Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 156 of 205
Found at i:46698721 original size:36 final size:36
Alignment explanation
Indices: 46698680--46698749 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
46698670 TTTTTTTATT
* * *
46698680 TTTTTTATAAGTTTATATCAATTTTAATACATTTAA
1 TTTTTTATAAGTTTATATAAAATTCAATACATTTAA
* **
46698716 TTTTTTTTATTTTTATATAAAATTCAATACATTT
1 TTTTTTATAAGTTTATATAAAATTCAATACATTT
46698750 TTATAAAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.59
Consensus pattern (36 bp):
TTTTTTATAAGTTTATATAAAATTCAATACATTTAA
Found at i:46698836 original size:29 final size:29
Alignment explanation
Indices: 46698747--46698868 Score: 90
Period size: 29 Copynumber: 4.1 Consensus size: 29
46698737 ATTCAATACA
* *
46698747 TTTTTATAAAATTT-TACAATATTTAAAAT
1 TTTTTATAAAATTTATAAAAT-TTTATAAT
* * * *
46698776 ATTTGTTATTAATTTTAT-AATTTATTAGAAT
1 -TTT-TTATAAAATTTATAAAATT-TTATAAT
46698807 TTTTTATAAAATTTATAAAATTTTATAA-
1 TTTTTATAAAATTTATAAAATTTTATAAT
* *
46698835 TTTTTAT-AACTTTATATCAATTTTCATAAT
1 TTTTTATAAAATTTATA-AAATTTT-ATAAT
46698865 TTTT
1 TTTT
46698869 GATTTTTTAT
Statistics
Matches: 74, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
27 8 0.11
28 13 0.18
29 20 0.27
30 15 0.20
31 17 0.23
32 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.57
Consensus pattern (29 bp):
TTTTTATAAAATTTATAAAATTTTATAAT
Found at i:46698840 original size:19 final size:19
Alignment explanation
Indices: 46698786--46698843 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
46698776 ATTTGTTATT
*
46698786 AATTTTATAATTTATTAGAA
1 AATTTTATAATTT-TTATAA
** **
46698806 TTTTTTATAAAATTTATAA
1 AATTTTATAATTTTTATAA
46698825 AATTTTATAATTTTTATAA
1 AATTTTATAATTTTTATAA
46698844 CTTTATATCA
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
19 20 0.69
20 9 0.31
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
AATTTTATAATTTTTATAA
Found at i:46698885 original size:10 final size:9
Alignment explanation
Indices: 46698788--46698886 Score: 67
Period size: 10 Copynumber: 10.4 Consensus size: 9
46698778 TTGTTATTAA
46698788 TTTTATAAT
1 TTTTATAAT
*
46698797 TTATTAGAATT
1 TT-TTATAA-T
*
46698808 TTTTATAAA
1 TTTTATAAT
* *
46698817 ATTTATAAAA
1 TTTTAT-AAT
46698827 TTTTATAAT
1 TTTTATAAT
46698836 TTTTATAACT
1 TTTTATAA-T
*
46698846 TTATATCAAT
1 TTTTAT-AAT
*
46698856 TTTCATAAT
1 TTTTATAAT
46698865 TTTTGAT--T
1 TTTT-ATAAT
46698873 TTTTATCAAT
1 TTTTAT-AAT
46698883 TTTT
1 TTTT
46698887 GAAAAAAAAT
Statistics
Matches: 71, Mismatches: 10, Indels: 17
0.72 0.10 0.17
Matches are distributed among these distances:
7 2 0.03
8 5 0.07
9 23 0.32
10 36 0.51
11 5 0.07
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (9 bp):
TTTTATAAT
Found at i:46707251 original size:65 final size:65
Alignment explanation
Indices: 46707143--46707276 Score: 250
Period size: 65 Copynumber: 2.1 Consensus size: 65
46707133 TAAAACATTA
46707143 TCTAACATGAGAAGCTGCAAAACAAACTTCACATCTAACACTGAATTCTCTTTGATTCACTGATG
1 TCTAACATGAGAAGCTGCAAAACAAACTTCACATCTAACACTGAATTCTCTTTGATTCACTGATG
* *
46707208 TCTAACATGAGAAGCTGCAAAACAAACTTCACATCTGAGACTGAATTCTCTTTGATTCACTGATG
1 TCTAACATGAGAAGCTGCAAAACAAACTTCACATCTAACACTGAATTCTCTTTGATTCACTGATG
46707273 TCTA
1 TCTA
46707277 GTATTTGGTA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.30
Consensus pattern (65 bp):
TCTAACATGAGAAGCTGCAAAACAAACTTCACATCTAACACTGAATTCTCTTTGATTCACTGATG
Found at i:46708900 original size:30 final size:29
Alignment explanation
Indices: 46708864--46708925 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 29
46708854 CCTTCTTTCA
*
46708864 CAAACCCAACTCCGTAAGGAGAAATGCTCG
1 CAAACCCAACTCCATAAGGAGAAATGCT-G
46708894 CAAACCCAACTCCATAAGGAGAAATGCTG
1 CAAACCCAACTCCATAAGGAGAAATGCTG
46708923 CAA
1 CAA
46708926 CATATACAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 4 0.13
30 27 0.87
ACGTcount: A:0.40, C:0.29, G:0.18, T:0.13
Consensus pattern (29 bp):
CAAACCCAACTCCATAAGGAGAAATGCTG
Found at i:46716385 original size:93 final size:93
Alignment explanation
Indices: 46716218--46716592 Score: 499
Period size: 93 Copynumber: 4.0 Consensus size: 93
46716208 TGATTGTCCA
* * * * * * *
46716218 CCAAAATTCTCTACATCTCTTGAGATGGAAATCATAGGCAAGGCATTTACCGCACAAGAACTATC
1 CCAACATTCTCCACATCTCTTGGGATGGAAATCATAGGCAAAGCATTTACCCCACAAGCACTCTC
* *
46716283 TGT-AGTTTGTATCAAGGCAGTCTTTTCT
66 T-TCATTTTGTATCAGGGCAGTCTTTTCT
* * * *
46716311 CCAACATTCTCCACATCTCTTGGGTTGGAAGTTATAGGCATAGCATTTACCCCACAAGCACTCTC
1 CCAACATTCTCCACATCTCTTGGGATGGAAATCATAGGCAAAGCATTTACCCCACAAGCACTCTC
46716376 TTCATTTTGTATCAGGGCAGTCTTTTC-
66 TTCATTTTGTATCAGGGCAGTCTTTTCT
* *
46716403 CGCAACATTCTCCATATCTCTTGGGATGGAAATTATAGGCAAAGCATTTACCCCACAAGCACTAC
1 C-CAACATTCTCCACATCTCTTGGGATGGAAATCATAGGCAAAGCATTTACCCCACAAGCACT-C
46716468 -CTTCATTTTGTATCAGGGCAGTCTTTTCT
64 TCTTCATTTTGTATCAGGGCAGTCTTTTCT
* *
46716497 CCAACATTCTCCACATCTCTTGGGATGGAAATCATAGGCAAAGCATTTAACCAACAAGCAC-CAT
1 CCAACATTCTCCACATCTCTTGGGATGGAAATCATAGGCAAAGCATTTACCCCACAAGCACTC-T
* *
46716561 CTTCATTTTGTA-CTGGGTCATTCTTTTCT
65 CTTCATTTTGTATCAGGG-CAGTCTTTTCT
46716590 CCA
1 CCA
46716593 GCTGGTATTT
Statistics
Matches: 252, Mismatches: 23, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
91 1 0.00
92 6 0.02
93 243 0.96
94 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (93 bp):
CCAACATTCTCCACATCTCTTGGGATGGAAATCATAGGCAAAGCATTTACCCCACAAGCACTCTC
TTCATTTTGTATCAGGGCAGTCTTTTCT
Found at i:46718372 original size:23 final size:23
Alignment explanation
Indices: 46718346--46718389 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
46718336 GTAACATTAA
46718346 TATAATTATTTT-AATTATTTATT
1 TATAA-TATTTTCAATTATTTATT
*
46718369 TATAATATTTTCTATTATTTA
1 TATAATATTTTCAATTATTTA
46718390 ATTTTTTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
TATAATATTTTCAATTATTTATT
Found at i:46729561 original size:14 final size:16
Alignment explanation
Indices: 46729542--46729573 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
46729532 TGCCTTTCTG
46729542 ATTA-TTTTAA-ATAA
1 ATTATTTTTAATATAA
46729556 ATTATTTTTAATATAA
1 ATTATTTTTAATATAA
46729572 AT
1 AT
46729574 GCGTTGCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.25
15 6 0.38
16 6 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTATTTTTAATATAA
Found at i:46730785 original size:221 final size:221
Alignment explanation
Indices: 46730402--46730839 Score: 849
Period size: 221 Copynumber: 2.0 Consensus size: 221
46730392 AAAGGGGAAG
46730402 GTTGAAGAGCCTTTCCTTTATGAAAAAACAACAATTCGAGAACTGCTATGAAATGAATCAAAGAT
1 GTTGAAGAGCCTTTCCTTTATGAAAAAACAACAATTCGAGAACTGCTATGAAATGAATCAAAGAT
46730467 AGAGAATCTAACAAACAATCGATAAAAGAATAATCAAAGAAAATTTTCTAAAACGACAATATTTA
66 AGAGAATCTAACAAACAATCGATAAAAGAATAATCAAAGAAAATTTTCTAAAACGACAATATTTA
* *
46730532 TGGAGCGCAAATGTATTCAGTAGCCACCCTTCTTCCACAGTTATTGAGTAAGAGACTCAATGAGA
131 TGGAGCGCAAATGTATTCAGTAGCCACCCTTCTTCCACAATTATTGAGTAAGAGACTCAATGAAA
46730597 TAGGAAGGTTGAGTTTAATGTCTAAC
196 TAGGAAGGTTGAGTTTAATGTCTAAC
46730623 GTTGAAGAGCCTTTCCTTTATGAAAAAACAACAATTCGAGAACTGCTATGAAATGAATCAAAGAT
1 GTTGAAGAGCCTTTCCTTTATGAAAAAACAACAATTCGAGAACTGCTATGAAATGAATCAAAGAT
*
46730688 AGAGAATCTAACAAACAATCGATAAAAGAATAATCAAAGACAATTTTCTAAAACGACAATATTTA
66 AGAGAATCTAACAAACAATCGATAAAAGAATAATCAAAGAAAATTTTCTAAAACGACAATATTTA
46730753 TGGAGCGCAAATGTATTCAGTAGCCACCCTTCTTCCACAATTATTGAGTAAGAGACTCAATGAAA
131 TGGAGCGCAAATGTATTCAGTAGCCACCCTTCTTCCACAATTATTGAGTAAGAGACTCAATGAAA
46730818 TAGGAAGGTTGAGTTTAATGTC
196 TAGGAAGGTTGAGTTTAATGTC
46730840 CAAGACATTA
Statistics
Matches: 214, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
221 214 1.00
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (221 bp):
GTTGAAGAGCCTTTCCTTTATGAAAAAACAACAATTCGAGAACTGCTATGAAATGAATCAAAGAT
AGAGAATCTAACAAACAATCGATAAAAGAATAATCAAAGAAAATTTTCTAAAACGACAATATTTA
TGGAGCGCAAATGTATTCAGTAGCCACCCTTCTTCCACAATTATTGAGTAAGAGACTCAATGAAA
TAGGAAGGTTGAGTTTAATGTCTAAC
Found at i:46734631 original size:22 final size:22
Alignment explanation
Indices: 46734606--46734653 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
46734596 TAAGACAAGT
*
46734606 AAAGAAATTATTACAGGAGATG
1 AAAGAAATTATTACAAGAGATG
46734628 AAAGAAATTATTACAAGAGATG
1 AAAGAAATTATTACAAGAGATG
46734650 AAAG
1 AAAG
46734654 GGAAAGGTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.54, C:0.04, G:0.21, T:0.21
Consensus pattern (22 bp):
AAAGAAATTATTACAAGAGATG
Found at i:46742055 original size:20 final size:20
Alignment explanation
Indices: 46742027--46742064 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
46742017 TAAATCATTT
*
46742027 TAAACCCTTTTTAAAAAAAA
1 TAAAACCTTTTTAAAAAAAA
46742047 TAAAACCTTTTTAAAAAA
1 TAAAACCTTTTTAAAAAA
46742065 TCCTCTCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAACCTTTTTAAAAAAAA
Found at i:46744171 original size:22 final size:22
Alignment explanation
Indices: 46744146--46744191 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
46744136 TCAAAAACAC
*
46744146 TTTTCATCGGTTTCGTCAATTT
1 TTTTCATCGGTTTCATCAATTT
*
46744168 TTTTCATCGGTTTCATCGATTT
1 TTTTCATCGGTTTCATCAATTT
46744190 TT
1 TT
46744192 CTTTTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.13, C:0.17, G:0.13, T:0.57
Consensus pattern (22 bp):
TTTTCATCGGTTTCATCAATTT
Found at i:46744248 original size:22 final size:23
Alignment explanation
Indices: 46744222--46744287 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 23
46744212 AAAAAAAAGC
46744222 AAAAAGCGCAAAAAAAAGTTGAG
1 AAAAAGCGCAAAAAAAAGTTGAG
* * **
46744245 AAAAATCGTAAAAAAAA--AAAG
1 AAAAAGCGCAAAAAAAAGTTGAG
*
46744266 CAAACAGCGCAAAAAAAAGTTG
1 -AAAAAGCGCAAAAAAAAGTTG
46744288 TCTACCTCTC
Statistics
Matches: 31, Mismatches: 9, Indels: 5
0.69 0.20 0.11
Matches are distributed among these distances:
21 2 0.06
22 14 0.45
23 15 0.48
ACGTcount: A:0.64, C:0.11, G:0.17, T:0.09
Consensus pattern (23 bp):
AAAAAGCGCAAAAAAAAGTTGAG
Found at i:46751624 original size:3 final size:3
Alignment explanation
Indices: 46751612--46751651 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
46751602 AATGAAAACC
46751612 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
46751652 GAAAGTCAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:46761361 original size:23 final size:23
Alignment explanation
Indices: 46761307--46761351 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
46761297 AATTTACTTC
46761307 AAATATATAAT--TTATATATTT
1 AAATATATAATGGTTATATATTT
46761328 AAATATATAATGGTTATAT-TTT
1 AAATATATAATGGTTATATATTT
46761350 AA
1 AA
46761352 TATTTTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 11 0.50
22 5 0.23
23 6 0.27
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (23 bp):
AAATATATAATGGTTATATATTT
Found at i:46761520 original size:22 final size:23
Alignment explanation
Indices: 46761492--46761539 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
46761482 AGTTGATTGC
* *
46761492 ATTAAAGGATGAGAGG-TGAAGT
1 ATTAAAGGATGAAAGGAGGAAGT
46761514 ATTAAAGGATGAAAGGAGGAAGT
1 ATTAAAGGATGAAAGGAGGAAGT
46761537 ATT
1 ATT
46761540 TTCGAAACCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.23
Consensus pattern (23 bp):
ATTAAAGGATGAAAGGAGGAAGT
Found at i:46762782 original size:26 final size:25
Alignment explanation
Indices: 46762727--46762782 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
46762717 TTTTAGGGAT
**
46762727 AATTTTTTAGAATTAAAATTCCGCC
1 AATTTTTTAGAATTAAAATTCAACC
* * *
46762752 TATTTTTTAGAATTCAAATTTAACTC
1 AATTTTTTAGAATTAAAATTCAAC-C
46762778 AATTT
1 AATTT
46762783 CTACCACATA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
25 19 0.79
26 5 0.21
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.46
Consensus pattern (25 bp):
AATTTTTTAGAATTAAAATTCAACC
Found at i:46770041 original size:25 final size:26
Alignment explanation
Indices: 46770013--46770068 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
46770003 AAAAAAAGAG
46770013 AAAATTTTAAAGAACATAAAA-GAAA
1 AAAATTTTAAAGAACATAAAACGAAA
* ** *
46770038 AAAAATTTAAATTACTTAAAACGAAA
1 AAAATTTTAAAGAACATAAAACGAAA
46770064 AAAAT
1 AAAAT
46770069 ATAGAAATCA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 17 0.68
26 8 0.32
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.23
Consensus pattern (26 bp):
AAAATTTTAAAGAACATAAAACGAAA
Found at i:46771394 original size:58 final size:58
Alignment explanation
Indices: 46771308--46771423 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
46771298 ATGTACGAAG
46771308 GAAAGAGTGGTTATAGCTGTGAATGCCTATTCACCTAGCTAGGGCAGAGAGCTAGAAA
1 GAAAGAGTGGTTATAGCTGTGAATGCCTATTCACCTAGCTAGGGCAGAGAGCTAGAAA
*
46771366 GAAAGAGTGGTTGTAGCTGTGAATGCCTATTCACCTAGCTAGGGCAGAGAGCTAGAAA
1 GAAAGAGTGGTTATAGCTGTGAATGCCTATTCACCTAGCTAGGGCAGAGAGCTAGAAA
46771424 TTATAAAGAG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (58 bp):
GAAAGAGTGGTTATAGCTGTGAATGCCTATTCACCTAGCTAGGGCAGAGAGCTAGAAA
Found at i:46774055 original size:16 final size:18
Alignment explanation
Indices: 46774028--46774060 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
46774018 TATAATTCGG
46774028 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
46774045 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
46774061 TTTAGCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:46775401 original size:29 final size:29
Alignment explanation
Indices: 46775367--46775422 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
46775357 CGCGGAAAAT
*
46775367 GGCCCATTCCGGTAAATAATT-AAAAAACC
1 GGCCCATTCCAGTAAAT-ATTGAAAAAACC
*
46775396 GGCCCATTTCAGTAAATATTGAAAAAA
1 GGCCCATTCCAGTAAATATTGAAAAAA
46775423 AAGGGCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (29 bp):
GGCCCATTCCAGTAAATATTGAAAAAACC
Found at i:46776870 original size:21 final size:20
Alignment explanation
Indices: 46776822--46776871 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
46776812 TTTTAAAATA
46776822 TTTTTAAAATTCTTTTTTAT
1 TTTTTAAAATTCTTTTTTAT
*
46776842 TTTTTAAAATT-TTTTTGTGT
1 TTTTTAAAATTCTTTTT-TAT
46776862 TTATTTAAAA
1 TT-TTTAAAA
46776872 AACGGGTCGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 5 0.19
20 15 0.56
21 7 0.26
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (20 bp):
TTTTTAAAATTCTTTTTTAT
Found at i:46778963 original size:24 final size:24
Alignment explanation
Indices: 46778929--46778980 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
46778919 TTTCTAGAAG
*
46778929 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGTATAATAT
*
46778953 ATTTAGCATTTATTAGTATAATTT
1 ATTTAGCATTTATTAGTATAATAT
46778977 ATTT
1 ATTT
46778981 GACCTATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56
Consensus pattern (24 bp):
ATTTAGCATTTATTAGTATAATAT
Found at i:46780043 original size:25 final size:27
Alignment explanation
Indices: 46780010--46780059 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
46780000 ATTATGATAT
* *
46780010 GCAAGTAAAA-AT-AATAAGAGTCACA
1 GCAAATAAAAGATAAATAAAAGTCACA
46780035 GCAAATAAAAGATAAATAAAAGTCA
1 GCAAATAAAAGATAAATAAAAGTCA
46780060 AATTAATTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 9 0.43
26 2 0.10
27 10 0.48
ACGTcount: A:0.60, C:0.10, G:0.14, T:0.16
Consensus pattern (27 bp):
GCAAATAAAAGATAAATAAAAGTCACA
Found at i:46780488 original size:10 final size:10
Alignment explanation
Indices: 46780459--46780489 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
46780449 ATATGTAAGT
*
46780459 ATGTATATAT
1 ATGTATATAA
46780469 ATGTATATAA
1 ATGTATATAA
46780479 ATGTATATAA
1 ATGTATATAA
46780489 A
1 A
46780490 AATTATGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (10 bp):
ATGTATATAA
Found at i:46780503 original size:25 final size:26
Alignment explanation
Indices: 46780475--46780539 Score: 62
Period size: 26 Copynumber: 2.5 Consensus size: 26
46780465 ATATATGTAT
*
46780475 ATAAATGTATATAAAAAT-TATGAAA
1 ATAAATGTATATAAAAATATATAAAA
*
46780500 ATAAAAT-AATATAAAAAATATATAAAA
1 AT-AAATGTATAT-AAAAATATATAAAA
**
46780527 ATATGTGTATATA
1 ATAAATGTATATA
46780540 TATTTTTACA
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
25 6 0.19
26 13 0.42
27 12 0.39
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (26 bp):
ATAAATGTATATAAAAATATATAAAA
Found at i:46780586 original size:33 final size:33
Alignment explanation
Indices: 46780522--46780587 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
46780512 AAAAAATATA
*
46780522 TAAAAATATGTGTATATATATTTTTACAAAAGT
1 TAAAAATATGTGTATATATATTTATACAAAAGT
46780555 TAAAAATATGTACGTATATATA-TTATA-AAAAGT
1 TAAAAATATGT--GTATATATATTTATACAAAAGT
46780588 ATGTATATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 17 0.57
34 4 0.13
35 9 0.30
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.39
Consensus pattern (33 bp):
TAAAAATATGTGTATATATATTTATACAAAAGT
Found at i:46780594 original size:18 final size:18
Alignment explanation
Indices: 46780568--46780603 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
46780558 AAATATGTAC
46780568 GTATATATATTATAAAAA
1 GTATATATATTATAAAAA
*
46780586 GTATGTATATTATAAAAA
1 GTATATATATTATAAAAA
46780604 TATTGCATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
GTATATATATTATAAAAA
Found at i:46780736 original size:26 final size:27
Alignment explanation
Indices: 46780685--46780736 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
46780675 TAATAAGGTA
*
46780685 AGTAATAATAAATACAATAATAGTAAT
1 AGTAATAATAAATAAAATAATAGTAAT
*
46780712 AGTAATATTAAA-AAAATAATAGTAA
1 AGTAATAATAAATAAAATAATAGTAA
46780737 AAATAATGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.29
Consensus pattern (27 bp):
AGTAATAATAAATAAAATAATAGTAAT
Found at i:46781392 original size:2 final size:2
Alignment explanation
Indices: 46781387--46781412 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
46781377 TATATATATA
46781387 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
46781413 CGATTAATAA
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:46781800 original size:13 final size:13
Alignment explanation
Indices: 46781782--46781808 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46781772 TTTTCTGATT
46781782 TGATGCTTTGGGC
1 TGATGCTTTGGGC
46781795 TGATGCTTTGGGC
1 TGATGCTTTGGGC
46781808 T
1 T
46781809 ATTAGGGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.15, G:0.37, T:0.41
Consensus pattern (13 bp):
TGATGCTTTGGGC
Found at i:46792670 original size:1 final size:1
Alignment explanation
Indices: 46792666--46793465 Score: 1591
Period size: 1 Copynumber: 800.0 Consensus size: 1
46792656 ATTTTTCCTC
*
46792666 TTTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
46792731 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
46792796 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
46792861 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
46792926 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
46792991 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
46793056 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
46793121 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
46793186 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
46793251 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
46793316 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
46793381 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
46793446 TTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTT
46793466 GCCAATATGC
Statistics
Matches: 797, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 797 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:46793564 original size:11 final size:12
Alignment explanation
Indices: 46793545--46793579 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
46793535 TTTGATATTG
46793545 TTCTCTTTTTTT
1 TTCTCTTTTTTT
46793557 TT-TCTTTTTTT
1 TTCTCTTTTTTT
*
46793568 TTCCCTTTTTTT
1 TTCTCTTTTTTT
46793580 ACTATTAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
TTCTCTTTTTTT
Found at i:46795514 original size:15 final size:16
Alignment explanation
Indices: 46795494--46795531 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
46795484 GAAAAATTAT
46795494 AAACTAAATAAATA-A
1 AAACTAAATAAATACA
46795509 AAACT-AATAAATACA
1 AAACTAAATAAATACA
*
46795524 TAACTAAA
1 AAACTAAA
46795532 AGGTAACACC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 8 0.40
15 10 0.50
16 2 0.10
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.21
Consensus pattern (16 bp):
AAACTAAATAAATACA
Found at i:46796273 original size:20 final size:20
Alignment explanation
Indices: 46796244--46796284 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
46796234 TGACTATCTT
46796244 AGTAAAAAATTCC-ACAAAA
1 AGTAAAAAATTCCAACAAAA
46796263 AGTACAAAAATTCCAACAAAA
1 AGTA-AAAAATTCCAACAAAA
46796284 A
1 A
46796285 AAAAAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.20
20 9 0.45
21 7 0.35
ACGTcount: A:0.63, C:0.17, G:0.05, T:0.15
Consensus pattern (20 bp):
AGTAAAAAATTCCAACAAAA
Found at i:46798550 original size:21 final size:21
Alignment explanation
Indices: 46798526--46798566 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
46798516 TTATGTGTTA
46798526 ACCTCTTGGAA-TACAGTGCAG
1 ACCT-TTGGAATTACAGTGCAG
46798547 ACCTTTGGAATTTACAGTGC
1 ACCTTTGGAA-TTACAGTGC
46798567 TATAGATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 4 0.22
22 8 0.44
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (21 bp):
ACCTTTGGAATTACAGTGCAG
Found at i:46802691 original size:13 final size:13
Alignment explanation
Indices: 46802673--46802760 Score: 54
Period size: 13 Copynumber: 7.5 Consensus size: 13
46802663 AGTATTAGAA
46802673 TTTATTTATATAT
1 TTTATTTATATAT
46802686 TTTA--T-TA-A-
1 TTTATTTATATAT
46802694 TTTATTTATATAT
1 TTTATTTATATAT
46802707 TTTATTTATA-A-
1 TTTATTTATATAT
* * *
46802718 TATATTAAAATAT
1 TTTATTTATATAT
*
46802731 TATA-TTA-ATA-
1 TTTATTTATATAT
46802741 -TTATTTATATAT
1 TTTATTTATATAT
46802753 TTCTATTT
1 TT-TATTT
46802761 CATTTGCATT
Statistics
Matches: 58, Mismatches: 5, Indels: 23
0.67 0.06 0.27
Matches are distributed among these distances:
8 4 0.07
9 3 0.05
10 6 0.10
11 16 0.28
12 5 0.09
13 19 0.33
14 5 0.09
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTATTTATATAT
Found at i:46802697 original size:21 final size:21
Alignment explanation
Indices: 46802671--46802759 Score: 97
Period size: 21 Copynumber: 4.0 Consensus size: 21
46802661 TTAGTATTAG
46802671 AATTTATTTATATATTTTATT
1 AATTTATTTATATATTTTATT
46802692 AATTTATTTATATATTTTATTTAT
1 AATTTATTTATATATTTTA--T-T
* * * *
46802716 AATATATTAAAATATTATATT
1 AATTTATTTATATATTTTATT
46802737 AATATTATTTATATATTTCTATT
1 AAT-TTATTTATATATTT-TATT
46802760 TCATTTGCAT
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
21 23 0.42
22 11 0.20
23 5 0.09
24 16 0.29
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (21 bp):
AATTTATTTATATATTTTATT
Found at i:46808765 original size:22 final size:22
Alignment explanation
Indices: 46808737--46808778 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
46808727 ACCCCAAACC
46808737 TTCCCTACCATCCATTTTCGGT
1 TTCCCTACCATCCATTTTCGGT
*
46808759 TTCCCTACTATCCATTTTCG
1 TTCCCTACCATCCATTTTCG
46808779 ACCTTTCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.36, G:0.07, T:0.43
Consensus pattern (22 bp):
TTCCCTACCATCCATTTTCGGT
Found at i:46813541 original size:456 final size:455
Alignment explanation
Indices: 46812684--46813581 Score: 1760
Period size: 456 Copynumber: 2.0 Consensus size: 455
46812674 AAGCTGAGTT
46812684 TTGTTTACTATAGGGAGGTAAGGTTTTCTTCTTTTAGCTTCGTTTTTTAACCAAACGTCGAACTC
1 TTGTTTACTATAGGGAGGTAAGGTTTTCTTCTTTTAGCTTCGTTTTTTAACCAAACGTCGAACTC
*
46812749 TGTTGATAGTAACTTTAAACTGGTTTACGCTTGTGAAAAAAATGGTCTCTGTACCTTATAGATTT
66 TGTTGATAGTAACTTTAAACTGGTTTACGCTTGTGAAAAAAATGGTCTCTGTACCTTATAGATCT
46812814 ATGTTTTCTTGATTGCCACTGATTGTTTTAGAGTCTAGAGTTGCAATGATTTTGTCTCATTAATT
131 ATGTTTTCTTGATTGCCACTGATTGTTTTAGAGTCTAGAGTTGCAATGATTTTGTCTCATTAATT
46812879 TTTTTTCCAAATTTCTTGATTTTCCTTTAAAATCTGGTTGTTCTCTATAATAAATTGTGCAAGTG
196 TTTTTTCCAAATTTCTTGATTTTCCTTTAAAATCTGGTTGTTCTCTATAATAAATTGTGCAAGTG
46812944 ACGATAAAGATAGACAGGGACATCAGTACCCATTGGAGGATGATGAGTTGTCTAAAATGGGAATC
261 ACGATAAAGATAGACAGGGACATCAGTACCCATTGGAGGATGATGAGTTGTCTAAAATGGGAATC
46813009 TCTCTGATGCACAAAACTAATTGGTTTTATTTCATGCATGAGTTTCTTTTTCATGATTTGATAAA
326 TCTCTGATGCACAAAACTAATTGGTTTTATTTCATGCATGAGTTTCTTTTTCATGATTTGATAAA
*
46813074 ATTTGTACAAAATTTTAGATGAAAGGTTTCTAAGGAGTATTTTGGTGTATGCACAAAACTAATCC
391 ATTTATACAAAATTTTAGATGAAAGGTTTCTAAGGAGTATTTTGGTGTATGCACAAAACTAATCC
46813139 TTGTTTACTATAGGGAGGTAAGGTTTTCTTCTTTTAGCTTCGTTTTTTAACCAAACGTCGAACTC
1 TTGTTTACTATAGGGAGGTAAGGTTTTCTTCTTTTAGCTTCGTTTTTTAACCAAACGTCGAACTC
46813204 TGTTGATAGTAACTTTAAACTGGTTTACGCTTGTGAAAAAAATGGTCTCTGTACCTTATAGATCT
66 TGTTGATAGTAACTTTAAACTGGTTTACGCTTGTGAAAAAAATGGTCTCTGTACCTTATAGATCT
46813269 ATGTTTTCTTGATTGCCACTGATTGTTTTAGAGTCTAGAGTTGCAATGATTTTGTCTCATTAATT
131 ATGTTTTCTTGATTGCCACTGATTGTTTTAGAGTCTAGAGTTGCAATGATTTTGTCTCATTAA-T
*
46813334 TTTTTTTCCAAATTTCTTGTTTTTCCTTTAAAATCTGGTTGTTCTCTATAATAAATTGTGCAAGT
195 TTTTTTTCCAAATTTCTTGATTTTCCTTTAAAATCTGGTTGTTCTCTATAATAAATTGTGCAAGT
46813399 GACGATAAAGATAGACAGGGACATCAGTACCCATTGGAGGATGATGAGTTGTCTAAAATGGGAAT
260 GACGATAAAGATAGACAGGGACATCAGTACCCATTGGAGGATGATGAGTTGTCTAAAATGGGAAT
46813464 CTCTCTGATGCACAAAACTAATTGGTTTTATTTCATGCATGAGTTTCTTTTTCATGATTTGATAA
325 CTCTCTGATGCACAAAACTAATTGGTTTTATTTCATGCATGAGTTTCTTTTTCATGATTTGATAA
46813529 AATTTATACAAAATTTTAGATGAAAGGTTTCTAAGGAGTATTTTGGTGTATGC
390 AATTTATACAAAATTTTAGATGAAAGGTTTCTAAGGAGTATTTTGGTGTATGC
46813582 TTAATCCATT
Statistics
Matches: 439, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
455 192 0.44
456 247 0.56
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (455 bp):
TTGTTTACTATAGGGAGGTAAGGTTTTCTTCTTTTAGCTTCGTTTTTTAACCAAACGTCGAACTC
TGTTGATAGTAACTTTAAACTGGTTTACGCTTGTGAAAAAAATGGTCTCTGTACCTTATAGATCT
ATGTTTTCTTGATTGCCACTGATTGTTTTAGAGTCTAGAGTTGCAATGATTTTGTCTCATTAATT
TTTTTTCCAAATTTCTTGATTTTCCTTTAAAATCTGGTTGTTCTCTATAATAAATTGTGCAAGTG
ACGATAAAGATAGACAGGGACATCAGTACCCATTGGAGGATGATGAGTTGTCTAAAATGGGAATC
TCTCTGATGCACAAAACTAATTGGTTTTATTTCATGCATGAGTTTCTTTTTCATGATTTGATAAA
ATTTATACAAAATTTTAGATGAAAGGTTTCTAAGGAGTATTTTGGTGTATGCACAAAACTAATCC
Found at i:46816651 original size:25 final size:26
Alignment explanation
Indices: 46816623--46816674 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
46816613 TACGACTGGT
* *
46816623 TTATGAATTGATGTTTA-TTGAATAC
1 TTATGAATTGATATTCATTTGAATAC
*
46816648 TTATTAATTGATATTCATTTGAATAC
1 TTATGAATTGATATTCATTTGAATAC
46816674 T
1 T
46816675 AATTCCAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.50
Consensus pattern (26 bp):
TTATGAATTGATATTCATTTGAATAC
Found at i:46816737 original size:14 final size:15
Alignment explanation
Indices: 46816698--46816739 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
46816688 TACTCCGATA
*
46816698 ATTATTATTAAATAT
1 ATTATAATTAAATAT
46816713 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
46816727 A-TATAATTTAATA
1 ATTATAATTAAATA
46816740 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:46816813 original size:16 final size:17
Alignment explanation
Indices: 46816792--46816829 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
46816782 AAGATAATTT
*
46816792 AATATAATTATTATT-A
1 AATATAATTATAATTAA
46816808 AATAT-ATTATAATTAA
1 AATATAATTATAATTAA
46816824 AATATA
1 AATATA
46816830 TAATTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATATAATTATAATTAA
Found at i:46816823 original size:100 final size:100
Alignment explanation
Indices: 46816695--46816881 Score: 329
Period size: 100 Copynumber: 1.9 Consensus size: 100
46816685 AATTACTCCG
* *
46816695 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATCAATAT
* * *
46816760 TCTTATATGAATTTACTCAAATAAGATAATTTAAT
66 GCATATATGAATTTACTAAAATAAGATAATTTAAT
46816795 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATCAATAT
1 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATCAATAT
46816860 GCATATATGAATTTACTAAAAT
66 GCATATATGAATTTACTAAAAT
46816882 TATAATATAT
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (100 bp):
ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATCAATAT
GCATATATGAATTTACTAAAATAAGATAATTTAAT
Found at i:46816837 original size:14 final size:15
Alignment explanation
Indices: 46816785--46816839 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
46816775 CTCAAATAAG
*
46816785 ATAATTTAATATAATT
1 ATAATTAAATAT-ATT
*
46816801 ATTATTAAATATATT
1 ATAATTAAATATATT
46816816 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
46816829 ATAATTTAATA
1 ATAATTAAATA
46816840 AAATTATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
13 9 0.26
14 4 0.12
15 11 0.32
16 10 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:46818182 original size:137 final size:138
Alignment explanation
Indices: 46817933--46818203 Score: 447
Period size: 137 Copynumber: 2.0 Consensus size: 138
46817923 AACTTAAAAT
* * *
46817933 TGAAATCAATTATGGAATGCGTTACATTCAAAATAACAATAAACAAAATATGGATATAACACTAG
1 TGAAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAACACTAA
* * *
46817998 CTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTCACCTGAAAGTG-AGATATGAAAGAT
66 CTACAAAAGTAATTTAACAATATCATGTAGTAACAAGTTCACATGAAAGTGCA-ATATGAAAGAC
46818062 ATGCCCAAA
130 ATGCCCAAA
* *
46818071 TGAAATCATTTATGGCATGAGTTACATTCAAAATAACAAT-AACAAAAGATGGATATAACACTAA
1 TGAAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAACACTAA
46818135 CTACAAAAGTAATTTAACAATATCATGTAGTAACAAGTTCACATGAAAGTGCAATATGAAAGACA
66 CTACAAAAGTAATTTAACAATATCATGTAGTAACAAGTTCACATGAAAGTGCAATATGAAAGACA
46818200 TGCC
131 TGCC
46818204 ATTTTCTGAA
Statistics
Matches: 124, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
137 86 0.69
138 38 0.31
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.25
Consensus pattern (138 bp):
TGAAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAACACTAA
CTACAAAAGTAATTTAACAATATCATGTAGTAACAAGTTCACATGAAAGTGCAATATGAAAGACA
TGCCCAAA
Found at i:46825600 original size:12 final size:12
Alignment explanation
Indices: 46825591--46825616 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46825581 TTTCAAAATA
46825591 GAAATTAAAAGT
1 GAAATTAAAAGT
46825603 GAAATTAAAAGT
1 GAAATTAAAAGT
46825615 GA
1 GA
46825617 GATTTTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.19, T:0.23
Consensus pattern (12 bp):
GAAATTAAAAGT
Found at i:46833636 original size:25 final size:25
Alignment explanation
Indices: 46833606--46833655 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
46833596 ACTATGTTAA
46833606 CAAACGATTGTGTGCAAATCTCTTC
1 CAAACGATTGTGTGCAAATCTCTTC
46833631 CAAACGATTGTGTGCAAATCTCTTC
1 CAAACGATTGTGTGCAAATCTCTTC
46833656 TTACCTTATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (25 bp):
CAAACGATTGTGTGCAAATCTCTTC
Found at i:46848584 original size:41 final size:41
Alignment explanation
Indices: 46848534--46848632 Score: 155
Period size: 41 Copynumber: 2.4 Consensus size: 41
46848524 ATTGATCTCG
*
46848534 GTTTCGCACACTTAGTGCCCGTTATTTAACATCATTATTTA
1 GTTTCGCACACTTAGTGCCCGTTATTTAACATCATCATTTA
* *
46848575 GTTTTGCACACTTAGTGCTCGTTATTTAACATCATCATTTA
1 GTTTCGCACACTTAGTGCCCGTTATTTAACATCATCATTTA
*
46848616 -ATTCGCACACTTAGTGC
1 GTTTCGCACACTTAGTGC
46848633 TAATCATATA
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 15 0.28
41 38 0.72
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.40
Consensus pattern (41 bp):
GTTTCGCACACTTAGTGCCCGTTATTTAACATCATCATTTA
Found at i:46872798 original size:21 final size:22
Alignment explanation
Indices: 46872754--46872795 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
46872744 TTTGATGAAA
* *
46872754 TTTTTTTTTACCTTTTATTAAG
1 TTTTTTTTGAACTTTTATTAAG
46872776 TTTTTTTTGAACTTTTATTA
1 TTTTTTTTGAACTTTTATTA
46872796 GTTAATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.07, G:0.05, T:0.69
Consensus pattern (22 bp):
TTTTTTTTGAACTTTTATTAAG
Found at i:46873144 original size:25 final size:23
Alignment explanation
Indices: 46873100--46873154 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 23
46873090 GTTTATATTT
46873100 TATAA-TTTTTATTTTTAAAAAA
1 TATAATTTTTTATTTTTAAAAAA
*
46873122 TATGATTTTTTATATTTTAAAAAA
1 TATAATTTTTTAT-TTTTAAAAAA
46873146 TTATAATTT
1 -TATAATTT
46873155 GAAAATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 4 0.14
23 7 0.25
24 10 0.36
25 7 0.25
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TATAATTTTTTATTTTTAAAAAA
Found at i:46876402 original size:14 final size:15
Alignment explanation
Indices: 46876380--46876456 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
46876370 CAATCAAACA
46876380 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
46876394 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
46876409 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
46876429 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
46876443 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
46876457 ACTAGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:46876421 original size:20 final size:20
Alignment explanation
Indices: 46876396--46876435 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
46876386 AATATTTTCC
*
46876396 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
46876416 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
46876436 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:46876441 original size:34 final size:35
Alignment explanation
Indices: 46876384--46876450 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
46876374 CAAACACCAG
*
46876384 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
46876419 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
46876451 TATTTTACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:46877382 original size:20 final size:18
Alignment explanation
Indices: 46877348--46877384 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
46877338 ATTGAATTAT
46877348 TCACAAGATTTATTTAAG
1 TCACAAGATTTATTTAAG
46877366 TCACTAAGATGTTATTTAA
1 TCAC-AAGAT-TTATTTAA
46877385 AAAAAATTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (18 bp):
TCACAAGATTTATTTAAG
Found at i:46881634 original size:2 final size:2
Alignment explanation
Indices: 46881627--46881676 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
46881617 GTAGGGACGT
46881627 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
46881669 GA GA GA GA
1 GA GA GA GA
46881677 TGGGACACTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:46888384 original size:43 final size:43
Alignment explanation
Indices: 46888323--46888407 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
46888313 ATATCCAAGC
*
46888323 CAAGGGTGGCAACAATAGTTTAATTATATCGAGTGACCATAGT
1 CAAGGATGGCAACAATAGTTTAATTATATCGAGTGACCATAGT
* * *
46888366 CAAGGATGGCGACAATAGTTTAATTATATTGCGTGACCATAG
1 CAAGGATGGCAACAATAGTTTAATTATATCGAGTGACCATAG
46888408 GATAGACAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (43 bp):
CAAGGATGGCAACAATAGTTTAATTATATCGAGTGACCATAGT
Found at i:46889388 original size:48 final size:48
Alignment explanation
Indices: 46889317--46889411 Score: 181
Period size: 48 Copynumber: 2.0 Consensus size: 48
46889307 CTTGCGTTTC
46889317 GCGAAAGCTCGATGCCGGTGCGGGTAATGGAGAAGATGGTGAAAGAGG
1 GCGAAAGCTCGATGCCGGTGCGGGTAATGGAGAAGATGGTGAAAGAGG
*
46889365 GCGAAAGCTCGATGCCGGTGCGGGTAATGGAGAAGATGGTTAAAGAG
1 GCGAAAGCTCGATGCCGGTGCGGGTAATGGAGAAGATGGTGAAAGAG
46889412 TGTATGGGGT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.29, C:0.13, G:0.42, T:0.16
Consensus pattern (48 bp):
GCGAAAGCTCGATGCCGGTGCGGGTAATGGAGAAGATGGTGAAAGAGG
Found at i:46892931 original size:48 final size:48
Alignment explanation
Indices: 46892875--46892968 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
46892865 AGGGAATTCT
* * *
46892875 GTTGAATCCTTTATTGTTGCG-AATT-GAGCTAACTTAGGCGTTTTTACG
1 GTTGAATCCATTATTGGTG-GAAATTAG-GCTAACTTAGGCATTTTTACG
*
46892923 GTTGAATCCATTATTGGTGGAAATTAGGCTGACTTAGGCATTTTTA
1 GTTGAATCCATTATTGGTGGAAATTAGGCTAACTTAGGCATTTTTA
46892969 AGCCAAGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
47 1 0.03
48 38 0.95
49 1 0.03
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.40
Consensus pattern (48 bp):
GTTGAATCCATTATTGGTGGAAATTAGGCTAACTTAGGCATTTTTACG
Found at i:46905281 original size:22 final size:22
Alignment explanation
Indices: 46905223--46905281 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
46905213 TATTTATATC
*
46905223 ATAATTTCCAAAATTTAAATTT
1 ATAATTTCCATAATTTAAATTT
** * *
46905245 ATAA-ACCCCTGAATTTTAATTT
1 ATAATTTCCAT-AATTTAAATTT
46905267 ATAATTTCCATAATT
1 ATAATTTCCATAATT
46905282 AAGCCACCAA
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
21 2 0.07
22 22 0.81
23 3 0.11
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.44
Consensus pattern (22 bp):
ATAATTTCCATAATTTAAATTT
Found at i:46905627 original size:22 final size:22
Alignment explanation
Indices: 46905576--46905620 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
46905566 TTTTTAAAAC
46905576 TTAGAATTAGTTGAATGCTAAA
1 TTAGAATTAGTTGAATGCTAAA
46905598 TTAGAATTAGTTGAATGCTAAA
1 TTAGAATTAGTTGAATGCTAAA
46905620 T
1 T
46905621 CTAAATTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (22 bp):
TTAGAATTAGTTGAATGCTAAA
Found at i:46911313 original size:12 final size:12
Alignment explanation
Indices: 46911296--46911320 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46911286 TTCAATCACC
46911296 TTTCAATATTTT
1 TTTCAATATTTT
46911308 TTTCAATATTTT
1 TTTCAATATTTT
46911320 T
1 T
46911321 CTTTGTACTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTCAATATTTT
Found at i:46911978 original size:16 final size:17
Alignment explanation
Indices: 46911952--46911987 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
46911942 GTATATATAC
*
46911952 ATACTTCTATACTTTAT
1 ATACTTCTATAATTTAT
46911969 ATACTT-TATAATTTAT
1 ATACTTCTATAATTTAT
46911985 ATA
1 ATA
46911988 TACGTTATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (17 bp):
ATACTTCTATAATTTAT
Found at i:46912005 original size:23 final size:23
Alignment explanation
Indices: 46911979--46912051 Score: 57
Period size: 23 Copynumber: 3.3 Consensus size: 23
46911969 ATACTTTATA
46911979 ATTTATATATACGTTATACATAT
1 ATTTATATATACGTTATACATAT
*
46912002 ATTTTTATAATA--TATATACATAT
1 ATTTATAT-ATACGT-TATACATAT
* *
46912025 A--TACATATACG-TGTACATAT
1 ATTTATATATACGTTATACATAT
*
46912045 TTTTATA
1 ATTTATA
46912052 ACTTATTTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 13
0.67 0.11 0.23
Matches are distributed among these distances:
20 11 0.29
21 3 0.08
22 4 0.11
23 17 0.45
24 3 0.08
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (23 bp):
ATTTATATATACGTTATACATAT
Found at i:46912076 original size:43 final size:43
Alignment explanation
Indices: 46911982--46912127 Score: 107
Period size: 47 Copynumber: 3.2 Consensus size: 43
46911972 CTTTATAATT
46911982 TATATATACGTTATACATATATTTTTATAATATATATACATATA
1 TATATATACGTTATACA-ATATTTTTATAATATATATACATATA
* * *
46912026 TACATATACG-TGTAC-ATATTTTTATAACTTATTTATATATATGTATA
1 TATATATACGTTATACAATATTTTTATAA--TA--TATATACA--TATA
* * * * *
46912073 TATACATACTTATATATTCTATATATTTTATAATTTATATACATATC
1 TATATATACGT-TATA--CAATAT-TTTTATAATATATATACATATA
46912120 TATATATA
1 TATATATA
46912128 TACATCTATA
Statistics
Matches: 79, Mismatches: 11, Indels: 21
0.71 0.10 0.19
Matches are distributed among these distances:
41 12 0.15
43 6 0.08
44 9 0.11
45 7 0.09
47 21 0.27
49 10 0.13
51 2 0.03
52 4 0.05
53 8 0.10
ACGTcount: A:0.40, C:0.08, G:0.03, T:0.49
Consensus pattern (43 bp):
TATATATACGTTATACAATATTTTTATAATATATATACATATA
Found at i:46912129 original size:53 final size:50
Alignment explanation
Indices: 46912041--46912139 Score: 126
Period size: 53 Copynumber: 1.9 Consensus size: 50
46912031 ATACGTGTAC
* * *
46912041 ATATTTTTATAACTTATTTATATATATGTATATATACATACTTATATATTCT
1 ATATTTTTATAACTTATATACATATATATATATATACAT-C-TATATATTCT
* *
46912093 ATATATTTTATAATTTATATACATATCTATATATATACATCTATATA
1 ATAT-TTTTATAACTTATATACATATATATATATATACATCTATATA
46912140 CATTTTTTCT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
51 6 0.15
52 5 0.12
53 30 0.73
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.52
Consensus pattern (50 bp):
ATATTTTTATAACTTATATACATATATATATATATACATCTATATATTCT
Found at i:46912536 original size:20 final size:21
Alignment explanation
Indices: 46912501--46912545 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
46912491 TTCCTCATAT
46912501 TATTTTTATTCATATTAT-CA
1 TATTTTTATTCATATTATGCA
46912521 TATTTATTATTC-TATTATGCA
1 TATTT-TTATTCATATTATGCA
46912542 TATT
1 TATT
46912546 AACACCATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.60
Consensus pattern (21 bp):
TATTTTTATTCATATTATGCA
Found at i:46912770 original size:108 final size:108
Alignment explanation
Indices: 46912577--46912966 Score: 631
Period size: 108 Copynumber: 3.6 Consensus size: 108
46912567 AAAATTTTTC
* * * *
46912577 TAAA-TAAGGCAATGTTTTGCGTTTGGAAGTTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA
1 TAAAGTAAGGAAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAATGTGCTGGGTTTCGA
46912641 TTTTTTTTGTTCGAACAAATAGCCAAATATCCTTTTAAAATTT
66 TTTTTTTTGTTCGAACAAATAGCCAAATATCCTTTTAAAATTT
46912684 TAAAGTAAGGAAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAATGTGCTGGGTTTCGA
1 TAAAGTAAGGAAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAATGTGCTGGGTTTCGA
46912749 TTTTTTTTGTTCGAACAAATAGCCAAATATCCTTTTAAAATTT
66 TTTTTTTTGTTCGAACAAATAGCCAAATATCCTTTTAAAATTT
46912792 TAAAGTAAGGAAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAATGTGCTGGGTTTCGA
1 TAAAGTAAGGAAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAATGTGCTGGGTTTCGA
** * * * *
46912857 -TTTTTCCGTCCGACCATATAGCCAAATATCATTTTAAAATTT
66 TTTTTTTTGTTCGAACAAATAGCCAAATATCCTTTTAAAATTT
* * * * *
46912899 CAAAGTAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATATGCTGGGTTTCGA
1 TAAAGTAAGGAAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAATGTGCTGGGTTTCGA
46912964 TTT
66 TTT
46912967 CTCGTTTAGC
Statistics
Matches: 266, Mismatches: 15, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
107 100 0.38
108 166 0.62
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (108 bp):
TAAAGTAAGGAAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAATGTGCTGGGTTTCGA
TTTTTTTTGTTCGAACAAATAGCCAAATATCCTTTTAAAATTT
Found at i:46912936 original size:107 final size:108
Alignment explanation
Indices: 46912573--46913011 Score: 625
Period size: 108 Copynumber: 4.1 Consensus size: 108
46912563 AAAGAAAATT
* * * *
46912573 TTTCTAAA-TAAGGCAATGTTTTGCGTTTGGAAGTTCGAGAAAACGTGCCCTAATGTGCTGGGTT
1 TTTC-AAAGTAAGGAAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAATGTGCTGGGTT
46912637 TCGATTTTTTTTGTTCGAACAAATAGCCAAATATCCTTTTAAAA
65 TCGATTTTTTTTGTTCGAACAAATAGCCAAATATCCTTTTAAAA
*
46912681 TTTTAAAGTAAGGAAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAATGTGCTGGGTTT
1 TTTCAAAGTAAGGAAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAATGTGCTGGGTTT
46912746 CGATTTTTTTTGTTCGAACAAATAGCCAAATATCCTTTTAAAA
66 CGATTTTTTTTGTTCGAACAAATAGCCAAATATCCTTTTAAAA
*
46912789 TTTTAAAGTAAGGAAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAATGTGCTGGGTTT
1 TTTCAAAGTAAGGAAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAATGTGCTGGGTTT
** * * * *
46912854 CGA-TTTTTCCGTCCGACCATATAGCCAAATATCATTTTAAAA
66 CGATTTTTTTTGTTCGAACAAATAGCCAAATATCCTTTTAAAA
* * * *
46912896 TTTCAAAGTAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATATGCTGGGTTT
1 TTTCAAAGTAAGGAAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAATGTGCTGGGTTT
* ** * * * * *
46912961 CGATTTCTCGT-TTAG-CCAAATAGCCAAATACCCTCTTAAAG
66 CGATTTTTTTTGTTCGAACAAATAGCCAAATATCCTTTTAAAA
46913002 TTTCAAAGTA
1 TTTCAAAGTA
46913012 TGGGTTTTGG
Statistics
Matches: 302, Mismatches: 27, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
106 31 0.10
107 101 0.33
108 170 0.56
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.35
Consensus pattern (108 bp):
TTTCAAAGTAAGGAAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAATGTGCTGGGTTT
CGATTTTTTTTGTTCGAACAAATAGCCAAATATCCTTTTAAAA
Found at i:46912959 original size:215 final size:215
Alignment explanation
Indices: 46912577--46912966 Score: 629
Period size: 215 Copynumber: 1.8 Consensus size: 215
46912567 AAAATTTTTC
* * * *
46912577 TAAATAAGGCAATGTTTTGCGTTTGGAAGTTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGAT
1 TAAATAAGGAAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAATGTGCTGGGTTTCGAT
** * * *
46912642 TTTTTTTGTTCGAACAAATAGCCAAATATCCTTTTAAAATTTTAAAGTAAGGAAATGTTTTGCAT
66 TTTTTCCGTCCGAACAAATAGCCAAATATCATTTTAAAATTTCAAAGTAAGGAAATGTTTTGCAT
*
46912707 TTGGAAATTCGAGAAAACATGCCCTAATGTGCTGGGTTTCGATTTTTTTTGTTCGAACAAATAGC
131 TTGGAAATTCGAGAAAACATGCCCTAATATGCTGGGTTTCGATTTTTTTTGTTCGAACAAATAGC
46912772 CAAATATCCTTTTAAAATTT
196 CAAATATCCTTTTAAAATTT
46912792 TAAAGTAAGGAAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAATGTGCTGGGTTTCGA
1 TAAA-TAAGGAAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAATGTGCTGGGTTTCGA
* * * *
46912857 -TTTTTCCGTCCGACCATATAGCCAAATATCATTTTAAAATTTCAAAGTAAGGCAATGTTTTGCG
65 TTTTTTCCGTCCGAACAAATAGCCAAATATCATTTTAAAATTTCAAAGTAAGGAAATGTTTTGCA
*
46912921 TTTGGAAATTCGAGAAAACGTGCCCTAATATGCTGGGTTTCGATTT
130 TTTGGAAATTCGAGAAAACATGCCCTAATATGCTGGGTTTCGATTT
46912967 CTCGTTTAGC
Statistics
Matches: 159, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
215 103 0.65
216 56 0.35
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (215 bp):
TAAATAAGGAAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAATGTGCTGGGTTTCGAT
TTTTTCCGTCCGAACAAATAGCCAAATATCATTTTAAAATTTCAAAGTAAGGAAATGTTTTGCAT
TTGGAAATTCGAGAAAACATGCCCTAATATGCTGGGTTTCGATTTTTTTTGTTCGAACAAATAGC
CAAATATCCTTTTAAAATTT
Found at i:46916544 original size:66 final size:66
Alignment explanation
Indices: 46916462--46916752 Score: 289
Period size: 66 Copynumber: 4.4 Consensus size: 66
46916452 CTATGATTGC
* ** * * * *
46916462 TGGGGAGAGTGATGTTGGTGGAGTAGAAACTGATGGGGTGGGTTATGTTGAAGGGGTACAAGTTG
1 TGGGGAGGGTGATGTTGAAGGAGTAGAAACTGATGGGGAGGGTGATGTAGAAGGGGTACAAGCTG
46916527 A
66 A
** ** *
46916528 TGGGGAGGGTGATGTTGAAGGAAAATGAAA-TGATGATGAGGGTGATGTAGAAGGGGTACAAGTT
1 TGGGGAGGGTGATGTTGAAGGAGTA-GAAACTGATGGGGAGGGTGATGTAGAAGGGGTACAAGCT
46916592 GA
65 GA
* * ** * **
46916594 TAGGAAGGGTGATGTTGAAGGAGTAGAAGGTGATGTGGAAAGTGATGTAGAAGGGGTACAAGCTG
1 TGGGGAGGGTGATGTTGAAGGAGTAGAAACTGATGGGGAGGGTGATGTAGAAGGGGTACAAGCTG
46916659 A
66 A
* * * * * * * * * *
46916660 TGAGGTGGGTAATGTAGATGGGGTACAAGCTGTTGGGGAGGGTGATGTAGAAGGGGTACAAACTG
1 TGGGGAGGGTGATGTTGAAGGAGTAGAAACTGATGGGGAGGGTGATGTAGAAGGGGTACAAGCTG
*
46916725 T
66 A
46916726 TGGGGAGGGTGATGTTGAAGG-GTAGAA
1 TGGGGAGGGTGATGTTGAAGGAGTAGAA
46916753 GGTGACGAGG
Statistics
Matches: 181, Mismatches: 42, Indels: 5
0.79 0.18 0.02
Matches are distributed among these distances:
65 8 0.04
66 169 0.93
67 4 0.02
ACGTcount: A:0.29, C:0.03, G:0.44, T:0.24
Consensus pattern (66 bp):
TGGGGAGGGTGATGTTGAAGGAGTAGAAACTGATGGGGAGGGTGATGTAGAAGGGGTACAAGCTG
A
Found at i:46916626 original size:21 final size:24
Alignment explanation
Indices: 46916601--46916647 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 24
46916591 TGATAGGAAG
*
46916601 GGTGATGTTG-AAG-GA-GTAGAA
1 GGTGATGTGGAAAGTGATGTAGAA
46916622 GGTGATGTGGAAAGTGATGTAGAA
1 GGTGATGTGGAAAGTGATGTAGAA
46916646 GG
1 GG
46916648 GGTACAAGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 9 0.41
22 3 0.14
23 2 0.09
24 8 0.36
ACGTcount: A:0.32, C:0.00, G:0.45, T:0.23
Consensus pattern (24 bp):
GGTGATGTGGAAAGTGATGTAGAA
Found at i:46916747 original size:33 final size:33
Alignment explanation
Indices: 46916462--46916747 Score: 232
Period size: 33 Copynumber: 8.7 Consensus size: 33
46916452 CTATGATTGC
* ** * * *
46916462 TGGGGAGAGTGATGTTGGTGGAGTAGAAACTGA
1 TGGGGAGGGTGATGTTGAAGGGGTACAAGCTGA
* * *
46916495 TGGGGTGGGTTATGTTGAAGGGGTACAAGTTGA
1 TGGGGAGGGTGATGTTGAAGGGGTACAAGCTGA
*** * *
46916528 TGGGGAGGGTGATGTTGAAGGAAAATGAA-ATGA
1 TGGGGAGGGTGATGTTGAAGGGGTA-CAAGCTGA
** * *
46916561 TGATGAGGGTGATGTAGAAGGGGTACAAGTTGA
1 TGGGGAGGGTGATGTTGAAGGGGTACAAGCTGA
* * * * *
46916594 TAGGAAGGGTGATGTTGAAGGAGTAGAAGGTGA
1 TGGGGAGGGTGATGTTGAAGGGGTACAAGCTGA
* ** *
46916627 TGTGGAAAGTGATGTAGAAGGGGTACAAGCTGA
1 TGGGGAGGGTGATGTTGAAGGGGTACAAGCTGA
* * * * * *
46916660 TGAGGTGGGTAATGTAGATGGGGTACAAGCTGT
1 TGGGGAGGGTGATGTTGAAGGGGTACAAGCTGA
* * *
46916693 TGGGGAGGGTGATGTAGAAGGGGTACAAACTGT
1 TGGGGAGGGTGATGTTGAAGGGGTACAAGCTGA
46916726 TGGGGAGGGTGATGTTGAAGGG
1 TGGGGAGGGTGATGTTGAAGGG
46916748 TAGAAGGTGA
Statistics
Matches: 197, Mismatches: 54, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
32 2 0.01
33 193 0.98
34 2 0.01
ACGTcount: A:0.28, C:0.03, G:0.45, T:0.24
Consensus pattern (33 bp):
TGGGGAGGGTGATGTTGAAGGGGTACAAGCTGA
Found at i:46916747 original size:99 final size:99
Alignment explanation
Indices: 46916491--46916747 Score: 264
Period size: 99 Copynumber: 2.6 Consensus size: 99
46916481 GGAGTAGAAA
* * * * *
46916491 CTGATGGGGTGGGTTATGTTGAAGGGGTACAAGTTGATGGGGAGGGTGATGTTGAAGGAAAATGA
1 CTGATGGGGAGGGTGATGTTGAAGGGGTACAAGCTGATGGGGAGGGTGATGTTGAAGGGAAATCA
* *
46916556 AATGATGATGAGGGTGATGTAGAAGGGGTACAAG
66 AATGATGAGGAGGGTAATGTAGAAGGGGTACAAG
* * * * * * * ** * **
46916590 TTGATAGGAAGGGTGATGTTGAAGGAGTAGAAGGTGATGTGGAAAGTGATGTAGAAGGGGTA-CA
1 CTGATGGGGAGGGTGATGTTGAAGGGGTACAAGCTGATGGGGAGGGTGATGTTGAAGGGAAATCA
* * *
46916654 AGCTGATGAGGTGGGTAATGTAGATGGGGTACAAG
66 A-ATGATGAGGAGGGTAATGTAGAAGGGGTACAAG
* * * *
46916689 CTGTTGGGGAGGGTGATGTAGAAGGGGTACAAACTGTTGGGGAGGGTGATGTTGAAGGG
1 CTGATGGGGAGGGTGATGTTGAAGGGGTACAAGCTGATGGGGAGGGTGATGTTGAAGGG
46916748 TAGAAGGTGA
Statistics
Matches: 122, Mismatches: 35, Indels: 2
0.77 0.22 0.01
Matches are distributed among these distances:
98 2 0.02
99 120 0.98
ACGTcount: A:0.28, C:0.04, G:0.44, T:0.24
Consensus pattern (99 bp):
CTGATGGGGAGGGTGATGTTGAAGGGGTACAAGCTGATGGGGAGGGTGATGTTGAAGGGAAATCA
AATGATGAGGAGGGTAATGTAGAAGGGGTACAAG
Found at i:46921712 original size:22 final size:22
Alignment explanation
Indices: 46921682--46921724 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
46921672 ACAGCAGAAC
* *
46921682 AGGTTTTTAGCGGCGTTTTTTT
1 AGGTCTTTAGCGGCGCTTTTTT
46921704 AGGTCTTTAGCGGCGCTTTTT
1 AGGTCTTTAGCGGCGCTTTTT
46921725 AACACCACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.14, G:0.28, T:0.49
Consensus pattern (22 bp):
AGGTCTTTAGCGGCGCTTTTTT
Found at i:46921873 original size:42 final size:42
Alignment explanation
Indices: 46921822--46922108 Score: 300
Period size: 42 Copynumber: 6.8 Consensus size: 42
46921812 ATAAAAAAAG
*
46921822 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAA-AATGC
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAATAA-AC
* * *
46921864 GCCGCTAAAGATTATGTTCTTTAGTGGCGCTTACAAATAAAC
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAATAAAC
* **
46921906 GCCGCTAAAGAACATAATCTTTAGCGGCGCTTAGAAATAAAC
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAATAAAC
* *
46921948 GCCGCTAAATATCATGTTCTTTAGCGGCGCTTAGGAAAAAAAC
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA-GAAATAAAC
* * *
46921991 GCCGCTAAAGTTCATGTTCTTTAGCGGCGCTTTTGAGGA-AAAC
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGC-TTAGA-AATAAAC
* * * *
46922034 GCCTCTAAA-AGTAATGTTCTATAGCGGCGCTT-GTTCAA-AAAC
1 GCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTAG--AAATAAAC
46922076 GCCGCTAAA-AGT-AGTGTTCTTTAGCGGCGCTTA
1 GCCGCTAAAGA-TCA-TGTTCTTTAGCGGCGCTTA
46922109 TTTTACAAAT
Statistics
Matches: 209, Mismatches: 27, Indels: 17
0.83 0.11 0.07
Matches are distributed among these distances:
41 2 0.01
42 135 0.65
43 69 0.33
44 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (42 bp):
GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAATAAAC
Found at i:46922128 original size:18 final size:18
Alignment explanation
Indices: 46922105--46922142 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
46922095 TTTAGCGGCG
*
46922105 CTTATTTTACAAATGCCA
1 CTTATTTCACAAATGCCA
46922123 CTTATTTCACAAATGCCA
1 CTTATTTCACAAATGCCA
46922141 CT
1 CT
46922143 GTTTTGATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.37
Consensus pattern (18 bp):
CTTATTTCACAAATGCCA
Found at i:46922582 original size:21 final size:21
Alignment explanation
Indices: 46922558--46922647 Score: 110
Period size: 21 Copynumber: 4.3 Consensus size: 21
46922548 GCTTCTATTG
46922558 CTGCTTCTCTCGCTGCAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
*
46922579 CTGCTTCTCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
46922600 CTGCTTCTCTCACTGTAGCCGT
1 CTGCTTCTCTCGCTGCAGCC-T
* * *
46922622 -TGCTTCCCTCGCTGCCGCAT
1 CTGCTTCTCTCGCTGCAGCCT
46922642 CTGCTT
1 CTGCTT
46922648 TAAGTTGCTG
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
20 1 0.02
21 56 0.97
22 1 0.02
ACGTcount: A:0.04, C:0.42, G:0.19, T:0.34
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:46922626 original size:42 final size:42
Alignment explanation
Indices: 46922558--46922647 Score: 128
Period size: 42 Copynumber: 2.1 Consensus size: 42
46922548 GCTTCTATTG
* * *
46922558 CTGCTTCTCTCGCTGCAGCCTCTGCTTCTCTCGCTGCCGCCT
1 CTGCTTCTCTCACTGCAGCCTCTGCTTCCCTCGCTGCCGCAT
*
46922600 CTGCTTCTCTCACTGTAGCCGT-TGCTTCCCTCGCTGCCGCAT
1 CTGCTTCTCTCACTGCAGCC-TCTGCTTCCCTCGCTGCCGCAT
46922642 CTGCTT
1 CTGCTT
46922648 TAAGTTGCTG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 42 0.98
43 1 0.02
ACGTcount: A:0.04, C:0.42, G:0.19, T:0.34
Consensus pattern (42 bp):
CTGCTTCTCTCACTGCAGCCTCTGCTTCCCTCGCTGCCGCAT
Found at i:46924995 original size:23 final size:23
Alignment explanation
Indices: 46924969--46925015 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
46924959 GGGAGAGCCA
46924969 TTTAACTTCGTCGTTTACGCTCT
1 TTTAACTTCGTCGTTTACGCTCT
*
46924992 TTTAACTTCGTCGTTTATGCTCT
1 TTTAACTTCGTCGTTTACGCTCT
46925015 T
1 T
46925016 CCCATTCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.13, C:0.23, G:0.13, T:0.51
Consensus pattern (23 bp):
TTTAACTTCGTCGTTTACGCTCT
Found at i:46952412 original size:189 final size:189
Alignment explanation
Indices: 46952099--46952491 Score: 596
Period size: 189 Copynumber: 2.1 Consensus size: 189
46952089 GCGTTTGAAC
*
46952099 GTAAGCGCCACTAATTAAAGTATACATCGAGACCAAAACGGTGCGTTTTGGTTCAGATATTTTGC
1 GTAAGCGCCACTAATTAAAGTATACATCGAGACCAAAACGGTGCGTTTTGGTTCAGATAGTTTGC
*
46952164 GGCGTTTTCATATAAGCGCCACTAAATGTAACATAGCTTAAAACAAACCACTACGTTTTGTT-AA
66 GGCGTTTTCATATAAGCGCCACTAAATGTAACATAACTTAAAACAAACCACTACGTTTTGTTAAA
* *
46952228 GATACGTTGCGGCGCTTTACCCAAAGCGCCGCTAAAT-ATATTCTTTAACGGCGTTTTCTA
131 G-TACGTTGCGGCGCTTCACCCAAAGCGCCGCT-AATGATATTCTATAACGGCGTTTTCTA
* *
46952288 GTAAGCGCCACTAATTGAAGTATACATCGAGACCAAAATGGTGCGTTTTGGTTCAGATAGTTTGC
1 GTAAGCGCCACTAATTAAAGTATACATCGAGACCAAAACGGTGCGTTTTGGTTCAGATAGTTTGC
* * *
46952353 GGCGTTTTGC-TATAAGCGCCACTAAATGTAACATAACTTCAGACGAAA-CACTGCGTTTTGTTA
66 GGCGTTTT-CATATAAGCGCCACTAAATGTAACATAACTTAAAAC-AAACCACTACGTTTTGTTA
* ** * *
46952416 AAGTACTTTGCGGCGCTTCGGCTAAAGCGCCGCTAATGCTATTCTATAACGGCGTTTTCTA
129 AAGTACGTTGCGGCGCTTCACCCAAAGCGCCGCTAATGATATTCTATAACGGCGTTTTCTA
46952477 GTAAGCGCCACTAAT
1 GTAAGCGCCACTAAT
46952492 ATAATCAAAA
Statistics
Matches: 186, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
188 3 0.02
189 176 0.95
190 7 0.04
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (189 bp):
GTAAGCGCCACTAATTAAAGTATACATCGAGACCAAAACGGTGCGTTTTGGTTCAGATAGTTTGC
GGCGTTTTCATATAAGCGCCACTAAATGTAACATAACTTAAAACAAACCACTACGTTTTGTTAAA
GTACGTTGCGGCGCTTCACCCAAAGCGCCGCTAATGATATTCTATAACGGCGTTTTCTA
Found at i:46956660 original size:43 final size:44
Alignment explanation
Indices: 46956588--46956677 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 44
46956578 ACGTCGCTAA
*
46956588 CTTTTGCGGCGCTTACAGAAAAAAACGCCGCTAAAGATCATATT
1 CTTTAGCGGCGCTTACAGAAAAAAACGCCGCTAAAGATCATATT
* *
46956632 CTTTAGCGGCGC-TA-AGGAAATAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTACA-GAAAAAAACGCCGCTAAAGATCATATT
46956675 CTT
1 CTT
46956678 CATAAGCGCC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 1 0.02
43 30 0.71
44 11 0.26
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (44 bp):
CTTTAGCGGCGCTTACAGAAAAAAACGCCGCTAAAGATCATATT
Found at i:46956691 original size:28 final size:28
Alignment explanation
Indices: 46956651--46956705 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
46956641 CGCTAAGGAA
* *
46956651 ATAAACGCCGCTAAAGATCATGTTCTTC
1 ATAAACGCCGCTAAAGAACATGATCTTC
*
46956679 ATAAGCGCCGCTAAAGAACATGATCTT
1 ATAAACGCCGCTAAAGAACATGATCTT
46956706 TAGCGGCACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (28 bp):
ATAAACGCCGCTAAAGAACATGATCTTC
Found at i:46956745 original size:71 final size:71
Alignment explanation
Indices: 46956613--46956747 Score: 177
Period size: 71 Copynumber: 1.9 Consensus size: 71
46956603 CAGAAAAAAA
* * * *
46956613 CGCCGCTAAAGATCATATTCTTTAGCGGCGCTAAGGAAATAAACGCCGCTAAAGATCATGTTCTT
1 CGCCGCTAAAGAACATATTCTTTAGCGGCACTAAGGAAATAAACACCGCTAAAGATAATGTTCTT
46956678 CATAAG
66 CATAAG
*
46956684 CGCCGCTAAAGAACATGA-TCTTTAGCGGCACTTAGGAAGA-AAACACCGCTAAA-AGTAATGTT
1 CGCCGCTAAAGAACAT-ATTCTTTAGCGGCACTAAGGAA-ATAAACACCGCTAAAGA-TAATGTT
46956746 CT
63 CT
46956748 ATAGCGGTGC
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
70 1 0.02
71 53 0.95
72 2 0.04
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (71 bp):
CGCCGCTAAAGAACATATTCTTTAGCGGCACTAAGGAAATAAACACCGCTAAAGATAATGTTCTT
CATAAG
Found at i:46956753 original size:43 final size:42
Alignment explanation
Indices: 46956706--46956797 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
46956696 ACATGATCTT
46956706 TAGCGGCACTTAGG-AAGAAAACACCGCTAAAAGTAATGTTCTA
1 TAGCGGCACTT-GGTAA-AAAACACCGCTAAAAGTAATGTTCTA
** * * * *
46956749 TAGCGGTGCTTGGTCAAAAACGCCGCTAAAAGTAGTGTTCTT
1 TAGCGGCACTTGGTAAAAAACACCGCTAAAAGTAATGTTCTA
46956791 TAGCGGC
1 TAGCGGC
46956798 GTTTATTTCA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
42 31 0.76
43 10 0.24
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.24
Consensus pattern (42 bp):
TAGCGGCACTTGGTAAAAAACACCGCTAAAAGTAATGTTCTA
Found at i:46957248 original size:21 final size:21
Alignment explanation
Indices: 46957224--46957295 Score: 90
Period size: 21 Copynumber: 3.4 Consensus size: 21
46957214 TTCTTTTGAA
* *
46957224 CCTCTACTTCTCTCGCTGCGG
1 CCTCTGCTTCTCTCGCTGCAG
*
46957245 CCTCTGCTTCTCTCGCTGTAG
1 CCTCTGCTTCTCTCGCTGCAG
* * *
46957266 CCTCTGCTTCCCTCACTGCCG
1 CCTCTGCTTCTCTCGCTGCAG
46957287 CCTCTGCTT
1 CCTCTGCTT
46957296 TAAGTTGTTG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.04, C:0.44, G:0.17, T:0.35
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCAG
Found at i:46958347 original size:25 final size:25
Alignment explanation
Indices: 46958319--46958480 Score: 143
Period size: 25 Copynumber: 6.4 Consensus size: 25
46958309 ATAAAGTAAA
46958319 TATGAAAATTATGTAAGTTATTTAT
1 TATGAAAATTATGTAAGTTATTTAT
* *
46958344 TATGAAAATTATGTAAGTTGTGTAT
1 TATGAAAATTATGTAAGTTATTTAT
*
46958369 TATGAAAATTATGCTATG-TA---AGT
1 TATGAAAATTATG-TAAGTTATTTA-T
* * * * *
46958392 TATGTAAGTCATATAAGTTATGTAT
1 TATGAAAATTATGTAAGTTATTTAT
* *
46958417 TATGTAAGTTATGTAAGTTATTTAT
1 TATGAAAATTATGTAAGTTATTTAT
* *
46958442 TATGAAAATTAAGTAAGTTATGTAATT
1 TATGAAAATTATGTAAGTTAT-TTA-T
46958469 TATGAATAATTA
1 TATGAA-AATTA
46958481 AAAAAATGTA
Statistics
Matches: 112, Mismatches: 16, Indels: 15
0.78 0.11 0.10
Matches are distributed among these distances:
22 4 0.04
23 12 0.11
25 78 0.70
26 6 0.05
27 7 0.06
28 5 0.04
ACGTcount: A:0.39, C:0.01, G:0.15, T:0.44
Consensus pattern (25 bp):
TATGAAAATTATGTAAGTTATTTAT
Found at i:46958395 original size:9 final size:9
Alignment explanation
Indices: 46958383--46958666 Score: 165
Period size: 9 Copynumber: 32.2 Consensus size: 9
46958373 AAAATTATGC
46958383 TATGTAAGT
1 TATGTAAGT
46958392 TATGTAAGT
1 TATGTAAGT
* *
46958401 CATATAAGT
1 TATGTAAGT
46958410 TATGT-A-T
1 TATGTAAGT
46958417 TATGTAAGT
1 TATGTAAGT
46958426 TATGTAAGT
1 TATGTAAGT
*
46958435 TAT-TTA-T
1 TATGTAAGT
* *
46958442 TATGAAAAT
1 TATGTAAGT
*
46958451 TAAGTAAGT
1 TATGTAAGT
*
46958460 TATGTAATT
1 TATGTAAGT
46958469 TATG-AA-T
1 TATGTAAGT
* **
46958476 AAT-TAAAAA
1 TATGT-AAGT
*
46958485 AATGTAAGT
1 TATGTAAGT
46958494 TATGTAAG-
1 TATGTAAGT
46958502 T-TGTAAGT
1 TATGTAAGT
46958510 TATGTAAGT
1 TATGTAAGT
*
46958519 TATGTATA-A
1 TATGTA-AGT
46958528 TAT-TAA-T
1 TATGTAAGT
46958535 TAAT-TAAGT
1 T-ATGTAAGT
*
46958544 TATGTAATT
1 TATGTAAGT
*
46958553 TATGTATAATAT
1 TATG--TAA-GT
46958565 TAATGTAAGT
1 T-ATGTAAGT
*
46958575 TATGTAATT
1 TATGTAAGT
*
46958584 TATGTTTAATAT
1 TATG--TAA-GT
46958596 TAATGTAAGT
1 T-ATGTAAGT
46958606 TATGTAAG-
1 TATGTAAGT
46958614 T-TGTAAGT
1 TATGTAAGT
46958622 TATGTAAGT
1 TATGTAAGT
*
46958631 TATGTATA-A
1 TATGTA-AGT
46958640 TAT-TAA-T
1 TATGTAAGT
46958647 TAAT-TAAGT
1 T-ATGTAAGT
46958656 TATGTAAGT
1 TATGTAAGT
46958665 TA
1 TA
46958667 CGTATAATAC
Statistics
Matches: 220, Mismatches: 27, Indels: 56
0.73 0.09 0.18
Matches are distributed among these distances:
7 29 0.13
8 31 0.14
9 131 0.60
10 7 0.03
11 12 0.05
12 4 0.02
13 6 0.03
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.45
Consensus pattern (9 bp):
TATGTAAGT
Found at i:46958458 original size:34 final size:35
Alignment explanation
Indices: 46958352--46958503 Score: 118
Period size: 34 Copynumber: 4.3 Consensus size: 35
46958342 ATTATGAAAA
* *
46958352 TTATGTAAGTTGTGTATTATGAAAATTATGCTATGTAAG
1 TTATGTAAGTTATGAATTATGAAAATTA----ATGTAAG
*
46958391 TTATGTAAGTCATAT-AAGTTATG--TATT-ATGTAAG
1 TTATGTAAGT--TATGAA-TTATGAAAATTAATGTAAG
**
46958425 TTATGTAAGTTATTTATTATGAAAATTAA-GTAAG
1 TTATGTAAGTTATGAATTATGAAAATTAATGTAAG
* * * *
46958459 TTATGTAATTTATGAATAATTAAAA-AAATGTAAG
1 TTATGTAAGTTATGAATTATGAAAATTAATGTAAG
46958493 TTATGTAAGTT
1 TTATGTAAGTT
46958504 GTAAGTTATG
Statistics
Matches: 93, Mismatches: 12, Indels: 21
0.74 0.10 0.17
Matches are distributed among these distances:
32 8 0.09
33 3 0.03
34 60 0.65
35 1 0.01
39 13 0.14
40 1 0.01
41 7 0.08
ACGTcount: A:0.39, C:0.01, G:0.16, T:0.43
Consensus pattern (35 bp):
TTATGTAAGTTATGAATTATGAAAATTAATGTAAG
Found at i:46958508 original size:16 final size:16
Alignment explanation
Indices: 46958487--46958519 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
46958477 ATTAAAAAAA
46958487 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
46958503 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
46958519 T
1 T
46958520 ATGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:46958511 original size:84 final size:84
Alignment explanation
Indices: 46958405--46958562 Score: 230
Period size: 84 Copynumber: 1.9 Consensus size: 84
46958395 GTAAGTCATA
* * *
46958405 TAAGTTATGTATTATGTAAGTTATGTAAGTTATTTATTATGA-AAATTAAGTAAGTTATGTAATT
1 TAAGTTATGTAGTATGTAAGTTATGTAAGTTATGTATAAT-ATAAATTAAGTAAGTTATGTAATT
46958469 TATGAATAATTAAAAAAATG
65 TATGAATAATTAAAAAAATG
* *
46958489 TAAGTTATGTAAGT-TGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATT
1 TAAGTTATGT-AGTATGTAAGTTATGTAAGTTATGTATAATATAAATTAAGTAAGTTATGTAATT
*
46958553 TATGTATAAT
65 TATGAATAAT
46958563 ATTAATGTAA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
83 1 0.02
84 63 0.95
85 2 0.03
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.45
Consensus pattern (84 bp):
TAAGTTATGTAGTATGTAAGTTATGTAAGTTATGTATAATATAAATTAAGTAAGTTATGTAATTT
ATGAATAATTAAAAAAATG
Found at i:46958514 original size:25 final size:25
Alignment explanation
Indices: 46958383--46958524 Score: 89
Period size: 25 Copynumber: 5.6 Consensus size: 25
46958373 AAAATTATGC
*
46958383 TATGTAAGTTATGTAAGTCATATAAGT
1 TATGTAAGTTATGTAAGT--TGTAAGT
46958410 TATGT-A-TTATGTAAGTTATGTAAGT
1 TATGTAAGTTATGTAAG-T-TGTAAGT
* * *
46958435 TAT-TTA-TTATGAAAATTAAGTAAGT
1 TATGTAAGTTATGTAAGTT--GTAAGT
* * **
46958460 TATGTAATTTATGAATAA-TT-AAAAA
1 TATGTAAGTTATG--TAAGTTGTAAGT
*
46958485 AATGTAAGTTATGTAAGTTGTAAGT
1 TATGTAAGTTATGTAAGTTGTAAGT
46958510 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
46958525 TAATATTAAT
Statistics
Matches: 91, Mismatches: 14, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
23 4 0.04
24 4 0.04
25 65 0.71
26 4 0.04
27 10 0.11
28 2 0.02
29 2 0.02
ACGTcount: A:0.39, C:0.01, G:0.17, T:0.43
Consensus pattern (25 bp):
TATGTAAGTTATGTAAGTTGTAAGT
Found at i:46958524 original size:34 final size:34
Alignment explanation
Indices: 46958383--46958666 Score: 116
Period size: 34 Copynumber: 8.3 Consensus size: 34
46958373 AAAATTATGC
*
46958383 TATGTAAGTTATGTAAGTCATATAAGTTATGT-A-T
1 TATGTAAGTTATGTAAGT--TGTAAGTTATGTAAGT
* * * *
46958417 TATGTAAGTTATGTAAGTTATTTA-TTATGAAAAT
1 TATGTAAGTTATGTAAGTT-GTAAGTTATGTAAGT
* * * * **
46958451 TAAGTAAGTTATGTAATTTATGAA-TAAT-TAAAAA
1 TATGTAAGTTATGTAAGTTGT-AAGTTATGT-AAGT
*
46958485 AATGTAAGTTATGTAAGTTGTAAGTTATGTAAGT
1 TATGTAAGTTATGTAAGTTGTAAGTTATGTAAGT
* * *
46958519 TATGTATA-ATAT-TAA-TTAATTAAGTTATGTAATT
1 TATGTA-AGTTATGTAAGTT--GTAAGTTATGTAAGT
* *
46958553 TATGTATA-ATAT-TAA--TGTAAGTTATGTAATT
1 TATGTA-AGTTATGTAAGTTGTAAGTTATGTAAGT
*
46958584 TATGTTTAATATTAATGTAAGTTATGTAAG-T-TGTAAGT
1 TATG--TAA-GTT-ATGTAAG-T-TGTAAGTTATGTAAGT
*
46958622 TATGTAAGTTATGTATAATAT-TAA-TTAAT-TAAGT
1 TATGTAAGTTATGTA-AGT-TGTAAGTT-ATGTAAGT
46958656 TATGTAAGTTA
1 TATGTAAGTTA
46958667 CGTATAATAC
Statistics
Matches: 200, Mismatches: 26, Indels: 48
0.73 0.09 0.18
Matches are distributed among these distances:
31 18 0.09
32 9 0.05
33 16 0.08
34 126 0.63
35 8 0.04
36 6 0.03
38 10 0.05
39 1 0.00
40 6 0.03
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.45
Consensus pattern (34 bp):
TATGTAAGTTATGTAAGTTGTAAGTTATGTAAGT
Found at i:46958620 original size:16 final size:16
Alignment explanation
Indices: 46958599--46958631 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
46958589 TTAATATTAA
46958599 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
46958615 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
46958631 T
1 T
46958632 ATGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:46958624 original size:47 final size:49
Alignment explanation
Indices: 46958568--46958665 Score: 146
Period size: 47 Copynumber: 2.0 Consensus size: 49
46958558 ATAATATTAA
* *
46958568 TGTAAGTTATGTAATTTATGTTTAATATTAA-T-GTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGTTATGTATAATATTAATTAGTAAGTTATGTAAGT
*
46958615 TGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGTTATGTATAATATTAATT-AGTAAGTTATGTAAGT
46958665 T
1 T
46958666 ACGTATAATA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
47 29 0.64
48 1 0.02
50 15 0.33
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (49 bp):
TGTAAGTTATGTAAGTTATGTATAATATTAATTAGTAAGTTATGTAAGT
Found at i:46958624 original size:112 final size:113
Alignment explanation
Indices: 46958436--46958692 Score: 396
Period size: 112 Copynumber: 2.3 Consensus size: 113
46958426 TATGTAAGTT
*
46958436 ATTTAT-TATGAAAATTAA-GTAAGTTATGTAATTTATGAATAATTAAAAAAATGTAAGTTATGT
1 ATTTATGTAT-AATATTAATGTAAGTTATGTAATTTATG-AT-ATTAAAAAAATGTAAGTTATGT
46958499 AAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTA
63 AAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTA
**
46958550 ATTTATGTATAATATTAATGTAAGTTATGTAATTTATG-T-TTAATATTAATGTAAGTTATGTAA
1 ATTTATGTATAATATTAATGTAAGTTATGTAATTTATGATATTAA-AAAAATGTAAGTTATGTAA
46958613 GTTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTA
65 GTTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTA
* * *
46958662 AGTTACGTATAATACTAATGTAAGTTATGTA
1 ATTTATGTATAATATTAATGTAAGTTATGTA
46958693 TTATATAATA
Statistics
Matches: 134, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
111 4 0.03
112 94 0.70
113 1 0.01
114 13 0.10
115 22 0.16
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.45
Consensus pattern (113 bp):
ATTTATGTATAATATTAATGTAAGTTATGTAATTTATGATATTAAAAAAATGTAAGTTATGTAAG
TTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTA
Found at i:46958672 original size:34 final size:34
Alignment explanation
Indices: 46958505--46958680 Score: 142
Period size: 34 Copynumber: 4.9 Consensus size: 34
46958495 ATGTAAGTTG
46958505 TAAGTTATGTAAGTTATGTATAATATTAATTAAT
1 TAAGTTATGTAAGTTATGTATAATATTAATTAAT
* *
46958539 TAAGTTATGTAATTTATGTATAATATTAA-T--G
1 TAAGTTATGTAAGTTATGTATAATATTAATTAAT
* *
46958570 TAAGTTATGTAATTTATGTTTAATATTAATGTAAGTTAT
1 TAAGTTATGTAAGTTATGTATAATATTAAT-T-A---AT
* *
46958609 GTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAAT
1 -TAAG-T-TATGTAA-----GTTATGTATAATATTAATTAAT
* *
46958651 TAAGTTATGTAAGTTACGTATAATACTAAT
1 TAAGTTATGTAAGTTATGTATAATATTAAT
46958681 GTAAGTTATG
Statistics
Matches: 114, Mismatches: 12, Indels: 32
0.72 0.08 0.20
Matches are distributed among these distances:
31 28 0.25
33 2 0.02
34 44 0.39
39 5 0.04
40 5 0.04
41 5 0.04
42 7 0.06
45 1 0.01
46 1 0.01
47 16 0.14
ACGTcount: A:0.39, C:0.01, G:0.14, T:0.47
Consensus pattern (34 bp):
TAAGTTATGTAAGTTATGTATAATATTAATTAAT
Found at i:46958685 original size:22 final size:21
Alignment explanation
Indices: 46958657--46958701 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
46958647 TAATTAAGTT
46958657 ATGTAAGTTACGTATAATACTA
1 ATGTAAGTTACGTATAATA-TA
* *
46958679 ATGTAAGTTATGTATTATATA
1 ATGTAAGTTACGTATAATATA
46958700 AT
1 AT
46958702 AACAGCGTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.42
Consensus pattern (21 bp):
ATGTAAGTTACGTATAATATA
Found at i:46961378 original size:16 final size:16
Alignment explanation
Indices: 46961333--46961388 Score: 69
Period size: 16 Copynumber: 3.5 Consensus size: 16
46961323 TAAATCTCAC
*
46961333 ATCTTTTATTTATT-T
1 ATCTTTTATTAATTGT
* *
46961348 ATTTATTTCTTAATTGT
1 ATCT-TTTATTAATTGT
46961365 ATCTTTTATTAATTGT
1 ATCTTTTATTAATTGT
46961381 ATCTTTTA
1 ATCTTTTA
46961389 ATTACTTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 3 0.09
16 27 0.79
17 4 0.12
ACGTcount: A:0.23, C:0.07, G:0.04, T:0.66
Consensus pattern (16 bp):
ATCTTTTATTAATTGT
Found at i:46961861 original size:20 final size:20
Alignment explanation
Indices: 46961808--46961883 Score: 73
Period size: 21 Copynumber: 3.7 Consensus size: 20
46961798 TAATTAATTG
* *
46961808 TAAATCCTAAACCCCAAACT
1 TAAACCCTAAACCCTAAACT
*
46961828 ATAAACCCTTAACCCT-AACT
1 -TAAACCCTAAACCCTAAACT
* *
46961848 CTAAACCCCAAACCGTAAAACT
1 -TAAACCCTAAACCCT-AAACT
46961870 TAAACCCTAAACCC
1 TAAACCCTAAACCC
46961884 GTCAATTAAC
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
20 16 0.36
21 24 0.55
22 4 0.09
ACGTcount: A:0.43, C:0.37, G:0.01, T:0.18
Consensus pattern (20 bp):
TAAACCCTAAACCCTAAACT
Found at i:46961876 original size:34 final size:34
Alignment explanation
Indices: 46961814--46961879 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
46961804 ATTGTAAATC
* *
46961814 CTAAACCCCAAACTATAAACCCTTAACCCTAACT
1 CTAAACCCCAAACCATAAACACTTAACCCTAACT
*
46961848 CTAAACCCCAAACCGTAAA-ACTTAAACCCTAA
1 CTAAACCCCAAACCATAAACACTT-AACCCTAA
46961880 ACCCGTCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 3 0.11
34 25 0.89
ACGTcount: A:0.44, C:0.36, G:0.02, T:0.18
Consensus pattern (34 bp):
CTAAACCCCAAACCATAAACACTTAACCCTAACT
Found at i:46961880 original size:7 final size:7
Alignment explanation
Indices: 46961808--46961883 Score: 55
Period size: 7 Copynumber: 11.0 Consensus size: 7
46961798 TAATTAATTG
*
46961808 TAAATCC
1 TAAACCC
46961815 TAAACCC
1 TAAACCC
* **
46961822 CAAACTA
1 TAAACCC
46961829 TAAACCC
1 TAAACCC
*
46961836 TTAACCC
1 TAAACCC
*
46961843 T-AACTC
1 TAAACCC
46961849 TAAACCC
1 TAAACCC
* *
46961856 CAAACCG
1 TAAACCC
* *
46961863 TAAAACT
1 TAAACCC
46961870 TAAACCC
1 TAAACCC
46961877 TAAACCC
1 TAAACCC
46961884 GTCAATTAAC
Statistics
Matches: 51, Mismatches: 17, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
6 5 0.10
7 46 0.90
ACGTcount: A:0.43, C:0.37, G:0.01, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:46962093 original size:13 final size:14
Alignment explanation
Indices: 46962058--46962098 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
46962048 CAAACCCCTA
*
46962058 AAGT-CTAAACCGT
1 AAGTCCTAAACCAT
*
46962071 AAGTCATAAACCAT
1 AAGTCCTAAACCAT
46962085 AA-TCCTAAACCAT
1 AAGTCCTAAACCAT
46962098 A
1 A
46962099 TCTTTGGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 15 0.62
14 9 0.38
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.22
Consensus pattern (14 bp):
AAGTCCTAAACCAT
Found at i:46963186 original size:16 final size:16
Alignment explanation
Indices: 46963165--46963196 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
46963155 AAAACGCCAC
46963165 TAATGATGCTATTTTG
1 TAATGATGCTATTTTG
*
46963181 TAATGATGCTCTTTTG
1 TAATGATGCTATTTTG
46963197 CGGCGTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.09, G:0.19, T:0.50
Consensus pattern (16 bp):
TAATGATGCTATTTTG
Found at i:46964303 original size:14 final size:15
Alignment explanation
Indices: 46964284--46964316 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
46964274 ATAGTATTGT
46964284 ATTTTATAT-ATATA
1 ATTTTATATGATATA
*
46964298 ATTTTATGTGATATA
1 ATTTTATATGATATA
46964313 ATTT
1 ATTT
46964317 ACATAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (15 bp):
ATTTTATATGATATA
Found at i:46964347 original size:20 final size:20
Alignment explanation
Indices: 46964319--46964365 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
46964309 TATAATTTAC
*
46964319 ATAATATATA-TAAATAAAAT
1 ATAAAATATACTAAA-AAAAT
*
46964339 ATAAAATATACTACAAAAAT
1 ATAAAATATACTAAAAAAAT
46964359 ATAAAAT
1 ATAAAAT
46964366 GGGTTAGGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (20 bp):
ATAAAATATACTAAAAAAAT
Found at i:46965111 original size:11 final size:11
Alignment explanation
Indices: 46965092--46965157 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
46965082 AAAATTAAAA
46965092 AAAATATATTTT
1 AAAA-ATATTTT
46965104 AAAAATATTTT
1 AAAAATATTTT
46965115 --AAA-A--TT
1 AAAAATATTTT
* *
46965121 AAAAA-AATTA
1 AAAAATATTTT
46965131 AAAAAGTATTTT
1 AAAAA-TATTTT
46965143 AAAAATATTTT
1 AAAAATATTTT
46965154 AAAA
1 AAAA
46965158 TTATAAAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
6 2 0.04
8 5 0.11
9 3 0.07
10 6 0.13
11 17 0.38
12 12 0.27
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:46965197 original size:30 final size:30
Alignment explanation
Indices: 46965143--46965203 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 30
46965133 AAAGTATTTT
46965143 AAAAATATTTTAAAATTATAAAAAATTAAA
1 AAAAATATTTTAAAATTATAAAAAATTAAA
46965173 AAAAAGTATTTTAAAATTA-AAAAAATTAAA
1 AAAAA-TATTTTAAAATTATAAAAAATTAAA
46965203 A
1 A
46965204 TATTTATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 17 0.57
31 13 0.43
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (30 bp):
AAAAATATTTTAAAATTATAAAAAATTAAA
Found at i:46965200 original size:40 final size:41
Alignment explanation
Indices: 46965081--46965188 Score: 175
Period size: 39 Copynumber: 2.6 Consensus size: 41
46965071 AATTTATTTT
*
46965081 AAAAATTAAAAAAAATATATTTTAAAAATATTTTAAAATTAA
1 AAAAATTAAAAAAAA-GTATTTTAAAAATATTTTAAAATTAA
46965123 AAAAATT--AAAAAAGTATTTTAAAAATATTTTAAAATTATA
1 AAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAATTA-A
46965163 AAAAATTAAAAAAAAGTATTTTAAAA
1 AAAAATTAAAAAAAAGTATTTTAAAA
46965189 TTAAAAAAAT
Statistics
Matches: 62, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
39 24 0.39
40 14 0.23
42 24 0.39
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (41 bp):
AAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
Found at i:46971757 original size:13 final size:13
Alignment explanation
Indices: 46971739--46971788 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
46971729 TCTTCATTGT
46971739 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
*
46971752 TTTTGAAAAGTAC
1 TTTTGAAAAGTGC
** *
46971765 TTTTGGGAAGTGT
1 TTTTGAAAAGTGC
46971778 TTTTGAAAAGT
1 TTTTGAAAAGT
46971789 TTGGTTTAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.30, C:0.04, G:0.24, T:0.42
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:46973296 original size:24 final size:23
Alignment explanation
Indices: 46973238--46973297 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
46973228 CTATTTTCCA
*
46973238 TTATTT-AATATAAAGGTTTTTT
1 TTATTTAAATATAAAGGGTTTTT
*
46973260 TTA-TGAAATATATAAGGGGTTTTT
1 TTATTTAAATATA-AA-GGGTTTTT
46973284 TTATTTAACATATA
1 TTATTTAA-ATATA
46973298 TTTGTGTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 1 0.03
22 9 0.30
23 2 0.07
24 10 0.33
25 3 0.10
26 5 0.17
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.52
Consensus pattern (23 bp):
TTATTTAAATATAAAGGGTTTTT
Found at i:46975093 original size:28 final size:28
Alignment explanation
Indices: 46975037--46975100 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
46975027 GATTTTTTTT
*
46975037 ACCCTAAATCCCAAACCTCAAAGACTAA
1 ACCCTAAATCCAAAACCTCAAAGACTAA
*
46975065 ACCCTTAATCCAAAACCT-AGAAG-CTTAA
1 ACCCTAAATCCAAAACCTCA-AAGAC-TAA
46975093 ACCCTAAA
1 ACCCTAAA
46975101 CCCGAACACA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 2 0.06
28 29 0.94
ACGTcount: A:0.45, C:0.33, G:0.05, T:0.17
Consensus pattern (28 bp):
ACCCTAAATCCAAAACCTCAAAGACTAA
Found at i:46975339 original size:13 final size:14
Alignment explanation
Indices: 46975314--46975344 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
46975304 GAGATTCGGG
46975314 GTTTAAGGTTCAAA
1 GTTTAAGGTTCAAA
46975328 GTTTAA-GTTCAAA
1 GTTTAAGGTTCAAA
46975341 GTTT
1 GTTT
46975345 TGGGTTCTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.42
Consensus pattern (14 bp):
GTTTAAGGTTCAAA
Found at i:46979300 original size:3 final size:3
Alignment explanation
Indices: 46979294--46979319 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
46979284 ATGATGAATC
46979294 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
46979320 GGTTTAGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:46979771 original size:20 final size:20
Alignment explanation
Indices: 46979726--46979764 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
46979716 AAACTGCTCT
*
46979726 TTTTTTTACTGTTTTCTTGC
1 TTTTTTTACTGTTTTATTGC
46979746 TTTTTTTACTGTTTTATTG
1 TTTTTTTACTGTTTTATTG
46979765 TTATTTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.08, C:0.10, G:0.10, T:0.72
Consensus pattern (20 bp):
TTTTTTTACTGTTTTATTGC
Found at i:46985826 original size:20 final size:20
Alignment explanation
Indices: 46985801--46985840 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
46985791 AATATTTTCT
* *
46985801 AGTAAATCATTTTACAGAAA
1 AGTAAAACAGTTTACAGAAA
*
46985821 AGTAAAACAGTTTGCAGAAA
1 AGTAAAACAGTTTACAGAAA
46985841 TCATTTTACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.25
Consensus pattern (20 bp):
AGTAAAACAGTTTACAGAAA
Found at i:46987112 original size:43 final size:42
Alignment explanation
Indices: 46987055--46987136 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 42
46987045 TTAGATTTTG
*
46987055 TTACAACAATTAATACGATTAACAATTAATAATTTGATAATT
1 TTACAACAATTAATACAATTAACAATTAATAATTTGATAATT
*
46987097 TTACTAACAATTAATACAATTAATAATTAATAATTTGATA
1 TTAC-AACAATTAATACAATTAACAATTAATAATTTGATA
46987137 TAATTTGATA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
42 4 0.11
43 33 0.89
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.39
Consensus pattern (42 bp):
TTACAACAATTAATACAATTAACAATTAATAATTTGATAATT
Found at i:46987191 original size:16 final size:16
Alignment explanation
Indices: 46987171--46987223 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
46987161 TTGGTTCGCT
*
46987171 GTAATGGAATAGAGGT
1 GTAATGGAATAGAGGC
46987187 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
46987203 GTAATGGAATACAGGC
1 GTAATGGAATAGAGGC
46987219 GTAAT
1 GTAAT
46987224 AGGTAATCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.38, C:0.06, G:0.34, T:0.23
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:46987523 original size:61 final size:61
Alignment explanation
Indices: 46987458--46987645 Score: 233
Period size: 61 Copynumber: 3.1 Consensus size: 61
46987448 TTATTATTAA
46987458 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAAT
* * * * * ** * *
46987519 ATATAATATT-ATAAAA-T-GTAAT-TTAAAATAATTATTAT-TAAATATAATTTAATAAAAAT
1 ATATAAT-TTAATAAAATTCTTAATATT-AAAT-ATTCTTATATGAATTTACTAAAATCATAAT
46987578 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAAT
46987639 ATATAAT
1 ATATAAT
46987646 ACTATAAAAT
Statistics
Matches: 101, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
58 4 0.04
59 35 0.35
60 16 0.16
61 42 0.42
62 4 0.04
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (61 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAAT
Done.