Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 137 of 211
Found at i:43249992 original size:17 final size:17
Alignment explanation
Indices: 43249970--43250002 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
43249960 AATGTCCTTC
43249970 AATAGTAAAATTAAATA
1 AATAGTAAAATTAAATA
*
43249987 AATAGTAAGATTAAAT
1 AATAGTAAAATTAAAT
43250003 TCCTCGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (17 bp):
AATAGTAAAATTAAATA
Found at i:43251664 original size:22 final size:24
Alignment explanation
Indices: 43251615--43251664 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 24
43251605 AAAGATTTTC
43251615 TAAATATATTTTCAATTTGTTCAA
1 TAAATATATTTTCAATTTGTTCAA
* *
43251639 -AAATAT-TTTTTAATTT-TTTAA
1 TAAATATATTTTCAATTTGTTCAA
43251660 TAAAT
1 TAAAT
43251665 TTGATGTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 4 0.17
22 13 0.57
23 6 0.26
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (24 bp):
TAAATATATTTTCAATTTGTTCAA
Found at i:43252347 original size:16 final size:16
Alignment explanation
Indices: 43252323--43252357 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
43252313 GGTTCACTGG
*
43252323 AATAGAATAGAGCTGT
1 AATAAAATAGAGCTGT
*
43252339 AATAAAATATAGCTGT
1 AATAAAATAGAGCTGT
43252355 AAT
1 AAT
43252358 CAGTAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.06, G:0.17, T:0.29
Consensus pattern (16 bp):
AATAAAATAGAGCTGT
Found at i:43253492 original size:4 final size:4
Alignment explanation
Indices: 43253483--43253625 Score: 286
Period size: 4 Copynumber: 35.8 Consensus size: 4
43253473 TTACCAAACT
43253483 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
43253531 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
43253579 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
43253626 TGTTACTTGA
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 139 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:43256956 original size:14 final size:14
Alignment explanation
Indices: 43256936--43256976 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
43256926 TTTGATTGCT
43256936 AGTAAAATATTTTC
1 AGTAAAATATTTTC
* *
43256950 CGTAAAATAATTTC
1 AGTAAAATATTTTC
*
43256964 AGGAAAATATTTT
1 AGTAAAATATTTT
43256977 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (14 bp):
AGTAAAATATTTTC
Found at i:43256989 original size:34 final size:35
Alignment explanation
Indices: 43256945--43257011 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
43256935 TAGTAAAATA
43256945 TTTTCCGTAAAATAATTT-CAGGAAAATATTTTAC
1 TTTTCCGTAAAATAATTTACAGGAAAATATTTTAC
* * *
43256979 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACAGGAAAATATTTT
43257012 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACAGGAAAATATTTTAC
Found at i:43268078 original size:44 final size:45
Alignment explanation
Indices: 43267958--43268082 Score: 132
Period size: 45 Copynumber: 2.8 Consensus size: 45
43267948 ACTAGTGCTG
* * *
43267958 CAGTCTACTCCACTGCAA-TGTCAGGGAGATAAGATTTGCCATCTT
1 CAGTCTGCGCCACTGCAACT-TCAGGGAGATAAGACTTGCCATCTT
*
43268003 CAGTCTGCGCCACTGCAACTTCA-GGAGGATAAGACTTG-CTTACTT
1 CAGTCTGCGCCACTGCAACTTCAGGGA-GATAAGACTTGCCAT-CTT
* * *
43268048 -AGTCTGCTCCACTGCAGCTTTAGGGAGATAAGACT
1 CAGTCTGCGCCACTGCAACTTCAGGGAGATAAGACT
43268083 AGATGCGATT
Statistics
Matches: 69, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
44 33 0.48
45 35 0.51
46 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (45 bp):
CAGTCTGCGCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTT
Found at i:43268242 original size:45 final size:44
Alignment explanation
Indices: 43268191--43268299 Score: 116
Period size: 44 Copynumber: 2.5 Consensus size: 44
43268181 GCTCCATTGC
*
43268191 AACTTCAAGGAGATAATG-TTTGCCCT-CTTCAGTCTGCCCCACTGT
1 AACTTCAAGGAGATAA-GACTTG-CCTACTT-AGTCTGCCCCACTGT
* *
43268236 AACTTC-AGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGT
1 AACTTCAAGGA-GATAAGACTTGCCTACTTAGTCTGCCCCACTGT
* *
43268280 AACTTTAGGGAGATAAGACT
1 AACTTCAAGGAGATAAGACT
43268300 AGATGCGATC
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
44 35 0.64
45 20 0.36
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
AACTTCAAGGAGATAAGACTTGCCTACTTAGTCTGCCCCACTGT
Found at i:43268369 original size:44 final size:44
Alignment explanation
Indices: 43268267--43268722 Score: 223
Period size: 44 Copynumber: 10.6 Consensus size: 44
43268257 GCTTACTTAG
* * * ***
43268267 TCTGCTCCACTGTAACTTTAGGGAGATAAGA-CT-A-GATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGTTTTAA
** *
43268308 TCTGCT-CTTTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGTTTTAA
* * * *
43268351 TCCGCTCCACTGCAACTTCAGGGAGATAGGAT-TATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTA-AGGTTTTAA
* ***
43268395 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-A-GATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGTTTTAA
* * *
43268436 TCTGCT-CTCTGCAACTTCAGAGAGATAAGAT-TCAAGATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-AAGGTTTTAA
* * * * * * * **
43268479 TCCGTTCCACTACAACTTTATGGAGATAGGAT-TATCGACTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTA-AGGTTTTAA
* * **** *
43268523 CCTGCTCCACTGCAACTTCAGGGAGATAATG-TTTGCCATCTTTAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAA-GATCTAAGGT-TTTAA
* * * *
43268568 TCTGC-CCTACTGGAACTTCA-GGAGGATAAGA-CT-TGCTTACTTAG
1 TCTGCTCC-ACTGCAACTTCAGGGA-GATAAGATCTAAGGTT--TTAA
* * * ***
43268612 TCTGCTCCATTGCAACTTTAGGGAGATAAGA-CT-A-GATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGTTTTAA
* * * *
43268653 TCTGCT-CTCTGTAACTTCAGAGAGATAAGATCCAAGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGTTTTAA
* *
43268696 TCCGCTCCACTGCAACTTCAGGAAGAT
1 TCTGCTCCACTGCAACTTCAGGGAGAT
43268723 GGGATTATTG
Statistics
Matches: 307, Mismatches: 82, Indels: 49
0.70 0.19 0.11
Matches are distributed among these distances:
40 61 0.20
41 24 0.08
42 4 0.01
43 27 0.09
44 160 0.52
45 31 0.10
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGTTTTAA
Found at i:43268376 original size:217 final size:217
Alignment explanation
Indices: 43267965--43268425 Score: 719
Period size: 217 Copynumber: 2.1 Consensus size: 217
43267955 CTGCAGTCTA
*
43267965 CTCCACTGCAA-TGTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCGCCACTGCAACTTCAGGA
1 CTCCACTGCAACT-TCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGA
* *
43268029 GGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAGCTTTAGGGAGATAAGACTAGATGCGATTT
65 GGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGCGATCT
* * * *
43268094 GCTCTCTGCAACTTTAGAGAGGTAAAATCCAAGATTTTAATCCGTTCCACTACAACTTTAGGGAG
130 GCTCTCTGCAACTTCAGAGAGATAAAATCCAAGATTTTAATCCGCTCCACTACAACTTCAGGGAG
43268159 ATAGGATTATCGGCTTTAACCTG
195 ATAGGATTATCGGCTTTAACCTG
* * * *
43268182 CTCCATTGCAACTTCAAGGAGATAATG-TTTGCCCTCTTCAGTCTGCCCCACTGTAACTTCAGGA
1 CTCCACTGCAACTTCAGGGAGATAA-GATTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGA
*
43268246 GGATAAGACTTGCTTACTTAGTCTGCTCCACTGTAACTTTAGGGAGATAAGACTAGATGCGATCT
65 GGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGCGATCT
* * * * *
43268311 GCTCTTTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAG
130 GCTCTCTGCAACTTCAGAGAGATAAAATCCAAGATTTTAATCCGCTCCACTACAACTTCAGGGAG
* *
43268376 ATAGGATTATTGGCTTTAATCTG
195 ATAGGATTATCGGCTTTAACCTG
43268399 CTCCACTGCAACTTCAGGGAGATAAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA
43268426 CTAGATGCGA
Statistics
Matches: 220, Mismatches: 21, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
216 1 0.00
217 217 0.99
218 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (217 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAG
GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGCGATCTG
CTCTCTGCAACTTCAGAGAGATAAAATCCAAGATTTTAATCCGCTCCACTACAACTTCAGGGAGA
TAGGATTATCGGCTTTAACCTG
Found at i:43268405 original size:128 final size:128
Alignment explanation
Indices: 43268267--43268551 Score: 455
Period size: 128 Copynumber: 2.2 Consensus size: 128
43268257 GCTTACTTAG
* * *
43268267 TCTGCTCCACTGTAACTTTAGGGAGATAAGACTAGATGCGATCTGCTCTTTGCAACTTCAGAGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
* * * *
43268332 ATAAGA-TCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAA
66 ATAAGATTC-AAGATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTTAA
43268395 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
* * *
43268460 ATAAGATTCAAGATTTTAATCCGTTCCACTACAACTTTATGGAGATAGGATTATCGACTTTAA
66 ATAAGATTCAAGATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTTAA
*
43268523 CCTGCTCCACTGCAACTTCAGGGAGATAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAA
43268552 TGTTTGCCAT
Statistics
Matches: 145, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
128 143 0.99
129 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (128 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
ATAAGATTCAAGATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTTAA
Found at i:43268643 original size:345 final size:345
Alignment explanation
Indices: 43268050--43268734 Score: 1172
Period size: 345 Copynumber: 2.0 Consensus size: 345
43268040 GCTTACTTAG
* * * *
43268050 TCTGCTCCACTGCAGCTTTAGGGAGATAAGACTAGATGCGATTTGCTCTCTGCAACTTTAGAGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
* *
43268115 GTAAAATCCAAGATTTTAATCCGTTCCACTACAACTTTAGGGAGATAGGATTATCGGCTTTAACC
66 ATAAAATCCAAGATTTTAATCCGTTCCACTACAACTTTAGGGAGATAGGATTATCGACTTTAACC
* * *
43268180 TGCTCCATTGCAACTTCAAGGAGATAATGTTTGCCCTCTTCAGTCTGCCCCACTGTAACTTCAGG
131 TGCTCCACTGCAACTTCAAGGAGATAATGTTTGCCATCTTCAGTCTGCCCCACTGGAACTTCAGG
*
43268245 AGGATAAGACTTGCTTACTTAGTCTGCTCCACTGTAACTTTAGGGAGATAAGACTAGATGCGATC
196 AGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGCGATC
* * *
43268310 TGCTCTTTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
261 TGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGAA
43268375 GATAGGATTATTGGCTTTAA
326 GATAGGATTATTGGCTTTAA
43268395 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
* * *
43268460 ATAAGATTCAAGATTTTAATCCGTTCCACTACAACTTTATGGAGATAGGATTATCGACTTTAACC
66 ATAAAATCCAAGATTTTAATCCGTTCCACTACAACTTTAGGGAGATAGGATTATCGACTTTAACC
* * *
43268525 TGCTCCACTGCAACTTCAGGGAGATAATGTTTGCCATCTTTAGTCTGCCCTACTGGAACTTCAGG
131 TGCTCCACTGCAACTTCAAGGAGATAATGTTTGCCATCTTCAGTCTGCCCCACTGGAACTTCAGG
*
43268590 AGGATAAGACTTGCTTACTTAGTCTGCTCCATTGCAACTTTAGGGAGATAAGACTAGATGCGATC
196 AGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGCGATC
*
43268655 TGCTCTCTGTAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGAA
261 TGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGAA
*
43268720 GATGGGATTATTGGC
326 GATAGGATTATTGGC
43268735 CACGGATTTG
Statistics
Matches: 318, Mismatches: 22, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
345 318 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (345 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
ATAAAATCCAAGATTTTAATCCGTTCCACTACAACTTTAGGGAGATAGGATTATCGACTTTAACC
TGCTCCACTGCAACTTCAAGGAGATAATGTTTGCCATCTTCAGTCTGCCCCACTGGAACTTCAGG
AGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGCGATC
TGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGAA
GATAGGATTATTGGCTTTAA
Found at i:43280585 original size:17 final size:16
Alignment explanation
Indices: 43280541--43280598 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 16
43280531 ATAAACGAGC
43280541 AAAATAATATAAAT-GA
1 AAAATAA-ATAAATAGA
*
43280557 AAACACAAATAAATAGCA
1 AAA-ATAAATAAATAG-A
43280575 AAAATAAATAAATA-A
1 AAAATAAATAAATAGA
43280590 ATAAATAAA
1 A-AAATAAA
43280599 AGGTACATGA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
15 2 0.06
16 16 0.44
17 14 0.39
18 4 0.11
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.19
Consensus pattern (16 bp):
AAAATAAATAAATAGA
Found at i:43281673 original size:3 final size:3
Alignment explanation
Indices: 43281665--43281690 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
43281655 TATGTAAATA
43281665 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
43281691 GGTAACAAAC
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:43282362 original size:16 final size:17
Alignment explanation
Indices: 43282341--43282383 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
43282331 ATAAAATTTA
43282341 AATATTTTATTAA-ATT
1 AATATTTTATTAAGATT
43282357 AATATTTTAATTAAGATT
1 AATATTTT-ATTAAGATT
43282375 -AT-TTTTATT
1 AATATTTTATT
43282384 TAATAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 3 0.12
16 12 0.48
17 7 0.28
18 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (17 bp):
AATATTTTATTAAGATT
Found at i:43282870 original size:3 final size:3
Alignment explanation
Indices: 43282864--43282892 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
43282854 AATAAAATTG
43282864 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
43282893 TGCTAAGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:43290446 original size:28 final size:28
Alignment explanation
Indices: 43290414--43290485 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 28
43290404 TTCCTTCCTA
43290414 AATTATCAATCCTCAAATTCCAATTTTC
1 AATTATCAATCCTCAAATTCCAATTTTC
* * * * *
43290442 TATTATAAATCTTCAATTTTCAATTTTC
1 AATTATCAATCCTCAAATTCCAATTTTC
* *
43290470 AATTTTCGATCCTCAA
1 AATTATCAATCCTCAA
43290486 TTATTTTTTT
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.33, C:0.21, G:0.01, T:0.44
Consensus pattern (28 bp):
AATTATCAATCCTCAAATTCCAATTTTC
Found at i:43290465 original size:7 final size:7
Alignment explanation
Indices: 43290434--43290476 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
43290424 CCTCAAATTC
43290434 CAATTTT
1 CAATTTT
* *
43290441 CTATTAT
1 CAATTTT
* *
43290448 AAATCTT
1 CAATTTT
43290455 CAATTTT
1 CAATTTT
43290462 CAATTTT
1 CAATTTT
43290469 CAATTTT
1 CAATTTT
43290476 C
1 C
43290477 GATCCTCAAT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.30, C:0.16, G:0.00, T:0.53
Consensus pattern (7 bp):
CAATTTT
Found at i:43295597 original size:12 final size:13
Alignment explanation
Indices: 43295565--43295594 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
43295555 TGAAAAAGGT
43295565 TTGATTG-AAAAC
1 TTGATTGAAAAAC
43295577 TTGATTGAAAAAC
1 TTGATTGAAAAAC
43295590 TTGAT
1 TTGAT
43295595 GAATGAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.37
Consensus pattern (13 bp):
TTGATTGAAAAAC
Found at i:43296303 original size:6 final size:6
Alignment explanation
Indices: 43296269--43296302 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
43296259 TAAAAAAACC
*
43296269 CCACTG CCACTG CCACTG CCACTG CCACCG CCAC
1 CCACTG CCACTG CCACTG CCACTG CCACTG CCAC
43296303 CCCCACCCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.56, G:0.15, T:0.12
Consensus pattern (6 bp):
CCACTG
Found at i:43296308 original size:18 final size:18
Alignment explanation
Indices: 43296267--43296308 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
43296257 AATAAAAAAA
*
43296267 CCCCACTGCCACTGCCAC
1 CCCCACTGCCACCGCCAC
**
43296285 TGCCACTGCCACCGCCAC
1 CCCCACTGCCACCGCCAC
43296303 CCCCAC
1 CCCCAC
43296309 CCTCGTCCCT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.62, G:0.12, T:0.10
Consensus pattern (18 bp):
CCCCACTGCCACCGCCAC
Found at i:43297634 original size:24 final size:24
Alignment explanation
Indices: 43297590--43297635 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
43297580 GGGGGAATTT
* *
43297590 TTATTTTATTTGATATTAATATCA
1 TTATTTTATTTAATATAAATATCA
43297614 TTATATTTATTTAATA-AAATAT
1 TTAT-TTTATTTAATATAAATAT
43297636 AAATATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 9 0.47
25 10 0.53
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
TTATTTTATTTAATATAAATATCA
Found at i:43297689 original size:10 final size:10
Alignment explanation
Indices: 43297653--43297730 Score: 59
Period size: 10 Copynumber: 7.8 Consensus size: 10
43297643 AATATAAATT
*
43297653 TATTATTATA
1 TATTTTTATA
*
43297663 -ATTTTTAAA
1 TATTTTTATA
* * *
43297672 AATATTTATT
1 TATTTTTATA
43297682 TATTTTTATA
1 TATTTTTATA
*
43297692 TATTTTTAAAA
1 TATTTTT-ATA
* * *
43297703 AATATTTATT
1 TATTTTTATA
43297713 TATTTTTATA
1 TATTTTTATA
43297723 TATTTTTA
1 TATTTTTA
43297731 AAATTTATTG
Statistics
Matches: 50, Mismatches: 16, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
9 7 0.14
10 36 0.72
11 7 0.14
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATTTTTATA
Found at i:43297707 original size:31 final size:31
Alignment explanation
Indices: 43297650--43297733 Score: 145
Period size: 31 Copynumber: 2.8 Consensus size: 31
43297640 ATAAATATAA
*
43297650 ATTTATTATTATA-ATTTTT-AAAAATATTT
1 ATTTATTTTTATATATTTTTAAAAAATATTT
43297679 ATTTATTTTTATATATTTTTAAAAAATATTT
1 ATTTATTTTTATATATTTTTAAAAAATATTT
43297710 ATTTATTTTTATATATTTTTAAAA
1 ATTTATTTTTATATATTTTTAAAA
43297734 TTTATTGTTG
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
29 12 0.23
30 6 0.12
31 34 0.65
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (31 bp):
ATTTATTTTTATATATTTTTAAAAAATATTT
Found at i:43303132 original size:19 final size:18
Alignment explanation
Indices: 43303096--43303134 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
43303086 AATTTTAAAA
* *
43303096 TATTTTTTAAAAATTTTT
1 TATTTTTAAAAAAATTTT
43303114 TATTTTTAAAACAAATTTT
1 TATTTTTAAAA-AAATTTT
43303133 TA
1 TA
43303135 GTGTTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
TATTTTTAAAAAAATTTT
Found at i:43304477 original size:21 final size:18
Alignment explanation
Indices: 43304436--43304472 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
43304426 AATAGGAGGA
43304436 TGACAAATCAAATTTTCT
1 TGACAAATCAAATTTTCT
43304454 TGACAAATCAAATTTTCT
1 TGACAAATCAAATTTTCT
43304472 T
1 T
43304473 CTTGATTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.41
Consensus pattern (18 bp):
TGACAAATCAAATTTTCT
Found at i:43304659 original size:10 final size:11
Alignment explanation
Indices: 43304644--43304673 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
43304634 ACTTGACTTC
43304644 AAATTTAAAT-
1 AAATTTAAATA
43304654 AAATTTAAATA
1 AAATTTAAATA
43304665 AAATTTAAA
1 AAATTTAAA
43304674 ATTTTCAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AAATTTAAATA
Found at i:43306331 original size:20 final size:20
Alignment explanation
Indices: 43306306--43306343 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
43306296 AGAAAAAAAT
*
43306306 ATAGAAATTATAAAATATGG
1 ATAGAAAGTATAAAATATGG
*
43306326 ATAGAAAGTATAATATAT
1 ATAGAAAGTATAAAATAT
43306344 ATATACGTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (20 bp):
ATAGAAAGTATAAAATATGG
Found at i:43306377 original size:16 final size:16
Alignment explanation
Indices: 43306331--43306475 Score: 70
Period size: 16 Copynumber: 9.1 Consensus size: 16
43306321 TATGGATAGA
*
43306331 AAGTATAATATATATAT
1 AAGT-TAATAAATATAT
* *
43306348 ACG-TACATATATATAT
1 AAGTTA-ATAAATATAT
43306364 AAGTTAATAAATATAT
1 AAGTTAATAAATATAT
* * *
43306380 -AGATCATAAAGATAAT
1 AAGTTAATAAATAT-AT
* * *
43306396 GATTTCATATATATATAT
1 AAGTT-A-ATAAATATAT
*
43306414 AAGGTAATAAATATAT
1 AAGTTAATAAATATAT
* *
43306430 AA-ATCATAAA-A-AT
1 AAGTTAATAAATATAT
43306443 AA--TAATCAAATATAT
1 AAGTTAAT-AAATATAT
*
43306458 AAGGTAATAAATATAT
1 AAGTTAATAAATATAT
43306474 AA
1 AA
43306476 ATCATAAAAA
Statistics
Matches: 99, Mismatches: 18, Indels: 23
0.71 0.13 0.16
Matches are distributed among these distances:
12 3 0.03
13 7 0.07
14 2 0.02
15 22 0.22
16 44 0.44
17 11 0.11
18 4 0.04
19 6 0.06
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.34
Consensus pattern (16 bp):
AAGTTAATAAATATAT
Found at i:43306422 original size:50 final size:46
Alignment explanation
Indices: 43306353--43306492 Score: 194
Period size: 44 Copynumber: 3.0 Consensus size: 46
43306343 TATATACGTA
* * * *
43306353 CATATATATATAAGTTAATAAATATATAGATCATAAAGATAATGATTT
1 CATATATATATAAGGTAATAAATATATAAATCATAAAAATAAT-A-AT
43306401 CATATATATATATAAGGTAATAAATATATAAATCATAAAAATAATAAT
1 C--ATATATATATAAGGTAATAAATATATAAATCATAAAAATAATAAT
43306449 CA-A-ATATATAAGGTAATAAATATATAAATCATAAAAATAATAAT
1 CATATATATATAAGGTAATAAATATATAAATCATAAAAATAATAAT
43306493 TACATGTATA
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
44 41 0.48
45 1 0.01
46 1 0.01
48 3 0.03
49 1 0.01
50 39 0.45
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (46 bp):
CATATATATATAAGGTAATAAATATATAAATCATAAAAATAATAAT
Found at i:43306429 original size:20 final size:20
Alignment explanation
Indices: 43306404--43306474 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
43306394 ATGATTTCAT
43306404 ATATATATATAAGGTAATAA
1 ATATATATATAAGGTAATAA
**
43306424 ATATATAAATCATAAAAATAAT-A
1 ATATAT--AT-AT-AAGGTAATAA
*
43306447 ATCAAATATATAAGGTAATAA
1 AT-ATATATATAAGGTAATAA
43306468 ATATATA
1 ATATATA
43306475 AATCATAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
20 16 0.41
21 5 0.13
22 4 0.10
23 5 0.13
24 9 0.23
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (20 bp):
ATATATATATAAGGTAATAA
Found at i:43306431 original size:8 final size:8
Alignment explanation
Indices: 43306402--43306491 Score: 51
Period size: 8 Copynumber: 10.8 Consensus size: 8
43306392 TAATGATTTC
*
43306402 ATATATAT
1 ATATAAAT
*
43306410 ATATAAGGT
1 ATATAA-AT
43306419 A-ATAAAT
1 ATATAAAT
43306426 ATATAAAT
1 ATATAAAT
*
43306434 CATAAAAAT
1 -ATATAAAT
43306443 AATAATCAAAT
1 -AT-AT-AAAT
*
43306454 ATATAAGGT
1 ATATAA-AT
43306463 A-ATAAAT
1 ATATAAAT
43306470 ATATAAAT
1 ATATAAAT
*
43306478 CATAAAAAT
1 -ATATAAAT
43306487 A-ATAA
1 ATATAA
43306492 TTACATGTAT
Statistics
Matches: 64, Mismatches: 10, Indels: 17
0.70 0.11 0.19
Matches are distributed among these distances:
7 7 0.11
8 28 0.44
9 22 0.34
10 3 0.05
11 4 0.06
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.31
Consensus pattern (8 bp):
ATATAAAT
Found at i:43313546 original size:16 final size:17
Alignment explanation
Indices: 43313517--43313548 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
43313507 ATACAAAATT
43313517 AAAAAAAATCGTATTTG
1 AAAAAAAATCGTATTTG
43313534 AAAAAAAAT-GTATTT
1 AAAAAAAATCGTATTT
43313549 CGAATATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.56, C:0.03, G:0.09, T:0.31
Consensus pattern (17 bp):
AAAAAAAATCGTATTTG
Found at i:43322604 original size:3 final size:3
Alignment explanation
Indices: 43322596--43322646 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
43322586 CAACTTCACC
43322596 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
43322644 TAT
1 TAT
43322647 CAACCAAGGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:43324434 original size:36 final size:36
Alignment explanation
Indices: 43324338--43324634 Score: 182
Period size: 36 Copynumber: 8.4 Consensus size: 36
43324328 TAGTAGGACT
* *
43324338 GACAAATATGTGTGCCCAGCACTGGTCGATATAACC
1 GACAAATATGTGTGCCTAGCACTGGTCGGTATAACC
** ** ** * *
43324374 GA-AAATAAATGCACCCT-GTGCTGGTCGGTAAAACT
1 GACAAATATGTG-TGCCTAGCACTGGTCGGTATAACC
43324409 GACAAATATGTGTGCCTAGCACTGGTCGGTATAACC
1 GACAAATATGTGTGCCTAGCACTGGTCGGTATAACC
** * ** * * *
43324445 GA-AAATAAAATGTGCAGT-GCGTTGGTTGGTAAAATC
1 GACAAAT-ATGTGTGC-CTAGCACTGGTCGGTATAACC
* * *
43324481 GACAAATATGTGTGCCCAACACTGGTCGGTATAACT
1 GACAAATATGTGTGCCTAGCACTGGTCGGTATAACC
* * *
43324517 GAC-AATAAGTGCGCCCT-G--CTGGTCGGTAAAACC
1 GACAAATATGTGTG-CCTAGCACTGGTCGGTATAACC
* * *
43324550 AATAAATATGTGTGCCTAGCACTGGTCGATATAACC
1 GACAAATATGTGTGCCTAGCACTGGTCGGTATAACC
* * * * *
43324586 GACAATAAATGAG-CCCTA-CGCTGGTCGGTAGAACC
1 GACAA-ATATGTGTGCCTAGCACTGGTCGGTATAACC
*
43324621 GAAAAATATGTGTG
1 GACAAATATGTGTG
43324635 AAATCATTTC
Statistics
Matches: 186, Mismatches: 61, Indels: 29
0.67 0.22 0.11
Matches are distributed among these distances:
33 17 0.09
34 14 0.08
35 55 0.30
36 90 0.48
37 10 0.05
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (36 bp):
GACAAATATGTGTGCCTAGCACTGGTCGGTATAACC
Found at i:43324442 original size:71 final size:71
Alignment explanation
Indices: 43324335--43324634 Score: 329
Period size: 71 Copynumber: 4.2 Consensus size: 71
43324325 GGTTAGTAGG
*
43324335 ACTGACAAATATGTGTGCCCAGCACTGGTCGATATAACCGAAAATAAATGCACCCTGTGCTGGTC
1 ACTGACAAATATGTGTGCCCAGCACTGGTCGATATAACCGAAAATAAATGCACCCTGCGCTGGTC
43324400 GGTAAA
66 GGTAAA
* * ** ** *
43324406 ACTGACAAATATGTGTGCCTAGCACTGGTCGGTATAACCGAAAATAAAATGTGCAGTGCGTTGGT
1 ACTGACAAATATGTGTGCCCAGCACTGGTCGATATAACCGAAAAT-AAATGCACCCTGCGCTGGT
*
43324471 TGGTAAA
65 CGGTAAA
* * * * * *
43324478 A-TCGACAAATATGTGTGCCCAACACTGGTCGGTATAACTGACAATAAGTGCGCCCT--GCTGGT
1 ACT-GACAAATATGTGTGCCCAGCACTGGTCGATATAACCGAAAATAAATGCACCCTGCGCTGGT
43324540 CGGTAAA
65 CGGTAAA
** * * * *
43324547 ACCAATAAATATGTGTGCCTAGCACTGGTCGATATAACCGACAATAAATG-AGCCCTACGCTGGT
1 ACTGACAAATATGTGTGCCCAGCACTGGTCGATATAACCGAAAATAAATGCA-CCCTGCGCTGGT
*
43324611 CGGTAGA
65 CGGTAAA
* *
43324618 ACCGAAAAATATGTGTG
1 ACTGACAAATATGTGTG
43324635 AAATCATTTC
Statistics
Matches: 192, Mismatches: 31, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
69 56 0.29
71 78 0.41
72 58 0.30
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (71 bp):
ACTGACAAATATGTGTGCCCAGCACTGGTCGATATAACCGAAAATAAATGCACCCTGCGCTGGTC
GGTAAA
Found at i:43324585 original size:141 final size:142
Alignment explanation
Indices: 43324338--43324594 Score: 399
Period size: 141 Copynumber: 1.8 Consensus size: 142
43324328 TAGTAGGACT
*
43324338 GACAAATATGTGTGCCCAGCACTGGTCGATATAACCGAAAATAAATGCACCCTGTGCTGGTCGGT
1 GACAAATATGTGTGCCCAACACTGGTCGATATAACCGAAAATAAATGCACCC-GTGCTGGTCGGT
** *
43324403 AAAACTGACAAATATGTGTGCCTAGCACTGGTCGGTATAACCGAAAATAAAATGTGCAGTGCGTT
65 AAAACCAACAAATATGTGTGCCTAGCACTGGTCGATATAACCGAAAATAAAATGTGCAGTGCGTT
43324468 GGTTGGTAAAATC
130 GGTTGGTAAAATC
* * * * *
43324481 GACAAATATGTGTGCCCAACACTGGTCGGTATAACTGACAATAAGTGCGCCC-TGCTGGTCGGTA
1 GACAAATATGTGTGCCCAACACTGGTCGATATAACCGAAAATAAATGCACCCGTGCTGGTCGGTA
* *
43324545 AAACCAATAAATATGTGTGCCTAGCACTGGTCGATATAACCGACAATAAA
66 AAACCAACAAATATGTGTGCCTAGCACTGGTCGATATAACCGAAAATAAA
43324595 TGAGCCCTAC
Statistics
Matches: 103, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
141 57 0.55
143 46 0.45
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (142 bp):
GACAAATATGTGTGCCCAACACTGGTCGATATAACCGAAAATAAATGCACCCGTGCTGGTCGGTA
AAACCAACAAATATGTGTGCCTAGCACTGGTCGATATAACCGAAAATAAAATGTGCAGTGCGTTG
GTTGGTAAAATC
Found at i:43333552 original size:40 final size:40
Alignment explanation
Indices: 43333456--43333553 Score: 126
Period size: 41 Copynumber: 2.4 Consensus size: 40
43333446 ATATATAATT
*
43333456 AAATAAAACATAAATAAAATAAAATTCCTAAAATATACTA
1 AAATAAAATATAAATAAAATAAAATTCCTAAAATATACTA
** *
43333496 AAATTAACTTATAAATAAAATAAAA-TCCTAAAATCCTACTA
1 AAA-TAAAATATAAATAAAATAAAATTCCTAAAAT-ATACTA
*
43333537 AAATAAAATACAAATAA
1 AAATAAAATATAAATAA
43333554 CACTAAGATA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
40 23 0.47
41 26 0.53
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (40 bp):
AAATAAAATATAAATAAAATAAAATTCCTAAAATATACTA
Found at i:43338602 original size:25 final size:26
Alignment explanation
Indices: 43338555--43338619 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 26
43338545 ACGAGCTATA
* *
43338555 AACGGTAAGCTCCT-CTAAGCTGAAT
1 AACGGTAAGCTCATACTAACCTGAAT
*
43338580 AACGGTAAGCTCATAC-AACCTGAGT
1 AACGGTAAGCTCATACTAACCTGAAT
* *
43338605 ATCAGTAAGCTCATA
1 AACGGTAAGCTCATA
43338620 AGAGCTGGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 33 0.97
26 1 0.03
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.23
Consensus pattern (26 bp):
AACGGTAAGCTCATACTAACCTGAAT
Found at i:43341368 original size:23 final size:23
Alignment explanation
Indices: 43341342--43341387 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
43341332 TAATCAAAAG
*
43341342 GATTTTCCCAACTCCCCATTATC
1 GATTATCCCAACTCCCCATTATC
43341365 GATTATCCCAACTCCCCATTATC
1 GATTATCCCAACTCCCCATTATC
43341388 CCATTAACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.24, C:0.39, G:0.04, T:0.33
Consensus pattern (23 bp):
GATTATCCCAACTCCCCATTATC
Found at i:43345045 original size:67 final size:67
Alignment explanation
Indices: 43344937--43345071 Score: 234
Period size: 67 Copynumber: 2.0 Consensus size: 67
43344927 TTTCCAATTC
**
43344937 AGAGAGCACACTCTTGCAAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
1 AGAGAGCACACTCCCGCAAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
43345002 CA
66 CA
**
43345004 AGAGAGCACACTCCCGTGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
1 AGAGAGCACACTCCCGCAAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
43345069 CA
66 CA
43345071 A
1 A
43345072 TGATAATTAT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (67 bp):
AGAGAGCACACTCCCGCAAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
CA
Found at i:43353479 original size:18 final size:18
Alignment explanation
Indices: 43353445--43353479 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
43353435 TCAAACCAAC
*
43353445 AGTCCAAAAAGTCCAAAG
1 AGTCCAAAAAGTACAAAG
*
43353463 AGTCCAAAAATTACAAA
1 AGTCCAAAAAGTACAAA
43353480 ACCCTCACGA
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:0.54, C:0.20, G:0.11, T:0.14
Consensus pattern (18 bp):
AGTCCAAAAAGTACAAAG
Found at i:43354260 original size:31 final size:30
Alignment explanation
Indices: 43354222--43354325 Score: 145
Period size: 31 Copynumber: 3.4 Consensus size: 30
43354212 TGGCCTAAAA
43354222 CCCACACGCCCGTGTGGCATACTCGTGTAGG
1 CCCACACGCCCGTGTGGCATAC-CGTGTAGG
* * *
43354253 CCTACACGCCCATGTGGCATACCCGTATAGG
1 CCCACACGCCCGTGTGGCATA-CCGTGTAGG
*
43354284 CCCACAAGCCCGTGTGGCATACCTGTGTAGG
1 CCCACACGCCCGTGTGGCATACC-GTGTAGG
43354315 CCCACACGCCC
1 CCCACACGCCC
43354326 AATCTTGCCT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
30 2 0.03
31 60 0.95
32 1 0.02
ACGTcount: A:0.19, C:0.38, G:0.25, T:0.17
Consensus pattern (30 bp):
CCCACACGCCCGTGTGGCATACCGTGTAGG
Found at i:43354299 original size:62 final size:63
Alignment explanation
Indices: 43354222--43354352 Score: 178
Period size: 62 Copynumber: 2.1 Consensus size: 63
43354212 TGGCCTAAAA
* * *
43354222 CCCACACGCCCGTGTGGCATA-CTCGTGTAGGCCTACACGCCC-ATGTGGCATA-CCCGTATAGG
1 CCCACAAGCCCGTGTGGCATACCT-GTGTAGGCCCACACGCCCAATCTGGCATAGCCCGTAT-GG
* *
43354284 CCCACAAGCCCGTGTGGCATACCTGTGTAGGCCCACACGCCCAATCTTGCCTAGCCCGTATGG
1 CCCACAAGCCCGTGTGGCATACCTGTGTAGGCCCACACGCCCAATCTGGCATAGCCCGTATGG
43354347 CCCACA
1 CCCACA
43354353 CAGGCACACT
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
62 37 0.61
63 17 0.28
64 7 0.11
ACGTcount: A:0.20, C:0.38, G:0.24, T:0.18
Consensus pattern (63 bp):
CCCACAAGCCCGTGTGGCATACCTGTGTAGGCCCACACGCCCAATCTGGCATAGCCCGTATGG
Found at i:43359792 original size:29 final size:30
Alignment explanation
Indices: 43359720--43359793 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 30
43359710 TAAAAAGCTC
* * *
43359720 TTATTTGAATACTTTAAAAAAGGTTTGCCTT
1 TTATTTGAACACTTT-GAAAAGGTTTGACTT
*
43359751 TTATTTGAGCACTTTGAAAA-GTTTGACTT
1 TTATTTGAACACTTTGAAAAGGTTTGACTT
43359780 TTATTT-ACACACTT
1 TTATTTGA-ACACTT
43359794 CTGCAAATGT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 1 0.03
29 19 0.51
30 4 0.11
31 13 0.35
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (30 bp):
TTATTTGAACACTTTGAAAAGGTTTGACTT
Found at i:43359965 original size:18 final size:18
Alignment explanation
Indices: 43359942--43360005 Score: 67
Period size: 18 Copynumber: 3.5 Consensus size: 18
43359932 CCTTCAATTT
43359942 CTTAAAAAAATATTTTAA
1 CTTAAAAAAATATTTTAA
* **
43359960 CTTAAAAAAGAGA-TGAAA
1 CTTAAAAAA-ATATTTTAA
*
43359978 ATTAAAAAAAATATTTTAA
1 CTT-AAAAAAATATTTTAA
43359997 CTTAAAAAA
1 CTTAAAAAA
43360006 GAGATGAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
18 22 0.63
19 13 0.37
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.30
Consensus pattern (18 bp):
CTTAAAAAAATATTTTAA
Found at i:43359992 original size:37 final size:37
Alignment explanation
Indices: 43359945--43360025 Score: 153
Period size: 37 Copynumber: 2.2 Consensus size: 37
43359935 TCAATTTCTT
43359945 AAAAAAATATTTTAACTTAAAAAAGAGATGAAAATTA
1 AAAAAAATATTTTAACTTAAAAAAGAGATGAAAATTA
43359982 AAAAAAATATTTTAACTTAAAAAAGAGATGAAAATTA
1 AAAAAAATATTTTAACTTAAAAAAGAGATGAAAATTA
*
43360019 AATAAAA
1 AAAAAAA
43360026 GACTAAAATG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.26
Consensus pattern (37 bp):
AAAAAAATATTTTAACTTAAAAAAGAGATGAAAATTA
Found at i:43360019 original size:18 final size:18
Alignment explanation
Indices: 43359961--43360020 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
43359951 ATATTTTAAC
43359961 TTAAAAAAGAGATGAAAA
1 TTAAAAAAGAGATGAAAA
* * ** *
43359979 TTAAAAAAAATATTTTAAC
1 TTAAAAAAGAGA-TGAAAA
43359998 TTAAAAAAGAGATGAAAA
1 TTAAAAAAGAGATGAAAA
43360016 TTAAA
1 TTAAA
43360021 TAAAAGACTA
Statistics
Matches: 31, Mismatches: 10, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
18 18 0.58
19 13 0.42
ACGTcount: A:0.63, C:0.02, G:0.10, T:0.25
Consensus pattern (18 bp):
TTAAAAAAGAGATGAAAA
Found at i:43368707 original size:18 final size:18
Alignment explanation
Indices: 43368671--43368728 Score: 52
Period size: 17 Copynumber: 3.3 Consensus size: 18
43368661 ATTATTTGTA
*
43368671 ATTATTATATTTAAT-TTT
1 ATTATTA-ATTAAATATTT
43368689 ATTATTAATTAAATATTT
1 ATTATTAATTAAATATTT
*
43368707 AATT-TTAA-AAAATATTT
1 -ATTATTAATTAAATATTT
43368724 -TTATT
1 ATTATT
43368729 GATATTTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
15 2 0.06
16 2 0.06
17 14 0.40
18 14 0.40
19 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTATTAATTAAATATTT
Found at i:43374060 original size:24 final size:25
Alignment explanation
Indices: 43374032--43374131 Score: 78
Period size: 25 Copynumber: 4.0 Consensus size: 25
43374022 GAGTTACCCG
*
43374032 TTAAGCTCAAATGAGCTTTCTGTT-
1 TTAAGCTCAAATGAGCTTCCTGTTA
**
43374056 TTAAGCTCTTATGAGCTTCCTGTTA
1 TTAAGCTCAAATGAGCTTCCTGTTA
* ** *
43374081 TTAAGCCCGGATAAGCTTCCTGTTA
1 TTAAGCTCAAATGAGCTTCCTGTTA
* * * *
43374106 -CATGGTTCACATGAGCTTCCTGTTA
1 TTA-AGCTCAAATGAGCTTCCTGTTA
43374131 T
1 T
43374132 GTGGCTTGAG
Statistics
Matches: 59, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
24 22 0.37
25 37 0.63
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (25 bp):
TTAAGCTCAAATGAGCTTCCTGTTA
Found at i:43375144 original size:133 final size:132
Alignment explanation
Indices: 43374906--43375302 Score: 740
Period size: 133 Copynumber: 3.0 Consensus size: 132
43374896 TATATTTGGT
43374906 AAGTTTGGACACTTGAACATATGTGATAATATGATATGCATAAGACTTGGTATTGGCTTAGTTTT
1 AAGTTTGGACACTTGAACATATGTGATAATATGATATGCATAAGACTTGGTATTGGCTTAGTTTT
*
43374971 AATGTTTTGAATTGGTCGGTAAATGTATTTAAGTGTTTATGTAGGTAGAAGACAAGTTTGGGTGA
66 AATGTTTTGAATTGGTTGGTAAATGTATTTAAGTGTTTATGTAGGT-GAAGACAAGTTTGGGTGA
43375036 GAA
130 GAA
*
43375039 AAGTTTGGACACTTGAACATATGTGATAATATGATATGCATAAGACTTGATATTGGCTTAGTTTT
1 AAGTTTGGACACTTGAACATATGTGATAATATGATATGCATAAGACTTGGTATTGGCTTAGTTTT
43375104 AATGTTTTGAATTGGTTGGTAAATGTATTTAAGTGTTTATGTAGGTGGAAGACAAGTTTGGGTGA
66 AATGTTTTGAATTGGTTGGTAAATGTATTTAAGTGTTTATGTAGGT-GAAGACAAGTTTGGGTGA
43375169 GAA
130 GAA
*
43375172 AAGTTTGGACACTTGAACATATGTGATAAGATGATATGCATAAGACTTGGTATTGGCTTAGTTTT
1 AAGTTTGGACACTTGAACATATGTGATAATATGATATGCATAAGACTTGGTATTGGCTTAGTTTT
43375237 AATGTTTTGAATTGGTTGGTAAATGTATTTAAGTGTTTATGTAGGTGAAAGACAAGTTTGGGTGA
66 AATGTTTTGAATTGGTTGGTAAATGTATTTAAGTGTTTATGTAGGTG-AAGACAAGTTTGGGTGA
43375302 G
130 G
43375303 GAATAGGCTT
Statistics
Matches: 258, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
132 1 0.00
133 257 1.00
ACGTcount: A:0.30, C:0.06, G:0.26, T:0.38
Consensus pattern (132 bp):
AAGTTTGGACACTTGAACATATGTGATAATATGATATGCATAAGACTTGGTATTGGCTTAGTTTT
AATGTTTTGAATTGGTTGGTAAATGTATTTAAGTGTTTATGTAGGTGAAGACAAGTTTGGGTGAG
AA
Found at i:43376022 original size:17 final size:17
Alignment explanation
Indices: 43376001--43376044 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
43375991 ATGGAATTAG
43376001 AATTTAGTTGAGAAAATT
1 AATTTAGTT-AGAAAATT
*
43376019 -ATTTAATTAGAAAATT
1 AATTTAGTTAGAAAATT
43376035 AATTTAGTTA
1 AATTTAGTTA
43376045 ATTTAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.43
Consensus pattern (17 bp):
AATTTAGTTAGAAAATT
Found at i:43385825 original size:15 final size:16
Alignment explanation
Indices: 43385807--43385839 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
43385797 AAAATAAATT
*
43385807 TAAAAAA-ATTAAAAC
1 TAAAAAAGATAAAAAC
43385822 TAAAAAAGATAAAAAC
1 TAAAAAAGATAAAAAC
43385838 TA
1 TA
43385840 TTTAAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.73, C:0.06, G:0.03, T:0.18
Consensus pattern (16 bp):
TAAAAAAGATAAAAAC
Found at i:43385836 original size:25 final size:23
Alignment explanation
Indices: 43385808--43385867 Score: 57
Period size: 24 Copynumber: 2.4 Consensus size: 23
43385798 AAATAAATTT
43385808 AAAAAAATTAAAACTAAAAAAGATA
1 AAAAAAATTAAAA-TAAAAAA-ATA
* * *
43385833 AAAACTATTTAAAATTAAAAAATA
1 AAAA-AAATTAAAATAAAAAAATA
43385857 AAAAAGAATTA
1 AAAAA-AATTA
43385868 TAAAAAATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
24 11 0.39
25 10 0.36
26 7 0.25
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (23 bp):
AAAAAAATTAAAATAAAAAAATA
Found at i:43385859 original size:39 final size:39
Alignment explanation
Indices: 43385809--43385894 Score: 95
Period size: 37 Copynumber: 2.2 Consensus size: 39
43385799 AATAAATTTA
*
43385809 AAAAAATTAAAACTAAAAAAGATAAAAACTA-TTTAAAAT-T
1 AAAAAA-TAAAA--AAAAAAGATAAAAAATATTTTAAAATAT
* **
43385849 AAAAAATAAAAAAGAATTATAAAAAATATTTTAAAATAT
1 AAAAAATAAAAAAAAAAGATAAAAAATATTTTAAAATAT
43385888 AAAAAAT
1 AAAAAAT
43385895 TACAAAATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
37 13 0.32
38 8 0.20
39 13 0.32
40 6 0.15
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (39 bp):
AAAAAATAAAAAAAAAAGATAAAAAATATTTTAAAATAT
Found at i:43385871 original size:26 final size:26
Alignment explanation
Indices: 43385807--43385872 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 26
43385797 AAAATAAATT
43385807 TAAAAA-AA-TTAAAACTAAAAAAGA
1 TAAAAACAATTTAAAACTAAAAAAGA
* * *
43385831 TAAAAACTATTTAAAATTAAAAAATA
1 TAAAAACAATTTAAAACTAAAAAAGA
*
43385857 -AAAAAGAATTATAAAA
1 TAAAAACAATT-TAAAA
43385873 AATATTTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
24 6 0.18
25 9 0.26
26 19 0.56
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (26 bp):
TAAAAACAATTTAAAACTAAAAAAGA
Found at i:43386701 original size:51 final size:51
Alignment explanation
Indices: 43386646--43386764 Score: 132
Period size: 51 Copynumber: 2.3 Consensus size: 51
43386636 GGCCTTAAAT
* * * *
43386646 TTTACATATCCTGTCAATTTGATCTTGATTTAACAAATTTAG-CTCACAACA
1 TTTACACATCCTATCAATCTGATCATGATTTAACAAATTTAGCCT-ACAACA
* * * *
43386697 TTTACACGTTCTATCAATCTGGTCATGATTTAACAAATTTTGCCTACAACA
1 TTTACACATCCTATCAATCTGATCATGATTTAACAAATTTAGCCTACAACA
* *
43386748 TTTTCACATTCTATCAA
1 TTTACACATCCTATCAA
43386765 CATTTACAGA
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
51 55 0.96
52 2 0.04
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (51 bp):
TTTACACATCCTATCAATCTGATCATGATTTAACAAATTTAGCCTACAACA
Found at i:43387731 original size:15 final size:15
Alignment explanation
Indices: 43387706--43387740 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
43387696 AACTCTATTT
*
43387706 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
43387720 TAATTAATATTAAGA
1 TAATTAATATTAAGA
43387735 TAATTA
1 TAATTA
43387741 TTAAGGGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:43392239 original size:12 final size:14
Alignment explanation
Indices: 43392217--43392255 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
43392207 AGGAAAATTT
*
43392217 TAATAATAATATAAA
1 TAATAAT-ATATACA
*
43392232 TGATAATATATACA
1 TAATAATATATACA
43392246 TAATAATATA
1 TAATAATATA
43392256 CAAAAGTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (14 bp):
TAATAATATATACA
Found at i:43392355 original size:23 final size:23
Alignment explanation
Indices: 43392309--43392353 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
43392299 TTTTTTCTTT
* *
43392309 TAAAAAAAATATGTAAGTATAAA
1 TAAAAAAAAGATATAAGTATAAA
43392332 TAAAAAAAAGATATAA-TATAAA
1 TAAAAAAAAGATATAAGTATAAA
43392354 ATCAATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (23 bp):
TAAAAAAAAGATATAAGTATAAA
Found at i:43392517 original size:18 final size:18
Alignment explanation
Indices: 43392494--43392530 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
43392484 AAATATGTAG
43392494 ATAAATATATAA-ACTAAT
1 ATAAATA-ATAATACTAAT
43392512 ATAAATAATAATACTAAT
1 ATAAATAATAATACTAAT
43392530 A
1 A
43392531 ATGATGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAATAATAATACTAAT
Found at i:43393745 original size:14 final size:14
Alignment explanation
Indices: 43393708--43393746 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
43393698 TTGGGCTTCA
43393708 ATGTAATTGGGCCG
1 ATGTAATTGGGCCG
* *
43393722 AGGTATTTGGGCCG
1 ATGTAATTGGGCCG
*
43393736 TTGTAATTGGG
1 ATGTAATTGGG
43393747 TTTGTATAAC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.18, C:0.10, G:0.38, T:0.33
Consensus pattern (14 bp):
ATGTAATTGGGCCG
Found at i:43394322 original size:12 final size:12
Alignment explanation
Indices: 43394305--43394351 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
43394295 TTTAGTTTCC
43394305 TTACTTTATTTA
1 TTACTTTATTTA
43394317 TTACTTTATTTTA
1 TTACTTTA-TTTA
*
43394330 TT-TTATTATTTA
1 TTACT-TTATTTA
43394342 TTAC-TTATTT
1 TTACTTTATTT
43394352 GGATACTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
11 6 0.20
12 15 0.50
13 9 0.30
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.70
Consensus pattern (12 bp):
TTACTTTATTTA
Found at i:43395389 original size:16 final size:16
Alignment explanation
Indices: 43395370--43395430 Score: 56
Period size: 16 Copynumber: 3.8 Consensus size: 16
43395360 TTCCTAAAGC
43395370 ATAAAAAATATAAATA
1 ATAAAAAATATAAATA
43395386 ATAAATAAATATAAATCA
1 ATAAA-AAATATAAAT-A
*
43395404 A-AATAAATA-AAA-A
1 ATAAAAAATATAAATA
*
43395417 AGAAAAAAATATAA
1 A-TAAAAAATATAA
43395431 TTTGGGGACT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 2 0.05
15 10 0.26
16 12 0.32
17 12 0.32
18 2 0.05
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (16 bp):
ATAAAAAATATAAATA
Found at i:43395416 original size:10 final size:10
Alignment explanation
Indices: 43395370--43395416 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
43395360 TTCCTAAAGC
*
43395370 ATAAAAA-AT
1 ATAAAAATAA
43395379 ATAAATAATAA
1 ATAAA-AATAA
*
43395390 ATAAATATAA
1 ATAAAAATAA
*
43395400 ATCAAAATAA
1 ATAAAAATAA
43395410 ATAAAAA
1 ATAAAAA
43395417 AGAAAAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
9 5 0.16
10 20 0.65
11 6 0.19
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (10 bp):
ATAAAAATAA
Found at i:43396004 original size:15 final size:15
Alignment explanation
Indices: 43395979--43396013 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
43395969 AACTCTATTT
*
43395979 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
43395993 TAATTAATATTAAGA
1 TAATTAATATTAAGA
43396008 TAATTA
1 TAATTA
43396014 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:43397599 original size:40 final size:40
Alignment explanation
Indices: 43397555--43397634 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
43397545 AAAATCATAA
* *
43397555 CTGAAAGATGTTATGGCATCATAAATGAGTAAGACTATAG
1 CTGAAAGATGTTATGACATCATAAATGAGTAAGACAATAG
43397595 CTGAAAGATGTTATGACATCATAAATGAGTAAGACAATAG
1 CTGAAAGATGTTATGACATCATAAATGAGTAAGACAATAG
43397635 TTAAAAGGCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.26
Consensus pattern (40 bp):
CTGAAAGATGTTATGACATCATAAATGAGTAAGACAATAG
Found at i:43397654 original size:40 final size:40
Alignment explanation
Indices: 43397571--43397654 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 40
43397561 GATGTTATGG
* * *** *
43397571 CATCATAAATGAGTAAGACTATAGCTGAAAGATGTTATGA
1 CATCATAAATGAGTAAGACAATAGCTAAAAGACACTATAA
* *
43397611 CATCATAAATGAGTAAGACAATAGTTAAAAGGCACTATAA
1 CATCATAAATGAGTAAGACAATAGCTAAAAGACACTATAA
43397651 CATC
1 CATC
43397655 CTTTGATAGT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.45, C:0.13, G:0.17, T:0.25
Consensus pattern (40 bp):
CATCATAAATGAGTAAGACAATAGCTAAAAGACACTATAA
Found at i:43399024 original size:40 final size:40
Alignment explanation
Indices: 43398970--43399072 Score: 170
Period size: 40 Copynumber: 2.6 Consensus size: 40
43398960 AATTTAAATG
* * *
43398970 TGAGTAAGATCATAGTTGAAAGAGGTTATGGCATCATAAA
1 TGAGTAAGACCATAGCTGAAAGAGGTTATGACATCATAAA
*
43399010 TGAGTAAGACCATAGCTGAAAGATGTTATGACATCATAAA
1 TGAGTAAGACCATAGCTGAAAGAGGTTATGACATCATAAA
43399050 TGAGTAAGACCATAGCTGAAAGA
1 TGAGTAAGACCATAGCTGAAAGA
43399073 CACTATAGCA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.24
Consensus pattern (40 bp):
TGAGTAAGACCATAGCTGAAAGAGGTTATGACATCATAAA
Found at i:43399682 original size:716 final size:718
Alignment explanation
Indices: 43397535--43400421 Score: 3448
Period size: 715 Copynumber: 4.0 Consensus size: 718
43397525 GCTATACACC
* * *
43397535 AAATATGAGTAAAATCATAACTGAAAGATGTTATGGCATCATAAATGAGTAAGACTATAGCTGAA
1 AAATATGAGTAAGATCATAGCTGAAAGATGTTATGGCATCATAAATGAGTAAGACCATAGCTGAA
* * * *
43397600 AGATGTTATGACATCATAAATGAGTAAGACAATAGTTAAAAGGCACTATA-ACATCCTTTGATAG
66 AGATGTTATGACATCATAAATGAGTAAGACCATAGCTGAAAGACACTATAGACATCCTTTGATAG
* * * * * * * ** * * *
43397664 TCCGTCAAAAAAATAAACACCAGATTATATCGTGTAAGACCATAGATGAAAGATACTACAACATC
131 TCCGTCGAGACAGTAAACACGAGGTTATATCGTGTAAGACCATAGCTGAAAGACGCCATAGCATC
* * * * * * * * * *
43397729 ATAGATAGTTCGTCAGGACAACAAACATGGGATATTCCAC-CAAGATAATAATCA-TGGGACAAT
196 GTAGATAGTTCCTGA-GACAATAAACACGAGATAATCCACTGAA-ACAATAATCACAGGG-CAAT
* * *
43397792 TCGCCAATACAGAAAGCATGGTAACATCCACCAAGACAATTAG-TATGGAAAAAAAGAGTGAAAG
258 TCGCCAAGACAGAAAGCGTGGTAACATCCACCAAGACAATTAGCT-TGGAAAGAAAGAGTGAAAG
* * *
43397856 ACCATAAATCGGTTATAACATCATGAAGACCCAATCGATAAGGTAAACATGAGAGTTTAAAAGGT
322 ACCATAAATCGGTTATGACATCATGAAGACTCAATCGATAAGGTGAACATGAGAGTTTAAAAGGT
* * * *
43397921 GTAAATTTTGGGCTCGGTGATGGAGGTTGGTAAAGATCGCCGAAA-GGAGTGAATTCTAAGGCTT
387 GTAAATTCTGGGCTCGGTGATGGAGGTTGGTAAAGATCGTCGAAATAGAGTGGATTCTAAGGCTT
* * * * *
43397985 ATTGAACAAGAGGATATATTTAATCAAGGATAGGGACTTGAGGGTCCACAGACAAATGGGGCAAT
452 ATTGAACAAGAGGATGTATTTAATTAAGGACAGAGACTTAAGGGTCCACAGACAAATGGGGCAAT
* * * * *
43398050 TAAGGGCGATTATGTTCATCGAGGTTATACGGGGCTAAGTCACTCAAGTTGGCAAAAGAATG-AA
517 TAAGGGGGATTATGTCCATCAAGGTTATACGGGGCTAAGTCACCCAGGTTGGCAAAAGAA-GAAA
* * * *
43398114 TCCGTTAAGGACTAACCTAGGGCGGGCAGTCCACTAGGAAATATGAGGGATAAAAATTTGAAACC
581 TCCGTTAAGGACTAACCTAGGGCGGGTAGTCCACCAAGAAATAAGAGGGATAAAAATTTGAAACC
* *
43398179 TATGGAAATAAATGTTAGACAACCAATGACCGACATTGGGTCTCCCATTCAAGGTTGTGAGAGAA
646 TAAGGAAATAAATGTCAGACAACCAATGACCGACATTGGGTCTCCCATTCAAGGTTGTGAGAGAA
*
43398244 AGAAATCT
711 AGAAATTT
* * * * * *
43398252 -AA-ATGAGTAAGATCATAGATCAAAGATGTTATGGTATCATAAATGAGTAAGAACATAGCCGAC
1 AAATATGAGTAAGATCATAGCTGAAAGATGTTATGGCATCATAAATGAGTAAGACCATAGCTGAA
* * * *
43398315 AGATGTTATGACATCA-AAAAGAAGTAAAACCATAGTTGAAA-ACCACTAT-GACATCCTTTAAT
66 AGATGTTATGACATCATAAATG-AGTAAGACCATAGCTGAAAGA-CACTATAGACATCCTTTGAT
* * * * *
43398377 AGTCCGTCGAGACAGTAAACATGAGGTTATATCGTGTAAGACCATAGTTAAAAGATGCCGTAGCA
129 AGTCCGTCGAGACAGTAAACACGAGGTTATATCGTGTAAGACCATAGCTGAAAGACGCCATAGCA
* * ** * * * *
43398442 TGGTAGATAGTCCGCCAAGACAATAAACACGAGATAATCTACTGAAAAAATAATCATAAGGCAAT
194 TCGTAGATAGTTC-CTGAGACAATAAACACGAGATAATCCACTGAAACAATAATCACAGGGCAAT
* ** * * *
43398507 TCACCAAGACAGAAAGCGTGGTAA-ATTTTACCAATATAATTAGCTTGGAAATAAAGAGTGAAAG
258 TCGCCAAGACAGAAAGCGTGGTAACA-TCCACCAAGACAATTAGCTTGGAAAGAAAGAGTGAAAG
* *
43398571 A-CATAAATCGGTTATGACATCATGAAGACTCAA-CTGATAAGGTTAACA-AAGAGTTTAAAAGG
322 ACCATAAATCGGTTATGACATCATGAAGACTCAATC-GATAAGGTGAACATGAGAGTTTAAAAGG
*
43398633 TGTAAATTCTGGGCTCGGTGATGGAGGTTGGTAAAGATCG-CTG-AATAGAGTGGATTCTAAGGT
386 TGTAAATTCTGGGCTCGGTGATGGAGGTTGGTAAAGATCGTC-GAAATAGAGTGGATTCTAAGGC
* * *
43398696 TTATTGAACAAGAGGATGTATTTAATGAAGGACCGAGACTTAAGGGTCCGCAGACAAA-GGAGGC
450 TTATTGAACAAGAGGATGTATTTAATTAAGGACAGAGACTTAAGGGTCCACAGACAAATGG-GGC
* * * * ** *
43398760 AATTAAGGGAGATTATGTCCATCGAGGTTATACGAGGATAAGTCACCTGGGTTGGCAAAAGAAGG
514 AATTAAGGGGGATTATGTCCATCAAGGTTATACGGGGCTAAGTCACCCAGGTTGGCAAAAGAAGA
* * * *
43398825 AATCCGTTAATGACTAACCTAAGGCGGGTAGTCCATCAAGAAATAAGGGGGATAAAAATTTGAAA
579 AATCCGTTAAGGACTAACCTAGGGCGGGTAGTCCACCAAGAAATAAGAGGGATAAAAATTTGAAA
* *
43398890 TCTAAAGAAATAAATGTCAGACAACCAATGACCGACATTGGGTCTCCCATTCAAGGTTGTGAGAG
644 CCTAAGGAAATAAATGTCAGACAACCAATGACCGACATTGGGTCTCCCATTCAAGGTTGTGAGAG
43398955 AAAGAAATTT
709 AAAGAAATTT
* * *
43398965 AAATGTGAGTAAGATCATAGTTGAAAGAGGTTATGGCATCATAAATGAGTAAGACCATAGCTGAA
1 AAATATGAGTAAGATCATAGCTGAAAGATGTTATGGCATCATAAATGAGTAAGACCATAGCTGAA
43399030 AGATGTTATGACATCATAAATGAGTAAGACCATAGCTGAAAGACACTATAG-CATCCTTTGATAG
66 AGATGTTATGACATCATAAATGAGTAAGACCATAGCTGAAAGACACTATAGACATCCTTTGATAG
* * *
43399094 TCCG-CTGAGATAGTAAACACGAGGTTATATCGTGTAAGATCATAGCTGAAAGACGTCATAGCAT
131 TCCGTC-GAGACAGTAAACACGAGGTTATATCGTGTAAGACCATAGCTGAAAGACGCCATAGCAT
*
43399158 CGTAGATAGTTCACTGAGACAATAAACACGAGATAATCCACTGAAACAATAATCACAGGGTAATT
195 CGTAGATAGTTC-CTGAGACAATAAACACGAGATAATCCACTGAAACAATAATCACAGGGCAATT
*
43399223 CGCCAAGACAGAAAGCGTGGTAACATCTACCAAGACAATTAGCTTGGAAAGAAAGAGTGAAAGAC
259 CGCCAAGACAGAAAGCGTGGTAACATCCACCAAGACAATTAGCTTGGAAAGAAAGAGTGAAAGAC
*
43399288 CATAAATCGGTTATGACATCATGAAGACTTAATCGATAAGGTGAACATGAGAGTTTAAAAGGTGT
324 CATAAATCGGTTATGACATCATGAAGACTCAATCGATAAGGTGAACATGAGAGTTTAAAAGGTGT
* * * * *
43399353 AAATTCTGGGCTCGATGATGGATGTTGGTAAAGATTGTC-AAATGGAGTGGATTCGAAGGCTTAT
389 AAATTCTGGGCTCGGTGATGGAGGTTGGTAAAGATCGTCGAAATAGAGTGGATTCTAAGGCTTAT
* *
43399417 TGAACAAGAGGATGTATTTAATTAAGGACAGGGACTTAAGGGTCCACGGACAAA-GGGGCAATTA
454 TGAACAAGAGGATGTATTTAATTAAGGACAGAGACTTAAGGGTCCACAGACAAATGGGGCAATTA
* *
43399481 AGGGGGATTATGTCCATCAAGGTTATACGGGGCTAAGTCACCCAGGTTGGCAAAAGAATAAATTC
519 AGGGGGATTATGTCCATCAAGGTTATACGGGGCTAAGTCACCCAGGTTGGCAAAAGAAGAAATCC
* * *
43399546 GTTAAGAACTAATCTGGGGCGGGTAGTCCACCAAGAAATAAGAGGGATAAAAATTTGAAACCTAA
584 GTTAAGGACTAACCTAGGGCGGGTAGTCCACCAAGAAATAAGAGGGATAAAAATTTGAAACCTAA
* **
43399611 GGAAACAAATGTCAGACAACCAATGACCGACATTGGGTCTCCCATTCAATATTGTGAGAGAAAGA
649 GGAAATAAATGTCAGACAACCAATGACCGACATTGGGTCTCCCATTCAAGGTTGTGAGAGAAAGA
43399676 AATTT
714 AATTT
*
43399681 AAATATAAGTAAGATCATAGCTGAAAGATGTTATGGCATCATAAATGAGTAAGACCATAGCTGAA
1 AAATATGAGTAAGATCATAGCTGAAAGATGTTATGGCATCATAAATGAGTAAGACCATAGCTGAA
*
43399746 AGATGTTATGACATTATAAATGAGTAAGACCATAGCTAAAAGATGTTATGACATCATAATGAGTA
66 AGATGTTATGACATCATAAATGAGTAAGA-C----C------A---TA-G----C----TGA--A
* * *
43399811 AGACCATAGCTCAAAGACACTATGTCATCTTTTGATAGTTCATCGAGACAGTAAACACGAGGTTA
106 AGA-C--A-CT-ATAG--AC-A--TC--C-TTTGATAGTCCGTCGAGACAGTAAACACGAGGTTA
* * * *
43399876 TATCATGTAAGACCATAGCTGAAAGATGCCATAGCATCGTAGATAGTTCGTCGGGACAATAAACA
158 TATCGTGTAAGACCATAGCTGAAAGACGCCATAGCATCGTAGATAGTTCCT-GAGACAATAAACA
* * * * *
43399941 CGGGATAATCCACCT-AGACAATAATCACGGGGCAGTTCCCCAAGACAGAAAGCGTGGTAACATC
222 CGAGATAATCCA-CTGAAACAATAATCACAGGGCAATTCGCCAAGACAGAAAGCGTGGTAACATC
* *
43400005 CACCAAGACAATTAGCTTGGAAAGAAAGAGTGAAATACCATAAATCGGTAATGACATCATGAAGA
286 CACCAAGACAATTAGCTTGGAAAGAAAGAGTGAAAGACCATAAATCGGTTATGACATCATGAAGA
* * * * *
43400070 CTCAACCAATAAGGTGAACATGAGCGTTTAAAAGGTGTAAATTTTGGGCTCGGTGACGGAGGTTG
351 CTCAATCGATAAGGTGAACATGAGAGTTTAAAAGGTGTAAATTCTGGGCTCGGTGATGGAGGTTG
* * * *
43400135 GTAAAGATTGTTG-AATAGAGTAGATTTTAAGGCTTATTGAAC---A--A-G------A-T---G
416 GTAAAGATCGTCGAAATAGAGTGGATTCTAAGGCTTATTGAACAAGAGGATGTATTTAATTAAGG
* * * * * * * * *
43400183 ACCGAGACTTAAGGGTCCGCGGAAAAATAGGGTAATTAAGGGCGG-TTATGTTCGTCAAGATTAT
481 ACAGAGACTTAAGGGTCCACAGACAAATGGGGCAATTAAGGG-GGATTATGTCCATCAAGGTTAT
* *
43400247 ACGGGGCTAAGTCACCC-GAGTTGGCAAAAGAAGAAATTCGTTAAGGATTAACCT-GGAGCGGGT
545 ACGGGGCTAAGTCACCCAG-GTTGGCAAAAGAAGAAATCCGTTAAGGACTAACCTAGG-GCGGGT
* *
43400310 AGTGCACCAAGAAATAGAGGGGGATAAAAATTTGAAACCTAAGGAAATAAATGTCAGACAACCAA
608 AGTCCACCAAGAAATA-AGAGGGATAAAAATTTGAAACCTAAGGAAATAAATGTCAGACAACCAA
*
43400375 TGACCGACATTGGGTCTCCCATTCAAGGTTGTGAGAGAAATAAATTT
672 TGACCGACATTGGGTCTCCCATTCAAGGTTGTGAGAGAAAGAAATTT
43400422 CGTTGAGGTG
Statistics
Matches: 1883, Mismatches: 214, Indels: 122
0.85 0.10 0.05
Matches are distributed among these distances:
712 6 0.00
713 304 0.16
714 50 0.03
715 517 0.27
716 334 0.18
717 124 0.07
718 1 0.00
721 1 0.00
727 1 0.00
730 2 0.00
731 1 0.00
735 1 0.00
739 30 0.02
740 97 0.05
741 96 0.05
742 2 0.00
743 1 0.00
744 1 0.00
745 2 0.00
746 3 0.00
749 2 0.00
750 2 0.00
752 3 0.00
754 2 0.00
755 297 0.16
756 3 0.00
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (718 bp):
AAATATGAGTAAGATCATAGCTGAAAGATGTTATGGCATCATAAATGAGTAAGACCATAGCTGAA
AGATGTTATGACATCATAAATGAGTAAGACCATAGCTGAAAGACACTATAGACATCCTTTGATAG
TCCGTCGAGACAGTAAACACGAGGTTATATCGTGTAAGACCATAGCTGAAAGACGCCATAGCATC
GTAGATAGTTCCTGAGACAATAAACACGAGATAATCCACTGAAACAATAATCACAGGGCAATTCG
CCAAGACAGAAAGCGTGGTAACATCCACCAAGACAATTAGCTTGGAAAGAAAGAGTGAAAGACCA
TAAATCGGTTATGACATCATGAAGACTCAATCGATAAGGTGAACATGAGAGTTTAAAAGGTGTAA
ATTCTGGGCTCGGTGATGGAGGTTGGTAAAGATCGTCGAAATAGAGTGGATTCTAAGGCTTATTG
AACAAGAGGATGTATTTAATTAAGGACAGAGACTTAAGGGTCCACAGACAAATGGGGCAATTAAG
GGGGATTATGTCCATCAAGGTTATACGGGGCTAAGTCACCCAGGTTGGCAAAAGAAGAAATCCGT
TAAGGACTAACCTAGGGCGGGTAGTCCACCAAGAAATAAGAGGGATAAAAATTTGAAACCTAAGG
AAATAAATGTCAGACAACCAATGACCGACATTGGGTCTCCCATTCAAGGTTGTGAGAGAAAGAAA
TTT
Found at i:43399740 original size:40 final size:40
Alignment explanation
Indices: 43399688--43399827 Score: 228
Period size: 40 Copynumber: 3.5 Consensus size: 40
43399678 TTTAAATATA
* *
43399688 AGTAAGATCATAGCTGAAAGATGTTATGGCATCATAAATG
1 AGTAAGACCATAGCTGAAAGATGTTATGACATCATAAATG
*
43399728 AGTAAGACCATAGCTGAAAGATGTTATGACATTATAAATG
1 AGTAAGACCATAGCTGAAAGATGTTATGACATCATAAATG
*
43399768 AGTAAGACCATAGCTAAAAGATGTTATGACATCAT-AATG
1 AGTAAGACCATAGCTGAAAGATGTTATGACATCATAAATG
*
43399807 AGTAAGACCATAGCTCAAAGA
1 AGTAAGACCATAGCTGAAAGA
43399828 CACTATGTCA
Statistics
Matches: 94, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 24 0.26
40 70 0.74
ACGTcount: A:0.43, C:0.12, G:0.20, T:0.25
Consensus pattern (40 bp):
AGTAAGACCATAGCTGAAAGATGTTATGACATCATAAATG
Found at i:43402890 original size:49 final size:50
Alignment explanation
Indices: 43402830--43402961 Score: 205
Period size: 50 Copynumber: 2.7 Consensus size: 50
43402820 CATTCGATAT
* *
43402830 ACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AGTTTTACAATTC
1 ACGTAGTAGCCTTCACATAGTACTACACACGTGAACAAGTTTTACAACTC
*
43402879 ACGTAGTAGCCTTCACATAGTACTATACACGTGAACAAGTTTTACAACTC
1 ACGTAGTAGCCTTCACATAGTACTACACACGTGAACAAGTTTTACAACTC
*
43402929 ACGTAGTAGCCTTCAC-TCAGTACTACATACGTG
1 ACGTAGTAGCCTTCACAT-AGTACTACACACGTG
43402962 CTCAAGCTTC
Statistics
Matches: 76, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
49 35 0.46
50 41 0.54
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (50 bp):
ACGTAGTAGCCTTCACATAGTACTACACACGTGAACAAGTTTTACAACTC
Found at i:43403090 original size:51 final size:51
Alignment explanation
Indices: 43403035--43403164 Score: 129
Period size: 51 Copynumber: 2.5 Consensus size: 51
43403025 GAGACACGTG
* * * * *
43403035 GTAGCATTCACACAGTACTACACACGTG-CTCA-AAGCTTCTTGGTGCACATA
1 GTAGCCTTCACACAGTACTACACACGTGAC-CATAA-CTTATCGATACACATA
** * * * *
43403086 GTAGCCTTCACTTAGTACCACACATGTGACCATTACTTATCGATACACGTA
1 GTAGCCTTCACACAGTACTACACACGTGACCATAACTTATCGATACACATA
43403137 GTAGCCTTCACACAGTACTACACACGTG
1 GTAGCCTTCACACAGTACTACACACGTG
43403165 TTCATCGATA
Statistics
Matches: 62, Mismatches: 15, Indels: 4
0.77 0.19 0.05
Matches are distributed among these distances:
51 60 0.97
52 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (51 bp):
GTAGCCTTCACACAGTACTACACACGTGACCATAACTTATCGATACACATA
Found at i:43403134 original size:102 final size:101
Alignment explanation
Indices: 43402928--43403164 Score: 314
Period size: 102 Copynumber: 2.3 Consensus size: 101
43402918 TTTTACAACT
* * *
43402928 CACGTAGTAGCCTTCACTCAGTACTACATACGTGCTCAAGCTTCTTAGTTCACATAGTAGCATTC
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGCTCAAGCTTCTTAGTGCACATAGTAGCATTC
* * *
43402993 ATTTAGTACTACACATATAACCGTAGTTTACCGAGA
66 ACTTAGTACCACACATATAACCGTAGCTTACCGAGA
* * * *
43403029 CACGTGGTAGCATTCACACAGTACTACACACGTGCTCAAAGCTTCTTGGTGCACATAGTAGCCTT
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGCTC-AAGCTTCTTAGTGCACATAGTAGCATT
* * * * *
43403094 CACTTAGTACCACACATGTGACCATTA-CTTATCGATA
65 CACTTAGTACCACACATATAACC-GTAGCTTACCGAGA
43403131 CACGTAGTAGCCTTCACACAGTACTACACACGTG
1 CACGTAGTAGCCTTCACACAGTACTACACACGTG
43403165 TTCATCGATA
Statistics
Matches: 117, Mismatches: 17, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
101 33 0.28
102 82 0.70
103 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (101 bp):
CACGTAGTAGCCTTCACACAGTACTACACACGTGCTCAAGCTTCTTAGTGCACATAGTAGCATTC
ACTTAGTACCACACATATAACCGTAGCTTACCGAGA
Found at i:43410077 original size:50 final size:50
Alignment explanation
Indices: 43409960--43410300 Score: 259
Period size: 51 Copynumber: 6.8 Consensus size: 50
43409950 TTTTATCATT
*
43409960 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AGTTTTA
1 CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA
* * *
43410009 CAATTCACGTAGTAGCCTTCACATAGTACTATACACGTGAACAAGTTTTA
1 CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA
* *
43410059 CGACTCACGTAGTAGCCTTCAC-TCAGTACTACACACGTGCTCAAGCTTCTTA
1 CGATTCACGTAGTAGCCTTCACAT-AGTACTACACACGTGATCAAG-TT-TTA
* * ** * * *
43410111 -G-TTCACATAGTAGCCTTCACTTAGTACTACACATATAACCGTAG-TTTA
1 CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAGTTTTA
** * * * *
43410159 CCGAGACACGTGGTAGCATTCACACAGTACTACACACGTGCTCAAAGCTTCTT-
1 -CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TT-TTA
* * * * * * *
43410212 -GGTGCACATAGTAGCCTTCACTTAGTACCACACATGTGA-CCA-TTACTTA
1 CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTT--TTA
* * *
43410261 TCAATACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 -CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTG
43410301 TTCATCGATA
Statistics
Matches: 225, Mismatches: 51, Indels: 30
0.74 0.17 0.10
Matches are distributed among these distances:
47 2 0.01
48 6 0.03
49 41 0.18
50 77 0.34
51 93 0.41
52 3 0.01
53 1 0.00
54 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (50 bp):
CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA
Found at i:43410270 original size:102 final size:101
Alignment explanation
Indices: 43410064--43410300 Score: 332
Period size: 102 Copynumber: 2.3 Consensus size: 101
43410054 TTTTACGACT
* *
43410064 CACGTAGTAGCCTTCACTCAGTACTACACACGTGCTCAAGCTTCTTAGTTCACATAGTAGCCTTC
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGCTCAAGCTTCTTAGTGCACATAGTAGCCTTC
* * *
43410129 ACTTAGTACTACACATATAACCGTAGTTTACCGAGA
66 ACTTAGTACCACACATATAACCGTAGCTTACCAAGA
* * *
43410165 CACGTGGTAGCATTCACACAGTACTACACACGTGCTCAAAGCTTCTTGGTGCACATAGTAGCCTT
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGCTC-AAGCTTCTTAGTGCACATAGTAGCCTT
* * * * *
43410230 CACTTAGTACCACACATGTGACCATTA-CTTATCAATA
65 CACTTAGTACCACACATATAACC-GTAGCTTACCAAGA
43410267 CACGTAGTAGCCTTCACACAGTACTACACACGTG
1 CACGTAGTAGCCTTCACACAGTACTACACACGTG
43410301 TTCATCGATA
Statistics
Matches: 119, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
101 34 0.29
102 83 0.70
103 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (101 bp):
CACGTAGTAGCCTTCACACAGTACTACACACGTGCTCAAGCTTCTTAGTGCACATAGTAGCCTTC
ACTTAGTACCACACATATAACCGTAGCTTACCAAGA
Found at i:43411953 original size:17 final size:18
Alignment explanation
Indices: 43411931--43411978 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 18
43411921 TAAACATATT
43411931 CAAAAA-TAAAAATAAAC
1 CAAAAATTAAAAATAAAC
* *
43411948 CAAAAATTAAAAGTAAAAG
1 CAAAAATTAAAAAT-AAAC
*
43411967 TAAAAATTAAAA
1 CAAAAATTAAAA
43411979 GTTCAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 6 0.23
18 6 0.23
19 14 0.54
ACGTcount: A:0.73, C:0.06, G:0.04, T:0.17
Consensus pattern (18 bp):
CAAAAATTAAAAATAAAC
Found at i:43412553 original size:21 final size:21
Alignment explanation
Indices: 43412529--43412581 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
43412519 AAAATTCAAT
43412529 AATTATTAAAAAAATCCA-AAA
1 AATTATTAAAAAAAT-CATAAA
* * * *
43412550 AATTGTTTAAGAAATTATAAA
1 AATTATTAAAAAAATCATAAA
43412571 AATTATTAAAA
1 AATTATTAAAA
43412582 TAGAAAAAGA
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (21 bp):
AATTATTAAAAAAATCATAAA
Found at i:43412650 original size:19 final size:18
Alignment explanation
Indices: 43412616--43412667 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
43412606 AAAAATTTAA
* *
43412616 AAAATATACTAAAAATATT
1 AAAATATATTATAAAT-TT
43412635 AAAATATATTATAAATTT
1 AAAATATATTATAAATTT
*
43412653 -TAATATATTATAAAT
1 AAAATATATTATAAAT
43412668 CTCATATACT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
17 14 0.47
18 2 0.07
19 14 0.47
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATATATTATAAATTT
Found at i:43413599 original size:57 final size:57
Alignment explanation
Indices: 43413511--43413621 Score: 170
Period size: 57 Copynumber: 1.9 Consensus size: 57
43413501 AGGTAATCAT
* *
43413511 CCAACTTCTATAAGTTTGCATTTTAGATACCAAAGTTTAGATCTGTTTTCAGTTGAC
1 CCAACTTCTATAAGTTTACATTTTAGATACCAAAGTTTAAATCTGTTTTCAGTTGAC
* *
43413568 CCAACTT-TCATAATTTTACATTTTAGGTACCAAAGTTTAAATCTGTTTTCAGTT
1 CCAACTTCT-ATAAGTTTACATTTTAGATACCAAAGTTTAAATCTGTTTTCAGTT
43413622 TGGCCACTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
56 1 0.02
57 48 0.98
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (57 bp):
CCAACTTCTATAAGTTTACATTTTAGATACCAAAGTTTAAATCTGTTTTCAGTTGAC
Found at i:43418908 original size:19 final size:19
Alignment explanation
Indices: 43418884--43418922 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
43418874 TCTAATTTAC
43418884 TTTTAA-ACAAATTTAATCA
1 TTTTAAGACAAA-TTAATCA
*
43418903 TTTTAAGTCAAATTAATCA
1 TTTTAAGACAAATTAATCA
43418922 T
1 T
43418923 GATTTAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.44
Consensus pattern (19 bp):
TTTTAAGACAAATTAATCA
Found at i:43419444 original size:16 final size:16
Alignment explanation
Indices: 43419419--43419461 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
43419409 ATAATTGTTA
*
43419419 TGTTTAGAACAATTTT
1 TGTTTAGAACAACTTT
*
43419435 TGTTTGGAACAACTTT
1 TGTTTAGAACAACTTT
*
43419451 TATTTAGAACA
1 TGTTTAGAACA
43419462 GTTGTATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (16 bp):
TGTTTAGAACAACTTT
Found at i:43423795 original size:21 final size:20
Alignment explanation
Indices: 43423753--43423796 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
43423743 AATCTTAATG
*
43423753 ATTTTTTATTTTAAAAATAA
1 ATTTTTTATTTTAAAAACAA
**
43423773 ATTTTTTAATTTTTTAAACAA
1 ATTTTTT-ATTTTAAAAACAA
43423794 ATT
1 ATT
43423797 AATTAAATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTTTTATTTTAAAAACAA
Found at i:43429924 original size:28 final size:27
Alignment explanation
Indices: 43429837--43429924 Score: 81
Period size: 28 Copynumber: 3.2 Consensus size: 27
43429827 ATTAAATAAA
* *
43429837 GGAAAAGGCATTAATACATTAAAGGTAG
1 GGAAAA-GCATTAAGACATTAAATGTAG
* *
43429865 GGAAAAAGCATTAAGATATTAAATGCA-
1 GG-AAAAGCATTAAGACATTAAATGTAG
*
43429892 TGAAAAGTTCATTAAG-CATTAAATGTAG
1 GGAAAAG--CATTAAGACATTAAATGTAG
43429920 GGAAA
1 GGAAA
43429925 TGACTTATTG
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
26 5 0.10
27 10 0.21
28 29 0.60
29 4 0.08
ACGTcount: A:0.48, C:0.07, G:0.22, T:0.24
Consensus pattern (27 bp):
GGAAAAGCATTAAGACATTAAATGTAG
Found at i:43431139 original size:27 final size:26
Alignment explanation
Indices: 43431108--43431175 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 26
43431098 TAATTTAAAT
43431108 TATATGCATATATGTTTACAAAATATG
1 TATATGCATATATGTTTA-AAAATATG
** *
43431135 TATATATAAGTAAAT-TTTAAAAATATG
1 TATAT-GCA-TATATGTTTAAAAATATG
*
43431162 CATATGCATATATG
1 TATATGCATATATG
43431176 AAACATGTAT
Statistics
Matches: 31, Mismatches: 7, Indels: 7
0.69 0.16 0.16
Matches are distributed among these distances:
25 4 0.13
26 1 0.03
27 17 0.55
28 5 0.16
29 4 0.13
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (26 bp):
TATATGCATATATGTTTAAAAATATG
Found at i:43431564 original size:7 final size:7
Alignment explanation
Indices: 43431536--43431579 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
43431526 ATATGCGTAT
43431536 ATATATA
1 ATATATA
43431543 A-ATATA
1 ATATATA
43431549 ATAT-TA
1 ATATATA
*
43431555 ATATTTA
1 ATATATA
43431562 ATATAATA
1 ATAT-ATA
43431570 ATATATA
1 ATATATA
43431577 ATA
1 ATA
43431580 CTAATAATCA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
6 12 0.36
7 15 0.45
8 6 0.18
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
ATATATA
Found at i:43431571 original size:15 final size:16
Alignment explanation
Indices: 43431553--43431587 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
43431543 AATATAATAT
*
43431553 TAATATTTAATA-TAA
1 TAATATATAATACTAA
43431568 TAATATATAATACTAA
1 TAATATATAATACTAA
43431584 TAAT
1 TAAT
43431588 CATACAGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATATATAATACTAA
Found at i:43431584 original size:21 final size:21
Alignment explanation
Indices: 43431546--43431585 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
43431536 ATATATAAAT
*
43431546 ATAATATTAATATTTAATATA
1 ATAATATTAATATCTAATATA
43431567 ATAATATATAATA-CTAATA
1 ATAATAT-TAATATCTAATA
43431586 ATCATACAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (21 bp):
ATAATATTAATATCTAATATA
Found at i:43440485 original size:13 final size:14
Alignment explanation
Indices: 43440469--43440499 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
43440459 AATGTTTGAG
43440469 ATTAATTGAA-ATA
1 ATTAATTGAATATA
43440482 ATTAATTGAATATA
1 ATTAATTGAATATA
43440496 ATTA
1 ATTA
43440500 TTTATTTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (14 bp):
ATTAATTGAATATA
Found at i:43440832 original size:40 final size:41
Alignment explanation
Indices: 43440691--43440874 Score: 183
Period size: 41 Copynumber: 4.5 Consensus size: 41
43440681 ATTATTGTAT
* * * *
43440691 AATTGTACATATGTGCCCATGTTTGTACTTCGATACCCCTG
1 AATTGCACATACGTGCCCCTGTTTGTACTTCAATACCCCTG
* * *
43440732 AATTGCACGTACGTACCCCTGTTTATACTTCAATACCCCTG
1 AATTGCACATACGTGCCCCTGTTTGTACTTCAATACCCCTG
* * * * * **
43440773 AATTTCATATATGTTCCCCTATTTGTACTTCGGTA-CCCTG
1 AATTGCACATACGTGCCCCTGTTTGTACTTCAATACCCCTG
* * *
43440813 AATTGCACATACGTGCCCCTGTTTGTACTTCAGTACTCTTG
1 AATTGCACATACGTGCCCCTGTTTGTACTTCAATACCCCTG
* *
43440854 AA-TGCACTTTCGTGCCCCTGT
1 AATTGCACATACGTGCCCCTGT
43440875 ATACACTTCA
Statistics
Matches: 116, Mismatches: 26, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
40 51 0.44
41 65 0.56
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (41 bp):
AATTGCACATACGTGCCCCTGTTTGTACTTCAATACCCCTG
Found at i:43454931 original size:22 final size:22
Alignment explanation
Indices: 43454889--43454931 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
43454879 AATAAATATT
* *
43454889 AATATATATAGTATTTTAGATC
1 AATATATATAGTATATCAGATC
43454911 AATATGATATAG-ATATCAGAT
1 AATAT-ATATAGTATATCAGAT
43454932 TGATTCAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.40
Consensus pattern (22 bp):
AATATATATAGTATATCAGATC
Found at i:43456392 original size:21 final size:21
Alignment explanation
Indices: 43456366--43456407 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
43456356 CAAATTATCA
*
43456366 TATTATTAAATTAATATATAT
1 TATTATCAAATTAATATATAT
* *
43456387 TATTATCAAATTTATTTATAT
1 TATTATCAAATTAATATATAT
43456408 AAATTTAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTATCAAATTAATATATAT
Found at i:43460258 original size:33 final size:33
Alignment explanation
Indices: 43460191--43460259 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 33
43460181 ATAAATAAAG
**
43460191 AAATTTAGAAATAAAGAAAACAAAAACACTAAA
1 AAATTTAGAAATAAAGAAAACAAAAACAAAAAA
*
43460224 AAATTT-GAGAATAAAGAATAA-ATAAACAAAAAA
1 AAATTTAGA-AATAAAGAA-AACAAAAACAAAAAA
43460257 AAA
1 AAA
43460260 AACAAAGTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
32 2 0.06
33 27 0.87
34 2 0.06
ACGTcount: A:0.71, C:0.06, G:0.07, T:0.16
Consensus pattern (33 bp):
AAATTTAGAAATAAAGAAAACAAAAACAAAAAA
Found at i:43464667 original size:62 final size:65
Alignment explanation
Indices: 43464512--43464679 Score: 186
Period size: 67 Copynumber: 2.6 Consensus size: 65
43464502 CCAAAAATAA
* **
43464512 TATTATTTTAAT-AG-TTTAATATTAAATTTAATTTAATACTCATCTTAATAGTATTTTATAATT
1 TATTATTTTAATAAGATTTAATATTAAATTTAATTTAATATTCATCTTAATAGTATTAAATAATT
* * * *
43464575 TAGTA-TTAAAGTAATTATCTTAATATTAAATTTAATTTAATATTTATCTT-ATAG-A-TAAATA
1 TATTATTTTAA-TAA-GAT-TTAATATTAAATTTAATTTAATATTCATCTTAATAGTATTAAATA
*
43464636 TTT
63 ATT
*
43464639 TATTATTTTAATAAGATTTAATATTAAATTTAATCTAATAT
1 TATTATTTTAATAAGATTTAATATTAAATTTAATTTAATAT
43464680 GACAAATTTC
Statistics
Matches: 87, Mismatches: 12, Indels: 13
0.78 0.11 0.12
Matches are distributed among these distances:
62 27 0.31
63 7 0.08
64 14 0.16
65 5 0.06
66 5 0.06
67 29 0.33
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.52
Consensus pattern (65 bp):
TATTATTTTAATAAGATTTAATATTAAATTTAATTTAATATTCATCTTAATAGTATTAAATAATT
Found at i:43478478 original size:17 final size:18
Alignment explanation
Indices: 43478456--43478492 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
43478446 AGTGTGGCCG
43478456 TGTGGG-CCACATGGACA
1 TGTGGGCCCACATGGACA
*
43478473 TGTGGGCCCACATGGGCA
1 TGTGGGCCCACATGGACA
43478491 TG
1 TG
43478493 CCACACAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.19, C:0.24, G:0.38, T:0.19
Consensus pattern (18 bp):
TGTGGGCCCACATGGACA
Found at i:43485047 original size:14 final size:15
Alignment explanation
Indices: 43485023--43485051 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
43485013 TTATGCATGA
43485023 TGTTATTGTATCTGT
1 TGTTATTGTATCTGT
43485038 TGTT-TTGTATCTGT
1 TGTTATTGTATCTGT
43485052 GATTGGGGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.10, C:0.07, G:0.21, T:0.62
Consensus pattern (15 bp):
TGTTATTGTATCTGT
Found at i:43495260 original size:42 final size:43
Alignment explanation
Indices: 43495146--43495316 Score: 172
Period size: 43 Copynumber: 4.0 Consensus size: 43
43495136 TAGGATTTCG
* *
43495146 GTATGTGATTT-CGTGTAAGACCACGTCTGGGACGTTGGCATC
1 GTATTTGATTTACGTGTAAGACCACGTCTGGGACATTGGCATC
* * *
43495188 G-ATTTGAGATTTACGTGTTAAGACCATGTCTGGGAAATTGACATC
1 GTATTT--GATTTACGTG-TAAGACCACGTCTGGGACATTGGCATC
* * *
43495233 GTATTTGACTT-CGTGTAAGACCATGTCTGGGACAGTGGCATC
1 GTATTTGATTTACGTGTAAGACCACGTCTGGGACATTGGCATC
* *
43495275 GATATTTGA-TTACATGTAAGACCACGTCTAGGACGA-TGGCAT
1 G-TATTTGATTTACGTGTAAGACCACGTCTGGGAC-ATTGGCAT
43495317 TGTACGAGCT
Statistics
Matches: 109, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
41 3 0.03
42 28 0.26
43 41 0.38
44 9 0.08
45 24 0.22
46 4 0.04
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
GTATTTGATTTACGTGTAAGACCACGTCTGGGACATTGGCATC
Found at i:43497204 original size:21 final size:23
Alignment explanation
Indices: 43497162--43497204 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
43497152 TGTTTAGGAA
43497162 ATGTATGTTTTGTGATATGCTAG
1 ATGTATGTTTTGTGATATGCTAG
43497185 ATGTATGTTTTGT-A-ATGCTA
1 ATGTATGTTTTGTGATATGCTA
43497205 TAAGCTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.30
22 1 0.05
23 13 0.65
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.49
Consensus pattern (23 bp):
ATGTATGTTTTGTGATATGCTAG
Found at i:43497548 original size:13 final size:13
Alignment explanation
Indices: 43497532--43497575 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
43497522 TCGTAGGTCA
43497532 AATAAATTATACT
1 AATAAATTATACT
*
43497545 AATAAATGATA--
1 AATAAATTATACT
*
43497556 AATATATTATACT
1 AATAAATTATACT
43497569 AATAAAT
1 AATAAAT
43497576 ACTAAATCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 9 0.36
13 16 0.64
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (13 bp):
AATAAATTATACT
Found at i:43501664 original size:16 final size:18
Alignment explanation
Indices: 43501631--43501689 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
43501621 ATAGAAAATA
43501631 ATATTTTAAAATTATAAT
1 ATATTTTAAAATTATAAT
* *
43501649 ATATTTTTAAATTAATAGAAG
1 ATATTTTAAAATT-AT--AAT
43501670 ATAATTTTAAAATTATAAT
1 AT-ATTTTAAAATTATAAT
43501689 A
1 A
43501690 ATTAGATGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
18 12 0.36
19 5 0.15
21 6 0.18
22 10 0.30
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
ATATTTTAAAATTATAAT
Found at i:43501688 original size:40 final size:43
Alignment explanation
Indices: 43501609--43501689 Score: 132
Period size: 40 Copynumber: 2.0 Consensus size: 43
43501599 ATATCCATTT
43501609 TTTTTATAATTAATAGAAAATAATATTTTAAAATTATAATATA
1 TTTTTATAATTAATAGAAAATAATATTTTAAAATTATAATATA
*
43501652 TTTTTA-AATTAATAGAAGAT-A-ATTTTAAAATTATAATA
1 TTTTTATAATTAATAGAAAATAATATTTTAAAATTATAATA
43501690 ATTAGATGTT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
40 17 0.46
41 1 0.03
42 13 0.35
43 6 0.16
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (43 bp):
TTTTTATAATTAATAGAAAATAATATTTTAAAATTATAATATA
Found at i:43503462 original size:23 final size:20
Alignment explanation
Indices: 43503416--43503463 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 20
43503406 TTATAATGTT
* *
43503416 ATTATTTTAAATAATATTTT
1 ATTATTTTAAATAATATATA
43503436 ATTATTTTAATATATATATGATA
1 ATTATTTTAA-ATA-ATAT-ATA
43503459 ATTAT
1 ATTAT
43503464 AAAGAAAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 10 0.43
21 3 0.13
22 4 0.17
23 6 0.26
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
ATTATTTTAAATAATATATA
Found at i:43504730 original size:12 final size:12
Alignment explanation
Indices: 43504715--43504752 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
43504705 ATATATGGAA
43504715 AAGAATATGATT
1 AAGAATATGATT
43504727 AAGAATATGATT
1 AAGAATATGATT
43504739 AAGAATA-GATT
1 AAGAATATGATT
43504750 AAG
1 AAG
43504753 TAAATGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 7 0.27
12 19 0.73
ACGTcount: A:0.53, C:0.00, G:0.18, T:0.29
Consensus pattern (12 bp):
AAGAATATGATT
Found at i:43505145 original size:21 final size:21
Alignment explanation
Indices: 43505099--43505146 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
43505089 GGGACTAAAT
*
43505099 CAAAAACATTTAAAACATTAA
1 CAAAAACATTTAAAAAATTAA
* *
43505120 GAAAAA-AGTTTAAAAAATTTA
1 CAAAAACA-TTTAAAAAATTAA
43505141 CAAAAA
1 CAAAAA
43505147 TTCAACAATG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.65, C:0.08, G:0.04, T:0.23
Consensus pattern (21 bp):
CAAAAACATTTAAAAAATTAA
Found at i:43508888 original size:16 final size:17
Alignment explanation
Indices: 43508867--43508902 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 17
43508857 CCCACATTTA
43508867 TTTTAATTTT-TTTAAT
1 TTTTAATTTTATTTAAT
43508883 TTTTAATTTTAGTTTAAT
1 TTTTAATTTTA-TTTAAT
43508901 TT
1 TT
43508903 AGGTTGGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
18 8 0.44
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (17 bp):
TTTTAATTTTATTTAAT
Found at i:43509175 original size:25 final size:26
Alignment explanation
Indices: 43509128--43509176 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
43509118 CCTAATGCTA
43509128 ACCCAAAACCCAAAACAAACCCAATT
1 ACCCAAAACCCAAAACAAACCCAATT
*
43509154 ACCCAAAACCC-AAACAAGCCCAA
1 ACCCAAAACCCAAAACAAACCCAA
43509177 CTAAACCCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.53, C:0.41, G:0.02, T:0.04
Consensus pattern (26 bp):
ACCCAAAACCCAAAACAAACCCAATT
Found at i:43515863 original size:27 final size:27
Alignment explanation
Indices: 43515825--43515880 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
43515815 ACCAATTGCC
*
43515825 CAGAAACCTCTTTATAAACTTTAATCA
1 CAGAAACCTCTTCATAAACTTTAATCA
*
43515852 CAGAAACCTCTTCATAATCTTTAATCA
1 CAGAAACCTCTTCATAAACTTTAATCA
43515879 CA
1 CA
43515881 CGTTTCATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.39, C:0.25, G:0.04, T:0.32
Consensus pattern (27 bp):
CAGAAACCTCTTCATAAACTTTAATCA
Found at i:43539110 original size:14 final size:14
Alignment explanation
Indices: 43539091--43539120 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
43539081 ATGAAGGGGG
43539091 ATATGAAGTGTTGC
1 ATATGAAGTGTTGC
43539105 ATATGAAGTGTTGC
1 ATATGAAGTGTTGC
43539119 AT
1 AT
43539121 TAACATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (14 bp):
ATATGAAGTGTTGC
Found at i:43541879 original size:13 final size:13
Alignment explanation
Indices: 43541842--43541890 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
43541832 TTCTTCATTA
43541842 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
* *
43541855 CTGTGGAAAAGTG
1 CTTTTGAAAAGTG
*
43541868 CTTTTGAGAAGTG
1 CTTTTGAAAAGTG
43541881 CTTTTGAAAA
1 CTTTTGAAAA
43541891 ATTTGAGTGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.35
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:43545137 original size:75 final size:75
Alignment explanation
Indices: 43545049--43545199 Score: 268
Period size: 75 Copynumber: 2.0 Consensus size: 75
43545039 TAAGAAGTTG
*
43545049 ATATTTTACTATTGGTGTTCTCCATTACTTTTAAAAGAAAATTACTTTTCTAGCTAAAAGCCCAT
1 ATATTTTACTATTGGTGTTCTCCATTACTTTTAAAAGAAAAGTACTTTTCTAGCTAAAAGCCCAT
43545114 CTGAGCCGCA
66 CTGAGCCGCA
*
43545124 ATATTTTGA-TATTGGTGTTCTCCGTTACTTTTAAAAGAAAAGTACTTTTCTAGCTAAAAGCCCA
1 ATATTTT-ACTATTGGTGTTCTCCATTACTTTTAAAAGAAAAGTACTTTTCTAGCTAAAAGCCCA
43545188 TCTGAGCCGCA
65 TCTGAGCCGCA
43545199 A
1 A
43545200 CGAAGAATAC
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
75 72 0.99
76 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.36
Consensus pattern (75 bp):
ATATTTTACTATTGGTGTTCTCCATTACTTTTAAAAGAAAAGTACTTTTCTAGCTAAAAGCCCAT
CTGAGCCGCA
Found at i:43559669 original size:102 final size:102
Alignment explanation
Indices: 43559493--43559703 Score: 350
Period size: 102 Copynumber: 2.1 Consensus size: 102
43559483 TCTGGCCTAG
* ** *
43559493 CATACTATGTGACTTGAAATTCCCGGTTCCGACGTGAGTGTTACACTGCATACATAGTGGTCGCT
1 CATACTATGTGACTTGAAATTCCCGGTTCCGACGAGAGTGGCACACTACATACATAGTGGTCGCT
*
43559558 CTTGTCGTAGTTCACCTAATTTCTTTTATTACATCAT
66 CTTATCGTAGTTCACCTAATTTCTTTTATTACATCAT
*
43559595 CATACTATGTGACTTGATATTCCCGGTTCCGACGAGAGTGGCACACTACATACATAGTGGTCGCT
1 CATACTATGTGACTTGAAATTCCCGGTTCCGACGAGAGTGGCACACTACATACATAGTGGTCGCT
*
43559660 CTTATCGTAGTTCACCTAATTTCTTTTATTATATCAT
66 CTTATCGTAGTTCACCTAATTTCTTTTATTACATCAT
*
43559697 CACACTA
1 CATACTA
43559704 AGTATGGCTG
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 101 1.00
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (102 bp):
CATACTATGTGACTTGAAATTCCCGGTTCCGACGAGAGTGGCACACTACATACATAGTGGTCGCT
CTTATCGTAGTTCACCTAATTTCTTTTATTACATCAT
Found at i:43567039 original size:28 final size:28
Alignment explanation
Indices: 43566995--43567048 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
43566985 TAGATTTTCA
* * * *
43566995 ATTTTTTATTTTCAATTGTCAATTCTCG
1 ATTTTTTATTCTAAATTCTAAATTCTCG
43567023 ATTTTTTATTCTAAATTCTAAATTCT
1 ATTTTTTATTCTAAATTCTAAATTCT
43567049 AAATTCTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.26, C:0.13, G:0.04, T:0.57
Consensus pattern (28 bp):
ATTTTTTATTCTAAATTCTAAATTCTCG
Found at i:43567042 original size:7 final size:7
Alignment explanation
Indices: 43567030--43567065 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
43567020 TCGATTTTTT
43567030 ATTCTAA
1 ATTCTAA
43567037 ATTCTAA
1 ATTCTAA
43567044 ATTCTAA
1 ATTCTAA
43567051 ATTCTAA
1 ATTCTAA
43567058 ATTCTAA
1 ATTCTAA
43567065 A
1 A
43567066 ATCTTTTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (7 bp):
ATTCTAA
Found at i:43567252 original size:51 final size:52
Alignment explanation
Indices: 43567182--43567285 Score: 158
Period size: 51 Copynumber: 2.0 Consensus size: 52
43567172 ATGTTCAAGG
* *
43567182 TAAGAAAATATTATTAAATTATTAAAT-TATAATTAGTTAATTATTATGTTGT
1 TAAGAAAATATTATTAAATTATTAAATCT-TAAATAGTTAATTATTATGCTGT
*
43567234 TAAGAAAAT-TTATTAAATTATTTAATCTTAAATAGTTAATTATTATGCTGT
1 TAAGAAAATATTATTAAATTATTAAATCTTAAATAGTTAATTATTATGCTGT
43567285 T
1 T
43567286 TAGATTATTA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
51 38 0.79
52 10 0.21
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (52 bp):
TAAGAAAATATTATTAAATTATTAAATCTTAAATAGTTAATTATTATGCTGT
Found at i:43577225 original size:28 final size:28
Alignment explanation
Indices: 43577182--43577286 Score: 120
Period size: 28 Copynumber: 3.8 Consensus size: 28
43577172 AACAGTACAG
* * *
43577182 TGTGGGCCTTATCCCAAGACATCAATAA
1 TGTGGGCCTTAGCCCAAAACATCAACAA
* * *
43577210 TGTGTGCCTTAGCCCAATACAGCAACAA
1 TGTGGGCCTTAGCCCAAAACATCAACAA
* *
43577238 TGTGGGCCTTAGCCGAAAACATTAACAA
1 TGTGGGCCTTAGCCCAAAACATCAACAA
* *
43577266 TGTGGGCCTTAGACCTAAACA
1 TGTGGGCCTTAGCCCAAAACA
43577287 GTATCAGTAC
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 64 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAAAACATCAACAA
Found at i:43577654 original size:27 final size:27
Alignment explanation
Indices: 43577620--43577672 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
43577610 ATAAGGCCAT
* *
43577620 ATAGTCATTTCATCTTCTAGGGGTATA
1 ATAGTCATTTCATCCTATAGGGGTATA
*
43577647 ATAGTCATTTTATCCTATAGGGGTAT
1 ATAGTCATTTCATCCTATAGGGGTAT
43577673 TTCGGTCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (27 bp):
ATAGTCATTTCATCCTATAGGGGTATA
Found at i:43577680 original size:27 final size:26
Alignment explanation
Indices: 43577650--43578223 Score: 328
Period size: 27 Copynumber: 21.3 Consensus size: 26
43577640 GGGTATAATA
*
43577650 GTCATTTTATCCTATAGGGGTATTTCG
1 GTCATTTTACCCT-TAGGGGTATTTCG
* * * *
43577677 GTCATTTTATCTTATAGAGGTAATTCG
1 GTCATTTTACCCT-TAGGGGTATTTCG
* *
43577704 GTCATTTTACCCTATAGAGGTAATTCG
1 GTCATTTTACCCT-TAGGGGTATTTCG
* *
43577731 ATCATTTTACCCTTCGGAGGTATTTCG
1 GTCATTTTACCCTTAGG-GGTATTTCG
* * * *
43577758 ATCATTTTACCTTTTA-GAGTATTTTG
1 GTCATTTTACC-CTTAGGGGTATTTCG
**
43577784 GTCATTTTACCC-TATGAGGGTAACTCG
1 GTCATTTTACCCTTA-G-GGGTATTTCG
* * *
43577811 TTCATTTTA-CCATATGGAGGTATTTTG
1 GTCATTTTACCCTTA-GG-GGTATTTCG
* * *
43577838 GTCATTTCTA-CCTTCGGGGGCATTTCA
1 GTCATTT-TACCCTT-AGGGGTATTTCG
* * * *
43577865 GTTATTTCACCCTTTGAGGGTATTTTG
1 GTCATTTTACCCTTAG-GGGTATTTCG
* *
43577892 GTTATTTTACCCTTTGGGGGTATTTCG
1 GTCATTTTACCC-TTAGGGGTATTTCG
* * * *
43577919 ATCATTTTACCCATCGAGGGTATTTTG
1 GTCATTTTACCCTTAG-GGGTATTTCG
* * **
43577946 GTTATTTTACCCTTTGAGGGTATTTTA
1 GTCATTTTACCCTTAG-GGGTATTTCG
*
43577973 GTCATTTTACCCAGTAGGGGTATTTCG
1 GTCATTTTACCC-TTAGGGGTATTTCG
* * * *
43578000 ATTATTTTACCCTTCGAGGGTAATTCG
1 GTCATTTTACCCTTAG-GGGTATTTCG
* * *
43578027 ATCATTTTACCCTTCAAGGGTATTTTAG
1 GTCATTTTACCCTT-AGGGGTA-TTTCG
* *
43578055 GTCATTTTATCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTAG-GGGTATTTCG
* * * * *
43578082 ATTATTTTATCCTTCGAGGGTATTTCA
1 GTCATTTTACCCTTAG-GGGTATTTCG
* * *
43578109 GTTATTTTACCCTTCGAGGGTATTTTG
1 GTCATTTTACCCTTAG-GGGTATTTCG
* * * **
43578136 GTCATATTACCCTTCGAAGGCGTTTCG
1 GTCATTTTACCCTTAG-GGGTATTTCG
** *
43578163 GTCATTTTACCCTCCGAGGGTATTTCA
1 GTCATTTTACCCTTAG-GGGTATTTCG
* *
43578190 GTCATTTTACCAGTCAGGGGTATTTCG
1 GTCATTTTACC-CTTAGGGGTATTTCG
43578217 GTCATTT
1 GTCATTT
43578224 GCCCACAAAT
Statistics
Matches: 438, Mismatches: 90, Indels: 38
0.77 0.16 0.07
Matches are distributed among these distances:
24 2 0.00
26 28 0.06
27 371 0.85
28 37 0.08
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.43
Consensus pattern (26 bp):
GTCATTTTACCCTTAGGGGTATTTCG
Found at i:43577901 original size:81 final size:81
Alignment explanation
Indices: 43577650--43578223 Score: 413
Period size: 81 Copynumber: 7.1 Consensus size: 81
43577640 GGGTATAATA
* * ** * * *
43577650 GTCATTTTATCC-TATAGG-GGTATTTCGGTCATTTTA-TCTTATAGAGGTAATTCGGTCATTTT
1 GTCATTTTA-CCATAT-GGAGGTATTTCGATCATTTTACCCTTCGAG-GGTATTTCAGTTATTTT
* * *
43577712 ACCCTATAGA-GGTAATTCG
63 ACCCT-TCGAGGGTATTTTG
* * ** * ** *
43577731 ATCATTTTACCCT-TCGGAGGTATTTCGATCATTTTA-CCTTTTAGAGTATTTTGGTCATTTTAC
1 GTCATTTTACCATAT-GGAGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCAGTTATTTTAC
** *
43577794 CCTAT-GAGGGTAACTCG
65 CCT-TCGAGGGTATTTTG
* * * * * *
43577811 TTCATTTTACCATATGGAGGTATTTTGGTCATTTCTA-CCTTCGGGGGCATTTCAGTTATTTCAC
1 GTCATTTTACCATATGGAGGTATTTCGATCATTT-TACCCTTCGAGGGTATTTCAGTTATTTTAC
*
43577875 CCTTTGAGGGTATTTTG
65 CCTTCGAGGGTATTTTG
* * * * * **
43577892 GTTATTTTACCCTTTGGGGGTATTTCGATCATTTTACCCATCGAGGGTATTTTGGTTATTTTACC
1 GTCATTTTACCATATGGAGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCAGTTATTTTACC
* *
43577957 CTTTGAGGGTATTTTA
66 CTTCGAGGGTATTTTG
* * *
43577973 GTCATTTTACCCAGTA-GG-GGTATTTCGATTATTTTACCCTTCGAGGGTAATTC-GATCATTTT
1 GTCATTTTA-CCA-TATGGAGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCAG-TTATTTT
*
43578035 ACCCTTCAAGGGTATTTTAG
63 ACCCTTCGAGGGTATTTT-G
* * *
43578055 GTCATTTTATCC-T-TCGAGGGTATTTCGATTATTTTATCCTTCGAGGGTATTTCAGTTATTTTA
1 GTCATTTTA-CCATATGGA-GGTATTTCGATCATTTTACCCTTCGAGGGTATTTCAGTTATTTTA
43578118 CCCTTCGAGGGTATTTTG
64 CCCTTCGAGGGTATTTTG
* * * ** * * *
43578136 GTCATATTACCCT-TCGAAGGCGTTTCGGTCATTTTACCCTCCGAGGGTATTTCAGTCATTTTAC
1 GTCATTTTACCATAT-GGAGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCAGTTATTTTAC
** *
43578200 CAGTC-AGGGGTATTTCG
65 CCTTCGA-GGGTATTTTG
43578217 GTCATTT
1 GTCATTT
43578224 GCCCACAAAT
Statistics
Matches: 405, Mismatches: 70, Indels: 36
0.79 0.14 0.07
Matches are distributed among these distances:
79 2 0.00
80 71 0.18
81 258 0.64
82 72 0.18
83 2 0.00
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.43
Consensus pattern (81 bp):
GTCATTTTACCATATGGAGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCAGTTATTTTACC
CTTCGAGGGTATTTTG
Found at i:43588771 original size:27 final size:27
Alignment explanation
Indices: 43588734--43588797 Score: 82
Period size: 26 Copynumber: 2.4 Consensus size: 27
43588724 TAAAATTAAA
43588734 AAAAC-TA-AAATATTA-AAAATTTATAT
1 AAAACTTATAAATATTATAAAA--TATAT
43588760 AAAA-TTATAAATATTATAAAATATAT
1 AAAACTTATAAATATTATAAAATATAT
43588786 AAAACTTATAAA
1 AAAACTTATAAA
43588798 AAAATTCATA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
26 15 0.44
27 15 0.44
28 4 0.12
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (27 bp):
AAAACTTATAAATATTATAAAATATAT
Found at i:43588799 original size:10 final size:9
Alignment explanation
Indices: 43588689--43588831 Score: 71
Period size: 9 Copynumber: 15.6 Consensus size: 9
43588679 TTTTCTCATA
*
43588689 AAAAATCAT
1 AAAAATTAT
*
43588698 AAAAAGTATT
1 AAAAATTA-T
43588708 AAAAA--AT
1 AAAAATTAT
*
43588715 AAAAATTCT
1 AAAAATTAT
* *
43588724 TAAAATTAA
1 AAAAATTAT
*
43588733 AAAAACTA-
1 AAAAATTAT
*
43588741 AAATATTA-
1 AAAAATTAT
*
43588749 AAAATTTAT
1 AAAAATTAT
43588758 ATAAAATTAT
1 A-AAAATTAT
*
43588768 AAATATTAT
1 AAAAATTAT
43588777 -AAAATATAT
1 AAAAAT-TAT
*
43588786 AAAACTTAT
1 AAAAATTAT
43588795 AAAAAAATTCAT
1 --AAAAATT-AT
* *
43588807 AATAAGTTCT
1 AA-AAATTAT
43588817 AATAAATTAT
1 AA-AAATTAT
43588827 AAAAA
1 AAAAA
43588832 AATTATAATT
Statistics
Matches: 102, Mismatches: 21, Indels: 22
0.70 0.14 0.15
Matches are distributed among these distances:
7 6 0.06
8 17 0.17
9 36 0.35
10 31 0.30
11 10 0.10
12 2 0.02
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Done.