Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 96 of 133
Found at i:18685981 original size:18 final size:17
Alignment explanation
Indices: 18685949--18685982 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
18685939 ATAATCGAGC
18685949 TTTTATATTTAAATTAT
1 TTTTATATTTAAATTAT
*
18685966 TTTTATTATTTTAATTA
1 TTTTA-TATTTAAATTA
18685983 ATAAAATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTATATTTAAATTAT
Found at i:18697068 original size:2 final size:2
Alignment explanation
Indices: 18697061--18697108 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
18697051 CAAACCAGGA
* *
18697061 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18697103 AT AT AT
1 AT AT AT
18697109 GTAAGAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:18700800 original size:18 final size:18
Alignment explanation
Indices: 18700773--18700812 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
18700763 CACTAAATTA
* *
18700773 TATATTTTTATTAGTTTT
1 TATATATTTATAAGTTTT
*
18700791 TATATATTTATAATTTTT
1 TATATATTTATAAGTTTT
18700809 TATA
1 TATA
18700813 AAATAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
TATATATTTATAAGTTTT
Found at i:18700871 original size:13 final size:13
Alignment explanation
Indices: 18700851--18700887 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
18700841 TATTTATTTA
18700851 AATATATAAAAA-
1 AATATATAAAAAT
18700863 AATTATATAAAAAT
1 AA-TATATAAAAAT
18700877 AATATA-AAAAA
1 AATATATAAAAA
18700888 CAAAAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.30
13 14 0.61
14 2 0.09
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
AATATATAAAAAT
Found at i:18703085 original size:29 final size:27
Alignment explanation
Indices: 18702979--18703158 Score: 94
Period size: 28 Copynumber: 6.4 Consensus size: 27
18702969 ATCAAGTTTG
* *
18702979 AAGATCTAAGAATCCCTAATTTGAGATT
1 AAGATCCAAGAATCCCTAATTTG-GACT
* *
18703007 ATGATCCAAGAATCCCTAATTTGGAACG
1 AAGATCCAAGAATCCCTAATTTGG-ACT
** * *
18703035 AAGATAAAAAAAATCACTAATTTAGGACT
1 AAGAT-CCAAGAATCCCTAATTT-GGACT
* * * *
18703064 AGGATCCAAGAATCCCTAAATTGATACC
1 AAGATCCAAGAATCCCTAATTTG-GACT
* * *
18703092 AA-ATTCCAATAATCCTTAAATTAGGA-T
1 AAGA-TCCAAGAATCCCT-AATTTGGACT
* * *
18703119 CAAGATTCAAGAATCCCTAAATTAGGACC
1 -AAGATCCAAGAATCCCT-AATTTGGACT
*
18703148 AAAATCCAAGA
1 AAGATCCAAGA
18703159 TTTCAAGTCT
Statistics
Matches: 112, Mismatches: 31, Indels: 18
0.70 0.19 0.11
Matches are distributed among these distances:
27 3 0.03
28 83 0.74
29 24 0.21
30 2 0.02
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.25
Consensus pattern (27 bp):
AAGATCCAAGAATCCCTAATTTGGACT
Found at i:18703260 original size:50 final size:49
Alignment explanation
Indices: 18703184--18703365 Score: 204
Period size: 50 Copynumber: 3.7 Consensus size: 49
18703174 AAATTTGGAT
* * * * *
18703184 CAAACTTCTTAAATTAAAGAATAAGTCATTTAA-ACCCTTAAAGTGAAGTC
1 CAAACTTCTTCAATTCAAGAACAAGTCA-TCAAGACCCTTAAA-TAAAGTC
* *
18703234 CAAACTTCTTCAATTCAAGAACAAGTCATCAAGACCTTTGAATTAAAGTC
1 CAAACTTCTTCAATTCAAGAACAAGTCATCAAGACCCTT-AAATAAAGTC
* * *
18703284 TAAACTTCTTCAATTCAAGAACAAGTCATCAAGACCCATGACATAAAGTC
1 CAAACTTCTTCAATTCAAGAACAAGTCATCAAGACCC-TTAAATAAAGTC
* * *
18703334 CATATTTCTTCAATTCAAGATCAAGTCATCAA
1 CAAACTTCTTCAATTCAAGAACAAGTCATCAA
18703366 ATACCTTTAA
Statistics
Matches: 113, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
49 3 0.03
50 107 0.95
51 3 0.03
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (49 bp):
CAAACTTCTTCAATTCAAGAACAAGTCATCAAGACCCTTAAATAAAGTC
Found at i:18703458 original size:101 final size:101
Alignment explanation
Indices: 18703239--18703528 Score: 300
Period size: 101 Copynumber: 2.9 Consensus size: 101
18703229 AAGTCCAAAC
* * * * *
18703239 TTCTTCAATTCAAGAA-CAAGTCATC-AAGACCTTTGAATTAAAGTCTAAACTTCTTCAATTCAA
1 TTCTTCAATTCAA-AATCAAGTCATCAAAAACCTTTGAAATGAAGTTTAAATTTCTTCAATTCAA
* * *
18703302 GAACAAGTCATCAAGACCCATGACA-TAAAGTCCATAT
65 GATCAAATCATCAAGACCCATGA-AGTAAAGTACATAT
* * * *
18703339 TTCTTCAATTCAAGATCAAGTCATCAAATACCTTTAAAATGAAGTTTAAATTTCTACAATTCAAG
1 TTCTTCAATTCAAAATCAAGTCATCAAAAACCTTTGAAATGAAGTTTAAATTTCTTCAATTCAAG
* *
18703404 ATTAAATCATCAAAGACCCGTGAAGTAAAGTACA-AT
66 ATCAAATCATC-AAGACCCATGAAGTAAAGTACATAT
* * * * * * * *
18703440 TTTTTTAATTTAAAATCAAGTCATCAAAAACCATTGAAACGAAGATCAAATTTATTCAATTCAAG
1 TTCTTCAATTCAAAATCAAGTCATCAAAAACCTTTGAAATGAAGTTTAAATTTCTTCAATTCAAG
* * *
18703505 ATCGACTCATCAAGACCCTTGAAG
66 ATCAAATCATCAAGACCCATGAAG
18703529 CGAATTTCTT
Statistics
Matches: 157, Mismatches: 29, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
99 1 0.01
100 34 0.22
101 104 0.66
102 18 0.11
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (101 bp):
TTCTTCAATTCAAAATCAAGTCATCAAAAACCTTTGAAATGAAGTTTAAATTTCTTCAATTCAAG
ATCAAATCATCAAGACCCATGAAGTAAAGTACATAT
Found at i:18704481 original size:25 final size:25
Alignment explanation
Indices: 18704447--18704496 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
18704437 CTAACTCTCT
18704447 TATCTTGGATAATATCCATACCGAG
1 TATCTTGGATAATATCCATACCGAG
18704472 TATCTTGGATAATATCCATACCGAG
1 TATCTTGGATAATATCCATACCGAG
18704497 AATATACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (25 bp):
TATCTTGGATAATATCCATACCGAG
Found at i:18706669 original size:17 final size:17
Alignment explanation
Indices: 18706649--18706682 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
18706639 TTTAAATGCA
*
18706649 TTTTTTATTATTAGACT
1 TTTTTTATAATTAGACT
18706666 TTTTTTATAATTAGACT
1 TTTTTTATAATTAGACT
18706683 AAAAAAGTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (17 bp):
TTTTTTATAATTAGACT
Found at i:18707887 original size:15 final size:15
Alignment explanation
Indices: 18707869--18707914 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
18707859 TTATTTCAAT
*
18707869 TTTTAAAATTATATA
1 TTTTAAAATTTTATA
*
18707884 TTTTAATATTTTATA
1 TTTTAAAATTTTATA
**
18707899 TAATAAAATTTTATA
1 TTTTAAAATTTTATA
18707914 T
1 T
18707915 ATAATAAACT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTTAAAATTTTATA
Found at i:18707915 original size:17 final size:17
Alignment explanation
Indices: 18707895--18707927 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18707885 TTTAATATTT
18707895 TATATAATAAAATTTTA
1 TATATAATAAAATTTTA
*
18707912 TATATAATAAACTTTT
1 TATATAATAAAATTTT
18707928 TCAAATAAAA
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:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATAATAAAATTTTA
Found at i:18708708 original size:828 final size:825
Alignment explanation
Indices: 18707504--18709157 Score: 2403
Period size: 829 Copynumber: 2.0 Consensus size: 825
18707494 TATATGTATG
* * *
18707504 ATTAATTTATACATCAAAATTATTAAATTTTTCTCAATTGTATTAAATTGTTTGCTTTTTTTGAT
1 ATTAATTTATACATCAAAATTATTAAATATTTCTCAATTATATTAAATTATTTGCTTTTTTTGAT
* * *
18707569 CATTCAAATGATTGAATGATCCAATGTGAATTATTCTAAGTATATAATTATCAAGTGAACTAAAA
66 CATTCAAATGATTGAACGATCCAACGTGAATTATTCTAAGTACATAATTATCAAGTGAACTAAAA
* *
18707634 TTAATTATTTTTATTAATTCTTTCAAAGTACGAAAAAATTCACTAAAATTATATTTTTATGCATT
131 TTAATTATTTTTATTAATTATTTCAAAGTACGAAAAAATTCACTAAAACTATATTTTTATGCATT
*
18707699 TATGCCAAAATTACGCTCATTCGTGAAAATTTATATTATTAATGCTGAAAATGAAATCATTATAA
196 TATGCCAAAATTACGCTCATTCGTGAAAATTTATATTATTAATGATGAAAATGAAATCATTATAA
* * *
18707764 ATTCTATAAGTATTACATAATAAGTTTGTTATTCTAAAAATTGAAATTTTCTTCAAAAAATATGA
261 ATTCTATAAATATTACATAACAAGTTTATTATTCTAAAAATTGAAATTTTCTTCAAAAAATATGA
18707829 CAAGTACCAAGATTAGAAATTTAATTTAATTTATTTCAATTTTTAAAATTATATATTTTAATATT
326 CAAGTACCAAGATTAGAAATTTAATTTAATTTATTTCAATTTTTAAAATTATATATTTTAATATT
*
18707894 TTATATAATAAAATTTTATATATAATAAACTTTTTCAAAT-AAA-AAAATTTAAACTTTCAATTG
391 TTATATAATAAAATTTTATATATAATAAA-TTTTTCAAATAAAAGAAAAATTAAACTTTCAATTG
* * *
18707957 GTAGAAAGTATAATTTCATTTAATTGATGGAAGA-ACCAATTGAAAATTATTTTAAGTAAAAAAA
455 GTAGAAAGTATAATTTCATTTAATTGATAGAA-ACACCAATGGAAAATTATCTTAAGTAAAAAAA
* * * *
18708021 TGAGAA-GAAAGATTCATTAGTTATACACAACTCTATCTTTTTCA-TATGATAACAAAATTTAGT
519 TGA-AACAAAAAATTCATTAGTGATACACAA--C--TCTTTTTCATTATGATAAAAAAATTTAGT
* * *
18708084 GTTATATGATATTTCAATAAAAATACGAGAA-TACATTGATTTTA-AATTTTTTTAGGATTAATA
579 GCTATATGATATTTCAATAAAAATA-GAAAACTACATTGATTTTACAATTTTTTTAGAATTAATA
*
18708147 TATAACTT-ATTTATTAAGAGAAACATTGTATACTCTTTCATTTTTATTTTTTATATCAGTTAAA
643 TA-AAATTCATTTATTAAGAGAAACATTGTATACTCTTTCA-TTTTATTTTTTATATCAGTTAAA
*
18708211 TATTGTTTACTATTGTATCAAAATTTTTAAAGTTGTCATATTAGGCAATATTTGTTTAAAAAAAA
706 GATTGTTTACTATTGTATCAAAATTTTTAAAGTTGTCATATTAGGCAATATTTG-TTAAAAAAAA
* **
18708276 TTAAAACTCATCAAATTAATTATTGCTATTACATTTAATATAAAAATATTAATATA
770 TTAAAACTCATCAAATTAAATATCACTATTACATTTAATATAAAAATATTAATATA
* * * *
18708332 ATTAATTTATACCTCAAGATTATTTAATATTTCTCAATTATATTAAATTATTTGCTTTTTTTGGT
1 ATTAATTTATACATCAAAATTATTAAATATTTCTCAATTATATTAAATTATTTGCTTTTTTTGAT
* * *
18708397 CATTCAAATGATTGAACGA-CCTAACGTGAATTATTTTATGTACATAATTATCAAGTGAAGTAAA
66 CATTCAAATGATTGAACGATCC-AACGTGAATTATTCTAAGTACATAATTATCAAGTGAACTAAA
* * ** * * *
18708461 ATTAATTGTTTTTGATTAATTATTTTAAAGTGTGAAAAAATTCATTGAAACTATTTTTTTGATGC
130 ATTAATTATTTTT-ATTAATTATTTCAAAGTACGAAAAAATTCACTAAAACTATATTTTT-ATGC
* * * * *
18708526 ATTTATGCCAAAGTTATGTTCATTCGTGAAAGTTTATGTTATTAATGATGAAAATGAAATCATTA
193 ATTTATGCCAAAATTACGCTCATTCGTGAAAATTTATATTATTAATGATGAAAATGAAATCATTA
* * * * * *
18708591 TAAATTTTATAAATATTAGATAACAAGTTTATTCTTTTGAGAATTGAAATTTTCTT-AAAAAATA
258 TAAATTCTATAAATATTACATAACAAGTTTATTATTCTAAAAATTGAAATTTTCTTCAAAAAATA
* * * * ** *
18708655 TGATAAGTACCAAGATTAGCAATTTATTTTATTTTATTTTTATTTTT-AAATTATGTATTTTAAT
323 TGACAAGTACCAAGATTAGAAATTTAATTTAATTTATTTCAATTTTTAAAATTATATATTTTAAT
* *
18708719 ATTTTATATAATAAAATTTTATATATAATAAATTTTTTAAATAAAAGAAAAATTAAGCTTTCAAT
388 ATTTTATATAATAAAATTTTATATATAATAAATTTTTCAAATAAAAGAAAAATTAAACTTTCAAT
* *
18708784 TGGTAGAAAGTATAATTTCATTTAATTGATAGAAACACTAATGGAAAATTATCTTAAGTAGAAAA
453 TGGTAGAAAGTATAATTTCATTTAATTGATAGAAACACCAATGGAAAATTATCTTAAGTAAAAAA
* *
18708849 ATGAAACAAAAAATTGATTAGTGATGCACAACTCTTTTTCATTATGATAAAAAAATTTAGTGCTA
518 ATGAAACAAAAAATTCATTAGTGATACACAACTCTTTTTCATTATGATAAAAAAATTTAGTGCTA
* * **
18708914 TATGATATTTCAATAAAAATATAAAACTATATTGATTTTACTTTTTTTTTAGAATTAATATAAAA
583 TATGATATTTCAATAAAAATAGAAAACTACATTGATTTTACAATTTTTTTAGAATTAATATAAAA
* * *
18708979 TTCTTTTATTAAGAGAAACATTGTATACTCTTTCATTTTCTTTTTTATATCAGTTGAAGATTGTT
648 TTCATTTATTAAGAGAAACATTGTATACTCTTTCATTTTATTTTTTATATCAGTTAAAGATTGTT
* * * * *
18709044 TACTATTGTATCAAAATTTTTAAAGTTGTTATTTTAGGTAATATTTGTTCAAAAAAATTAAAATT
713 TACTATTGTATCAAAATTTTTAAAGTTGTCATATTAGGCAATATTTGTTAAAAAAAATTAAAACT
18709109 CATCAAATTAAATATCACTATTACATTTAATATAAAAATATTAATATA
778 CATCAAATTAAATATCACTATTACATTTAATATAAAAATATTAATATA
18709157 A
1 A
18709158 ATTATAATTG
Statistics
Matches: 737, Mismatches: 78, Indels: 25
0.88 0.09 0.03
Matches are distributed among these distances:
825 74 0.10
826 129 0.18
827 61 0.08
828 179 0.24
829 184 0.25
830 110 0.15
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.43
Consensus pattern (825 bp):
ATTAATTTATACATCAAAATTATTAAATATTTCTCAATTATATTAAATTATTTGCTTTTTTTGAT
CATTCAAATGATTGAACGATCCAACGTGAATTATTCTAAGTACATAATTATCAAGTGAACTAAAA
TTAATTATTTTTATTAATTATTTCAAAGTACGAAAAAATTCACTAAAACTATATTTTTATGCATT
TATGCCAAAATTACGCTCATTCGTGAAAATTTATATTATTAATGATGAAAATGAAATCATTATAA
ATTCTATAAATATTACATAACAAGTTTATTATTCTAAAAATTGAAATTTTCTTCAAAAAATATGA
CAAGTACCAAGATTAGAAATTTAATTTAATTTATTTCAATTTTTAAAATTATATATTTTAATATT
TTATATAATAAAATTTTATATATAATAAATTTTTCAAATAAAAGAAAAATTAAACTTTCAATTGG
TAGAAAGTATAATTTCATTTAATTGATAGAAACACCAATGGAAAATTATCTTAAGTAAAAAAATG
AAACAAAAAATTCATTAGTGATACACAACTCTTTTTCATTATGATAAAAAAATTTAGTGCTATAT
GATATTTCAATAAAAATAGAAAACTACATTGATTTTACAATTTTTTTAGAATTAATATAAAATTC
ATTTATTAAGAGAAACATTGTATACTCTTTCATTTTATTTTTTATATCAGTTAAAGATTGTTTAC
TATTGTATCAAAATTTTTAAAGTTGTCATATTAGGCAATATTTGTTAAAAAAAATTAAAACTCAT
CAAATTAAATATCACTATTACATTTAATATAAAAATATTAATATA
Found at i:18708739 original size:15 final size:15
Alignment explanation
Indices: 18708719--18708764 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
18708709 GTATTTTAAT
18708719 ATTTTATATAATAAA
1 ATTTTATATAATAAA
18708734 ATTTTATAT-ATAATAA
1 ATTTTATATAAT-A-AA
*
18708750 ATTTTTTA-AATAAA
1 ATTTTATATAATAAA
18708764 A
1 A
18708765 GAAAAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
14 5 0.19
15 11 0.41
16 11 0.41
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTTTATATAATAAA
Found at i:18708755 original size:17 final size:17
Alignment explanation
Indices: 18708723--18708754 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18708713 TTTAATATTT
18708723 TATATAATAAAATTTTA
1 TATATAATAAAATTTTA
18708740 TATATAAT-AAATTTT
1 TATATAATAAAATTTT
18708755 TTAAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TATATAATAAAATTTTA
Found at i:18708762 original size:16 final size:17
Alignment explanation
Indices: 18708720--18708762 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
18708710 TATTTTAATA
18708720 TTTTATATAATAAAATT
1 TTTTATATAATAAAATT
*
18708737 TTATATATAAT-AAATT
1 TTTTATATAATAAAATT
*
18708753 TTTTAAATAA
1 TTTTATATAA
18708763 AAGAAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTTATATAATAAAATT
Found at i:18710478 original size:24 final size:23
Alignment explanation
Indices: 18710420--18710474 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
18710410 ATTATTGTGA
18710420 ATTTAAT-ATTTTTAAAATTGTT
1 ATTTAATAATTTTTAAAATTGTT
**
18710442 ATTTGTTTAATTTTTATAAATT-TT
1 ATTT-AATAATTTTTA-AAATTGTT
18710466 ATTTAATAA
1 ATTTAATAA
18710475 ATTTGTTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
22 4 0.15
23 4 0.15
24 13 0.50
25 5 0.19
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (23 bp):
ATTTAATAATTTTTAAAATTGTT
Found at i:18711154 original size:22 final size:22
Alignment explanation
Indices: 18711109--18711202 Score: 75
Period size: 22 Copynumber: 4.3 Consensus size: 22
18711099 TGTAATCAGT
* **
18711109 ATAATTTAATAAT-AATTACCG
1 ATAACTTAATAATAAATTAATG
*
18711130 ATAACTTAATAATAAATTAGTG
1 ATAACTTAATAATAAATTAATG
** *
18711152 ATAACTTAATTGTAGATTAATG
1 ATAACTTAATAATAAATTAATG
* * *
18711174 ATAATTTAATAGTTAA-TAATTG
1 ATAACTTAATAATAAATTAA-TG
18711196 ATAACTT
1 ATAACTT
18711203 TTTAGTAAAT
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
21 15 0.25
22 44 0.75
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.40
Consensus pattern (22 bp):
ATAACTTAATAATAAATTAATG
Found at i:18711394 original size:22 final size:22
Alignment explanation
Indices: 18711324--18711394 Score: 52
Period size: 22 Copynumber: 3.2 Consensus size: 22
18711314 AAAAATAATT
* * **
18711324 AATAACTTAATAGTTAATTATT
1 AATAACTTAATAATAAATTAAC
* ** *
18711346 GATAACTTGGTAATAAATCAAC
1 AATAACTTAATAATAAATTAAC
* *
18711368 TATAACTTAATAATAAATTAGC
1 AATAACTTAATAATAAATTAAC
18711390 AATAA
1 AATAA
18711395 TTTATTAGTA
Statistics
Matches: 35, Mismatches: 14, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.35
Consensus pattern (22 bp):
AATAACTTAATAATAAATTAAC
Found at i:18711489 original size:22 final size:21
Alignment explanation
Indices: 18711463--18711744 Score: 113
Period size: 22 Copynumber: 13.0 Consensus size: 21
18711453 TAACTTAGTT
18711463 GTAAATTAATGATAATTTAAT-
1 GTAAA-TAATGATAATTTAATA
*
18711484 GCTAAATAATTTATAATTTAATA
1 G-TAAATAA-TGATAATTTAATA
*
18711507 GTAAATAATGCATTATTTAATA
1 GTAAATAATG-ATAATTTAATA
* * *
18711529 -TAAATCAATAATAATGTGATA
1 GTAAAT-AATGATAATTTAATA
* * *
18711550 GTTAATCATAGATAATTTAGTA
1 GTAAATAAT-GATAATTTAATA
* * **
18711572 ATAAATTAGTGATAATTTTGTA
1 GTAAA-TAATGATAATTTAATA
* * * *
18711594 GTAAATAATAAAAAGTCAAGTA
1 GTAAATAATGATAATTTAA-TA
* * *
18711616 GTAAATATATAAAAATATAATA
1 GTAAATA-ATGATAATTTAATA
* * *
18711638 ATAAATCATTGATAATTTAGTA
1 GTAAAT-AATGATAATTTAATA
** *
18711660 ACAAAT--TAATAATTTAATA
1 GTAAATAATGATAATTTAATA
* * *
18711679 GTAAATTACTAATAACTTAATA
1 GTAAA-TAATGATAATTTAATA
* * * *
18711701 GTAAATTATTAATAACTTAATT
1 GTAAA-TAATGATAATTTAATA
* *
18711723 GTAAATCAGTGCTAATTTAATA
1 GTAAAT-AATGATAATTTAATA
18711745 AGAAATTAGT
Statistics
Matches: 198, Mismatches: 48, Indels: 29
0.72 0.17 0.11
Matches are distributed among these distances:
19 14 0.07
20 1 0.01
21 28 0.14
22 142 0.72
23 13 0.07
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (21 bp):
GTAAATAATGATAATTTAATA
Found at i:18711944 original size:22 final size:22
Alignment explanation
Indices: 18711764--18711983 Score: 71
Period size: 22 Copynumber: 10.2 Consensus size: 22
18711754 TTAATTATTG
* *
18711764 ATAATTT-TTAGTAAATCATCA
1 ATAATTTAGTAGTAAATCATTA
*
18711785 ATAA-TTAGTAGTAAATTAATT-
1 ATAATTTAGTAGTAAA-TCATTA
* *
18711806 ATAAATTTA-TAATAAATCATCA
1 AT-AATTTAGTAGTAAATCATTA
* * * **
18711828 ACAACTTAAG-GGTAAATCAACA
1 ATAA-TTTAGTAGTAAATCATTA
* *
18711850 ACAATTTAATAG-AAATCATTA
1 ATAATTTAGTAGTAAATCATTA
* * ** * *
18711871 ATAACTTAAT-GGCAATTACTA
1 ATAATTTAGTAGTAAATCATTA
* * * *
18711892 ATAACTTCA-TAGAAAATCACTC
1 ATAA-TTTAGTAGTAAATCATTA
* *
18711914 GTAAATTAGTAGTAAATCATTA
1 ATAATTTAGTAGTAAATCATTA
* *
18711936 ATAATTTAGTAGTATATTATTA
1 ATAATTTAGTAGTAAATCATTA
* * *
18711958 ATAACTT-GATAATAAATCATCA
1 ATAATTTAG-TAGTAAATCATTA
18711980 ATAA
1 ATAA
18711984 CTTAATTACC
Statistics
Matches: 144, Mismatches: 42, Indels: 25
0.68 0.20 0.12
Matches are distributed among these distances:
20 3 0.02
21 50 0.35
22 88 0.61
23 3 0.02
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.35
Consensus pattern (22 bp):
ATAATTTAGTAGTAAATCATTA
Found at i:18712310 original size:11 final size:11
Alignment explanation
Indices: 18712296--18712351 Score: 67
Period size: 11 Copynumber: 5.1 Consensus size: 11
18712286 TACCAATATC
18712296 TTAATAATAAA
1 TTAATAATAAA
* *
18712307 TTAATGATAAT
1 TTAATAATAAA
*
18712318 TTAATAGTAAA
1 TTAATAATAAA
*
18712329 TTAATAATAAT
1 TTAATAATAAA
*
18712340 TTAATAGTAAA
1 TTAATAATAAA
18712351 T
1 T
18712352 CAAATGCCTA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 36 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (11 bp):
TTAATAATAAA
Found at i:18712476 original size:22 final size:22
Alignment explanation
Indices: 18712268--18712476 Score: 105
Period size: 22 Copynumber: 9.1 Consensus size: 22
18712258 AAAAAAAAAC
* **
18712268 AATAACTTAATAGTTAATTACC
1 AATAACTTAATAGTAAATTAAT
* *
18712290 AATATCTTAATAATAAATTAAT
1 AATAACTTAATAGTAAATTAAT
* *
18712312 GATAATTTAATAGTAAATTAAT
1 AATAACTTAATAGTAAATTAAT
* *
18712334 AATAATTTAATAGTAAATCAAATGCCT
1 AATAACTTAATAGTAAAT-TAA----T
* *
18712361 AATAACATAATAGTAGTAAATAAGT
1 AATAACTTAATAGTA--AATTAA-T
* * * * * **
18712386 GATCACATAGTAGTAAGTGCAT
1 AATAACTTAATAGTAAATTAAT
* * *
18712408 AATAACATAATAGTAATTTATT
1 AATAACTTAATAGTAAATTAAT
* * *
18712430 GATAATTTAA-ATGTAAATTATT
1 AATAACTTAATA-GTAAATTAAT
*
18712452 AATAACTTAATAGTAAATCAAT
1 AATAACTTAATAGTAAATTAAT
18712474 AAT
1 AAT
18712477 TAATTGTAAA
Statistics
Matches: 140, Mismatches: 38, Indels: 18
0.71 0.19 0.09
Matches are distributed among these distances:
21 1 0.01
22 103 0.74
23 5 0.04
25 13 0.09
27 14 0.10
28 2 0.01
29 2 0.01
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.36
Consensus pattern (22 bp):
AATAACTTAATAGTAAATTAAT
Found at i:18712485 original size:18 final size:19
Alignment explanation
Indices: 18712452--18712488 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
18712442 GTAAATTATT
18712452 AATAACTTAATAGTAAATC
1 AATAACTTAATAGTAAATC
*
18712471 AATAA-TTAATTGTAAATC
1 AATAACTTAATAGTAAATC
18712489 GATGATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.35
Consensus pattern (19 bp):
AATAACTTAATAGTAAATC
Found at i:18712605 original size:22 final size:22
Alignment explanation
Indices: 18712524--18712629 Score: 94
Period size: 22 Copynumber: 4.9 Consensus size: 22
18712514 TAATCATTGA
*
18712524 TAACTTTATAATAAAAT-ATC-G
1 TAACTTAATAAT-AAATCATCAG
* * *
18712545 ATAAATTAATAATAAATTAGTTA-
1 -TAACTTAATAATAAATCA-TCAG
18712568 TAACTT-ATAATAAATCATCAG
1 TAACTTAATAATAAATCATCAG
*
18712589 TAACTTAATAATAAATCATCAA
1 TAACTTAATAATAAATCATCAG
* *
18712611 TAATTTAATAGTAAATCAT
1 TAACTTAATAATAAATCAT
18712630 TCATAGTTTA
Statistics
Matches: 70, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
20 2 0.03
21 20 0.29
22 47 0.67
23 1 0.01
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.37
Consensus pattern (22 bp):
TAACTTAATAATAAATCATCAG
Found at i:18712701 original size:22 final size:22
Alignment explanation
Indices: 18712578--18712706 Score: 78
Period size: 22 Copynumber: 5.9 Consensus size: 22
18712568 TAACTTATAA
* * * *
18712578 TAAATCATCAGTAACTTAATAA
1 TAAATCATTAATAATTTAATAG
*
18712600 TAAATCATCAATAATTTAATAG
1 TAAATCATTAATAATTTAATAG
* * *
18712622 TAAATCATTCATAGTTTAGTAG
1 TAAATCATTAATAATTTAATAG
** * * ** *
18712644 TACTTTAATGCTAATTTAATAA
1 TAAATCATTAATAATTTAATAG
* * *
18712666 TAAATTATTGATAATTTAGTAG
1 TAAATCATTAATAATTTAATAG
* *
18712688 TATATCATTAATAACTTAA
1 TAAATCATTAATAATTTAA
18712707 CAATTAATCA
Statistics
Matches: 80, Mismatches: 27, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 80 1.00
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (22 bp):
TAAATCATTAATAATTTAATAG
Found at i:18712766 original size:22 final size:21
Alignment explanation
Indices: 18712691--18712762 Score: 54
Period size: 22 Copynumber: 3.3 Consensus size: 21
18712681 TTAGTAGTAT
* *
18712691 ATCATTAATAACTTAACAATTA
1 ATCATTAATAACATAA-TATTA
* *
18712713 ATCACTAATAAAATAATATTAA
1 ATCATTAATAACATAATATT-A
* * *
18712735 ATTAATGATAACATAATTATTA
1 ATCATTAATAACATAA-TATTA
18712757 ATCATT
1 ATCATT
18712763 GATAGATTTT
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
21 3 0.08
22 31 0.82
23 4 0.11
ACGTcount: A:0.51, C:0.10, G:0.01, T:0.38
Consensus pattern (21 bp):
ATCATTAATAACATAATATTA
Found at i:18713071 original size:22 final size:22
Alignment explanation
Indices: 18713045--18713086 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
18713035 GTCATAAGTG
*
18713045 ATCAAAAGATTACTAAAATTAC
1 ATCAAAAGATTACCAAAATTAC
* *
18713067 ATCAAGAGGTTACCAAAATT
1 ATCAAAAGATTACCAAAATT
18713087 TTATTAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.50, C:0.14, G:0.10, T:0.26
Consensus pattern (22 bp):
ATCAAAAGATTACCAAAATTAC
Found at i:18713174 original size:21 final size:21
Alignment explanation
Indices: 18713045--18713203 Score: 88
Period size: 21 Copynumber: 7.5 Consensus size: 21
18713035 GTCATAAGTG
* *
18713045 ATCAAAAGATTACTAAAATTAC
1 ATCAAAAG-TTACCAAAATTAT
* *
18713067 ATCAAGAGGTTACCAAAATTTT
1 ATCAA-AAGTTACCAAAATTAT
* * **
18713089 ATTAAAAATTATAAAAATT-T
1 ATCAAAAGTTACCAAAATTAT
** * *
18713109 ATCAATGGCTACTAAAATTAT
1 ATCAAAAGTTACCAAAATTAT
* * * * *
18713130 ATCACAAGTAATCAAACTAAT
1 ATCAAAAGTTACCAAAATTAT
*
18713151 ATCAAAAGTTACCAAAATTGT
1 ATCAAAAGTTACCAAAATTAT
* *
18713172 ATC-GAAGATTACCAAAATTTT
1 ATCAAAAG-TTACCAAAATTAT
*
18713193 ATCAAAGGTTA
1 ATCAAAAGTTA
18713204 TAAAATCAAA
Statistics
Matches: 98, Mismatches: 35, Indels: 9
0.69 0.25 0.06
Matches are distributed among these distances:
20 16 0.16
21 59 0.60
22 21 0.21
23 2 0.02
ACGTcount: A:0.48, C:0.13, G:0.08, T:0.31
Consensus pattern (21 bp):
ATCAAAAGTTACCAAAATTAT
Found at i:18713235 original size:26 final size:26
Alignment explanation
Indices: 18713184--18713235 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
18713174 CGAAGATTAC
* * *
18713184 CAAAATTTTATCAAAGGTTATAAAAT
1 CAAAATTATATCAAAAGTTAGAAAAT
*
18713210 CAAAATTATATCAAAAGTTAGCAAAT
1 CAAAATTATATCAAAAGTTAGAAAAT
18713236 TTTATTTGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.52, C:0.10, G:0.08, T:0.31
Consensus pattern (26 bp):
CAAAATTATATCAAAAGTTAGAAAAT
Found at i:18713336 original size:3 final size:3
Alignment explanation
Indices: 18713328--18713356 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
18713318 CAAAATCAAA
18713328 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
18713357 ATCAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:18713596 original size:2 final size:2
Alignment explanation
Indices: 18713591--18713615 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18713581 TATATATATA
18713591 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
18713616 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:18714984 original size:26 final size:25
Alignment explanation
Indices: 18714944--18714992 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
18714934 CACGATTTTA
* *
18714944 AACACAAAATGAATAATTTTAATATG
1 AACACAAAATAAAT-ATTTAAATATG
*
18714970 AACACAACATAAATATTTAAATA
1 AACACAAAATAAATATTTAAATA
18714993 ACATGAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 8 0.40
26 12 0.60
ACGTcount: A:0.57, C:0.10, G:0.04, T:0.29
Consensus pattern (25 bp):
AACACAAAATAAATATTTAAATATG
Found at i:18714995 original size:17 final size:18
Alignment explanation
Indices: 18714975--18715010 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
18714965 ATATGAACAC
18714975 AACATAAAT-ATTTAAAT
1 AACATAAATAATTTAAAT
*
18714992 AACATGAATAATTTAAAT
1 AACATAAATAATTTAAAT
18715010 A
1 A
18715011 CGAATACGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (18 bp):
AACATAAATAATTTAAAT
Found at i:18717351 original size:21 final size:21
Alignment explanation
Indices: 18717308--18717352 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
18717298 TAATTATTAA
* *
18717308 ATTATTAAAATTTTTAATTTC
1 ATTATTAAAATTTTGAATATC
18717329 ATTATTAAAA-TTTGAATAATC
1 ATTATTAAAATTTTGAAT-ATC
18717350 ATT
1 ATT
18717353 TTTTTATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.51
Consensus pattern (21 bp):
ATTATTAAAATTTTGAATATC
Found at i:18727450 original size:9 final size:9
Alignment explanation
Indices: 18727436--18727479 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
18727426 GGAAATTATT
18727436 AAATAATAA
1 AAATAATAA
18727445 AAATAATAA
1 AAATAATAA
* *
18727454 AAAGATTAA
1 AAATAATAA
18727463 TAAATAATAA
1 -AAATAATAA
*
18727473 TAATAAT
1 AAATAAT
18727480 TTTTTAATGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
9 22 0.76
10 7 0.24
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (9 bp):
AAATAATAA
Found at i:18727667 original size:13 final size:13
Alignment explanation
Indices: 18727649--18727685 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
18727639 AGTGAAACCC
18727649 TGAAACCCTAATG
1 TGAAACCCTAATG
*
18727662 TGAAACCTTAATG
1 TGAAACCCTAATG
*
18727675 TAAAACCCTAA
1 TGAAACCCTAA
18727686 AATGAAATCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.43, C:0.22, G:0.11, T:0.24
Consensus pattern (13 bp):
TGAAACCCTAATG
Found at i:18731285 original size:14 final size:12
Alignment explanation
Indices: 18731240--18731290 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 12
18731230 TCCTTTCTTA
18731240 TCTAATTATTTA-
1 TCTAATT-TTTAT
18731252 TCGTAATTTTTAAT
1 TC-TAATTTTT-AT
18731266 TCTAATTTTTAT
1 TCTAATTTTTAT
18731278 TCTTTAATTTTTA
1 TC--TAATTTTTA
18731291 GAAAATATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
12 9 0.26
13 14 0.41
14 11 0.32
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.63
Consensus pattern (12 bp):
TCTAATTTTTAT
Found at i:18731519 original size:3 final size:3
Alignment explanation
Indices: 18731511--18731550 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
18731501 CTTTGAAAAT
18731511 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
18731551 ATAGAATGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:18731643 original size:15 final size:16
Alignment explanation
Indices: 18731623--18731655 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18731613 TATGTATCCA
18731623 AACAATA-AGAAAATT
1 AACAATATAGAAAATT
*
18731638 AACAATATATAAAATT
1 AACAATATAGAAAATT
18731654 AA
1 AA
18731656 ACATGCAATT
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:0.67, C:0.06, G:0.03, T:0.24
Consensus pattern (16 bp):
AACAATATAGAAAATT
Found at i:18734926 original size:11 final size:11
Alignment explanation
Indices: 18734912--18734974 Score: 53
Period size: 11 Copynumber: 5.9 Consensus size: 11
18734902 TTCATTTTTT
*
18734912 TTTATTTGTTG
1 TTTATTTGTTA
18734923 TTTATTTGTTA
1 TTTATTTGTTA
*
18734934 TTTGTTT-TT-
1 TTTATTTGTTA
18734943 TTTA-TTGTTA
1 TTTATTTGTTA
*
18734953 TTTGTTTTTGTT-
1 -TT-TATTTGTTA
18734965 TTTATTTGTT
1 TTTATTTGTT
18734975 TTTTTTTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
8 2 0.05
9 5 0.12
10 9 0.21
11 20 0.48
12 1 0.02
13 5 0.12
ACGTcount: A:0.10, C:0.00, G:0.13, T:0.78
Consensus pattern (11 bp):
TTTATTTGTTA
Found at i:18734936 original size:7 final size:7
Alignment explanation
Indices: 18734924--18734964 Score: 52
Period size: 6 Copynumber: 6.3 Consensus size: 7
18734914 TATTTGTTGT
18734924 TTATTTG
1 TTATTTG
18734931 TTATTTG
1 TTATTTG
*
18734938 TT-TTTT
1 TTATTTG
18734944 TTA-TTG
1 TTATTTG
18734950 TTATTTG
1 TTATTTG
18734957 TT-TTTG
1 TTATTTG
18734963 TT
1 TT
18734965 TTTATTTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
6 16 0.53
7 14 0.47
ACGTcount: A:0.10, C:0.00, G:0.12, T:0.78
Consensus pattern (7 bp):
TTATTTG
Found at i:18734952 original size:19 final size:18
Alignment explanation
Indices: 18734906--18734982 Score: 97
Period size: 18 Copynumber: 4.4 Consensus size: 18
18734896 TAATTTTTCA
*
18734906 TTTTTTT-TTATTTGTTG
1 TTTTTTTGTTATTTGTTT
*
18734923 TTTATTTGTTATTTGTTT
1 TTTTTTTGTTATTTGTTT
18734941 TTTTTATTGTTATTTG-TT
1 TTTTT-TTGTTATTTGTTT
*
18734959 TTTGTTT-TTATTTGTTT
1 TTTTTTTGTTATTTGTTT
18734976 TTTTTTT
1 TTTTTTT
18734983 TTTGGAAACA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
16 7 0.13
17 16 0.31
18 19 0.37
19 10 0.19
ACGTcount: A:0.08, C:0.00, G:0.10, T:0.82
Consensus pattern (18 bp):
TTTTTTTGTTATTTGTTT
Found at i:18734958 original size:26 final size:28
Alignment explanation
Indices: 18734905--18734971 Score: 95
Period size: 26 Copynumber: 2.5 Consensus size: 28
18734895 CTAATTTTTC
* *
18734905 ATTTTTTTTTATTTGTTGTTTATTTGTT
1 ATTTGTTTTTATTTATTGTTTATTTGTT
18734933 ATTTGTTTTT-TTTATTG-TTATTTGTT
1 ATTTGTTTTTATTTATTGTTTATTTGTT
18734959 -TTTGTTTTTATTT
1 ATTTGTTTTTATTT
18734972 GTTTTTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
25 9 0.25
26 12 0.33
27 6 0.17
28 9 0.25
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.79
Consensus pattern (28 bp):
ATTTGTTTTTATTTATTGTTTATTTGTT
Found at i:18734967 original size:7 final size:7
Alignment explanation
Indices: 18734909--18734986 Score: 52
Period size: 7 Copynumber: 11.0 Consensus size: 7
18734899 TTTTTCATTT
*
18734909 TTTTTTA
1 TTTTTTG
*
18734916 TTTGTTG
1 TTTTTTG
18734923 TTTATTTG
1 TTT-TTTG
*
18734931 TTATTTG
1 TTTTTTG
18734938 -TTTTT-
1 TTTTTTG
*
18734943 TTTATTG
1 TTTTTTG
*
18734950 TTATTTG
1 TTTTTTG
*
18734957 TTTTTGTT
1 TTTTT-TG
18734965 TTTATTTG
1 TTT-TTTG
*
18734973 TTTTTTT
1 TTTTTTG
18734980 TTTTTTG
1 TTTTTTG
18734987 GAAACAAATG
Statistics
Matches: 53, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
6 8 0.15
7 30 0.57
8 13 0.25
9 2 0.04
ACGTcount: A:0.08, C:0.00, G:0.12, T:0.81
Consensus pattern (7 bp):
TTTTTTG
Found at i:18734970 original size:35 final size:35
Alignment explanation
Indices: 18734906--18734984 Score: 117
Period size: 35 Copynumber: 2.3 Consensus size: 35
18734896 TAATTTTTCA
18734906 TTTTTTTTTATTTGTTGTTTATTTGTTATTTGTTT
1 TTTTTTTTTATTTGTTGTTTATTTGTTATTTGTTT
*
18734941 TTTTTATTGTTATTTGTT-TTTGTTT-TTATTTGTTT
1 TTTTT-TT-TTATTTGTTGTTTATTTGTTATTTGTTT
18734976 TTTTTTTTT
1 TTTTTTTTT
18734985 TGGAAACAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
33 2 0.05
34 2 0.05
35 20 0.49
36 8 0.20
37 9 0.22
ACGTcount: A:0.08, C:0.00, G:0.10, T:0.82
Consensus pattern (35 bp):
TTTTTTTTTATTTGTTGTTTATTTGTTATTTGTTT
Found at i:18735480 original size:44 final size:44
Alignment explanation
Indices: 18735415--18735505 Score: 121
Period size: 44 Copynumber: 2.0 Consensus size: 44
18735405 GCCAGCTGGA
* *
18735415 CTGGGCTTGGGTACCAGTTGATATGGGCTTAAGTGT-TAGCTAAT
1 CTGGGCTTAGGTACCAATTGATATGGGCTTAAG-GTATAGCTAAT
* *
18735459 CTGGGCTTAGGTGCCAATTGATTTGGGCTTAAGGTACTAGCTAAT
1 CTGGGCTTAGGTACCAATTGATATGGGCTTAAGGTA-TAGCTAAT
18735504 CT
1 CT
18735506 AGCCTTATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
43 2 0.05
44 29 0.71
45 10 0.24
ACGTcount: A:0.21, C:0.15, G:0.30, T:0.34
Consensus pattern (44 bp):
CTGGGCTTAGGTACCAATTGATATGGGCTTAAGGTATAGCTAAT
Found at i:18735674 original size:69 final size:69
Alignment explanation
Indices: 18735499--18735696 Score: 190
Period size: 69 Copynumber: 2.9 Consensus size: 69
18735489 AAGGTACTAG
* * * * * *
18735499 CTAATCTAGCCTTATA-ATGCTAGCTAATCTAGGCTTATA-GTGCGAGCTAATTTTGGCTTACAG
1 CTAATCTAGGCTTA-AGGTGCTAGCTAATCTAGGCTTA-AGGTACCAGCTAATCTAGGCTTACAG
*
18735562 TGCCAA
64 TGCAAA
* *
18735568 CTAATCTAGGCTTAAGGTGCCAGCTAA-CTTGGGCTTAAGGTACCAGCTAATCTAGGCTTA-AGG
1 CTAATCTAGGCTTAAGGTGCTAGCTAATC-TAGGCTTAAGGTACCAGCTAATCTAGGCTTACA-G
18735631 TGCAAA
64 TGCAAA
* * * * *
18735637 CTAATTTGGGCTTACA-GTGCTACCTAATCTAGGCTTAAGGTATCAGCTAATCTGGGCTTA
1 CTAATCTAGGCTTA-AGGTGCTAGCTAATCTAGGCTTAAGGTACCAGCTAATCTAGGCTTA
18735697 TAATGCCAGC
Statistics
Matches: 107, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
68 4 0.04
69 101 0.94
70 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (69 bp):
CTAATCTAGGCTTAAGGTGCTAGCTAATCTAGGCTTAAGGTACCAGCTAATCTAGGCTTACAGTG
CAAA
Found at i:18735706 original size:23 final size:22
Alignment explanation
Indices: 18735440--18735799 Score: 172
Period size: 23 Copynumber: 15.8 Consensus size: 22
18735430 AGTTGATATG
** *
18735440 GGCTTAAGTGTTAGCTAATCTG
1 GGCTTAAGTGCCAGCTAATCTA
* ** * * *
18735462 GGCTTAGGTGCCAATTGATTTG
1 GGCTTAAGTGCCAGCTAATCTA
* *
18735484 GGCTTAAGGTACTAGCTAATCTA
1 GGCTTAA-GTGCCAGCTAATCTA
* * *
18735507 GCCTTATAATGCTAGCTAATCTA
1 GGCTTA-AGTGCCAGCTAATCTA
* * *
18735530 GGCTTATAGTGCGAGCTAATTTT
1 GGCTTA-AGTGCCAGCTAATCTA
*
18735553 GGCTTACAGTGCCAACTAATCTA
1 GGCTTA-AGTGCCAGCTAATCTA
*
18735576 GGCTTAAGGTGCCAGCTAA-CTTG
1 GGCTTAA-GTGCCAGCTAATC-TA
*
18735599 GGCTTAAGGTACCAGCTAATCTA
1 GGCTTAA-GTGCCAGCTAATCTA
* * * *
18735622 GGCTTAAGGTGCAAACTAATTTG
1 GGCTTAA-GTGCCAGCTAATCTA
* *
18735645 GGCTTACAGTGCTACCTAATCTA
1 GGCTTA-AGTGCCAGCTAATCTA
** *
18735668 GGCTTAAGGTATCAGCTAATCTG
1 GGCTTAA-GTGCCAGCTAATCTA
*
18735691 GGCTTATAATGCCAGCTAAAT-TA
1 GGCTTA-AGTGCCAGCT-AATCTA
*
18735714 GAG-TTAAAGTGCCAGCTAATAT-
1 G-GCTT-AAGTGCCAGCTAATCTA
* * *
18735736 GAGCCTACAATGTCAGCTAAAT-TA
1 G-GCTTA-AGTGCCAGCT-AATCTA
* * * *
18735760 GGTTTAAAATGCTAGCCAATCTA
1 GGCTT-AAGTGCCAGCTAATCTA
*
18735783 GGCTTAGGTGCCAGCTA
1 GGCTTAAGTGCCAGCTA
18735800 TTTTGGGTTT
Statistics
Matches: 256, Mismatches: 64, Indels: 36
0.72 0.18 0.10
Matches are distributed among these distances:
22 42 0.16
23 200 0.78
24 14 0.05
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (22 bp):
GGCTTAAGTGCCAGCTAATCTA
Found at i:18735733 original size:92 final size:91
Alignment explanation
Indices: 18735452--18735733 Score: 286
Period size: 92 Copynumber: 3.1 Consensus size: 91
18735442 CTTAAGTGTT
* * * * * * * *
18735452 AGCTAATCTGGGCTTA-GGTGCCAATTGATTTGGGCTTAAGGTACTAGCTAATCTAGCCTTATAA
1 AGCTAATTTGGGCTTACAGTGCCAACTAATCTAGGCTTAAGGTAC-AGCTAATCTGGGCTTATAA
* * *
18735516 TGCTAGCTAATCTAGGCTTATAGTGCG
65 TGCCAGCTAATCTAGGCTTAAAGTGCA
* *
18735543 AGCTAATTTTGGCTTACAGTGCCAACTAATCTAGGCTTAAGGTGCCAGCTAA-CTTGGGCTTA-A
1 AGCTAATTTGGGCTTACAGTGCCAACTAATCTAGGCTTAAGGT-ACAGCTAATC-TGGGCTTATA
* * *
18735606 GGTACCAGCTAATCTAGGCTTAAGGTGCA
64 -ATGCCAGCTAATCTAGGCTTAAAGTGCA
* * *
18735635 AACTAATTTGGGCTTACAGTGCTACCTAATCTAGGCTTAAGGTATCAGCTAATCTGGGCTTATAA
1 AGCTAATTTGGGCTTACAGTGCCAACTAATCTAGGCTTAAGGTA-CAGCTAATCTGGGCTTATAA
*
18735700 TGCCAGCTAAAT-TAGAG-TTAAAGTGCC
65 TGCCAGCT-AATCTAG-GCTTAAAGTGCA
18735727 AGCTAAT
1 AGCTAAT
18735734 ATGAGCCTAC
Statistics
Matches: 156, Mismatches: 26, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
91 16 0.10
92 133 0.85
93 7 0.04
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (91 bp):
AGCTAATTTGGGCTTACAGTGCCAACTAATCTAGGCTTAAGGTACAGCTAATCTGGGCTTATAAT
GCCAGCTAATCTAGGCTTAAAGTGCA
Found at i:18736229 original size:17 final size:17
Alignment explanation
Indices: 18736207--18736244 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
18736197 GTCTATGTCT
18736207 ATGTCTATGTTCCTTTC
1 ATGTCTATGTTCCTTTC
18736224 ATGTCTATGTTCCTTTC
1 ATGTCTATGTTCCTTTC
18736241 ATGT
1 ATGT
18736245 AAATGCCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.13, T:0.53
Consensus pattern (17 bp):
ATGTCTATGTTCCTTTC
Found at i:18736385 original size:26 final size:26
Alignment explanation
Indices: 18736326--18736385 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
18736316 TACAAATGTG
18736326 ATGATGCAAATGCAAATTGCTTTCTT
1 ATGATGCAAATGCAAATTGCTTTCTT
*
18736352 AT-AGTGCAAATGCAAA-TGTCTTTTTT
1 ATGA-TGCAAATGCAAATTG-CTTTCTT
18736378 ATGATGCA
1 ATGATGCA
18736386 CATGTAAGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
25 3 0.10
26 26 0.87
27 1 0.03
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (26 bp):
ATGATGCAAATGCAAATTGCTTTCTT
Found at i:18737750 original size:139 final size:135
Alignment explanation
Indices: 18737585--18737856 Score: 316
Period size: 135 Copynumber: 2.0 Consensus size: 135
18737575 TTGAAACTTT
* * * *
18737585 ATTCACTTTTTGCCCCAGATTCTCATCTCCGAGTTGTATGTTTTTCTTTCTTTGCTTTTT-TTCT
1 ATTCACTTTTTGCCCAAGACTCTCATCT-C-AGTTCTATGCTTTT-TTTCTTT--TTTTTCTT-T
*
18737649 -TCTTTTTTTCTT-GACATTTCACTTCATCATTAGCAAACTACTTTCTTGAATTCTTAAGATTCC
60 ATCTTTTTTT-TTAAACATTTCACTTCATCATTAGCAAACTACTTTCTTGAATTCTTAAGATTCC
*
18737712 ATCTAAAGCCTC
124 AACTAAAGCCTC
* ** *
18737724 ATTCACTTTTTGCCCAAGGCTCTCATCTCTTTTCTTTGCTTTTTTTCTTTTTTTTCTTTATCTTT
1 ATTCACTTTTTGCCCAAGACTCTCATCTCAGTTCTATGCTTTTTTTCTTTTTTTTCTTTATCTTT
* * * ** *
18737789 TTTTTTAAACATTTGATTTCATCTTTAGCAAACTACTTTCTTGAATTCTTGGGATTCCAACTTAA
66 TTTTTTAAACATTTCACTTCATCATTAGCAAACTACTTTCTTGAATTCTTAAGATTCCAACTAAA
18737854 GCC
131 GCC
18737857 ATCGTTACTT
Statistics
Matches: 114, Mismatches: 16, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
134 8 0.07
135 64 0.56
136 7 0.06
137 9 0.08
138 1 0.01
139 25 0.22
ACGTcount: A:0.18, C:0.22, G:0.08, T:0.51
Consensus pattern (135 bp):
ATTCACTTTTTGCCCAAGACTCTCATCTCAGTTCTATGCTTTTTTTCTTTTTTTTCTTTATCTTT
TTTTTTAAACATTTCACTTCATCATTAGCAAACTACTTTCTTGAATTCTTAAGATTCCAACTAAA
GCCTC
Found at i:18741569 original size:17 final size:16
Alignment explanation
Indices: 18741505--18741569 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 16
18741495 TTGGATGAAT
*
18741505 CTTTTTATCTATTTTTTT
1 CTTTTT-TCT-TTTTTTC
*
18741523 CTTTTTTCTTCTTTTC
1 CTTTTTTCTTTTTTTC
* *
18741539 ATTCTTTTCATTTTTTC
1 CTT-TTTTCTTTTTTTC
18741556 CTTTTATTCTTTTT
1 CTTTT-TTCTTTTT
18741570 CTACCTATTT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
16 9 0.24
17 23 0.61
18 6 0.16
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (16 bp):
CTTTTTTCTTTTTTTC
Found at i:18744632 original size:12 final size:11
Alignment explanation
Indices: 18744613--18744669 Score: 51
Period size: 13 Copynumber: 4.5 Consensus size: 11
18744603 ACTTCATCCT
18744613 TTTTTATCTAA
1 TTTTTATCTAA
18744624 TTATTTATCTTAA
1 TT-TTTATC-TAA
18744637 TTTTTAATTCTAA
1 TTTTT-A-TCTAA
18744650 TTTTTAATCTTTAA
1 TTTTT-ATC--TAA
18744664 TTTTTA
1 TTTTTA
18744670 GAAAATAGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
11 2 0.05
12 11 0.28
13 17 0.43
14 10 0.25
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTTTATCTAA
Found at i:18744648 original size:26 final size:27
Alignment explanation
Indices: 18744619--18744669 Score: 79
Period size: 26 Copynumber: 1.9 Consensus size: 27
18744609 TCCTTTTTTA
18744619 TCTAATTATTT-ATC-TTAATTTTTAAT
1 TCTAATT-TTTAATCTTTAATTTTTAAT
18744645 TCTAATTTTTAATCTTTAATTTTTA
1 TCTAATTTTTAATCTTTAATTTTTA
18744670 GAAAATAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 3 0.13
26 10 0.43
27 10 0.43
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (27 bp):
TCTAATTTTTAATCTTTAATTTTTAAT
Found at i:18744650 original size:13 final size:14
Alignment explanation
Indices: 18744619--18744669 Score: 63
Period size: 13 Copynumber: 3.8 Consensus size: 14
18744609 TCCTTTTTTA
18744619 TCTAATTATTT-ATC
1 TCTAATT-TTTAATC
18744633 T-TAATTTTTAAT-
1 TCTAATTTTTAATC
18744645 TCTAATTTTTAATC
1 TCTAATTTTTAATC
*
18744659 TTTAATTTTTA
1 TCTAATTTTTA
18744670 GAAAATAGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 4 0.12
13 18 0.55
14 11 0.33
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (14 bp):
TCTAATTTTTAATC
Found at i:18748536 original size:132 final size:133
Alignment explanation
Indices: 18748315--18748560 Score: 386
Period size: 132 Copynumber: 1.9 Consensus size: 133
18748305 GTATGGAATA
* * *
18748315 ATTTGAGAACCTTTAGACACATGTCAATCCAAATTGAGTATATAATAAGTCATAAAGAGCTAGTC
1 ATTTGAGAACCTTTAGACACATGTCAATCCAAACTGAGCATATAATAAGTCATAAAGAACTAGTC
* *
18748380 CTAAGTAGAGCCATTTTGATA-TTTTGCAAGAAATTACCTGAATTATGATGGACGATAGTACAAA
66 CTAAGTAGAGCCATATCGATATTTTTGCAAGAAATTACCTGAATTATGATGGACGATAGTACAAA
18748444 AAT
131 AAT
* ** *
18748447 ATTTGGGAACCTTTAGACATGTGTCAATCCAAACTGAGCATATAATAAGTCATAAGGAACTAGTC
1 ATTTGAGAACCTTTAGACACATGTCAATCCAAACTGAGCATATAATAAGTCATAAAGAACTAGTC
* *
18748512 CTAGGTAGAGCCATATCGATATTTTTGTAAGAAATTACCTGAATTATGA
66 CTAAGTAGAGCCATATCGATATTTTTGCAAGAAATTACCTGAATTATGA
18748561 CGTGTAAGGG
Statistics
Matches: 102, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
132 76 0.75
133 26 0.25
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.30
Consensus pattern (133 bp):
ATTTGAGAACCTTTAGACACATGTCAATCCAAACTGAGCATATAATAAGTCATAAAGAACTAGTC
CTAAGTAGAGCCATATCGATATTTTTGCAAGAAATTACCTGAATTATGATGGACGATAGTACAAA
AAT
Found at i:18753295 original size:11 final size:12
Alignment explanation
Indices: 18753274--18753299 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18753264 AGAAAATGAT
18753274 AAAAACAAAAAA
1 AAAAACAAAAAA
18753286 AAAAACAAAAAA
1 AAAAACAAAAAA
18753298 AA
1 AA
18753300 TGATTTTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAACAAAAAA
Found at i:18753812 original size:22 final size:21
Alignment explanation
Indices: 18753784--18753832 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 21
18753774 AACAAAAGTG
18753784 AAAGAAGAAAAGAAAAATAAAA
1 AAAGAAGAAAAGAAAAA-AAAA
* *
18753806 AAAGAAGAACAGAAGAAAAAA
1 AAAGAAGAAAAGAAAAAAAAA
18753827 AAAGAA
1 AAAGAA
18753833 AAGAAAGGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (21 bp):
AAAGAAGAAAAGAAAAAAAAA
Found at i:18753826 original size:18 final size:18
Alignment explanation
Indices: 18753788--18753837 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 18
18753778 AAAGTGAAAG
*
18753788 AAGAAAAGAAAAATAAAAA
1 AAGAAAAGAAGAA-AAAAA
18753807 AAGAAGAACAGAAGAAAAAAA
1 AAG-A-AA-AGAAGAAAAAAA
18753828 AAGAAAAGAA
1 AAGAAAAGAA
18753838 AGGGAGAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
18 4 0.15
19 5 0.19
20 2 0.07
21 10 0.37
22 6 0.22
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (18 bp):
AAGAAAAGAAGAAAAAAA
Found at i:18756270 original size:15 final size:13
Alignment explanation
Indices: 18756236--18756284 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 13
18756226 GAGCTTTAAA
18756236 AAAAATAAAAATT
1 AAAAATAAAAATT
*
18756249 --TAA-AAAAATT
1 AAAAATAAAAATT
18756259 CAAAAATCAAAAATT
1 -AAAAAT-AAAAATT
18756274 AAAAATAAAAA
1 AAAAATAAAAA
18756285 AAAAGAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
10 7 0.24
11 2 0.07
13 7 0.24
14 6 0.21
15 7 0.24
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAAATAAAAATT
Found at i:18758755 original size:10 final size:10
Alignment explanation
Indices: 18758736--18758790 Score: 55
Period size: 10 Copynumber: 5.9 Consensus size: 10
18758726 AAAATTATCT
*
18758736 TTTTACTAAA
1 TTTTAATAAA
18758746 TTTTAATAAA
1 TTTTAATAAA
18758756 TTTT-A-AAA
1 TTTTAATAAA
*
18758764 TTTTATTAAA
1 TTTTAATAAA
*
18758774 --ATAATAAA
1 TTTTAATAAA
18758782 TTTTAATAA
1 TTTTAATAA
18758791 GTGACTAATC
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
8 13 0.36
9 1 0.03
10 22 0.61
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (10 bp):
TTTTAATAAA
Found at i:18760742 original size:81 final size:81
Alignment explanation
Indices: 18760607--18760764 Score: 289
Period size: 81 Copynumber: 2.0 Consensus size: 81
18760597 CATTATCGAT
*
18760607 GTTCACTTCCTTCTAATTCCCAACTAATACTCCGCTTTCTTCGAGAAGATTTTTCATTATCTCTC
1 GTTCACTTCCTTCTAATTCCCAACTAATACTCCACTTTCTTCGAGAAGATTTTTCATTATCTCTC
*
18760672 GATGATCATCACCGAA
66 CATGATCATCACCGAA
*
18760688 GTTCACTTCCTTCTAATTTCCAACTAATACTCCACTTTCTTCGAGAAGATTTTTCATTATCTCTC
1 GTTCACTTCCTTCTAATTCCCAACTAATACTCCACTTTCTTCGAGAAGATTTTTCATTATCTCTC
18760753 CATGATCATCAC
66 CATGATCATCAC
18760765 TTTGAAACAC
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 74 1.00
ACGTcount: A:0.25, C:0.28, G:0.08, T:0.39
Consensus pattern (81 bp):
GTTCACTTCCTTCTAATTCCCAACTAATACTCCACTTTCTTCGAGAAGATTTTTCATTATCTCTC
CATGATCATCACCGAA
Found at i:18772508 original size:52 final size:52
Alignment explanation
Indices: 18772448--18772644 Score: 256
Period size: 52 Copynumber: 3.8 Consensus size: 52
18772438 AAACTTGCCC
* ** ** *
18772448 ATTAAGAATCCATCTCT-TCTTAGAATTCTTCTCCTATAAGTCAAACTTGTCT
1 ATTAAGAAT-CTTCTCTCTCTTAGAATTCTTCTATTGCAAGTCAAACTTATCT
*
18772500 ATTAAGAATCCCTT-TC-CTTTTAGAATTCTTCTATTGCAAGTCAAACTTATCT
1 ATTAAGAAT--CTTCTCTCTCTTAGAATTCTTCTATTGCAAGTCAAACTTATCT
*
18772552 ATTAAGAATCTTCTTTCTCTTAGAATTCTTCTATTGCAAGTCAAACTTATCT
1 ATTAAGAATCTTCTCTCTCTTAGAATTCTTCTATTGCAAGTCAAACTTATCT
* *
18772604 ATTAAGAATCTTCTTTCTCTTAGAATTCTTCTTTTGCAAGT
1 ATTAAGAATCTTCTCTCTCTTAGAATTCTTCTATTGCAAGT
18772645 TTTCTTGTCC
Statistics
Matches: 131, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
50 3 0.02
51 1 0.01
52 124 0.95
53 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.44
Consensus pattern (52 bp):
ATTAAGAATCTTCTCTCTCTTAGAATTCTTCTATTGCAAGTCAAACTTATCT
Found at i:18772686 original size:11 final size:11
Alignment explanation
Indices: 18772670--18772711 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
18772660 GCAATATCTG
*
18772670 ACAAATTTCAA
1 ACAAATCTCAA
*
18772681 ACAAATCTCTA
1 ACAAATCTCAA
*
18772692 ACAAATCCCAA
1 ACAAATCTCAA
18772703 ACAAATCTC
1 ACAAATCTC
18772712 TTATGGGATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:18776500 original size:18 final size:18
Alignment explanation
Indices: 18776449--18776500 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
18776439 GCTTTTAGTA
* *
18776449 TTTAAGGTTTGGTGTAAGG
1 TTTAGGGTTTAGT-TAAGG
* * *
18776468 TTTTGGTTTTTGTTAAGG
1 TTTAGGGTTTAGTTAAGG
18776486 TTTAGGGTTTAGTTA
1 TTTAGGGTTTAGTTA
18776501 GGATTAAGTT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.52
Consensus pattern (18 bp):
TTTAGGGTTTAGTTAAGG
Found at i:18776532 original size:21 final size:21
Alignment explanation
Indices: 18776508--18776556 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
18776498 TTAGGATTAA
*
18776508 GTTTGGGGTAGGTTCGATTTG
1 GTTTGGGGTAGGTTCAATTTG
* * *
18776529 GTTTGGGGTGGGTTTAATTTT
1 GTTTGGGGTAGGTTCAATTTG
18776550 GTTTGGG
1 GTTTGGG
18776557 ATTTTAAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.08, C:0.02, G:0.43, T:0.47
Consensus pattern (21 bp):
GTTTGGGGTAGGTTCAATTTG
Found at i:18776598 original size:25 final size:26
Alignment explanation
Indices: 18776568--18776626 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
18776558 TTTTAAAGTT
18776568 GGTTTGGTTTGGATTAA-AGATTTAG
1 GGTTTGGTTTGGATTAAGAGATTTAG
* * *
18776593 GGTTTGGTTTGGTTTAAGGGTTTTAG
1 GGTTTGGTTTGGATTAAGAGATTTAG
18776619 GG-TTGGTT
1 GGTTTGGTT
18776627 CGCATTAGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 22 0.73
26 8 0.27
ACGTcount: A:0.15, C:0.00, G:0.37, T:0.47
Consensus pattern (26 bp):
GGTTTGGTTTGGATTAAGAGATTTAG
Found at i:18776651 original size:17 final size:17
Alignment explanation
Indices: 18776614--18776651 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
18776604 GTTTAAGGGT
18776614 TTTAGGGTTGGTTCGCA
1 TTTAGGGTTGGTTCGCA
18776631 -TTAGGGTATGGTTCG-A
1 TTTAGGGT-TGGTTCGCA
18776647 TTTAG
1 TTTAG
18776652 TTTAGAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.16, C:0.08, G:0.34, T:0.42
Consensus pattern (17 bp):
TTTAGGGTTGGTTCGCA
Found at i:18776826 original size:39 final size:38
Alignment explanation
Indices: 18776772--18776883 Score: 136
Period size: 39 Copynumber: 2.9 Consensus size: 38
18776762 ATTGGTTCAG
18776772 TTTGATTTAGGGTTTAGGGTATTGGTTTAGGGTTTGGGAT
1 TTTGATTTAGGGTTTAGGG--TTGGTTTAGGGTTTGGGAT
* * *
18776812 TTT-ATTTAGTGTTTAAAGGTTGGTTTAGGGTTTGGGGT
1 TTTGATTTAGGGTTT-AGGGTTGGTTTAGGGTTTGGGAT
* *
18776850 TTTGGTTTAAGGGTTTAGGGTTAGTTTAGGGTTT
1 TTTGATTT-AGGGTTTAGGGTTGGTTTAGGGTTT
18776884 AAAAATTAGG
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
38 21 0.34
39 29 0.47
40 12 0.19
ACGTcount: A:0.15, C:0.00, G:0.36, T:0.49
Consensus pattern (38 bp):
TTTGATTTAGGGTTTAGGGTTGGTTTAGGGTTTGGGAT
Found at i:18776884 original size:58 final size:56
Alignment explanation
Indices: 18776777--18776886 Score: 141
Period size: 58 Copynumber: 1.9 Consensus size: 56
18776767 TTCAGTTTGA
*
18776777 TTTAGGGTTTAGGGTATTGGTTTAGGGTTTGGGATTTTATTTAGTGTTTAAAGGTTGG
1 TTTAGGGTTTAGGGTATTGGTTTAGGGTTTGGG--TTTATTTAGGGTTTAAAGGTTGG
* *
18776835 TTTAGGGTTTGGGGTTTTGGTTTAAGGGTTTAGGG-TTAGTTTAGGGTTTAAA
1 TTTAGGGTTTAGGGTATTGGTTT-AGGGTTT-GGGTTTA-TTTAGGGTTTAAA
18776887 AATTAGGTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
57 3 0.07
58 33 0.72
59 7 0.15
60 3 0.07
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.47
Consensus pattern (56 bp):
TTTAGGGTTTAGGGTATTGGTTTAGGGTTTGGGTTTATTTAGGGTTTAAAGGTTGG
Found at i:18777612 original size:3 final size:3
Alignment explanation
Indices: 18777604--18777773 Score: 119
Period size: 3 Copynumber: 59.3 Consensus size: 3
18777594 TATACTATAA
* * * *
18777604 TAT TAT TAT CA- TAT TAT TAT TAT TAG TA- TAT TGT ATAG TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
* *
18777647 TAT TAT TA- TAT TAT TA- TAT TAT GGTAC TA- TAT TA- TAC TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT --TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
18777689 CA- TAT TA- TAT AAT AAT AAT AAT AAC TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18777735 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
18777774 TTCATTCTTC
Statistics
Matches: 139, Mismatches: 14, Indels: 28
0.77 0.08 0.15
Matches are distributed among these distances:
2 20 0.14
3 116 0.83
4 1 0.01
5 2 0.01
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:18777677 original size:29 final size:32
Alignment explanation
Indices: 18777614--18777681 Score: 88
Period size: 29 Copynumber: 2.2 Consensus size: 32
18777604 TATTATTATC
*
18777614 ATATTATTATTATTAGTATATTGTATAGTATT
1 ATATTATTATTATTAGTATATTGTATAGTACT
* *
18777646 ATATTATTA-TATTATTATA-T-TATGGTACT
1 ATATTATTATTATTAGTATATTGTATAGTACT
18777675 ATATTAT
1 ATATTAT
18777682 ACTATATCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 14 0.42
30 1 0.03
31 9 0.27
32 9 0.27
ACGTcount: A:0.35, C:0.01, G:0.07, T:0.56
Consensus pattern (32 bp):
ATATTATTATTATTAGTATATTGTATAGTACT
Found at i:18777737 original size:18 final size:17
Alignment explanation
Indices: 18777604--18777773 Score: 136
Period size: 18 Copynumber: 10.1 Consensus size: 17
18777594 TATACTATAA
*
18777604 TATTATTATCATATTAT
1 TATTATTATTATATTAT
* *
18777621 TATTATTAGTATATT-G
1 TATTATTATTATATTAT
*
18777637 TA-TAGTATTATATTAT
1 TATTATTATTATATTAT
18777653 TA-TATTATTATATTAT
1 TATTATTATTATATTAT
* *
18777669 GGTACTA-TATTATACTA-
1 --TATTATTATTATATTAT
* *
18777686 TATCA-TATTATATAAT
1 TATTATTATTATATTAT
* * * *
18777702 AATAATAATAACTATTAT
1 TATTATTATTA-TATTAT
18777720 TATTATTATTATTATTAT
1 TATTATTATTA-TATTAT
18777738 TATTATTATTATTATTAT
1 TATTATTATTA-TATTAT
*
18777756 TATTATTATTATTTTAT
1 TATTATTATTATATTAT
18777773 T
1 T
18777774 TTCATTCTTC
Statistics
Matches: 123, Mismatches: 23, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
15 21 0.17
16 20 0.16
17 22 0.18
18 58 0.47
19 2 0.02
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (17 bp):
TATTATTATTATATTAT
Found at i:18778612 original size:13 final size:13
Alignment explanation
Indices: 18778596--18778635 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
18778586 TCTTTTTCCA
*
18778596 TTTTCATTTTATT
1 TTTTGATTTTATT
*
18778609 TTTTGATTTGATT
1 TTTTGATTTTATT
18778622 TTTTGA-TTTATT
1 TTTTGATTTTATT
18778634 TT
1 TT
18778636 ATTGTCTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 7 0.29
13 17 0.71
ACGTcount: A:0.15, C:0.03, G:0.07, T:0.75
Consensus pattern (13 bp):
TTTTGATTTTATT
Found at i:18778623 original size:12 final size:12
Alignment explanation
Indices: 18778603--18778635 Score: 57
Period size: 13 Copynumber: 2.7 Consensus size: 12
18778593 CCATTTTCAT
18778603 TTTATTTTTTGA
1 TTTATTTTTTGA
18778615 TTTGATTTTTTGA
1 TTT-ATTTTTTGA
18778628 TTTATTTT
1 TTTATTTT
18778636 ATTGTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.76
Consensus pattern (12 bp):
TTTATTTTTTGA
Found at i:18778625 original size:26 final size:26
Alignment explanation
Indices: 18778596--18778660 Score: 64
Period size: 26 Copynumber: 2.5 Consensus size: 26
18778586 TCTTTTTCCA
18778596 TTTTCATTTTATTTT-TTGAT-TTGATT
1 TTTTCATTTTATTTTATTG-TCTT-ATT
* *
18778622 TTTTGA-TTTATTTTATTGTCTTTTT
1 TTTTCATTTTATTTTATTGTCTTATT
*
18778647 TTTTCTTTTTATTT
1 TTTTCATTTTATTT
18778661 AATTTCACTG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
25 15 0.47
26 17 0.53
ACGTcount: A:0.12, C:0.05, G:0.06, T:0.77
Consensus pattern (26 bp):
TTTTCATTTTATTTTATTGTCTTATT
Found at i:18779659 original size:19 final size:19
Alignment explanation
Indices: 18779635--18779677 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
18779625 ATTTATTTTT
*
18779635 TACTTCTCTTCATTGTTTA
1 TACTTCTCTTCATTGCTTA
18779654 TACTTCTCTTCATTGCTTA
1 TACTTCTCTTCATTGCTTA
18779673 TACTT
1 TACTT
18779678 GCTTAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.16, C:0.23, G:0.05, T:0.56
Consensus pattern (19 bp):
TACTTCTCTTCATTGCTTA
Found at i:18782820 original size:23 final size:21
Alignment explanation
Indices: 18782789--18782889 Score: 71
Period size: 23 Copynumber: 4.5 Consensus size: 21
18782779 GAATAATGAG
*
18782789 AAAAAAAAGATGCAAAAAAAAA
1 AAAAAAAAGAAG-AAAAAAAAA
18782811 AAAAACAAAGAAGAAAAAAATAA
1 AAAAA-AAAGAAGAAAAAAA-AA
* *
18782834 AAAATAAAATAA-AAAGGAAAAAG
1 AAAA-AAAAGAAGAAA--AAAAAA
*
18782857 GAAAAAAAG-AGATAAAAGAGAAA
1 AAAAAAAAGAAGA-AAAA-A-AAA
18782880 AAAAAAAAGA
1 AAAAAAAAGA
18782890 CTTAAAGGCA
Statistics
Matches: 62, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
21 3 0.05
22 21 0.34
23 33 0.53
24 5 0.08
ACGTcount: A:0.80, C:0.02, G:0.13, T:0.05
Consensus pattern (21 bp):
AAAAAAAAGAAGAAAAAAAAA
Found at i:18782853 original size:27 final size:25
Alignment explanation
Indices: 18782802--18782887 Score: 70
Period size: 27 Copynumber: 3.3 Consensus size: 25
18782792 AAAAAGATGC
18782802 AAAAAAAAAAAAAACAAAGAAGAAA
1 AAAAAAAAAAAAAACAAAGAAGAAA
*
18782827 AAAATAAAAAATAAAATAAA-AAGGAAA
1 AAAA-AAAAAA-AAAACAAAGAA-GAAA
* *
18782854 AAGGAAAAAAAGAGATA-AAAG-AGAAA
1 AA--AAAAAAA-AAAAACAAAGAAGAAA
18782880 AAAAAAAA
1 AAAAAAAA
18782888 GACTTAAAGG
Statistics
Matches: 51, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
24 6 0.12
25 4 0.08
26 14 0.27
27 17 0.33
28 7 0.14
29 3 0.06
ACGTcount: A:0.83, C:0.01, G:0.12, T:0.05
Consensus pattern (25 bp):
AAAAAAAAAAAAAACAAAGAAGAAA
Found at i:18783010 original size:56 final size:56
Alignment explanation
Indices: 18782945--18783057 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
18782935 CATGTGAATG
18782945 TCCCTAGATGGAGGGTGATGATTAGCTCAAAAATTAAAAATCTTAATAGAATGTGT
1 TCCCTAGATGGAGGGTGATGATTAGCTCAAAAATTAAAAATCTTAATAGAATGTGT
18783001 TCCCTAGATGGAGGGTGATGATTAGCTCAAAAATTAAAAATCTTAATAGAATGTGT
1 TCCCTAGATGGAGGGTGATGATTAGCTCAAAAATTAAAAATCTTAATAGAATGTGT
18783057 T
1 T
18783058 ATTGAAGGAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.31
Consensus pattern (56 bp):
TCCCTAGATGGAGGGTGATGATTAGCTCAAAAATTAAAAATCTTAATAGAATGTGT
Found at i:18783087 original size:56 final size:55
Alignment explanation
Indices: 18782962--18783088 Score: 139
Period size: 56 Copynumber: 2.3 Consensus size: 55
18782952 ATGGAGGGTG
* * * * *
18782962 ATGATTAGCTCAAAAATTAAAAATCTTAATAGAATGTGTTCCCTAGATGGAGGGTG
1 ATGATTAGATCAAAAATTAAAAATCTTAATAGAATGTGTT-CATAGAAGGAGGATC
* * *
18783018 ATGATTAGCTCAAAAATTAAAAATCTTAATAGAATGTGTT-ATTGAAGGATGATC
1 ATGATTAGATCAAAAATTAAAAATCTTAATAGAATGTGTTCATAGAAGGAGGATC
*
18783072 TTGATTTGAGATCAAAA
1 ATGA-TT-AGATCAAAA
18783089 TTGTCTGAGC
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
54 11 0.18
55 2 0.03
56 48 0.79
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (55 bp):
ATGATTAGATCAAAAATTAAAAATCTTAATAGAATGTGTTCATAGAAGGAGGATC
Found at i:18784659 original size:120 final size:121
Alignment explanation
Indices: 18783866--18784686 Score: 436
Period size: 120 Copynumber: 6.8 Consensus size: 121
18783856 TTCATCTCGA
* * * * * *
18783866 TCAGTCATCTTCGACCTTGACTCAATCTTAGTCACTTTATCTATTTGACTTGCA-G-TTTTAT-C
1 TCAGTCATCTTTGACCTCGACTCGATCTTGGTCACTTTATCTATTCGAC-T-CACGATTTCATCC
* * * * *
18783928 -TCGATCATTCGATCTCAACTTC-GGCCA-ATTCATTTCTTGACTCG-CAGTTTCATCTT-G
64 AT-G-TCATTCGATCTCGATTTCAGTCCAGA-TCATTTCTTGACTCGTGA-TTCCATCTTAG
* * * ** * * *
18783985 ATCAATCATCTTTGACTTAGACTTAAT-TCTAGTCACTTTATCTATTCAACTCACAGTTTTCATT
1 -TCAGTCATCTTTGACCTCGACTCGATCT-TGGTCACTTTATCTATTCGACTCAC-GATTTCA-T
* * * * ** *
18784049 CC-GGTCATTCGATCTC-AGTTCAGTCTAGATCATTTTTTTGACTTATGATTCCATCTTGG
62 CCATGTCATTCGATCTCGATTTCAGTCCAGATCA-TTTCTTGACTCGTGATTCCATCTTAG
* * * * * * * * *
18784108 TCAGTCATATTCGACCTCGACTTGGTCCTAGTCACTTTATCTATTTGACTCACAATTTTATCCCA
1 TCAGTCATCTTTGACCTCGACTCGATCTTGGTCACTTTATCTATTCGACTCACGATTTCAT-CCA
* * * * * *
18784173 -GTCACTCAATTTCGACTTT-AGT-C-GGTCATTTCTCTGACTCGTCATTCCATCTTGG
65 TGTCATTCGATCTCGA-TTTCAGTCCAGATCATTTCT-TGACTCGTGATTCCATCTTAG
* * * * * *
18784228 TCAGTCATCTTTGACCTCAACTCGGTCCTGATCACTTTATCTATTCGACTCATTG-TTTTATCCC
1 TCAGTCATCTTTGACCTCGACTCGATCTTGGTCACTTTATCTATTCGACTCA-CGATTTCAT-CC
* * * * * * * * * **
18784292 A-GTCATTTGATATAGACTTT--GGCCAAATCATTTTTCTAACACGTGGTTCCATC-CCG
64 ATGTCATTCGATCTCGA-TTTCAGTCCAGATCATTTCT-TGACTCGTGATTCCATCTTAG
* * * * ** *
18784348 ATCAGTCATCTTTGACCTCGACTCAATCTTGGTCACTTTATCTTTTTGACTCATGATTTTGT-CT
1 -TCAGTCATCTTTGACCTCGACTCGATCTTGGTCACTTTATCTATTCGACTCACGATTTCATCCA
* * * **
18784412 TAGTCATTCAATCTCGA-TTCTA-TCCAGATCATTTCTTGACTCACT-ATTTCATCCCAG
65 T-GTCATTCGATCTCGATTTC-AGTCCAGATCATTTCTTGACTC-GTGATTCCATCTTAG
** * * * * * * * * *
18784469 TTTGCCATCTTTGACCTTGACTCGATCTTGGTCGCTTTATATTTTCGACTCATGGTTTCGTCTCG
1 TCAGTCATCTTTGACCTCGACTCGATCTTGGTCACTTTATCTATTCGACTCACGATTTCATC-CA
* *
18784534 T-TCATTCGATCTCGATTTC-GTCCAAATCATTTCTTGACTCGTGATTCCATCATAG
65 TGTCATTCGATCTCGATTTCAGTCCAGATCATTTCTTGACTCGTGATTCCATCTTAG
* * * * *
18784589 TTAGTCATCTTCGACCTCGACTTGATCTTGGTCACTTTATCTATTCGACTAACGACTTCATCCAT
1 TCAGTCATCTTTGACCTCGACTCGATCTTGGTCACTTTATCTATTCGACTCACGATTTCATCCAT
* *
18784654 GTCATTTGATCTCG-GTTCAGTCCAGATCATTTC
66 GTCATTCGATCTCGATTTCAGTCCAGATCATTTC
18784687 CTTACTTGTG
Statistics
Matches: 545, Mismatches: 120, Indels: 72
0.74 0.16 0.10
Matches are distributed among these distances:
118 2 0.00
119 16 0.03
120 317 0.58
121 137 0.25
122 68 0.12
123 5 0.01
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.41
Consensus pattern (121 bp):
TCAGTCATCTTTGACCTCGACTCGATCTTGGTCACTTTATCTATTCGACTCACGATTTCATCCAT
GTCATTCGATCTCGATTTCAGTCCAGATCATTTCTTGACTCGTGATTCCATCTTAG
Found at i:18784913 original size:26 final size:23
Alignment explanation
Indices: 18784864--18784915 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 23
18784854 TTATTATTTT
*
18784864 TATTATATCAGATTATATTATAG
1 TATTATATCAGATTATAGTATAG
*
18784887 TATTATTATCATATTATCAGTATTAG
1 TATTA-TATCAGATTAT-AGTA-TAG
18784913 TAT
1 TAT
18784916 ATTGTATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.21
24 10 0.42
25 3 0.12
26 6 0.25
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.50
Consensus pattern (23 bp):
TATTATATCAGATTATAGTATAG
Found at i:18785003 original size:3 final size:3
Alignment explanation
Indices: 18784997--18785043 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
18784987 AATAATAATA
*
18784997 ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
18785044 ATTTTCATTC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:18785907 original size:12 final size:13
Alignment explanation
Indices: 18785869--18785924 Score: 53
Period size: 13 Copynumber: 4.3 Consensus size: 13
18785859 TTTTTTTCCA
* *
18785869 TTTTCATTTTATT
1 TTTTGATTTAATT
*
18785882 TTTTGATTTGATT
1 TTTTGATTTAATT
18785895 TTTTGA-TTAATT
1 TTTTGATTTAATT
18785907 TTATT-ATCTTAATT
1 TT-TTGAT-TTAATT
18785921 TTTT
1 TTTT
18785925 TTATTTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
12 8 0.22
13 21 0.57
14 8 0.22
ACGTcount: A:0.20, C:0.04, G:0.05, T:0.71
Consensus pattern (13 bp):
TTTTGATTTAATT
Found at i:18786033 original size:6 final size:6
Alignment explanation
Indices: 18786022--18786063 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
18786012 GAATAAGCAA
* *
18786022 AAAAAT AAAAAT AAAAAT -AAAAT AAAATTT TAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA-AT AAAAAT AAAAAT
18786064 TCTTACAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
5 5 0.17
6 21 0.70
7 4 0.13
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (6 bp):
AAAAAT
Found at i:18789466 original size:2 final size:2
Alignment explanation
Indices: 18789461--18789488 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18789451 CATATATCTT
18789461 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18789489 ATAGATCACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18790583 original size:20 final size:22
Alignment explanation
Indices: 18790546--18790586 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
18790536 AAATAATTTT
18790546 TTTATATTTTTGAAAAGTAAAA
1 TTTATATTTTTGAAAAGTAAAA
18790568 TTTATA-TTTT-AAAAGTAAA
1 TTTATATTTTTGAAAAGTAAA
18790587 TGTATAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.47
21 4 0.21
22 6 0.32
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (22 bp):
TTTATATTTTTGAAAAGTAAAA
Found at i:18790592 original size:19 final size:22
Alignment explanation
Indices: 18790548--18790592 Score: 60
Period size: 19 Copynumber: 2.2 Consensus size: 22
18790538 ATAATTTTTT
*
18790548 TATATTTTTGAAAAGTAAAATT
1 TATATTTTTGAAAAGTAAAATG
18790570 TATA-TTTT-AAAAGT-AAATG
1 TATATTTTTGAAAAGTAAAATG
18790589 TATA
1 TATA
18790593 AATTTTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 6 0.27
21 4 0.18
22 4 0.18
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (22 bp):
TATATTTTTGAAAAGTAAAATG
Found at i:18791301 original size:13 final size:13
Alignment explanation
Indices: 18791285--18791331 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
18791275 AATATTTAAT
18791285 AAAACAAAACAAA
1 AAAACAAAACAAA
*
18791298 AAAATAAAA-AAA
1 AAAACAAAACAAA
*
18791310 TAAAC-AAACAAA
1 AAAACAAAACAAA
18791322 AGAAACAAAA
1 A-AAACAAAA
18791332 ATAAAACAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
11 3 0.11
12 9 0.33
13 12 0.44
14 3 0.11
ACGTcount: A:0.83, C:0.11, G:0.02, T:0.04
Consensus pattern (13 bp):
AAAACAAAACAAA
Found at i:18791314 original size:20 final size:23
Alignment explanation
Indices: 18791285--18791342 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 23
18791275 AATATTTAAT
* *
18791285 AAAACAAAACAAAAAAA-TAA-A
1 AAAATAAAACAAAAAAAGAAACA
18791306 AAAAT-AAACAAACAAAAGAAACA
1 AAAATAAAACAAA-AAAAGAAACA
18791329 AAAATAAAACAAAA
1 AAAATAAAACAAAA
18791343 GTTAAAGGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 7 0.23
21 8 0.26
22 2 0.06
23 7 0.23
24 7 0.23
ACGTcount: A:0.83, C:0.10, G:0.02, T:0.05
Consensus pattern (23 bp):
AAAATAAAACAAAAAAAGAAACA
Found at i:18791331 original size:24 final size:24
Alignment explanation
Indices: 18791282--18791341 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
18791272 AATAATATTT
18791282 AATAAAACAAAACAAAAAAATAAAA
1 AATAAAAC-AAACAAAAAAATAAAA
*
18791307 AA-ATAAACAAACAAAAGAAA-CAAA
1 AATA-AAACAAACAAAA-AAATAAAA
18791331 AATAAAACAAA
1 AATAAAACAAA
18791342 AGTTAAAGGG
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
24 21 0.68
25 10 0.32
ACGTcount: A:0.82, C:0.10, G:0.02, T:0.07
Consensus pattern (24 bp):
AATAAAACAAACAAAAAAATAAAA
Found at i:18802970 original size:12 final size:11
Alignment explanation
Indices: 18802963--18803021 Score: 64
Period size: 11 Copynumber: 5.0 Consensus size: 11
18802953 GTGAAAGAAG
18802963 AAAAGAAAAATA
1 AAAAGAAAAA-A
* *
18802975 AAAAGGAAGAAT
1 AAAA-GAAAAAA
18802987 AAAAGAAAAAA
1 AAAAGAAAAAA
18802998 AAAAGAAAAAA
1 AAAAGAAAAAA
18803009 AAAGAGAAGAAAA
1 AAA-AGAA-AAAA
18803022 GAAATGATGA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
11 19 0.47
12 12 0.30
13 9 0.22
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.03
Consensus pattern (11 bp):
AAAAGAAAAAA
Found at i:18802990 original size:24 final size:23
Alignment explanation
Indices: 18802957--18803002 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
18802947 ACAAAAGTGA
18802957 AAGAAGAAAAGAAAAATAAAAAGG
1 AAGAAGAAAAGAAAAA-AAAAAGG
*
18802981 AAGAATAAAAGAAAAAAAAAAG
1 AAGAAGAAAAGAAAAAAAAAAG
18803003 AAAAAAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.04
Consensus pattern (23 bp):
AAGAAGAAAAGAAAAAAAAAAGG
Found at i:18803021 original size:11 final size:11
Alignment explanation
Indices: 18802935--18803021 Score: 52
Period size: 11 Copynumber: 7.5 Consensus size: 11
18802925 ATTCAAAAGG
*
18802935 AAAAAAAGGGA
1 AAAAAAAGAGA
* *
18802946 AACAAAAGTGA
1 AAAAAAAGAGA
18802957 AAGAAGAAA-AGA
1 AA-AA-AAAGAGA
*
18802969 AAAATAAAAAGGA
1 AAAA-AAAGA-GA
*
18802982 AGAATAAAAGAAA
1 A-AA-AAAAGAGA
18802995 AAAAAAAGA-A
1 AAAAAAAGAGA
18803005 AAAAAAAGAGA
1 AAAAAAAGAGA
18803016 AGAAAA
1 A-AAAA
18803022 GAAATGATGA
Statistics
Matches: 61, Mismatches: 7, Indels: 15
0.73 0.08 0.18
Matches are distributed among these distances:
10 10 0.16
11 24 0.39
12 12 0.20
13 8 0.13
14 6 0.10
15 1 0.02
ACGTcount: A:0.77, C:0.01, G:0.18, T:0.03
Consensus pattern (11 bp):
AAAAAAAGAGA
Found at i:18803022 original size:31 final size:35
Alignment explanation
Indices: 18802963--18803025 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 35
18802953 GTGAAAGAAG
*
18802963 AAAAGAAAAATAAAAAGGAAGAATAAAAGAAAAAA
1 AAAAGAAAAATAAAAAGGAAGAAGAAAAGAAAAAA
18802998 AAAAG-AAAA-AAAAA-G-AGAAGAAAAGAAA
1 AAAAGAAAAATAAAAAGGAAGAAGAAAAGAAA
18803026 TGATGAAGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 12 0.44
32 1 0.04
33 5 0.19
34 4 0.15
35 5 0.19
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (35 bp):
AAAAGAAAAATAAAAAGGAAGAAGAAAAGAAAAAA
Found at i:18805453 original size:32 final size:32
Alignment explanation
Indices: 18805410--18805492 Score: 87
Period size: 32 Copynumber: 2.5 Consensus size: 32
18805400 AGCTTTTAAA
* * **
18805410 AAAAATAAAAAATTTAAAAAAATCTAA-AAATT
1 AAAAATTAAAAA-TAAAAAAAATAAAAGAAATT
18805442 AAAAATTAAAAATAAAAAAAATAAAAGAAATT
1 AAAAATTAAAAATAAAAAAAATAAAAGAAATT
*
18805474 AAAATTTCAAAAAATAAAA
1 AAAAATT--AAAAATAAAA
18805493 TGTTTGAAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
31 11 0.26
32 22 0.51
34 10 0.23
ACGTcount: A:0.75, C:0.02, G:0.01, T:0.22
Consensus pattern (32 bp):
AAAAATTAAAAATAAAAAAAATAAAAGAAATT
Found at i:18805455 original size:39 final size:40
Alignment explanation
Indices: 18805410--18805492 Score: 107
Period size: 39 Copynumber: 2.1 Consensus size: 40
18805400 AGCTTTTAAA
** *
18805410 AAAAATAAAAAATTTAAAA-AAATCTAAAAATT-AAAAATT
1 AAAAATAAAAAAAATAAAAGAAAT-TAAAAATTCAAAAAAT
*
18805449 AAAAATAAAAAAAATAAAAGAAATTAAAATTTCAAAAAAT
1 AAAAATAAAAAAAATAAAAGAAATTAAAAATTCAAAAAAT
18805489 AAAA
1 AAAA
18805493 TGTTTGAAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
39 24 0.63
40 14 0.37
ACGTcount: A:0.75, C:0.02, G:0.01, T:0.22
Consensus pattern (40 bp):
AAAAATAAAAAAAATAAAAGAAATTAAAAATTCAAAAAAT
Found at i:18805467 original size:6 final size:7
Alignment explanation
Indices: 18805427--18805459 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
18805417 AAAAATTTAA
18805427 AAAAATCT
1 AAAAAT-T
18805435 AAAAATT
1 AAAAATT
18805442 AAAAATT
1 AAAAATT
18805449 AAAAA-T
1 AAAAATT
18805455 AAAAA
1 AAAAA
18805460 AAATAAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.24
7 13 0.52
8 6 0.24
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (7 bp):
AAAAATT
Found at i:18805472 original size:25 final size:24
Alignment explanation
Indices: 18805406--18805492 Score: 79
Period size: 25 Copynumber: 3.6 Consensus size: 24
18805396 GATGAGCTTT
*
18805406 TAAAAAAAATAAAAAATTTAAAAA
1 TAAAAAAAATAAAAAAATTAAAAA
* *
18805430 -AATCTAAAAAT-TAAAAATTAAAAA
1 TAA--AAAAAATAAAAAAATTAAAAA
*
18805454 TAAAAAAAATAAAAGAAATTAAAAT
1 TAAAAAAAATAAAA-AAATTAAAAA
**
18805479 TTCAAAAAATAAAA
1 TAAAAAAAATAAAA
18805493 TGTTTGAAGT
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
23 8 0.16
24 13 0.26
25 29 0.58
ACGTcount: A:0.75, C:0.02, G:0.01, T:0.22
Consensus pattern (24 bp):
TAAAAAAAATAAAAAAATTAAAAA
Found at i:18807316 original size:109 final size:109
Alignment explanation
Indices: 18807124--18807324 Score: 375
Period size: 109 Copynumber: 1.8 Consensus size: 109
18807114 TGAACTGTTG
18807124 ATTGATTTTAACAAGTGTTTTTGGGTAACTTTGTAAAATTTTTTGGTACTTTTATTAAGTTATTT
1 ATTGATTTTAACAAGTGTTTTTGGGTAACTTTGTAAAATTTTTTGGTACTTTTATTAAGTTATTT
18807189 ATCTGTTTATCTACGCATATTTAAATTGGTACTTTTATTAAGTT
66 ATCTGTTTATCTACGCATATTTAAATTGGTACTTTTATTAAGTT
*
18807233 ATTGATTTTAACAAGTGTTTTTGGGTAACTTTTTAAAATTTTTTGGTACTTTTATTAAGTTATTT
1 ATTGATTTTAACAAGTGTTTTTGGGTAACTTTGTAAAATTTTTTGGTACTTTTATTAAGTTATTT
* *
18807298 ATTTGTTTATCTATGCATATTTAAATT
66 ATCTGTTTATCTACGCATATTTAAATT
18807325 TTAAATTCTT
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
109 89 1.00
ACGTcount: A:0.27, C:0.06, G:0.13, T:0.54
Consensus pattern (109 bp):
ATTGATTTTAACAAGTGTTTTTGGGTAACTTTGTAAAATTTTTTGGTACTTTTATTAAGTTATTT
ATCTGTTTATCTACGCATATTTAAATTGGTACTTTTATTAAGTT
Found at i:18808141 original size:2 final size:2
Alignment explanation
Indices: 18808134--18808159 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18808124 AATCATTATG
18808134 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
18808160 GAGAGATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18808659 original size:7 final size:7
Alignment explanation
Indices: 18808647--18808699 Score: 65
Period size: 7 Copynumber: 7.7 Consensus size: 7
18808637 AATTTATCAA
18808647 AAATTTT
1 AAATTTT
18808654 AAATTTT
1 AAATTTT
**
18808661 AAATAAT
1 AAATTTT
18808668 AAATTTT
1 AAATTTT
18808675 AAATTTT
1 AAATTTT
18808682 --ATCTTT
1 AAAT-TTT
18808688 AAATTTT
1 AAATTTT
18808695 AAATT
1 AAATT
18808700 ATCAAATATT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 2 0.05
6 3 0.08
7 32 0.82
8 2 0.05
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (7 bp):
AAATTTT
Found at i:18809500 original size:10 final size:10
Alignment explanation
Indices: 18809487--18809512 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
18809477 AAAATTAAAA
18809487 TAATTTAATC
1 TAATTTAATC
18809497 TAATTTAATC
1 TAATTTAATC
18809507 TAATTT
1 TAATTT
18809513 TATTTATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (10 bp):
TAATTTAATC
Found at i:18811030 original size:24 final size:24
Alignment explanation
Indices: 18810984--18811030 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
18810974 TTATATAAAG
*
18810984 GATAATATATAAAAAATATAACAC
1 GATAATATATAAAAAATAAAACAC
* * *
18811008 GATAATTTTTAAAATATAAAACA
1 GATAATATATAAAAAATAAAACA
18811031 TGTATACTAC
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:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (24 bp):
GATAATATATAAAAAATAAAACAC
Found at i:18821539 original size:52 final size:52
Alignment explanation
Indices: 18821479--18821614 Score: 159
Period size: 52 Copynumber: 2.6 Consensus size: 52
18821469 ATACTTGCCC
* * *
18821479 ATTAAGAATCCATCTCTTCTTAGAATTCTTCTCCTATAAGTCAAACTTGTCT
1 ATTAAGAATCCATCTCTTCTTAGAATTCTTCTACTACAAGTCAAACTTATCT
* * * *
18821531 ATTAAGAATCCCTTTCCTT-TTAGAATTCTTCTATTGCAAGTCAAACTTATCT
1 ATTAAGAATCCATCT-CTTCTTAGAATTCTTCTACTACAAGTCAAACTTATCT
* *
18821583 ATTAAGAAT-CTTCTTTATCTTAGAATTCTTCT
1 ATTAAGAATCCATCTCT-TCTTAGAATTCTTCT
18821615 TTTGCAAGTT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
50 1 0.01
51 4 0.06
52 63 0.89
53 3 0.04
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (52 bp):
ATTAAGAATCCATCTCTTCTTAGAATTCTTCTACTACAAGTCAAACTTATCT
Found at i:18821665 original size:11 final size:11
Alignment explanation
Indices: 18821649--18821690 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
18821639 GCAATATCTG
*
18821649 ACAAATTTCAA
1 ACAAATCTCAA
*
18821660 ACAAATCTCTA
1 ACAAATCTCAA
18821671 ACAAATCTCAA
1 ACAAATCTCAA
18821682 ACAAATCTC
1 ACAAATCTC
18821691 TTATGGGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:18821674 original size:22 final size:22
Alignment explanation
Indices: 18821649--18821691 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
18821639 GCAATATCTG
*
18821649 ACAAATTTCAAACAAATCTCTA
1 ACAAATCTCAAACAAATCTCTA
18821671 ACAAATCTCAAACAAATCTCT
1 ACAAATCTCAAACAAATCTCT
18821692 TATGGGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (22 bp):
ACAAATCTCAAACAAATCTCTA
Found at i:18822591 original size:52 final size:52
Alignment explanation
Indices: 18822532--18822661 Score: 201
Period size: 52 Copynumber: 2.5 Consensus size: 52
18822522 AATCCCTCTC
*
18822532 CTCTTAGAATTCTTTTCTTGTAAGTCAAACTTACCTATTAAGAATCTT-TTT
1 CTCTTAGAATTCTTTTTTTGTAAGTCAAACTTACCTATTAAGAATCTTCTTT
*
18822583 CTTTTTAGAATT-TTTCTTTTGTAAGTCAAACTTACCTATTAAGAATCTTCTTT
1 C-TCTTAGAATTCTTT-TTTTGTAAGTCAAACTTACCTATTAAGAATCTTCTTT
*
18822636 CTCTTAGAATTCTTTTTTTGCAAGTC
1 CTCTTAGAATTCTTTTTTTGTAAGTC
18822662 TTTTTGTCCA
Statistics
Matches: 71, Mismatches: 4, Indels: 7
0.87 0.05 0.09
Matches are distributed among these distances:
51 4 0.06
52 60 0.85
53 7 0.10
ACGTcount: A:0.25, C:0.17, G:0.08, T:0.49
Consensus pattern (52 bp):
CTCTTAGAATTCTTTTTTTGTAAGTCAAACTTACCTATTAAGAATCTTCTTT
Found at i:18822704 original size:11 final size:11
Alignment explanation
Indices: 18822686--18822727 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
18822676 GCAATATCTG
18822686 ACAAATCTCAA
1 ACAAATCTCAA
* *
18822697 ATAAATCTCTA
1 ACAAATCTCAA
*
18822708 ACAAATCCCAA
1 ACAAATCTCAA
18822719 ACAAATCTC
1 ACAAATCTC
18822728 TTATGGGATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:18822711 original size:22 final size:22
Alignment explanation
Indices: 18822686--18822728 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
18822676 GCAATATCTG
* *
18822686 ACAAATCTCAAATAAATCTCTA
1 ACAAATCCCAAACAAATCTCTA
18822708 ACAAATCCCAAACAAATCTCT
1 ACAAATCCCAAACAAATCTCT
18822729 TATGGGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (22 bp):
ACAAATCCCAAACAAATCTCTA
Found at i:18825533 original size:18 final size:18
Alignment explanation
Indices: 18825482--18825539 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
18825472 GCTTTTAGTA
* *
18825482 TTTAAGGTTTGGTGTAAGG
1 TTTAGGGTTTAGT-TAAGG
* * *
18825501 TTTTGGTTTTTGTTAAGG
1 TTTAGGGTTTAGTTAAGG
18825519 TTTAGGGTTTAGTT-AGG
1 TTTAGGGTTTAGTTAAGG
18825536 TTTA
1 TTTA
18825540 AGTTTGGGGT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
17 7 0.22
18 16 0.50
19 9 0.28
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.52
Consensus pattern (18 bp):
TTTAGGGTTTAGTTAAGG
Found at i:18825623 original size:30 final size:30
Alignment explanation
Indices: 18825589--18825659 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 30
18825579 TTTTGTTTGG
18825589 GATTTTAAAGTTGGTTTGGTTTGGATTAAA
1 GATTTTAAAGTTGGTTTGGTTTGGATTAAA
* *
18825619 GA-TTT--AG--GGTTTGGTTTGGTTTAAG
1 GATTTTAAAGTTGGTTTGGTTTGGATTAAA
* *
18825644 GGTTTTAAGGTTGGTT
1 GATTTTAAAGTTGGTT
18825660 CGCATTAGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
25 17 0.53
26 3 0.09
27 2 0.06
28 1 0.03
29 3 0.09
30 6 0.19
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (30 bp):
GATTTTAAAGTTGGTTTGGTTTGGATTAAA
Found at i:18825890 original size:38 final size:38
Alignment explanation
Indices: 18825819--18825907 Score: 92
Period size: 38 Copynumber: 2.4 Consensus size: 38
18825809 GTTTAGGGTA
* * *
18825819 TTGGTTTA-GGTTTGGGATTTTTATTTAGTGTTTAAAGG
1 TTGGTTTAGGGTTTGGGATTTTGATTAAGGGTTT-AAGG
* * *
18825857 -TGGTTTAGGGTTTGGGGTTTTGGTTAAGGGTTTAGGG
1 TTGGTTTAGGGTTTGGGATTTTGATTAAGGGTTTAAGG
*
18825894 TTAGTTTAGGGTTT
1 TTGGTTTAGGGTTT
18825908 AAAGAATTAC
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
37 10 0.24
38 32 0.76
ACGTcount: A:0.15, C:0.00, G:0.36, T:0.49
Consensus pattern (38 bp):
TTGGTTTAGGGTTTGGGATTTTGATTAAGGGTTTAAGG
Found at i:18826652 original size:3 final size:3
Alignment explanation
Indices: 18826644--18826825 Score: 134
Period size: 3 Copynumber: 63.3 Consensus size: 3
18826634 TATACTATAA
* * * *
18826644 TAT TAT TAT CA- TAT TAT TAT TAT TAG TA- TAT TGT ATAG TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
* *
18826687 TAT TAT TA- TAT TAT TAT TA- TAT TAT GGTAC TA- TAT TA- TAC TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT --TAT TAT TAT TAT TAT TAT
* * * * * * * *
18826729 TAT CA- TAT TA- TAT AAT AAT AAT AAT AAC TAT TAT TAT TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18826775 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18826822 TAT T
1 TAT T
18826826 TTCATTCTTC
Statistics
Matches: 149, Mismatches: 16, Indels: 28
0.77 0.08 0.15
Matches are distributed among these distances:
2 20 0.13
3 126 0.85
4 1 0.01
5 2 0.01
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:18827684 original size:12 final size:12
Alignment explanation
Indices: 18827653--18827700 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
18827643 CCATTTTCAT
*
18827653 TTTATTTTTTGA
1 TTTATTTTTTTA
18827665 TTTGATTTTTTTA
1 TTT-ATTTTTTTA
*
18827678 TTTATTTTATTA
1 TTTATTTTTTTA
18827690 TCTT-TTTTTTT
1 T-TTATTTTTTT
18827701 CTTTTAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
12 18 0.58
13 13 0.42
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.79
Consensus pattern (12 bp):
TTTATTTTTTTA
Found at i:18828702 original size:19 final size:19
Alignment explanation
Indices: 18828678--18828720 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
18828668 ATTTATTTTT
**
18828678 TACTTCTCTTCATTGTTTA
1 TACTTCTCTTCATTACTTA
18828697 TACTTCTCTTCATTACTTA
1 TACTTCTCTTCATTACTTA
18828716 TACTT
1 TACTT
18828721 GCTCAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.19, C:0.23, G:0.02, T:0.56
Consensus pattern (19 bp):
TACTTCTCTTCATTACTTA
Found at i:18831876 original size:22 final size:21
Alignment explanation
Indices: 18831858--18831934 Score: 57
Period size: 23 Copynumber: 3.4 Consensus size: 21
18831848 AAAAAAGTGC
18831858 AAAAAAAAAAAAAACAAAGAAG
1 AAAAAAAAAAAAAA-AAAGAAG
*
18831880 AAAAAAATAAAAAATAAAATAA-
1 AAAAAAA-AAAAAA-AAAAGAAG
* *
18831902 AAAAGGAAAAAAAGAGATAAAGGAG
1 AAAA--AAAAAAA-A-AAAAAGAAG
18831927 AAAAAAAA
1 AAAAAAAA
18831935 GACTTAAAGG
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
22 11 0.25
23 19 0.43
24 9 0.20
25 5 0.11
ACGTcount: A:0.82, C:0.01, G:0.12, T:0.05
Consensus pattern (21 bp):
AAAAAAAAAAAAAAAAAGAAG
Found at i:18831898 original size:28 final size:28
Alignment explanation
Indices: 18831861--18831914 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
18831851 AAAGTGCAAA
* *
18831861 AAAAAAAAAAACAAAGAA-GAAAAAAAT
1 AAAAAAAAAAATAAAAAAGGAAAAAAAT
*
18831888 AAAAAATAAAATAAAAAAGGAAAAAAA
1 AAAAAAAAAAATAAAAAAGGAAAAAAA
18831915 GAGATAAAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.85, C:0.02, G:0.07, T:0.06
Consensus pattern (28 bp):
AAAAAAAAAAATAAAAAAGGAAAAAAAT
Done.