Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 194 of 207
Found at i:58388557 original size:21 final size:22
Alignment explanation
Indices: 58388517--58388563 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
58388507 TCTTTTTAGA
*
58388517 AAGGAAGAAGAATGATTTTTTAT
1 AAGGAAGAAGAATGA-ATTTTAT
58388540 AAGGAA-AA-AATGAATTTTAT
1 AAGGAAGAAGAATGAATTTTAT
58388560 AAGG
1 AAGG
58388564 CCCCTAAACG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 10 0.43
21 5 0.22
22 2 0.09
23 6 0.26
ACGTcount: A:0.49, C:0.00, G:0.21, T:0.30
Consensus pattern (22 bp):
AAGGAAGAAGAATGAATTTTAT
Found at i:58388937 original size:30 final size:27
Alignment explanation
Indices: 58388868--58388941 Score: 85
Period size: 30 Copynumber: 2.6 Consensus size: 27
58388858 ACGTGTCACA
*
58388868 ATTTAGTCCCTTTTGTTTTTTTATTTCG
1 ATTTAGTCCCTTTT-TTTTTTTACTTCG
* *
58388896 ATTTCGCCCCTTATTTTTGCTTTTACTTCG
1 ATTTAGTCCCTT-TTTTT--TTTTACTTCG
58388926 ATTTAGTCCCTTTTTT
1 ATTTAGTCCCTTTTTT
58388942 AGCACTTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
28 13 0.34
29 6 0.16
30 19 0.50
ACGTcount: A:0.11, C:0.20, G:0.09, T:0.59
Consensus pattern (27 bp):
ATTTAGTCCCTTTTTTTTTTTACTTCG
Found at i:58391046 original size:3 final size:3
Alignment explanation
Indices: 58391038--58391072 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
58391028 TCACAGAGGC
58391038 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
58391073 GAGGAAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:58394919 original size:12 final size:12
Alignment explanation
Indices: 58394904--58394942 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
58394894 ACTTTCTTCT
* *
58394904 TTACTTACTTGC
1 TTACTTGCTTAC
*
58394916 TTACTTGTTTAC
1 TTACTTGCTTAC
58394928 TTACTTGCTTAC
1 TTACTTGCTTAC
58394940 TTA
1 TTA
58394943 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.18, C:0.21, G:0.08, T:0.54
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:58394928 original size:20 final size:20
Alignment explanation
Indices: 58394903--58394941 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
58394893 TACTTTCTTC
58394903 TTTACTTACTTGCTTACTTG
1 TTTACTTACTTGCTTACTTG
58394923 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
58394942 AAATAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.21, G:0.08, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:58395268 original size:50 final size:50
Alignment explanation
Indices: 58395196--58395338 Score: 169
Period size: 50 Copynumber: 2.9 Consensus size: 50
58395186 CCTGTACTGT
* * **
58395196 CAATGTCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGGTAC
1 CAATGCCATATCCCAGACATGGTCTTACATGAGACCTCTCATATCGGTAC
* * ** * * *
58395246 CCATGCCATGTCCCAGACATGGTCTTACCGGGGACCTCTCATCTCGGTGC
1 CAATGCCATATCCCAGACATGGTCTTACATGAGACCTCTCATATCGGTAC
* *
58395296 CAATGCCATATCCTAGACATGGTCTTACATGGGACCTCTCATA
1 CAATGCCATATCCCAGACATGGTCTTACATGAGACCTCTCATA
58395339 ATCTCAATAA
Statistics
Matches: 76, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 76 1.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (50 bp):
CAATGCCATATCCCAGACATGGTCTTACATGAGACCTCTCATATCGGTAC
Found at i:58396999 original size:29 final size:30
Alignment explanation
Indices: 58396967--58397047 Score: 82
Period size: 29 Copynumber: 2.8 Consensus size: 30
58396957 TTAAAATAAC
58396967 AAAAAGTATATGTAAATTA-CAAAAAA-A-TT
1 AAAAA-TATATG-AAATTATCAAAAAATATTT
*
58396996 AAAAAT-TATGAAATTATGAAAAAATATTT
1 AAAAATATATGAAATTATCAAAAAATATTT
*
58397025 AAAAATATA-GAAAATTATTAAAA
1 AAAAATATATG-AAATTATCAAAA
58397048 TTGTTAATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
26 6 0.13
27 10 0.22
28 2 0.04
29 14 0.31
30 13 0.29
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (30 bp):
AAAAATATATGAAATTATCAAAAAATATTT
Found at i:58398114 original size:18 final size:18
Alignment explanation
Indices: 58398091--58398128 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
58398081 ATGAAAGTGT
*
58398091 GAGTGTGAGTAAGAACGA
1 GAGTGTGAGCAAGAACGA
*
58398109 GAGTGTGAGCAAGAATGA
1 GAGTGTGAGCAAGAACGA
58398127 GA
1 GA
58398129 ATGAGAGTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.05, G:0.39, T:0.16
Consensus pattern (18 bp):
GAGTGTGAGCAAGAACGA
Found at i:58408737 original size:32 final size:32
Alignment explanation
Indices: 58408701--58408765 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
58408691 TCTAAATCAG
58408701 ACCCTTACTAAACCGAGAATATAACCTCTCCA
1 ACCCTTACTAAACCGAGAATATAACCTCTCCA
58408733 ACCCTTACTAAACCGAGAATATAACCTCTCCA
1 ACCCTTACTAAACCGAGAATATAACCTCTCCA
58408765 A
1 A
58408766 GCACAACTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.34, G:0.06, T:0.22
Consensus pattern (32 bp):
ACCCTTACTAAACCGAGAATATAACCTCTCCA
Found at i:58420632 original size:10 final size:10
Alignment explanation
Indices: 58420601--58420671 Score: 53
Period size: 10 Copynumber: 7.5 Consensus size: 10
58420591 TTTATATTAA
58420601 AAATAATATAC
1 AAAT-ATATAC
58420612 AAATA-ATAC
1 AAATATATAC
58420621 AAATATATAC
1 AAATATATAC
58420631 AAAT-T-TA-
1 AAATATATAC
*
58420638 AAATAT-TAT
1 AAATATATAC
* *
58420647 AAATTTATAA
1 AAATATATAC
* *
58420657 AAACATATAA
1 AAATATATAC
58420667 AAATA
1 AAATA
58420672 CAAAAACATA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
7 4 0.08
8 5 0.10
9 15 0.29
10 23 0.45
11 4 0.08
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (10 bp):
AAATATATAC
Found at i:58420652 original size:16 final size:17
Alignment explanation
Indices: 58420600--58420653 Score: 56
Period size: 19 Copynumber: 3.1 Consensus size: 17
58420590 TTTTATATTA
*
58420600 AAAATAATATACAAATAAT
1 AAAAT-ATATACAAAT-TT
58420619 ACAAATATATACAAATTT
1 A-AAATATATACAAATTT
*
58420637 AAAATAT-TATAAATTT
1 AAAATATATACAAATTT
58420653 A
1 A
58420654 TAAAAACATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 9 0.28
17 6 0.19
18 2 0.06
19 11 0.34
20 4 0.12
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATATATACAAATTT
Found at i:58420686 original size:10 final size:10
Alignment explanation
Indices: 58420652--58420693 Score: 52
Period size: 11 Copynumber: 4.3 Consensus size: 10
58420642 ATTATAAATT
58420652 TATAAAAACA
1 TATAAAAACA
58420662 TAT-AAAA-A
1 TATAAAAACA
*
58420670 TACAAAAACA
1 TATAAAAACA
58420680 TATAAAAAACA
1 TAT-AAAAACA
58420691 TAT
1 TAT
58420694 TATAAATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
8 3 0.11
9 8 0.30
10 6 0.22
11 10 0.37
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (10 bp):
TATAAAAACA
Found at i:58420840 original size:20 final size:20
Alignment explanation
Indices: 58420815--58420853 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
58420805 ATAAAAATTG
58420815 TAAAAT-TATGAAAAATATTT
1 TAAAATATA-GAAAAATATTT
*
58420835 TAAAATATAGAAAATTATT
1 TAAAATATAGAAAAATATT
58420854 AAAATTGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
TAAAATATAGAAAAATATTT
Found at i:58423297 original size:41 final size:45
Alignment explanation
Indices: 58423196--58423317 Score: 146
Period size: 41 Copynumber: 2.8 Consensus size: 45
58423186 ATGTGTTCTT
* * *
58423196 GTGTAAGACCACGTCTGGGA-TGATGGCATCGATATGTGTGATTAC
1 GTGTAAGACCATGTCTAGGACAG-TGGCATCGATATGTGTGATTAC
*
58423241 GTGTAAGACCATGTCTAGGACATTGGCATCG-TAT-T-TGATT-C
1 GTGTAAGACCATGTCTAGGACAGTGGCATCGATATGTGTGATTAC
* *
58423282 GTGTAAGACCCTGTCTGGGACAGTGGCATCGATATG
1 GTGTAAGACCATGTCTAGGACAGTGGCATCGATATG
58423318 AGATAGCATG
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
41 29 0.43
42 8 0.12
43 1 0.01
44 3 0.04
45 26 0.39
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (45 bp):
GTGTAAGACCATGTCTAGGACAGTGGCATCGATATGTGTGATTAC
Found at i:58428299 original size:13 final size:13
Alignment explanation
Indices: 58428281--58428327 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
58428271 TAGGGTAGGA
58428281 TTCTGTATATCTG
1 TTCTGTATATCTG
*
58428294 TTCTGTATATTTG
1 TTCTGTATATCTG
58428307 ATTCTGT-TATCTG
1 -TTCTGTATATCTG
58428320 TATCTGTA
1 T-TCTGTA
58428328 AAGGACATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 1 0.03
13 22 0.76
14 6 0.21
ACGTcount: A:0.17, C:0.13, G:0.15, T:0.55
Consensus pattern (13 bp):
TTCTGTATATCTG
Found at i:58434134 original size:17 final size:17
Alignment explanation
Indices: 58434112--58434147 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
58434102 AAAGGCATGA
58434112 CTCCAGTGAGGGTGACT
1 CTCCAGTGAGGGTGACT
58434129 CTCCAGTGAGGGTGACT
1 CTCCAGTGAGGGTGACT
58434146 CT
1 CT
58434148 GATTCTGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.25, G:0.33, T:0.25
Consensus pattern (17 bp):
CTCCAGTGAGGGTGACT
Found at i:58434454 original size:188 final size:187
Alignment explanation
Indices: 58434129--58434603 Score: 684
Period size: 188 Copynumber: 2.5 Consensus size: 187
58434119 GAGGGTGACT
* * *
58434129 CTCCAGTGAGGGTGACTCTGATTCTGAAGGTGGGAGGCAAAAGAAGAGAGGTGAAGTTCAAAACC
1 CTCCAGTGAGGATGACTCTGATTCTGATGGTGAGAGGCAAAAGAAGAGAGGTGAAGTTCAAAA--
** *
58434194 GGAAGATTGAGTAAACTAGGAGCCAGAGGAGAGAGAGGGACATGGGTAGTGAATCTGATTCTGAT
64 GGAAGATTGAGTTGACTGGGAGCCAGAGGAGAGAGAGGGACATGGGTAGTGAATCTGATTCTGAT
* *
58434259 GCTGACAGAGCAAGAGGTCAT-AGAAAAGAAATGGTTAAGAAAGGTCGTCATAGGCACAA
129 ACTGACAGAGCAAGAGGTCATAAG-AAAGAAATGGTTAAGAAAGGTCGTCATAGGAACAA
** *
58434318 CTCCAGTGAGGACAACTTTGATTCTGATGGTGAGAGGCAAAAGAAGAGAGGTGAAGTTCAAAAGG
1 CTCCAGTGAGGATGACTCTGATTCTGATGGTGAGAGGCAAAAGAAGAGAGGTGAAGTTCAAAAGG
58434383 AAAGATTGAGTTGACTGGGAGCCAGAGGAGAGAGAGGGACAT-GGTAAGTGAATCTGATTCTGAT
66 -AAGATTGAGTTGACTGGGAGCCAGAGGAGAGAGAGGGACATGGGT-AGTGAATCTGATTCTGAT
* * * * **
58434447 ACTGACAGAGCGAGAGGTCGTAAGAAGGAAATGGTTAAGAAAGGTCGTCGTAGGAATGA
129 ACTGACAGAGCAAGAGGTCATAAGAAAGAAATGGTTAAGAAAGGTCGTCATAGGAACAA
* *
58434506 CTCCAGTGAGGATGACTCTGATTCTGATGTTGAGAGGAAAAAGAAGAGAGGTGAAGTTCAGAAAG
1 CTCCAGTGAGGATGACTCTGATTCTGATGGTGAGAGGCAAAAGAAGAGAGGTGAAGTTCA-AAA-
* *
58434571 GGAAGATCGAGTTGAATGGGAGCCAGAGGAGAG
64 GGAAGATTGAGTTGACTGGGAGCCAGAGGAGAG
58434604 GCAGTGATAG
Statistics
Matches: 257, Mismatches: 24, Indels: 10
0.88 0.08 0.03
Matches are distributed among these distances:
187 5 0.02
188 159 0.62
189 91 0.35
190 2 0.01
ACGTcount: A:0.35, C:0.11, G:0.35, T:0.19
Consensus pattern (187 bp):
CTCCAGTGAGGATGACTCTGATTCTGATGGTGAGAGGCAAAAGAAGAGAGGTGAAGTTCAAAAGG
AAGATTGAGTTGACTGGGAGCCAGAGGAGAGAGAGGGACATGGGTAGTGAATCTGATTCTGATAC
TGACAGAGCAAGAGGTCATAAGAAAGAAATGGTTAAGAAAGGTCGTCATAGGAACAA
Found at i:58435331 original size:39 final size:39
Alignment explanation
Indices: 58435270--58435466 Score: 223
Period size: 39 Copynumber: 5.0 Consensus size: 39
58435260 CCAAAGCTTA
*
58435270 TGGGGAGAATGATGATCAGAATAGGGATGAATATTCTAGG
1 TGGGG-GAAAGATGATCAGAATAGGGATGAATATTCTAGG
* * *
58435310 TGGGGGAAAGATGACCGGAATAAGGATGAATATTCTAGG
1 TGGGGGAAAGATGATCAGAATAGGGATGAATATTCTAGG
** * * * * * *
58435349 TGGGGGATGGGTGACCGGAATAAGGATGAATACTCTAGA
1 TGGGGGAAAGATGATCAGAATAGGGATGAATATTCTAGG
* *
58435388 TGGGGAAAAGATGATCAGAAGAGGGATGAATATTCTAGG
1 TGGGGGAAAGATGATCAGAATAGGGATGAATATTCTAGG
* * * *
58435427 TGGGAGAAAGATGATCTGAAAAGGGATGATTATTCTAGG
1 TGGGGGAAAGATGATCAGAATAGGGATGAATATTCTAGG
58435466 T
1 T
58435467 CAGTTAGGTC
Statistics
Matches: 133, Mismatches: 24, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 128 0.96
40 5 0.04
ACGTcount: A:0.35, C:0.07, G:0.36, T:0.23
Consensus pattern (39 bp):
TGGGGGAAAGATGATCAGAATAGGGATGAATATTCTAGG
Found at i:58439410 original size:87 final size:87
Alignment explanation
Indices: 58439305--58439674 Score: 242
Period size: 87 Copynumber: 4.3 Consensus size: 87
58439295 GACCTACTCT
* * * * * *
58439305 GCTGTAACCTCAGAGAGATAAGATC-CTTTATTTTAATCCACTCCACTGTAACTTCAGGGAGATA
1 GCTGTAATCTCAGGGAGATAAGATCTC-TGACTTCAATCCACTCCACTGTAACCTCAGGGAGATA
* *
58439369 GGATAGTG-TCTTTGATCTGCTCC
65 AGAT-CTGATCTTTGATCTGCTCC
* **
58439392 GCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAA
1 GCTGTAATCTCAGGGAGATAAGATCTCTGACTTCAATCCACTCCACTGTAACCTCAGGGAGATAA
* *
58439457 GATCTGAAATTCTTTGGTCTGTTCC
66 GATCTG--A-TCTTTGATCTGCTCC
* * ** * * *
58439482 ACTGTAATCTCAGGGAGATAAGA-C-CTGA-TGT-GATCTTCTCTACTGTAACTTCAGAGAGATA
1 GCTGTAATCTCAGGGAGATAAGATCTCTGACT-TCAATCCACTCCACTGTAACCTCAGGGAGATA
* *
58439543 AGATC----CTTTAATCCGCTCC
65 AGATCTGATCTTTGATCTGCTCC
** * * ** * * * *
58439562 ATTGTAATCTCAAGGAGATAGGAT-TACT-ATCTTTGATCCGCTCCGCCGTAATCTCAGGGAGAT
1 GCTGTAATCTCAGGGAGATAAGATCT-CTGA-CTTCAATCCACTCCACTGTAACCTCAGGGAGAT
* *
58439625 AAGATCTGAAATTCTTTGGTCTGTTCC
64 AAGATCTG--A-TCTTTGATCTGCTCC
*
58439652 ACTGTAATCTCAGGGAGATAAGA
1 GCTGTAATCTCAGGGAGATAAGA
58439675 CCTGTATAAT
Statistics
Matches: 222, Mismatches: 42, Indels: 35
0.74 0.14 0.12
Matches are distributed among these distances:
80 30 0.14
81 1 0.00
82 3 0.01
83 28 0.13
86 2 0.01
87 87 0.39
88 5 0.02
89 1 0.00
90 65 0.29
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (87 bp):
GCTGTAATCTCAGGGAGATAAGATCTCTGACTTCAATCCACTCCACTGTAACCTCAGGGAGATAA
GATCTGATCTTTGATCTGCTCC
Found at i:58439497 original size:46 final size:43
Alignment explanation
Indices: 58439345--58439674 Score: 234
Period size: 44 Copynumber: 7.6 Consensus size: 43
58439335 TTTTAATCCA
*
58439345 CTCCACTGTAA-CTTCAGGGAGATAGGA--TAGTGTCTTTGATCTG
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTA-T-TCTTTGATCTG
* * * **
58439388 CTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTAT-TCTTTGATCTG
* *
58439432 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCT---ATTCTTTGATCTG
* * * *
58439478 TTCCACTGTAATCTCAGGGAGATAAGACCTGA---TGTGATCTT
1 CTCCACTGTAATCTCAGGGAGATAAGATCT-ATTCTTTGATCTG
* * * *
58439519 CTCTACTGTAA-CTTCAGAGAGATAAGATC----CTTTAATCCG
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTATTCTTTGATCTG
* * * *
58439558 CTCCATTGTAATCTCAAGGAGATAGGAT-TACTATCTTTGATCCG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTA-T-TCTTTGATCTG
* * *
58439602 CTCCGCCGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCT---ATTCTTTGATCTG
*
58439648 TTCCACTGTAATCTCAGGGAGATAAGA
1 CTCCACTGTAATCTCAGGGAGATAAGA
58439675 CCTGTATAAT
Statistics
Matches: 224, Mismatches: 44, Indels: 35
0.74 0.15 0.12
Matches are distributed among these distances:
39 26 0.12
40 2 0.01
41 29 0.13
43 23 0.10
44 72 0.32
45 2 0.01
46 67 0.30
47 2 0.01
48 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (43 bp):
CTCCACTGTAATCTCAGGGAGATAAGATCTATTCTTTGATCTG
Found at i:58458748 original size:19 final size:18
Alignment explanation
Indices: 58458724--58458777 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
58458714 TACAAAAAAT
58458724 AAAAATTTTAAAATTATGA
1 AAAAATTTTAAAATTAT-A
*
58458743 AAAAATATTTAAAAGTATA
1 AAAAAT-TTTAAAATTATA
*
58458762 GAAAATTATTAAAATT
1 AAAAATT-TTAAAATT
58458778 GTTAATAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 1 0.03
19 19 0.63
20 10 0.33
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (18 bp):
AAAAATTTTAAAATTATA
Found at i:58458771 original size:20 final size:20
Alignment explanation
Indices: 58458724--58458766 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
58458714 TACAAAAAAT
*
58458724 AAAAAT-TTTAAAATTATGA
1 AAAAATATTTAAAAGTATGA
58458743 AAAAATATTTAAAAGTATAGA
1 AAAAATATTTAAAAGTAT-GA
58458764 AAA
1 AAA
58458767 TTATTAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.29
20 10 0.48
21 5 0.24
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (20 bp):
AAAAATATTTAAAAGTATGA
Found at i:58459414 original size:19 final size:19
Alignment explanation
Indices: 58459390--58459426 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
58459380 CCAAGAAAAT
58459390 AAAATACAACA-GGCCCAAA
1 AAAATACAA-ATGGCCCAAA
58459409 AAAATACAAATGGCCCAA
1 AAAATACAAATGGCCCAA
58459427 TTTTTAGCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.57, C:0.24, G:0.11, T:0.08
Consensus pattern (19 bp):
AAAATACAAATGGCCCAAA
Found at i:58463297 original size:21 final size:18
Alignment explanation
Indices: 58463259--58463298 Score: 53
Period size: 21 Copynumber: 2.1 Consensus size: 18
58463249 ATTTCAAAAC
58463259 TTAAGTATTTTAAAACAA
1 TTAAGTATTTTAAAACAA
58463277 TTAAGGTATTATTATAAACAA
1 TTAA-GTATT-TTA-AAACAA
58463298 T
1 T
58463299 GACATTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 5 0.26
20 3 0.16
21 7 0.37
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (18 bp):
TTAAGTATTTTAAAACAA
Found at i:58464276 original size:29 final size:30
Alignment explanation
Indices: 58464244--58464318 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 30
58464234 TACAAAAAAA
58464244 TAAAAATTAT-G-AAATTATGAAAAATTGTT
1 TAAAAATTATAGAAAATTAT-AAAAATTGTT
*
58464273 TAAAAA-TATAGAAAATTATTAAAATTGTT
1 TAAAAATTATAGAAAATTATAAAAATTGTT
* *
58464302 AATAAAATT-TACAAAAT
1 TA-AAAATTATAGAAAAT
58464319 AGTTACCAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 3 0.08
29 17 0.44
30 18 0.46
31 1 0.03
ACGTcount: A:0.56, C:0.01, G:0.07, T:0.36
Consensus pattern (30 bp):
TAAAAATTATAGAAAATTATAAAAATTGTT
Found at i:58465564 original size:26 final size:26
Alignment explanation
Indices: 58465525--58465574 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
58465515 TTTTGTATTA
*
58465525 AAAATAATACAAATATATACAAATTT
1 AAAATAATACAAATATATAAAAATTT
* * *
58465551 AAAATATTATAAATTTATAAAAAT
1 AAAATAATACAAATATATAAAAAT
58465575 ATATAAAAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (26 bp):
AAAATAATACAAATATATAAAAATTT
Found at i:58479152 original size:72 final size:74
Alignment explanation
Indices: 58479032--58479217 Score: 213
Period size: 72 Copynumber: 2.5 Consensus size: 74
58479022 ATAGAATTGT
* * *
58479032 TAAC-AGAATAAAGAAATCAATGATCAATCCAATTCACTGATTTGATTACAGAGTATCAATCA-C
1 TAACAAGAATAAAG-AATCAATGATCAATCTAATTCACTGATTTAATTACAGAGTACCAATCATC
58479095 CTTCTATTGAC
65 C-TCTATTGAC
* * ** *
58479106 TAA-AAGAATAAA-ACT-AATGATCTTATCTAATTCA-TCGATTTAATTACAGTTTACCAATTAT
1 TAACAAGAATAAAGAATCAATGATC-AATCTAATTCACT-GATTTAATTACAGAGTACCAATCAT
*
58479167 CCTCTATTGAT
64 CCTCTATTGAC
58479178 TAACAAGAATAAAGAATCAATGATCAATCTAATTCACTGA
1 TAACAAGAATAAAGAATCAATGATCAATCTAATTCACTGA
58479218 ATTACAGATT
Statistics
Matches: 93, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
71 8 0.09
72 41 0.44
73 11 0.12
74 25 0.27
75 8 0.09
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (74 bp):
TAACAAGAATAAAGAATCAATGATCAATCTAATTCACTGATTTAATTACAGAGTACCAATCATCC
TCTATTGAC
Found at i:58485728 original size:21 final size:21
Alignment explanation
Indices: 58485680--58485728 Score: 50
Period size: 21 Copynumber: 2.3 Consensus size: 21
58485670 CATAACTTTA
58485680 ATAA-ATTATTTTTTATAAAT
1 ATAATATTATTTTTTATAAAT
58485700 A-AGTATATTA-TTTTTATAATAT
1 ATA--ATATTATTTTTTATAA-AT
58485722 ATAATAT
1 ATAATAT
58485729 GGATACGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 9
0.73 0.00 0.27
Matches are distributed among these distances:
19 1 0.04
20 1 0.04
21 14 0.58
22 7 0.29
23 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
ATAATATTATTTTTTATAAAT
Found at i:58494452 original size:24 final size:23
Alignment explanation
Indices: 58494404--58494458 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
58494394 CTTATTTTCT
*
58494404 TTTTATTTTTAAATTTTAATTAA
1 TTTTATTTTTAAATTTTAATCAA
*
58494427 TTTTATTTGTTAAATATTT-CTCAA
1 TTTTATTT-TTAAAT-TTTAATCAA
58494451 -TTTATTTT
1 TTTTATTTT
58494459 GTATTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 1 0.04
23 15 0.54
24 9 0.32
25 3 0.11
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTATTTTTAAATTTTAATCAA
Found at i:58498879 original size:120 final size:120
Alignment explanation
Indices: 58498666--58498905 Score: 480
Period size: 120 Copynumber: 2.0 Consensus size: 120
58498656 TATCCATAAG
58498666 CCGAGCCGAGTCATAAAAATTCCAAAACTTTTCAGTTATGTATTTTTAATAAAATAATATGGTTT
1 CCGAGCCGAGTCATAAAAATTCCAAAACTTTTCAGTTATGTATTTTTAATAAAATAATATGGTTT
58498731 CAAACAAAGTAAAAAAGACTAAGAATTTTCAGGTACAAGGAAAATAATCAAGCCA
66 CAAACAAAGTAAAAAAGACTAAGAATTTTCAGGTACAAGGAAAATAATCAAGCCA
58498786 CCGAGCCGAGTCATAAAAATTCCAAAACTTTTCAGTTATGTATTTTTAATAAAATAATATGGTTT
1 CCGAGCCGAGTCATAAAAATTCCAAAACTTTTCAGTTATGTATTTTTAATAAAATAATATGGTTT
58498851 CAAACAAAGTAAAAAAGACTAAGAATTTTCAGGTACAAGGAAAATAATCAAGCCA
66 CAAACAAAGTAAAAAAGACTAAGAATTTTCAGGTACAAGGAAAATAATCAAGCCA
58498906 TGAATGATTA
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.45, C:0.14, G:0.13, T:0.28
Consensus pattern (120 bp):
CCGAGCCGAGTCATAAAAATTCCAAAACTTTTCAGTTATGTATTTTTAATAAAATAATATGGTTT
CAAACAAAGTAAAAAAGACTAAGAATTTTCAGGTACAAGGAAAATAATCAAGCCA
Found at i:58499427 original size:43 final size:43
Alignment explanation
Indices: 58499378--58499465 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
58499368 ATCCTTCAAA
58499378 AACAGATGAAGAGTCGGAGTAAAATAGTTCTAATCCATATGAG
1 AACAGATGAAGAGTCGGAGTAAAATAGTTCTAATCCATATGAG
* *
58499421 AACAGATGAAGAGTCGGAGTAATATAGTTTTAATCCATATGAG
1 AACAGATGAAGAGTCGGAGTAAAATAGTTCTAATCCATATGAG
58499464 AA
1 AA
58499466 ACAGGCAAGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.25
Consensus pattern (43 bp):
AACAGATGAAGAGTCGGAGTAAAATAGTTCTAATCCATATGAG
Found at i:58501280 original size:18 final size:18
Alignment explanation
Indices: 58501254--58501319 Score: 80
Period size: 18 Copynumber: 3.7 Consensus size: 18
58501244 TGTTCGTTCT
58501254 AGGATTTCTCCTCCTCCC
1 AGGATTTCTCCTCCTCCC
*
58501272 -GGCATTTCTCCTCCCCCC
1 AGG-ATTTCTCCTCCTCCC
*
58501290 AGGATTTCTCCTTCTCCC
1 AGGATTTCTCCTCCTCCC
**
58501308 ATTATTTCTCCT
1 AGGATTTCTCCT
58501320 TCCATGTTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
17 2 0.05
18 37 0.90
19 2 0.05
ACGTcount: A:0.11, C:0.42, G:0.09, T:0.38
Consensus pattern (18 bp):
AGGATTTCTCCTCCTCCC
Found at i:58503421 original size:14 final size:14
Alignment explanation
Indices: 58503401--58503438 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
58503391 GTTAAAAGCA
58503401 AATAAAAAATT-AG
1 AATAAAAAATTGAG
58503414 ATATAAAAAATTGAG
1 A-ATAAAAAATTGAG
58503429 AATTAAAAAA
1 AA-TAAAAAA
58503439 AAAATCCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 1 0.05
14 11 0.50
15 10 0.45
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (14 bp):
AATAAAAAATTGAG
Found at i:58503999 original size:31 final size:29
Alignment explanation
Indices: 58503960--58504029 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 29
58503950 TTAAATTAAT
*
58503960 AAAA-ATAAAATTAT-ACTTTGATCTCTTTA
1 AAAATATAAAATTATGA-TTTAATC-CTTTA
*
58503989 AAAATGATAAAATTTTGATTTAATCCTTTA
1 AAAAT-ATAAAATTATGATTTAATCCTTTA
58504019 AAAATATAAAA
1 AAAATATAAAA
58504030 ATACATATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
29 10 0.28
30 10 0.28
31 15 0.42
32 1 0.03
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (29 bp):
AAAATATAAAATTATGATTTAATCCTTTA
Found at i:58511438 original size:17 final size:17
Alignment explanation
Indices: 58511413--58511447 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
58511403 TAATCCACAA
58511413 ATTGGTATTTAAGCTAT
1 ATTGGTATTTAAGCTAT
*
58511430 ATTGTTATTTAAGCTAT
1 ATTGGTATTTAAGCTAT
58511447 A
1 A
58511448 CCCTTTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.14, T:0.49
Consensus pattern (17 bp):
ATTGGTATTTAAGCTAT
Found at i:58511785 original size:21 final size:21
Alignment explanation
Indices: 58511759--58511815 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
58511749 TTAAATCCTT
58511759 TTATTTTTCCTTCTTTTTTCA
1 TTATTTTTCCTTCTTTTTTCA
* * *
58511780 TTATTTAT-CTCTATTTTTTCT
1 TTATTTTTCCT-TCTTTTTTCA
*
58511801 TTATTTTTCTTTCTT
1 TTATTTTTCCTTCTT
58511816 CTTCCTATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
20 2 0.07
21 25 0.89
22 1 0.04
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.74
Consensus pattern (21 bp):
TTATTTTTCCTTCTTTTTTCA
Found at i:58517540 original size:20 final size:21
Alignment explanation
Indices: 58517497--58517554 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 21
58517487 GGATTAGTTC
*
58517497 AATCAAATATATTCAAATTAT
1 AATCAAATATATTAAAATTAT
* *
58517518 AATCAAA-ATTTTAAAATTTT
1 AATCAAATATATTAAAATTAT
**
58517538 AATTGAATA-ATTAAAAT
1 AATCAAATATATTAAAAT
58517555 ATTAATATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 22 0.73
21 8 0.27
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (21 bp):
AATCAAATATATTAAAATTAT
Found at i:58524310 original size:37 final size:34
Alignment explanation
Indices: 58524232--58524313 Score: 92
Period size: 34 Copynumber: 2.3 Consensus size: 34
58524222 TTTTTAGAAT
* * *
58524232 ATTTTAATAATTTTTTTCATGTTATTAATATATA
1 ATTTTAATAATTTTTTTCATGTAATCAATATAAA
* *
58524266 ATTTTAATAATTTTTTTTATGTGAATCAATTCTAAA
1 ATTTTAATAATTTTTTTCATGT-AATCAA-TATAAA
58524302 ATTGTTAATAAT
1 ATT-TTAATAAT
58524314 GAATTAACTT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
34 21 0.52
35 4 0.10
36 7 0.17
37 8 0.20
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.55
Consensus pattern (34 bp):
ATTTTAATAATTTTTTTCATGTAATCAATATAAA
Found at i:58528366 original size:20 final size:20
Alignment explanation
Indices: 58528341--58528382 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
58528331 AGTTTTTAGT
58528341 TTTAGG-ATTAGTAACTTTTA
1 TTTAGGAATTAG-AACTTTTA
*
58528361 TTTAGGAATTAGAATTTTTA
1 TTTAGGAATTAGAACTTTTA
58528381 TT
1 TT
58528383 ATTATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.52
Consensus pattern (20 bp):
TTTAGGAATTAGAACTTTTA
Found at i:58530526 original size:21 final size:21
Alignment explanation
Indices: 58530474--58530526 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
58530464 TATAATAGCA
*
58530474 AAACAACTA-CAAAACAATAAC
1 AAACAA-TAGCAAAACAACAAC
**
58530495 AAACAGCAGCAAAACAACAAC
1 AAACAATAGCAAAACAACAAC
58530516 AAACAATAGCA
1 AAACAATAGCA
58530527 GGGAAAATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.64, C:0.25, G:0.06, T:0.06
Consensus pattern (21 bp):
AAACAATAGCAAAACAACAAC
Found at i:58532460 original size:13 final size:13
Alignment explanation
Indices: 58532442--58532468 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
58532432 CCAACCCTTC
58532442 TTAAAATGAGAAA
1 TTAAAATGAGAAA
58532455 TTAAAATGAGAAA
1 TTAAAATGAGAAA
58532468 T
1 T
58532469 CTCATTTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (13 bp):
TTAAAATGAGAAA
Found at i:58533112 original size:23 final size:24
Alignment explanation
Indices: 58533068--58533112 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
58533058 ATATTTTTTT
* *
58533068 AATTTATATTTTCATTAATATTAA
1 AATTTATAATTTCATGAATATTAA
*
58533092 AATTT-TAATTTCATGACTATT
1 AATTTATAATTTCATGAATATT
58533113 TACATGTACT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (24 bp):
AATTTATAATTTCATGAATATTAA
Found at i:58545796 original size:51 final size:51
Alignment explanation
Indices: 58545715--58545815 Score: 157
Period size: 51 Copynumber: 2.0 Consensus size: 51
58545705 GCTTTCCCTG
* ** *
58545715 GTGGTTGGGGTGCTTCAGGAACTGAAAGTGGAGGTGGCAGTGGCAGTGGCA
1 GTGGCTGGGGTGCTTCAGGAACTGAAAGTGGAAATGGCAATGGCAGTGGCA
*
58545766 GTGGCTGGGGTGCTTCTGGAACTGAAAGTGGAAATGGCAATGGCAGTGGC
1 GTGGCTGGGGTGCTTCAGGAACTGAAAGTGGAAATGGCAATGGCAGTGGC
58545816 TGGGGTGGCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.21, C:0.13, G:0.45, T:0.22
Consensus pattern (51 bp):
GTGGCTGGGGTGCTTCAGGAACTGAAAGTGGAAATGGCAATGGCAGTGGCA
Found at i:58545864 original size:72 final size:72
Alignment explanation
Indices: 58545747--58545883 Score: 229
Period size: 72 Copynumber: 1.9 Consensus size: 72
58545737 TGAAAGTGGA
58545747 GGTGGCAGTGGCAGTGGCAGTGGCTGGGGTGCTTCTGGAACTGAAAGTGGAAATGGCAATGGCAG
1 GGTGGCAGTGGCAGTGGCAGTGGCTGGGGTGCTTCTGGAACTGAAAGTGGAAATGGCAATGGCAG
58545812 TGGCTGG
66 TGGCTGG
** * **
58545819 GGTGGCAGTGGTGGTGGCAGTGGTTGGGGTGCTTCTGGAACTGAAAGTGGAGGTGGCAATGGCAG
1 GGTGGCAGTGGCAGTGGCAGTGGCTGGGGTGCTTCTGGAACTGAAAGTGGAAATGGCAATGGCAG
58545884 CGGCAGTGGT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 60 1.00
ACGTcount: A:0.18, C:0.12, G:0.47, T:0.22
Consensus pattern (72 bp):
GGTGGCAGTGGCAGTGGCAGTGGCTGGGGTGCTTCTGGAACTGAAAGTGGAAATGGCAATGGCAG
TGGCTGG
Found at i:58545916 original size:72 final size:72
Alignment explanation
Indices: 58545747--58545918 Score: 193
Period size: 72 Copynumber: 2.4 Consensus size: 72
58545737 TGAAAGTGGA
* * * *
58545747 GGTGGCAGTGGCAGTGGCAGTGGCTGGGGTGCTTCTGGAACTGAAAGTGGAAATGGCAATGGCAG
1 GGTGGCAGTGGCGGTAGCAGAGGTTGGGGTGCTTCTGGAACTGAAAGTGGAAATGGCAATGGCAG
* *
58545812 TGGCTGG
66 CGGCAGG
* * * **
58545819 GGTGGCAGTGGTGGTGGCAGTGGTTGGGGTGCTTCTGGAACTGAAAGTGGAGGTGGCAATGGCAG
1 GGTGGCAGTGGCGGTAGCAGAGGTTGGGGTGCTTCTGGAACTGAAAGTGGAAATGGCAATGGCAG
58545884 CGGCAGTG
66 CGGCAG-G
* * **
58545892 GTTGG-GGTGGCGGTAGTGGAGGTTGGG
1 GGTGGCAGTGGCGGTAGCAGAGGTTGGG
58545919 ACCAAGCAAG
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
72 80 0.94
73 5 0.06
ACGTcount: A:0.16, C:0.12, G:0.50, T:0.22
Consensus pattern (72 bp):
GGTGGCAGTGGCGGTAGCAGAGGTTGGGGTGCTTCTGGAACTGAAAGTGGAAATGGCAATGGCAG
CGGCAGG
Found at i:58555866 original size:31 final size:31
Alignment explanation
Indices: 58555830--58555891 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
58555820 AGATAATTTT
58555830 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
58555861 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
58555892 TAATTTGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:58562046 original size:31 final size:31
Alignment explanation
Indices: 58562010--58562071 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
58562000 AGATAATTTT
58562010 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
58562041 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
58562072 TAATTTGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:58564964 original size:15 final size:15
Alignment explanation
Indices: 58564945--58564974 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
58564935 AACCTTTTAT
58564945 ATTTTT-TAATTTTG
1 ATTTTTATAATTTTG
58564959 ATTTTTATAATTTTG
1 ATTTTTATAATTTTG
58564974 A
1 A
58564975 ATTGTTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (15 bp):
ATTTTTATAATTTTG
Found at i:58576751 original size:61 final size:58
Alignment explanation
Indices: 58576685--58576796 Score: 152
Period size: 61 Copynumber: 1.9 Consensus size: 58
58576675 GATTATGTTA
* * * *
58576685 ATATTAAATTTAATTTAATGTTTAGCTTGTAAATAAATATTCTATTATTTTAATAAGATTT
1 ATATTAAATTTAATCTAATATTTAGC-T-T-AATAAATATTATATTATATTAATAAGATTT
*
58576746 ATATTAAATTTAATCTAATATTTATCTTAATAAATATTATATTATATTAAT
1 ATATTAAATTTAATCTAATATTTAGCTTAATAAATATTATATTATATTAAT
58576797 TTAATTTAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
58 21 0.46
59 1 0.02
60 1 0.02
61 23 0.50
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (58 bp):
ATATTAAATTTAATCTAATATTTAGCTTAATAAATATTATATTATATTAATAAGATTT
Found at i:58581277 original size:31 final size:32
Alignment explanation
Indices: 58581223--58581286 Score: 80
Period size: 35 Copynumber: 2.0 Consensus size: 32
58581213 TTTTAACTTT
58581223 TTTTATTTATTTTACATTATTTCTCTCTTTATATA
1 TTTTATTTATTTTA-ATTATTTCT-TCTTT-TATA
58581258 TTTTATTTA-TTT-ATT-TTTCTTCTTTTATA
1 TTTTATTTATTTTAATTATTTCTTCTTTTATA
58581287 ATGCCTAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 4 0.14
30 5 0.17
31 5 0.17
32 3 0.10
34 3 0.10
35 9 0.31
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.70
Consensus pattern (32 bp):
TTTTATTTATTTTAATTATTTCTTCTTTTATA
Found at i:58582284 original size:18 final size:18
Alignment explanation
Indices: 58582259--58582351 Score: 125
Period size: 18 Copynumber: 5.2 Consensus size: 18
58582249 ACCGTTTACG
58582259 GTACTATTCACGTATACA
1 GTACTATTCACGTATACA
* * *
58582277 GCACTATTTACGTATACG
1 GTACTATTCACGTATACA
58582295 GTACTATTCACGTATACA
1 GTACTATTCACGTATACA
*
58582313 GTACTATTCACATATAC-
1 GTACTATTCACGTATACA
*
58582330 GATACTGTTCACGTATACA
1 G-TACTATTCACGTATACA
58582349 GTA
1 GTA
58582352 GTTGGGATTG
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
17 1 0.02
18 62 0.97
19 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (18 bp):
GTACTATTCACGTATACA
Found at i:58582350 original size:36 final size:36
Alignment explanation
Indices: 58582255--58582351 Score: 149
Period size: 36 Copynumber: 2.7 Consensus size: 36
58582245 TACGACCGTT
* * *
58582255 TACGGTACTATTCACGTATACAGCACTATTTACGTA
1 TACGGTACTATTCACGTATACAGTACTATTCACATA
58582291 TACGGTACTATTCACGTATACAGTACTATTCACATA
1 TACGGTACTATTCACGTATACAGTACTATTCACATA
* *
58582327 TACGATACTGTTCACGTATACAGTA
1 TACGGTACTATTCACGTATACAGTA
58582352 GTTGGGATTG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACAGTACTATTCACATA
Found at i:58593549 original size:22 final size:22
Alignment explanation
Indices: 58593524--58593566 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
58593514 TTAAAATTTA
58593524 TTTAAAAAAATATTAAAAAATG
1 TTTAAAAAAATATTAAAAAATG
* * *
58593546 TTTATATAAATTTTAAAAAAT
1 TTTAAAAAAATATTAAAAAAT
58593567 AGCATGAAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
TTTAAAAAAATATTAAAAAATG
Found at i:58594306 original size:18 final size:19
Alignment explanation
Indices: 58594268--58594306 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
58594258 TTAAAAGATT
58594268 AAAAGACCAAACTTAACTA
1 AAAAGACCAAACTTAACTA
58594287 AAAAGGACCAAA-TTAA-TA
1 AAAA-GACCAAACTTAACTA
58594305 AA
1 AA
58594307 CGATATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 8 0.42
20 7 0.37
ACGTcount: A:0.62, C:0.15, G:0.08, T:0.15
Consensus pattern (19 bp):
AAAAGACCAAACTTAACTA
Found at i:58594868 original size:88 final size:88
Alignment explanation
Indices: 58594719--58594894 Score: 352
Period size: 88 Copynumber: 2.0 Consensus size: 88
58594709 AAAGCTTAGT
58594719 TTGGATGGACGGTGCGTTTACCTATGATTAGTGTAAAAATAACGGTGGTGGTGAGATTAGATATT
1 TTGGATGGACGGTGCGTTTACCTATGATTAGTGTAAAAATAACGGTGGTGGTGAGATTAGATATT
58594784 GTAACGACACTGTAATTTGAGAC
66 GTAACGACACTGTAATTTGAGAC
58594807 TTGGATGGACGGTGCGTTTACCTATGATTAGTGTAAAAATAACGGTGGTGGTGAGATTAGATATT
1 TTGGATGGACGGTGCGTTTACCTATGATTAGTGTAAAAATAACGGTGGTGGTGAGATTAGATATT
58594872 GTAACGACACTGTAATTTGAGAC
66 GTAACGACACTGTAATTTGAGAC
58594895 AAAGATAAAT
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.30, C:0.10, G:0.28, T:0.32
Consensus pattern (88 bp):
TTGGATGGACGGTGCGTTTACCTATGATTAGTGTAAAAATAACGGTGGTGGTGAGATTAGATATT
GTAACGACACTGTAATTTGAGAC
Found at i:58603375 original size:39 final size:39
Alignment explanation
Indices: 58603296--58603423 Score: 125
Period size: 45 Copynumber: 3.2 Consensus size: 39
58603286 ATTTGCCGGC
* *
58603296 TTACTG-ATCAGGCAC-TTATGTGCCGACTACTGTTACTG
1 TTACTGAATC-GGCACTTTATGTGTCGAATACTGTTACTG
*
58603334 TTACTGAATCGGCACTTTTTGTGTCGAATACTGTTACTG
1 TTACTGAATCGGCACTTTATGTGTCGAATACTGTTACTG
* * *
58603373 TTACTGTTACCGATTCGGCACTTTGTGTGTCAAATACTGTTACCG
1 TTACTG--A---A-TCGGCACTTTATGTGTCGAATACTGTTACTG
58603418 TTACTG
1 TTACTG
58603424 TTACAGATTC
Statistics
Matches: 76, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
38 11 0.14
39 29 0.38
41 1 0.01
44 1 0.01
45 34 0.45
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.38
Consensus pattern (39 bp):
TTACTGAATCGGCACTTTATGTGTCGAATACTGTTACTG
Found at i:58603391 original size:45 final size:45
Alignment explanation
Indices: 58603323--58603467 Score: 191
Period size: 45 Copynumber: 3.2 Consensus size: 45
58603313 ATGTGCCGAC
* * *
58603323 TACTGTTACTGTTACTGAATCGGCACTTTTTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
* *
58603368 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCAAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
* ** * *
58603413 TACCGTTACTGTTACAGATTCAACACTTTGTGTGTTGAATACTAT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
*
58603458 TATTGTTACT
1 TACTGTTACT
58603468 TCTACTGTTA
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 87 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (45 bp):
TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
Found at i:58604445 original size:4 final size:4
Alignment explanation
Indices: 58604436--58604469 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
58604426 AATATAATGG
* *
58604436 ATAA ATAA ATAA GTAA ATAA ATAA ATGA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT
58604470 GAATCAAGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:58609782 original size:15 final size:15
Alignment explanation
Indices: 58609764--58609792 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
58609754 ACATTTTATA
58609764 TTTTATAATTTTGAT
1 TTTTATAATTTTGAT
58609779 TTTTATAATTTTGA
1 TTTTATAATTTTGA
58609793 ATTGTTTAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (15 bp):
TTTTATAATTTTGAT
Found at i:58610158 original size:27 final size:25
Alignment explanation
Indices: 58610113--58610164 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
58610103 TGTTTTTAAA
*
58610113 TTTATAATACTTATATTATGTTATT
1 TTTATAATACTTATATTATCTTATT
58610138 TTTAT-ATACTATATAAGTTATCTTATT
1 TTTATAATACT-TAT-A-TTATCTTATT
58610165 GATAAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 5 0.22
25 8 0.35
26 1 0.04
27 9 0.39
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.58
Consensus pattern (25 bp):
TTTATAATACTTATATTATCTTATT
Found at i:58611106 original size:13 final size:13
Alignment explanation
Indices: 58611076--58611100 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58611066 GATTCATACA
58611076 AAAAAATAAAAAT
1 AAAAAATAAAAAT
58611089 AAAAAATAAAAA
1 AAAAAATAAAAA
58611101 ACAAAAGTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:58617885 original size:34 final size:34
Alignment explanation
Indices: 58617842--58617909 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
58617832 CCATGTCCTA
*
58617842 GACATGGTCTTATAGGGGACCTCTCATCTCGGTG
1 GACATGGTCTTACAGGGGACCTCTCATCTCGGTG
* *
58617876 GACATGGTCTTACATGGGACCTCTCATCTTGGTG
1 GACATGGTCTTACAGGGGACCTCTCATCTCGGTG
58617910 CCAATGCCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.18, C:0.24, G:0.28, T:0.31
Consensus pattern (34 bp):
GACATGGTCTTACAGGGGACCTCTCATCTCGGTG
Found at i:58617951 original size:50 final size:50
Alignment explanation
Indices: 58617876--58617999 Score: 230
Period size: 50 Copynumber: 2.5 Consensus size: 50
58617866 CATCTCGGTG
*
58617876 GACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAATGCCATGTCCCA
1 GACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATGTCCCA
*
58617926 GACATGGTCTTACATGAGACCTCTCATCTCGGTGCCAATGCCATGTCCCA
1 GACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATGTCCCA
58617976 GACATGGTCTTACATGGGACCTCT
1 GACATGGTCTTACATGGGACCTCT
58618000 TTACCCAAAT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 71 1.00
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (50 bp):
GACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATGTCCCA
Found at i:58618115 original size:13 final size:13
Alignment explanation
Indices: 58618094--58618123 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
58618084 GCTTGGATCA
58618094 TCATCAAATAAAT
1 TCATCAAATAAAT
*
58618107 TCATGAAATAAAT
1 TCATCAAATAAAT
58618120 TCAT
1 TCAT
58618124 AGTTTTTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.33
Consensus pattern (13 bp):
TCATCAAATAAAT
Found at i:58618372 original size:30 final size:29
Alignment explanation
Indices: 58618337--58618393 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
58618327 CCTCGACTCT
*
58618337 AACTTTTTCAAAATTACACTTTTTCCCCTA
1 AACTTTTACAAAATTACA-TTTTTCCCCTA
*
58618367 AACTTTTACATAATTACATTTTTCCCC
1 AACTTTTACAAAATTACATTTTTCCCC
58618394 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.44
Consensus pattern (29 bp):
AACTTTTACAAAATTACATTTTTCCCCTA
Found at i:58625531 original size:3 final size:3
Alignment explanation
Indices: 58625525--58625549 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
58625515 AAAAATGAAA
58625525 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
58625550 TAGTTTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:58627385 original size:250 final size:248
Alignment explanation
Indices: 58626893--58627391 Score: 971
Period size: 250 Copynumber: 2.0 Consensus size: 248
58626883 TCGTCCGAGA
58626893 TACTCTAGAATTCAACATTAAAGACTGAATAAATATCTAAATTATGATTGAACCCGACAATTTAA
1 TACTCTAGAATTCAACATTAAAGACTGAATAAATATCTAAATTATGATTGAACCCGACAATTTAA
58626958 TCTTGCCAATTTTTATTATTAAATTTTACCATTTACTTTTGTATTATTTATAAATTTTAAGTCCA
66 TCTTGCCAATTTTTATTATTAAATTTTACCATTTACTTTTGTATTATTTATAAATTTTAAGTCCA
58627023 GCTTTATAAAAAATATCATTTTAGTTCTTCATTTAATTTTATCTCTTTTTAACCCTTAAACTTAT
131 GCTTTATAAAAAATATCATTTTAGTTCTTCATTTAATTTTATCTCTTTTTAACCCTTAAACTTAT
*
58627088 GTTGTTTGTCAAATTGTCTCAAAATAAATAAAATAAATTAATATCTATTAACT
196 GTTGTTTGTCAAATTGTCCCAAAATAAATAAAATAAATTAATATCTATTAACT
58627141 TACTCTAGAATTCAACATTAAAGACTGAATAAATATCTAAATTATGATTGAACCCGACAATTTAA
1 TACTCTAGAATTCAACATTAAAGACTGAATAAATATCTAAATTATGATTGAACCCGACAATTTAA
58627206 TCTTGCCAATTTTTATTATTAAATTTTACCATTTACTTTTTGTATTATTTATAAATTTTAAGTCC
66 TCTTGCCAATTTTTATTATTAAATTTTACCATTTAC-TTTTGTATTATTTATAAATTTTAAGTCC
58627271 AGCTTTATAAAAAAATATCATTTTAGTTCTTCATTTAATTTTATCTCTTTTTAACCCTTAAACTT
130 AGCTTTAT-AAAAAATATCATTTTAGTTCTTCATTTAATTTTATCTCTTTTTAACCCTTAAACTT
58627336 ATGTTGTTTGTCAAATTGTCCCAAAATAAATAAAATAAATTAATATCTATTAACT
194 ATGTTGTTTGTCAAATTGTCCCAAAATAAATAAAATAAATTAATATCTATTAACT
58627391 T
1 T
58627392 TGTTGACACA
Statistics
Matches: 248, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
248 101 0.41
249 36 0.15
250 111 0.45
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (248 bp):
TACTCTAGAATTCAACATTAAAGACTGAATAAATATCTAAATTATGATTGAACCCGACAATTTAA
TCTTGCCAATTTTTATTATTAAATTTTACCATTTACTTTTGTATTATTTATAAATTTTAAGTCCA
GCTTTATAAAAAATATCATTTTAGTTCTTCATTTAATTTTATCTCTTTTTAACCCTTAAACTTAT
GTTGTTTGTCAAATTGTCCCAAAATAAATAAAATAAATTAATATCTATTAACT
Found at i:58627491 original size:18 final size:18
Alignment explanation
Indices: 58627439--58627507 Score: 63
Period size: 18 Copynumber: 3.8 Consensus size: 18
58627429 CTTAATTCTT
58627439 TTTACAAAATTA-AAAAAA
1 TTTA-AAAATTATAAAAAA
* *
58627457 TTCTGAAACATTA-AAAAAGC
1 TT-T-AAAAATTATAAAAA-A
58627477 TTT-AAAATTATAAAAAA
1 TTTAAAAATTATAAAAAA
58627494 TTTAAAAATTATAA
1 TTTAAAAATTATAA
58627508 GTTTTATTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
17 9 0.21
18 17 0.40
19 13 0.31
20 3 0.07
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (18 bp):
TTTAAAAATTATAAAAAA
Found at i:58630042 original size:7 final size:7
Alignment explanation
Indices: 58630030--58630060 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
58630020 AATATTTTTA
58630030 AAAAATT
1 AAAAATT
58630037 AAAAATT
1 AAAAATT
58630044 AAAAATT
1 AAAAATT
58630051 AAAAATT
1 AAAAATT
58630058 AAA
1 AAA
58630061 TTTTTTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAAATT
Found at i:58635636 original size:40 final size:41
Alignment explanation
Indices: 58635581--58635691 Score: 154
Period size: 40 Copynumber: 2.8 Consensus size: 41
58635571 CTTTTTGGGC
*
58635581 TTTAGCGGCGTTTTTGAAAAAGCGCTGCTAATGCTCG-GGA
1 TTTAGCGGCGTTTTTGAAAAAGCGCAGCTAATGCTCGAGGA
* * * *
58635621 TTTAGTGGCGTTTTTG-AAATGCGCCGCTAATGCTCGAGGT
1 TTTAGCGGCGTTTTTGAAAAAGCGCAGCTAATGCTCGAGGA
*
58635661 TTTAGCGACGTTTTTGAAAAAGCGCAGCTAA
1 TTTAGCGGCGTTTTTGAAAAAGCGCAGCTAA
58635692 AAATATTTTA
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
39 18 0.30
40 31 0.51
41 12 0.20
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAAAAAGCGCAGCTAATGCTCGAGGA
Found at i:58636043 original size:22 final size:21
Alignment explanation
Indices: 58636018--58636067 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
58636008 GAGTTACTAT
*
58636018 TTTAAGGTTTAGGGAGTATGG
1 TTTAAGGATTAGGGAGTATGG
* * *
58636039 ATTTAGGGATTATGGATTATGG
1 -TTTAAGGATTAGGGAGTATGG
58636061 TTTAAGG
1 TTTAAGG
58636068 GTTGAGATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.26, C:0.00, G:0.34, T:0.40
Consensus pattern (21 bp):
TTTAAGGATTAGGGAGTATGG
Found at i:58636045 original size:15 final size:15
Alignment explanation
Indices: 58636025--58636056 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
58636015 TATTTTAAGG
58636025 TTTAGGGAGTATGGA
1 TTTAGGGAGTATGGA
*
58636040 TTTAGGGATTATGGA
1 TTTAGGGAGTATGGA
58636055 TT
1 TT
58636057 ATGGTTTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.34, T:0.41
Consensus pattern (15 bp):
TTTAGGGAGTATGGA
Found at i:58636107 original size:21 final size:22
Alignment explanation
Indices: 58636083--58636126 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
58636073 GATTTAAGAT
*
58636083 TTAAGGGTTAGGG-GTTAGGGG
1 TTAAGAGTTAGGGAGTTAGGGG
*
58636104 TTAAGAGTTAGGGATTTAGGGG
1 TTAAGAGTTAGGGAGTTAGGGG
58636126 T
1 T
58636127 CGGGTTAGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.23, C:0.00, G:0.45, T:0.32
Consensus pattern (22 bp):
TTAAGAGTTAGGGAGTTAGGGG
Found at i:58638650 original size:14 final size:14
Alignment explanation
Indices: 58638631--58638662 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
58638621 TATGAATTCT
58638631 GTAAAACTTTTATA
1 GTAAAACTTTTATA
*
58638645 GTAAAACTTTTGTA
1 GTAAAACTTTTATA
58638659 GTAA
1 GTAA
58638663 GCAGCAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (14 bp):
GTAAAACTTTTATA
Found at i:58641020 original size:43 final size:43
Alignment explanation
Indices: 58640952--58641118 Score: 217
Period size: 43 Copynumber: 3.9 Consensus size: 43
58640942 ATTCTTTATA
* * *
58640952 GTGGTAGAAGTGTCATTAAATGTCATGATTTTTAGCGGTGTTT
1 GTGGTAGAAGTGTCACTAAAGGTCATGATCTTTAGCGGTGTTT
**
58640995 GTGGTAGAAGTGTCACTAAAGGTCATGATCTTTAGCGACGTTT
1 GTGGTAGAAGTGTCACTAAAGGTCATGATCTTTAGCGGTGTTT
* * * * * *
58641038 GTGATAAAAGCGTCGCTAAAGATCATGATCTTTAGCGGTGTCT
1 GTGGTAGAAGTGTCACTAAAGGTCATGATCTTTAGCGGTGTTT
* *
58641081 ATGGTAGAAGAGTCACTAAAGGTCATGATCTTTAGCGG
1 GTGGTAGAAGTGTCACTAAAGGTCATGATCTTTAGCGG
58641119 CATTTTTTCA
Statistics
Matches: 105, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 105 1.00
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (43 bp):
GTGGTAGAAGTGTCACTAAAGGTCATGATCTTTAGCGGTGTTT
Found at i:58643847 original size:2 final size:2
Alignment explanation
Indices: 58643840--58643866 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
58643830 GAATATGTAC
58643840 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
58643867 AATGTACATC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:58644250 original size:41 final size:41
Alignment explanation
Indices: 58644192--58644373 Score: 319
Period size: 41 Copynumber: 4.4 Consensus size: 41
58644182 GACTTTAAGT
**
58644192 CTAGCAGGCTAATTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
58644233 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
58644274 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
58644315 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
*
58644356 CTAGCAGGCTATGTGCCG
1 CTAGCAGGCTACGTGCCG
58644374 TTGAATCGGT
Statistics
Matches: 136, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 136 1.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:58645600 original size:18 final size:18
Alignment explanation
Indices: 58645579--58645620 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
58645569 GCATAAGATC
* *
58645579 TATTTTTCTTTTTTTATT
1 TATTTTTATTTTTCTATT
*
58645597 TATTTTTATTTTTCTCTT
1 TATTTTTATTTTTCTATT
58645615 TATTTT
1 TATTTT
58645621 CCTTCCTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.81
Consensus pattern (18 bp):
TATTTTTATTTTTCTATT
Found at i:58646423 original size:19 final size:20
Alignment explanation
Indices: 58646399--58646446 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
58646389 CTTATTATCT
*
58646399 TATTTATATTTTC-TTTTTA
1 TATTTATATTTTCATTATTA
* *
58646418 TATTTATCTATTCATTATTA
1 TATTTATATTTTCATTATTA
58646438 TA-TTATATT
1 TATTTATATT
58646447 ATTAGTTTTG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (20 bp):
TATTTATATTTTCATTATTA
Found at i:58646449 original size:3 final size:3
Alignment explanation
Indices: 58646421--58646499 Score: 63
Period size: 3 Copynumber: 25.7 Consensus size: 3
58646411 CTTTTTATAT
*
58646421 TTA TCTA TTCA TTA TTA -TA TTA -TA TTA TTA GTTT TGTA TTA TTA TTA
1 TTA T-TA TT-A TTA TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA
* * * *
58646468 TAA TCA TTA TCA TTA TCA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
58646500 TACTCATTTA
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
2 4 0.07
3 47 0.77
4 10 0.16
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:58646651 original size:23 final size:24
Alignment explanation
Indices: 58646610--58646659 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
58646600 ATGTACTTTC
58646610 TATATTTTATAATACATATATAAA
1 TATATTTTATAATACATATATAAA
* *
58646634 TATATTTT-TAATATATATATATA
1 TATATTTTATAATACATATATAAA
58646657 TAT
1 TAT
58646660 CAATATACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
TATATTTTATAATACATATATAAA
Found at i:58646664 original size:29 final size:29
Alignment explanation
Indices: 58646617--58646676 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
58646607 TTCTATATTT
58646617 TATAATACATATATAAATAT-ATTTTTAA
1 TATAATACATATATAAATATAATTTTTAA
* *
58646645 TATATATATATATATCAATATACATTTTTAA
1 TATA-ATACATATATAAATATA-ATTTTTAA
58646676 T
1 T
58646677 TTTTATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 4 0.15
29 14 0.52
31 9 0.33
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (29 bp):
TATAATACATATATAAATATAATTTTTAA
Found at i:58646675 original size:31 final size:28
Alignment explanation
Indices: 58646617--58646676 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 28
58646607 TTCTATATTT
*
58646617 TATAATACATATATAAATATATTTTTAA
1 TATAATACATATATAAATACATTTTTAA
*
58646645 TATATATATATATATCAATATACATTTTTAA
1 TATA-ATACATATAT-AA-ATACATTTTTAA
58646676 T
1 T
58646677 TTTTATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 4 0.15
29 9 0.33
30 2 0.07
31 12 0.44
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (28 bp):
TATAATACATATATAAATACATTTTTAA
Found at i:58646697 original size:31 final size:31
Alignment explanation
Indices: 58646614--58646697 Score: 73
Period size: 31 Copynumber: 2.7 Consensus size: 31
58646604 ACTTTCTATA
* *
58646614 TTTTAT-AATACATATATAAATATATTTTTAAT
1 TTTTATAAATACACATAT--ATACATTTTTAAT
* * * *
58646646 ATATATATATATATCA-ATATACATTTTTAAT
1 TTTTATAAATACA-CATATATACATTTTTAAT
58646677 TTTTATAAATACACATATATA
1 TTTTATAAATACACATATATA
58646698 TGCCTACAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 7
0.70 0.18 0.12
Matches are distributed among these distances:
30 2 0.05
31 26 0.67
32 4 0.10
33 6 0.15
34 1 0.03
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (31 bp):
TTTTATAAATACACATATATACATTTTTAAT
Found at i:58646746 original size:22 final size:22
Alignment explanation
Indices: 58646716--58646759 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
58646706 ATTACGCTTT
58646716 TATATATATTACAATTTATATACG
1 TATATATA-TA-AATTTATATACG
*
58646740 TATATATATATATTTATATA
1 TATATATATAAATTTATATA
58646760 TATATCCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 2 0.11
24 8 0.42
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (22 bp):
TATATATATAAATTTATATACG
Found at i:58652632 original size:19 final size:19
Alignment explanation
Indices: 58652590--58652632 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
58652580 GAAAAGAGTT
*
58652590 AAAATGATGTTTTTGTTAT
1 AAAATGATGTTTTTGTTAA
*
58652609 TAAATGATGTTTTT-TTAGA
1 AAAATGATGTTTTTGTTA-A
58652628 AAAAT
1 AAAAT
58652633 CCTCAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (19 bp):
AAAATGATGTTTTTGTTAA
Found at i:58656666 original size:3 final size:3
Alignment explanation
Indices: 58656616--58656653 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
58656606 TAAAATGCAC
58656616 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
58656654 TGATGCAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:58664791 original size:21 final size:21
Alignment explanation
Indices: 58664765--58664805 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
58664755 ATCTGCTCAA
* *
58664765 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
58664786 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
58664806 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:58672103 original size:12 final size:12
Alignment explanation
Indices: 58672088--58672129 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
58672078 GCATTATTTA
58672088 AAATTAAAAATT
1 AAATTAAAAATT
58672100 AAATTAAAAATT
1 AAATTAAAAATT
58672112 CAAA--AAAAATAT
1 -AAATTAAAAAT-T
58672124 AAATTA
1 AAATTA
58672130 TTTCAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
11 9 0.35
12 13 0.50
13 4 0.15
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (12 bp):
AAATTAAAAATT
Found at i:58672119 original size:29 final size:29
Alignment explanation
Indices: 58672087--58672149 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
58672077 TGCATTATTT
*
58672087 AAAATTAAAAATTAAATT-AAAAATTCAAA
1 AAAAATAAAAATT-AATTCAAAAATTCAAA
* *
58672116 AAAAATATAAATTATTTCAAAAATTCAAA
1 AAAAATAAAAATTAATTCAAAAATTCAAA
58672145 AAAAA
1 AAAAA
58672150 AAGTAATAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 3 0.10
29 27 0.90
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (29 bp):
AAAAATAAAAATTAATTCAAAAATTCAAA
Found at i:58674913 original size:17 final size:17
Alignment explanation
Indices: 58674866--58674913 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
58674856 TGATTTGATA
58674866 AAAAATAAATATAATATT
1 AAAAATAAATA-AATATT
**
58674884 AAATTTAAATAAATATT
1 AAAAATAAATAAATATT
*
58674901 AAAAATAATTAAA
1 AAAAATAAATAAA
58674914 AAATAATAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 16 0.64
18 9 0.36
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAAATAAATAAATATT
Found at i:58675852 original size:19 final size:19
Alignment explanation
Indices: 58675806--58675861 Score: 94
Period size: 21 Copynumber: 2.8 Consensus size: 19
58675796 AATCTTTAAG
58675806 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
58675825 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
58675846 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
58675862 AGATATGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.46
21 19 0.54
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:58675883 original size:23 final size:22
Alignment explanation
Indices: 58675806--58675884 Score: 78
Period size: 19 Copynumber: 3.7 Consensus size: 22
58675796 AATCTTTAAG
*
58675806 GATATGCAATCTTAG-ATATGAT
1 GATATGCAATCTTAGAAGAT-AT
58675828 -ATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
58675846 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
58675868 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
58675885 GATTTAATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
18 2 0.04
19 15 0.31
21 12 0.24
22 8 0.16
23 12 0.24
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:58678875 original size:5 final size:5
Alignment explanation
Indices: 58678867--58678892 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
58678857 GAGATGGAAT
58678867 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
58678893 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:58690274 original size:3 final size:3
Alignment explanation
Indices: 58690266--58690309 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
58690256 TGGTTGGTTT
58690266 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
58690310 TATTAGATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:58690365 original size:13 final size:13
Alignment explanation
Indices: 58690347--58690394 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
58690337 TCTTCATTAT
58690347 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
58690360 TTTTGAAAAGTG-
1 TTTTGAAAAGTGC
* *
58690372 TTCTGGAGAAGTGC
1 TT-TTGAAAAGTGC
58690386 TTTTGAAAA
1 TTTTGAAAA
58690395 ATTTGAGTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 2 0.07
13 25 0.86
14 2 0.07
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:58699122 original size:48 final size:48
Alignment explanation
Indices: 58699070--58699213 Score: 161
Period size: 48 Copynumber: 3.0 Consensus size: 48
58699060 GAAAAACAAT
*
58699070 GGACGAGATTTTGGGGTTTTCAAGCAATGAAAAGATTGAGAAA-AAAAG
1 GGACGAGATTTTGGGG-TTTCAAGCAAAGAAAAGATTGAGAAAGAAAAG
* * *
58699118 GGACGGGATTTTGGGGTTTCAATCAAAGAAAAGTCTTGA-AAAGAAAAG
1 GGACGAGATTTTGGGGTTTCAAGCAAAGAAAAG-ATTGAGAAAGAAAAG
* *
58699166 GGA-AATG-TTTTGGGGGGTTTCTAGCAAAGAAAAGATTGAGAAAGAAAA
1 GGACGA-GATTTT--GGGGTTTCAAGCAAAGAAAAGATTGAGAAAGAAAA
58699214 TAATTCGTCC
Statistics
Matches: 81, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
47 22 0.27
48 32 0.40
49 27 0.33
ACGTcount: A:0.41, C:0.06, G:0.30, T:0.23
Consensus pattern (48 bp):
GGACGAGATTTTGGGGTTTCAAGCAAAGAAAAGATTGAGAAAGAAAAG
Found at i:58700728 original size:17 final size:17
Alignment explanation
Indices: 58700708--58700747 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
58700698 TATTATTTCT
*
58700708 TTTTTACTTTGTTTAAA
1 TTTTAACTTTGTTTAAA
* *
58700725 TTTTAATTTTTTTTAAA
1 TTTTAACTTTGTTTAAA
58700742 TTTTAA
1 TTTTAA
58700748 ACTCTTTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTTAACTTTGTTTAAA
Found at i:58701053 original size:29 final size:29
Alignment explanation
Indices: 58701020--58701094 Score: 114
Period size: 29 Copynumber: 2.6 Consensus size: 29
58701010 GAATGCCTTA
* *
58701020 AAACACACAGACATACGATAGTAATAAGC
1 AAACACACACACAGACGATAGTAATAAGC
*
58701049 AAACACACACACAGAGGATAGTAATAAGC
1 AAACACACACACAGACGATAGTAATAAGC
*
58701078 AAACAGACACACAGACG
1 AAACACACACACAGACG
58701095 CAGTAATGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.52, C:0.23, G:0.16, T:0.09
Consensus pattern (29 bp):
AAACACACACACAGACGATAGTAATAAGC
Found at i:58702725 original size:6 final size:6
Alignment explanation
Indices: 58702714--58702753 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
58702704 TATATTACAA
58702714 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
58702754 TAATTATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:58704205 original size:14 final size:14
Alignment explanation
Indices: 58704186--58704212 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
58704176 AATATATCGC
58704186 AAAGAAAAATAAAA
1 AAAGAAAAATAAAA
58704200 AAAGAAAAATAAA
1 AAAGAAAAATAAA
58704213 GAACACACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.07, T:0.07
Consensus pattern (14 bp):
AAAGAAAAATAAAA
Found at i:58704621 original size:29 final size:29
Alignment explanation
Indices: 58704554--58704611 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
58704544 AATTCTTAAT
*
58704554 GAACAAGTTCTTCATCGCGAACTTTCAAC
1 GAACAAGTTTTTCATCGCGAACTTTCAAC
58704583 GAACAAGTTTTTCATCGCGAACTTTCAAC
1 GAACAAGTTTTTCATCGCGAACTTTCAAC
58704612 TTAAGGGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (29 bp):
GAACAAGTTTTTCATCGCGAACTTTCAAC
Found at i:58709084 original size:3 final size:3
Alignment explanation
Indices: 58709076--58709110 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
58709066 GAGTATAAAC
58709076 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
58709111 TTGAAAACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:58709221 original size:12 final size:12
Alignment explanation
Indices: 58709201--58709233 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
58709191 CTAAAAAAGA
58709201 AATATATAATAT
1 AATATATAATAT
58709213 -ATAATATAATAT
1 AAT-ATATAATAT
58709225 AATATATAA
1 AATATATAA
58709234 AAAGGTAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.11
12 15 0.79
13 2 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AATATATAATAT
Found at i:58710446 original size:14 final size:14
Alignment explanation
Indices: 58710420--58710447 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
58710410 GTTATTGGGC
58710420 TAATTGTTTTGGTT
1 TAATTGTTTTGGTT
58710434 TAATTGTTTTGGTT
1 TAATTGTTTTGGTT
58710448 CCTTGGGCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.21, T:0.64
Consensus pattern (14 bp):
TAATTGTTTTGGTT
Found at i:58710879 original size:18 final size:20
Alignment explanation
Indices: 58710858--58710903 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
58710848 AATGTAAAAA
58710858 AAAAAATGAA-TG-AAAATG
1 AAAAAATGAATTGAAAAATG
58710876 AAAAAA--AATTGAAAAATG
1 AAAAAATGAATTGAAAAATG
58710894 AAAAAATGAA
1 AAAAAATGAA
58710904 AAGTAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
16 2 0.08
17 2 0.08
18 18 0.75
20 2 0.08
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (20 bp):
AAAAAATGAATTGAAAAATG
Found at i:58710905 original size:24 final size:22
Alignment explanation
Indices: 58710844--58710905 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 22
58710834 TGAGTCAAGA
*
58710844 AAAAAATGTAAAAAAAAAAATG
1 AAAAAATGAAAAAAAAAAAATG
58710866 AATGAAAATGAAAAAAAATTGAAAAATG
1 AA--AAAATG-AAAAAAA---AAAAATG
58710894 AAAAAATGAAAA
1 AAAAAATGAAAA
58710906 GTAAAAATGG
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
22 2 0.06
24 6 0.18
25 10 0.30
26 6 0.18
28 9 0.27
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (22 bp):
AAAAAATGAAAAAAAAAAAATG
Found at i:58712168 original size:46 final size:46
Alignment explanation
Indices: 58712101--58712818 Score: 1035
Period size: 46 Copynumber: 15.6 Consensus size: 46
58712091 AACAGATCAA
* * * *
58712101 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAAAT
1 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
* * * * * *
58712147 CGAAGATAGTAGATCTTGTCTTCCTGTATTTGGCAACGAAGGAGAT
1 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
* * * *
58712193 CGAAGATAGCAGATCTTATCTTCCTGTATTCGGCAGCGGAGGAGAT
1 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
*
58712239 CAAAGATATAGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
1 CGAAGA-A-AGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
*
58712287 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGTGGAGTAGAT
1 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
* * *
58712333 CAAAGAAAGCAGATCTTTTCTTCCTGTATTAGGCAGTGGAGTAGAT
1 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
* *
58712379 CAAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGCAGAGTAGAT
1 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
* *
58712425 CGAAGAAAGCAGATCTTGTCTTCCTATATTAGGCAGCGAAGTAGAT
1 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
*
58712471 CGAAGAAAGCAGATCTTGTCTTCTTGTATTAGGCAGCGGAGTAGAT
1 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
*
58712517 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGTAGCGGAGTAGAT
1 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
* *
58712563 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCATCAGAGTAGAT
1 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
* * *
58712609 CGAAGGAAGCAGATCTTGTCTTCTTGTATTAGGCAGTGGAGTAGAT
1 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
*
58712655 CGAAGATATAACAGATCTTGTCTTCCTGTATTA-G-AGCGGAGTAGAT
1 CGAAGA-A-AGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
*
58712701 CGAAGAAAGCAGATCTTGTCTTCCTATATTAGGCAGCGGAGTAGAT
1 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
* * * *
58712747 CGAAGAAAGTAGATCTTGTCTTCCTGTATTAGGTAGTGAAGTAGAT
1 CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
* * *
58712793 CGAAGATAGTAGATCTTGCCTTCCTG
1 CGAAGAAAGCAGATCTTGTCTTCCTG
58712819 CCTTGACAGC
Statistics
Matches: 615, Mismatches: 51, Indels: 12
0.91 0.08 0.02
Matches are distributed among these distances:
44 22 0.04
45 2 0.00
46 525 0.85
47 3 0.00
48 63 0.10
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (46 bp):
CGAAGAAAGCAGATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGAT
Found at i:58712895 original size:88 final size:88
Alignment explanation
Indices: 58712803--58713117 Score: 540
Period size: 88 Copynumber: 3.6 Consensus size: 88
58712793 CGAAGATAGT
*
58712803 AGATCTTGCCTTCCTGCCTTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
58712868 TAGTGGAGCTGGTTGAAGACAAC
66 TAGTGGAGCTGGTTGAAGACAAC
58712891 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
58712956 TAGTGGAGCTGGTTGAAGACAAC
66 TAGTGGAGCTGGTTGAAGACAAC
* * *
58712979 AGATCTTGCCTTCATGCATTGACAGCGAAGCAGATCAAAGACACAAACCTTGCCTCTCTCGGTAG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
** * *
58713044 TAACGGAGCTAGTTGAAGATAAC
66 TAGTGGAGCTGGTTGAAGACAAC
* *
58713067 AAATCTTGCCTTCCTGCATTGACAGCGAAGCATATCGAAGACACAAACCTT
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTT
58713118 ATCTCCCTAA
Statistics
Matches: 215, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 215 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (88 bp):
AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
TAGTGGAGCTGGTTGAAGACAAC
Found at i:58713031 original size:44 final size:43
Alignment explanation
Indices: 58712807--58713117 Score: 188
Period size: 44 Copynumber: 7.1 Consensus size: 43
58712797 GATAGTAGAT
*
58712807 CTTGCCTTCCTGCCTTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTT-CTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
* * * * * * * * *
58712851 CTTGCCTCTCT-CGGTTG-TAGTGGAGCTGGTTGAAGACAACAGAT
1 CTTGCCT-TCTGC-ATTGACAGCGAAGCAGATCGAAGAC-ACAAAC
58712895 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTT-CTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
* * * * * * * * *
58712939 CTTGCCTCTCT-CGGTTG-TAGTGGAGCTGGTTGAAGACAACAGAT
1 CTTGCCT-TCTGC-ATTGACAGCGAAGCAGATCGAAGAC-ACAAAC
*
58712983 CTTGCCTTCATGCATTGACAGCGAAGCAGATCAAAGACACAAAC
1 CTTGCCTTC-TGCATTGACAGCGAAGCAGATCGAAGACACAAAC
* * * * * *
58713027 CTTGCCTCTCT-CGGTAGTA-A-CGGAGCTAG-TTGAAGATAACAAAT
1 CTTGCCT-TCTGC-ATTG-ACAGCGAAGC-AGATCGAAGA-CACAAAC
*
58713071 CTTGCCTTCCTGCATTGACAGCGAAGCATATCGAAGACACAAAC
1 CTTGCCTT-CTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
58713115 CTT
1 CTT
58713118 ATCTCCCTAA
Statistics
Matches: 194, Mismatches: 51, Indels: 44
0.67 0.18 0.15
Matches are distributed among these distances:
43 46 0.24
44 102 0.53
45 46 0.24
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (43 bp):
CTTGCCTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
Found at i:58713448 original size:14 final size:14
Alignment explanation
Indices: 58713415--58713442 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
58713405 GGGCCCAAGG
58713415 AACCAAAACAATTA
1 AACCAAAACAATTA
58713429 AACCAAAACAATTA
1 AACCAAAACAATTA
58713443 GCCCAATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.21, G:0.00, T:0.14
Consensus pattern (14 bp):
AACCAAAACAATTA
Found at i:58714645 original size:12 final size:12
Alignment explanation
Indices: 58714630--58714662 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
58714620 CATTACCTTT
58714630 TTATATATTATA
1 TTATATATTATA
58714642 TTATAT-TATATA
1 TTATATAT-TATA
58714654 TTATATATT
1 TTATATATT
58714663 TCTTTTTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 1 0.05
12 17 0.89
13 1 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTATATATTATA
Found at i:58714763 original size:3 final size:3
Alignment explanation
Indices: 58714755--58714801 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
58714745 ATGATTTCAA
58714755 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
58714802 GTTTATACTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:58716859 original size:7 final size:6
Alignment explanation
Indices: 58716829--58716858 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
58716819 TATCGCAAAG
58716829 AAAAAT AAAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT -AAAAAT AAAAAT AAAAAT AAAAA
58716859 ACACACAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:58719844 original size:14 final size:14
Alignment explanation
Indices: 58719825--58719855 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
58719815 CTAACACTTG
58719825 TAAATGCTAACTGC
1 TAAATGCTAACTGC
*
58719839 TAAATGCTAATTGC
1 TAAATGCTAACTGC
58719853 TAA
1 TAA
58719856 CAACAACCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (14 bp):
TAAATGCTAACTGC
Found at i:58720238 original size:32 final size:32
Alignment explanation
Indices: 58720196--58720271 Score: 98
Period size: 32 Copynumber: 2.4 Consensus size: 32
58720186 TGCATGTGTG
* *
58720196 TAACTTTTCATCTTCAAGTCTCTTCGCATTTT
1 TAACTCTTCATATTCAAGTCTCTTCGCATTTT
* **
58720228 TAACTCTTCATATTCAAGTCTTTTCGCATTCA
1 TAACTCTTCATATTCAAGTCTCTTCGCATTTT
*
58720260 TAACTTTTCATA
1 TAACTCTTCATA
58720272 ATTTAATTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.24, C:0.24, G:0.05, T:0.47
Consensus pattern (32 bp):
TAACTCTTCATATTCAAGTCTCTTCGCATTTT
Found at i:58722606 original size:19 final size:19
Alignment explanation
Indices: 58722579--58722616 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
58722569 CCGCAAGGTG
*
58722579 TTAATTTTCAACCCAGTAA
1 TTAAATTTCAACCCAGTAA
*
58722598 TTAAATTTCATCCCAGTAA
1 TTAAATTTCAACCCAGTAA
58722617 AGCTTTCCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (19 bp):
TTAAATTTCAACCCAGTAA
Found at i:58727081 original size:39 final size:36
Alignment explanation
Indices: 58726999--58727084 Score: 91
Period size: 36 Copynumber: 2.3 Consensus size: 36
58726989 GAGTTGTAAG
* * * *
58726999 TGACTATTCATCTATATCACTAAATGCTAAGAGTTG
1 TGACTATTCATCTACATAACTAAATACTAAGAGTTA
* *
58727035 TAACTATTCATTTACATAACTTAAATACTATAGAAGTTA
1 TGACTATTCATCTACATAAC-TAAATACTA-AG-AGTTA
58727074 TGACTATTCAT
1 TGACTATTCAT
58727085 GCATGTGTGT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
36 16 0.40
37 8 0.20
38 2 0.05
39 14 0.35
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.38
Consensus pattern (36 bp):
TGACTATTCATCTACATAACTAAATACTAAGAGTTA
Found at i:58727162 original size:32 final size:32
Alignment explanation
Indices: 58727094--58727155 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
58727084 TGCATGTGTG
* * *
58727094 TAACTTTTCATCTTCAAGTCTCTTCGCATTAT
1 TAACTCTTCATATTCAAGTCTCTTCACATTAT
*
58727126 TAACTCTTCATATTCAAGTCTTTTCACATT
1 TAACTCTTCATATTCAAGTCTCTTCACATT
58727156 CATAACTTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.24, C:0.24, G:0.05, T:0.47
Consensus pattern (32 bp):
TAACTCTTCATATTCAAGTCTCTTCACATTAT
Found at i:58727169 original size:32 final size:32
Alignment explanation
Indices: 58727094--58727169 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 32
58727084 TGCATGTGTG
* * *
58727094 TAACTTTTCATCTTCAAGTCTCTTCGCATTAT
1 TAACTTCTCATATTCAAGTCTCTTCACATTAT
*
58727126 TAAC-TCTTCATATTCAAGTCTTTTCACATTCA-
1 TAACTTC-TCATATTCAAGTCTCTTCACATT-AT
58727158 TAACTTCTCATA
1 TAACTTCTCATA
58727170 ATTTAATTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
31 1 0.03
32 33 0.89
33 3 0.08
ACGTcount: A:0.26, C:0.25, G:0.04, T:0.45
Consensus pattern (32 bp):
TAACTTCTCATATTCAAGTCTCTTCACATTAT
Done.