Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 87 of 126
Found at i:17241936 original size:312 final size:306
Alignment explanation
Indices: 17241323--17241941 Score: 979
Period size: 312 Copynumber: 2.0 Consensus size: 306
17241313 TAAAATTTTA
* * * *
17241323 CCAAGTAATTAGTTGTTGGAAATGATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAA
1 CCAAGTAATTAATTATCGGAAATGATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
* *
17241388 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGGGGCTCCGTCGTCGG
66 AATTCCCTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
* * * *
17241453 ATTTATTAAAGAAAAATCAAAATCATCCAGTTAATTATTGGAAATTATTCTCAATTAACTCTAAT
131 ATTAATTAAAGAAAAATCAAAATCAGCCAGTTAATTATCGAAAATTATTCTCAATTAACTCTAAT
17241518 ACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCA
196 ACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCA
17241583 CTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAAAAATCAAAATCAG
261 CTTGCAGAGGCTCCGTCGTCGGATTAATT----AAAAAAAAA--AAAATCAG
*
17241635 CCAAGTAATTAATTATCGGAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
1 CCAAGTAATTAATTATCGGAAATGATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
17241700 AATTCCCTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
66 AATTCCCTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
*
17241765 ATTAATTAAAGAAAAAAATCAAAATCAGCCAAGTAATTAATTATCGAAAATTATTCTCAATTGAC
131 ATTAATTAAAG--AAAAATCAAAATCAGCC-AG---TTAATTATCGAAAATTATTCTCAATTAAC
*
17241830 TCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACT
190 TCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAGAGTATGCAAGAAAAACTACT
* *
17241895 GTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAA-TAAAAAAAAAAAA
255 G-TTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAAAAAAAAAA
17241942 TCAAAATCAA
Statistics
Matches: 285, Mismatches: 15, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
312 136 0.48
314 25 0.09
315 2 0.01
318 92 0.32
319 30 0.11
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.29
Consensus pattern (306 bp):
CCAAGTAATTAATTATCGGAAATGATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
AATTCCCTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
ATTAATTAAAGAAAAATCAAAATCAGCCAGTTAATTATCGAAAATTATTCTCAATTAACTCTAAT
ACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCA
CTTGCAGAGGCTCCGTCGTCGGATTAATTAAAAAAAAAAAAATCAG
Found at i:17241975 original size:1 final size:1
Alignment explanation
Indices: 17241971--17241997 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
17241961 AAAAAAATTC
17241971 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
17241998 CCTGGAGCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:17241978 original size:15 final size:14
Alignment explanation
Indices: 17241930--17241994 Score: 57
Period size: 12 Copynumber: 4.9 Consensus size: 14
17241920 TCGGATTAAT
17241930 AAAAAAAAAAAATC
1 AAAAAAAAAAAATC
** *
17241944 --AAAATCAAAGTC
1 AAAAAAAAAAAATC
*
17241956 AAATAAAAAAAATTC
1 AAA-AAAAAAAAATC
17241971 AAAAAAAAAAAA--
1 AAAAAAAAAAAATC
17241983 AAAAAAAAAAAA
1 AAAAAAAAAAAA
17241995 AAACCTGGAG
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
12 21 0.51
14 9 0.22
15 11 0.27
ACGTcount: A:0.83, C:0.06, G:0.02, T:0.09
Consensus pattern (14 bp):
AAAAAAAAAAAATC
Found at i:17242460 original size:31 final size:31
Alignment explanation
Indices: 17242420--17242490 Score: 101
Period size: 31 Copynumber: 2.3 Consensus size: 31
17242410 ACTGGGTCTG
*
17242420 TCGCCGGAAACTTC-AAAGTTCGCCGGAATTGT
1 TCGCCGGAAAATTCAAAAG-TCGCCGGAATT-T
17242452 T-GCCGGAAAATTCAAAAGTCGCCGGAATTT
1 TCGCCGGAAAATTCAAAAGTCGCCGGAATTT
17242482 TCGCCGGAA
1 TCGCCGGAA
17242491 TCTGGAAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
30 2 0.06
31 29 0.81
32 5 0.14
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (31 bp):
TCGCCGGAAAATTCAAAAGTCGCCGGAATTT
Found at i:17243054 original size:3 final size:3
Alignment explanation
Indices: 17243046--17243078 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
17243036 AAAGATATAC
17243046 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
17243079 GAATACATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:17243092 original size:14 final size:14
Alignment explanation
Indices: 17243015--17243092 Score: 53
Period size: 12 Copynumber: 5.7 Consensus size: 14
17243005 ATCTAATCTG
*
17243015 AATAAAAATA-AAT
1 AATAATAATAGAAT
17243028 AAATAAATAA-AGATAT
1 -AAT-AATAATAGA-AT
17243044 ACATAATAAT--AAT
1 A-ATAATAATAGAAT
17243057 AATAATAAT--AAT
1 AATAATAATAGAAT
17243069 AATAATAATAGAAT
1 AATAATAATAGAAT
17243083 ACATAA-AATA
1 A-ATAATAATA
17243093 CAAAAGAAGA
Statistics
Matches: 55, Mismatches: 1, Indels: 16
0.76 0.01 0.22
Matches are distributed among these distances:
12 20 0.36
13 3 0.05
14 13 0.24
15 15 0.27
16 4 0.07
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (14 bp):
AATAATAATAGAAT
Found at i:17243282 original size:1 final size:1
Alignment explanation
Indices: 17243278--17243358 Score: 72
Period size: 1 Copynumber: 81.0 Consensus size: 1
17243268 TTATTTTTGA
* * ** ** * * *
17243278 TTTTTTTTTGTTTTTATTTTTTTTTTGATTTTTTTGATTTTTTTGTTTTTGTTTTTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
17243343 TTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTT
17243359 GGCCGAAGCT
Statistics
Matches: 62, Mismatches: 18, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.04, C:0.00, G:0.09, T:0.88
Consensus pattern (1 bp):
T
Found at i:17243287 original size:11 final size:10
Alignment explanation
Indices: 17243266--17243356 Score: 73
Period size: 11 Copynumber: 8.9 Consensus size: 10
17243256 AACTCAACAT
17243266 TTTTATTTTTG
1 TTTT-TTTTTG
17243277 ATTTTTTTTTG
1 -TTTTTTTTTG
*
17243288 --TTTTTAT-
1 TTTTTTTTTG
17243295 TTTTTTTTTG
1 TTTTTTTTTG
*
17243305 -ATTTTTTTG
1 TTTTTTTTTG
*
17243314 ATTTTTTTGTTT
1 -TTTTTTT-TTG
17243326 TTGTTTTTTTG
1 TT-TTTTTTTG
17243337 TTTTTTTTTTG
1 -TTTTTTTTTG
17243348 TTTTTTTTT
1 TTTTTTTTT
17243357 TTGGCCGAAG
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
8 6 0.09
9 14 0.22
10 9 0.14
11 23 0.35
12 13 0.20
ACGTcount: A:0.05, C:0.00, G:0.09, T:0.86
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:17243291 original size:9 final size:9
Alignment explanation
Indices: 17243279--17243355 Score: 88
Period size: 9 Copynumber: 8.9 Consensus size: 9
17243269 TATTTTTGAT
17243279 TTTTTTTTG
1 TTTTTTTTG
*
17243288 TTTTTATT-
1 TTTTTTTTG
17243296 TTTTTTTTG
1 TTTTTTTTG
*
17243305 ATTTTTTTG
1 TTTTTTTTG
*
17243314 ATTTTTTTG
1 TTTTTTTTG
*
17243323 TTTTTGTT-
1 TTTTTTTTG
*
17243331 TTTTTGTT-
1 TTTTTTTTG
17243339 TTTTTTTTG
1 TTTTTTTTG
17243348 TTTTTTTT
1 TTTTTTTT
17243356 TTTGGCCGAA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
8 22 0.37
9 38 0.63
ACGTcount: A:0.04, C:0.00, G:0.09, T:0.87
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:17243359 original size:23 final size:24
Alignment explanation
Indices: 17243265--17243359 Score: 99
Period size: 23 Copynumber: 4.0 Consensus size: 24
17243255 CAACTCAACA
*
17243265 TTTTTATTTTTG-ATTTTTTTTTG
1 TTTTTATTTTTGTTTTTTTTTTTG
*
17243288 TTTTTATTTTTTTTTTGATTTTTTTG
1 TTTTTATTTTTGTTTT--TTTTTTTG
* *
17243314 ATTTTT-TTGTT-TTTGTTTTTTTG
1 -TTTTTATTTTTGTTTTTTTTTTTG
17243337 TTTTT-TTTTTGTTTTTTTTTTTG
1 TTTTTATTTTTGTTTTTTTTTTTG
17243360 GCCGAAGCTC
Statistics
Matches: 61, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
22 9 0.15
23 30 0.49
24 2 0.03
25 3 0.05
26 12 0.20
27 5 0.08
ACGTcount: A:0.05, C:0.00, G:0.09, T:0.85
Consensus pattern (24 bp):
TTTTTATTTTTGTTTTTTTTTTTG
Found at i:17243411 original size:41 final size:40
Alignment explanation
Indices: 17243366--17244224 Score: 1004
Period size: 41 Copynumber: 21.0 Consensus size: 40
17243356 TTTGGCCGAA
*
17243366 GCTCCTCTAAACAGAGACTCAACGACTTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAG-CGCAACGAC-TTTGAAAAGTAAATT
*
17243407 GCTCCTCTAAACAGAG-GCAACGGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGCGCAAC-GACTTTGAAAAGTAAATT
* *
17243447 GCTCCTCTCAACAGAG-GCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGCGCA--ACGACTTT-GAAAAGTAAATT
*
17243489 GCTCCTCTCAACAGAG-GCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGCGCA--ACGACTTTGAAAAGTAAATT
*
17243530 GCTCCTCTAAACAGAG-GCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGCGCA--ACGACTTT-GAAAAGTAAATT
*
17243572 GCTCCTCTCAACAGAG-GCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGCGCA--ACGACTTTGAAAAGTAAATT
17243613 GCTCCTCTAAACAGAG-GCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGCGCAACG-ACTTTGAAAAGTAAATT
* *
17243653 GCTCCTCTAAGCAGAG-GTACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGCG--CAACGACTTTGAAAAGTAAATT
17243694 GCTCCTCTAAACAGAG-GCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGCGCAACG-ACTTTGAAAAGTAAATT
*
17243734 GCTCCTCTAAACAGAG-GTACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGCG--CAACGACTTTGAAAAGTAAATT
17243775 GCTCCTCTAAACAGAG-GCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGCGCAACG-ACTTTGAAAAGTAAATT
*
17243815 GCTCCTCTAAACAGAG-GTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGCG--CAACGACTTT-GAAAAGTAAATT
17243857 GCTCCTCTAAACAGAG-GCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGCGCAACG-ACTTTGAAAAGTAAATT
* *
17243897 GCTCCTCTCAACAGAG-GCAACGAACTTTGAAAAAATAAATT
1 GCTCCTCTAAACAGAGCGCAACG-ACTTTG-AAAAGTAAATT
*
17243938 GCTCCTCTAAACAGAG-GTACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGCG--CAACGACTTTGAAAAGTAAATT
* * *
17243979 GCTCCTCTCAACAGAG-GTACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGCG--CAACGACTTT-GAAAAGTAAATT
*
17244021 GCTCCTCTAAACAGAG-GTACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGCG--CAACGACTTTGAAAAGTAAATT
*
17244062 GCTCCTCTCAACAGAG-GCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGCGCAACG-ACTTTGAAAAGTAAATT
*
17244102 GCTCCTCTAAACAGAG-GCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGCGCA--ACGACTTT-GAAAAGTAAATT
17244144 GCTCCTCTAAACAGAG-GCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGCGCA--ACGAC-TTTGAAAAGTAAATT
* *
17244186 GCTCCTCTAAACAGAG-GCAACAAACTTGGAAAAGTAAAT
1 GCTCCTCTAAACAGAGCGCAAC-GACTTTGAAAAGTAAAT
17244225 ACTCCTAGAC
Statistics
Matches: 757, Mismatches: 34, Indels: 55
0.89 0.04 0.07
Matches are distributed among these distances:
39 23 0.03
40 226 0.30
41 265 0.35
42 236 0.31
43 7 0.01
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.23
Consensus pattern (40 bp):
GCTCCTCTAAACAGAGCGCAACGACTTTGAAAAGTAAATT
Found at i:17243695 original size:81 final size:80
Alignment explanation
Indices: 17243366--17244224 Score: 1203
Period size: 81 Copynumber: 10.5 Consensus size: 80
17243356 TTTGGCCGAA
* * *
17243366 GCTCCTCTAAACAGAGACTCAACGACTTTTG-AAAGTAAATTGCTCCTCTAAACAGAGG--CAAC
1 GCTCCTCTAAACAGAG--GCAACGAC-TTTGAAAAGTAAATTGCTCCTCTCAACAGAGGTACCAC
*
17243428 GGACTTTGGAAAGTAAATT
63 -GACTTTGAAAAGTAAATT
* * *
17243447 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCA--ACGACTTT-GAAAAGTAAATTGCTCCTCTCAACAGAGGTACCAC
17243512 GACTTTGAAAAGTAAATT
63 GACTTTGAAAAGTAAATT
* *
17243530 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCA--ACGACTTT-GAAAAGTAAATTGCTCCTCTCAACAGAGGTACCAC
17243595 GACTTTGAAAAGTAAATT
63 GACTTTGAAAAGTAAATT
17243613 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCT-AAGCAGAGGTACCACG
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATTGCTCCTCTCAA-CAGAGGTACCACG
17243677 ACTTTGAAAAGTAAATT
64 ACTTTGAAAAGTAAATT
*
17243694 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGA
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGTACCACGA
17243759 CTTTGAAAAGTAAATT
65 CTTTGAAAAGTAAATT
*
17243775 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGA
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGTACCACGA
17243840 CTTTGGAAAAGTAAATT
65 CTTT-GAAAAGTAAATT
*
17243857 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGG--CAACGA
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGTACCACG-
*
17243920 ACTTTGAAAAAATAAATT
64 ACTTTG-AAAAGTAAATT
*
17243938 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGTACCACG
1 GCTCCTCTAAACAGAGG--CAACGACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGTACCACG
*
17244003 ACTTTGGAAAAATAAATT
64 ACTTT-GAAAAGTAAATT
* *
17244021 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGG--CAACG
1 GCTCCTCTAAACAGAGG--CAACGACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGTACCACG
17244084 AACTTTGAAAAGTAAATT
64 -ACTTTGAAAAGTAAATT
* * *
17244102 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCA--ACGACTTT-GAAAAGTAAATTGCTCCTCTCAACAGAGGTACCAC
17244167 GACTTTTGAAAAGTAAATT
63 GAC-TTTGAAAAGTAAATT
* *
17244186 GCTCCTCTAAACAGAGGCAACAAACTTGGAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCAAC-GACTTTGAAAAGTAAAT
17244225 ACTCCTAGAC
Statistics
Matches: 730, Mismatches: 23, Indels: 49
0.91 0.03 0.06
Matches are distributed among these distances:
79 3 0.00
80 10 0.01
81 291 0.40
82 178 0.24
83 202 0.28
84 46 0.06
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.23
Consensus pattern (80 bp):
GCTCCTCTAAACAGAGGCAACGACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGTACCACGAC
TTTGAAAAGTAAATT
Found at i:17244230 original size:123 final size:123
Alignment explanation
Indices: 17243366--17244224 Score: 1246
Period size: 123 Copynumber: 7.0 Consensus size: 123
17243356 TTTGGCCGAA
* * *
17243366 GCTCCTCTAAACAGAGACTCAACGACTTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCA--AC
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* * *
17243428 GGACTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATT
65 -GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
*
17243489 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
* *
17243554 ACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATT
66 ACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* *
17243613 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATTGCTCCTCTAAGCAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
17243676 GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
65 GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
*
17243734 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
*
17243797 AACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
66 -ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
*
17243857 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCA--AC
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* *
17243918 GAACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATT
65 G-ACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* * * *
17243979 GCTCCTCTCAACAGAGGTACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
17244044 GACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
65 GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
*
17244102 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* * *
17244167 GACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACA-AACTTGGAAAAGTAAAT
65 GAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAAT
17244225 ACTCCTAGAC
Statistics
Matches: 680, Mismatches: 33, Indels: 45
0.90 0.04 0.06
Matches are distributed among these distances:
120 6 0.01
121 73 0.11
122 152 0.22
123 257 0.38
124 141 0.21
125 47 0.07
126 4 0.01
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.23
Consensus pattern (123 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:17245471 original size:7 final size:7
Alignment explanation
Indices: 17245412--17245472 Score: 59
Period size: 8 Copynumber: 8.1 Consensus size: 7
17245402 AATTTGGATC
17245412 TCTTTTT
1 TCTTTTT
*
17245419 TCATTTT
1 TCTTTTT
17245426 TCATTTTT
1 TC-TTTTT
17245434 TCATTTTT
1 TC-TTTTT
*
17245442 TCTTCTT
1 TCTTTTT
17245449 TCTTTCTT
1 TCTTT-TT
*
17245457 TTTCTTTT
1 TCT-TTTT
17245465 TCTTTTT
1 TCTTTTT
17245472 T
1 T
17245473 TTTCATCATC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
7 21 0.47
8 22 0.49
9 2 0.04
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (7 bp):
TCTTTTT
Found at i:17245475 original size:16 final size:16
Alignment explanation
Indices: 17245437--17245490 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
17245427 CATTTTTTCA
17245437 TTTTTTCTTCTTTCTTT
1 TTTTTTCTT-TTTCTTT
*
17245454 CTTTTTCTTTTTCTTT
1 TTTTTTCTTTTTCTTT
* **
17245470 TTTTTTCATCATCTTT
1 TTTTTTCTTTTTCTTT
17245486 TTTTT
1 TTTTT
17245491 CTCATTCTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
16 24 0.75
17 8 0.25
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTTCTTTTTCTTT
Found at i:17245889 original size:1 final size:1
Alignment explanation
Indices: 17245883--17245911 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
17245873 CCTTTTGTGG
17245883 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
17245912 CAAAAATTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:17249682 original size:157 final size:158
Alignment explanation
Indices: 17249165--17249778 Score: 946
Period size: 157 Copynumber: 3.9 Consensus size: 158
17249155 TAAAATTTTA
* * * * *
17249165 CCAAGTAATTAGTTGTTGGAAATGATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAA
1 CCAAGTAATTAATTATCGGAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
* *
17249230 AATTCCCTCACCTCAGGAGTATGCAAGAAAACTACTG-TTTCACTTGCAGGGGCTCCGTCGTCGG
66 AATTCCCTCACCTCAAGAGTATGCAAGAAAACTACTGTTTTCACTTGCAGAGGCTCCGTCGTCGG
*
17249294 ATT-ATTAAAG--AAAAATCAAAATCAAT
131 ATTAATTAAAGAAAAAAATCAAAATC-AG
*
17249320 CC-AG---TTAATTATTGGAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
1 CCAAGTAATTAATTATCGGAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
* *
17249381 AATTCCCTCACCTCAAGAGTATGCGAGAAAAACCACTGTTTTCACTTGCAGAGGCTCCGTCGTCG
66 AATTCCCTCACCTCAAGAGTATGCAAG-AAAACTACTGTTTTCACTTGCAGAGGCTCCGTCGTCG
*
17249446 GATTATTTAAAGAAAAAAATCAAAATCAG
130 GATTAATTAAAGAAAAAAATCAAAATCAG
*
17249475 CCAAGTAATTAATTATCGAAAATTATTCTCATATTAACTCTAATAC-TTTAGCAGAAAATTGAGA
1 CCAAGTAATTAATTATCGGAAATTATTCTCA-ATTAACTCTAATACTTTTAGCAGAAAATTGAGA
*
17249539 AAATTCCCTCACCTCAAGAGTATGCAAGAAAAACTACTG-TTTCACTTACAGAGGCT-CGTCGTC
65 AAATTCCCTCACCTCAAGAGTATGCAAG-AAAACTACTGTTTTCACTTGCAGAGGCTCCGTCGTC
17249602 GGATTAATTAAAGAAAAAAATCAAAATCAG
129 GGATTAATTAAAGAAAAAAATCAAAATCAG
*
17249632 CCAAGTAATTAATTATCGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAA
1 CCAAGTAATTAATTATCGGAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
* * *
17249697 AATT-CCTCACCTCAGGAGTATGCAAGAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGG
66 AATTCCCTCACCTCAAGAGTATGCAAGAAAACTACTGTTTTCACTTGCAGAGGCTCCGTCGTCGG
17249761 ATTAATTAAAGAAAAAAA
131 ATTAATTAAAGAAAAAAA
17249779 AATCAAGATC
Statistics
Matches: 424, Mismatches: 22, Indels: 24
0.90 0.05 0.05
Matches are distributed among these distances:
151 78 0.18
152 9 0.02
153 29 0.07
154 8 0.02
155 15 0.04
156 63 0.15
157 116 0.27
158 16 0.04
159 76 0.18
160 14 0.03
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (158 bp):
CCAAGTAATTAATTATCGGAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
AATTCCCTCACCTCAAGAGTATGCAAGAAAACTACTGTTTTCACTTGCAGAGGCTCCGTCGTCGG
ATTAATTAAAGAAAAAAATCAAAATCAG
Found at i:17249783 original size:310 final size:308
Alignment explanation
Indices: 17249165--17249777 Score: 930
Period size: 310 Copynumber: 2.0 Consensus size: 308
17249155 TAAAATTTTA
* * * * *
17249165 CCAAGTAATTAGTTGTTGGAAATGATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAA
1 CCAAGTAATTAATTATCGAAAATGATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
* * *
17249230 AATTCCCTCACCTCAGGAGTATGCAAGAAAACTACTGTTTCACTTGCAGGGGCTCCGTCGTCGGA
66 AATTCCCTCACCTCAAGAGTATGCAAGAAAACTACTGTTTCACTTACAGAGGCTCCGTCGTCGGA
* *
17249295 TTATTAAAGAAAAATCAAAATCAATCCAGTTAATTATTGGAAATTATTCTCAATTAACTCTAATA
131 TTATTAAAGAAAAATCAAAATCAAGCCAGTTAATTATCGGAAATTATTCTCAATTAACTCTAATA
*
17249360 CTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAGAGTATGCGAGAAAAACCACTGTTTTCA
196 CTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAGAGTATGCAAGAAAAACCACTGTTTTCA
*
17249425 CTTGCAGAGGCTCCGTCGTCGGATTATTTAAAGAAAAAAATCAAAATCAG
261 CTTGCAGAGGCTCCGTCGTCGGATTAATTAAAG-AAAAAA-CAAAATCAG
*
17249475 CCAAGTAATTAATTATCGAAAATTATTCTCATATTAACTCTAATAC-TTTAGCAGAAAATTGAGA
1 CCAAGTAATTAATTATCGAAAATGATTCTCA-ATTAACTCTAATACTTTTAGCAGAAAATTGAGA
17249539 AAATTCCCTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTACAGAGGCT-CGTCGTCG
65 AAATTCCCTCACCTCAAGAGTATGCAAG-AAAACTACTGTTTCACTTACAGAGGCTCCGTCGTCG
*
17249603 GATTAATTAAAGAAAAAAATCAAAATC-AGCCAAGTAATTAATTATCGGAAATTATTCTCAATTG
129 GATT-ATTAAAG--AAAAATCAAAATCAAGCC-AG---TTAATTATCGGAAATTATTCTCAATTA
* *
17249667 ACTCTAATACTTTTAGCAGAAAATTGAGAAAATT-CCTCACCTCAGGAGTATGCAAG-AAAACTA
187 ACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAGAGTATGCAAGAAAAACCA
* *
17249730 CTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAA
252 CTGTTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAA
17249778 AAATCAAGAT
Statistics
Matches: 276, Mismatches: 18, Indels: 15
0.89 0.06 0.05
Matches are distributed among these distances:
310 83 0.30
311 45 0.16
312 3 0.01
313 21 0.08
314 45 0.16
315 20 0.07
316 59 0.21
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (308 bp):
CCAAGTAATTAATTATCGAAAATGATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
AATTCCCTCACCTCAAGAGTATGCAAGAAAACTACTGTTTCACTTACAGAGGCTCCGTCGTCGGA
TTATTAAAGAAAAATCAAAATCAAGCCAGTTAATTATCGGAAATTATTCTCAATTAACTCTAATA
CTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAGAGTATGCAAGAAAAACCACTGTTTTCA
CTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAACAAAATCAG
Found at i:17249871 original size:12 final size:12
Alignment explanation
Indices: 17249854--17249886 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
17249844 AAAACCTGGA
17249854 GCGGCTCGGATC
1 GCGGCTCGGATC
17249866 GCGGCTCGGATC
1 GCGGCTCGGATC
17249878 GCGGCTCGG
1 GCGGCTCGG
17249887 CTTGGTGCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.06, C:0.33, G:0.45, T:0.15
Consensus pattern (12 bp):
GCGGCTCGGATC
Found at i:17250160 original size:19 final size:19
Alignment explanation
Indices: 17250136--17250180 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
17250126 GAACGCCGGT
*
17250136 GCCGGATTCTGGAAATTTC
1 GCCGGAATCTGGAAATTTC
*
17250155 GCCGGAATCTGGGAATTTC
1 GCCGGAATCTGGAAATTTC
17250174 GCCGGAA
1 GCCGGAA
17250181 ATTGGCCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.24
Consensus pattern (19 bp):
GCCGGAATCTGGAAATTTC
Found at i:17250277 original size:31 final size:31
Alignment explanation
Indices: 17250242--17250314 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
17250232 AAACTGGGTC
*
17250242 TGTCGCCGGAAACTTC-AAAGTTCACCGGAAT
1 TGTCGCCGGAAAATTCAAAAG-TCACCGGAAT
*
17250273 TGTCGCCGGAAAATTCAAAAGTCGCCGGAAT
1 TGTCGCCGGAAAATTCAAAAGTCACCGGAAT
* *
17250304 TTTCACCGGAA
1 TGTCGCCGGAA
17250315 TCTGGAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 33 0.89
32 4 0.11
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (31 bp):
TGTCGCCGGAAAATTCAAAAGTCACCGGAAT
Found at i:17250736 original size:3 final size:3
Alignment explanation
Indices: 17250728--17250764 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
17250718 GATAATTAAA
17250728 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
17250765 GATAAACCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:17250897 original size:40 final size:41
Alignment explanation
Indices: 17250796--17250897 Score: 113
Period size: 40 Copynumber: 2.5 Consensus size: 41
17250786 CAAAAAAAAA
* *
17250796 AATAATAATAATAATAAATATATAACTATATACATATAAATCT
1 AATAATAATAA-AATAAATAAATAAATATATACATATAAA-CT
*
17250839 AAT-CTAATAAAA-AAATAAATAAATATATACATA-ATAA-T
1 AATAATAATAAAATAAATAAATAAATATATACATATA-AACT
*
17250877 AATAATAATAAAATACATAAA
1 AATAATAATAAAATAAATAAA
17250898 ATACAAAAGA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
38 4 0.08
39 9 0.18
40 27 0.53
41 2 0.04
42 6 0.12
43 3 0.06
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (41 bp):
AATAATAATAAAATAAATAAATAAATATATACATATAAACT
Found at i:17251563 original size:20 final size:19
Alignment explanation
Indices: 17251531--17251576 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
17251521 ATCCATACCA
17251531 ACCCATCCCATAGCCATCCT
1 ACCCA-CCCATAGCCATCCT
17251551 ACCCACCCTATAGCCATCCT
1 ACCCACCC-ATAGCCATCCT
17251571 ACCCAC
1 ACCCAC
17251577 AAACATACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.26, C:0.52, G:0.04, T:0.17
Consensus pattern (19 bp):
ACCCACCCATAGCCATCCT
Found at i:17257506 original size:24 final size:22
Alignment explanation
Indices: 17257478--17257539 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
17257468 ACTATATTTG
17257478 AAAAAAAAAGAGAAAAAAT-AAA
1 AAAAAAAAAGA-AAAAAATGAAA
*
17257500 ATGAAAAATAA-AAAAAAATGAAA
1 A--AAAAAAAAGAAAAAAATGAAA
*
17257523 AAAGAAAAAGAAAAAAA
1 AAAAAAAAAGAAAAAAA
17257540 AAGTGAATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
21 6 0.18
22 15 0.45
23 5 0.15
24 7 0.21
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (22 bp):
AAAAAAAAAGAAAAAAATGAAA
Found at i:17257515 original size:30 final size:29
Alignment explanation
Indices: 17257478--17257541 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 29
17257468 ACTATATTTG
* * *
17257478 AAAAAAAAAGA-GAAAAAATAAAATGAAA
1 AAAAAAAAAAATGAAAAAAGAAAAAGAAA
17257506 AATAAAAAAAAATGAAAAAAGAAAAAGAAA
1 AA-AAAAAAAAATGAAAAAAGAAAAAGAAA
17257536 AAAAAA
1 AAAAAA
17257542 GTGAATGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 2 0.06
29 12 0.39
30 17 0.55
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.06
Consensus pattern (29 bp):
AAAAAAAAAAATGAAAAAAGAAAAAGAAA
Found at i:17257525 original size:25 final size:25
Alignment explanation
Indices: 17257497--17257546 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
17257487 GAGAAAAAAT
* *
17257497 AAAATGAAAAATAAAAAAAAA-TGA
1 AAAAAGAAAAAGAAAAAAAAAGTGA
17257521 AAAAAGAAAAAGAAAAAAAAAGTGA
1 AAAAAGAAAAAGAAAAAAAAAGTGA
17257546 A
1 A
17257547 TGAAAATGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (25 bp):
AAAAAGAAAAAGAAAAAAAAAGTGA
Found at i:17257531 original size:17 final size:17
Alignment explanation
Indices: 17257491--17257524 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
17257481 AAAAAAGAGA
17257491 AAAAATAAAATGAAAAAT
1 AAAAA-AAAATGAAAAAT
17257509 AAAAAAAAATGAAAAA
1 AAAAAAAAATGAAAAA
17257525 AGAAAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (17 bp):
AAAAAAAAATGAAAAAT
Found at i:17258617 original size:41 final size:42
Alignment explanation
Indices: 17258530--17258799 Score: 323
Period size: 42 Copynumber: 6.4 Consensus size: 42
17258520 AGTTGTGATA
* * *
17258530 CCTCTGTTTAGAGGAGCAATTTACTTTCCAAAAGTCATTGAG
1 CCTCTGATTAGAGGAGCAATTTATTTTCCAAAAGTCGTTGAG
** *
17258572 CCTCTGATTAGAGGAGCCTTTTATTTTTC-AAAGTCGTTGAG
1 CCTCTGATTAGAGGAGCAATTTATTTTCCAAAAGTCGTTGAG
* *
17258613 CCTCTGATTAGAGGAGCAATTTACTTTCCAAAAGTCATTGAG
1 CCTCTGATTAGAGGAGCAATTTATTTTCCAAAAGTCGTTGAG
** *
17258655 CCTCTGATTAGAGGAGCCTTTTATTTTTC-AAAGTCGTTGAG
1 CCTCTGATTAGAGGAGCAATTTATTTTCCAAAAGTCGTTGAG
*
17258696 CCTCTGATTAGAGGAGCAATTTATTTTCCAAAAGTCGTTAAG
1 CCTCTGATTAGAGGAGCAATTTATTTTCCAAAAGTCGTTGAG
* **
17258738 CCTCTAATTAGAGGAGCTTTGTTTATGTTTCTC-AAAGTCGTTGAG
1 CCTCTGATTAGAGGAGC--AATTTAT-TTTC-CAAAAGTCGTTGAG
*
17258783 CC-CTTGCTTAGAGGAGC
1 CCTC-TGATTAGAGGAGC
17258800 TTTGATCAAA
Statistics
Matches: 195, Mismatches: 26, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
41 73 0.37
42 87 0.45
44 6 0.03
45 28 0.14
46 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (42 bp):
CCTCTGATTAGAGGAGCAATTTATTTTCCAAAAGTCGTTGAG
Found at i:17258632 original size:83 final size:83
Alignment explanation
Indices: 17258530--17258799 Score: 425
Period size: 83 Copynumber: 3.2 Consensus size: 83
17258520 AGTTGTGATA
*
17258530 CCTCTGTTTAGAGGAGCAATTTACTTTCCAAAAGTCATTGAGCCTCTGATTAGAGGAGCCTTTTA
1 CCTCTGATTAGAGGAGCAATTTACTTTCCAAAAGTCATTGAGCCTCTGATTAGAGGAGCCTTTTA
17258595 TTTTTCAAAGTCGTTGAG
66 TTTTTCAAAGTCGTTGAG
17258613 CCTCTGATTAGAGGAGCAATTTACTTTCCAAAAGTCATTGAGCCTCTGATTAGAGGAGCCTTTTA
1 CCTCTGATTAGAGGAGCAATTTACTTTCCAAAAGTCATTGAGCCTCTGATTAGAGGAGCCTTTTA
17258678 TTTTTCAAAGTCGTTGAG
66 TTTTTCAAAGTCGTTGAG
* * * * *
17258696 CCTCTGATTAGAGGAGCAATTTATTTTCCAAAAGTCGTTAAGCCTCTAATTAGAGGAGCTTTGTT
1 CCTCTGATTAGAGGAGCAATTTACTTTCCAAAAGTCATTGAGCCTCTGATTAGAGGAGC-CT-TT
17258761 TATGTTTCTCAAAGTCGTTGAG
64 TAT-TTT-TCAAAGTCGTTGAG
*
17258783 CC-CTTGCTTAGAGGAGC
1 CCTC-TGATTAGAGGAGC
17258800 TTTGATCAAA
Statistics
Matches: 175, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
83 137 0.78
84 1 0.01
85 5 0.03
86 4 0.02
87 28 0.16
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (83 bp):
CCTCTGATTAGAGGAGCAATTTACTTTCCAAAAGTCATTGAGCCTCTGATTAGAGGAGCCTTTTA
TTTTTCAAAGTCGTTGAG
Found at i:17259019 original size:13 final size:14
Alignment explanation
Indices: 17258997--17259030 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
17258987 GCCCATTTGC
17258997 ATTT-TTTTTATTT
1 ATTTATTTTTATTT
17259010 -TTTATTTTTATTT
1 ATTTATTTTTATTT
17259023 ATTTATTT
1 ATTTATTT
17259031 ATTACTGCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 9 0.47
14 7 0.37
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (14 bp):
ATTTATTTTTATTT
Found at i:17259023 original size:17 final size:17
Alignment explanation
Indices: 17258997--17259033 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
17258987 GCCCATTTGC
17258997 ATTTTTTTTATTT-TTT
1 ATTTTTTTTATTTATTT
17259013 ATTTTTATTTATTTATTT
1 ATTTTT-TTTATTTATTT
17259031 ATT
1 ATT
17259034 ACTGCTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 7 0.37
18 6 0.32
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (17 bp):
ATTTTTTTTATTTATTT
Found at i:17259091 original size:24 final size:23
Alignment explanation
Indices: 17259064--17259123 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 23
17259054 ATATATAAAG
*
17259064 ATTATTTATCTATTAACATATTTT
1 ATTATTTATCTATTAACATA-TAT
* *
17259088 ATTATTTATCCATTAATATATAT
1 ATTATTTATCTATTAACATATAT
17259111 ATT-TTTAT-TATTA
1 ATTATTTATCTATTA
17259124 TTTATCTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 4 0.12
22 5 0.16
23 5 0.16
24 18 0.56
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (23 bp):
ATTATTTATCTATTAACATATAT
Found at i:17259127 original size:32 final size:32
Alignment explanation
Indices: 17259086--17259156 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
17259076 TTAACATATT
17259086 TTATTATTTATCCATTAATATATATATT-TTTA
1 TTATTATTTATCCATTAATAT-TATATTATTTA
* * *
17259118 TTATTATTTATCTATTCATATTTTATTATTTA
1 TTATTATTTATCCATTAATATTATATTATTTA
17259150 TCTATTA
1 T-TATTA
17259157 ATATATATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 5 0.15
32 24 0.71
33 5 0.15
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (32 bp):
TTATTATTTATCCATTAATATTATATTATTTA
Found at i:17259147 original size:54 final size:54
Alignment explanation
Indices: 17259064--17259229 Score: 232
Period size: 54 Copynumber: 3.1 Consensus size: 54
17259054 ATATATAAAG
*
17259064 ATTATTTATCTATTAACATATTTTATTATTTATCCATTAATATATATATTTTTATT
1 ATTATTTATCTATT--CATATTTTATTATTTATCTATTAATATATATATTTTTATT
17259120 ATTATTTATCTATTCATATTTTATTATTTATCTATTAATATATATA-TTTT-TT
1 ATTATTTATCTATTCATATTTTATTATTTATCTATTAATATATATATTTTTATT
* * *
17259172 ATTATTTATCTATTAATA-TATATTATTTATCTATTCATATAT-TATTATTTATCT
1 ATTATTTATCTATTCATATTTTATTATTTATCTATTAATATATATATT-TTTAT-T
17259226 ATTA
1 ATTA
17259230 ATATGTATAT
Statistics
Matches: 102, Mismatches: 4, Indels: 10
0.88 0.03 0.09
Matches are distributed among these distances:
50 2 0.02
51 23 0.23
52 22 0.22
53 5 0.05
54 36 0.35
56 14 0.14
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (54 bp):
ATTATTTATCTATTCATATTTTATTATTTATCTATTAATATATATATTTTTATT
Found at i:17259174 original size:30 final size:30
Alignment explanation
Indices: 17259084--17259199 Score: 138
Period size: 30 Copynumber: 4.0 Consensus size: 30
17259074 TATTAACATA
*
17259084 TTTTATTATTTATCCATTAATATATATA-T
1 TTTTATTATTTATCTATTAATATATATATT
* *
17259113 TTTTATTA-TTA--T-TT-ATCTAT-TCATA
1 TTTTATTATTTATCTATTAATATATAT-ATT
17259138 TTTTATTATTTATCTATTAATATATATATT
1 TTTTATTATTTATCTATTAATATATATATT
17259168 TTTTATTATTTATCTATTAATATATATTATT
1 TTTTATTATTTATCTATTAATATATA-TATT
17259199 T
1 T
17259200 ATCTATTCAT
Statistics
Matches: 73, Mismatches: 5, Indels: 16
0.78 0.05 0.17
Matches are distributed among these distances:
23 1 0.01
24 6 0.08
25 10 0.14
26 3 0.04
28 4 0.05
29 10 0.14
30 33 0.45
31 6 0.08
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (30 bp):
TTTTATTATTTATCTATTAATATATATATT
Found at i:17259211 original size:21 final size:22
Alignment explanation
Indices: 17259021--17259233 Score: 131
Period size: 22 Copynumber: 9.8 Consensus size: 22
17259011 TTATTTTTAT
* * *
17259021 TTATTTATTTATTACTGCTATTA
1 TTATTTATCTATTAAT-ATATTA
* **
17259044 TTATTTAT-TAAT-ATATAAAGA
1 TTATTTATCTATTAATAT-ATTA
*
17259065 TTATTTATCTATTAACATATTTTA
1 TTATTTATCTATT-A-ATATATTA
*
17259089 TTATTTATCCATTAATATA-TA
1 TTATTTATCTATTAATATATTA
*
17259110 -TATTT-T-TATTATTAT-TTA
1 TTATTTATCTATTAATATATTA
* * * *
17259128 TCTATTCATATTTTATTAT-TTA
1 T-TATTTATCTATTAATATATTA
* * * *
17259150 TCTATTAATATA-TATATTTTTTA
1 T-TATTTATCTATTA-ATATATTA
17259173 TTATTTATCTATTAATATA-TA
1 TTATTTATCTATTAATATATTA
*
17259194 TTATTTATCTATTCATATATTA
1 TTATTTATCTATTAATATATTA
17259216 TTATTTATCTATTAATAT
1 TTATTTATCTATTAATAT
17259234 GTATATATAT
Statistics
Matches: 151, Mismatches: 25, Indels: 29
0.74 0.12 0.14
Matches are distributed among these distances:
18 9 0.06
19 1 0.01
20 10 0.07
21 36 0.24
22 63 0.42
23 15 0.10
24 13 0.09
25 4 0.03
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.59
Consensus pattern (22 bp):
TTATTTATCTATTAATATATTA
Found at i:17260148 original size:18 final size:16
Alignment explanation
Indices: 17260102--17260162 Score: 70
Period size: 15 Copynumber: 3.8 Consensus size: 16
17260092 GGTTTTTTAT
17260102 TTATTTATTATTATTA
1 TTATTTATTATTATTA
*
17260118 TTATTTCTT-TTATTA
1 TTATTTATTATTATTA
*
17260133 TTATTTATTAGATTATAA
1 TTATTTATT--ATTATTA
*
17260151 TTATTTAGTATT
1 TTATTTATTATT
17260163 CCTTATTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
15 14 0.37
16 11 0.29
18 13 0.34
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.66
Consensus pattern (16 bp):
TTATTTATTATTATTA
Found at i:17260192 original size:11 final size:11
Alignment explanation
Indices: 17260165--17260198 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
17260155 TTAGTATTCC
17260165 TTATTTTA-TT
1 TTATTTTATTT
*
17260175 TTGTTTTATTT
1 TTATTTTATTT
17260186 TTATTTTATTT
1 TTATTTTATTT
17260197 TT
1 TT
17260199 TTAAACGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (11 bp):
TTATTTTATTT
Found at i:17260280 original size:60 final size:57
Alignment explanation
Indices: 17260228--17260389 Score: 202
Period size: 60 Copynumber: 2.8 Consensus size: 57
17260218 TAAAATTCCA
17260228 AAAAAAATATTTTTGAGGAAAAAGTTGAAAGTATCAATATTTCTTGAAAATAAGTTTTTTC
1 AAAAAAATATTTTTGAGGAAAAAGTTGAAAGTATCAAT-TTTCTTG-AAATAAG--TTTTC
** * *
17260289 -CTAAAATATTTTTAAGG-AAAAGTTGAAAAATATCAATTTTCCTTGAAATAAGTTTTC
1 AAAAAAATATTTTTGAGGAAAAAGTTG-AAAGTATCAATTTT-CTTGAAATAAGTTTTC
* *
17260346 AAAAAAATATTTTCGAAGAAAAAGTTGAAAGTATCAATTTTCTT
1 AAAAAAATATTTTTGAGGAAAAAGTTGAAAGTATCAATTTTCTT
17260390 TTACAAAGCA
Statistics
Matches: 87, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
57 8 0.09
58 25 0.29
59 26 0.30
60 28 0.32
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (57 bp):
AAAAAAATATTTTTGAGGAAAAAGTTGAAAGTATCAATTTTCTTGAAATAAGTTTTC
Found at i:17260341 original size:59 final size:58
Alignment explanation
Indices: 17260228--17260387 Score: 191
Period size: 59 Copynumber: 2.7 Consensus size: 58
17260218 TAAAATTCCA
*
17260228 AAAAAAATATTTTTGAGGAAAAAGTTGAAAGTATCAATATTT-CTTGAAAATAAGTTTTTTC
1 AAAAAAATATTTTTAAGG-AAAAGTTGAAAGTATCAAT-TTTCCTTGAAAATAAG--TTTTC
** *
17260289 -CTAAAATATTTTTAAGGAAAAGTTGAAAAATATCAATTTTCCTTG-AAATAAGTTTTC
1 AAAAAAATATTTTTAAGGAAAAGTTG-AAAGTATCAATTTTCCTTGAAAATAAGTTTTC
* *
17260346 AAAAAAATATTTTCGAAGAAAAAGTTGAAAGTATCAATTTTC
1 AAAAAAATATTTT-TAAGGAAAAGTTGAAAGTATCAATTTTC
17260388 TTTTACAAAG
Statistics
Matches: 86, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
57 5 0.06
58 24 0.28
59 29 0.34
60 28 0.33
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (58 bp):
AAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTC
Found at i:17262495 original size:130 final size:129
Alignment explanation
Indices: 17262239--17262773 Score: 491
Period size: 130 Copynumber: 4.1 Consensus size: 129
17262229 TGTTATACTA
* * * * *
17262239 TTTTGCAACAATAATTTTTTATCATTAGAAATATGATAAAAATTTTTGAAATAGC-TTTTATGTC
1 TTTTGCAACAATACTTTTTTATCATTACAAATATGAT--AAATTTTTCAAATAACTTTTTTTGTC
* * * *
17262303 ATTGTATAAAAATATTTAAAAAATAAATTAAGCAACGACATTGAAAAATCATTGCAAATAAAATA
64 GTTGTAT-AAAATA-TAAAAAAATAACTTAAGCAACGATATTGAAAAATCATTGCAAATAAAATA
**
17262368 GGT
127 AAT
* * *
17262371 TTTTGCCACAATACCTTTTTATCATTACAAATATGATAAATTTTTCATAATAACTTTTTTTGTTG
1 TTTTGCAACAATACTTTTTTATCATTACAAATATGATAAATTTTTCA-AATAACTTTTTTTGTCG
* * * * *
17262436 TTGTATAAAATATAAAAAAATTACTTAAGCATCAATATTGAAAAATCATTGCAAATAAAACATAT
65 TTGTATAAAATATAAAAAAATAACTTAAGCAACGATATTGAAAAATCATTGCAAATAAAATAAAT
* * ** * * *
17262501 TTTAGTAACAATACTTTTTTATTGTTACAAATATGGTAAAAATGTTGC-AATAACTTTTTTTGTC
1 TTTTGCAACAATACTTTTTTATCATTACAAATAT-G-ATAAATTTTTCAAATAACTTTTTTTGTC
* * *
17262565 GTTGTATAAGACACAAAAAAATAACTTAAGCAACGATATTGAAAAATCATTGCAAATAAAATAAA
64 GTTGTATAAAATATAAAAAAATAACTTAAGCAACGATATTGAAAAATCATTGCAAATAAAATAAA
17262630 T
129 T
* * * * * * ** * ** *
17262631 TTTTGCAACAATAATATTTAATCATTACAAACATGACAAAAACTAGT-ATAACAACCATTTTTAT
1 TTTTGCAACAATACTTTTTTATCATTACAAATATG--ATAAATTTTTCA-AATAACTTTTTTTGT
* ** ** * **
17262695 CATTAAATAAAATATTGAAAAACAACTTAAGCAACGGCATTGAAAAATCATTGCAAATAAAATAA
63 CGTTGTATAAAATATAAAAAAATAACTTAAGCAACGATATTGAAAAATCATTGCAAATAAAATAA
*
17262760 GT
128 AT
**
17262762 TTTCACAACAAT
1 TTTTGCAACAAT
17262774 TTTTTGTTGT
Statistics
Matches: 328, Mismatches: 68, Indels: 15
0.80 0.17 0.04
Matches are distributed among these distances:
129 1 0.00
130 185 0.56
131 88 0.27
132 54 0.16
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.35
Consensus pattern (129 bp):
TTTTGCAACAATACTTTTTTATCATTACAAATATGATAAATTTTTCAAATAACTTTTTTTGTCGT
TGTATAAAATATAAAAAAATAACTTAAGCAACGATATTGAAAAATCATTGCAAATAAAATAAAT
Found at i:17265086 original size:15 final size:15
Alignment explanation
Indices: 17265066--17265226 Score: 106
Period size: 15 Copynumber: 10.7 Consensus size: 15
17265056 AATATAATAA
17265066 TATTTATTAATATAT
1 TATTTATTAATATAT
*
17265081 TATTTATTAATATAA
1 TATTTATTAATATAT
17265096 T-TTTATT--TAT-T
1 TATTTATTAATATAT
* *
17265107 TATTAATAAAT-TAT
1 TATTTATTAATATAT
17265121 T-TTTATATATTATAATAT
1 TATTTAT-TA--AT-ATAT
17265139 TATTTATTAATATATAT
1 TATTTATT-A-ATATAT
*
17265156 TATTTATAAATACTA-
1 TATTTATTAATA-TAT
*
17265171 TATTAATT--TATAT
1 TATTTATTAATATAT
*
17265184 TATATTAATAATATAT
1 TAT-TTATTAATATAT
* *
17265200 TATTAATGTAACATAT
1 TATTTAT-TAATATAT
17265216 TATTTATTAAT
1 TATTTATTAAT
17265227 TAATATAATA
Statistics
Matches: 113, Mismatches: 16, Indels: 34
0.69 0.10 0.21
Matches are distributed among these distances:
11 1 0.01
12 9 0.08
13 10 0.09
14 13 0.12
15 29 0.26
16 26 0.23
17 11 0.10
18 8 0.07
19 6 0.05
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.57
Consensus pattern (15 bp):
TATTTATTAATATAT
Found at i:17265091 original size:25 final size:25
Alignment explanation
Indices: 17265063--17265206 Score: 89
Period size: 25 Copynumber: 5.6 Consensus size: 25
17265053 AATAATATAA
17265063 TAATATTTATTAATATATTATTTAT
1 TAATATTTATTAATATATTATTTAT
* *
17265088 TAATA-TAATT-TTAT-TTATTTAT
1 TAATATTTATTAATATATTATTTAT
* ** *
17265110 TAATAAATTATTTTTATA-TATTATAA
1 TAAT-ATTTATTAATATATTATT-TAT
*
17265136 TATTATTTATTAATATATATTATTTAT
1 TAATATTTATT-A-ATATATTATTTAT
* * *
17265163 AAATACTATATTAATTTATATTATATTAA
1 TAATA-TTTATTAA--TATATTAT-TTAT
17265192 TAATATATTATTAAT
1 TAATAT-TTATTAAT
17265207 GTAACATATT
Statistics
Matches: 91, Mismatches: 15, Indels: 24
0.70 0.12 0.18
Matches are distributed among these distances:
22 12 0.13
23 4 0.04
24 8 0.09
25 19 0.21
26 6 0.07
27 11 0.12
28 18 0.20
29 13 0.14
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (25 bp):
TAATATTTATTAATATATTATTTAT
Found at i:17265096 original size:33 final size:33
Alignment explanation
Indices: 17265055--17265253 Score: 142
Period size: 36 Copynumber: 5.8 Consensus size: 33
17265045 TTGTTATTAA
*
17265055 TAATATAATAATATTTATTAATATATTATTTAT
1 TAATATAATATTATTTATTAATATATTATTTAT
*
17265088 TAATATAATTTTATTTATTTATTAATAAATTATTTTTAT
1 TAATATAA---TA-TTATTTATTAATATATTA--TTTAT
*
17265127 ATATTATAATATTATTTATTAATATA-TA-TTAT
1 -TAATATAATATTATTTATTAATATATTATTTAT
* * *
17265159 TTATA-AATACTA--TATTAATTTA-TATTATAT
1 TAATATAATATTATTTATTAATATATTATT-TAT
* *
17265189 TAATA-ATATATTATTAATGTAACATATTATTTATTAAT
1 TAATATA-ATATTATTTAT-T-A-ATA-TA-TTATTTAT
17265227 TAATATAATATTATTTATATAATATAT
1 TAATATAATATTATTTAT-TAATATAT
17265254 ATTGTAGACA
Statistics
Matches: 132, Mismatches: 15, Indels: 37
0.72 0.08 0.20
Matches are distributed among these distances:
28 11 0.08
29 1 0.01
30 14 0.11
31 8 0.06
32 4 0.03
33 10 0.08
34 2 0.02
35 5 0.04
36 21 0.16
37 21 0.16
38 18 0.14
39 10 0.08
40 7 0.05
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.55
Consensus pattern (33 bp):
TAATATAATATTATTTATTAATATATTATTTAT
Found at i:17265108 original size:22 final size:21
Alignment explanation
Indices: 17265080--17265143 Score: 78
Period size: 21 Copynumber: 3.0 Consensus size: 21
17265070 TATTAATATA
17265080 TTATTTATTAATATAATT-TTAT
1 TTATTTATTAATA-AATTATT-T
17265102 TTATTTATTAATAAATTATTT
1 TTATTTATTAATAAATTATTT
*
17265123 TTATATATT-ATAATATTATTT
1 TTATTTATTAATAA-ATTATTT
17265144 ATTAATATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
20 4 0.10
21 20 0.51
22 15 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATTTATTAATAAATTATTT
Found at i:17265139 original size:58 final size:58
Alignment explanation
Indices: 17265077--17265256 Score: 183
Period size: 58 Copynumber: 3.1 Consensus size: 58
17265067 ATTTATTAAT
* *
17265077 ATATTATTTATTAATATAATTTTATTTATTTATTAATAAATTATTTTTATATATTATA
1 ATATTATTTATTAATATAATATTATTTATTAATTAATAAATTATTTTTATATATTATA
* * * *
17265135 ATATTATTTATTAATAT-ATATTATTTA-TAAATACTATATTAATTTATATTATATTAATA
1 ATATTATTTATTAATATAATATTATTTATTAATTAATAAATT-ATTTTTA-TATATT-ATA
* *
17265194 ATA-TA-TTATTAATGTAACATATTATTTATTAATTAATATAA-TATTATTTATATAATAT-
1 ATATTATTTATTAATAT-A-ATATTATTTATTAATTAATA-AATTATT-TTTATATATTATA
17265252 ATATT
1 ATATT
17265257 GTAGACACCC
Statistics
Matches: 100, Mismatches: 12, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
56 9 0.09
57 24 0.24
58 28 0.28
59 9 0.09
60 18 0.18
61 11 0.11
62 1 0.01
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.56
Consensus pattern (58 bp):
ATATTATTTATTAATATAATATTATTTATTAATTAATAAATTATTTTTATATATTATA
Found at i:17265146 original size:40 final size:40
Alignment explanation
Indices: 17265066--17265256 Score: 127
Period size: 38 Copynumber: 4.9 Consensus size: 40
17265056 AATATAATAA
* *
17265066 TATTTATTAATATATTA--TTTAT-TAATATAATTTTATT
1 TATTTATTAATAAATTATTTTTATATAATATAATATTATT
*
17265103 TATTTATTAATAAATTATTTTTATATATTATAATATTATT
1 TATTTATTAATAAATTATTTTTATATAATATAATATTATT
* * * * * * *
17265143 TA-TTAAT-ATATATTATTTATAAATACTATATTAATT-TA
1 TATTTATTAATAAATTATTTTTATATAATATAAT-ATTATT
* *
17265181 TATTATATTAAT-AA-TA-TATTAT-TAATGTAACATATTATT
1 TATT-TATTAATAAATTATTTTTATATAATAT-A-ATATTATT
*
17265220 TATTAATTAATATAA-TATTATTTATATAATAT-ATATT
1 TATTTATTAATA-AATTATT-TTTATATAATATAATATT
17265257 GTAGACACCC
Statistics
Matches: 117, Mismatches: 22, Indels: 27
0.70 0.13 0.16
Matches are distributed among these distances:
37 20 0.17
38 36 0.31
39 21 0.18
40 28 0.24
41 3 0.03
42 4 0.03
43 5 0.04
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (40 bp):
TATTTATTAATAAATTATTTTTATATAATATAATATTATT
Found at i:17265219 original size:19 final size:18
Alignment explanation
Indices: 17265196--17265241 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
17265186 TATTAATAAT
17265196 ATATTATTAATGTAACATA
1 ATATTATTAAT-TAACATA
* *
17265215 TTATTTATTAATTAATATA
1 ATA-TTATTAATTAACATA
17265234 ATATTATT
1 ATATTATT
17265242 TATATAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 5 0.22
19 10 0.43
20 8 0.35
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (18 bp):
ATATTATTAATTAACATA
Found at i:17265256 original size:15 final size:15
Alignment explanation
Indices: 17265057--17265256 Score: 71
Period size: 13 Copynumber: 13.9 Consensus size: 15
17265047 GTTATTAATA
17265057 ATATAATA-ATATTT
1 ATATAATATATATTT
17265071 AT-TAATATATTATTT
1 ATATAATATA-TATTT
17265086 AT-TAATATA-ATTT
1 ATATAATATATATTT
* * *
17265099 -TAT-TTATTTATTA
1 ATATAATATATATTT
*
17265112 ATA-AAT-TATTTTT
1 ATATAATATATATTT
17265125 ATATATTATAATATTATTT
1 ATATA--AT-ATA-TATTT
17265144 AT-TAATATATATTAT
1 ATATAATATATATT-T
*
17265159 TTATAA-ATACTA--T
1 ATATAATATA-TATTT
*
17265172 AT-TAATTTATA-TT
1 ATATAATATATATTT
17265185 ATATTAATA-ATATATT
1 ATA-TAATATATAT-TT
* *
17265201 AT-TAATGTAACATATT
1 ATATAATAT-ATAT-TT
* *
17265217 AT-TTAT-TA-ATTA
1 ATATAATATATATTT
17265229 ATATAATAT-TATTT
1 ATATAATATATATTT
17265243 ATATAATATATATT
1 ATATAATATATATT
17265257 GTAGACACCC
Statistics
Matches: 141, Mismatches: 18, Indels: 53
0.67 0.08 0.25
Matches are distributed among these distances:
12 12 0.09
13 32 0.23
14 32 0.23
15 31 0.22
16 24 0.17
18 4 0.03
19 6 0.04
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (15 bp):
ATATAATATATATTT
Found at i:17265350 original size:58 final size:58
Alignment explanation
Indices: 17265260--17265369 Score: 184
Period size: 58 Copynumber: 1.9 Consensus size: 58
17265250 ATATATTGTA
* *
17265260 GACACCCAATTTGGTCCAGGCCCGGACCAATTGGGCCTGGCCCAAATAGGTAAGTGGG
1 GACACCCAATTGGGTCCAGGCCCAGACCAATTGGGCCTGGCCCAAATAGGTAAGTGGG
* *
17265318 GACACCCAATTGGGTCCAGGCCCAGATCAATTGGGCCTGGCCCAAATGGGTA
1 GACACCCAATTGGGTCCAGGCCCAGACCAATTGGGCCTGGCCCAAATAGGTA
17265370 TGACCCAATT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 48 1.00
ACGTcount: A:0.25, C:0.28, G:0.30, T:0.17
Consensus pattern (58 bp):
GACACCCAATTGGGTCCAGGCCCAGACCAATTGGGCCTGGCCCAAATAGGTAAGTGGG
Found at i:17265428 original size:3 final size:3
Alignment explanation
Indices: 17265392--17265511 Score: 58
Period size: 3 Copynumber: 39.3 Consensus size: 3
17265382 ATTTGTCCTG
17265392 TAT TAT T-T TA- TAT T-T TAT GTAT T-T TAT TATT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TA-T TAT TAT TAT TAT
* * * *
17265435 TAT TAT GTAT TAA TAT ATAT T-T TTT TAT TA- GAT TA- GAT T-T ATAT
1 TAT TAT -TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
17265479 GTAT ATAGT TAT ATATT TAT TAT TAT TAT TAT T
1 -TAT -TA-T TAT -TA-T TAT TAT TAT TAT TAT T
17265512 TTTTTTTTGT
Statistics
Matches: 92, Mismatches: 9, Indels: 32
0.69 0.07 0.24
Matches are distributed among these distances:
2 13 0.14
3 53 0.58
4 24 0.26
5 2 0.02
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:17265511 original size:16 final size:16
Alignment explanation
Indices: 17265392--17265512 Score: 65
Period size: 16 Copynumber: 7.1 Consensus size: 16
17265382 ATTTGTCCTG
17265392 TATTATT-TTA-TATTT
1 TATTATTATTATTA-TT
17265407 TATGTATT-TTATTATT
1 TAT-TATTATTATTATT
17265423 TATTATTATTATTA-T
1 TATTATTATTATTATT
*
17265438 TATGTATTAATATATATT
1 TAT-TATTATTAT-TATT
17265456 T-TT-TTATTAGATTAGATTT
1 TATTATTATT--ATT--A-TT
17265475 ATATGTATATAGTTATATATT
1 -TAT-TAT-TA-TTAT-TATT
17265496 TATTATTATTATTATT
1 TATTATTATTATTATT
17265512 T
1 T
17265513 TTTTTTTGTT
Statistics
Matches: 86, Mismatches: 2, Indels: 35
0.70 0.02 0.28
Matches are distributed among these distances:
15 15 0.17
16 33 0.38
17 11 0.13
18 5 0.06
19 5 0.06
20 4 0.05
21 3 0.03
22 2 0.02
23 3 0.03
24 3 0.03
25 2 0.02
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (16 bp):
TATTATTATTATTATT
Found at i:17265992 original size:26 final size:25
Alignment explanation
Indices: 17265958--17266006 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
17265948 TCATCAGAAA
*
17265958 TTTTTTGGGAATTTTTCGAAATTTT
1 TTTTTTGGGAATTTCTCGAAATTTT
*
17265983 TTTTTCTGGGAATTTCTGGAAATT
1 TTTTT-TGGGAATTTCTCGAAATT
17266007 CCAGATTCCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.20, C:0.06, G:0.18, T:0.55
Consensus pattern (25 bp):
TTTTTTGGGAATTTCTCGAAATTTT
Found at i:17266170 original size:19 final size:20
Alignment explanation
Indices: 17266146--17266195 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
17266136 TTCGGCGAAC
17266146 TTCCGGC-AAAATTTCCAGA
1 TTCCGGCGAAAATTTCCAGA
*
17266165 TTCCGGCGACAATTTCCAGA
1 TTCCGGCGAAAATTTCCAGA
* *
17266185 ATCCGACGAAA
1 TTCCGGCGAAA
17266196 TCCCACCGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (20 bp):
TTCCGGCGAAAATTTCCAGA
Found at i:17266657 original size:15 final size:16
Alignment explanation
Indices: 17266631--17266670 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
17266621 TTTTACTTTC
17266631 CTTTATTT-TTTT-AT
1 CTTTATTTATTTTCAT
17266645 CTTTATTTATTTTCAT
1 CTTTATTTATTTTCAT
*
17266661 -TTTTTTTATT
1 CTTTATTTATT
17266671 ATTCTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 8 0.35
15 13 0.57
16 2 0.09
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (16 bp):
CTTTATTTATTTTCAT
Found at i:17266920 original size:58 final size:59
Alignment explanation
Indices: 17266699--17267045 Score: 449
Period size: 58 Copynumber: 5.9 Consensus size: 59
17266689 AAAAAAATCA
* *
17266699 AAATTTCCAAAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
1 AAATTTTCAAAAAAAAAATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
*
17266758 AAATTTTCAAAAAAAAAGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
1 AAATTTTCAAAAAAAAA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
*
17266818 CAAAATTTTCAAAAAAAAAAAATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
1 --AAATTTTC--AAAAAAAAAATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
*
17266881 AAA-TTTCAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT---AAT
1 AAATTTTCAAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* **
17266936 AAATTTTCAAAAAAATAAATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCC-TCGAAAT
1 AAATTTTCAAAAAAA-AAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* * * *
17266995 CAAAATTTC-AAAAAAATATCTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 -AAATTTTCAAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
17267046 CTGCACAAGA
Statistics
Matches: 261, Mismatches: 13, Indels: 29
0.86 0.04 0.10
Matches are distributed among these distances:
55 6 0.02
56 12 0.05
57 34 0.13
58 74 0.28
59 25 0.10
60 51 0.20
61 3 0.01
62 8 0.03
63 39 0.15
64 9 0.03
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (59 bp):
AAATTTTCAAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
Found at i:17267008 original size:115 final size:116
Alignment explanation
Indices: 17266693--17267045 Score: 489
Period size: 115 Copynumber: 3.0 Consensus size: 116
17266683 TTAAATAAAA
* * *
17266693 AAATCAAAATTTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
1 AAAT-AAAATTTTCAAAAAAAAAATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC-TAGAAAT
*
17266758 AAATTTTCAAAAAAAAAGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
64 AAAATTTC-AAAAAAAAGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
*
17266812 AAAAATCAAAATTTTCAAAAAAAAAAAATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGA
1 --AAAT-AAAATTTTC--AAAAAAAAAATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTAGA
*
17266877 AA-ATAAATTTCAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
61 AATA-AAATTTCAAAAAAAAGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
* *
17266933 -AAT-AAATTTTCAAAAAAATAAATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATC
1 AAATAAAATTTTCAAAAAAA-AAATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTAGAAAT-
* *
17266996 AAAATTTC-AAAAAAATATCTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
64 AAAATTTCAAAAAAAAGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
17267046 CTGCACAAGA
Statistics
Matches: 215, Mismatches: 11, Indels: 18
0.88 0.05 0.07
Matches are distributed among these distances:
114 7 0.03
115 79 0.37
116 15 0.07
117 1 0.00
118 3 0.01
121 58 0.27
122 10 0.05
123 42 0.20
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (116 bp):
AAATAAAATTTTCAAAAAAAAAATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTAGAAATAA
AATTTCAAAAAAAAGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
Found at i:17267543 original size:15 final size:16
Alignment explanation
Indices: 17267523--17267554 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
17267513 GACATATATA
17267523 ATAATATTTAT-TAAT
1 ATAATATTTATATAAT
17267538 ATAATATTTATATAAT
1 ATAATATTTATATAAT
17267554 A
1 A
17267555 AAAATATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATAATATTTATATAAT
Found at i:17269694 original size:3 final size:3
Alignment explanation
Indices: 17269686--17269727 Score: 61
Period size: 3 Copynumber: 14.3 Consensus size: 3
17269676 GACAAAAGAC
17269686 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATGA A-A ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA A
17269728 AAAATTAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 4 0.11
3 30 0.83
4 2 0.06
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:17271905 original size:21 final size:19
Alignment explanation
Indices: 17271863--17271905 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
17271853 GGAAAAAAAC
*
17271863 AAAAGAAAAAAAAAAGATG
1 AAAAGAAAAAAAAAAGAGG
*
17271882 AAAAGAATAAAAAAGAAGGGG
1 AAAAGAA-AAAAAA-AAGAGG
17271903 AAA
1 AAA
17271906 TGAGAGGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 6 0.30
21 7 0.35
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (19 bp):
AAAAGAAAAAAAAAAGAGG
Found at i:17272284 original size:24 final size:23
Alignment explanation
Indices: 17272229--17272282 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 23
17272219 TTTTCTTTTG
17272229 TATTTTATGTATTCTATTATTAT
1 TATTTTATGTATTCTATTATTAT
17272252 TATTATTATGTATATCT-TTATTCATT
1 TATT-TTATGTAT-TCTATTATT-A-T
17272278 TATTT
1 TATTT
17272283 ATTTTTATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 4 0.15
24 13 0.48
25 5 0.19
26 5 0.19
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.65
Consensus pattern (23 bp):
TATTTTATGTATTCTATTATTAT
Found at i:17273014 original size:20 final size:20
Alignment explanation
Indices: 17272971--17273015 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
17272961 CCGGCCAACT
*
17272971 TCCGGCGAAAAAACCCAGAT
1 TCCGGCGAAAAAACCCAGAA
***
17272991 TCCGGCGAAAATTTCCAGAA
1 TCCGGCGAAAAAACCCAGAA
17273011 TCCGG
1 TCCGG
17273016 TGAATCTTCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (20 bp):
TCCGGCGAAAAAACCCAGAA
Found at i:17273278 original size:14 final size:15
Alignment explanation
Indices: 17273261--17273302 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
17273251 GCGAGCCGAG
17273261 CCGAGCCGTTCTTC-
1 CCGAGCCGTTCTTCT
17273275 CCGAGCCG--CTTCT
1 CCGAGCCGTTCTTCT
17273288 CCGAGCCGTT-TTCT
1 CCGAGCCGTTCTTCT
17273302 C
1 C
17273303 TTCCTTGAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 4 0.16
13 8 0.32
14 13 0.52
ACGTcount: A:0.07, C:0.43, G:0.21, T:0.29
Consensus pattern (15 bp):
CCGAGCCGTTCTTCT
Found at i:17273293 original size:13 final size:14
Alignment explanation
Indices: 17273261--17273297 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
17273251 GCGAGCCGAG
17273261 CCGAGCCGTTCTTC
1 CCGAGCCGTTCTTC
17273275 CCGAGCCG--CTTC
1 CCGAGCCGTTCTTC
17273287 TCCGAGCCGTT
1 -CCGAGCCGTT
17273298 TTCTCTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 4 0.20
13 8 0.40
14 8 0.40
ACGTcount: A:0.08, C:0.43, G:0.24, T:0.24
Consensus pattern (14 bp):
CCGAGCCGTTCTTC
Found at i:17273374 original size:17 final size:15
Alignment explanation
Indices: 17273354--17273404 Score: 74
Period size: 15 Copynumber: 3.7 Consensus size: 15
17273344 CCAGGCTTTT
17273354 TTTTTTTTTTTTGAA
1 TTTTTTTTTTTTGAA
17273369 ----TTTTTTTTGAA
1 TTTTTTTTTTTTGAA
17273380 TTTTTTTTTTTTGAA
1 TTTTTTTTTTTTGAA
17273395 TTTTTTTTTT
1 TTTTTTTTTT
17273405 ATTTGACTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
11 11 0.34
15 21 0.66
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (15 bp):
TTTTTTTTTTTTGAA
Found at i:17273402 original size:11 final size:11
Alignment explanation
Indices: 17273358--17273387 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
17273348 GCTTTTTTTT
17273358 TTTTTTTTGAA
1 TTTTTTTTGAA
17273369 TTTTTTTTGAA
1 TTTTTTTTGAA
17273380 TTTTTTTT
1 TTTTTTTT
17273388 TTTTGAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:17273408 original size:26 final size:26
Alignment explanation
Indices: 17273350--17273408 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
17273340 CGCTCCAGGC
17273350 TTTT-TTTTTTTTTTTTGAATTTTTT
1 TTTTATTTTTTTTTTTTGAATTTTTT
**
17273375 TTGAATTTTTTTTTTTTGAATTTTTT
1 TTTTATTTTTTTTTTTTGAATTTTTT
17273401 TTTTATTT
1 TTTTATTT
17273409 GACTTTGATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 2 0.07
26 27 0.93
ACGTcount: A:0.12, C:0.00, G:0.05, T:0.83
Consensus pattern (26 bp):
TTTTATTTTTTTTTTTTGAATTTTTT
Found at i:17273409 original size:17 final size:16
Alignment explanation
Indices: 17273369--17273410 Score: 68
Period size: 15 Copynumber: 2.6 Consensus size: 16
17273359 TTTTTTTGAA
17273369 TTTTTTTTGAA-TTTT
1 TTTTTTTTGAATTTTT
17273384 TTTTTTTTGAATTTTT
1 TTTTTTTTGAATTTTT
17273400 TTTTTATTTGA
1 TTTTT-TTTGA
17273411 CTTTGATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 11 0.44
16 9 0.36
17 5 0.20
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (16 bp):
TTTTTTTTGAATTTTT
Found at i:17273607 original size:152 final size:152
Alignment explanation
Indices: 17273434--17273731 Score: 542
Period size: 152 Copynumber: 2.0 Consensus size: 152
17273424 CTTGATTTTT
*
17273434 TTTTCTTTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
1 TTTTCTTTTTTCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTCTTGC
* *
17273499 ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAGAATAA
66 ATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
* *
17273564 TTTCCAATAATTAATTGGATGA
131 TTTCCAACAACTAATTGGATGA
*
17273586 TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTCTTGC
1 TTTTCTTTTTTCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTCTTGC
17273651 ATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
66 ATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
17273716 TTTCCAACAACTAATT
131 TTTCCAACAACTAATT
17273732 ACTTGGTAAA
Statistics
Matches: 140, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
152 140 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (152 bp):
TTTTCTTTTTTCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTCTTGC
ATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
TTTCCAACAACTAATTGGATGA
Found at i:17277387 original size:13 final size:13
Alignment explanation
Indices: 17277369--17277393 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17277359 ATCAACAATG
17277369 GATGAAAAAAAAT
1 GATGAAAAAAAAT
17277382 GATGAAAAAAAA
1 GATGAAAAAAAA
17277394 AAGAAAAAAA
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:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (13 bp):
GATGAAAAAAAAT
Found at i:17277390 original size:1 final size:1
Alignment explanation
Indices: 17277386--17277464 Score: 50
Period size: 1 Copynumber: 79.0 Consensus size: 1
17277376 AAAAATGATG
* ** * ** * ** *
17277386 AAAAAAAAAAGAAAAAAAAAAGGAAAAAAAAAGAAAAAATGAAAAAAAAAAGAAGGAAAAAAAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
17277451 GAAAATAAAAAAAA
1 AAAAAAAAAAAAAA
17277465 GAGATTCAAA
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.03
Consensus pattern (1 bp):
A
Found at i:17277399 original size:11 final size:11
Alignment explanation
Indices: 17277385--17277462 Score: 86
Period size: 11 Copynumber: 7.0 Consensus size: 11
17277375 AAAAAATGAT
17277385 GAAAAAAAAAA
1 GAAAAAAAAAA
17277396 GAAAAAAAAAA
1 GAAAAAAAAAA
*
17277407 GGAAAAAAAAA
1 GAAAAAAAAAA
*
17277418 GAAAAAATGAAA
1 GAAAAAA-AAAA
*
17277430 -AAAAAAAGAA
1 GAAAAAAAAAA
* *
17277440 GGAAAAAAAGA
1 GAAAAAAAAAA
17277451 GAAAATAAAAAA
1 GAAAA-AAAAAA
17277463 AAGAGATTCA
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
10 2 0.04
11 44 0.81
12 8 0.15
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:17277412 original size:18 final size:17
Alignment explanation
Indices: 17277391--17277448 Score: 66
Period size: 18 Copynumber: 3.4 Consensus size: 17
17277381 TGATGAAAAA
17277391 AAAAAGAAAAAAAAAAGG
1 AAAAA-AAAAAAAAAAGG
*
17277409 AAAAAAAAAGAAAAAATG
1 AAAAAAAAA-AAAAAAGG
*
17277427 --AAAAAAAAAAGAAGG
1 AAAAAAAAAAAAAAAGG
17277442 AAAAAAA
1 AAAAAAA
17277449 GAGAAAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
15 6 0.18
16 7 0.21
17 9 0.26
18 12 0.35
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (17 bp):
AAAAAAAAAAAAAAAGG
Found at i:17277446 original size:44 final size:45
Alignment explanation
Indices: 17277375--17277462 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 45
17277365 AATGGATGAA
* *
17277375 AAAAAATGATGAAAAAAAAAAGAAAAAAAAAAGGAAA-AAAAAAG
1 AAAAAATGATAAAAAAAAAAAGAAAAAAAAAAGAAAATAAAAAAG
* *
17277419 AAAAAATGA-AAAAAAAAAGAAGGAAAAAAAGAGAAAATAAAAAA
1 AAAAAATGATAAAAAAAAA-AAGAAAAAAAAAAGAAAATAAAAAA
17277463 AAGAGATTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 8 0.21
44 24 0.63
45 6 0.16
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.05
Consensus pattern (45 bp):
AAAAAATGATAAAAAAAAAAAGAAAAAAAAAAGAAAATAAAAAAG
Found at i:17277456 original size:31 final size:30
Alignment explanation
Indices: 17277386--17277464 Score: 103
Period size: 30 Copynumber: 2.7 Consensus size: 30
17277376 AAAAATGATG
17277386 AAAA-AAAAAA-GAAAAAAAAAAGGAAAAA
1 AAAAGAAAAAATGAAAAAAAAAAGGAAAAA
17277414 AAAAGAAAAAATGAAAAAAAAAA-GAAGGAAA
1 AAAAGAAAAAATGAAAAAAAAAAGGAA--AAA
*
17277445 AAAAGAGAAAAT-AAAAAAAA
1 AAAAGAAAAAATGAAAAAAAA
17277465 GAGATTCAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
28 4 0.09
29 9 0.20
30 19 0.41
31 14 0.30
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.03
Consensus pattern (30 bp):
AAAAGAAAAAATGAAAAAAAAAAGGAAAAA
Found at i:17277464 original size:41 final size:41
Alignment explanation
Indices: 17277373--17277469 Score: 124
Period size: 41 Copynumber: 2.3 Consensus size: 41
17277363 ACAATGGATG
*
17277373 AAAAAAAATGATGAAAAAAAAAAGAAAAAAAAAAGGAAAAA
1 AAAAAAAAAGATGAAAAAAAAAAGAAAAAAAAAAGGAAAAA
*
17277414 AAAAGAAAAA-ATGAAAAAAAAAAGAAGGAAAAAAAGAGAAAATA
1 AAAA-AAAAAGATGAAAAAAAAAAGAA-AAAAAAAAG-GAAAA-A
*
17277458 AAAAAAAGAGAT
1 AAAAAAAAAGAT
17277470 TCAAATTGAA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
41 20 0.42
42 12 0.25
43 9 0.19
44 7 0.15
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.05
Consensus pattern (41 bp):
AAAAAAAAAGATGAAAAAAAAAAGAAAAAAAAAAGGAAAAA
Found at i:17277467 original size:16 final size:16
Alignment explanation
Indices: 17277410--17277468 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 16
17277400 AAAAAAAGGA
*
17277410 AAAAAAAAGAAAAAAT
1 AAAAAAAAGAGAAAAT
* *
17277426 GAAAAAAAA-A-AGAAG
1 -AAAAAAAAGAGAAAAT
*
17277441 GAAAAAAAGAGAAAAT
1 AAAAAAAAGAGAAAAT
17277457 AAAAAAAAGAGA
1 AAAAAAAAGAGA
17277469 TTCAAATTGA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
14 7 0.21
15 4 0.12
16 15 0.44
17 8 0.24
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAAAAAGAGAAAAT
Found at i:17278741 original size:41 final size:41
Alignment explanation
Indices: 17278660--17279453 Score: 1256
Period size: 41 Copynumber: 19.5 Consensus size: 41
17278650 AAAGTTCCGT
*
17278660 TGCCTCTGTTTTAGAGGAGCAATTTATCTTTTCAAAGTCGTGG
1 TGCCTCTG-TTGAGAGGAGCAATTTA-CTTTTCAAAGTCGTGG
17278703 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
17278744 TACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
17278785 TGCCTCTGTTGAGAGGAGCAATTTATTTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTA-CTTTTCAAAGTCGTGG
17278827 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
17278868 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
17278909 TGCCTCTGTTGAGAGGAGCAATTTA-TTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
17278949 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
17278990 TGCCTCTGTTGAGAGGAGCAATTTATTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
17279031 TGCCCTCTGTTGAGAGGAGCAA-TTAC-TTTCCAAGTCGTGG
1 TG-CCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
17279071 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTT-CAAAGTCGTGG
17279113 TGCCTCTGTTGAGAGGAGCAATTTA-TTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
17279153 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTT-CAAAGTCGTGG
*
17279195 TGCCTCTGTT--GAGGAGCAATTTACTTTCCAAAGTCGT--
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
17279232 TGCCTCTGTTTAGAGGAGCAATTTA-TTTTCCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTT-CAAAGTCGTGG
*
17279273 TGCCTCTGTTTAGAGGAGCAATTTAC-TTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
17279313 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTT-CAAAGTCGTGG
17279355 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAAGTC---G
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTC-AAAGTCGTGG
* *
17279394 TGCCTCTGTTTAGAGGAGCAATTTAC-TTTCAAAAGTCGTTG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTC-AAAGTCGTGG
* * *
17279435 AGTCTCTGTTTAGAGGAGC
1 TGCCTCTGTTGAGAGGAGC
17279454 TTCGGCAAAA
Statistics
Matches: 713, Mismatches: 18, Indels: 42
0.92 0.02 0.05
Matches are distributed among these distances:
37 10 0.01
38 14 0.02
39 75 0.11
40 148 0.21
41 282 0.40
42 176 0.25
43 8 0.01
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.35
Consensus pattern (41 bp):
TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
Found at i:17279466 original size:1 final size:1
Alignment explanation
Indices: 17279460--17279574 Score: 104
Period size: 1 Copynumber: 115.0 Consensus size: 1
17279450 GAGCTTCGGC
* * * * **
17279460 AAAAAAAAAAAAAAAAAAAACAAAAAACAAAACAAAAAAAAAAAAAACAAAAAAAAATCAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** * ** ** *
17279525 ATCAAAAAAAAAAAAAAAAACAAAATCAAAAAAAAATCAAAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
17279575 TGTTGAGTTG
Statistics
Matches: 90, Mismatches: 24, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 90 1.00
ACGTcount: A:0.88, C:0.08, G:0.00, T:0.04
Consensus pattern (1 bp):
A
Found at i:17279496 original size:33 final size:32
Alignment explanation
Indices: 17279459--17279574 Score: 135
Period size: 36 Copynumber: 3.4 Consensus size: 32
17279449 GGAGCTTCGG
17279459 CAAAAAAAAAAAAAAAAAAAACAAAAAACAAAA
1 CAAAAAAAAAAAAAAAAAAAACAAAAAA-AAAA
17279492 CAAAAAAAAAAAAAACAAAAAA-AAATCAAAAAAA
1 CAAAAAAAAAAAAAA-AAAAAACAAA--AAAAAAA
*
17279526 TCAAAAAAAAAAAAAAAAACAAAATCAAAAAAAAAT
1 -C-AAAAAAAAAAAAAAAA-AAAA-CAAAAAAAAAA
*
17279562 CAAAAAATAAAAA
1 CAAAAAAAAAAAA
17279575 TGTTGAGTTG
Statistics
Matches: 73, Mismatches: 2, Indels: 15
0.81 0.02 0.17
Matches are distributed among these distances:
33 18 0.25
34 21 0.29
35 7 0.10
36 24 0.33
38 3 0.04
ACGTcount: A:0.87, C:0.09, G:0.00, T:0.04
Consensus pattern (32 bp):
CAAAAAAAAAAAAAAAAAAAACAAAAAAAAAA
Found at i:17279506 original size:35 final size:34
Alignment explanation
Indices: 17279460--17279574 Score: 151
Period size: 35 Copynumber: 3.3 Consensus size: 34
17279450 GAGCTTCGGC
*
17279460 AAAAAAAAAAAAAAAAAAAACAAAAAACAAAACAA
1 AAAAAAAAAAAAAAAAAAAACAAAAAA-AAATCAA
*
17279495 AAAAAAAAAAAACAAAAAAAA-ATCAAAAAAATCAA
1 AAAAAAAAAAAA-AAAAAAAACA-AAAAAAAATCAA
*
17279530 AAAAAAAAAAAAAAACAAAATCAAAAAAAAATCAA
1 AAAAAAAAAAAAAAA-AAAAACAAAAAAAAATCAA
*
17279565 AAAATAAAAA
1 AAAAAAAAAA
17279575 TGTTGAGTTG
Statistics
Matches: 71, Mismatches: 5, Indels: 8
0.85 0.06 0.10
Matches are distributed among these distances:
34 3 0.04
35 55 0.77
36 13 0.18
ACGTcount: A:0.88, C:0.08, G:0.00, T:0.04
Consensus pattern (34 bp):
AAAAAAAAAAAAAAAAAAAACAAAAAAAAATCAA
Found at i:17279799 original size:24 final size:23
Alignment explanation
Indices: 17279744--17279797 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 23
17279734 TTTTCTTTTG
17279744 TATTTTATGTATTCTATTATTAT
1 TATTTTATGTATTCTATTATTAT
17279767 TATTATTATGTATATCT-TTATTCATT
1 TATT-TTATGTAT-TCTATTATT-A-T
17279793 TATTT
1 TATTT
17279798 ATTTTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 4 0.15
24 13 0.48
25 5 0.19
26 5 0.19
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.65
Consensus pattern (23 bp):
TATTTTATGTATTCTATTATTAT
Found at i:17280525 original size:20 final size:20
Alignment explanation
Indices: 17280482--17280526 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
17280472 CCGGCCAACT
*
17280482 TCCGGCGAAAAAACCCAGAT
1 TCCGGCGAAAAAACCCAGAA
***
17280502 TCCGGCGAAAATTTCCAGAA
1 TCCGGCGAAAAAACCCAGAA
17280522 TCCGG
1 TCCGG
17280527 TGAATCTTCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (20 bp):
TCCGGCGAAAAAACCCAGAA
Found at i:17280787 original size:14 final size:15
Alignment explanation
Indices: 17280770--17280811 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
17280760 GCGAGCCGAG
17280770 CCGAGCCGTTCTTC-
1 CCGAGCCGTTCTTCT
17280784 CCGAGCCG--CTTCT
1 CCGAGCCGTTCTTCT
17280797 CCGAGCCGTT-TTCT
1 CCGAGCCGTTCTTCT
17280811 C
1 C
17280812 TTCCTTGAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 4 0.16
13 8 0.32
14 13 0.52
ACGTcount: A:0.07, C:0.43, G:0.21, T:0.29
Consensus pattern (15 bp):
CCGAGCCGTTCTTCT
Found at i:17280802 original size:13 final size:14
Alignment explanation
Indices: 17280770--17280806 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
17280760 GCGAGCCGAG
17280770 CCGAGCCGTTCTTC
1 CCGAGCCGTTCTTC
17280784 CCGAGCCG--CTTC
1 CCGAGCCGTTCTTC
17280796 TCCGAGCCGTT
1 -CCGAGCCGTT
17280807 TTCTCTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 4 0.20
13 8 0.40
14 8 0.40
ACGTcount: A:0.08, C:0.43, G:0.24, T:0.24
Consensus pattern (14 bp):
CCGAGCCGTTCTTC
Found at i:17280881 original size:12 final size:12
Alignment explanation
Indices: 17280864--17280911 Score: 69
Period size: 12 Copynumber: 3.8 Consensus size: 12
17280854 CCAGGCTTTT
17280864 TTTTTTTTTGAA
1 TTTTTTTTTGAA
17280876 TTTTTTTTTGAA
1 TTTTTTTTTGAA
17280888 TTTTTTTTTTTTGAA
1 ---TTTTTTTTTGAA
17280903 TTTTTTTTT
1 TTTTTTTTT
17280912 TATTGACTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
12 21 0.64
15 12 0.36
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.81
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:17280881 original size:15 final size:15
Alignment explanation
Indices: 17280861--17280917 Score: 84
Period size: 15 Copynumber: 3.9 Consensus size: 15
17280851 CTCCCAGGCT
17280861 TTTTTTTTTTTTGAA
1 TTTTTTTTTTTTGAA
17280876 ---TTTTTTTTTGAA
1 TTTTTTTTTTTTGAA
17280888 TTTTTTTTTTTTGAA
1 TTTTTTTTTTTTGAA
17280903 TTTTTTTTTTATTGA
1 TTTTTTTTTT-TTGA
17280918 CTTTGATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
12 12 0.32
15 22 0.58
16 4 0.11
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (15 bp):
TTTTTTTTTTTTGAA
Found at i:17281174 original size:151 final size:152
Alignment explanation
Indices: 17280946--17281236 Score: 530
Period size: 151 Copynumber: 1.9 Consensus size: 152
17280936 TTTTTTTTTC
*
17280946 TTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTC
1 TTTTTCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTC
* *
17281011 TTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAGAATAATTTCCA
66 CTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCA
* *
17281076 ATAATTAATTGGATGATTTTGT
131 ACAACTAATTGGATGATTTTGT
17281098 TTTTTCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTG-AACAGTAGTTTTTCTTGCATACTC
1 TTTTTCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTC
17281162 CTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCA
66 CTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCA
17281227 ACAACTAATT
131 ACAACTAATT
17281237 ACTTGGTAAA
Statistics
Matches: 134, Mismatches: 5, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
151 95 0.71
152 39 0.29
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (152 bp):
TTTTTCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTC
CTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCA
ACAACTAATTGGATGATTTTGT
Found at i:17283558 original size:59 final size:59
Alignment explanation
Indices: 17283436--17283599 Score: 188
Period size: 59 Copynumber: 2.8 Consensus size: 59
17283426 TTTTTTAAAA
* * * ** *
17283436 AAAAATTTGGTACTTTCAACTTTT-TCTAAAAATGTTTTTCT-GAAACTTTAATTTCTAG
1 AAAAA-TTGATACTTTCAACTTTTCTCTAAAAATATTTTTTTAGAAAAATTAATTTCAAG
* * *
17283494 AAAAATTGATACTTTCAACTTTTCTTTTAAAATATTTTTTTAGAAAAATTATTTTCAAG
1 AAAAATTGATACTTTCAACTTTTCTCTAAAAATATTTTTTTAGAAAAATTAATTTCAAG
* *
17283553 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTAGAA
1 AAAAATTGATACTTTCAACTTTT-CTCTAAAA-ATATTTTTTTAGAA
17283600 TTTTATTTTA
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
57 17 0.19
58 18 0.20
59 35 0.39
60 5 0.06
61 14 0.16
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.46
Consensus pattern (59 bp):
AAAAATTGATACTTTCAACTTTTCTCTAAAAATATTTTTTTAGAAAAATTAATTTCAAG
Found at i:17284434 original size:17 final size:17
Alignment explanation
Indices: 17284412--17284542 Score: 100
Period size: 17 Copynumber: 8.1 Consensus size: 17
17284402 ATCAAGCAAA
17284412 AGATAAAGTAA-AAAAAT
1 AGATAAA-TAATAAAAAT
*
17284429 AGATAAATAAT-AGAAT
1 AGATAAATAATAAAAAT
* *
17284445 AAATAAAAAATAAAAAT
1 AGATAAATAATAAAAAT
17284462 AGATAAATAATAAAAA-
1 AGATAAATAATAAAAAT
* *
17284478 ATATTAATAGAT--AAAT
1 AGATAAATA-ATAAAAAT
*
17284494 A-ATAAAAAAT-AAAA-
1 AGATAAATAATAAAAAT
*
17284508 A-ATAAATATTAATAAAT
1 AGATAAATAATAA-AAAT
*
17284525 AGACAAATAATAAAAAT
1 AGATAAATAATAAAAAT
17284542 A
1 A
17284543 AAAATAAAAA
Statistics
Matches: 91, Mismatches: 14, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
14 10 0.11
15 12 0.13
16 27 0.30
17 33 0.36
18 9 0.10
ACGTcount: A:0.71, C:0.01, G:0.05, T:0.23
Consensus pattern (17 bp):
AGATAAATAATAAAAAT
Found at i:17284457 original size:7 final size:7
Alignment explanation
Indices: 17284431--17284557 Score: 67
Period size: 7 Copynumber: 16.7 Consensus size: 7
17284421 AAAAAAATAG
*
17284431 ATAAATA
1 ATAAAAA
17284438 ATAGAATAA
1 ATA-AA-AA
17284447 ATAAAAA
1 ATAAAAA
17284454 ATAAAAATA
1 AT-AAAA-A
*
17284463 GATAAATA
1 -ATAAAAA
17284471 ATAAAAA
1 ATAAAAA
*
17284478 ATATTAATAG
1 ATA--AA-AA
*
17284488 ATAAATA
1 ATAAAAA
17284495 ATAAAAA
1 ATAAAAA
17284502 ATAAAAA
1 ATAAAAA
*
17284509 ATAAATA
1 ATAAAAA
* *
17284516 TTAATAA
1 ATAAAAA
*
17284523 ATAGACAA
1 ATA-AAAA
17284531 ATAATAAA
1 ATAA-AAA
17284539 A-ATAAAA
1 ATA-AAAA
17284546 ATAAAAA
1 ATAAAAA
*
17284553 TTAAA
1 ATAAA
17284558 GCCAATTGGG
Statistics
Matches: 93, Mismatches: 15, Indels: 24
0.70 0.11 0.18
Matches are distributed among these distances:
7 55 0.59
8 22 0.24
9 10 0.11
10 6 0.06
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.24
Consensus pattern (7 bp):
ATAAAAA
Found at i:17284478 original size:24 final size:23
Alignment explanation
Indices: 17284423--17284553 Score: 76
Period size: 24 Copynumber: 5.6 Consensus size: 23
17284413 GATAAAGTAA
17284423 AAAAATAGATAAATAATAGAATAAAT
1 AAAAATA-ATAAATAATA-AA-AAAT
*
17284449 AAAAAATAA-AAATAGATAAATAAT
1 -AAAAATAATAAATA-ATAAAAAAT
* *
17284473 AAAAA-ATATTAATAGATAAATAAT
1 AAAAATA-ATAAATA-ATAAAAAAT
* * *
17284497 -AAAA-AATAAAAAATAAATATT
1 AAAAATAATAAATAATAAAAAAT
*
17284518 AATAAATAGACAAATAAT-AAAAAT
1 AA-AAATA-ATAAATAATAAAAAAT
17284542 AAAAATAA-AAAT
1 AAAAATAATAAAT
17284554 TAAAGCCAAT
Statistics
Matches: 88, Mismatches: 9, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
21 12 0.14
22 8 0.09
23 19 0.22
24 24 0.27
25 14 0.16
26 4 0.05
27 7 0.08
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.23
Consensus pattern (23 bp):
AAAAATAATAAATAATAAAAAAT
Found at i:17284499 original size:31 final size:32
Alignment explanation
Indices: 17284409--17284553 Score: 144
Period size: 31 Copynumber: 4.7 Consensus size: 32
17284399 ATAATCAAGC
*
17284409 AAAAGATAAAGTAA-AA-AAATAGATAAATAAT
1 AAAAAATAAA-TAATAATAAATAGATAAATAAT
*
17284440 AGAATAAATAAAAAATAA-AAATAGATAAATAAT
1 A-AA-AAATAAATAATAATAAATAGATAAATAAT
* *
17284473 AAAAAAT-ATTAATAGATAAATA-ATAAAAAAT
1 AAAAAATAAATAATA-ATAAATAGATAAATAAT
* *
17284504 AAAAAATAAATATTAATAAATAGACAAATAAT
1 AAAAAATAAATAATAATAAATAGATAAATAAT
17284536 -AAAAATAAA-AATAA-AAAT
1 AAAAAATAAATAATAATAAAT
17284554 TAAAGCCAAT
Statistics
Matches: 97, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
29 4 0.04
30 9 0.09
31 37 0.38
32 23 0.24
33 24 0.25
ACGTcount: A:0.72, C:0.01, G:0.05, T:0.22
Consensus pattern (32 bp):
AAAAAATAAATAATAATAAATAGATAAATAAT
Found at i:17284536 original size:39 final size:37
Alignment explanation
Indices: 17284442--17284556 Score: 119
Period size: 38 Copynumber: 3.1 Consensus size: 37
17284432 TAAATAATAG
* *
17284442 AATAAATA-AAAAATAA-AAATAGATAAATAATAAAAAAT
1 AATAAATAGACAAATAATAAA-A-ATAAA-AATAAAAATT
* * *
17284480 -ATTAATAGATAAATAATAAAAAATAAAAAATAAATATT
1 AATAAATAGACAAATAAT-AAAAAT-AAAAATAAAAATT
17284518 AATAAATAGACAAATAATAAAAATAAAAATAAAAATT
1 AATAAATAGACAAATAATAAAAATAAAAATAAAAATT
17284555 AA
1 AA
17284557 AGCCAATTGG
Statistics
Matches: 65, Mismatches: 7, Indels: 11
0.78 0.08 0.13
Matches are distributed among these distances:
37 20 0.31
38 23 0.35
39 19 0.29
40 3 0.05
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (37 bp):
AATAAATAGACAAATAATAAAAATAAAAATAAAAATT
Found at i:17284551 original size:5 final size:6
Alignment explanation
Indices: 17284423--17284553 Score: 52
Period size: 6 Copynumber: 20.0 Consensus size: 6
17284413 GATAAAGTAA
*
17284423 AAAAAT AGATAAAT AATAGAAT AAATA- AAAAAT AAAAAT AGATAAAT
1 AAAAAT A-A-AAAT AA-A-AAT AAAAAT AAAAAT AAAAAT A-A-AAAT
* * *
17284470 AATAAA- AAATATT AATAGAT AAATAAT AAAAAAT AAAAAAT AAATATT
1 AA-AAAT AAA-AAT AA-AAAT AAA-AAT -AAAAAT -AAAAAT AAA-AAT
* * *
17284518 AATAAAT AGACA- AATAAT AAAAAT AAAAAT AAAAAT
1 AA-AAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
17284554 TAAAGCCAAT
Statistics
Matches: 97, Mismatches: 14, Indels: 28
0.70 0.10 0.20
Matches are distributed among these distances:
5 7 0.07
6 35 0.36
7 35 0.36
8 20 0.21
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.23
Consensus pattern (6 bp):
AAAAAT
Found at i:17285800 original size:173 final size:172
Alignment explanation
Indices: 17285511--17285998 Score: 555
Period size: 173 Copynumber: 2.8 Consensus size: 172
17285501 GCAAGAAGAC
* ** * * * * *
17285511 TGATTGATCCTGGCAACTGGTAGCTTGAATTCTTCACCTAAAATTTCTTGGTCTGCTTTGACGTG
1 TGATTGATCCTTGCATTTGATAGCTTTAATTCTTCACCTAAAATTTCTTAGTCTGCCTTGATGTG
* * * * * * * *
17285576 TGTAAAATCAATATCACTTCATTGATCCTCGCGTTTAGAAAATGATCATTAGCTTTCCTGACTTG
66 TGTGAAACCAAGA-CAATTGATTGATCCTTGCGTTTAGAAAAAGATCATTAGCTTTCCTGACTTA
* ** * **
17285641 AAATTTCTCT-GTTTGTTTTGACGTTTGTGAAACCAAGACCTCT
130 AAATTTCT-TAGTCTGCCTTGACGTGTGTGAAACCAAGACAACT
* *
17285684 TGATTGATCCTTGCATTTGATAGCTTTAATTCTTCACGTAAAATTTCTTAGTCTACCTTGATGTG
1 TGATTGATCCTTGCATTTGATAGCTTTAATTCTTCACCTAAAATTTCTTAGTCTGCCTTGATGTG
* *
17285749 TGTGAAACCAAGACAAATTGATTGATCCTTGCGTTTATAAAACGATCATTAGCTTTCCTGACTTA
66 TGTGAAACCAAGAC-AATTGATTGATCCTTGCGTTTAGAAAAAGATCATTAGCTTTCCTGACTTA
*
17285814 AAATTTCTTAGTCTGCCTTGATGTGTGTGAAACCAAGACAACT
130 AAATTTCTTAGTCTGCCTTGACGTGTGTGAAACCAAGACAACT
* * * * * * *
17285857 TGATTGATCCTTGCGTTTAGAAAACGATCATTAGCTTTCCTGACCTAAAATTTCTTAGTTTGCCT
1 TGATTGATCCTTGCATTT-G-ATA-G--CTTTA--ATTCTTCACCTAAAATTTCTTAGTCTGCCT
* *
17285922 TGATGTGTGTGAAACCAAGACAATTGATTGATCCTTGCGTTTAGAAAAAAATCATTAGCGTTCCT
59 TGATGTGTGTGAAACCAAGACAATTGATTGATCCTTGCGTTTAGAAAAAGATCATTAGCTTTCCT
17285987 GACTTAAAATTT
124 GACTTAAAATTT
17285999 TGTGAAACCA
Statistics
Matches: 267, Mismatches: 39, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
172 2 0.01
173 160 0.60
174 1 0.00
175 2 0.01
176 1 0.00
178 4 0.01
179 52 0.19
180 45 0.17
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (172 bp):
TGATTGATCCTTGCATTTGATAGCTTTAATTCTTCACCTAAAATTTCTTAGTCTGCCTTGATGTG
TGTGAAACCAAGACAATTGATTGATCCTTGCGTTTAGAAAAAGATCATTAGCTTTCCTGACTTAA
AATTTCTTAGTCTGCCTTGACGTGTGTGAAACCAAGACAACT
Found at i:17285995 original size:89 final size:89
Alignment explanation
Indices: 17285722--17285998 Score: 473
Period size: 90 Copynumber: 3.1 Consensus size: 89
17285712 ATTCTTCACG
* *
17285722 TAAAATTTCTTAGTCTACCTTGATGTGTGTGAAACCAAGACAAATTGATTGATCCTTGCGTTTAT
1 TAAAATTTCTTAGTCTGCCTTGATGTGTGTGAAACCAAGAC-AATTGATTGATCCTTGCGTTTAG
17285787 AAAACGATCATTAGCTTTCCTGACT
65 AAAACGATCATTAGCTTTCCTGACT
17285812 TAAAATTTCTTAGTCTGCCTTGATGTGTGTGAAACCAAGACAACTTGATTGATCCTTGCGTTTAG
1 TAAAATTTCTTAGTCTGCCTTGATGTGTGTGAAACCAAGACAA-TTGATTGATCCTTGCGTTTAG
*
17285877 AAAACGATCATTAGCTTTCCTGACC
65 AAAACGATCATTAGCTTTCCTGACT
*
17285902 TAAAATTTCTTAGTTTGCCTTGATGTGTGTGAAACCAAGACAATTGATTGATCCTTGCGTTTAGA
1 TAAAATTTCTTAGTCTGCCTTGATGTGTGTGAAACCAAGACAATTGATTGATCCTTGCGTTTAGA
** *
17285967 AAAAAATCATTAGCGTTCCTGACT
66 AAACGATCATTAGCTTTCCTGACT
17285991 TAAAATTT
1 TAAAATTT
17285999 TGTGAAACCA
Statistics
Matches: 178, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
89 52 0.29
90 126 0.71
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (89 bp):
TAAAATTTCTTAGTCTGCCTTGATGTGTGTGAAACCAAGACAATTGATTGATCCTTGCGTTTAGA
AAACGATCATTAGCTTTCCTGACT
Found at i:17286060 original size:71 final size:70
Alignment explanation
Indices: 17285929--17286069 Score: 219
Period size: 71 Copynumber: 2.0 Consensus size: 70
17285919 CCTTGATGTG
* *
17285929 TGTGAAACCAAGACAATTGATTGATCCTTGCGTTTAGAAAAAAATCATTAGCGTTCCTGACTTAA
1 TGTGAAACCAAGACAATTGATTGATCCTTGCATTTAGAAAAAAATCAGTAGCGTTCCTGACTTAA
17285994 AATTT
66 AATTT
** * *
17285999 TGTGAAACCAAGACAACTTGATTGATCCTTGCATTTAGAAAACGATCAGTAGCTTTTCTGACTTA
1 TGTGAAACCAAGACAA-TTGATTGATCCTTGCATTTAGAAAAAAATCAGTAGCGTTCCTGACTTA
17286064 AAATTT
65 AAATTT
17286070 CTTAGCCTGC
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
70 16 0.25
71 48 0.75
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (70 bp):
TGTGAAACCAAGACAATTGATTGATCCTTGCATTTAGAAAAAAATCAGTAGCGTTCCTGACTTAA
AATTT
Found at i:17286564 original size:26 final size:26
Alignment explanation
Indices: 17286528--17286612 Score: 111
Period size: 26 Copynumber: 3.3 Consensus size: 26
17286518 AAAGTTATCG
17286528 ATTTGAAATAAATGAAATCAAGATAA
1 ATTTGAAATAAATGAAATCAAGATAA
*
17286554 ATTTGAAATAAATGAAATCAAGAGAA
1 ATTTGAAATAAATGAAATCAAGATAA
* *
17286580 ATTTTGAACTAAATTAAA--AAGATAA
1 A-TTTGAAATAAATGAAATCAAGATAA
*
17286605 ATGTGAAA
1 ATTTGAAA
17286613 AATATATAGT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
24 5 0.10
25 7 0.13
26 26 0.50
27 14 0.27
ACGTcount: A:0.56, C:0.04, G:0.13, T:0.27
Consensus pattern (26 bp):
ATTTGAAATAAATGAAATCAAGATAA
Found at i:17287841 original size:33 final size:33
Alignment explanation
Indices: 17287804--17287871 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
17287794 GTCAATTGCT
17287804 TTTCTGACTTCAAAATTTCTTAGTCAGGGTCAA
1 TTTCTGACTTCAAAATTTCTTAGTCAGGGTCAA
17287837 TTTCTGACTTCAAAATTTCTTAGTCAGGGTCAA
1 TTTCTGACTTCAAAATTTCTTAGTCAGGGTCAA
17287870 TT
1 TT
17287872 GGAGAGAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (33 bp):
TTTCTGACTTCAAAATTTCTTAGTCAGGGTCAA
Found at i:17287917 original size:2 final size:2
Alignment explanation
Indices: 17287910--17287937 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17287900 ATCATTTGCA
17287910 AT 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 AT
17287938 GATAATATTA
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):
AT
Found at i:17288412 original size:2 final size:2
Alignment explanation
Indices: 17288407--17288437 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
17288397 TGTGTGTGTG
17288407 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17288438 TCACAATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17289451 original size:3 final size:3
Alignment explanation
Indices: 17289443--17289493 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
17289433 TGTACCTACA
17289443 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
17289491 TAT
1 TAT
17289494 ATCTTAAATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:17292016 original size:2 final size:2
Alignment explanation
Indices: 17292009--17292037 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17291999 TGTCTATCAA
17292009 AT 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 AT A
17292038 CATACACACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17295210 original size:15 final size:15
Alignment explanation
Indices: 17295171--17295199 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17295161 GAATAGCAAG
17295171 AAGAAA-AAAAATGA
1 AAGAAAGAAAAATGA
17295185 AAGAAAGAAAAATGA
1 AAGAAAGAAAAATGA
17295200 GAAGTAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (15 bp):
AAGAAAGAAAAATGA
Found at i:17306596 original size:13 final size:15
Alignment explanation
Indices: 17306568--17306600 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
17306558 AGAAAAAGAA
17306568 GAAAAGAAAGAAAGG
1 GAAAAGAAAGAAAGG
17306583 GAAAA-AAA-AAAGG
1 GAAAAGAAAGAAAGG
17306596 GAAAA
1 GAAAA
17306601 CGAAGGGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 3 0.17
15 5 0.28
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (15 bp):
GAAAAGAAAGAAAGG
Found at i:17306935 original size:26 final size:27
Alignment explanation
Indices: 17306882--17306933 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
17306872 TTTCGTATTC
* *
17306882 TTATTATCCTTATTTATTTTATTTTTA
1 TTATTATACTTATTTATTTGATTTTTA
17306909 TTATTATAC-TATTTATCTTGATTTT
1 TTATTATACTTATTTAT-TTGATTTT
17306934 ATCATTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (27 bp):
TTATTATACTTATTTATTTGATTTTTA
Found at i:17310043 original size:17 final size:17
Alignment explanation
Indices: 17310016--17310066 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
17310006 ACAGGGCAAT
*
17310016 AAAAGAAGAAAAA-AAA
1 AAAAAAAGAAAAAGAAA
*
17310032 GGAAAAAAGAAAAAGAAA
1 -AAAAAAAGAAAAAGAAA
*
17310050 AAAAAAAGAAAACGAAA
1 AAAAAAAGAAAAAGAAA
17310067 TCTAATGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 26 0.90
18 3 0.10
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (17 bp):
AAAAAAAGAAAAAGAAA
Found at i:17310044 original size:6 final size:6
Alignment explanation
Indices: 17310016--17310066 Score: 52
Period size: 6 Copynumber: 8.3 Consensus size: 6
17310006 ACAGGGCAAT
*
17310016 AAAAGA AGAAA-A AAAAGGAA AAAAGA AAAAGA AAAA-A AAAAGA AAACGA
1 AAAAGA A-AAAGA AAAA-G-A AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
17310065 AA
1 AA
17310067 TCTAATGTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
5 8 0.21
6 22 0.56
7 4 0.10
8 5 0.13
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:17312572 original size:18 final size:19
Alignment explanation
Indices: 17312535--17312573 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
17312525 ATTAATAAAT
17312535 TTTTATCATGAATAAAATTAA
1 TTTTATCATGAAT--AATTAA
17312556 TTTTATCATGAAT-ATTAA
1 TTTTATCATGAATAATTAA
17312574 AATTAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
21 13 0.72
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (19 bp):
TTTTATCATGAATAATTAA
Found at i:17316179 original size:86 final size:87
Alignment explanation
Indices: 17316089--17316278 Score: 283
Period size: 86 Copynumber: 2.2 Consensus size: 87
17316079 CGATTAGTTT
* * *
17316089 TCTTGACTTAAAATTTCTTAGTCTGCTTCGATGTTTGTGAAAAGCAGGATGATTTGATTATCCAT
1 TCTTGACTTAAAATTTCTTAGTCTGCTTCGACGTTTGTGAAAAGCAGGATGACTAGATTATCCAT
17316154 GCACTTAGAACA-CGATAGCTA
66 GCACTTAGAACATCGATAGCTA
* * *
17316175 TCTTGACTTAAAATTTCTTAGTCTGCTTTGACGTTTGTGAAAAGCAGGTTGACTAGATTATTCAT
1 TCTTGACTTAAAATTTCTTAGTCTGCTTCGACGTTTGTGAAAAGCAGGATGACTAGATTATCCAT
*
17316240 GCACTTAGAACACGTTCGATAGCTT
66 GCACTTAGAACA---TCGATAGCTA
17316265 TCTTGACTTAAAAT
1 TCTTGACTTAAAAT
17316279 GTGCTTTGAT
Statistics
Matches: 93, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
86 71 0.76
90 22 0.24
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.37
Consensus pattern (87 bp):
TCTTGACTTAAAATTTCTTAGTCTGCTTCGACGTTTGTGAAAAGCAGGATGACTAGATTATCCAT
GCACTTAGAACATCGATAGCTA
Found at i:17316766 original size:16 final size:16
Alignment explanation
Indices: 17316745--17316776 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
17316735 TTTTGTTTAA
17316745 TTTTAATAATAATAAT
1 TTTTAATAATAATAAT
17316761 TTTTAATAATAATAAT
1 TTTTAATAATAATAAT
17316777 AATAATATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTTAATAATAATAAT
Found at i:17318025 original size:3 final size:3
Alignment explanation
Indices: 17317991--17318016 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
17317981 AAAAAATGCT
17317991 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
17318017 TGAATAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:17318101 original size:20 final size:21
Alignment explanation
Indices: 17318078--17318135 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 21
17318068 AATGTTATCA
17318078 TTTTTAATTAAATTGA-AATG
1 TTTTTAATTAAATTGATAATG
*** *
17318098 TTTTTAA-TAAAAAAATAATT
1 TTTTTAATTAAATTGATAATG
17318118 TTTTTAATTAAATTGATA
1 TTTTTAATTAAATTGATA
17318136 TATAAAAGCA
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
19 5 0.17
20 17 0.59
21 7 0.24
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (21 bp):
TTTTTAATTAAATTGATAATG
Found at i:17319218 original size:2 final size:2
Alignment explanation
Indices: 17319213--17319248 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
17319203 GCACACATAC
* *
17319213 AT AT AT AT AT AT AT AT AC AC AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17319249 TTATGTATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:17319236 original size:20 final size:20
Alignment explanation
Indices: 17319211--17319248 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
17319201 AAGCACACAT
17319211 ACATATATATATATATATAC
1 ACATATATATATATATATAC
17319231 ACATATATATATATATAT
1 ACATATATATATATATAT
17319249 TTATGTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (20 bp):
ACATATATATATATATATAC
Found at i:17320721 original size:2 final size:2
Alignment explanation
Indices: 17320714--17320739 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17320704 TGCGACATTT
17320714 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
17320740 AATAAATCTT
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):
TA
Found at i:17323051 original size:2 final size:2
Alignment explanation
Indices: 17323044--17323091 Score: 73
Period size: 2 Copynumber: 24.5 Consensus size: 2
17323034 ATCCTTTGCA
17323044 AT AT AT AT AT AT AT AT AT AT AT AT AT GAT A- AT AT -T 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
17323085 AT AT AT A
1 AT AT AT A
17323092 GGATAATATT
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.05
2 39 0.91
3 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17323108 original size:23 final size:23
Alignment explanation
Indices: 17323050--17323102 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
17323040 TGCAATATAT
*
17323050 ATATATATATATATATATATGATA
1 ATAT-TATATATATATATAGGATA
17323074 ATATTATATATATATATAGGATA
1 ATATTATATATATATATAGGATA
17323097 ATATTA
1 ATATTA
17323103 AGTATAATAC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 24 0.86
24 4 0.14
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (23 bp):
ATATTATATATATATATAGGATA
Done.