Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 51 of 352
Found at i:16540536 original size:20 final size:19
Alignment explanation
Indices: 16540502--16540543 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
16540492 ATTCAAAAAA
*
16540502 AAATTATTAACATAATATT
1 AAATTATTAACATAACATT
*
16540521 AAATTATATTACATAACATT
1 AAATTAT-TAACATAACATT
16540541 AAA
1 AAA
16540544 AAAAACAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATTATTAACATAACATT
Found at i:16552641 original size:16 final size:17
Alignment explanation
Indices: 16552620--16552657 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 17
16552610 TATCAAAAAA
16552620 TAAATATTTTT-ATTTT
1 TAAATATTTTTAATTTT
16552636 TAAATATTTTTGAATTTT
1 TAAATATTTTT-AATTTT
16552654 TAAA
1 TAAA
16552658 AAGTAAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 11 0.55
18 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TAAATATTTTTAATTTT
Found at i:16553597 original size:9 final size:8
Alignment explanation
Indices: 16553561--16553603 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
16553551 TTAAATTTAA
*
16553561 TTTTTATA
1 TTTTTATT
*
16553569 TTTTAATT
1 TTTTTATT
**
16553577 TGATTATT
1 TTTTTATT
16553585 TTTTTATT
1 TTTTTATT
16553593 TTTTTATT
1 TTTTTATT
16553601 TTT
1 TTT
16553604 AAAATTTTAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (8 bp):
TTTTTATT
Found at i:16564435 original size:17 final size:18
Alignment explanation
Indices: 16564405--16564450 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
16564395 ATTTAAATTG
16564405 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
16564423 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
16564439 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
16564451 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:16565134 original size:54 final size:55
Alignment explanation
Indices: 16565066--16565186 Score: 142
Period size: 54 Copynumber: 2.2 Consensus size: 55
16565056 GGCAACAAAG
* *
16565066 AAATTCTTTAAAAAAAAAT-TTTGGGTG-CTACTAGTATGTCAAATGATATCGG-TA
1 AAATT-TTTAAAAAAAAATCTTTGGGTGCCT-CTAGTATGTCAAACGACATCGGTTA
* * *
16565120 AATATTTTT-AAAAAATATCTTTTGGTGCCTCTAGTATGTCAAGCGACATCGGTTA
1 AA-ATTTTTAAAAAAAAATCTTTGGGTGCCTCTAGTATGTCAAACGACATCGGTTA
16565175 AAATTTTTAAAA
1 AAATTTTTAAAA
16565187 TATATATTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
53 8 0.14
54 37 0.65
55 12 0.21
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (55 bp):
AAATTTTTAAAAAAAAATCTTTGGGTGCCTCTAGTATGTCAAACGACATCGGTTA
Found at i:16566235 original size:29 final size:29
Alignment explanation
Indices: 16566186--16566247 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
16566176 GATTTTTTTT
*
16566186 AAAAATTACATAAACAGGACAAAATTTAA
1 AAAAATTACATAAACAAGACAAAATTTAA
* **
16566215 AAAAATTACA-AGAATAAGACAATTTTTAA
1 AAAAATTACATA-AACAAGACAAAATTTAA
16566244 AAAA
1 AAAA
16566248 TGTATCCAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 1 0.04
29 27 0.96
ACGTcount: A:0.63, C:0.08, G:0.06, T:0.23
Consensus pattern (29 bp):
AAAAATTACATAAACAAGACAAAATTTAA
Found at i:16567307 original size:20 final size:21
Alignment explanation
Indices: 16567259--16567308 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
16567249 AGAAAAGATG
16567259 ATAAT-ATAACAAAATTGATA
1 ATAATAATAACAAAATTGATA
*
16567279 ATACA-AATAACACAA-TGATA
1 ATA-ATAATAACAAAATTGATA
16567299 ATAATAATAA
1 ATAATAATAA
16567309 TAGTCAACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 1 0.04
20 16 0.62
21 9 0.35
ACGTcount: A:0.62, C:0.08, G:0.04, T:0.26
Consensus pattern (21 bp):
ATAATAATAACAAAATTGATA
Found at i:16571783 original size:40 final size:40
Alignment explanation
Indices: 16571728--16571809 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
16571718 ACTAAATTGA
*
16571728 CATAATTTATAAGCTTTGAGGGTTAAAGTTGTTATTATGC
1 CATAATTTATAAGCTTTGAGGGTTAAAGTTATTATTATGC
16571768 CATAATTTATAAGCTTTGAGGGTTAAAGTTATTATTATGC
1 CATAATTTATAAGCTTTGAGGGTTAAAGTTATTATTATGC
16571808 CA
1 CA
16571810 ATTTTAAAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (40 bp):
CATAATTTATAAGCTTTGAGGGTTAAAGTTATTATTATGC
Found at i:16589606 original size:11 final size:11
Alignment explanation
Indices: 16589590--16589614 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16589580 TGCTGTGACG
16589590 TGTGTATTTAC
1 TGTGTATTTAC
16589601 TGTGTATTTAC
1 TGTGTATTTAC
16589612 TGT
1 TGT
16589615 AAGAAAGTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.08, G:0.20, T:0.56
Consensus pattern (11 bp):
TGTGTATTTAC
Found at i:16613640 original size:26 final size:25
Alignment explanation
Indices: 16613611--16613661 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
16613601 TAAAAGAATA
*
16613611 TTAACAAAATAAAATGACTAAATTTT
1 TTAA-AAAATAAAAGGACTAAATTTT
*
16613637 TTAAGAAATAAAAGGACTAAATTTT
1 TTAAAAAATAAAAGGACTAAATTTT
16613662 AAATATATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (25 bp):
TTAAAAAATAAAAGGACTAAATTTT
Found at i:16614901 original size:29 final size:30
Alignment explanation
Indices: 16614852--16614918 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
16614842 TTATAAATTT
*
16614852 GGAATTTAGTTTATATATTTTTA-TTTTTA
1 GGAATTTAGTTTATATATTTTCAGTTTTTA
*
16614881 GGAATTTAGTCTTTTAT-TTTTCAGTTTTTA
1 GGAATTTAGT-TTATATATTTTCAGTTTTTA
*
16614911 -AAATTTAG
1 GGAATTTAG
16614919 GTCTAATTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 22 0.67
30 11 0.33
ACGTcount: A:0.27, C:0.03, G:0.12, T:0.58
Consensus pattern (30 bp):
GGAATTTAGTTTATATATTTTCAGTTTTTA
Found at i:16621283 original size:23 final size:22
Alignment explanation
Indices: 16621257--16621311 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
16621247 TCCTATTGAA
16621257 ATTTATTTCAAATATATAATATT
1 ATTTATTT-AAATATATAATATT
* *
16621280 ATTTATTTGAATTTATAATATT
1 ATTTATTTAAATATATAATATT
*
16621302 ATTTTTTTAA
1 ATTTATTTAA
16621312 TATTCAACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTTATTTAAATATATAATATT
Found at i:16630566 original size:26 final size:25
Alignment explanation
Indices: 16630527--16630576 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
16630517 TAAAAAAATA
16630527 TTAAGAAAGTAAAGTGAATAAATTTC
1 TTAAGAAAGTAAAG-GAATAAATTTC
*
16630553 TTAAGAAA-TAAAAGGACTAAATTT
1 TTAAGAAAGT-AAAGGAATAAATTT
16630577 TAAATATATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.52, C:0.04, G:0.14, T:0.30
Consensus pattern (25 bp):
TTAAGAAAGTAAAGGAATAAATTTC
Found at i:16636009 original size:19 final size:20
Alignment explanation
Indices: 16635972--16636009 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
16635962 TTTTTACTAA
*
16635972 TTAATTATTGTTTTATTTAT
1 TTAATTATTGTTATATTTAT
*
16635992 TTAATT-TTGTTATCTTTA
1 TTAATTATTGTTATATTTA
16636010 ATATTTATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (20 bp):
TTAATTATTGTTATATTTAT
Found at i:16642877 original size:19 final size:21
Alignment explanation
Indices: 16642853--16642891 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16642843 ATTAATACTT
16642853 AAATTA-TAT-TAATTTTTTC
1 AAATTAGTATCTAATTTTTTC
16642872 AAATTAGTATCTAATTTTTT
1 AAATTAGTATCTAATTTTTT
16642892 TTATCATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 3 0.17
21 9 0.50
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (21 bp):
AAATTAGTATCTAATTTTTTC
Found at i:16643709 original size:21 final size:21
Alignment explanation
Indices: 16643680--16643721 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
16643670 ATAACAGTTG
* *
16643680 AATATAAATATTGAAATAAAA
1 AATAAAAATATAGAAATAAAA
16643701 AATAAAAATATAGAAATAAAA
1 AATAAAAATATAGAAATAAAA
16643722 TTTAATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (21 bp):
AATAAAAATATAGAAATAAAA
Found at i:16645482 original size:72 final size:72
Alignment explanation
Indices: 16645364--16645554 Score: 319
Period size: 72 Copynumber: 2.6 Consensus size: 72
16645354 TATATATTAG
16645364 TGCTTTTTTGATAGGTTTCAGCTTAATAATGTCTTTTGATCTGAGTTTGATCTGAGTTCGGAAAA
1 TGCTTTTTT-ATAGGTTTCAGCTTAATAATGTCTTTTGATCTGAGTTTGATCTGAGTTCGGAAAA
16645429 CTCTTTAC
65 CTCTTTAC
* *
16645437 TGCTTTTTTATAGGTTTCAGCTCAATAATGTCTTTTGATCTGAGTTTGATCTGAGTTTGGAAAAC
1 TGCTTTTTTATAGGTTTCAGCTTAATAATGTCTTTTGATCTGAGTTTGATCTGAGTTCGGAAAAC
*
16645502 TCTTTAG
66 TCTTTAC
* * *
16645509 TGTTTTTTTATAGGTTTCAGCTTAATAATTTCTTTTGATTTGAGTT
1 TGCTTTTTTATAGGTTTCAGCTTAATAATGTCTTTTGATCTGAGTT
16645555 CTGTGATAGA
Statistics
Matches: 111, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
72 102 0.92
73 9 0.08
ACGTcount: A:0.21, C:0.12, G:0.18, T:0.49
Consensus pattern (72 bp):
TGCTTTTTTATAGGTTTCAGCTTAATAATGTCTTTTGATCTGAGTTTGATCTGAGTTCGGAAAAC
TCTTTAC
Found at i:16645486 original size:11 final size:11
Alignment explanation
Indices: 16645470--16645495 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
16645460 AATAATGTCT
16645470 TTTGATCTGAG
1 TTTGATCTGAG
16645481 TTTGATCTGAG
1 TTTGATCTGAG
16645492 TTTG
1 TTTG
16645496 GAAAACTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.08, G:0.27, T:0.50
Consensus pattern (11 bp):
TTTGATCTGAG
Found at i:16645803 original size:18 final size:19
Alignment explanation
Indices: 16645780--16645815 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
16645770 ATTGTTTTCA
16645780 TACCTT-TAGGTATATCAC
1 TACCTTGTAGGTATATCAC
16645798 TACCTTGTAGGTATATCA
1 TACCTTGTAGGTATATCA
16645816 TTAATATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (19 bp):
TACCTTGTAGGTATATCAC
Found at i:16648134 original size:32 final size:32
Alignment explanation
Indices: 16648098--16648250 Score: 225
Period size: 32 Copynumber: 4.8 Consensus size: 32
16648088 ACTATGCTAG
16648098 TTTTTTATATGTAAAACTAATGTATGATCTAC
1 TTTTTTATATGTAAAACTAATGTATGATCTAC
* * *
16648130 TTTTTCATTTGCAAAACTAATGTATGATCTAC
1 TTTTTTATATGTAAAACTAATGTATGATCTAC
* * *
16648162 TTTTTTATATGTGAACCTAATGTATTATCTAC
1 TTTTTTATATGTAAAACTAATGTATGATCTAC
*
16648194 TTTTTTATATGCAAAACTAATGTATGATCTAC
1 TTTTTTATATGTAAAACTAATGTATGATCTAC
* *
16648226 TTTTTTATACGTAAACCTAATGTAT
1 TTTTTTATATGTAAAACTAATGTAT
16648251 CATATTTTTT
Statistics
Matches: 105, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 105 1.00
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.46
Consensus pattern (32 bp):
TTTTTTATATGTAAAACTAATGTATGATCTAC
Found at i:16648207 original size:64 final size:64
Alignment explanation
Indices: 16648098--16648250 Score: 252
Period size: 64 Copynumber: 2.4 Consensus size: 64
16648088 ACTATGCTAG
* *
16648098 TTTTTTATATGTAAAACTAATGTATGATCTACTTTTTCATTTGCAAAACTAATGTATGATCTAC
1 TTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGATCTAC
* * *
16648162 TTTTTTATATGTGAACCTAATGTATTATCTACTTTTTTATATGCAAAACTAATGTATGATCTAC
1 TTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGATCTAC
*
16648226 TTTTTTATACGTAAACCTAATGTAT
1 TTTTTTATATGTAAACCTAATGTAT
16648251 CATATTTTTT
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 82 1.00
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.46
Consensus pattern (64 bp):
TTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGATCTAC
Found at i:16650791 original size:20 final size:21
Alignment explanation
Indices: 16650764--16650817 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
16650754 ACCGCTGTTT
*
16650764 CTAATCTCATCGCTACAGTAT
1 CTAATCTCATCGCTACAGTAA
*
16650785 C-AATCTCACCGCTACAGTAA
1 CTAATCTCATCGCTACAGTAA
16650805 CTAATCTCATCGC
1 CTAATCTCATCGC
16650818 CACCGCTGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.30, C:0.33, G:0.09, T:0.28
Consensus pattern (21 bp):
CTAATCTCATCGCTACAGTAA
Found at i:16660584 original size:197 final size:197
Alignment explanation
Indices: 16660343--16660773 Score: 670
Period size: 197 Copynumber: 2.2 Consensus size: 197
16660333 GAAAGAAATA
16660343 CAATTTCAAAAAGGGCAAAGAGTGCAACAAAATCCCACAAAGCATACTAATCTAACCACAAATTC
1 CAATTTCAAAAAGGGCAAAGAGTGCAACAAAATCCCACAAAGCATACTAATCTAACCACAAATTC
*
16660408 AAAGTAGTTTCAACCTCTAAAATTCC-GGACAGTCCTTTATATAAGATCAAGAATGCT-TGAAGG
66 AAAGTAGTTTCAACCTCTAAAATTCCAGG-CAGTCCATTATATAAGATCAAGAATGCTGT-AAGG
* *
16660471 TTCTTGAACGAA-CTAATAAAGAACTAGGTTGGAGATACCAATTAGTTTCCACGGATGTAGAATG
129 TTCTTGAAC-AAGCTAACAAAGAACTAGGTTGGAGATACCAATTAGTTTCCACGGATATAGAATG
16660535 CAATT
193 CAATT
* * *
16660540 CAATTTCAAAAAGGGCAATGAGTGCAACAAAATCCCATAAAGCATACTAATCTAATCACAAATTC
1 CAATTTCAAAAAGGGCAAAGAGTGCAACAAAATCCCACAAAGCATACTAATCTAACCACAAATTC
* * *
16660605 AGAGTAGTTTCAACCTTTAAAATTCCAGGGAGTCCATTATATAAGATCAAGAATGCTGTAAGGTT
66 AAAGTAGTTTCAACCTCTAAAATTCCAGGCAGTCCATTATATAAGATCAAGAATGCTGTAAGGTT
* * * * **
16660670 CTTGAACAAGCTAACAAAGTACTAGGTTGGGGATACCAATTTGTTTCCACTGATATAGAATGGGA
131 CTTGAACAAGCTAACAAAGAACTAGGTTGGAGATACCAATTAGTTTCCACGGATATAGAATGCAA
16660735 TT
196 TT
*
16660737 CAATTTCACAAAGGGCAAAGAGTGCAACAAAATCCCA
1 CAATTTCAAAAAGGGCAAAGAGTGCAACAAAATCCCA
16660774 AACACATAAA
Statistics
Matches: 214, Mismatches: 17, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
196 2 0.01
197 209 0.98
198 3 0.01
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (197 bp):
CAATTTCAAAAAGGGCAAAGAGTGCAACAAAATCCCACAAAGCATACTAATCTAACCACAAATTC
AAAGTAGTTTCAACCTCTAAAATTCCAGGCAGTCCATTATATAAGATCAAGAATGCTGTAAGGTT
CTTGAACAAGCTAACAAAGAACTAGGTTGGAGATACCAATTAGTTTCCACGGATATAGAATGCAA
TT
Found at i:16665879 original size:36 final size:36
Alignment explanation
Indices: 16665836--16665907 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
16665826 CATAAGAGTA
*
16665836 AGACTATTGATTTTGTTGCTTTCTTACAAAATTAAG
1 AGACTATTGATTTTATTGCTTTCTTACAAAATTAAG
16665872 AGACTATTGATTTTATTGCTTTCTTACAAAATTAAG
1 AGACTATTGATTTTATTGCTTTCTTACAAAATTAAG
16665908 GATGGATTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.44
Consensus pattern (36 bp):
AGACTATTGATTTTATTGCTTTCTTACAAAATTAAG
Found at i:16671684 original size:151 final size:152
Alignment explanation
Indices: 16671515--16671829 Score: 614
Period size: 151 Copynumber: 2.1 Consensus size: 152
16671505 TCAGAGGCGA
16671515 AGCCAGAATAAATTTTTAGGGGCGAATGAAATTTTAATTTTTTATAGTCTATATTTTATAATTTT
1 AGCCA-AATAAATTTTTAGGGGCGAATGAAATTTTAATTTTTTATAGTCTATATTTTATAATTTT
16671580 TAAATGATTAAATCAAATTTTTATAATTTTAGAGGGCCAAAATATAATTTTACTTTTACTAAGTT
65 TAAATGATTAAATCAAATTTTTATAATTTTAGAGGGCCAAAATATAATTTTACTTTTACTAAGTT
16671645 AAAA-TTTTAAAAAAATTTAAGG
130 AAAATTTTTAAAAAAATTTAAGG
16671667 AGCCAAATAAATTTTTAGGGGCGAATGAAATTTTAATTTTTTATAGTCTATATTTTATAATTTTT
1 AGCCAAATAAATTTTTAGGGGCGAATGAAATTTTAATTTTTTATAGTCTATATTTTATAATTTTT
16671732 AAATGATTAAATCAAATTTTTATAATTTTAGAGGGCCAAAATATAATTTTACTTTTACTAAGTTA
66 AAATGATTAAATCAAATTTTTATAATTTTAGAGGGCCAAAATATAATTTTACTTTTACTAAGTTA
16671797 AAATTTTTAAAAAAATTTAAGG
131 AAATTTTTAAAAAAATTTAAGG
16671819 AGCCAAATAAA
1 AGCCAAATAAA
16671830 AATTTTACAT
Statistics
Matches: 162, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
151 128 0.79
152 34 0.21
ACGTcount: A:0.41, C:0.06, G:0.11, T:0.42
Consensus pattern (152 bp):
AGCCAAATAAATTTTTAGGGGCGAATGAAATTTTAATTTTTTATAGTCTATATTTTATAATTTTT
AAATGATTAAATCAAATTTTTATAATTTTAGAGGGCCAAAATATAATTTTACTTTTACTAAGTTA
AAATTTTTAAAAAAATTTAAGG
Found at i:16683413 original size:25 final size:25
Alignment explanation
Indices: 16683384--16683435 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
16683374 AAGAATAATT
**
16683384 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCCGATATTGCCTAATAAA
* *
16683409 TGAATATCCGATATTGCTTAGTAAA
1 TGAATATCCGATATTGCCTAATAAA
16683434 TG
1 TG
16683436 TCAAGCCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (25 bp):
TGAATATCCGATATTGCCTAATAAA
Found at i:16683604 original size:10 final size:10
Alignment explanation
Indices: 16683591--16683617 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
16683581 TTATGTATGG
16683591 TTATCTGTAT
1 TTATCTGTAT
16683601 TTATCTGTAT
1 TTATCTGTAT
16683611 TTATCTG
1 TTATCTG
16683618 AAACAGAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.11, T:0.59
Consensus pattern (10 bp):
TTATCTGTAT
Found at i:16687986 original size:19 final size:19
Alignment explanation
Indices: 16687962--16688001 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
16687952 TTAATTATTC
16687962 TTTAATTTATAATTCAACT
1 TTTAATTTATAATTCAACT
16687981 TTTAATTTATAATTCAACT
1 TTTAATTTATAATTCAACT
16688000 TT
1 TT
16688002 CACCCTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTAATTTATAATTCAACT
Found at i:16689400 original size:76 final size:76
Alignment explanation
Indices: 16689262--16689683 Score: 334
Period size: 76 Copynumber: 5.6 Consensus size: 76
16689252 GTGACATTCA
* * *
16689262 ATTTTCTAACAGTTCGCTTGATTTAATATCGCAACTGTCATTTTTACGATCCGCTAAATTAAGAT
1 ATTTTCTAACAGTTCGCTTGATTTAATATCGCGACTGTCATTTTTACGATCCACTAATTTAAGAT
* *
16689327 CGCGACCTTTG
66 CGCAACCTTCG
* * * * * * * * *
16689338 ATTTTCTAACAGTTCACTTGATTTAATATTGTGACTGCCATTTTTATGGTTCATTGATTTAAGAT
1 ATTTTCTAACAGTTCGCTTGATTTAATATCGCGACTGTCATTTTTACGATCCACTAATTTAAGAT
16689403 CGCAACCTTCG
66 CGCAACCTTCG
* ** * * * *
16689414 GTTTTCTAACAACTCGTTTGATTTAATACCGCGACTGTCAGTTTTACGATCCACTAATTTAATAT
1 ATTTTCTAACAGTTCGCTTGATTTAATATCGCGACTGTCATTTTTACGATCCACTAATTTAAGAT
*
16689479 CGTAACCTTCG
66 CGCAACCTTCG
* * * * * * ** *
16689490 ATTTTCTAATAGTTTGCTTGATTTAATATCGTGATTGTCATTTTTATGGTCCGTTGATTTAAGAT
1 ATTTTCTAACAGTTCGCTTGATTTAATATCGCGACTGTCATTTTTACGATCCACTAATTTAAGAT
* *
16689555 TGCGACCTTCG
66 CGCAACCTTCG
* * * * * * * * *
16689566 A-----T-ACAGTTTGTTTGATTTAATATCGAGGCTGTCATTTTTAAGGTCCGCTGATTTAATAT
1 ATTTTCTAACAGTTCGCTTGATTTAATATCGCGACTGTCATTTTTACGATCCACTAATTTAAGAT
**** *
16689625 TATGACCTTTG
66 CGCAACCTTCG
* * * * *
16689636 ATTTTTTAATAGTTCGCTTGAATTATTCTCGCGACTGTCATTTTTACG
1 ATTTTCTAACAGTTCGCTTGATTTAATATCGCGACTGTCATTTTTACG
16689684 GTCCGTTGAT
Statistics
Matches: 270, Mismatches: 70, Indels: 12
0.77 0.20 0.03
Matches are distributed among these distances:
70 58 0.21
71 1 0.00
75 1 0.00
76 210 0.78
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.43
Consensus pattern (76 bp):
ATTTTCTAACAGTTCGCTTGATTTAATATCGCGACTGTCATTTTTACGATCCACTAATTTAAGAT
CGCAACCTTCG
Found at i:16689632 original size:70 final size:70
Alignment explanation
Indices: 16689500--16689633 Score: 187
Period size: 70 Copynumber: 1.9 Consensus size: 70
16689490 ATTTTCTAAT
* * * * *
16689500 AGTTTGCTTGATTTAATATCGTGATTGTCATTTTTATGGTCCGTTGATTTAAGATTGCGACCTTC
1 AGTTTGCTTGATTTAATATCGAGACTGTCATTTTTAAGGTCCGCTGATTTAAGATTACGACCTTC
16689565 GATAC
66 GATAC
* * * *
16689570 AGTTTGTTTGATTTAATATCGAGGCTGTCATTTTTAAGGTCCGCTGATTTAATATTATGACCTT
1 AGTTTGCTTGATTTAATATCGAGACTGTCATTTTTAAGGTCCGCTGATTTAAGATTACGACCTT
16689634 TGATTTTTTA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
70 55 1.00
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.45
Consensus pattern (70 bp):
AGTTTGCTTGATTTAATATCGAGACTGTCATTTTTAAGGTCCGCTGATTTAAGATTACGACCTTC
GATAC
Found at i:16689655 original size:146 final size:149
Alignment explanation
Indices: 16689268--16689706 Score: 481
Period size: 152 Copynumber: 2.9 Consensus size: 149
16689258 TTCAATTTTC
* * * *
16689268 TAACAGTTCGCTTGATTTAATATCGCA-ACTGTCATTTTTACGATCCGCTAAATTAAGATCGCGA
1 TAACAGTTCGTTTGATTTAATATCG-AGACTGTCATTTTTACGATCCGCTAATTTAATATCGTGA
* * * * * *
16689332 CCTTTGATTTTCTAACAGTTCACTTGATTTAATATTGTGACTGCCATTTTTATGGTTCATTGATT
65 CCTTTGATTTTCTAATAGTTCGCTTGATTTAATATCGTGACTGTCATTTTTATGGTCCGTTGATT
* * *
16689397 TAAGATCGCAACCTTCGGTTTTC
130 TAAGATTGCGACCTTCGG---TA
** * * * * *
16689420 TAACAACTCGTTTGATTTAATACCGCGACTGTCAGTTTTACGATCCACTAATTTAATATCGTAAC
1 TAACAGTTCGTTTGATTTAATATCGAGACTGTCATTTTTACGATCCGCTAATTTAATATCGTGAC
* * *
16689485 CTTCGATTTTCTAATAGTTTGCTTGATTTAATATCGTGATTGTCATTTTTATGGTCCGTTGATTT
66 CTTTGATTTTCTAATAGTTCGCTTGATTTAATATCGTGACTGTCATTTTTATGGTCCGTTGATTT
16689550 AAGATTGCGACCTTC-G-A
131 AAGATTGCGACCTTCGGTA
* * * * * **
16689567 T-ACAGTTTGTTTGATTTAATATCGAGGCTGTCATTTTTAAGGTCCGCTGATTTAATATTATGAC
1 TAACAGTTCGTTTGATTTAATATCGAGACTGTCATTTTTACGATCCGCTAATTTAATATCGTGAC
* * * * * *
16689631 CTTTGATTTTTTAATAGTTCGCTTGAATTATTCTCGCGACTGTCATTTTTACGGTCCGTTGATTT
66 CTTTGATTTTCTAATAGTTCGCTTGATTTAATATCGTGACTGTCATTTTTATGGTCCGTTGATTT
*
16689696 AATATTGCGAC
131 AAGATTGCGAC
16689707 ATTTGGTTTT
Statistics
Matches: 239, Mismatches: 47, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
146 115 0.48
147 1 0.00
151 1 0.00
152 122 0.51
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.42
Consensus pattern (149 bp):
TAACAGTTCGTTTGATTTAATATCGAGACTGTCATTTTTACGATCCGCTAATTTAATATCGTGAC
CTTTGATTTTCTAATAGTTCGCTTGATTTAATATCGTGACTGTCATTTTTATGGTCCGTTGATTT
AAGATTGCGACCTTCGGTA
Found at i:16690322 original size:24 final size:24
Alignment explanation
Indices: 16690295--16690346 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
16690285 TTTAAATTTA
16690295 AAATAAATT-AATATTATTAAAAAT
1 AAATAAATTAAAT-TTATTAAAAAT
* * *
16690319 AAATAGATTAAATTTGTTAAGAAT
1 AAATAAATTAAATTTATTAAAAAT
16690343 AAAT
1 AAAT
16690347 TAACTTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 21 0.88
25 3 0.12
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.37
Consensus pattern (24 bp):
AAATAAATTAAATTTATTAAAAAT
Found at i:16691376 original size:31 final size:31
Alignment explanation
Indices: 16691326--16691395 Score: 104
Period size: 31 Copynumber: 2.2 Consensus size: 31
16691316 TATACATAAT
*
16691326 ATTTATAGGAAATAAATATAATATATTCCTAA
1 ATTTAT-GGAAAGAAATATAATATATTCCTAA
*
16691358 ATTTATGGAAAGATATATAATATATTCCTAA
1 ATTTATGGAAAGAAATATAATATATTCCTAA
*
16691389 ATATATG
1 ATTTATG
16691396 CCTAAAAGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
31 29 0.83
32 6 0.17
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.39
Consensus pattern (31 bp):
ATTTATGGAAAGAAATATAATATATTCCTAA
Found at i:16692537 original size:12 final size:13
Alignment explanation
Indices: 16692518--16692549 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
16692508 AACTAAGGGG
16692518 AGTTGGAATATCA
1 AGTTGGAATATCA
16692531 A-TTGGAATATCA
1 AGTTGGAATATCA
16692543 AGTTGGA
1 AGTTGGA
16692550 TTCAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.31
Consensus pattern (13 bp):
AGTTGGAATATCA
Found at i:16697237 original size:21 final size:21
Alignment explanation
Indices: 16697213--16697270 Score: 89
Period size: 21 Copynumber: 2.7 Consensus size: 21
16697203 TAGACATCAA
16697213 GAGTATACATAATATTTATAG
1 GAGTATACATAATATTTATAG
*
16697234 GAGTACACATAATATTTATAG
1 GAGTATACATAATATTTATAG
*
16697255 GAAATATACATAATAT
1 G-AGTATACATAATAT
16697271 ATTCCTAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.34
Consensus pattern (21 bp):
GAGTATACATAATATTTATAG
Found at i:16697299 original size:31 final size:31
Alignment explanation
Indices: 16697250--16697316 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
16697240 ACATAATATT
*
16697250 TATA-GGAAATATACATAATATATTCCTAAA
1 TATATGGAAAGATACATAATATATTCCTAAA
* **
16697280 TATATGGAAAGATATATAATATATTTTTAAA
1 TATATGGAAAGATACATAATATATTCCTAAA
16697311 TATATG
1 TATATG
16697317 CCTAAAAGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 4 0.12
31 28 0.88
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (31 bp):
TATATGGAAAGATACATAATATATTCCTAAA
Found at i:16697389 original size:15 final size:15
Alignment explanation
Indices: 16697342--16697389 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
16697332 ATATATTTAA
16697342 ATATTCTTAAAAGAT
1 ATATTCTTAAAAGAT
16697357 A-ATATCTTATAATA-AT
1 ATAT-TCTTA-AA-AGAT
16697373 ATATTCTTAAAAGAT
1 ATATTCTTAAAAGAT
16697388 AT
1 AT
16697390 CCCGTAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
14 3 0.11
15 12 0.43
16 10 0.36
17 3 0.11
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (15 bp):
ATATTCTTAAAAGAT
Found at i:16697400 original size:31 final size:31
Alignment explanation
Indices: 16697342--16697401 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
16697332 ATATATTTAA
* *
16697342 ATATTCTTAAAAGATAATATCTTATAATAAT
1 ATATTCTTAAAAGATAATACCTAATAATAAT
*
16697373 ATATTCTTAAAAGAT-ATCCCGTAATAATA
1 ATATTCTTAAAAGATAATACC-TAATAATA
16697402 GTATCTAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 3 0.12
31 22 0.88
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (31 bp):
ATATTCTTAAAAGATAATACCTAATAATAAT
Found at i:16698991 original size:21 final size:23
Alignment explanation
Indices: 16698941--16699003 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 23
16698931 ATTGAATTTA
*
16698941 AATTATAAATTATGTTTGATATATT
1 AATTA-AAATTAT-TTAGATATATT
16698966 AATTAAAATTATTTAGA-ATA-T
1 AATTAAAATTATTTAGATATATT
16698987 AATT-AAATTATTT-GATA
1 AATTAAAATTATTTAGATA
16699004 AATATAAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
19 2 0.06
20 10 0.28
21 5 0.14
22 3 0.08
23 4 0.11
24 7 0.19
25 5 0.14
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (23 bp):
AATTAAAATTATTTAGATATATT
Found at i:16698992 original size:25 final size:25
Alignment explanation
Indices: 16698941--16698991 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
16698931 ATTGAATTTA
*
16698941 AATTATAAATTATGTTTGATATATT
1 AATTATAAATTATGTTAGATATATT
16698966 AATTA-AAATTAT-TTAGA-ATA-T
1 AATTATAAATTATGTTAGATATATT
16698987 AATTA
1 AATTA
16698992 AATTATTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 6 0.24
22 3 0.12
23 4 0.16
24 7 0.28
25 5 0.20
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (25 bp):
AATTATAAATTATGTTAGATATATT
Found at i:16699007 original size:22 final size:22
Alignment explanation
Indices: 16698946--16699010 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 22
16698936 ATTTAAATTA
*
16698946 TAAATTATGTTTGATATAT-TAAT
1 TAAATTA--TTTGATAAATATAAT
*
16698969 TAAAATTATTT-A-GAATATAAT
1 T-AAATTATTTGATAAATATAAT
16698990 TAAATTATTTGATAAATATAA
1 TAAATTATTTGATAAATATAA
16699011 ATTTTAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
20 11 0.31
21 7 0.20
22 10 0.29
23 1 0.03
24 6 0.17
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (22 bp):
TAAATTATTTGATAAATATAAT
Found at i:16710403 original size:24 final size:24
Alignment explanation
Indices: 16710376--16710422 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
16710366 TATGGTAACT
*
16710376 AATATTATATTAATTATTTTTTAA
1 AATAATATATTAATTATTTTTTAA
* **
16710400 AATAATGTATTTTTTATTTTTTA
1 AATAATATATTAATTATTTTTTA
16710423 TTTATAAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (24 bp):
AATAATATATTAATTATTTTTTAA
Found at i:16710840 original size:132 final size:130
Alignment explanation
Indices: 16710611--16710863 Score: 291
Period size: 133 Copynumber: 1.9 Consensus size: 130
16710601 AACTATGAGT
16710611 TAATATGTTAAAAAAATTAATTAAAAAAAAGCTTGAAGCAACATCATGAAATAAAAAATACAAAT
1 TAATATGTTAAAAAAATTAATTAAAAAAAAGCTTGAAGCAACATCATGAAATAAAAAATACAAAT
* * * * *
16710676 ATGAGTAGAAGAGAAATCAAACTCTGAAACTCAATGATGTAACTATCTAATCATCTAACCAAATA
66 ATAAATAGAAGAGAAATCAAACTCTGAAACTCAAAGATATAAATA-CTAAT-ATCTAACCAAATA
16710741 AC
129 AC
* *
16710743 TAATATGTT-AAAAAATTAATTAAAAATTTAAAACGTTTGAAG-AA-AT-ATTAAATAAAAAATA
1 TAATATGTTAAAAAAATTAATT-AAAA---AAAA-GCTTGAAGCAACATCATGAAATAAAAAATA
* * * * * *
16710804 TAAATATAAATAGGAGAGGAATTAAATTC-GAGACTCAAAGATATAAATACTAATATCTAA
61 CAAATATAAATAGAAGAGAAATCAAACTCTGAAACTCAAAGATATAAATACTAATATCTAA
16710864 TTATATAGCC
Statistics
Matches: 103, Mismatches: 13, Indels: 12
0.80 0.10 0.09
Matches are distributed among these distances:
130 6 0.06
131 17 0.17
132 29 0.28
133 36 0.35
134 2 0.02
135 6 0.06
136 7 0.07
ACGTcount: A:0.54, C:0.09, G:0.10, T:0.27
Consensus pattern (130 bp):
TAATATGTTAAAAAAATTAATTAAAAAAAAGCTTGAAGCAACATCATGAAATAAAAAATACAAAT
ATAAATAGAAGAGAAATCAAACTCTGAAACTCAAAGATATAAATACTAATATCTAACCAAATAAC
Found at i:16711831 original size:6 final size:7
Alignment explanation
Indices: 16711814--16711840 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
16711804 TAGCTTCATT
16711814 TTTTTTA
1 TTTTTTA
16711821 TTTTTTA
1 TTTTTTA
16711828 TTTTTTA
1 TTTTTTA
16711835 TTTTTT
1 TTTTTT
16711841 GAGTTTTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTA
Found at i:16713654 original size:41 final size:41
Alignment explanation
Indices: 16713551--16713794 Score: 337
Period size: 41 Copynumber: 6.0 Consensus size: 41
16713541 TAAAACACAT
* *
16713551 AGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAAT-AG
1 AGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCAG
* * * * *
16713591 AGAAATAGTGGCACTTTAGGTAAAACACCGCTAAAAGTCAG
1 AGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCAG
*
16713632 AGCAATAGCGGCGCTTTCGGTAAAACGCCGCTAAAAGTCAG
1 AGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCAG
* * *
16713673 AGCATTAGCGGCACTTTTGGTAAAACGCCGCTAAAAGTCGG
1 AGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCAG
* **
16713714 AGCAATAGCGGCGCTTTTAGTAAAACGCCATTAAAAGTCAG
1 AGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCAG
* *
16713755 AGCATTAGAGGCGCTTTTGGTAAAACGCCGCTAAAAGTCA
1 AGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCA
16713795 TATAACCCCT
Statistics
Matches: 176, Mismatches: 27, Indels: 1
0.86 0.13 0.00
Matches are distributed among these distances:
40 31 0.18
41 145 0.82
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.21
Consensus pattern (41 bp):
AGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCAG
Found at i:16714007 original size:7 final size:7
Alignment explanation
Indices: 16713995--16714058 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
16713985 TTTATTTTTT
*
16713995 GGTTTAC
1 GGTTTAA
16714002 GGTTTAA
1 GGTTTAA
**
16714009 TATTTAA
1 GGTTTAA
16714016 GGTTTAA
1 GGTTTAA
* *
16714023 GGTCTAT
1 GGTTTAA
*
16714030 GGTTTAG
1 GGTTTAA
*
16714037 GGTTTTAT
1 GG-TTTAA
16714045 GGTTTAA
1 GGTTTAA
16714052 GGTTTAA
1 GGTTTAA
16714059 TGGCCATGGG
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
7 39 0.87
8 6 0.13
ACGTcount: A:0.23, C:0.03, G:0.27, T:0.47
Consensus pattern (7 bp):
GGTTTAA
Found at i:16714047 original size:15 final size:15
Alignment explanation
Indices: 16714011--16714061 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
16714001 CGGTTTAATA
*
16714011 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
* *
16714025 TCTATGGTTTAGGGT
1 TTTATGGTTTAAGGT
16714040 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
16714055 TTAATGG
1 TTTATGG
16714062 CCATGGGTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:16714677 original size:15 final size:15
Alignment explanation
Indices: 16714657--16714749 Score: 98
Period size: 15 Copynumber: 6.1 Consensus size: 15
16714647 AAATAAACTC
16714657 AAAAATTAAAAATTA
1 AAAAATTAAAAATTA
* *
16714672 AAAAATTTAAAATTT
1 AAAAATTAAAAATTA
*
16714687 AAAATTTAAAAA-TA
1 AAAAATTAAAAATTA
*
16714701 AAAAATAAAAAATTA
1 AAAAATTAAAAATTA
16714716 AAAAACTTAAAAAACTTA
1 AAAAA-TT-AAAAA-TTA
* *
16714734 AAAATTTAAAATTTA
1 AAAAATTAAAAATTA
16714749 A
1 A
16714750 TATTTTAGTC
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
14 11 0.17
15 34 0.53
16 5 0.08
17 7 0.11
18 7 0.11
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAAATTAAAAATTA
Found at i:16714681 original size:9 final size:8
Alignment explanation
Indices: 16714657--16714744 Score: 87
Period size: 7 Copynumber: 11.4 Consensus size: 8
16714647 AAATAAACTC
16714657 AAAAATT-
1 AAAAATTA
16714664 AAAAATTA
1 AAAAATTA
16714672 AAAAATT-
1 AAAAATTA
*
16714679 TAAAATT-
1 AAAAATTA
* *
16714686 TAAAATTT
1 AAAAATTA
16714694 AAAAA-TA
1 AAAAATTA
16714701 AAAAA-TA
1 AAAAATTA
16714708 AAAAATTA
1 AAAAATTA
16714716 AAAAACTTA
1 AAAAA-TTA
16714725 AAAAACTTA
1 AAAAA-TTA
*
16714734 AAAATTTA
1 AAAAATTA
16714742 AAA
1 AAA
16714745 TTTAATATTT
Statistics
Matches: 73, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
7 33 0.45
8 24 0.33
9 16 0.22
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (8 bp):
AAAAATTA
Found at i:16720001 original size:23 final size:22
Alignment explanation
Indices: 16719958--16720001 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
16719948 TTCATTGATA
*
16719958 TATTTATATTTAATCTATTTTT
1 TATTTATATTTAATATATTTTT
*
16719980 TATTATATATTTTA-ATATTTTT
1 TATT-TATATTTAATATATTTTT
16720002 AGTTAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (22 bp):
TATTTATATTTAATATATTTTT
Found at i:16720207 original size:43 final size:43
Alignment explanation
Indices: 16720159--16720259 Score: 139
Period size: 43 Copynumber: 2.3 Consensus size: 43
16720149 TTTTATTACC
* *
16720159 TTTAGCGGCATTTTTGGGTAAAGCGTCGCTAAAGGTCATGACA
1 TTTAGCGGCATTTTTGGGAAAAGCGCCGCTAAAGGTCATGACA
* * * *
16720202 TTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCATGACC
1 TTTAGCGGCATTTTTGGGAAAAGCGCCGCTAAAGGTCATGACA
*
16720245 TTTAGCGGTATTTTT
1 TTTAGCGGCATTTTT
16720260 TTAAATAAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.33
Consensus pattern (43 bp):
TTTAGCGGCATTTTTGGGAAAAGCGCCGCTAAAGGTCATGACA
Found at i:16722191 original size:24 final size:23
Alignment explanation
Indices: 16722109--16722192 Score: 84
Period size: 23 Copynumber: 3.7 Consensus size: 23
16722099 TTTATTATTA
* *
16722109 ATTTT-AAAAATTTTGAAATGTAT
1 ATTTTGAAATATTTT-AAATATAT
16722132 A-TTTGAAATATTTTATAATATAT
1 ATTTTGAAATATTTTA-AATATAT
**
16722155 ATTTTTTAA-ATTTTAAATATAT
1 ATTTTGAAATATTTTAAATATAT
16722177 ATTTTGAAATTATTTT
1 ATTTTGAAA-TATTTT
16722193 TTTAATTTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
22 18 0.36
23 22 0.44
24 10 0.20
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (23 bp):
ATTTTGAAATATTTTAAATATAT
Found at i:16722210 original size:21 final size:21
Alignment explanation
Indices: 16722177--16722235 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
16722167 TTAAATATAT
* *
16722177 ATTTTGAA-ATTATTTTTTTA
1 ATTTTAAATATTATTTTTTAA
16722197 ATTTTAAATATTATTTTTTAA
1 ATTTTAAATATTATTTTTTAA
*
16722218 ATATTAAATATATATTTT
1 ATTTTAAATAT-TATTTT
16722236 AATAATATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 7 0.21
21 21 0.62
22 6 0.18
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
ATTTTAAATATTATTTTTTAA
Found at i:16722242 original size:22 final size:20
Alignment explanation
Indices: 16722185--16722251 Score: 62
Period size: 22 Copynumber: 3.1 Consensus size: 20
16722175 ATATTTTGAA
* *
16722185 ATTATTTTTTTAATTTTAAAT
1 ATTA-TTTTATAATATTAAAT
*
16722206 ATTATTTTTTAAATATTAAAT
1 ATTATTTTAT-AATATTAAAT
*
16722227 ATATATTTTAATAATATAAAAT
1 AT-TATTTT-ATAATATTAAAT
16722249 ATT
1 ATT
16722252 TAAATATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
20 6 0.15
21 16 0.40
22 17 0.43
23 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTATTTTATAATATTAAAT
Found at i:16722321 original size:120 final size:120
Alignment explanation
Indices: 16722198--16722452 Score: 304
Period size: 121 Copynumber: 2.1 Consensus size: 120
16722188 ATTTTTTTAA
*
16722198 TTTTAAATATTATTTTTTAA-ATATTAAA-TAT-ATATTTT-AATAATATAAAATAT-TTAAATA
1 TTTTAAAT-TTATTTTATAATATATTAAATTATGAT-TTTTAAATAATATAAAATATATT--AT-
*
16722258 TTTTAAAGATATGACCTTTCAAATTTATTATTAGTTTTATAATACTTTAAATTTTAAATAT
61 TTTTAAAGATATGACATTTCAAATTTATTATTAG-TTTATAATACTTTAAATTTTAAATAT
* * * * *
16722319 TTTTTAATTTGTTTTATAATATTTTAAATTATGATTTTTAAATTATTTAAAATATATTATTTTTA
1 TTTTAAATTTATTTTATAATATATTAAATTATGATTTTTAAATAATATAAAATATATTATTTTTA
* *
16722384 AAGATATGACATTTCAAATTTATTATTTGTTTATAATATTTTAAATATTTTTTAAATAT
66 AAGATATGACATTTCAAATTTATTATTAGTTTATAATACTTT-AA-A--TTTTAAATAT
16722443 TTTTAAATTT
1 TTTTAAATTT
16722453 TAAATATAAT
Statistics
Matches: 115, Mismatches: 10, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
120 21 0.18
121 48 0.42
122 10 0.09
123 15 0.13
124 21 0.18
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (120 bp):
TTTTAAATTTATTTTATAATATATTAAATTATGATTTTTAAATAATATAAAATATATTATTTTTA
AAGATATGACATTTCAAATTTATTATTAGTTTATAATACTTTAAATTTTAAATAT
Found at i:16722348 original size:21 final size:21
Alignment explanation
Indices: 16722309--16722366 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 21
16722299 ATACTTTAAA
*
16722309 TTTTAAATATTTTTTAATTTG
1 TTTTAAATATTTTTAAATTTG
16722330 TTTTATAATA-TTTTAAATTATG
1 TTTTA-AATATTTTTAAATT-TG
16722352 ATTTTTAAATTATTT
1 --TTTTAAA-TATTT
16722367 AAAATATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
21 13 0.43
22 6 0.20
23 2 0.07
24 7 0.23
25 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (21 bp):
TTTTAAATATTTTTAAATTTG
Found at i:16722365 original size:24 final size:24
Alignment explanation
Indices: 16722330--16722385 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
16722320 TTTTAATTTG
*
16722330 TTTTATAATATTTTAAAT-TATGAT
1 TTTTA-AATATTTAAAATATATGAT
*
16722354 TTTTAAATTATTTAAAATATATTAT
1 TTTTAAA-TATTTAAAATATATGAT
16722379 TTTTAAA
1 TTTTAAA
16722386 GATATGACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 2 0.07
24 14 0.50
25 12 0.43
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (24 bp):
TTTTAAATATTTAAAATATATGAT
Found at i:16722432 original size:9 final size:9
Alignment explanation
Indices: 16722413--16722459 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
16722403 TTATTATTTG
16722413 TTTATAATAT
1 TTTA-AATAT
16722423 TTTAAATATTT
1 TTTAAATA--T
16722434 TTTAAATAT
1 TTTAAATAT
*
16722443 TTTTAA-AT
1 TTTAAATAT
16722451 TTTAAATAT
1 TTTAAATAT
16722460 AATTTTTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
8 7 0.22
9 12 0.38
10 4 0.12
11 9 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTAAATAT
Found at i:16722436 original size:11 final size:10
Alignment explanation
Indices: 16722413--16722450 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
16722403 TTATTATTTG
16722413 TTTATAATA-T
1 TTTA-AATATT
16722423 TTTAAATATTT
1 TTTAAATA-TT
16722434 TTTAAATATT
1 TTTAAATATT
16722444 TTTAAAT
1 TTTAAAT
16722451 TTTAAATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 4 0.15
10 13 0.50
11 9 0.35
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTAAATATT
Found at i:16724034 original size:6 final size:6
Alignment explanation
Indices: 16724023--16724055 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
16724013 TGTGTACCGC
*
16724023 TACTAT TACTAT TACTAT TACTAT TACTGT TAC
1 TACTAT TACTAT TACTAT TACTAT TACTAT TAC
16724056 CCTTACGGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.30, C:0.18, G:0.03, T:0.48
Consensus pattern (6 bp):
TACTAT
Found at i:16724061 original size:18 final size:18
Alignment explanation
Indices: 16724023--16724061 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
16724013 TGTGTACCGC
*
16724023 TACTATTACTATTACTAT
1 TACTATTACTATTACCAT
* *
16724041 TACTATTACTGTTACCCT
1 TACTATTACTATTACCAT
16724059 TAC
1 TAC
16724062 GGTGTATTCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.03, T:0.46
Consensus pattern (18 bp):
TACTATTACTATTACCAT
Found at i:16724244 original size:18 final size:18
Alignment explanation
Indices: 16724187--16724246 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
16724177 AATTGTTTGC
* *
16724187 TACTGAATAATTGACTGT
1 TACTGAATAAATGACTAT
* * *
16724205 TACAGAATAAACGACTAA
1 TACTGAATAAATGACTAT
*
16724223 TACTGAATAAATGAATAT
1 TACTGAATAAATGACTAT
16724241 TACTGA
1 TACTGA
16724247 TTAACCGATT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (18 bp):
TACTGAATAAATGACTAT
Found at i:16727451 original size:31 final size:31
Alignment explanation
Indices: 16727416--16727568 Score: 234
Period size: 31 Copynumber: 4.9 Consensus size: 31
16727406 TTGTCACTTT
* *
16727416 TAGCCGAAGCTACCACTATTCACTGATCAAG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
* *
16727447 TAGCCGGAGCTACCATTTTTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
*
16727478 TAGCCGAGGCTACCACTTTTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
*
16727509 TAGCCGAAGCTACCATTTTTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
* *
16727540 TTGCCGAAGCTACCACTTTTCACTTATCA
1 TAGCCGAAGCTACCACTTTTCACTGATCA
16727569 TTTGTCCTTG
Statistics
Matches: 110, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 110 1.00
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (31 bp):
TAGCCGAAGCTACCACTTTTCACTGATCAGG
Found at i:16727643 original size:50 final size:51
Alignment explanation
Indices: 16727542--16727665 Score: 178
Period size: 50 Copynumber: 2.5 Consensus size: 51
16727532 TGATCAGGTT
* * * *
16727542 GCCGAAGCTACCACTTTTCACTTATCATTTGTCCTTGATCAGATAAGTGTA
1 GCCGAAGCTATCACTTATCACTTATCACTTATCCTTGATCAGATAAGTGTA
* *
16727593 GCCGAAGCTGTCACTTATCACTT-TCACTTATCCTTGATCAGTTAAGTGTA
1 GCCGAAGCTATCACTTATCACTTATCACTTATCCTTGATCAGATAAGTGTA
*
16727643 GCCGAAGCTATTACTTATCACTT
1 GCCGAAGCTATCACTTATCACTT
16727666 GTTGCCATGG
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 45 0.69
51 20 0.31
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.35
Consensus pattern (51 bp):
GCCGAAGCTATCACTTATCACTTATCACTTATCCTTGATCAGATAAGTGTA
Found at i:16731274 original size:47 final size:47
Alignment explanation
Indices: 16731205--16731357 Score: 182
Period size: 47 Copynumber: 3.2 Consensus size: 47
16731195 TTCGGACAAA
* *
16731205 TGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGG
1 TGTGATATGTGCTACCGTATAAGACCATATCTGGGATATGGCATCGG
* *
16731252 TGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATCAG
1 TGTGATATGTGCTACCGTATAAGACCATATCTGGGATATGGCATCGG
* * * ** * *
16731299 TGTGATACGTGAT-CCGTGTAAGACCATGGCTGGGCTATGGCCTCGG
1 TGTGATATGTGCTACCGTATAAGACCATATCTGGGATATGGCATCGG
16731345 TACGTGATATGTG
1 T--GTGATATGTG
16731358 ACTATGTGCA
Statistics
Matches: 90, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
46 27 0.30
47 54 0.60
48 9 0.10
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (47 bp):
TGTGATATGTGCTACCGTATAAGACCATATCTGGGATATGGCATCGG
Found at i:16733856 original size:39 final size:39
Alignment explanation
Indices: 16733813--16733972 Score: 239
Period size: 39 Copynumber: 4.1 Consensus size: 39
16733803 ATGCAAGATA
* *
16733813 CTGGAAATATATCCGGGCTAAAGTCTCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
16733852 CTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
16733891 TTGGAAATGTATCCGGGCTAAAGTCCCGTAGGGTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
16733930 CAGGAAATGTATCCGGGCTAAAGTCCCGCAAGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
16733969 CTGG
1 CTGG
16733973 TAATATAATT
Statistics
Matches: 109, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 109 1.00
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.26
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:16738153 original size:30 final size:30
Alignment explanation
Indices: 16738118--16738219 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
16738108 TGGTCGCTTT
*
16738118 GGGTGAAATGAACTCGAACCGCCTATGTCC
1 GGGTGATATGAACTCGAACCGCCTATGTCC
* *
16738148 GGGTGATATGAACTCAAATCG-CTAATGTCC
1 GGGTGATATGAACTCGAACCGCCT-ATGTCC
* *
16738178 GGGTGATATGAACTTGAACCGCCAATGTCC
1 GGGTGATATGAACTCGAACCGCCTATGTCC
*
16738208 GAGTGATATGAA
1 GGGTGATATGAA
16738220 GTGCTTTGTG
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 2 0.03
30 59 0.95
31 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (30 bp):
GGGTGATATGAACTCGAACCGCCTATGTCC
Found at i:16740454 original size:17 final size:17
Alignment explanation
Indices: 16740432--16740500 Score: 59
Period size: 17 Copynumber: 4.0 Consensus size: 17
16740422 CAACATTTTC
16740432 TTTTAACATATTTAAAA
1 TTTTAACATATTTAAAA
* **
16740449 TTTTAATATATTTAATT
1 TTTTAACATATTTAAAA
* * *
16740466 TTTTTACGTTTTTTAAAA
1 TTTTAAC-ATATTTAAAA
16740484 TTTTAA-ATATATTAAAA
1 TTTTAACATAT-TTAAAA
16740501 AATCATTTTC
Statistics
Matches: 38, Mismatches: 12, Indels: 4
0.70 0.22 0.07
Matches are distributed among these distances:
16 2 0.05
17 25 0.66
18 11 0.29
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (17 bp):
TTTTAACATATTTAAAA
Found at i:16740647 original size:19 final size:19
Alignment explanation
Indices: 16740602--16740657 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
16740592 TAAAATTGGT
* *
16740602 TATACTTAATTTTTTTAATA
1 TATA-TTAATTTTTTAAAAA
16740622 TAT-TTAATTTTTTAAAAA
1 TATATTAATTTTTTAAAAA
**
16740640 TATATTAAAATTTTAAAA
1 TATATTAATTTTTTAAAA
16740658 TTTTAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 16 0.52
19 12 0.39
20 3 0.10
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
TATATTAATTTTTTAAAAA
Found at i:16740653 original size:20 final size:19
Alignment explanation
Indices: 16740618--16740668 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 19
16740608 TAATTTTTTT
* *
16740618 AATATATTTAATTTTTTAAA
1 AATATATTAAAATTTTT-AA
16740638 AATATATTAAAA-TTTTAA
1 AATATATTAAAATTTTTAA
16740656 AAT-T-TTAAAATTT
1 AATATATTAAAATTT
16740669 GCTATACTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
16 6 0.21
17 3 0.11
18 5 0.18
19 4 0.14
20 10 0.36
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AATATATTAAAATTTTTAA
Found at i:16740655 original size:8 final size:8
Alignment explanation
Indices: 16740644--16740668 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
16740634 TAAAAATATA
16740644 TTAAAATT
1 TTAAAATT
16740652 TTAAAATT
1 TTAAAATT
16740660 TTAAAATT
1 TTAAAATT
16740668 T
1 T
16740669 GCTATACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TTAAAATT
Found at i:16740675 original size:69 final size:71
Alignment explanation
Indices: 16740558--16740707 Score: 223
Period size: 70 Copynumber: 2.1 Consensus size: 71
16740548 TTTAAAATAT
* * * *
16740558 ATTTTTAAAAAATATATTGAATATATTAAAATTTTAAAATTGGTTATACTTAA-TTTTTTTAATA
1 ATTTTTTAAAAATATATTGAAAATATTAAAATTTTAAAATTGGCTATACTTAACATTTTTTAATA
16740622 TATTTA
66 TATTTA
* *
16740628 ATTTTTTAAAAATATATT-AAAATTTTAAAATTTTAAAATTTGCTATACTTAACATTTTTTAATA
1 ATTTTTTAAAAATATATTGAAAATATTAAAATTTTAAAATTGGCTATACTTAACATTTTTTAATA
16740692 TATTTA
66 TATTTA
16740698 ATTTCTTTAA
1 ATTT-TTTAA
16740708 GTTTTTAAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
69 30 0.42
70 37 0.51
71 5 0.07
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (71 bp):
ATTTTTTAAAAATATATTGAAAATATTAAAATTTTAAAATTGGCTATACTTAACATTTTTTAATA
TATTTA
Found at i:16740804 original size:20 final size:20
Alignment explanation
Indices: 16740776--16740847 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
16740766 TATATATTAA
*
16740776 GTACATAAATTTTATAAATGT
1 GTAC-TAAAATTTATAAATGT
* *
16740797 GTACTAAAATTAAAAAAT-T
1 GTACTAAAATTTATAAATGT
*
16740816 AATA-TATAAATTTATAAATGT
1 -GTACTA-AAATTTATAAATGT
16740837 GTACTAAAATT
1 GTACTAAAATT
16740848 AAAAAATTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
19 3 0.08
20 30 0.75
21 7 0.17
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (20 bp):
GTACTAAAATTTATAAATGT
Found at i:16740806 original size:40 final size:39
Alignment explanation
Indices: 16740771--16740856 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 39
16740761 AAAAATATAT
16740771 ATTAAGTACATAAATTTTATAAATGTGTACTAAAATTAAAAA
1 ATTAA-TACATAAA-TTTATAAATGTGTACTAAAA-TAAAAA
*
16740813 ATTAATATATAAATTTATAAATGTGTACTAAAATTAAAAA
1 ATTAATACATAAATTTATAAATGTGTACTAAAA-TAAAAA
16740853 ATTA
1 ATTA
16740857 TAACCAACAC
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
40 31 0.72
41 7 0.16
42 5 0.12
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.37
Consensus pattern (39 bp):
ATTAATACATAAATTTATAAATGTGTACTAAAATAAAAA
Found at i:16740854 original size:20 final size:20
Alignment explanation
Indices: 16740791--16740854 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
16740781 TAAATTTTAT
16740791 AAATGTGTACTAAAATTAAA
1 AAATGTGTACTAAAATTAAA
* * *
16740811 AAAT-TAATA-TATAAATTTAT
1 AAATGT-GTACTA-AAATTAAA
16740831 AAATGTGTACTAAAATTAAA
1 AAATGTGTACTAAAATTAAA
16740851 AAAT
1 AAAT
16740855 TATAACCAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
19 3 0.09
20 28 0.82
21 3 0.09
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.34
Consensus pattern (20 bp):
AAATGTGTACTAAAATTAAA
Found at i:16741191 original size:15 final size:16
Alignment explanation
Indices: 16741164--16741193 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
16741154 AGTAACTTAC
16741164 CTTTTCTTTTCTTCTT
1 CTTTTCTTTTCTTCTT
16741180 CTTTTC-TTTCTTCT
1 CTTTTCTTTTCTTCT
16741194 GGAGGGGACC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (16 bp):
CTTTTCTTTTCTTCTT
Found at i:16741318 original size:20 final size:20
Alignment explanation
Indices: 16741287--16741341 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
16741277 TGTAATCTTA
*
16741287 TAATATATATTTTTAATTTT
1 TAATATAAATTTTTAATTTT
* *
16741307 TAATTTAAATTTTTACTTTT
1 TAATATAAATTTTTAATTTT
16741327 TAATATAAATATTTT
1 TAATATAAAT-TTTT
16741342 TAAATAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 26 0.87
21 4 0.13
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TAATATAAATTTTTAATTTT
Found at i:16741355 original size:16 final size:17
Alignment explanation
Indices: 16741302--16741358 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 17
16741292 TATATTTTTA
*
16741302 ATTTTTAATTTAAATTTTT
1 ATTTTTAATATAAA--TTT
16741321 ACTTTTTAATATAAA--T
1 A-TTTTTAATATAAATTT
16741337 ATTTTTAA-ATAAATTT
1 ATTTTTAATATAAATTT
16741353 ATTTTT
1 ATTTTT
16741359 TTAACAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
14 5 0.15
15 7 0.21
16 9 0.26
19 1 0.03
20 12 0.35
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTTTAATATAAATTT
Found at i:16741367 original size:17 final size:16
Alignment explanation
Indices: 16741351--16741394 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 16
16741341 TTAAATAAAT
16741351 TTATTTTTTTAACAAA
1 TTATTTTTTTAACAAA
*
16741367 TAAATCTTTTTTAACAAA
1 T-TAT-TTTTTTAACAAA
16741385 -TATTTTTTTA
1 TTATTTTTTTA
16741395 TTTTTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
15 7 0.29
16 3 0.12
17 2 0.08
18 12 0.50
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (16 bp):
TTATTTTTTTAACAAA
Found at i:16741802 original size:14 final size:14
Alignment explanation
Indices: 16741785--16741845 Score: 57
Period size: 12 Copynumber: 4.9 Consensus size: 14
16741775 ATTATATATT
16741785 TAATATTTAAAAAA
1 TAATATTTAAAAAA
16741799 TAATATTT----AA
1 TAATATTTAAAAAA
16741809 -AAT-TTTAAAAAA
1 TAATATTTAAAAAA
16741821 T-A-ATTTAAAAAA
1 TAATATTTAAAAAA
16741833 TATATATTTAAAA
1 TA-ATATTTAAAA
16741846 TTTAAAAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 17
0.69 0.00 0.31
Matches are distributed among these distances:
8 3 0.08
9 3 0.08
10 2 0.05
12 13 0.34
14 9 0.24
15 8 0.21
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATATTTAAAAAA
Found at i:16741804 original size:21 final size:21
Alignment explanation
Indices: 16741756--16741824 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 21
16741746 AAAATATTTA
* * *
16741756 AATATTTTATATTATTAAAATT
1 AATATTTAATATT-TAAAAAAT
16741778 ATATATTTAATATTTAAAAAAT
1 A-ATATTTAATATTTAAAAAAT
*
16741800 AATATTTAAAATTTTAAAAAAT
1 AATATTTAATA-TTTAAAAAAT
16741822 AAT
1 AAT
16741825 TTAAAAAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 9 0.22
22 21 0.51
23 11 0.27
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AATATTTAATATTTAAAAAAT
Found at i:16741832 original size:34 final size:36
Alignment explanation
Indices: 16741787--16741879 Score: 131
Period size: 35 Copynumber: 2.6 Consensus size: 36
16741777 TATATATTTA
*
16741787 ATATTTAAAAAATAATATTTAAAATTTTAAAAA-AT
1 ATATTTAAAAAATAATATTTAAAATTTAAAAAATAT
16741822 A-ATTTAAAAAATATATATTTAAAATTTAAAAAATAT
1 ATATTTAAAAAATA-ATATTTAAAATTTAAAAAATAT
16741858 ATATATTAAAAAAT-AT-TTTAAA
1 ATAT-TTAAAAAATAATATTTAAA
16741880 TATACATTTC
Statistics
Matches: 53, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
34 12 0.23
35 25 0.47
36 5 0.09
37 2 0.04
38 9 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (36 bp):
ATATTTAAAAAATAATATTTAAAATTTAAAAAATAT
Found at i:16741832 original size:35 final size:34
Alignment explanation
Indices: 16741789--16741856 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
16741779 TATATTTAAT
16741789 ATTTAAAAAATA-ATATTTAAAATTTTAAAAAATA
1 ATTTAAAAAATATATATTTAAAA-TTTAAAAAATA
16741823 ATTTAAAAAATATATATTTAAAATTTAAAAAATA
1 ATTTAAAAAATATATATTTAAAATTTAAAAAATA
16741857 TATATATTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 23 0.70
35 10 0.30
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (34 bp):
ATTTAAAAAATATATATTTAAAATTTAAAAAATA
Found at i:16741833 original size:22 final size:22
Alignment explanation
Indices: 16741790--16741831 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
16741780 ATATTTAATA
*
16741790 TTTAAAAAATAATATTTAAAAT
1 TTTAAAAAATAATATTAAAAAT
16741812 TTTAAAAAATAAT-TTAAAAA
1 TTTAAAAAATAATATTAAAAA
16741832 ATATATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TTTAAAAAATAATATTAAAAAT
Found at i:16741847 original size:22 final size:23
Alignment explanation
Indices: 16741822--16741868 Score: 87
Period size: 22 Copynumber: 2.1 Consensus size: 23
16741812 TTTAAAAAAT
16741822 AATTTAAAAAATATATAT-TTAA
1 AATTTAAAAAATATATATATTAA
16741844 AATTTAAAAAATATATATATTAA
1 AATTTAAAAAATATATATATTAA
16741867 AA
1 AA
16741869 AATATTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
AATTTAAAAAATATATATATTAA
Found at i:16750670 original size:20 final size:19
Alignment explanation
Indices: 16750642--16750685 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
16750632 ATAATTTTTA
*
16750642 TATTATTAAACATACATATT
1 TATTATTAAACATA-ATAAT
* *
16750662 TATTTTTAAATATAATAAT
1 TATTATTAAACATAATAAT
16750681 TATTA
1 TATTA
16750686 ATATAATTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (19 bp):
TATTATTAAACATAATAAT
Found at i:16751331 original size:23 final size:23
Alignment explanation
Indices: 16751307--16751368 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 23
16751297 ATATTTCAAT
16751307 AATAAATATGTATTACTATATATA
1 AATAAATATGTATTACTATA-ATA
* *
16751331 AATAAAATATG-AATACTTTAATA
1 AAT-AAATATGTATTACTATAATA
16751354 ATATAAATATGTATT
1 A-ATAAATATGTATT
16751369 TTTTCTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
23 11 0.34
24 14 0.44
25 7 0.22
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (23 bp):
AATAAATATGTATTACTATAATA
Found at i:16754057 original size:133 final size:131
Alignment explanation
Indices: 16753892--16754137 Score: 388
Period size: 132 Copynumber: 1.9 Consensus size: 131
16753882 AGCAACTACT
* * *
16753892 GTAGAAATCTTCATCTAGGATGAGGAGGGCTAGCCAAAAGCTGTTTTTGGGATTCCAAATTGCCT
1 GTAGAAATCTACATCTAGGATGAGGAGGGCTAGCCAAAAGCTGTTTTT-GGATTCCAAATTACAT
*
16753957 TACATTGAACATGCATAT-TGAATAGGGCATA-TTGAGCTCATCACTCTCACTCATCACTTTCAT
65 TACATTAAACATGCATATGT-AAT-GGG-ATAGTTGAGCTCATCACTCTCACTCATCACTTTCAT
16754020 CCACC
127 CCACC
*
16754025 GTAGAAATCTACATCTAGGATGAGGAGGGCTAGCCAAAAGCTGTTTTTGGATTTCAAATTACATT
1 GTAGAAATCTACATCTAGGATGAGGAGGGCTAGCCAAAAGCTGTTTTTGGATTCCAAATTACATT
16754090 ACATTAAACATGCATATGTAATGGGATATGTTGAGCTCATCACTCTCA
66 ACATTAAACATGCATATGTAATGGGATA-GTTGAGCTCATCACTCTCA
16754138 GCCATTTCCA
Statistics
Matches: 105, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
130 3 0.03
131 3 0.03
132 51 0.49
133 48 0.46
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (131 bp):
GTAGAAATCTACATCTAGGATGAGGAGGGCTAGCCAAAAGCTGTTTTTGGATTCCAAATTACATT
ACATTAAACATGCATATGTAATGGGATAGTTGAGCTCATCACTCTCACTCATCACTTTCATCCAC
C
Found at i:16756325 original size:48 final size:48
Alignment explanation
Indices: 16756229--16756329 Score: 116
Period size: 48 Copynumber: 2.1 Consensus size: 48
16756219 GAGGCAACAA
* * *
16756229 AGGGAAAGAGAAGAGGAAGAGAGAGAGCAAAGGAGGCGTGAAGTAGAG
1 AGGGAAAGAGAAGAGGAAGAGAGAGAACAAAGAAGGCGTGAAGAAGAG
* * *
16756277 AGGGAAAGGGAGGA-GAAGGAGAGAGAACAAAGAAGGCTTG-AGAAAGAG
1 AGGGAAAGAGAAGAGGAA-GAGAGAGAACAAAGAAGGCGTGAAG-AAGAG
16756325 AGGGA
1 AGGGA
16756330 GCGAATTAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
47 5 0.11
48 40 0.89
ACGTcount: A:0.47, C:0.04, G:0.46, T:0.04
Consensus pattern (48 bp):
AGGGAAAGAGAAGAGGAAGAGAGAGAACAAAGAAGGCGTGAAGAAGAG
Found at i:16775669 original size:21 final size:21
Alignment explanation
Indices: 16775643--16775684 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
16775633 AATTAAAACC
16775643 CATCAATCAGATACAGAAATG
1 CATCAATCAGATACAGAAATG
16775664 CATCAATCAGATACAGAAATG
1 CATCAATCAGATACAGAAATG
16775685 GAAACAATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.19, G:0.14, T:0.19
Consensus pattern (21 bp):
CATCAATCAGATACAGAAATG
Found at i:16776392 original size:21 final size:21
Alignment explanation
Indices: 16776354--16776410 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
16776344 TTTCACTCAT
* *
16776354 TGAT-AAAGAAG-GCAATAAG
1 TGATAAAAGAAGAACAATAAC
16776373 TGATAAAAGAAGAACAATAAC
1 TGATAAAAGAAGAACAATAAC
* **
16776394 TCATAGGAGAAGAACAA
1 TGATAAAAGAAGAACAA
16776411 CAGCAACAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 4 0.13
20 7 0.23
21 20 0.65
ACGTcount: A:0.56, C:0.09, G:0.21, T:0.14
Consensus pattern (21 bp):
TGATAAAAGAAGAACAATAAC
Found at i:16785203 original size:30 final size:31
Alignment explanation
Indices: 16785167--16785227 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
16785157 AATTGCTTAA
*
16785167 AAAATATTTAA-AATTAA-TATTTTATATATT
1 AAAATA-TTAACAATAAATTATTTTATATATT
*
16785197 AAAATATTAACAATAAATTATTTTTTATATT
1 AAAATATTAACAATAAATTATTTTATATATT
16785228 TTTACTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 4 0.15
30 11 0.41
31 12 0.44
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (31 bp):
AAAATATTAACAATAAATTATTTTATATATT
Found at i:16785304 original size:22 final size:19
Alignment explanation
Indices: 16785263--16785304 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
16785253 TAATTTGAAC
16785263 ATTATTTAAATACATATTT
1 ATTATTTAAATACATATTT
16785282 ATTATTTTATAATACAATATTT
1 ATTA-TTTA-AATAC-ATATTT
16785304 A
1 A
16785305 AATTAATCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 4 0.20
21 5 0.25
22 7 0.35
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTATTTAAATACATATTT
Found at i:16787306 original size:18 final size:18
Alignment explanation
Indices: 16787280--16787350 Score: 70
Period size: 18 Copynumber: 3.9 Consensus size: 18
16787270 AATTGATTGG
* *
16787280 TTATCCAGTAACAGTCAA
1 TTATTCAGTAAAAGTCAA
*
16787298 TTATTCAGTAAAAATCAA
1 TTATTCAGTAAAAGTCAA
* * * *
16787316 ATATACAGTAACAATTAAA
1 TTATTCAGTAA-AAGTCAA
16787335 TTATTCAGTAAAAGTC
1 TTATTCAGTAAAAGTC
16787351 GATCTTTCCA
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
18 27 0.66
19 14 0.34
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.31
Consensus pattern (18 bp):
TTATTCAGTAAAAGTCAA
Found at i:16798302 original size:19 final size:19
Alignment explanation
Indices: 16798266--16798304 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
16798256 AAAATTTAAA
*
16798266 TATATCTTTTTTATAATTT
1 TATATCTTTTTAATAATTT
*
16798285 TATAT-TTTTTAATAAATT
1 TATATCTTTTTAATAATTT
16798303 TA
1 TA
16798305 ATGATTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
TATATCTTTTTAATAATTT
Found at i:16803556 original size:37 final size:38
Alignment explanation
Indices: 16803501--16803582 Score: 87
Period size: 37 Copynumber: 2.2 Consensus size: 38
16803491 TAACTCTTGA
* * * * *
16803501 AATTTTTTTTCAATTTTTCTAATTTTTAATGTTTTTGT
1 AATTTTTTATCAATTTTTCAAAATTCTAATGTTTTTAT
*
16803539 CAATTTTTTAT-AA-TTTTCAAAATTCTAATTTTTTTAT
1 -AATTTTTTATCAATTTTTCAAAATTCTAATGTTTTTAT
16803576 AATTTTT
1 AATTTTT
16803583 CCTTTTTAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
36 7 0.19
37 19 0.51
38 2 0.05
39 9 0.24
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (38 bp):
AATTTTTTATCAATTTTTCAAAATTCTAATGTTTTTAT
Found at i:16804260 original size:11 final size:9
Alignment explanation
Indices: 16804225--16804260 Score: 54
Period size: 9 Copynumber: 3.8 Consensus size: 9
16804215 CATTTTTATC
16804225 AATTCTCTA
1 AATTCTCTA
16804234 AATTCTCTA
1 AATTCTCTA
16804243 AATTCTCTCA
1 AATTCTCT-A
16804253 AATGTCTC
1 AAT-TCTC
16804261 AAGAATTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 17 0.68
10 4 0.16
11 4 0.16
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.42
Consensus pattern (9 bp):
AATTCTCTA
Found at i:16809492 original size:24 final size:21
Alignment explanation
Indices: 16809438--16809481 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
16809428 AATAAAAAGA
*
16809438 TATTTTTATAATAATTATTAT
1 TATTGTTATAATAATTATTAT
16809459 TATTGTTATAATAATTATTAT
1 TATTGTTATAATAATTATTAT
16809480 TA
1 TA
16809482 ATTAGTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
TATTGTTATAATAATTATTAT
Found at i:16810345 original size:18 final size:18
Alignment explanation
Indices: 16810322--16810357 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
16810312 TTTGTGATTA
16810322 AAATTGAAAGTGAAAGTG
1 AAATTGAAAGTGAAAGTG
*
16810340 AAATTGAAATTGAAAGTG
1 AAATTGAAAGTGAAAGTG
16810358 GTATGAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (18 bp):
AAATTGAAAGTGAAAGTG
Found at i:16810347 original size:12 final size:12
Alignment explanation
Indices: 16810322--16810357 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
16810312 TTTGTGATTA
16810322 AAATTGAAAGTG
1 AAATTGAAAGTG
* *
16810334 AAAGTGAAATTG
1 AAATTGAAAGTG
16810346 AAATTGAAAGTG
1 AAATTGAAAGTG
16810358 GTATGAATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (12 bp):
AAATTGAAAGTG
Found at i:16810583 original size:39 final size:38
Alignment explanation
Indices: 16810463--16810595 Score: 110
Period size: 39 Copynumber: 3.4 Consensus size: 38
16810453 ACCTCGAGTT
* * *
16810463 GATGATACACTGGGTGTCATTA-TATTACTTCGGATTGATTC
1 GATGAGACACTGGGTGTCA--ACTATTACTTC-GACT-ATCC
** * * *
16810504 GATGAGGTACTGGGTATCAAC--TTAATTCGACTAGGCC
1 GATGAGACACTGGGTGTCAACTATTACTTCGACTA-TCC
16810541 GATGAGACACTGGGTGTCAACTATTACTTCGAACTATCC
1 GATGAGACACTGGGTGTCAACTATTACTTCG-ACTATCC
*
16810580 GATGAGGCACTGGGTG
1 GATGAGACACTGGGTG
16810596 CCATACTGGA
Statistics
Matches: 73, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
36 1 0.01
37 22 0.30
38 6 0.08
39 25 0.34
40 4 0.05
41 15 0.21
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (38 bp):
GATGAGACACTGGGTGTCAACTATTACTTCGACTATCC
Found at i:16810805 original size:34 final size:34
Alignment explanation
Indices: 16810762--16810829 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
16810752 GAATGTGGGT
16810762 ATAAAAATGGAAAGCATGAACTAAAGGTTCATGA
1 ATAAAAATGGAAAGCATGAACTAAAGGTTCATGA
16810796 ATAAAAATGGAAAGCATGAACTAAAGGTTCATGA
1 ATAAAAATGGAAAGCATGAACTAAAGGTTCATGA
16810830 GATGGATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.50, C:0.09, G:0.21, T:0.21
Consensus pattern (34 bp):
ATAAAAATGGAAAGCATGAACTAAAGGTTCATGA
Found at i:16811788 original size:17 final size:17
Alignment explanation
Indices: 16811766--16811799 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
16811756 ATTGAGAATA
16811766 TAATTAGCAATAAAAAT
1 TAATTAGCAATAAAAAT
16811783 TAATTAGCAATAAAAAT
1 TAATTAGCAATAAAAAT
16811800 AAGTTCTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (17 bp):
TAATTAGCAATAAAAAT
Found at i:16815574 original size:35 final size:35
Alignment explanation
Indices: 16815528--16815597 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
16815518 AATGTATTTT
16815528 TATTCTTACTAATTAAACTTAAAACAATTATAGAG
1 TATTCTTACTAATTAAACTTAAAACAATTATAGAG
16815563 TATTCTTACTAATTAAACTTAAAACAATTATAGAG
1 TATTCTTACTAATTAAACTTAAAACAATTATAGAG
16815598 CAATTGTAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (35 bp):
TATTCTTACTAATTAAACTTAAAACAATTATAGAG
Found at i:16836401 original size:151 final size:150
Alignment explanation
Indices: 16836128--16836432 Score: 502
Period size: 151 Copynumber: 2.0 Consensus size: 150
16836118 TTGAGGGTAC
* * * *
16836128 TTTAGTATTTTTATTTTAATAAAAACCAATAAAAATATACATATAGTAGGATTTGAACTCATGCT
1 TTTAGTATTTTAATTTTAATAAAAACCAATAAAAATATACATATAATAGGAGTTGAACTCACGCT
* *
16836193 AATTAAATTAATAAGATCTTAAATTTACCATTCAACTAAAGTTTCATTTTATTATTTTCGTATGT
66 AATTAAATTAATAAGATCTTAAATTTACCATTCAACTAAAATTTCATTTTATTATTTTCATATGT
*
16836258 TTTTAAATTACTATGCACAA
131 TTTTAAATTACTACGCACAA
* *
16836278 TTTAGTCTTTTAATTTTAATAAAAACCAATAAAAAATATACATATAATAGGAGTTGAATTCACGC
1 TTTAGTATTTTAATTTTAATAAAAACCAAT-AAAAATATACATATAATAGGAGTTGAACTCACGC
*
16836343 TAATTAAATTAATAATATCTTAAATTTACCATTCAACTAAAATTTCATTTTATTATTTTCATATG
65 TAATTAAATTAATAAGATCTTAAATTTACCATTCAACTAAAATTTCATTTTATTATTTTCATATG
*
16836408 TTTTTAAATTACTACGCACGA
130 TTTTTAAATTACTACGCACAA
16836429 TTTA
1 TTTA
16836433 TTACTTTCTC
Statistics
Matches: 143, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
150 28 0.20
151 115 0.80
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (150 bp):
TTTAGTATTTTAATTTTAATAAAAACCAATAAAAATATACATATAATAGGAGTTGAACTCACGCT
AATTAAATTAATAAGATCTTAAATTTACCATTCAACTAAAATTTCATTTTATTATTTTCATATGT
TTTTAAATTACTACGCACAA
Found at i:16838131 original size:14 final size:14
Alignment explanation
Indices: 16838093--16838133 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
16838083 TTATTATTAA
*
16838093 AATAGTTATAATTT
1 AATAGTTAAAATTT
16838107 AAT--TT-AAATTT
1 AATAGTTAAAATTT
16838118 AATAGTTAAAATTT
1 AATAGTTAAAATTT
16838132 AA
1 AA
16838134 CTTAAACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 8 0.35
12 2 0.09
13 2 0.09
14 11 0.48
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (14 bp):
AATAGTTAAAATTT
Found at i:16840432 original size:6 final size:6
Alignment explanation
Indices: 16840423--16840451 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
16840413 CTTTCCTCTC
16840423 TTTTAT TTTTAT TTTTAT TTTTAT TTTTA
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTA
16840452 CTCTTGCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:16847444 original size:2 final size:2
Alignment explanation
Indices: 16847437--16847463 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
16847427 TGTAAACTAG
16847437 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
16847464 GTATTCTCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16848210 original size:20 final size:20
Alignment explanation
Indices: 16848168--16848209 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
16848158 CTCGAACATG
*
16848168 AAATATAAAACAAATATGAA
1 AAATATAAAACAAATAAGAA
*
16848188 AAATATAAAAGAAA-AAGAA
1 AAATATAAAACAAATAAGAA
16848207 AAA
1 AAA
16848210 AAAAAGAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.14
Consensus pattern (20 bp):
AAATATAAAACAAATAAGAA
Found at i:16853694 original size:3 final size:3
Alignment explanation
Indices: 16853663--16853738 Score: 64
Period size: 3 Copynumber: 25.7 Consensus size: 3
16853653 ATTAAAATTA
* * * * * *
16853663 ATT ATT TTT ATT TTT AGT ATT AAT ATT ATT ATT ATT ACT ATT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
16853711 -GT ATT ACT ATT ATT ATT ATC ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
16853739 ATTTTCCTTT
Statistics
Matches: 54, Mismatches: 18, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
2 1 0.02
3 53 0.98
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:16853717 original size:17 final size:17
Alignment explanation
Indices: 16853695--16853727 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16853685 ATATTATTAT
16853695 TATTACTATTACTATTG
1 TATTACTATTACTATTG
*
16853712 TATTACTATTATTATT
1 TATTACTATTACTATT
16853728 ATCATTATTA
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:0.30, C:0.09, G:0.03, T:0.58
Consensus pattern (17 bp):
TATTACTATTACTATTG
Found at i:16853922 original size:3 final size:3
Alignment explanation
Indices: 16853907--16853967 Score: 52
Period size: 3 Copynumber: 20.3 Consensus size: 3
16853897 TTAGAATATC
* * * * *
16853907 TAT TAT T-T GTAT TAT TGT TAT TAT TAT TAA TAT TAC TAT CAT CAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
16853952 TAT TAA TAT TAT TAT T
1 TAT TAT TAT TAT TAT T
16853968 TTTAAATCCC
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
2 1 0.02
3 44 0.96
4 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:16853940 original size:21 final size:21
Alignment explanation
Indices: 16853907--16853966 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
16853897 TTAGAATATC
** * *
16853907 TATTATTTGTATTATTGTTAT
1 TATTATTAATATTATTATCAT
*
16853928 TATTATTAATATTACTATCAT
1 TATTATTAATATTATTATCAT
*
16853949 CATTATTAATATTATTAT
1 TATTATTAATATTATTAT
16853967 TTTTAAATCC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.58
Consensus pattern (21 bp):
TATTATTAATATTATTATCAT
Found at i:16854930 original size:9 final size:9
Alignment explanation
Indices: 16854910--16854943 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
16854900 CTTTATTTTT
16854910 TAAATAAAAA
1 TAAAT-AAAA
16854920 TAAATAAAA
1 TAAATAAAA
16854929 TAAATAAAA
1 TAAATAAAA
16854938 TAAATA
1 TAAATA
16854944 TAATGATGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 19 0.79
10 5 0.21
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
TAAATAAAA
Found at i:16856616 original size:12 final size:12
Alignment explanation
Indices: 16856584--16856622 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
16856574 TAAAATTAAA
16856584 AAATTAA-AAC-
1 AAATTAAGAACT
16856594 AAATT-AGAACT
1 AAATTAAGAACT
16856605 AAATTAAGAACT
1 AAATTAAGAACT
16856617 AAATTA
1 AAATTA
16856623 TATTAATAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 1 0.04
10 8 0.31
11 5 0.19
12 12 0.46
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.26
Consensus pattern (12 bp):
AAATTAAGAACT
Found at i:16857716 original size:114 final size:113
Alignment explanation
Indices: 16857445--16857791 Score: 613
Period size: 113 Copynumber: 3.0 Consensus size: 113
16857435 ATATAAATTG
*
16857445 TTTTATTAGTAATTTAAGATTAGGTTAAATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTG
1 TTTTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTG
*
16857510 TATTGTAATTTTTTTAGTAATATATTTTAAAAAATAATTTTATAGCTA
66 TATTGTGATTTTTTTAGTAATATATTTTAAAAAATAATTTTATAGCTA
16857558 TTTTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTG
1 TTTTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTG
16857623 TATTGTGATTTTTTTAGTAATATATTTTAAAAAAATAATTTTATAGCTA
66 TATTGTGATTTTTTTAGTAATATATTTT-AAAAAATAATTTTATAGCTA
*
16857672 TTTTATTAGTAATTTAAGATTAGGTTATATATATTGTTAGTGTTTAGTGGTTTAGTGTGTATTAG
1 TTTTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTA--GTGTATTAG
* *
16857737 TGTATTGTGATTTTTTTTAGTAATGTATTTTAAAAAATAATTTTATAGTTA
64 TGTATTGTGA-TTTTTTTAGTAATATATTTTAAAAAATAATTTTATAGCTA
16857788 TTTT
1 TTTT
16857792 GTGTTAGTAT
Statistics
Matches: 225, Mismatches: 5, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
113 91 0.40
114 73 0.32
116 42 0.19
117 19 0.08
ACGTcount: A:0.31, C:0.01, G:0.16, T:0.52
Consensus pattern (113 bp):
TTTTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTG
TATTGTGATTTTTTTAGTAATATATTTTAAAAAATAATTTTATAGCTA
Found at i:16862976 original size:108 final size:108
Alignment explanation
Indices: 16862782--16863030 Score: 383
Period size: 108 Copynumber: 2.3 Consensus size: 108
16862772 CTAATTAATA
*
16862782 TTGTTAATTACTCTGATAAAATTTTTGACGTGTTTAGTTTAACAAAACAATAATATGTTAAGCTG
1 TTGTTAATTACTCTGAT-AAATTTTT----TGATTAGTTTAACAAAACAATAATATGTTAAGCTG
*
16862847 TGATAAGTTTTAAATAATAAAATTTCTAACAAAATTGTATTAAAATTT
61 TGATAAGTTTTAAATAATAAAATTCCTAACAAAATTGTATTAAAATTT
* * *
16862895 TTGTTAATTACTTTGATAAATTTTTTGATTAGTTTAACAAAACAATGATATGTTAAGTTG-GAAT
1 TTGTTAATTACTCTGATAAATTTTTTGATTAGTTTAACAAAACAATAATATGTTAAGCTGTG-AT
16862959 AAGTTTTAAATAATAAAATTCCTAACAAAATTGTATTAAAATTT
65 AAGTTTTAAATAATAAAATTCCTAACAAAATTGTATTAAAATTT
*
16863003 TTGTTAATTACTCTGATAAAATTTTTGA
1 TTGTTAATTACTCTGATAAATTTTTTGA
16863031 CGTGTTTTTT
Statistics
Matches: 128, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
107 1 0.01
108 103 0.80
112 8 0.06
113 16 0.12
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.43
Consensus pattern (108 bp):
TTGTTAATTACTCTGATAAATTTTTTGATTAGTTTAACAAAACAATAATATGTTAAGCTGTGATA
AGTTTTAAATAATAAAATTCCTAACAAAATTGTATTAAAATTT
Found at i:16863905 original size:32 final size:33
Alignment explanation
Indices: 16863852--16863916 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
16863842 TTTATTTCAT
*
16863852 TTTATTAATATAATTATACTACAGTAGTTCAAA
1 TTTATTAATATAATTATACTACAGTAGCTCAAA
16863885 TTTATTAATAT-ATTATACTACAGTAGCTCAAA
1 TTTATTAATATAATTATACTACAGTAGCTCAAA
16863917 ATATACATGA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 20 0.65
33 11 0.35
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.42
Consensus pattern (33 bp):
TTTATTAATATAATTATACTACAGTAGCTCAAA
Found at i:16871830 original size:14 final size:14
Alignment explanation
Indices: 16871813--16871855 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
16871803 TTTTGAGCAA
16871813 TTTATTTTTTTCTT
1 TTTATTTTTTTCTT
*
16871827 TTTATTTCTTTCTT
1 TTTATTTTTTTCTT
* *
16871841 TTCATTTTCTTCTT
1 TTTATTTTTTTCTT
16871855 T
1 T
16871856 CCCTCTATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTATTTTTTTCTT
Found at i:16873524 original size:16 final size:17
Alignment explanation
Indices: 16873503--16873536 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16873493 AATGTCTAGT
16873503 AAAATTA-TTAATTGAG
1 AAAATTACTTAATTGAG
16873519 AAAATTATCTTAATTGAG
1 AAAATTA-CTTAATTGAG
16873537 GGGTTAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
18 9 0.56
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (17 bp):
AAAATTACTTAATTGAG
Done.