 TAGCCTCTCT
35948530 ATTTTT-ACTTTTTC
1 ATTTTTCACTTTTTC
35948544 ATTTTTCA-TTTTTC
1 ATTTTTCACTTTTTC
*
35948558 ATTTTTCATTTTTTC
1 ATTTTTCACTTTTTC
35948573 ATTTTTCACATTTTT
1 ATTTTTCAC-TTTTT
35948588 TTCCGACTCA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
14 20 0.50
15 15 0.38
16 5 0.12
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.71
Consensus pattern (15 bp):
ATTTTTCACTTTTTC
Found at i:35949506 original size:22 final size:23
Alignment explanation
Indices: 35949481--35949536 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
35949471 TTTTCTTTTC
*
35949481 TTTTTCTTTTTCA-TTTCATCAT
1 TTTTTCTTTTTCATTTTAATCAT
* *
35949503 TTTTT-ATTTTCATTTTAATTAT
1 TTTTTCTTTTTCATTTTAATCAT
35949525 TTTTTCTCTTTT
1 TTTTTCT-TTTT
35949537 TTTTGATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 6 0.22
22 17 0.63
24 4 0.15
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTTTCTTTTTCATTTTAATCAT
Found at i:35950390 original size:25 final size:25
Alignment explanation
Indices: 35950341--35950394 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
35950331 AAGGAAATCC
*
35950341 AAAAGAATGAAAGAATAATTTTTCA
1 AAAAGAATGAAAGAATAATTGTTCA
*
35950366 AAAAGACTGAAAGAAT-ATTGGTTCA
1 AAAAGAATGAAAGAATAATT-GTTCA
35950391 AAAA
1 AAAA
35950395 TGGTTACAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.56, C:0.06, G:0.15, T:0.24
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATTGTTCA
Found at i:35954112 original size:3 final size:3
Alignment explanation
Indices: 35954104--35954168 Score: 51
Period size: 3 Copynumber: 20.7 Consensus size: 3
35954094 ATAATCAAAT
* *
35954104 ATA ATA ATA ACA ATA ATAA ATA GTAA ATA ATA ATA ATA ATA GCA-A ATA
1 ATA ATA ATA ATA ATA AT-A ATA AT-A ATA ATA ATA ATA ATA --ATA ATA
* *
35954152 ATA ATG ATA AAA ATA AT
1 ATA ATA ATA ATA ATA AT
35954169 TAAGTGATTA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
2 1 0.02
3 41 0.84
4 6 0.12
5 1 0.02
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:35954150 original size:19 final size:19
Alignment explanation
Indices: 35954109--35954161 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
35954099 CAAATATAAT
* *
35954109 AATAACAATAATAAATAGTA
1 AATAATAATAAT-AATAGCA
35954129 AATAATAATAATAATAGCA
1 AATAATAATAATAATAGCA
*
35954148 AATAATAATGATAA
1 AATAATAATAATAA
35954162 AAATAATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 19 0.63
20 11 0.37
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (19 bp):
AATAATAATAATAATAGCA
Found at i:35957317 original size:23 final size:23
Alignment explanation
Indices: 35957280--35957324 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
35957270 CATGTTTATT
*
35957280 TTATGTTTTAATTAAACTTTAAC
1 TTATGTTTTAATTAAAATTTAAC
**
35957303 TTATGTTTTCTTTAAAATTTAA
1 TTATGTTTTAATTAAAATTTAA
35957325 TTAAAATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (23 bp):
TTATGTTTTAATTAAAATTTAAC
Found at i:35961062 original size:14 final size:14
Alignment explanation
Indices: 35961043--35961071 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
35961033 CTACAATTTA
35961043 GTATTACCTGAAAT
1 GTATTACCTGAAAT
35961057 GTATTACCTGAAAT
1 GTATTACCTGAAAT
35961071 G
1 G
35961072 AAGAAAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (14 bp):
GTATTACCTGAAAT
Found at i:35972715 original size:32 final size:31
Alignment explanation
Indices: 35972663--35972725 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 31
35972653 CATTTTAGGT
35972663 AAGTGTAAAATTATTAAAAAAAATATATAAAA
1 AAGTGTAAAATTATTAAAAAAAATATA-AAAA
* *
35972695 AAGT-TAATAATTATTTAAAAAAGTATAAAAA
1 AAGTGTAA-AATTATTAAAAAAAATATAAAAA
35972726 TTATTAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 7 0.25
32 21 0.75
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.30
Consensus pattern (31 bp):
AAGTGTAAAATTATTAAAAAAAATATAAAAA
Found at i:35972727 original size:21 final size:20
Alignment explanation
Indices: 35972680--35972742 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
35972670 AAATTATTAA
* *
35972680 AAAAAATATATAAAAAAGTT
1 AAAAATTATTTAAAAAAGTT
*
35972700 AATAATTATTTAAAAAAGTAT
1 AAAAATTATTTAAAAAAGT-T
*
35972721 AAAAATTA-TTAAAAAATTT
1 AAAAATTATTTAAAAAAGTT
35972740 AAA
1 AAA
35972743 TATGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
19 4 0.11
20 25 0.68
21 8 0.22
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (20 bp):
AAAAATTATTTAAAAAAGTT
Found at i:35974193 original size:2 final size:2
Alignment explanation
Indices: 35974186--35974217 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
35974176 GGTTTCAATT
35974186 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
35974218 AGTTTTCTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:35992804 original size:13 final size:13
Alignment explanation
Indices: 35992786--35992811 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35992776 GCTGGAGCTT
35992786 TGTAAAATGTAAA
1 TGTAAAATGTAAA
35992799 TGTAAAATGTAAA
1 TGTAAAATGTAAA
35992812 AATTTTATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTAAAATGTAAA
Found at i:35993504 original size:124 final size:124
Alignment explanation
Indices: 35993284--35993634 Score: 614
Period size: 124 Copynumber: 2.8 Consensus size: 124
35993274 TTATTTTGAG
*
35993284 TTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
*
35993349 AAATCGCGTCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAA-TTTTTT
66 AAATCGTG-CCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
35993408 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* *
35993473 AAATCGTGCCGTCGTGGACGCAATTTTGCTACAGTTGGTCATGTAAGAAATAATTTTTTT
66 AAATCGTGCC-TCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
* *
35993533 TTGACATTTCTGAACAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
35993598 AAATCGTGCCATCGTGGACGCGATTTTGCTACAGTAG
66 AAATCGTGCC-TCGTGGACGCGATTTTGCTACAGTAG
35993635 CAAGTTTGGG
Statistics
Matches: 216, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
123 2 0.01
124 111 0.51
125 103 0.48
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.33
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGTGCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
Found at i:35996756 original size:10 final size:10
Alignment explanation
Indices: 35996741--35996765 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
35996731 CAAATCTAAC
35996741 ATTATGTAAA
1 ATTATGTAAA
35996751 ATTATGTAAA
1 ATTATGTAAA
35996761 ATTAT
1 ATTAT
35996766 TAAGTCCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:35996811 original size:55 final size:55
Alignment explanation
Indices: 35996749--35996874 Score: 225
Period size: 55 Copynumber: 2.3 Consensus size: 55
35996739 ACATTATGTA
* *
35996749 AAATTATGTAAAATTATTAAGTCCAACAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTATGTTAATGGTTAGTAAAATTATC
*
35996804 GAATTATGTAAAATTATTAAGTCCAAAAATTATGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTATGTTAATGGTTAGTAAAATTATC
35996859 AAATTATGTAAAATTA
1 AAATTATGTAAAATTA
35996875 GGTTAGGGTT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 67 1.00
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (55 bp):
AAATTATGTAAAATTATTAAGTCCAAAAATTATGTTAATGGTTAGTAAAATTATC
Found at i:35996903 original size:29 final size:29
Alignment explanation
Indices: 35996869--35997258 Score: 555
Period size: 29 Copynumber: 13.5 Consensus size: 29
35996859 AAATTATGTA
35996869 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
35996898 AAATTAGGTTAGGGTTTAAGGGTTTTTAATT
1 AAATTAGGTTAGGG-TT-AGGGTTTTTAATT
35996929 -AA--A--TTA-GGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
35996952 AAATTAGGTTAGGG-TAGTGGGTTTTTAATT
1 AAATTAGGTTAGGGTTA--GGGTTTTTAATT
** *
35996982 AGGTTAGGTTAAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
35997011 AAATTAGGTTAAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
**
35997040 AAATTAGGTTAGGGTTAGGGTTTTTACCT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
35997069 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
35997098 AAATTAGGTTAGGG-CAGTGGGTTTTTAATT
1 AAATTAGGTTAGGGTTA--GGGTTTTTAATT
*
35997128 AAGTTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
35997157 AAATTAGGTTAGGG-CAGTGGGTTTTTAATT
1 AAATTAGGTTAGGGTTA--GGGTTTTTAATT
*
35997187 AAGTTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
35997216 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
35997245 AAATTAGGTTAGGG
1 AAATTAGGTTAGGG
35997259 CAGTGGGTGG
Statistics
Matches: 326, Mismatches: 18, Indels: 34
0.86 0.05 0.09
Matches are distributed among these distances:
23 13 0.04
24 4 0.01
25 2 0.01
26 4 0.01
28 8 0.02
29 201 0.62
30 77 0.24
31 17 0.05
ACGTcount: A:0.27, C:0.01, G:0.28, T:0.43
Consensus pattern (29 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATT
Found at i:35997001 original size:59 final size:58
Alignment explanation
Indices: 35996869--35997258 Score: 519
Period size: 59 Copynumber: 6.7 Consensus size: 58
35996859 AAATTATGTA
*
35996869 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAAGGGTTTTTAATT
1 AAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGTTAGGG-TT-AGGGTTTTTAATT
35996929 -AA--A--TT-AGGTTAGGGTTTTTAATTAAATTAGGTTAGGG-TAGTGGGTTTTTAATT
1 AAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTA--GGGTTTTTAATT
** *
35996982 AGGTTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
* **
35997040 AAATTAGGTTAGGGTTAGGGTTTTTACCTAAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
** *
35997098 AAATTAGGTT-AGGGCAGTGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAAGGTTA--GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
** *
35997157 AAATTAGGTT-AGGGCAGTGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAAGGTTA--GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
*
35997216 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGG
1 AAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGTTAGGG
35997259 CAGTGGGTGG
Statistics
Matches: 298, Mismatches: 20, Indels: 26
0.87 0.06 0.08
Matches are distributed among these distances:
51 1 0.00
52 1 0.00
53 12 0.04
54 31 0.10
55 2 0.01
56 1 0.00
57 4 0.01
58 101 0.34
59 140 0.47
60 5 0.02
ACGTcount: A:0.27, C:0.01, G:0.28, T:0.43
Consensus pattern (58 bp):
AAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
Found at i:35997035 original size:88 final size:86
Alignment explanation
Indices: 35996869--35997255 Score: 527
Period size: 88 Copynumber: 4.5 Consensus size: 86
35996859 AAATTATGTA
*
35996869 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAAGGGTTTTTAATT-AA--
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGG-TT-AGGGTTTTTAATTAAATT
35996931 A--TTAGGTTAGGGTTTTTAATT
64 AGGTTAGGTTAGGGTTTTTAATT
**
35996952 AAATTAGGTTAGGG-TAGTGGGTTTTTAATTAGGTTAGGTTAAGGTTAGGGTTTTTAATTAAATT
1 AAATTAGGTTAGGGTTA--GGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATT
35997016 AGGTTAAGGTTAGGGTTTTTAATT
64 AGGTT-AGGTTAGGGTTTTTAATT
** *
35997040 AAATTAGGTTAGGGTTAGGGTTTTTACCTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAG
**
35997105 GTTAGGGCAGTGGGTTTTTAATT
66 GTTAGGTTA--GGGTTTTTAATT
* ** *
35997128 AAGTTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT-AGGGCAGTGGGTTTTTAATTAAGTT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTA--GGGTTTTTAATTAAATT
35997192 AGGTTAGGGTTAGGGTTTTTAATT
64 AGGTTA-GGTTAGGGTTTTTAATT
35997216 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTA
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTA
35997256 GGGCAGTGGG
Statistics
Matches: 269, Mismatches: 20, Indels: 24
0.86 0.06 0.08
Matches are distributed among these distances:
82 15 0.06
83 18 0.07
84 23 0.09
85 1 0.00
86 4 0.01
87 51 0.19
88 130 0.48
89 24 0.09
90 3 0.01
ACGTcount: A:0.27, C:0.01, G:0.28, T:0.44
Consensus pattern (86 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAG
GTTAGGTTAGGGTTTTTAATT
Found at i:35997111 original size:23 final size:23
Alignment explanation
Indices: 35996916--35996966 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
35996906 TTAGGGTTTA
35996916 AGGGTTTTTAATTAAATTAGGTT
1 AGGGTTTTTAATTAAATTAGGTT
35996939 AGGGTTTTTAATTAAATTAGGTT
1 AGGGTTTTTAATTAAATTAGGTT
35996962 AGGGT
1 AGGGT
35996967 AGTGGGTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.45
Consensus pattern (23 bp):
AGGGTTTTTAATTAAATTAGGTT
Found at i:35997444 original size:18 final size:18
Alignment explanation
Indices: 35997417--35997451 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
35997407 CAGAAAAGGA
* *
35997417 TACATGTAAGGGTTAGGG
1 TACATATAAGGGATAGGG
35997435 TACATATAAGGGATAGG
1 TACATATAAGGGATAGG
35997452 AAACACACCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.06, G:0.34, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGATAGGG
Found at i:35998113 original size:7 final size:7
Alignment explanation
Indices: 35998103--35998127 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
35998093 TTATATACAT
35998103 AATACTA
1 AATACTA
35998110 AATACTA
1 AATACTA
35998117 AATACTA
1 AATACTA
35998124 AATA
1 AATA
35998128 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:35999129 original size:18 final size:18
Alignment explanation
Indices: 35999064--35999131 Score: 52
Period size: 18 Copynumber: 3.7 Consensus size: 18
35999054 TTTATAACAA
35999064 ATAATAAATT-AATAATTAT
1 ATAA-AAATTAAATAA-TAT
*
35999083 CTAAAAA-TAAATAA-AT
1 ATAAAAATTAAATAATAT
*
35999099 AAAAAAATCTTAAATAATAT
1 ATAAAAA--TTAAATAATAT
*
35999119 TTAAAAATTAAAT
1 ATAAAAATTAAAT
35999132 TTAATACTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
16 7 0.18
17 1 0.03
18 14 0.36
19 10 0.26
20 7 0.18
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAAAAATTAAATAATAT
Found at i:35999308 original size:51 final size:51
Alignment explanation
Indices: 35999243--35999357 Score: 194
Period size: 51 Copynumber: 2.3 Consensus size: 51
35999233 TTTAAAAAAT
*
35999243 GAAATTGAGGGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
* *
35999294 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTGAGAGAATTTTGGAGG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
*
35999345 GAAATTGAAAGGA
1 GAAATTGAGAGGA
35999358 TTAGAGAGGA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.28
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
Found at i:36001439 original size:11 final size:12
Alignment explanation
Indices: 36001410--36001442 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
36001400 TTCAGCTTGG
*
36001410 ATGCTGGTCTGC
1 ATGCTGGTTTGC
36001422 ATGCTGGTTTGC
1 ATGCTGGTTTGC
36001434 -TGCTGGTTT
1 ATGCTGGTTT
36001443 CTTGTTGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.06, C:0.18, G:0.33, T:0.42
Consensus pattern (12 bp):
ATGCTGGTTTGC
Found at i:36005500 original size:19 final size:19
Alignment explanation
Indices: 36005467--36005508 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
36005457 TAAAAAATTC
*
36005467 AAAATTTATA-TTTTTTAA
1 AAAATTTAAATTTTTTTAA
36005485 AAAATTATAAATTTTTTTAA
1 AAAATT-TAAATTTTTTTAA
36005505 AAAA
1 AAAA
36005509 ATCCTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 3 0.14
20 12 0.57
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
AAAATTTAAATTTTTTTAA
Found at i:36007846 original size:26 final size:28
Alignment explanation
Indices: 36007795--36007851 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
36007785 TATATATTTC
*
36007795 TATTTTTTAATGAATATTTTTCTATATT
1 TATTTTTAAATGAATATTTTTCTATATT
36007823 TATTTTTAAATGAATA-TTTT-TATATT
1 TATTTTTAAATGAATATTTTTCTATATT
36007849 TAT
1 TAT
36007852 ACGTATATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 9 0.32
27 4 0.14
28 15 0.54
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.63
Consensus pattern (28 bp):
TATTTTTAAATGAATATTTTTCTATATT
Found at i:36007912 original size:11 final size:12
Alignment explanation
Indices: 36007886--36007922 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
36007876 TGATTAAATA
36007886 TTTACTTATT-TT
1 TTTA-TTATTATT
36007898 TTTATT-TTATT
1 TTTATTATTATT
36007909 TTTATTATTATT
1 TTTATTATTATT
36007921 TT
1 TT
36007923 ATATATATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 2 0.09
11 10 0.43
12 11 0.48
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTATTATTATT
Found at i:36008259 original size:2 final size:2
Alignment explanation
Indices: 36008252--36008291 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
36008242 TTATTGTGGC
36008252 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T 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
36008292 TACGTCATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36008752 original size:5 final size:5
Alignment explanation
Indices: 36008742--36008768 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
36008732 ATCACATTTT
36008742 TTTAA TTTAA TTTAA TTTAA TTTAA TT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TT
36008769 AAGGGTCGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTTAA
Found at i:36017829 original size:22 final size:22
Alignment explanation
Indices: 36017804--36017847 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
36017794 GTACTGTTGA
36017804 GATGCGTGGATGCTGTAGAGGC
1 GATGCGTGGATGCTGTAGAGGC
36017826 GATGCGTGGATGCTGTAGAGGC
1 GATGCGTGGATGCTGTAGAGGC
36017848 TAAGGAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.14, G:0.45, T:0.23
Consensus pattern (22 bp):
GATGCGTGGATGCTGTAGAGGC
Found at i:36020233 original size:44 final size:43
Alignment explanation
Indices: 36020106--36021038 Score: 521
Period size: 44 Copynumber: 21.5 Consensus size: 43
36020096 AATAATCCTG
* * *
36020106 TCTCCCTGAAGTTGCAGTGGAGCAGATTAA-AATCACAGATCTCA
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA-AG-TCTTA
* * * * * * *
36020150 TCTCTCTGAAGTTGTAG-AGAGCAGA-T-CGCATCTAGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCTTA
*
36020190 TCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCTTA
* * *
36020234 TCAT-CCTAAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAATCTTA
1 TC-TCCCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCAAGTCTTA
* * * *
36020279 TCTCCCTGAAGTTGCATTGGAGCAGA-TTA-AAGCCGATAATCCTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-AGTCTTA
** * * *
36020323 TCTCCCTGAAGTAACAGTGGAGCAGATTAA-AACCTTAGATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAG-TCTTA
* * * * * *
36020367 TCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATCTAGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCTTA
36020407 TCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCTTA
* * * *
36020451 TC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGAAAATTTTA
1 TCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCAAGTCTTA
* * * * *
36020496 TCTCTCTGAAGTTGTAGTGGAGCAGA-TTA-AAGCCGATAATCCTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-AGTCTTA
* * **
36020540 TCTCCCTGAAGTTGCAGTGGAG-AGGATTAA-AACCTTGGATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCA-GACTAAGAAGC-AAG-TCTTA
* * * * * *
36020584 TCTCTCTGAAGTTGCAG-AGAGTAGA-T-CGAATCTAGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCTTA
* **
36020624 TCTCCTTGAAGTTGTGGTGGAGCAGACTAAGTAAGCAAGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCTTA
36020668 TC-CTCCTGAAGTTGCAGT-GAGCAGACTAAGTAAGCAAGTCTTA
1 TCTC-CCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCTTA
* * * * *
36020711 TC-CTCCTGAAGTTGCAGT-GAGGTAGACTGAAGATGGAAAATTTTA
1 TCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCAAGTCTTA
* * *
36020756 TCTCCCTGAAGTTGCAGTGGAGCAGA-TTA-AAGTCGATAATCCTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-AGTCTTA
* * * **
36020800 TCTCCCTGAAGTTGCAGTGGAGCGGATTAA-AACCTTGGATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAG-TCTTA
* * * * *
36020844 TCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGAATCTAGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCTTA
* *
36020884 TCTCCTTGAAGTTGCGGTGGAGCAGACTAAGTAAGCAAGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCTTA
*
36020928 TC-CTCCTGAAGCTGCAGT-GAGGCAGACTGAAGAAAGCAAGTCTTA
1 TCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAG-AAGCAAGTCTTA
* * * * * * *
36020973 TCCCCCTAAAATTGTAGTGGGGCAGACTAAATGAA-CAAATCTTG
1 TCTCCCTGAAGTTGCAGTGGAGCAGACT-AA-GAAGCAAGTCTTA
* *
36021017 TCTCCCTAAAGTTGTAGTGGAG
1 TCTCCCTGAAGTTGCAGTGGAG
36021039 TGGATTAGAG
Statistics
Matches: 700, Mismatches: 128, Indels: 122
0.74 0.13 0.13
Matches are distributed among these distances:
40 76 0.11
41 39 0.06
42 23 0.03
43 91 0.13
44 319 0.46
45 141 0.20
46 11 0.02
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (43 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCTTA
Found at i:36020469 original size:128 final size:128
Alignment explanation
Indices: 36020183--36020974 Score: 400
Period size: 128 Copynumber: 6.1 Consensus size: 128
36020173 GATCGCATCT
* * * * *
36020183 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG-TCTTATCATC-CTAAAGT
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTAA--AATCTAGATCTTATC-TCTCTGAAGT
* * * * *
36020246 TGCAGT-GAGGCAGACTGAAG-ATGGCAAATCTTATCTCCCTGAAGTTGCATTGGAGCAGA-TTA
62 TGTAGTGGA-GCAGACT-AAGCA--GCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
36020308 AAGCCGA
123 AAG-CGA
* * ** *
36020315 TAATCCTATCTCCCTGAAGTAACAGTGGAGCAGATTAAAACCTTAGATCTTATCTCTCTGAAGTT
1 -AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTAAAATC-TAGATCTTATCTCTCTGAAGTT
* * * *
36020380 GCAG-AGAGCAGA-T-CGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG
63 GTAGTGGAGCAGACTAAGCAGCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA--AAG
36020442 C-A
126 CGA
* * ** * *
36020444 AGTCTTATCCTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGAAAATTTTATCTCTCTGAAGT
1 AGTCTTAT-CTCCTGAAGTTGCAGTGGA-GCAGA-TTAAAAT-CTAGATCTTATCTCTCTGAAGT
* * * * * *
36020508 TGTAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAG-AGGATTAAAA
62 TGTAGTGGAGCAGACT-AAGCAGCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCA-GACTAAAA
* *
36020572 CCTTGG
125 GC--GA
* * **
36020578 A-TCTTATCTCTCTGAAGTTGCAG-AGAGTAGA-TCGAATCTAG-TCTTATCTC-CTTGAAGTTG
1 AGTCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTAAAATCTAGATCTTATCTCTC-TGAAGTTG
* * *
36020638 TGGTGGAGCAGACTAAGTAAGCAAGTCTTATC-CTCCTGAAGTTGCAGT-GAGCAGACTAAGTAA
64 TAGTGGAGCAGACTAAG-CAGCTAGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACTAA--AA
36020701 GC-A
125 GCGA
* * * ** * * *
36020704 AGTCTTATCCTCCTGAAGTTGCAGT-GAGGTAGACTGAAGATGGAAAATTTTATCTCCCTGAAGT
1 AGTCTTAT-CTCCTGAAGTTGCAGTGGA-GCAGA-TTAAAAT-CTAGATCTTATCTCTCTGAAGT
* * * * * * *
36020768 TGCAGTGGAGCAGATTAAAGTC-GATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
62 TGTAGTGGAGCAGACT-AAG-CAGCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAA
* *
36020832 CCTTGG
125 GC--GA
* **
36020838 A-TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCGAATCTAG-TCTTATCTC-CTTGAAGTTG
1 AGTCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTAAAATCTAGATCTTATCTCTC-TGAAGTTG
** * * *
36020898 CGGTGGAGCAGACTAAGTAAGCAAGTCTTATC-CTCCTGAAGCTGCAGT-GAGGCAGACTGAAGA
64 TAGTGGAGCAGACTAAG-CAGCTAGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT--A-A
36020961 AAGC-A
123 AAGCGA
36020966 AGTCTTATC
1 AGTCTTATC
36020975 CCCCTAAAAT
Statistics
Matches: 508, Mismatches: 98, Indels: 110
0.71 0.14 0.15
Matches are distributed among these distances:
126 1 0.00
127 43 0.08
128 169 0.33
129 44 0.09
130 16 0.03
131 19 0.04
132 73 0.14
133 141 0.28
134 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (128 bp):
AGTCTTATCTCCTGAAGTTGCAGTGGAGCAGATTAAAATCTAGATCTTATCTCTCTGAAGTTGTA
GTGGAGCAGACTAAGCAGCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAGCGA
Found at i:36020472 original size:217 final size:217
Alignment explanation
Indices: 36020097--36020786 Score: 1005
Period size: 217 Copynumber: 3.2 Consensus size: 217
36020087 TCGGTGGCCA
* * ** *
36020097 ATAATCCTGTCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCTCATCTCTCTGAAGT
1 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTTAGATCTTATCTCTCTGAAGT
* *
36020162 TGTAGAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCA
66 TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* *
36020227 AGTCTTATCATCCTAAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
131 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
*
36020292 GCATTGGAGCAGATTAAAGCCG
196 GCAGTGGAGCAGATTAAAGCCG
**
36020314 ATAATCCTATCTCCCTGAAGTAACAGTGGAGCAGATTAAAACCTTAGATCTTATCTCTCTGAAGT
1 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTTAGATCTTATCTCTCTGAAGT
36020379 TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
66 TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* * *
36020444 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGAAAATTTTATCTCTCTGAAGTT
131 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
*
36020509 GTAGTGGAGCAGATTAAAGCCG
196 GCAGTGGAGCAGATTAAAGCCG
*
36020531 ATAATCCTATCTCCCTGAAGTTGCAGTGGAG-AGGATTAAAACCTTGGATCTTATCTCTCTGAAG
1 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCA-GATTAAAACCTTAGATCTTATCTCTCTGAAG
* * * **
36020595 TTGCAGAGAGTAGATCGAATCTAGTCTTATCTCCTTGAAGTTGTGGTGGAGCAGACTAAGTAAGC
65 TTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC
* *
36020660 AAGTCTTATCCTCCTGAAGTTGCAGTGA-GCAGACT-AAG-TAAGCAAGTCTTATC-CTCCTGAA
130 AAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGAT-GGCAAATCTTATCTC-CCTGAA
* * * **
36020721 GTTGCAGT-GAGGTAGACTGAAGATGG
193 GTTGCAGTGGA-GCAGATTAAAG-CCG
* **
36020747 AAAATTTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
1 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
36020787 GTCGATAATC
Statistics
Matches: 429, Mismatches: 38, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
214 4 0.01
215 32 0.07
216 44 0.10
217 349 0.81
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (217 bp):
ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTTAGATCTTATCTCTCTGAAGT
TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
GCAGTGGAGCAGATTAAAGCCG
Found at i:36020742 original size:260 final size:260
Alignment explanation
Indices: 36020400--36021038 Score: 1050
Period size: 260 Copynumber: 2.5 Consensus size: 260
36020390 GATCGCATCT
36020400 AGTCTTAT-CTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTT
1 AGTCTTATCCT-CCTGAAGTTGCAGT-GAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTT
*
36020464 GCAGTGAGGCAGACTGAAGATGGAAAATTTTATCTCTCTGAAGTTGTAGTGGAGCAGATTAAAGC
64 GCAGTGAGGCAGACTGAAGATGGAAAATTTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGC
36020529 CGATAATCCTATCTCCCTGAAGTTGCAGTGGAGAGGATTAAAACCTTGGATCTTATCTCTCTGAA
129 CGATAATCCTATCTCCCTGAAGTTGCAGTGGAGAGGATTAAAACCTTGGATCTTATCTCTCTGAA
* *
36020594 GTTGCAGAGAGTAGATCGAATCTAGTCTTATCTCCTTGAAGTTGTGGTGGAGCAGACTAAGTAAG
194 GTTGCAGAGAGCAGATCGAATCTAGTCTTATCTCCTTGAAGTTGCGGTGGAGCAGACTAAGTAAG
36020659 CA
259 CA
36020661 AGTCTTATCCTCCTGAAGTTGCAGTGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGC
1 AGTCTTATCCTCCTGAAGTTGCAGTGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGC
* * *
36020726 AGTGAGGTAGACTGAAGATGGAAAATTTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCG
66 AGTGAGGCAGACTGAAGATGGAAAATTTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCG
*
36020791 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGT
131 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGAGGATTAAAACCTTGGATCTTATCTCTCTGAAGT
36020856 TGCAGAGAGCAGATCGAATCTAGTCTTATCTCCTTGAAGTTGCGGTGGAGCAGACTAAGTAAGCA
196 TGCAGAGAGCAGATCGAATCTAGTCTTATCTCCTTGAAGTTGCGGTGGAGCAGACTAAGTAAGCA
* * * * *
36020921 AGTCTTATCCTCCTGAAGCTGCAGTGAGGCAGACTGAAGAAAGCAAGTCTTATCCCCCTAAAATT
1 AGTCTTATCCTCCTGAAGTTGCAGTGA-GCAGACT-AAGTAAGCAAGTCTTATCCTCCTGAAGTT
* * * * * *
36020986 GTAGTGGGGCAGACT-AA-ATGAACAAATCTTGTCTCCCTAAAGTTGTAGTGGAG
64 GCAGTGAGGCAGACTGAAGATGGA-AAATTTTATCTCCCTGAAGTTGTAGTGGAG
36021039 TGGATTAGAG
Statistics
Matches: 354, Mismatches: 20, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
260 258 0.73
261 57 0.16
262 39 0.11
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (260 bp):
AGTCTTATCCTCCTGAAGTTGCAGTGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGC
AGTGAGGCAGACTGAAGATGGAAAATTTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCG
ATAATCCTATCTCCCTGAAGTTGCAGTGGAGAGGATTAAAACCTTGGATCTTATCTCTCTGAAGT
TGCAGAGAGCAGATCGAATCTAGTCTTATCTCCTTGAAGTTGCGGTGGAGCAGACTAAGTAAGCA
Found at i:36020816 original size:89 final size:88
Alignment explanation
Indices: 36020402--36021070 Score: 337
Period size: 89 Copynumber: 7.7 Consensus size: 88
36020392 TCGCATCTAG
* *
36020402 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA-AGTCTTATC-CTCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGT-CG-ATAGTCTTATCTC-CCTGAAGTTG
36020465 CAGT-GAGGCAGACTGAAGATGGAAAA
63 CAGTGGA-GCAGACTGAAGATGGAAAA
* * * * * *
36020491 TTTTATCTCTCTGAAGTTGTAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAGTCGATAGTCTTATCTCCCTGAAGTTGCA
* *
36020556 GTGGAG-AGGA-TTAAAACCTTGG---A
65 GTGGAGCA-GACTGAAGA---TGGAAAA
* * * * * **
36020579 TCTTATCTCTCTGAAGTTGCAG-AGAGTAGATCGAA-TC--TAGTCTTATCTCCTTGAAGTTGTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAGTCGATAGTCTTATCTCCCTGAAGTTGCA
* * *
36020640 GTGGAGCAGACT-AAG-TAAGCAAG
65 GTGGAGCAGACTGAAGAT-GGAAAA
* *
36020663 TCTTATC-CTCCTGAAGTTGCAGT-GAGCAGACTAAGTAAGCA-AGTCTTATC-CTCCTGAAGTT
1 TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGATTAAGT-CG-ATAGTCTTATCTC-CCTGAAGTT
*
36020724 GCAGT-GAGGTAGACTGAAGATGGAAAA
62 GCAGTGGA-GCAGACTGAAGATGGAAAA
* * *
36020751 TTTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAGTCGATAGTCTTATCTCCCTGAAGTTGCA
* * *
36020816 GTGGAGCGGA-TTAAAACCTTGG---A
65 GTGGAGCAGACTGAAGA---TGGAAAA
* * * * *
36020839 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCGAA-TC--TAGTCTTATCTCCTTGAAGTTGCG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAGTCGATAGTCTTATCTCCCTGAAGTTGCA
* * *
36020900 GTGGAGCAGACT-AAG-TAAGCAAG
65 GTGGAGCAGACTGAAGAT-GGAAAA
* * ** * * *
36020923 TCTTATC-CTCCTGAAGCTGCAGT-GAGGCAGACTGAAGAAAGCA-AGTCTTATCCCCCTAAAAT
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAG-TCG-ATAGTCTTATCTCCCTGAAGT
* * *
36020985 TGTAGTGGGGCAGACT-AA-ATGAACAAA
61 TGCAGTGGAGCAGACTGAAGATGGA-AAA
* * * ** * *
36021012 TCTTGTCTCCCTAAAGTTGTAGTGGAGTGGATTAGAGT-GATGGATCTTATCTCTCTGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AGTCGATAG-TCTTATCTCCCTGAA
36021071 ATTACAATAG
Statistics
Matches: 439, Mismatches: 84, Indels: 115
0.69 0.13 0.18
Matches are distributed among these distances:
80 2 0.00
81 2 0.00
83 4 0.01
84 106 0.24
85 11 0.03
86 8 0.02
87 47 0.11
88 93 0.21
89 144 0.33
90 16 0.04
91 6 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (88 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGTCGATAGTCTTATCTCCCTGAAGTTGCAG
TGGAGCAGACTGAAGATGGAAAA
Found at i:36020906 original size:84 final size:83
Alignment explanation
Indices: 36020106--36020906 Score: 335
Period size: 84 Copynumber: 9.3 Consensus size: 83
36020096 AATAATCCTG
* * * *
36020106 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAC-AGATCTCATCTCTCTGAAGTTGTAGAGA
1 TCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA-C-CTGGATCTTATCTCTCTGAAGTTGCAGAGA
*
36020170 GCAGATCGCATCTAGTCTTA
64 GCAGATCGAATCTAGTCTTA
* * * * ** * *
36020190 TCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG-TCTTATCATC-CTAAAGTTGCAGTG
1 TCTCCCTGAAGTTGCAGTGGAGCGGATTAA--AACCTGGATCTTATC-TCTCTGAAGTTGCAGAG
* *
36020253 AGGCAGA-CTGAAGATGGCAAATCTTA
63 A-GCAGATC-G-A-AT--CTAGTCTTA
* * * * * * ** *
36020279 TCTCCCTGAAGTTGCATTGGAGCAGATTAAAGCC-GATAATCCTATCTCCCTGAAGTAACAGTGG
1 TCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTG--GATCTTATCTCTCTGAAGTTGCAG-AG
** *
36020343 AGCAGATTAAAACCTTAGATCTTA
63 AGCAGA-TCGAATC-TAG-TCTTA
* * * *** * * * *
36020367 TCTCTCTGAAGTTGCAG-AGAGCAGA-TCGCATCTAG-TCTTATCTCCCTGAAGTTGCAGTGGAG
1 TCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTGGATCTTATCTCTCTGAAGTTGCAG-AGAG
* * *
36020429 CAGACTAAGTAAGCAAGTCTTA
65 CAGA-T-CG-AATCTAGTCTTA
* * * * *
36020451 TC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGA--TGGAAAATTTTATCTCTCTGAAGTTGTA
1 TCTC-CCTGAAGTTGCAGTGGA-GCGGA-TTAAAACCTGG---ATCTTATCTCTCTGAAGTTGCA
* ** * * *
36020512 GTGGAGCAGATTAAAGCCGATAATCCTA
60 G-AGAGCAGATCGAA-TC--TAGTCTTA
*
36020540 TCTCCCTGAAGTTGCAGTGGAGAGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAG
1 TCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC-TGGATCTTATCTCTCTGAAGTTGCAGAGAG
*
36020605 TAGATCGAATCTAGTCTTA
65 CAGATCGAATCTAGTCTTA
* ** * * * ** *
36020624 TCTCCTTGAAGTTGTGGTGGAGCAGACTAAGTAAGCAAG-TCTTATC-CTCCTGAAGTTGCAGTG
1 TCTCCCTGAAGTTGCAGTGGAGCGGATTAA--AACCTGGATCTTATCTCT-CTGAAGTTGCAGAG
* * *
36020687 AGCAGACTAAGTAAGCAAGTCTTA
63 AGCAGA-T-CG-AATCTAGTCTTA
* * * *
36020711 TC-CTCCTGAAGTTGCAGT-GAG-GTAGACTGAAGA--TGGAAAATTTTATCTCCCTGAAGTTGC
1 TCTC-CCTGAAGTTGCAGTGGAGCG--GA-TTAAAACCTGG---ATCTTATCTCTCTGAAGTTGC
* ** * *
36020771 AGTGGAGCAGATTAAAGTCGATAATCCTA
59 AG-AGAGCAGATCGAA-TC--TAGTCTTA
36020800 TCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAG
1 TCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC-TGGATCTTATCTCTCTGAAGTTGCAGAGAG
36020865 CAGATCGAATCTAGTCTTA
65 CAGATCGAATCTAGTCTTA
* *
36020884 TCTCCTTGAAGTTGCGGTGGAGC
1 TCTCCCTGAAGTTGCAGTGGAGC
36020907 AGACTAAGTA
Statistics
Matches: 538, Mismatches: 115, Indels: 128
0.69 0.15 0.16
Matches are distributed among these distances:
83 3 0.01
84 181 0.34
85 22 0.04
86 24 0.04
87 59 0.11
88 95 0.18
89 138 0.26
90 9 0.02
91 7 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (83 bp):
TCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTGGATCTTATCTCTCTGAAGTTGCAGAGAGC
AGATCGAATCTAGTCTTA
Found at i:36021023 original size:217 final size:216
Alignment explanation
Indices: 36020661--36021070 Score: 538
Period size: 217 Copynumber: 1.9 Consensus size: 216
36020651 TAAGTAAGCA
*
36020661 AGTCTTATCCTCCTGAAGTTGCAGTGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGC
1 AGTCTTATCCTCCTGAAGTTGCAGTGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGCTGC
* ** * * * * *
36020726 AGTGAGGTAGACTGAAGATGGAAAATTTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCG
66 AGTGAGGCAGACTGAAGAAAGAAAATCTTATCCCCCTAAAATTGCAGTGGAGCAGACTAAAGTCG
* * *
36020791 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGT
131 AAAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCATGGATCTTATCTCTCTGAAGT
36020856 TGCAGAGAGCAGATCGAATCT
196 TGCAGAGAGCAGATCGAATCT
*
36020877 AGTCTTAT-CTCCTTGAAGTTGCGGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGCT
1 AGTCTTATCCTCC-TGAAGTTGCAGT-GAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGCT
* * * *
36020941 GCAGTGAGGCAGACTGAAGAAAGCAAGTCTTATCCCCCTAAAATTGTAGTGGGGCAGACTAAA-T
64 GCAGTGAGGCAGACTGAAGAAAGAAAATCTTATCCCCCTAAAATTGCAGTGGAGCAGACTAAAGT
* * * * * ***
36021005 -GAACAAATCTTGTCTCCCTAAAGTTGTAGTGGAGTGGATTAGAGTGATGGATCTTATCTCTCTG
129 CG-A-AAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCATGGATCTTATCTCTCTG
36021069 AA
192 AA
36021071 ATTACAATAG
Statistics
Matches: 165, Mismatches: 25, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
215 5 0.03
216 21 0.13
217 139 0.84
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (216 bp):
AGTCTTATCCTCCTGAAGTTGCAGTGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGCTGC
AGTGAGGCAGACTGAAGAAAGAAAATCTTATCCCCCTAAAATTGCAGTGGAGCAGACTAAAGTCG
AAAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCATGGATCTTATCTCTCTGAAGT
TGCAGAGAGCAGATCGAATCT
Found at i:36022581 original size:21 final size:21
Alignment explanation
Indices: 36022555--36022599 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
36022545 TTAATTGATA
36022555 ATGT-AATTATTTTATATATAT
1 ATGTAAATT-TTTTATATATAT
*
36022576 ATGTAAATTTTTTATCTATAT
1 ATGTAAATTTTTTATATATAT
36022597 ATG
1 ATG
36022600 CATATATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.56
Consensus pattern (21 bp):
ATGTAAATTTTTTATATATAT
Found at i:36022646 original size:27 final size:27
Alignment explanation
Indices: 36022612--36022666 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 27
36022602 TATATATTTC
36022612 TATTTTTT-AATGAATATTTTCTATATT
1 TATTTTTTAAATGAATATTTT-TATATT
36022639 TATTTTTTAAATGAATATTTTTATATT
1 TATTTTTTAAATGAATATTTTTATATT
36022666 T
1 T
36022667 TTACGTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 15 0.56
28 12 0.44
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.64
Consensus pattern (27 bp):
TATTTTTTAAATGAATATTTTTATATT
Found at i:36022657 original size:15 final size:15
Alignment explanation
Indices: 36022612--36022660 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 15
36022602 TATATATTTC
36022612 TATTTTTT-AATGAA
1 TATTTTTTAAATGAA
* * *
36022626 TATTTTCTATAT--T
1 TATTTTTTAAATGAA
36022639 TATTTTTTAAATGAA
1 TATTTTTTAAATGAA
36022654 TATTTTT
1 TATTTTT
36022661 ATATTTTTAC
Statistics
Matches: 26, Mismatches: 6, Indels: 5
0.70 0.16 0.14
Matches are distributed among these distances:
13 10 0.38
14 7 0.27
15 9 0.35
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (15 bp):
TATTTTTTAAATGAA
Found at i:36022669 original size:29 final size:29
Alignment explanation
Indices: 36022604--36022669 Score: 93
Period size: 27 Copynumber: 2.3 Consensus size: 29
36022594 TATATGCATA
*
36022604 TATATTTCTATTTTTTAATGAATATTTTC
1 TATATTTTTATTTTTTAATGAATATTTTC
36022633 TATA--TTTATTTTTTAAATGAATATTTT-
1 TATATTTTTATTTTTT-AATGAATATTTTC
36022660 TATATTTTTA
1 TATATTTTTA
36022670 CGTATATATT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
27 13 0.39
28 12 0.36
29 8 0.24
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (29 bp):
TATATTTTTATTTTTTAATGAATATTTTC
Found at i:36023061 original size:15 final size:15
Alignment explanation
Indices: 36023041--36023075 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
36023031 TTTCTATGCC
*
36023041 ATTGTTATATTTATT
1 ATTGTTACATTTATT
*
36023056 ATTGTTGCATTTATT
1 ATTGTTACATTTATT
36023071 ATTGT
1 ATTGT
36023076 GGCATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.23, C:0.03, G:0.11, T:0.63
Consensus pattern (15 bp):
ATTGTTACATTTATT
Found at i:36023080 original size:15 final size:15
Alignment explanation
Indices: 36023049--36023080 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
36023039 CCATTGTTAT
*
36023049 ATTTATTATTGTTGC
1 ATTTATTATTGTGGC
36023064 ATTTATTATTGTGGC
1 ATTTATTATTGTGGC
36023079 AT
1 AT
36023081 ATATATATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.06, G:0.16, T:0.56
Consensus pattern (15 bp):
ATTTATTATTGTGGC
Found at i:36024497 original size:98 final size:98
Alignment explanation
Indices: 36024246--36024470 Score: 344
Period size: 98 Copynumber: 2.3 Consensus size: 98
36024236 TTCAATGTAT
* * *
36024246 TACCATCCCGGATGGCCCGAAAATAATGGCTTCCACACTTTACCTATACTACCATCCCGAATGGC
1 TACCATTCCGGATGGCCCGACAATGATGGCTTCCACACTTTACCTATACTACCATCCCGAATGGC
*
36024311 TCGACAATTATAACATTCATGATCAATTCATTC
66 TCGACAATGATAACATTCATGATCAATTCATTC
* * * * *
36024344 TATCATTCCGGATGGCTCGACGACGATGGCTTCCACACTTTACCTATATTACCATCCCGAATGGC
1 TACCATTCCGGATGGCCCGACAATGATGGCTTCCACACTTTACCTATACTACCATCCCGAATGGC
*
36024409 TCTACAATGATGAA-ATTCATGATCAATTCATTC
66 TCGACAATGAT-AACATTCATGATCAATTCATTC
36024442 TACCATTCCGGATGGCCCGACAATGATGG
1 TACCATTCCGGATGGCCCGACAATGATGG
36024471 TTTTCACTAT
Statistics
Matches: 112, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
98 110 0.98
99 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (98 bp):
TACCATTCCGGATGGCCCGACAATGATGGCTTCCACACTTTACCTATACTACCATCCCGAATGGC
TCGACAATGATAACATTCATGATCAATTCATTC
Found at i:36024518 original size:98 final size:98
Alignment explanation
Indices: 36024246--36024500 Score: 298
Period size: 98 Copynumber: 2.6 Consensus size: 98
36024236 TTCAATGTAT
* * ** * * *
36024246 TACCATCCCGGATGGCCCGAAAATAATGGCTTCCACACTTTACCTATACTACCATCCCGAATGGC
1 TACCATTCCGGATGGCCCGACAACGATGGCTTCCACACTATACATATACTACCATCACGAATGGC
* *
36024311 TCGACAATTAT-AACATTCATGATCAATTCATTC
66 TCTACAATGATGAA-ATTCATGATCAATTCATTC
* * * * * * *
36024344 TATCATTCCGGATGGCTCGACGACGATGGCTTCCACACTTTACCTATATTACCATCCCGAATGGC
1 TACCATTCCGGATGGCCCGACAACGATGGCTTCCACACTATACATATACTACCATCACGAATGGC
36024409 TCTACAATGATGAAATTCATGATCAATTCATTC
66 TCTACAATGATGAAATTCATGATCAATTCATTC
* * * *
36024442 TACCATTCCGGATGGCCCGACAATGATGGTTTTCACTA-TATACATATCCTACCATCACG
1 TACCATTCCGGATGGCCCGACAACGATGGCTTCCAC-ACTATACATATACTACCATCACG
36024501 GTTGGCCTAG
Statistics
Matches: 134, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
98 131 0.98
99 3 0.02
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (98 bp):
TACCATTCCGGATGGCCCGACAACGATGGCTTCCACACTATACATATACTACCATCACGAATGGC
TCTACAATGATGAAATTCATGATCAATTCATTC
Found at i:36033778 original size:2 final size:2
Alignment explanation
Indices: 36033771--36033796 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
36033761 TACTATTGTA
36033771 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
36033797 TTAGTTCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36035276 original size:22 final size:21
Alignment explanation
Indices: 36035248--36035294 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
36035238 ATTAAATTTT
*
36035248 AAAATTTGAAATATAAAAATTA
1 AAAATTTGAAA-ATAAAAATAA
* *
36035270 AAAATTTTAAAATTAAAATAA
1 AAAATTTGAAAATAAAAATAA
36035291 AAAA
1 AAAA
36035295 GGGAGGAGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (21 bp):
AAAATTTGAAAATAAAAATAA
Found at i:36035287 original size:21 final size:21
Alignment explanation
Indices: 36035233--36035294 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
36035223 ATACTAATAA
* *
36035233 TTAAAATTAAATTTTAAAATT
1 TTAAAATTAAAATTAAAAATT
* *
36035254 TGAAATATAAAAATTAAAAATT
1 TTAAA-ATTAAAATTAAAAATT
*
36035276 TTAAAATTAAAATAAAAAA
1 TTAAAATTAAAATTAAAAA
36035295 GGGAGGAGGG
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
21 16 0.48
22 17 0.52
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
TTAAAATTAAAATTAAAAATT
Found at i:36035961 original size:16 final size:16
Alignment explanation
Indices: 36035933--36035965 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
36035923 AGATGACTAT
36035933 ATAAAAAATTTTAATAA
1 ATAAAAAATTTT-ATAA
36035950 ATAAAAAA-TTTATAA
1 ATAAAAAATTTTATAA
36035965 A
1 A
36035966 ATTATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 3 0.19
17 8 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAAAAAATTTTATAA
Found at i:36036020 original size:11 final size:10
Alignment explanation
Indices: 36035990--36036021 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
36035980 AAATAATATA
36035990 ATTTAAAAAT
1 ATTTAAAAAT
36036000 ATTTAAAAAT
1 ATTTAAAAAT
36036010 ATTTAATAAAT
1 ATTTAA-AAAT
36036021 A
1 A
36036022 ATATAGGCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 16 0.76
11 5 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTTAAAAAT
Found at i:36037307 original size:16 final size:16
Alignment explanation
Indices: 36037286--36037324 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
36037276 GTTTAGTTCA
36037286 CTGTAATGGAATAAAG
1 CTGTAATGGAATAAAG
36037302 CTGTAATGGAATAAAG
1 CTGTAATGGAATAAAG
36037318 CTGTAAT
1 CTGTAAT
36037325 CAGTAATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (16 bp):
CTGTAATGGAATAAAG
Found at i:36040862 original size:15 final size:15
Alignment explanation
Indices: 36040842--36040872 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
36040832 TCAATCACCC
36040842 AAAAAAGAAAAGAAA
1 AAAAAAGAAAAGAAA
36040857 AAAAAAGAAAAGAAA
1 AAAAAAGAAAAGAAA
36040872 A
1 A
36040873 TAATGTGTTT
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:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAGAAA
Found at i:36043839 original size:5 final size:6
Alignment explanation
Indices: 36043825--36043849 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
36043815 TCCGCCTCTG
36043825 TTTTCT TTTTCT TTTTCT TTTTCT T
1 TTTTCT TTTTCT TTTTCT TTTTCT T
36043850 GCTCAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTCT
Found at i:36044224 original size:48 final size:48
Alignment explanation
Indices: 36044153--36044247 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
36044143 TTCTTTGCTC
* **
36044153 AAAAACGCCTAAGTCAGCCTAACTTGCAGTAATAAAGGATTCAACAGT
1 AAAAACGCCTAAGTCAGCCTAACTCGCAACAATAAAGGATTCAACAGT
*
36044201 AAAAACGCCTAAGTCAGCTTAACTCGCAACAATAAAGGATTCAACAG
1 AAAAACGCCTAAGTCAGCCTAACTCGCAACAATAAAGGATTCAACAG
36044248 AATTCCCTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.19
Consensus pattern (48 bp):
AAAAACGCCTAAGTCAGCCTAACTCGCAACAATAAAGGATTCAACAGT
Found at i:36044585 original size:35 final size:36
Alignment explanation
Indices: 36044545--36044616 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
36044535 TCTAGGATCA
36044545 CATATC-TCAAAAGATCACCTTCCATATTTGCCAAG
1 CATATCTTCAAAAGATCACCTTCCATATTTGCCAAG
* *
36044580 CATATCTTCAAAAGATCACTTTCCTTATTTGCCAAG
1 CATATCTTCAAAAGATCACCTTCCATATTTGCCAAG
36044616 C
1 C
36044617 TCCGGAGATG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
35 6 0.18
36 28 0.82
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (36 bp):
CATATCTTCAAAAGATCACCTTCCATATTTGCCAAG
Found at i:36049466 original size:48 final size:48
Alignment explanation
Indices: 36049395--36049489 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
36049385 TTCTTTGCTC
* **
36049395 AAAAACGCCTAAGTCAGCCTAACTTGCAGTAATAAAGGATTCAACAGT
1 AAAAACGCCTAAGTCAGCCTAACTCGCAACAATAAAGGATTCAACAGT
*
36049443 AAAAACGCCTAAGTCAGCTTAACTCGCAACAATAAAGGATTCAACAG
1 AAAAACGCCTAAGTCAGCCTAACTCGCAACAATAAAGGATTCAACAG
36049490 AATTCCCTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.19
Consensus pattern (48 bp):
AAAAACGCCTAAGTCAGCCTAACTCGCAACAATAAAGGATTCAACAGT
Found at i:36049826 original size:35 final size:36
Alignment explanation
Indices: 36049786--36049857 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
36049776 TCTAGGATCA
36049786 CATATC-TCAAAAGATCACCTTCCATATTTGCCAAG
1 CATATCTTCAAAAGATCACCTTCCATATTTGCCAAG
* *
36049821 CATATCTTCAAAAGATCACTTTCCTTATTTGCCAAG
1 CATATCTTCAAAAGATCACCTTCCATATTTGCCAAG
36049857 C
1 C
36049858 TCCGGAGATG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
35 6 0.18
36 28 0.82
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (36 bp):
CATATCTTCAAAAGATCACCTTCCATATTTGCCAAG
Found at i:36050223 original size:11 final size:11
Alignment explanation
Indices: 36050193--36050227 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
36050183 ATCAAAAGGC
36050193 CTCTCTATTTT
1 CTCTCTATTTT
36050204 CTGTCTCTATTTT
1 C--TCTCTATTTT
36050217 CTCTCTATTTT
1 CTCTCTATTTT
36050228 GTCAAAGGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 11 0.50
13 11 0.50
ACGTcount: A:0.09, C:0.26, G:0.03, T:0.63
Consensus pattern (11 bp):
CTCTCTATTTT
Found at i:36056625 original size:51 final size:51
Alignment explanation
Indices: 36056450--36056894 Score: 370
Period size: 51 Copynumber: 8.8 Consensus size: 51
36056440 TCATTCGATA
* *
36056450 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AA-TTTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-CGGTT
* * * **
36056500 CACGTAATAGCCTTCACATAGTACTATACACGTGATC-AAG-TTTTACAATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-CGGTT
* * * *
36056550 CACGTAGTAGTCTTCACATAGTACTACATACGTGACTAAAGCTTTTCGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTT
** * * * **
36056601 CATATAGTAGCCTTCACTTAGTACTACACATGTGACC--ATCATTTATCAATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGC-TTT-TCGGTT
* * *
36056652 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTT
** * * * * * **
36056703 CATATTGTAGCCTTCACTTGGTACTACACATGTGACCATTA--TTTATCAATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGCTTT-TCGGTT
* * * *
36056754 CACGTAGTAGCATTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTT
* * * * * *
36056805 CACATTGTAGCCTTCACTTAGTACTACACATGTGACCATTA--TTTATCGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGCTTT-TCGGTT
* *
36056856 CACGTAGTAGCCTTCACACAGTACTACACAAGTGACCAA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAA
36056895 CACTTTCACT
Statistics
Matches: 307, Mismatches: 75, Indels: 26
0.75 0.18 0.06
Matches are distributed among these distances:
49 2 0.01
50 84 0.27
51 209 0.68
52 10 0.03
53 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (51 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTT
Found at i:36056675 original size:102 final size:102
Alignment explanation
Indices: 36056450--36056894 Score: 610
Period size: 102 Copynumber: 4.4 Consensus size: 102
36056440 TCATTCGATA
* * * * * * *
36056450 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AA-TTTTTACGGTTCACGTAATAGCCT
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCT-CGGTACACATAGTAGCCT
* * * * *
36056513 TCACATAGTACTATACACGTGATCAAGT-TTTA-CAATT
65 TCACTTAGTACTACACATGTGA-CCATTATTTATCAATT
* * * * * *
36056550 CACGTAGTAGTCTTCACATAGTACTACATACGTGACTAAAGCTTTTCGGTACATATAGTAGCCTT
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATAGTAGCCTT
*
36056615 CACTTAGTACTACACATGTGACCATCATTTATCAATT
66 CACTTAGTACTACACATGTGACCATTATTTATCAATT
* *
36056652 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACATATTGTAGCCTT
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATAGTAGCCTT
*
36056717 CACTTGGTACTACACATGTGACCATTATTTATCAATT
66 CACTTAGTACTACACATGTGACCATTATTTATCAATT
* *
36056754 CACGTAGTAGCATTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGTAGCCTT
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATAGTAGCCTT
*
36056819 CACTTAGTACTACACATGTGACCATTATTTATCGATT
66 CACTTAGTACTACACATGTGACCATTATTTATCAATT
*
36056856 CACGTAGTAGCCTTCACACAGTACTACACAAGTGACCAA
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAA
36056895 CACTTTCACT
Statistics
Matches: 312, Mismatches: 29, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
100 35 0.11
101 39 0.12
102 238 0.76
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (102 bp):
CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATAGTAGCCTT
CACTTAGTACTACACATGTGACCATTATTTATCAATT
Found at i:36058804 original size:12 final size:12
Alignment explanation
Indices: 36058789--36058817 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
36058779 TTACTGTGTT
36058789 ATTTAATATTTC
1 ATTTAATATTTC
36058801 ATTTAATATTTC
1 ATTTAATATTTC
36058813 ATTTA
1 ATTTA
36058818 TTTATTTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTTAATATTTC
Found at i:36063735 original size:17 final size:18
Alignment explanation
Indices: 36063710--36063743 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
36063700 TTTAATTTCT
36063710 ATTTCTTATTTATTTATG
1 ATTTCTTATTTATTTATG
*
36063728 ATTT-TTATTTTTTTAT
1 ATTTCTTATTTATTTAT
36063744 TCTCAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (18 bp):
ATTTCTTATTTATTTATG
Found at i:36067280 original size:18 final size:18
Alignment explanation
Indices: 36067237--36067284 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
36067227 TCTCAGGCAT
*
36067237 TCTTCTCCCTTCATCCAG
1 TCTTCTCCCTTCATCCAA
***
36067255 TAAGCTCCCTTCATCCAA
1 TCTTCTCCCTTCATCCAA
36067273 TCTTCTCCCTTC
1 TCTTCTCCCTTC
36067285 CTTCATTCCT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.15, C:0.44, G:0.04, T:0.38
Consensus pattern (18 bp):
TCTTCTCCCTTCATCCAA
Found at i:36068540 original size:14 final size:14
Alignment explanation
Indices: 36068521--36068551 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
36068511 TGGTGCGTTG
36068521 TGGTTTGGTTCTTT
1 TGGTTTGGTTCTTT
36068535 TGGTTTGGTTCTTT
1 TGGTTTGGTTCTTT
36068549 TGG
1 TGG
36068552 CATATCATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.00, C:0.06, G:0.32, T:0.61
Consensus pattern (14 bp):
TGGTTTGGTTCTTT
Found at i:36070741 original size:14 final size:15
Alignment explanation
Indices: 36070719--36070795 Score: 61
Period size: 14 Copynumber: 5.0 Consensus size: 15
36070709 CAATCAAACA
36070719 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
36070733 CCAGCAAATCATTTT
1 CCAGAAAATCATTTT
*
36070748 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
36070768 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
*
36070782 CCGGAAAA-CATTTT
1 CCAGAAAATCATTTT
36070796 ACTGGCAATC
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
14 23 0.45
15 14 0.27
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:36070972 original size:18 final size:18
Alignment explanation
Indices: 36070928--36070975 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
36070918 AAATAAAAAA
36070928 AATGTTTTGAAATTGAAT
1 AATGTTTTGAAATTGAAT
* *
36070946 AACGATTTGTAAA-TGAAT
1 AATGTTTTG-AAATTGAAT
36070964 AATGTTTTGAAA
1 AATGTTTTGAAA
36070976 ACGAACGACA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 3 0.12
18 19 0.76
19 3 0.12
ACGTcount: A:0.42, C:0.02, G:0.17, T:0.40
Consensus pattern (18 bp):
AATGTTTTGAAATTGAAT
Found at i:36075633 original size:6 final size:6
Alignment explanation
Indices: 36075612--36075652 Score: 64
Period size: 6 Copynumber: 6.7 Consensus size: 6
36075602 GCACCTAAAT
*
36075612 AGTAATC AGTAAC AGTAGC AGTAAC AGTAAC AGTAAC AGTA
1 AGTAA-C AGTAAC AGTAAC AGTAAC AGTAAC AGTAAC AGTA
36075653 TTCAACACAC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.20
Consensus pattern (6 bp):
AGTAAC
Found at i:36075727 original size:45 final size:45
Alignment explanation
Indices: 36075632--36075736 Score: 142
Period size: 45 Copynumber: 2.3 Consensus size: 45
36075622 AACAGTAGCA
* *
36075632 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATTT
1 GTAATAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATTC
* *
36075677 GTAATAGTAACGGTAACAGTATTCGACACACAAAGTG-TCGAA-TC
1 GTAATAGTAACAGTAACAGTATTCAACACACAAAGTGCT-GAATTC
36075721 GATAATAGTAACAGTA
1 G-TAATAGTAACAGTA
36075737 GTCAGCATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
44 3 0.06
45 50 0.94
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (45 bp):
GTAATAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATTC
Found at i:36076715 original size:35 final size:34
Alignment explanation
Indices: 36076670--36076739 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 34
36076660 ATACAATATC
*
36076670 ATTATAATTTAATTATCATAAATTCATATAATATAA
1 ATTATAATTTAAATATCATAAATT-ATATAAT-TAA
*
36076706 ATTAT-ATTTAAATATCATTAATTATATAATTAA
1 ATTATAATTTAAATATCATAAATTATATAATTAA
36076739 A
1 A
36076740 ACAAATAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
33 4 0.12
34 7 0.22
35 16 0.50
36 5 0.16
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (34 bp):
ATTATAATTTAAATATCATAAATTATATAATTAA
Found at i:36082346 original size:25 final size:23
Alignment explanation
Indices: 36082302--36082362 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
36082292 ATTTTGATTT
*
36082302 ATTTAATAATATAATATCATTATA
1 ATTTAATTATATAATATCA-TATA
36082326 ATTTAATTATCATAA-ATTCATATA
1 ATTTAATTAT-ATAATA-TCATATA
*
36082350 ATATAAATTATAT
1 AT-TTAATTATAT
36082363 TTAAATATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 18 0.56
25 14 0.44
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAATTATATAATATCATATA
Found at i:36082365 original size:35 final size:35
Alignment explanation
Indices: 36082310--36082389 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
36082300 TTATTTAATA
* *
36082310 ATATAATAT-CATTATAATTTAATTATCATAAATT
1 ATATAATATAAATTATAATTTAAATATCATAAATT
*
36082344 CATATAATATAAATTAT-ATTTAAATATCATTAATT
1 -ATATAATATAAATTATAATTTAAATATCATAAATT
36082379 ATATAAT-TAAA
1 ATATAATATAAA
36082390 ACAAATAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
33 4 0.10
34 7 0.17
35 25 0.61
36 5 0.12
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (35 bp):
ATATAATATAAATTATAATTTAAATATCATAAATT
Found at i:36084389 original size:17 final size:19
Alignment explanation
Indices: 36084356--36084400 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
36084346 ATCATCCATT
*
36084356 TTTCTTTTTTAATTTAT-A
1 TTTCTTATTTAATTTATGA
36084374 TTTCTTATTT-ATTTATGA
1 TTTCTTATTTAATTTATGA
36084392 TTT-TTATTT
1 TTTCTTATTT
36084401 GTTTTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTCTTATTTAATTTATGA
Found at i:36084458 original size:21 final size:22
Alignment explanation
Indices: 36084416--36084458 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
36084406 TTATTCTCAA
* **
36084416 ATTTCTTCTTTTACTATTTTTG
1 ATTTCTTCTATTACTAAATTTG
36084438 ATTTCTT-TATTACTAAATTTG
1 ATTTCTTCTATTACTAAATTTG
36084459 TTTATTTCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.21, C:0.12, G:0.05, T:0.63
Consensus pattern (22 bp):
ATTTCTTCTATTACTAAATTTG
Done.