Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 52 of 344
Found at i:17217134 original size:6 final size:6
Alignment explanation
Indices: 17217123--17217197 Score: 150
Period size: 6 Copynumber: 12.5 Consensus size: 6
17217113 AAATTTAAAA
17217123 TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT
1 TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT
17217171 TAATAT TAATAT TAATAT TAATAT TAA
1 TAATAT TAATAT TAATAT TAATAT TAA
17217198 ATAGGGTAAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 69 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
TAATAT
Found at i:17217918 original size:18 final size:18
Alignment explanation
Indices: 17217897--17217939 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
17217887 TTCGATCTTG
* *
17217897 ATTTTGATTTTGATTTCT
1 ATTTTGATTTTGATTACA
* *
17217915 ATTTCGATTTTTATTACA
1 ATTTTGATTTTGATTACA
17217933 ATTTTGA
1 ATTTTGA
17217940 AACACTCACT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.07, G:0.09, T:0.60
Consensus pattern (18 bp):
ATTTTGATTTTGATTACA
Found at i:17217978 original size:6 final size:6
Alignment explanation
Indices: 17217949--17218038 Score: 54
Period size: 6 Copynumber: 15.0 Consensus size: 6
17217939 AAACACTCAC
* * ** * * * *
17217949 TGATTC TGATTT AGATTT TGATTT TGATTT CAATTT CGATCT CGATCT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
* * * * * *
17217997 CGATTT AGAATT AGAATT TGATTT TGATTT CGATTT TGATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
17218039 CAATTTAGGG
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 70 1.00
ACGTcount: A:0.23, C:0.09, G:0.16, T:0.52
Consensus pattern (6 bp):
TGATTT
Found at i:17218034 original size:18 final size:18
Alignment explanation
Indices: 17217956--17218038 Score: 60
Period size: 18 Copynumber: 4.6 Consensus size: 18
17217946 CACTGATTCT
* *
17217956 GATTTAGATTTTGATTTT
1 GATTTCGATTTTGATTTC
* * *
17217974 GATTTCAATTTCGATCTC
1 GATTTCGATTTTGATTTC
* * * *
17217992 GATCTCGATTTAGAATTA
1 GATTTCGATTTTGATTTC
17218010 GAATTT-GATTTTGATTTC
1 G-ATTTCGATTTTGATTTC
*
17218028 GATTTTGATTT
1 GATTTCGATTT
17218039 CAATTTAGGG
Statistics
Matches: 48, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
17 4 0.08
18 41 0.85
19 3 0.06
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (18 bp):
GATTTCGATTTTGATTTC
Found at i:17218039 original size:12 final size:12
Alignment explanation
Indices: 17217956--17218044 Score: 63
Period size: 12 Copynumber: 7.4 Consensus size: 12
17217946 CACTGATTCT
* *
17217956 GATTTAGATTTT
1 GATTTTGATTTC
17217968 GATTTTGATTTC
1 GATTTTGATTTC
* * *
17217980 AATTTCGATCTC
1 GATTTTGATTTC
* * *
17217992 GATCTCGATTTA
1 GATTTTGATTTC
* *
17218004 GAATTAGAATTT-
1 GATTTTG-ATTTC
17218016 GATTTTGATTTC
1 GATTTTGATTTC
17218028 GATTTTGATTTC
1 GATTTTGATTTC
*
17218040 AATTT
1 GATTT
17218045 AGGGTTATTT
Statistics
Matches: 60, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
11 4 0.07
12 52 0.87
13 4 0.07
ACGTcount: A:0.25, C:0.09, G:0.15, T:0.52
Consensus pattern (12 bp):
GATTTTGATTTC
Found at i:17218045 original size:42 final size:42
Alignment explanation
Indices: 17217957--17218046 Score: 99
Period size: 42 Copynumber: 2.1 Consensus size: 42
17217947 ACTGATTCTG
* * * *
17217957 ATTTAGATTTTGATTTTGATTTCAATTTCGATCTCGATCTCG
1 ATTTAGAATTAGAATTTGATTTCAATTTCGATCTCGATCTCA
** * * *
17217999 ATTTAGAATTAGAATTTGATTTTGATTTCGATTTTGATTTCA
1 ATTTAGAATTAGAATTTGATTTCAATTTCGATCTCGATCTCA
17218041 ATTTAG
1 ATTTAG
17218047 GGTTATTTCA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (42 bp):
ATTTAGAATTAGAATTTGATTTCAATTTCGATCTCGATCTCA
Found at i:17218266 original size:64 final size:64
Alignment explanation
Indices: 17218157--17218296 Score: 217
Period size: 64 Copynumber: 2.2 Consensus size: 64
17218147 CATGATGTTT
* ** *
17218157 ATTGTCTGTATCTGCCATTGTACGAATGCCATTATCAGACAGATGTTTATTGTGTATATCTGCC
1 ATTGTTTGTATCTGCCATTGTACGAATAACATTATCAAACAGATGTTTATTGTGTATATCTGCC
* * *
17218221 ATTGTTTGTATCTGCCATTGTATGAATAACATTATCAAACTGATGTTTGTTGTGTATATCTGCC
1 ATTGTTTGTATCTGCCATTGTACGAATAACATTATCAAACAGATGTTTATTGTGTATATCTGCC
17218285 ATTGTTTGTATC
1 ATTGTTTGTATC
17218297 CAAGCTTCTA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 69 1.00
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.43
Consensus pattern (64 bp):
ATTGTTTGTATCTGCCATTGTACGAATAACATTATCAAACAGATGTTTATTGTGTATATCTGCC
Found at i:17218632 original size:21 final size:21
Alignment explanation
Indices: 17218606--17218651 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
17218596 AGAAAACATG
*
17218606 TCTGGTAGTGATAGTGATGCA
1 TCTGGTAGTGATAGAGATGCA
17218627 TCTGGTAGTGATAGAGATGCA
1 TCTGGTAGTGATAGAGATGCA
17218648 TCTG
1 TCTG
17218652 AAAGAGTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.24, C:0.11, G:0.33, T:0.33
Consensus pattern (21 bp):
TCTGGTAGTGATAGAGATGCA
Found at i:17220345 original size:40 final size:40
Alignment explanation
Indices: 17220251--17220357 Score: 151
Period size: 40 Copynumber: 2.7 Consensus size: 40
17220241 TTAGTGAATG
* * * *
17220251 TTTTTTAATATGCACGCACTGATTGTTGGTGTGTTTACTA
1 TTTTTTAATATGCATGCAGTGATTATTGGTGTGTTGACTA
*
17220291 TTTTTTAATATGCATGCAGTGATTATTGGTGTGTTGCCTA
1 TTTTTTAATATGCATGCAGTGATTATTGGTGTGTTGACTA
* *
17220331 TTTTTTAAAATGCATGCAGTGAGTATT
1 TTTTTTAATATGCATGCAGTGATTATT
17220358 TTTTTATAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.22, C:0.10, G:0.21, T:0.47
Consensus pattern (40 bp):
TTTTTTAATATGCATGCAGTGATTATTGGTGTGTTGACTA
Found at i:17220437 original size:38 final size:37
Alignment explanation
Indices: 17220375--17220497 Score: 201
Period size: 37 Copynumber: 3.3 Consensus size: 37
17220365 AATATGTATA
*
17220375 TTGGTGGGGCTTTTTTTTAGGGGTGTGTGTATCATTT
1 TTGGTGGGGCTTTTTTTTAGGGGTGTGTGTATCATTG
*
17220412 TTGGTGGGGTTATTTTTTTAGGGGTGTGTGTATCATTG
1 TTGGTGGGGCT-TTTTTTTAGGGGTGTGTGTATCATTG
* *
17220450 TCGGTGGGGCTGTTTTTTAGGGGTGTGTGTATCATTG
1 TTGGTGGGGCTTTTTTTTAGGGGTGTGTGTATCATTG
17220487 TTGGTGGGGCT
1 TTGGTGGGGCT
17220498 ATTCACAATG
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
37 45 0.57
38 34 0.43
ACGTcount: A:0.08, C:0.06, G:0.39, T:0.47
Consensus pattern (37 bp):
TTGGTGGGGCTTTTTTTTAGGGGTGTGTGTATCATTG
Found at i:17221152 original size:21 final size:21
Alignment explanation
Indices: 17221122--17221189 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
17221112 AAGTTGGTGT
* *
17221122 CCCAACTCAGCAACAGGCTAC
1 CCCAAATCAGCAAGAGGCTAC
*
17221143 CCCAAATCAGCAAGAGGCTGC
1 CCCAAATCAGCAAGAGGCTAC
*
17221164 CCCAAATCAGCAAGAGGGTAC
1 CCCAAATCAGCAAGAGGCTAC
17221185 CCCAA
1 CCCAA
17221190 CTCAATAGGC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.35, C:0.37, G:0.19, T:0.09
Consensus pattern (21 bp):
CCCAAATCAGCAAGAGGCTAC
Found at i:17222514 original size:20 final size:20
Alignment explanation
Indices: 17222489--17222532 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
17222479 TTTTTATATT
17222489 TTCTCTT-CTCCTTCTTCTTC
1 TTCTCTTCCT-CTTCTTCTTC
*
17222509 TTCTCTTCCTCTTCTTTTTC
1 TTCTCTTCCTCTTCTTCTTC
17222529 TTCT
1 TTCT
17222533 ACTATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (20 bp):
TTCTCTTCCTCTTCTTCTTC
Found at i:17223702 original size:32 final size:32
Alignment explanation
Indices: 17223646--17223706 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
17223636 TAAAATTTAA
* *
17223646 ATTTATTATTATATTTTTTGAAAATGTTTATGT
1 ATTTATTATTATATTTCTTAAAAAT-TTTATGT
*
17223679 ATTTTTTA-TATATTTCTTAAAAATTTTA
1 ATTTATTATTATATTTCTTAAAAATTTTA
17223707 GAATTAGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 4 0.16
32 14 0.56
33 7 0.28
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.61
Consensus pattern (32 bp):
ATTTATTATTATATTTCTTAAAAATTTTATGT
Found at i:17234661 original size:25 final size:25
Alignment explanation
Indices: 17234633--17234687 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
17234623 AATTTAAGCT
* *
17234633 AATTTTAAATAAAAACTCTTATGAA
1 AATTTTAAATAAAAACTCTAAAGAA
*
17234658 AATTTTAAATAAAAATTCTAAAGAA
1 AATTTTAAATAAAAACTCTAAAGAA
17234683 AATTT
1 AATTT
17234688 GAAACTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.36
Consensus pattern (25 bp):
AATTTTAAATAAAAACTCTAAAGAA
Found at i:17235950 original size:21 final size:20
Alignment explanation
Indices: 17235926--17235966 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
17235916 TTTTTTTTGC
17235926 AAAATCAAAATTTTCTTTAAA
1 AAAATCAAAATTTT-TTTAAA
**
17235947 AAAATCACTATTTTTTTAAA
1 AAAATCAAAATTTTTTTAAA
17235967 TTAAAGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAATCAAAATTTTTTTAAA
Found at i:17236460 original size:3 final size:3
Alignment explanation
Indices: 17236454--17236518 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
17236444 ACATTTAATC
17236454 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
1 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
17236502 GTA GTA GTA GTA GTA GT
1 GTA GTA GTA GTA GTA GT
17236519 TTATGAACAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (3 bp):
GTA
Found at i:17240172 original size:28 final size:28
Alignment explanation
Indices: 17240117--17240173 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
17240107 TACTCAATTA
* *
17240117 ATATAAAAAATAATTAATTATGAGAAAT
1 ATATAAAAAATAATTAATTATCAAAAAT
*
17240145 ATATGAAAAATATATTAATTA-CAAAAAT
1 ATATAAAAAATA-ATTAATTATCAAAAAT
17240173 A
1 A
17240174 AATATTTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (28 bp):
ATATAAAAAATAATTAATTATCAAAAAT
Found at i:17240766 original size:18 final size:18
Alignment explanation
Indices: 17240753--17240792 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
17240743 TTAAAATTAG
17240753 CTTTTT-ATA-AAAAATA
1 CTTTTTGATAGAAAAATA
17240769 CTTTTTGATAGAAAAA-A
1 CTTTTTGATAGAAAAATA
17240786 CTTTTTG
1 CTTTTTG
17240793 GACTAATTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.27
17 11 0.50
18 5 0.23
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (18 bp):
CTTTTTGATAGAAAAATA
Found at i:17241185 original size:19 final size:17
Alignment explanation
Indices: 17241160--17241212 Score: 56
Period size: 19 Copynumber: 3.0 Consensus size: 17
17241150 TTATTTGACA
17241160 AATTTTTTTTAAAAAATC
1 AATTTTTTTTAAAAAA-C
17241178 ACA--TTTTTTAAAAAAC
1 A-ATTTTTTTTAAAAAAC
17241194 AATAGTTTTTTTAAAAAAC
1 AAT--TTTTTTTAAAAAAC
17241213 TTTTAATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
15 1 0.03
16 2 0.07
17 12 0.40
18 1 0.03
19 14 0.47
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.43
Consensus pattern (17 bp):
AATTTTTTTTAAAAAAC
Found at i:17241186 original size:18 final size:19
Alignment explanation
Indices: 17241163--17241212 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 19
17241153 TTTGACAAAT
17241163 TTTTTTTAAAAAATC-ACA-
1 TTTTTTTAAAAAA-CAACAG
*
17241181 -TTTTTTAAAAAACAATAG
1 TTTTTTTAAAAAACAACAG
17241199 TTTTTTTAAAAAAC
1 TTTTTTTAAAAAAC
17241213 TTTTAATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 1 0.04
17 14 0.50
19 13 0.46
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (19 bp):
TTTTTTTAAAAAACAACAG
Found at i:17241262 original size:23 final size:22
Alignment explanation
Indices: 17241236--17241284 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
17241226 TTATTATTTT
*
17241236 AAATTAAATATTTTATAAAATAA
1 AAATTAAATA-TATATAAAATAA
* *
17241259 AAATTAATTATATATTAAATAA
1 AAATTAAATATATATAAAATAA
17241281 AAAT
1 AAAT
17241285 AGAATTCGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
AAATTAAATATATATAAAATAA
Found at i:17244567 original size:27 final size:27
Alignment explanation
Indices: 17244523--17244582 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
17244513 CCCGATATAT
17244523 GGCTC-TTCATGAACTTCCCGATTAAA
1 GGCTCTTTCATGAACTTCCCGATTAAA
** * *
17244549 GGCTCTTTCATGAGTTTCCTGATTAAT
1 GGCTCTTTCATGAACTTCCCGATTAAA
17244576 GGCTCTT
1 GGCTCTT
17244583 CGGAGCTTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 5 0.17
27 24 0.83
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.38
Consensus pattern (27 bp):
GGCTCTTTCATGAACTTCCCGATTAAA
Found at i:17244660 original size:49 final size:48
Alignment explanation
Indices: 17244607--17244704 Score: 119
Period size: 49 Copynumber: 2.0 Consensus size: 48
17244597 ATTGGCTAGC
* *
17244607 TTGAA-CTACCCGATATATGGCTATC-TGAAGCTTTCTGATTAATGGCTCT
1 TTGAAGCTACCCGATAT-TGGCTAGCATG-AGCTTCCTGATT-ATGGCTCT
* *
17244656 TTGAAGCTACCCGTTATTGGCTCGCATGAGCTTCCTGATTATGGCTCT
1 TTGAAGCTACCCGATATTGGCTAGCATGAGCTTCCTGATTATGGCTCT
17244704 T
1 T
17244705 ATGAGCTTCC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
48 9 0.21
49 22 0.51
50 12 0.28
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (48 bp):
TTGAAGCTACCCGATATTGGCTAGCATGAGCTTCCTGATTATGGCTCT
Found at i:17244739 original size:49 final size:50
Alignment explanation
Indices: 17244634--17244771 Score: 140
Period size: 49 Copynumber: 2.8 Consensus size: 50
17244624 TGGCTATCTG
* * ** *
17244634 AAGCTTTCTGATTAATGGCTCTT-TGAAGCTACCCGTTAT-TGGCTCGCAT
1 AAGCTTCCTGATTAATGGCTCTTATG-AGCTTCCCGTTATACAGCCCGCAT
* *
17244683 GAGCTTCCTGATT-ATGGCTCTTATGAGCTTCCCGTTATACAGCCCGGAT
1 AAGCTTCCTGATTAATGGCTCTTATGAGCTTCCCGTTATACAGCCCGCAT
* **
17244732 AAGCTTCCTG-TTACACGGCTCACATGAGCTTCCCGTTATA
1 AAGCTTCCTGATTA-ATGGCTCTTATGAGCTTCCCGTTATA
17244772 TGGCTTGAGA
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
48 23 0.31
49 28 0.38
50 23 0.31
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.33
Consensus pattern (50 bp):
AAGCTTCCTGATTAATGGCTCTTATGAGCTTCCCGTTATACAGCCCGCAT
Found at i:17244776 original size:25 final size:25
Alignment explanation
Indices: 17244660--17244776 Score: 94
Period size: 25 Copynumber: 4.8 Consensus size: 25
17244650 GGCTCTTTGA
*
17244660 AGCTACCCGTTAT-TGGCTCGCATG
1 AGCTTCCCGTTATATGGCTCGCATG
* * **
17244684 AGCTTCCTGAT-TATGGCTCTTATG
1 AGCTTCCCGTTATATGGCTCGCATG
** * * *
17244708 AGCTTCCCGTTATACAGCCCGGATA
1 AGCTTCCCGTTATATGGCTCGCATG
* * * *
17244733 AGCTTCCTGTTACACGGCTCACATG
1 AGCTTCCCGTTATATGGCTCGCATG
17244758 AGCTTCCCGTTATATGGCT
1 AGCTTCCCGTTATATGGCT
17244777 TGAGAGAGAA
Statistics
Matches: 68, Mismatches: 23, Indels: 3
0.72 0.24 0.03
Matches are distributed among these distances:
23 1 0.01
24 26 0.38
25 41 0.60
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.32
Consensus pattern (25 bp):
AGCTTCCCGTTATATGGCTCGCATG
Found at i:17245030 original size:26 final size:26
Alignment explanation
Indices: 17245001--17245054 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
17244991 TGATATGTAC
*
17245001 ATGTTCATGTACACTTGAAGTGATAA
1 ATGTTCATGGACACTTGAAGTGATAA
17245027 ATGTTCATGGACACTTGAAGTGATAA
1 ATGTTCATGGACACTTGAAGTGATAA
17245053 AT
1 AT
17245055 ACATGTATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.33
Consensus pattern (26 bp):
ATGTTCATGGACACTTGAAGTGATAA
Found at i:17247122 original size:24 final size:24
Alignment explanation
Indices: 17247095--17247143 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
17247085 TGGCAATGAG
17247095 TATGTTGTGCTTATGTTTATTTAT
1 TATGTTGTGCTTATGTTTATTTAT
17247119 TATGTTGTGCTTATGTTTATTTAT
1 TATGTTGTGCTTATGTTTATTTAT
17247143 T
1 T
17247144 GTATTCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.63
Consensus pattern (24 bp):
TATGTTGTGCTTATGTTTATTTAT
Found at i:17249464 original size:9 final size:9
Alignment explanation
Indices: 17249450--17249486 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
17249440 TATAGTTTGA
17249450 TATTCGAAT
1 TATTCGAAT
17249459 TATTCGAAT
1 TATTCGAAT
*
17249468 TATTCGAGT
1 TATTCGAAT
17249477 TATTCGAAT
1 TATTCGAAT
17249486 T
1 T
17249487 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:17260969 original size:10 final size:10
Alignment explanation
Indices: 17260944--17260991 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
17260934 AAATTCTAAG
17260944 AGATAAATACA
1 AGATAAATA-A
17260955 A-ATAAATAA
1 AGATAAATAA
*
17260964 AGATAATTAA
1 AGATAAATAA
17260974 AGA-AAATTAA
1 AGATAAA-TAA
17260984 AGATAAAT
1 AGATAAAT
17260992 GCTAAAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
9 4 0.12
10 24 0.75
11 4 0.12
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (10 bp):
AGATAAATAA
Found at i:17261642 original size:19 final size:20
Alignment explanation
Indices: 17261618--17261655 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
17261608 AATACATCAC
17261618 CTTTTTT-TTTCTTTTTATA
1 CTTTTTTCTTTCTTTTTATA
17261637 CTTTTTTCTTTCTTTTTAT
1 CTTTTTTCTTTCTTTTTAT
17261656 CATTATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (20 bp):
CTTTTTTCTTTCTTTTTATA
Found at i:17264254 original size:36 final size:36
Alignment explanation
Indices: 17264214--17264285 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
17264204 CTCATGCTTT
* *
17264214 TCTTGGTCGGAATCTTGGCTAAGATTTCTAACAGGA
1 TCTTGGTCGGAATCTTGGCCAAGATTTATAACAGGA
* *
17264250 TCTTGGTTGGAATCTTGGCCAAGATTTATATCAGGA
1 TCTTGGTCGGAATCTTGGCCAAGATTTATAACAGGA
17264286 ATTGGTTCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (36 bp):
TCTTGGTCGGAATCTTGGCCAAGATTTATAACAGGA
Found at i:17266846 original size:20 final size:20
Alignment explanation
Indices: 17266823--17266870 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
17266813 AAATTCTAAG
17266823 AGATAAATACAAAT-AATTAA
1 AGATAAATA-AAATAAATTAA
* *
17266843 AGATAATTAAATTAAATTAA
1 AGATAAATAAAATAAATTAA
*
17266863 ATATAAAT
1 AGATAAAT
17266871 GCTAAAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (20 bp):
AGATAAATAAAATAAATTAA
Found at i:17271522 original size:24 final size:24
Alignment explanation
Indices: 17271472--17271530 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
17271462 AATTTATGTA
* *
17271472 TACATCTGGAGGTGCAATCAGAGG
1 TACATCTGGAGGTGCAACCAGAAG
17271496 TACATCTGGAGGTGCAACC-GAAAG
1 TACATCTGGAGGTGCAACCAG-AAG
*
17271520 TACATTTGGAG
1 TACATCTGGAG
17271531 ACTCAATCTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 1 0.03
24 30 0.97
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.22
Consensus pattern (24 bp):
TACATCTGGAGGTGCAACCAGAAG
Found at i:17274512 original size:68 final size:68
Alignment explanation
Indices: 17274403--17274535 Score: 230
Period size: 68 Copynumber: 2.0 Consensus size: 68
17274393 GCACATTGAA
* * * *
17274403 ACAATTAAAATATATTTTGATTGAAGAGGGGTGTAAACTACTTTGTACTAGTTTAAGATTGAAAT
1 ACAATCAAAATATAATTTGATTGAAGAGGGATATAAACTACTTTGTACTAGTTTAAGATTGAAAT
17274468 TCT
66 TCT
17274471 ACAATCAAAATATAATTTGATTGAAGAGGGATATAAACTACTTTGTACTAGTTTAAGATTGAAAT
1 ACAATCAAAATATAATTTGATTGAAGAGGGATATAAACTACTTTGTACTAGTTTAAGATTGAAAT
17274536 GGTATGTATC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 61 1.00
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.36
Consensus pattern (68 bp):
ACAATCAAAATATAATTTGATTGAAGAGGGATATAAACTACTTTGTACTAGTTTAAGATTGAAAT
TCT
Found at i:17281720 original size:23 final size:23
Alignment explanation
Indices: 17281673--17281720 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
17281663 AGCTCTGTTC
*
17281673 TTTCTCGTAAGATTTTGCTAGAA
1 TTTCTCGTAAGATTTTGCTAAAA
17281696 TTTC-CGTAAGACTCTTTG-TAAAA
1 TTTCTCGTAAGA-T-TTTGCTAAAA
17281719 TT
1 TT
17281721 GGAGTCCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 7 0.32
23 11 0.50
24 4 0.18
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.44
Consensus pattern (23 bp):
TTTCTCGTAAGATTTTGCTAAAA
Found at i:17284963 original size:41 final size:41
Alignment explanation
Indices: 17284906--17284989 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
17284896 CTAAAGTTCA
17284906 AACAAACTTCAATTTAAAACTGAAGAATCATATTAAACATT
1 AACAAACTTCAATTTAAAACTGAAGAATCATATTAAACATT
17284947 AACAAACTTCAATTTAAAACTGAAGAATCATATTAAACATT
1 AACAAACTTCAATTTAAAACTGAAGAATCATATTAAACATT
17284988 AA
1 AA
17284990 ACATTAATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.29
Consensus pattern (41 bp):
AACAAACTTCAATTTAAAACTGAAGAATCATATTAAACATT
Found at i:17291123 original size:46 final size:46
Alignment explanation
Indices: 17291071--17291285 Score: 324
Period size: 46 Copynumber: 4.7 Consensus size: 46
17291061 GTGTGCTCTT
*
17291071 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
17291117 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
*
17291163 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
*** * *
17291209 TGATATGAAATGAACAAGACCATGGTTGAAAGATGCCATGGCAACA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
* * *
17291255 TGACA-GAAAATGAGTAAGACCATAGTTGAAA
1 TGATATG-AAATGTGTAAGACCATGGTTGAAA
17291286 AAAACTATGG
Statistics
Matches: 157, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
45 1 0.01
46 156 0.99
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
Found at i:17294635 original size:24 final size:23
Alignment explanation
Indices: 17294545--17294635 Score: 64
Period size: 24 Copynumber: 3.8 Consensus size: 23
17294535 TGTAATTATT
17294545 TATAT-ATTATAAATATATAAAA
1 TATATAATTATAAATATATAAAA
* *
17294567 -ATAATATTTATTAAAATCTATAAAA
1 TAT-ATAATTA-T-AAATATATAAAA
*
17294592 TCTA-AATT-TAATGATAATATAAAA
1 TATATAATTATAA--AT-ATATAAAA
17294616 TATATAATTATAGAATATAT
1 TATATAATTATA-AATATAT
17294636 TAATTTAATC
Statistics
Matches: 52, Mismatches: 6, Indels: 20
0.67 0.08 0.26
Matches are distributed among these distances:
21 4 0.08
22 3 0.06
23 5 0.10
24 18 0.35
25 18 0.35
26 3 0.06
27 1 0.02
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
TATATAATTATAAATATATAAAA
Found at i:17294701 original size:16 final size:16
Alignment explanation
Indices: 17294680--17294715 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
17294670 TCTTAAATGA
17294680 TTAAACAATATTTATT
1 TTAAACAATATTTATT
* *
17294696 TTAAACCATATTTCTT
1 TTAAACAATATTTATT
17294712 TTAA
1 TTAA
17294716 TAAAATGATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAAACAATATTTATT
Found at i:17294888 original size:8 final size:7
Alignment explanation
Indices: 17294860--17294886 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
17294850 TAATACAATT
17294860 AAAAAAC
1 AAAAAAC
17294867 AAAAAAC
1 AAAAAAC
17294874 AAAAAAC
1 AAAAAAC
17294881 AAAAAA
1 AAAAAA
17294887 ACCTAAGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:17294985 original size:37 final size:37
Alignment explanation
Indices: 17294931--17295009 Score: 149
Period size: 37 Copynumber: 2.1 Consensus size: 37
17294921 GCAACATTCA
17294931 AATTTCAACCTACATTATTATCTCTATATTAAGTTTT
1 AATTTCAACCTACATTATTATCTCTATATTAAGTTTT
*
17294968 AATTTCAACCTATATTATTATCTCTATATTAAGTTTT
1 AATTTCAACCTACATTATTATCTCTATATTAAGTTTT
17295005 AATTT
1 AATTT
17295010 AGTCGAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.33, C:0.14, G:0.03, T:0.51
Consensus pattern (37 bp):
AATTTCAACCTACATTATTATCTCTATATTAAGTTTT
Found at i:17295105 original size:19 final size:20
Alignment explanation
Indices: 17295064--17295107 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
17295054 TCCAAATATT
** *
17295064 ATTATAATATTTTTTTTACA
1 ATTATAATATTTTTCATAAA
17295084 ATTATAAT-TTTTTCATAAA
1 ATTATAATATTTTTCATAAA
17295103 ATTAT
1 ATTAT
17295108 TTATAAAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTATAATATTTTTCATAAA
Found at i:17295488 original size:45 final size:42
Alignment explanation
Indices: 17295407--17295503 Score: 106
Period size: 44 Copynumber: 2.2 Consensus size: 42
17295397 AAATAAAAAA
*
17295407 TAAAAACTAAAAAATTATAAATTTTTCAAAAAATAAAAAAATT
1 TAAAAAATAAAAAATTATAAA-TTTTCAAAAAATAAAAAAATT
* * *
17295450 ATGAAAAATAAAAACATTTTAAA-TTTCAAAAACTATAAAAAGATT
1 -TAAAAAATAAAAA-ATTATAAATTTTCAAAAA--ATAAAAAAATT
17295495 TAAAAAATA
1 TAAAAAATA
17295504 TAGCAAAATA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
43 9 0.20
44 19 0.42
45 17 0.38
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (42 bp):
TAAAAAATAAAAAATTATAAATTTTCAAAAAATAAAAAAATT
Found at i:17296051 original size:18 final size:16
Alignment explanation
Indices: 17296013--17296043 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17296003 TCAAAATTCA
17296013 AAAATATAATTATTTT
1 AAAATATAATTATTTT
17296029 AAAATATAATT-TTTT
1 AAAATATAATTATTTT
17296044 TTTAAAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AAAATATAATTATTTT
Found at i:17296467 original size:27 final size:24
Alignment explanation
Indices: 17296437--17296492 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
17296427 ATAACATTGA
*
17296437 ATTTTAGAATTTTTAAAAATTATTTTT
1 ATTTTAG-ACTTTTAAAAA--ATTTTT
* *
17296464 ATTTTTGACTTTTAAAGAATTTTT
1 ATTTTAGACTTTTAAAAAATTTTT
17296488 ATTTT
1 ATTTT
17296493 CTTCATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 11 0.42
26 9 0.35
27 6 0.23
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (24 bp):
ATTTTAGACTTTTAAAAAATTTTT
Found at i:17300855 original size:28 final size:30
Alignment explanation
Indices: 17300824--17300899 Score: 70
Period size: 28 Copynumber: 2.6 Consensus size: 30
17300814 AATACATTTA
*
17300824 AATATTAAAT-TAAATTACCCAAT-CAATT
1 AATATTAAATATAAATAACCCAATCCAATT
*
17300852 AATA--AAATATAAAATAACTCAATCCAATT
1 AATATTAAATAT-AAATAACCCAATCCAATT
*
17300881 AATTAATTAAATCTAAATA
1 AA-T-ATTAAATATAAATA
17300900 TAAAATAACA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
26 4 0.11
27 1 0.03
28 14 0.37
29 7 0.18
30 1 0.03
31 1 0.03
32 5 0.13
33 5 0.13
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (30 bp):
AATATTAAATATAAATAACCCAATCCAATT
Found at i:17301618 original size:16 final size:16
Alignment explanation
Indices: 17301587--17301623 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
17301577 ATGTGAATAA
17301587 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
17301603 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
17301619 TATTA
1 TATTA
17301624 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:17301646 original size:17 final size:18
Alignment explanation
Indices: 17301609--17301643 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17301599 TTATTATTTT
* *
17301609 TAAAATTTATTATTAAAA
1 TAAAATTGAATATTAAAA
17301627 TAAAATTGAATATTAAA
1 TAAAATTGAATATTAAA
17301644 TAATTTATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (18 bp):
TAAAATTGAATATTAAAA
Found at i:17303639 original size:16 final size:16
Alignment explanation
Indices: 17303615--17303668 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
17303605 TTTGGTTCGC
*
17303615 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
17303631 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
*
17303647 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
17303663 TGTAAT
1 TGTAAT
17303669 AGCAAATCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:17303752 original size:39 final size:43
Alignment explanation
Indices: 17303647--17303756 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
17303637 GGATTAGAGG
17303647 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * ***
17303692 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
17303732 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
17303757 TAATGAAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 1 0.02
44 11 0.19
45 23 0.40
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:17303923 original size:18 final size:17
Alignment explanation
Indices: 17303902--17303936 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17303892 TTATTATTAA
*
17303902 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
17303920 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
17303937 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:17303990 original size:157 final size:157
Alignment explanation
Indices: 17303789--17304105 Score: 598
Period size: 157 Copynumber: 2.0 Consensus size: 157
17303779 TAGAATACCC
* *
17303789 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
*
17303854 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
17303919 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
17303946 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
17304011 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
17304076 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
17304103 TTA
1 TTA
17304106 ATATTCTTAT
Statistics
Matches: 156, Mismatches: 4, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
157 156 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:17304080 original size:18 final size:17
Alignment explanation
Indices: 17304059--17304093 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17304049 TTATTATTAA
*
17304059 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
17304077 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
17304094 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:17304170 original size:157 final size:156
Alignment explanation
Indices: 17303840--17304158 Score: 392
Period size: 157 Copynumber: 2.0 Consensus size: 156
17303830 ATTTAAATTT
* *
17303840 TAATAAGATTATTATTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
1 TAATAAGATTAATAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
* * * * **
17303905 TATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAGAAATTTGTTTTGGTAAA
66 TATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAAA
* * * * * *
17303970 TTATTATTGTTATTATTATTTAAATTT
131 TCATTAATGATATGATTATGTAAA-TA
*
17303997 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
1 TAATAAGATTAATAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
* **
17304062 TATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACT
66 TATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACA--CAAATATG-ATTTACT
17304127 CAAATCA-TAAT-ATATGA-TACTGTAAAATA
128 -AAATCATTAATGATATGATTA-TGT-AAATA
17304156 TAA
1 TAA
17304159 ATTAACATAA
Statistics
Matches: 140, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
157 109 0.78
158 2 0.01
159 14 0.10
160 10 0.07
161 5 0.04
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.45
Consensus pattern (156 bp):
TAATAAGATTAATAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
TATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAAA
TCATTAATGATATGATTATGTAAATA
Found at i:17306973 original size:22 final size:22
Alignment explanation
Indices: 17306945--17306991 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
17306935 CGATCCAAAT
17306945 ATATATTGTTTAGGTGAAAACC
1 ATATATTGTTTAGGTGAAAACC
17306967 ATATATTGTTTAGGTGAAAACC
1 ATATATTGTTTAGGTGAAAACC
17306989 ATA
1 ATA
17306992 CTAAGTTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (22 bp):
ATATATTGTTTAGGTGAAAACC
Found at i:17306999 original size:22 final size:22
Alignment explanation
Indices: 17306945--17307001 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
17306935 CGATCCAAAT
*
17306945 ATATATTGTTTAGGTGAAAACC
1 ATATATAGTTTAGGTGAAAACC
*
17306967 ATATATTGTTTAGGTGAAAACC
1 ATATATAGTTTAGGTGAAAACC
17306989 ATACTA-AGTTTAG
1 ATA-TATAGTTTAG
17307002 TTTTATTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
22 31 0.94
23 2 0.06
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.37
Consensus pattern (22 bp):
ATATATAGTTTAGGTGAAAACC
Found at i:17314101 original size:51 final size:51
Alignment explanation
Indices: 17314025--17314128 Score: 181
Period size: 51 Copynumber: 2.0 Consensus size: 51
17314015 TTTAGAAGGT
*
17314025 AAGATTTTGGTGTTTCGTTGATAGAATGTTATCTAAAAAGACATTTTCTTA
1 AAGATTTTGGTGTTTCGTTGATAGAATGTTATCTAAAAAGACATTTTCATA
* *
17314076 AAGATTTTGGTGTTTGGTTGATAGAATGTTATCTAAAAGGACATTTTCATA
1 AAGATTTTGGTGTTTCGTTGATAGAATGTTATCTAAAAAGACATTTTCATA
17314127 AA
1 AA
17314129 TTTTCTTTGT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.41
Consensus pattern (51 bp):
AAGATTTTGGTGTTTCGTTGATAGAATGTTATCTAAAAAGACATTTTCATA
Found at i:17317286 original size:19 final size:19
Alignment explanation
Indices: 17317253--17317292 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
17317243 AAAATAAGAT
*
17317253 ATTAATTTTAATTGATTTG
1 ATTAATTTTAATTGACTTG
17317272 ATTAA-TTTAATTTGACTTG
1 ATTAATTTTAA-TTGACTTG
17317291 AT
1 AT
17317293 CAAAATTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.55
Consensus pattern (19 bp):
ATTAATTTTAATTGACTTG
Found at i:17330922 original size:18 final size:18
Alignment explanation
Indices: 17330891--17330929 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
17330881 AAATAAAATG
17330891 AATAAAATTGAAAAGATA
1 AATAAAATTGAAAAGATA
*
17330909 AATATAAATT-AAAATATA
1 AATA-AAATTGAAAAGATA
17330927 AAT
1 AAT
17330930 GAGAAGTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (18 bp):
AATAAAATTGAAAAGATA
Found at i:17331546 original size:89 final size:87
Alignment explanation
Indices: 17331442--17331612 Score: 202
Period size: 89 Copynumber: 1.9 Consensus size: 87
17331432 ATCCCTCTTA
* * * *
17331442 TTTTTTATACTCAATTA-AGCACTTGAATTTTTAAAATGTATCAAAAAGACCCTC-AAATTTCTT
1 TTTTTTATACTCAATTAGA-CACTTGAACTTTCAAAATGCATCAAAAAGACACTCAAAATTT-TT
*
17331505 CAAAAAAAGCAATTACGCCCTTGCT
64 CAAAAAAA-CAATTAAGCCCTTGCT
* * * *
17331530 TTTTTTTTCACTCAATTGGATACTTGAACTTTCAAAATGCATCAAGAAGACACTCAAAATTTTTC
1 TTTTTTAT-ACTCAATTAGACACTTGAACTTTCAAAATGCATCAAAAAGACACTCAAAATTTTTC
*
17331595 AAAATAACAATTAAGCCC
65 AAAAAAACAATTAAGCCC
17331613 CTACTCTTAT
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
88 17 0.24
89 46 0.66
90 7 0.10
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (87 bp):
TTTTTTATACTCAATTAGACACTTGAACTTTCAAAATGCATCAAAAAGACACTCAAAATTTTTCA
AAAAAACAATTAAGCCCTTGCT
Found at i:17331670 original size:18 final size:19
Alignment explanation
Indices: 17331648--17331684 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
17331638 ATATAAAATA
*
17331648 AAAAAATAATAAATTTTAG
1 AAAAATTAATAAATTTTAG
*
17331667 AAAAATTATTAAATTTTA
1 AAAAATTAATAAATTTTA
17331685 ATAACAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
AAAAATTAATAAATTTTAG
Found at i:17331703 original size:21 final size:20
Alignment explanation
Indices: 17331648--17331706 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
17331638 ATATAAAATA
*
17331648 AAAAAATA-ATAAATTTT-AG
1 AAAAAATATA-AAATTTTAAT
* *
17331667 AAAAATTATTAAATTTTAAT
1 AAAAAATATAAAATTTTAAT
17331687 AACAAAATATAAAATTTTAA
1 AA-AAAATATAAAATTTTAA
17331707 AATTATTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
19 14 0.44
20 3 0.09
21 15 0.47
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (20 bp):
AAAAAATATAAAATTTTAAT
Found at i:17331752 original size:16 final size:16
Alignment explanation
Indices: 17331731--17331761 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
17331721 AGAATTTTTT
17331731 ATAAAAATTGTAAAAA
1 ATAAAAATTGTAAAAA
17331747 ATAAAAATTGTAAAA
1 ATAAAAATTGTAAAA
17331762 TTTTATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (16 bp):
ATAAAAATTGTAAAAA
Found at i:17331993 original size:57 final size:56
Alignment explanation
Indices: 17331930--17332041 Score: 163
Period size: 56 Copynumber: 2.0 Consensus size: 56
17331920 GCATTTTGTT
* *
17331930 TAATTTTCTTACGA-CTTTATAAAATTTTATAATTTTTTTATATTTCTATATATTTTA
1 TAATTTT-TTACAATCTTTATAAAATTTTACAA-TTTTTTATATTTCTATATATTTTA
* *
17331987 TAATTTTTTACAATCTTTATAAAATTTTACAATTTTTTATATTTTTATATTTTTT
1 TAATTTTTTACAATCTTTATAAAATTTTACAATTTTTTATATTTCTATATATTTT
17332042 TTCTAGTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
56 26 0.52
57 24 0.48
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (56 bp):
TAATTTTTTACAATCTTTATAAAATTTTACAATTTTTTATATTTCTATATATTTTA
Found at i:17332007 original size:19 final size:18
Alignment explanation
Indices: 17331981--17332032 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
17331971 ATTTCTATAT
17331981 ATTTTATAATTTTTTACA
1 ATTTTATAATTTTTTACA
**
17331999 ATCTTTATAAAATTTTACA
1 AT-TTTATAATTTTTTACA
*
17332018 ATTTTTTATATTTTT
1 ATTTTATA-ATTTTT
17332033 ATATTTTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
18 7 0.26
19 20 0.74
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTATAATTTTTTACA
Found at i:17332033 original size:28 final size:28
Alignment explanation
Indices: 17331945--17332035 Score: 112
Period size: 28 Copynumber: 3.2 Consensus size: 28
17331935 TTCTTACGAC
17331945 TTTATAAAATTTTATAATTTTTTTATATT
1 TTTATAAAATTTTATAA-TTTTTTATATT
* * * *
17331974 TCTAT-ATATTTTATAATTTTTTACAATC
1 TTTATAAAATTTTATAATTTTTTA-TATT
*
17332002 TTTATAAAATTTTACAATTTTTTATATT
1 TTTATAAAATTTTATAATTTTTTATATT
17332030 TTTATA
1 TTTATA
17332036 TTTTTTTTCT
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 7 0.14
28 24 0.47
29 20 0.39
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (28 bp):
TTTATAAAATTTTATAATTTTTTATATT
Found at i:17333607 original size:16 final size:16
Alignment explanation
Indices: 17333586--17333616 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
17333576 AAAGTTTTTG
17333586 CTCATTGCTCATTGTT
1 CTCATTGCTCATTGTT
17333602 CTCATTGCTCATTGT
1 CTCATTGCTCATTGT
17333617 ACTTGGGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.26, G:0.13, T:0.48
Consensus pattern (16 bp):
CTCATTGCTCATTGTT
Found at i:17341703 original size:19 final size:20
Alignment explanation
Indices: 17341648--17341696 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
17341638 TTTTTCCTTA
* *
17341648 TTATTATT-TTTTATATTTAT
1 TTATTATTATTCT-TATTGAT
17341668 TTATTATTATTCTTATTGAT
1 TTATTATTATTCTTATTGAT
17341688 TT-TTATTAT
1 TTATTATTAT
17341697 ATTTATTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 7 0.27
20 16 0.62
21 3 0.12
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (20 bp):
TTATTATTATTCTTATTGAT
Found at i:17341789 original size:25 final size:25
Alignment explanation
Indices: 17341645--17341792 Score: 88
Period size: 25 Copynumber: 5.9 Consensus size: 25
17341635 ACCTTTTTCC
* * *
17341645 TTATTATTATTTTT-TATATTTAT-
1 TTATTATTATTTTTATTTTTTTTTA
* **
17341668 TTATTATTATTCTTATTGATTTTTA
1 TTATTATTATTTTTATTTTTTTTTA
* ** * *
17341693 TTA-TATT-TATTATGCTTTGTTTTC
1 TTATTATTAT-TTTTATTTTTTTTTA
* *
17341717 TTATTATTCTTTTTATTTGTTTTTA
1 TTATTATTATTTTTATTTTTTTTTA
* *
17341742 TTATTATTATGTTTATTACTTTTATTTT
1 TTATTATTATTTTTATT--TTTT-TTTA
*
17341770 TTATTTTTATTTTTATTTTTTTT
1 TTATTATTATTTTTATTTTTTTT
17341793 GTTTCGCTAT
Statistics
Matches: 93, Mismatches: 24, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
23 14 0.15
24 20 0.22
25 33 0.35
26 5 0.05
27 3 0.03
28 18 0.19
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.74
Consensus pattern (25 bp):
TTATTATTATTTTTATTTTTTTTTA
Found at i:17341790 original size:7 final size:6
Alignment explanation
Indices: 17341645--17341789 Score: 53
Period size: 6 Copynumber: 22.3 Consensus size: 6
17341635 ACCTTTTTCC
* * * * *
17341645 TTATTA TTATTTT TTATAT TTATTT ATTATTA TTCTTAT TGATTT TTA-TT
1 TTATTT TTA-TTT TTATTT TTATTT -TTATTT TTATT-T TTATTT TTATTT
* * *
17341695 ATATTT ATTATGCTT TGT-TTT CTTATTA TTCTTT TTATTT GTT-TTT
1 TTATTT -TTAT--TT T-TATTT -TTATTT TTATTT TTATTT -TTATTT
* *
17341741 ATTATTAT TATGTTT ATTACTT TTATTTT TTATTT TTATTT TTATTT TT
1 -TTATT-T T-TATTT -TTATTT TTA-TTT TTATTT TTATTT TTATTT TT
17341790 TTTGTTTCGC
Statistics
Matches: 103, Mismatches: 20, Indels: 32
0.66 0.13 0.21
Matches are distributed among these distances:
5 4 0.04
6 56 0.54
7 33 0.32
8 7 0.07
9 3 0.03
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.73
Consensus pattern (6 bp):
TTATTT
Found at i:17343503 original size:18 final size:18
Alignment explanation
Indices: 17343476--17343541 Score: 68
Period size: 18 Copynumber: 3.8 Consensus size: 18
17343466 ATTGAGTTTA
17343476 TTTA-TTTTCTTTTTAGT
1 TTTATTTTTCTTTTTAGT
17343493 TTTATTTTTCTTTTTA-T
1 TTTATTTTTCTTTTTAGT
*
17343510 GTTTATTTTT-TTCGTT-GT
1 -TTTATTTTTCTT-TTTAGT
*
17343528 TTTATTTTTATTTT
1 TTTATTTTTCTTTT
17343542 CTTAAACTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
17 17 0.40
18 25 0.60
ACGTcount: A:0.11, C:0.05, G:0.06, T:0.79
Consensus pattern (18 bp):
TTTATTTTTCTTTTTAGT
Found at i:17346781 original size:3 final size:3
Alignment explanation
Indices: 17346773--17346805 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
17346763 TTTTTTAATA
17346773 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
17346806 CATATTTATA
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:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:17363776 original size:38 final size:38
Alignment explanation
Indices: 17363727--17363843 Score: 153
Period size: 38 Copynumber: 3.0 Consensus size: 38
17363717 AAACCCAAAC
* *
17363727 ATAACACCAGCACAAAGCCTGCGGGATTTAACCTGGAT
1 ATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
*
17363765 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
* * * *
17363803 ATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGAT
1 ATAATACCAGCACAAAGCCTGCGGG-ATTTAA-CCCGGAT
17363843 A
1 A
17363844 CACATCAAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 56 0.81
39 5 0.07
40 8 0.12
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (38 bp):
ATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
Found at i:17370801 original size:44 final size:43
Alignment explanation
Indices: 17370704--17370818 Score: 117
Period size: 44 Copynumber: 2.6 Consensus size: 43
17370694 CTGGCATTTC
* * * *
17370704 GCCTGCTAGGCTTGAAGCCCGATATCATTTCACCGGCATTATA
1 GCCTGCTAGGCTCGAAGCCCAATATCATTTCACCAGCATTAAA
17370747 GCCTGCTAGGCTCGAAGCCCAATAAT-ATTATTCACCAGC-TTAAA
1 GCCTGCTAGGCTCGAAGCCCAAT-ATCA-T-TTCACCAGCATTAAA
* * *
17370791 GCTTGCTAGGCTCAAAGCTCGAATATCA
1 GCCTGCTAGGCTCGAAGC-CCAATATCA
17370819 CAATTATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
43 22 0.37
44 25 0.42
45 13 0.22
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (43 bp):
GCCTGCTAGGCTCGAAGCCCAATATCATTTCACCAGCATTAAA
Found at i:17370968 original size:28 final size:28
Alignment explanation
Indices: 17370937--17371008 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
17370927 TTGATATTTT
*
17370937 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
17370965 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
17370993 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
17371009 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:17381340 original size:72 final size:72
Alignment explanation
Indices: 17381257--17381411 Score: 256
Period size: 72 Copynumber: 2.2 Consensus size: 72
17381247 AATGCTTGAT
*
17381257 CTTTAGCGGCGTTCAAAAAACACCGCAAAAAAATTAACACAACGCCGTCGTTTTGTATTGAGCCT
1 CTTTAGCGGCGTTCAAAAAACACCACAAAAAAATTAACACAACGCCGTCGTTTTGTATTGAGCCT
17381322 TTAGTGC
66 TTAGTGC
** * *
17381329 CTTTAGCGGCGTTCAAAAAACGGCACAAAAAAATTAACACAATGCTGTCGTTTTGTATTGAGCCT
1 CTTTAGCGGCGTTCAAAAAACACCACAAAAAAATTAACACAACGCCGTCGTTTTGTATTGAGCCT
17381394 TTAGTGC
66 TTAGTGC
*
17381401 CTTTAACGGCG
1 CTTTAGCGGCG
17381412 CTTTTTAAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 77 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (72 bp):
CTTTAGCGGCGTTCAAAAAACACCACAAAAAAATTAACACAACGCCGTCGTTTTGTATTGAGCCT
TTAGTGC
Found at i:17381879 original size:21 final size:21
Alignment explanation
Indices: 17381833--17381884 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
17381823 TTGAATATCA
* *
17381833 TTATAGTTTAAGGTTTACGGT
1 TTATGGTTAAAGGTTTACGGT
* *
17381854 ATATGGTTAAAGGTTTACTGT
1 TTATGGTTAAAGGTTTACGGT
17381875 TTATGAGTTA
1 TTATG-GTTA
17381885 TTATTTTAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.27, C:0.04, G:0.23, T:0.46
Consensus pattern (21 bp):
TTATGGTTAAAGGTTTACGGT
Found at i:17382122 original size:35 final size:34
Alignment explanation
Indices: 17382083--17382195 Score: 102
Period size: 35 Copynumber: 3.2 Consensus size: 34
17382073 TTATGTGTTG
17382083 GGGTTTAAGGTTTAGGGTTAGGTGTTAAGGGTTTA
1 GGGTTTAAGGTTTAGGGTTAGG-GTTAAGGGTTTA
* * *
17382118 GGGTTTAAGAGTTAAGGGATATGGGTTTAGGGTTTA
1 GGGTTTAAG-GTTTAGGGTTA-GGGTTAAGGGTTTA
* * * **
17382154 GGATTT-AGGATTTAAGGATAAGGGTTAAAAGTTTA
1 GGGTTTAAGG-TTT-AGGGTTAGGGTTAAGGGTTTA
17382189 GGGTTTA
1 GGGTTTA
17382196 GATTAATTAG
Statistics
Matches: 61, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
34 1 0.02
35 29 0.48
36 29 0.48
37 2 0.03
ACGTcount: A:0.27, C:0.00, G:0.36, T:0.37
Consensus pattern (34 bp):
GGGTTTAAGGTTTAGGGTTAGGGTTAAGGGTTTA
Found at i:17382150 original size:7 final size:7
Alignment explanation
Indices: 17382083--17382196 Score: 70
Period size: 7 Copynumber: 16.1 Consensus size: 7
17382073 TTATGTGTTG
17382083 GGGTTTA
1 GGGTTTA
*
17382090 AGGTTTA
1 GGGTTTA
17382097 GGG-TTA
1 GGGTTTA
*
17382103 GGTGTTAA
1 GG-GTTTA
17382111 GGGTTTA
1 GGGTTTA
17382118 GGGTTTAA
1 GGGTTT-A
* *
17382126 GAGTTAA
1 GGGTTTA
*
17382133 GGG-ATA
1 GGGTTTA
17382139 TGGGTTTA
1 -GGGTTTA
17382147 GGGTTTA
1 GGGTTTA
*
17382154 GGATTTA
1 GGGTTTA
*
17382161 GGATTTA
1 GGGTTTA
* * *
17382168 AGGATAA
1 GGGTTTA
*
17382175 GGGTTAA
1 GGGTTTA
**
17382182 AAGTTTA
1 GGGTTTA
17382189 GGGTTTA
1 GGGTTTA
17382196 G
1 G
17382197 ATTAATTAGT
Statistics
Matches: 80, Mismatches: 22, Indels: 10
0.71 0.20 0.09
Matches are distributed among these distances:
6 6 0.08
7 63 0.79
8 11 0.14
ACGTcount: A:0.26, C:0.00, G:0.37, T:0.37
Consensus pattern (7 bp):
GGGTTTA
Found at i:17382630 original size:43 final size:44
Alignment explanation
Indices: 17382551--17382637 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 44
17382541 GTCATGCCCG
17382551 ACACTTAGCCATTTCCCCCAAAATCCCAAAACAGA-TTTCCCAA
1 ACACTTAGCCATTTCCCCCAAAATCCCAAAACAGATTTTCCCAA
** *
17382594 ACACTTAGCCA-TTCCCAGTAAAA-CCCTAAAATAGATTTTCCCAA
1 ACACTTAGCCATTTCCC-CCAAAATCCC-AAAACAGATTTTCCCAA
17382638 TTCTCTACAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
42 8 0.21
43 22 0.58
44 8 0.21
ACGTcount: A:0.38, C:0.33, G:0.06, T:0.23
Consensus pattern (44 bp):
ACACTTAGCCATTTCCCCCAAAATCCCAAAACAGATTTTCCCAA
Found at i:17384975 original size:16 final size:16
Alignment explanation
Indices: 17384950--17384984 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
17384940 AATTTCATTT
*
17384950 TATGTGTGAATGCCTA
1 TATGTATGAATGCCTA
17384966 TATGTATGAATGCCTA
1 TATGTATGAATGCCTA
17384982 TAT
1 TAT
17384985 CTATCTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (16 bp):
TATGTATGAATGCCTA
Found at i:17386147 original size:15 final size:15
Alignment explanation
Indices: 17386124--17386160 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
17386114 TGTTAATTTG
*
17386124 ATATTTGGATGTTCC
1 ATATTTGGATGTACC
*
17386139 ATTTTTGGATGTACC
1 ATATTTGGATGTACC
17386154 ATATTTG
1 ATATTTG
17386161 TTCATCTGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.22, C:0.11, G:0.19, T:0.49
Consensus pattern (15 bp):
ATATTTGGATGTACC
Found at i:17387579 original size:43 final size:43
Alignment explanation
Indices: 17387494--17387621 Score: 141
Period size: 43 Copynumber: 3.0 Consensus size: 43
17387484 AATTTTATGG
* * * * **
17387494 CTTTTAGCGGCGTTTTTGGTAAAAGCGTCACTAAAGAACATGA
1 CTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGA
*
17387537 CTTTTAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGA
1 CTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGA
* ** *
17387580 -TCTTTAGCGGCATTTGTAAGAAAAGCGCCGCTAAATGTCATG
1 CT-TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATG
17387622 TTCTTTAGTG
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 1 0.01
43 71 0.99
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (43 bp):
CTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGA
Found at i:17391335 original size:127 final size:126
Alignment explanation
Indices: 17391018--17391475 Score: 418
Period size: 128 Copynumber: 3.6 Consensus size: 126
17391008 TTTCGTTCAG
* * * * *
17391018 CTAAAATACGGAATATCGTTTTGAAATTTCATCCATGTTTTGTTAAAATTAAAACGAGGTAATAT
1 CTAAAATATGGAATATCTTTTTGAAATTTCATCCACGTTTTCTTAAAA-TAAAACGAGGCAATAT
* * * * * *
17391083 TTTGTATTTGGGGAG-TTTGGGCAGTCGTACCCAATCATGCTGGGTTTCAATTTTCCATTCGA
65 TTCGTGTTT-GGAAGTTTTGGGAAGTCCTACCCAATCATGCTGGGCTTCAATTTTCCATTCGA
* * * *
17391145 TTAAAAATATGAAATATCCTTTTTGAAATTTTATCCACATTTTCTTAAAATAAAACGAGGCAATA
1 CT-AAAATATGGAATAT-CTTTTTGAAATTTCATCCACGTTTTCTTAAAATAAAACGAGGCAATA
* * *
17391210 TTTCGTGTTTGGAAGTTTTGGGAAGTCCTGCCTAATCGTGCTGGGCTTCAATTTTCCATTCGA
64 TTTCGTGTTTGGAAGTTTTGGGAAGTCCTACCCAATCATGCTGGGCTTCAATTTTCCATTCGA
* * * *
17391273 CTAAAATATGGAATATCTTTTTTAAAATTTCATCCACGTTTTCTTAAACTAAAATGATGCAATAT
1 CTAAAATATGGAATATC-TTTTTGAAATTTCATCCACGTTTTCTTAAAATAAAACGAGGCAATAT
* * * * * * * *** ** *
17391338 TCCGTGTTTGGAAG-TTTGAG-AGATCGTGCCCAATCGTGTTGGGTTTTGTTTTTTTATTCGG
65 TTCGTGTTTGGAAGTTTTGGGAAG-TCCTACCCAATCATGCTGGGCTTCAATTTTCCATTCGA
* * * ** * * * * * *
17391399 CTAAGATACGGAATATCCTTCCGACATTTCATCCATGTTTTCTCAAATTAAAATGAGGCAATGTT
1 CTAAAATATGGAATATCTTTTTGAAATTTCATCCACGTTTTCTTAAAATAAAACGAGGCAATATT
*
17391464 TCGTATTTGGAA
66 TCGTGTTTGGAA
17391476 ATTCGATAAA
Statistics
Matches: 274, Mismatches: 52, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
125 50 0.18
126 49 0.18
127 72 0.26
128 76 0.28
129 27 0.10
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.39
Consensus pattern (126 bp):
CTAAAATATGGAATATCTTTTTGAAATTTCATCCACGTTTTCTTAAAATAAAACGAGGCAATATT
TCGTGTTTGGAAGTTTTGGGAAGTCCTACCCAATCATGCTGGGCTTCAATTTTCCATTCGA
Found at i:17400177 original size:49 final size:50
Alignment explanation
Indices: 17400081--17400228 Score: 153
Period size: 49 Copynumber: 3.0 Consensus size: 50
17400071 TCATTAGGGA
* *
17400081 TTACCGATTT--TAACTCGTGAGAGCTTACCAATTCTCAGCTCGA-ATGAGC
1 TTACCGATTTACT-ACTCGTGAGAGCTTACCGATTCTTAGCTC-ATATGAGC
* * * *
17400130 TTGCCGATTT-C-ATCTTGTGAGAGTTTACCGATTCTTAGCTTATATGAGC
1 TTACCGATTTACTA-CTCGTGAGAGCTTACCGATTCTTAGCTCATATGAGC
* * *
17400179 TTATCGATTTACTACTCGTGAGAGCATACCGATTCATAGCTCATATGAGC
1 TTACCGATTTACTACTCGTGAGAGCTTACCGATTCTTAGCTCATATGAGC
17400229 ATACATGTAC
Statistics
Matches: 81, Mismatches: 13, Indels: 9
0.79 0.13 0.09
Matches are distributed among these distances:
48 2 0.02
49 46 0.57
50 32 0.40
51 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (50 bp):
TTACCGATTTACTACTCGTGAGAGCTTACCGATTCTTAGCTCATATGAGC
Found at i:17400228 original size:25 final size:25
Alignment explanation
Indices: 17400155--17400232 Score: 70
Period size: 25 Copynumber: 3.1 Consensus size: 25
17400145 TGTGAGAGTT
* * *
17400155 TACCGATTCTTAGCTTATATGAGCT
1 TACCGATTCATAGCTCATATGAGCA
* * *
17400180 TATCGATTTACTA-CTCGTGA-GAGCA
1 TACCGATTCA-TAGCTCAT-ATGAGCA
17400205 TACCGATTCATAGCTCATATGAGCA
1 TACCGATTCATAGCTCATATGAGCA
17400230 TAC
1 TAC
17400233 ATGTACAAGA
Statistics
Matches: 40, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
24 3 0.08
25 34 0.85
26 3 0.08
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (25 bp):
TACCGATTCATAGCTCATATGAGCA
Found at i:17413417 original size:9 final size:9
Alignment explanation
Indices: 17413403--17413427 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
17413393 AATTAAAAGA
17413403 TTTTAAATC
1 TTTTAAATC
17413412 TTTTAAATC
1 TTTTAAATC
17413421 TTTTAAA
1 TTTTAAA
17413428 CTCATAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (9 bp):
TTTTAAATC
Found at i:17414282 original size:3 final size:3
Alignment explanation
Indices: 17414274--17414300 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
17414264 AAGCTTTGAT
17414274 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
17414301 CACAACATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:17423174 original size:41 final size:41
Alignment explanation
Indices: 17423077--17423263 Score: 254
Period size: 40 Copynumber: 4.6 Consensus size: 41
17423067 ACTTGATACC
* * *
17423077 TCGCACACAAAGTGCCGT-TCATAGCCGAAGCTATCTC-AAA
1 TCGCACACTAAGTGCCATAT-ATAGCCGAAGCTATCTCGATA
* *
17423117 TCGCACACTAAGTGCCAAATATAGCCGAAGCTATCTCGATC
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCGATA
*
17423158 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGA-A
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCGATA
* * * *
17423198 TCACAAACTAAGTGCCATATATAGCCGAAGCTATCTCAATC
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCGATA
17423239 TCGCACACTAAGTGCCATATATAGC
1 TCGCACACTAAGTGCCATATATAGC
17423264 TGATTAGTCT
Statistics
Matches: 129, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
40 67 0.52
41 62 0.48
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (41 bp):
TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCGATA
Found at i:17423278 original size:81 final size:81
Alignment explanation
Indices: 17423076--17423263 Score: 288
Period size: 81 Copynumber: 2.3 Consensus size: 81
17423066 TACTTGATAC
* * * * * *
17423076 CTCGCACACAAAGTGCCGT-TCATAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCAAATATA
1 CTCGCACACTAAGTGCCATAT-ATAGCCGAAGCTATGTCGAATCACAAACTAAGTGCCAAATATA
*
17423140 GCCGAAGCTATCTCGAT
65 GCCGAAGCTATCTCAAT
*
17423157 CTCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCACAAACTAAGTGCCATATATAG
1 CTCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCACAAACTAAGTGCCAAATATAG
17423222 CCGAAGCTATCTCAAT
66 CCGAAGCTATCTCAAT
17423238 CTCGCACACTAAGTGCCATATATAGC
1 CTCGCACACTAAGTGCCATATATAGC
17423264 TGATTAGTCT
Statistics
Matches: 98, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
81 97 0.99
82 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.22
Consensus pattern (81 bp):
CTCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCACAAACTAAGTGCCAAATATAG
CCGAAGCTATCTCAAT
Found at i:17423928 original size:13 final size:13
Alignment explanation
Indices: 17423910--17423937 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
17423900 TTTGACTAAA
17423910 AACGGGCTGTTAC
1 AACGGGCTGTTAC
17423923 AACGGGCTGTTAC
1 AACGGGCTGTTAC
17423936 AA
1 AA
17423938 TCTTAAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (13 bp):
AACGGGCTGTTAC
Found at i:17425313 original size:28 final size:28
Alignment explanation
Indices: 17425267--17425320 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
17425257 TAGATTAAAC
* *
17425267 TAAAACGAACTCAACAATATAAAATTGT
1 TAAAACAAACTCAAAAATATAAAATTGT
*
17425295 TAAAACAAACTTAAAAATATAAAATT
1 TAAAACAAACTCAAAAATATAAAATT
17425321 TACTAAAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.59, C:0.11, G:0.04, T:0.26
Consensus pattern (28 bp):
TAAAACAAACTCAAAAATATAAAATTGT
Found at i:17430430 original size:32 final size:32
Alignment explanation
Indices: 17430387--17430451 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
17430377 TTTAAAGATC
*
17430387 AACTTTAATGAAAGTATTTAGATAACT-GTCTA
1 AACTTTAATGAAAATATTTAGATAA-TAGTCTA
*
17430419 AACTTTTATGAAAATATTTAGATAATAGTCTA
1 AACTTTAATGAAAATATTTAGATAATAGTCTA
17430451 A
1 A
17430452 TTAGTTATAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 1 0.03
32 29 0.97
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (32 bp):
AACTTTAATGAAAATATTTAGATAATAGTCTA
Found at i:17431387 original size:19 final size:21
Alignment explanation
Indices: 17431355--17431398 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
17431345 TTTATGTCAC
*
17431355 TTCAATATTCTTATCC-GAAT
1 TTCAAGATTCTTATCCTGAAT
17431375 TTCAAGATT-TTATCCTGAAT
1 TTCAAGATTCTTATCCTGAAT
17431395 TTCA
1 TTCA
17431399 GTATTTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.30, C:0.18, G:0.07, T:0.45
Consensus pattern (21 bp):
TTCAAGATTCTTATCCTGAAT
Found at i:17431404 original size:20 final size:19
Alignment explanation
Indices: 17431355--17431406 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
17431345 TTTATGTCAC
*
17431355 TTCAATATTCTTATCCGAAT
1 TTCAGTATT-TTATCCGAAT
17431375 TTCAAG-ATTTTATCCTGAAT
1 TTC-AGTATTTTATCC-GAAT
17431395 TTCAGTATTTTA
1 TTCAGTATTTTA
17431407 ATTTGAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 8 0.29
20 19 0.68
21 1 0.04
ACGTcount: A:0.29, C:0.15, G:0.08, T:0.48
Consensus pattern (19 bp):
TTCAGTATTTTATCCGAAT
Found at i:17433889 original size:22 final size:22
Alignment explanation
Indices: 17433861--17433905 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
17433851 TAGTGTGTGC
17433861 CTTGATCCACAAACAAAAATCA
1 CTTGATCCACAAACAAAAATCA
17433883 CTTGATCCACAAACAAAAATCA
1 CTTGATCCACAAACAAAAATCA
17433905 C
1 C
17433906 ATCAAAACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.49, C:0.29, G:0.04, T:0.18
Consensus pattern (22 bp):
CTTGATCCACAAACAAAAATCA
Found at i:17446780 original size:16 final size:17
Alignment explanation
Indices: 17446753--17446784 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
17446743 ATATAAATTG
17446753 AATTCAATCATGAATAT
1 AATTCAATCATGAATAT
17446770 AATTC-ATCATGAATA
1 AATTCAATCATGAATA
17446785 AAGATAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.34
Consensus pattern (17 bp):
AATTCAATCATGAATAT
Found at i:17451089 original size:37 final size:36
Alignment explanation
Indices: 17451048--17451140 Score: 123
Period size: 36 Copynumber: 2.5 Consensus size: 36
17451038 ACTTTGAAGT
*
17451048 GTTGAAGGAAGGCAGAAGAACGTACGGAGCTTGGACG
1 GTTGAAGGAA-GCAGAAGAACGTACGGAGCTTGAACG
* * * *
17451085 GTTGAAGGAAACTGAAGAACGTAGGGAGCTTGAAGG
1 GTTGAAGGAAGCAGAAGAACGTACGGAGCTTGAACG
17451121 GTTGAAGGAAGCGAGAAGAA
1 GTTGAAGGAAGC-AGAAGAA
17451141 AATATGGAGT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
36 32 0.67
37 16 0.33
ACGTcount: A:0.37, C:0.10, G:0.40, T:0.14
Consensus pattern (36 bp):
GTTGAAGGAAGCAGAAGAACGTACGGAGCTTGAACG
Found at i:17453661 original size:46 final size:46
Alignment explanation
Indices: 17453603--17453769 Score: 207
Period size: 46 Copynumber: 3.6 Consensus size: 46
17453593 CCCATACACA
*
17453603 AACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTG
* * *
17453649 AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-CG
1 AACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCATCCATAAGTG
* *
17453696 AACTCGCACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTG
17453742 AACTCGGACTCAACTCAACGAGTTCGGA
1 AACTCGGACTCAACTCAACGAGTTCGGA
17453770 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 55 0.54
47 28 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
AACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTG
Found at i:17453712 original size:93 final size:93
Alignment explanation
Indices: 17453603--17453772 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 93
17453593 CCCATACACA
* *
17453603 AACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGCACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
17453668 GAGTTCGGATGCCTAGTTACATCTCACG
66 GAGTTCGGATGCCTAGTTACATCTCACG
*
17453696 AACTCGCACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGCACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
17453761 GAGTTCGGATGC
66 GAGTTCGGATGC
17453773 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
AACTCGCACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACG
Found at i:17454225 original size:30 final size:30
Alignment explanation
Indices: 17454191--17454250 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
17454181 ATTTAATACG
17454191 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
17454221 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
17454251 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:17461247 original size:93 final size:93
Alignment explanation
Indices: 17461134--17461305 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
17461124 CGCCCATAAG
*
17461134 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
17461198 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
17461227 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
17461292 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
17461306 TCAACCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:17461300 original size:46 final size:46
Alignment explanation
Indices: 17461127--17461302 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
17461117 TGTAACCCGC
* *
17461127 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
17461173 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
17461223 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
17461266 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
17461303 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:17461757 original size:30 final size:30
Alignment explanation
Indices: 17461723--17461782 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
17461713 ATTTAATACG
17461723 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
17461753 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
17461783 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:17471839 original size:37 final size:37
Alignment explanation
Indices: 17471720--17471961 Score: 209
Period size: 37 Copynumber: 6.5 Consensus size: 37
17471710 TGGGATGATG
* * *
17471720 AGGGTTGAAGGAAGAGGGAAGAAAATAGGGAGATTGA
1 AGGGTTGAAGGAAGAGGGAAGAAAGTAGGGAGCTTCA
* * * *
17471757 AGGGCTGAAGGAAGAAGGAAGAAAGTAGGGAGTTTGA
1 AGGGTTGAAGGAAGAGGGAAGAAAGTAGGGAGCTTCA
* * * * *
17471794 AAGCTTGAAGCAAGAGGGAAGAATGTAGGGATCTTCA
1 AGGGTTGAAGGAAGAGGGAAGAAAGTAGGGAGCTTCA
* ** *
17471831 AGGGTTGAATGAATCGAGAAGAAAGTAGGGAGCTTCA
1 AGGGTTGAAGGAAGAGGGAAGAAAGTAGGGAGCTTCA
* * * **
17471868 AGGGTTGAAGAAAAAGGAAAGATTGTAGGGAGCTTGC-
1 AGGGTTGAAGGAAGAGGGAAGAAAGTAGGGAGCTT-CA
* * *
17471905 AGGGTTGAAGGAATCA-AGAAGAAAGTAGGGAGCTTGA
1 AGGGTTGAAGGAA-GAGGGAAGAAAGTAGGGAGCTTCA
* * *
17471942 GGGGTTGATGGAAAAGGGAA
1 AGGGTTGAAGGAAGAGGGAA
17471962 AATTGTAAAG
Statistics
Matches: 160, Mismatches: 41, Indels: 8
0.77 0.20 0.04
Matches are distributed among these distances:
36 1 0.01
37 157 0.98
38 2 0.01
ACGTcount: A:0.39, C:0.05, G:0.39, T:0.17
Consensus pattern (37 bp):
AGGGTTGAAGGAAGAGGGAAGAAAGTAGGGAGCTTCA
Found at i:17471947 original size:74 final size:74
Alignment explanation
Indices: 17471745--17471991 Score: 264
Period size: 74 Copynumber: 3.3 Consensus size: 74
17471735 GGGAAGAAAA
* * * * * * * *
17471745 TAGGGAGATTGAAGGGCTGAAGGAA-GAAGGAAGAAAGTAGGGAGTTTGAAAGCTTGAAGCAAGA
1 TAGGGAGCTTGAAGGGTTGAAGGAATCAA-GAAGAAAGTAGGGAGCTTGAAGGGTTGAAGAAAAA
* *
17471809 GGGAAGAATG
65 GGAAAGATTG
* * * * *
17471819 TAGGGATCTTCAAGGGTTGAATGAATCGAGAAGAAAGTAGGGAGCTTCAAGGGTTGAAGAAAAAG
1 TAGGGAGCTTGAAGGGTTGAAGGAATCAAGAAGAAAGTAGGGAGCTTGAAGGGTTGAAGAAAAAG
17471884 GAAAGATTG
66 GAAAGATTG
* * * *
17471893 TAGGGAGCTTGCAGGGTTGAAGGAATCAAGAAGAAAGTAGGGAGCTTGAGGGGTTGATGGAAAAG
1 TAGGGAGCTTGAAGGGTTGAAGGAATCAAGAAGAAAGTAGGGAGCTTGAAGGGTTGA-AGAAAAA
17471958 GGAAA-ATTG
65 GGAAAGATTG
** *
17471967 TAAAGAGCTTGAAGGGTTAAAGGAA
1 TAGGGAGCTTGAAGGGTTGAAGGAA
17471992 CGCGTGTAAT
Statistics
Matches: 143, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
74 132 0.92
75 11 0.08
ACGTcount: A:0.39, C:0.05, G:0.38, T:0.18
Consensus pattern (74 bp):
TAGGGAGCTTGAAGGGTTGAAGGAATCAAGAAGAAAGTAGGGAGCTTGAAGGGTTGAAGAAAAAG
GAAAGATTG
Found at i:17474175 original size:27 final size:27
Alignment explanation
Indices: 17474145--17474258 Score: 160
Period size: 27 Copynumber: 4.2 Consensus size: 27
17474135 GTGACGAAGT
*
17474145 CACCAGATACAAATAT-TGTGGCAGAGC
1 CACCAGA-ACAGATATATGTGGCAGAGC
*
17474172 CACCATAACAGATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
17474199 CACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* *
17474226 CACCAGATCAGATA-ATTGTGGCATAGC
1 CACCAGAACAGATATA-TGTGGCAGAGC
17474253 CACCAG
1 CACCAG
17474259 GACGCTTCCT
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
26 8 0.10
27 72 0.90
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.18
Consensus pattern (27 bp):
CACCAGAACAGATATATGTGGCAGAGC
Found at i:17474426 original size:28 final size:26
Alignment explanation
Indices: 17474364--17474437 Score: 85
Period size: 28 Copynumber: 2.8 Consensus size: 26
17474354 AAATTAATCC
** * *
17474364 TAGGGGTATAACGGTAATTTTGCACC
1 TAGGGGTATAATAGTAATTTTCCACA
17474390 TAGGGGTATAATAGTAATTTTCCATACA
1 TAGGGGTATAATAGTAATTTTCC--ACA
*
17474418 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAATAGTAATTT
17474438 AGCTACTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 20 0.49
28 21 0.51
ACGTcount: A:0.31, C:0.09, G:0.23, T:0.36
Consensus pattern (26 bp):
TAGGGGTATAATAGTAATTTTCCACA
Found at i:17475793 original size:26 final size:26
Alignment explanation
Indices: 17475762--17475869 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
17475752 TGAAATGCCC
*
17475762 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
17475788 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
17475814 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
17475840 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
17475866 ATCA
1 ATCA
17475870 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:17477210 original size:15 final size:15
Alignment explanation
Indices: 17477190--17477219 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
17477180 TTTAAGAGGT
17477190 TGTAATGTGGCTTAG
1 TGTAATGTGGCTTAG
17477205 TGTAATGTGGCTTAG
1 TGTAATGTGGCTTAG
17477220 GTTAAGGGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.33, T:0.40
Consensus pattern (15 bp):
TGTAATGTGGCTTAG
Found at i:17477447 original size:9 final size:9
Alignment explanation
Indices: 17477405--17477447 Score: 61
Period size: 9 Copynumber: 4.8 Consensus size: 9
17477395 ATAATCAATA
17477405 TTTTTTTATC
1 TTTTTTT-TC
*
17477415 -TTTTTATC
1 TTTTTTTTC
17477423 TTTTTTTTC
1 TTTTTTTTC
17477432 TTTTTTTTC
1 TTTTTTTTC
17477441 TTTTTTT
1 TTTTTTT
17477448 AATCTAGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
8 2 0.07
9 28 0.93
ACGTcount: A:0.05, C:0.09, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:17479096 original size:50 final size:49
Alignment explanation
Indices: 17478984--17479113 Score: 181
Period size: 50 Copynumber: 2.6 Consensus size: 49
17478974 CTGGTACGCA
* * * **
17478984 TAGTAACCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
*
17479033 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAGTCTAATACACG
17479083 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
17479114 TCACAGTTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
49 28 0.38
50 41 0.56
51 4 0.05
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
Found at i:17479157 original size:101 final size:99
Alignment explanation
Indices: 17478984--17479170 Score: 250
Period size: 101 Copynumber: 1.9 Consensus size: 99
17478974 CTGGTACGCA
* * * *
17478984 TAGTAACCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAACCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGACTGCACTTA
*
17479049 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* * * *
17479083 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTAGACTGCAC
1 TAGTAACCTGCACTTAGTACTACACACGCGACCAACAG---TCGGGTACACATAGTAGACTGCAC
*
17479147 TTAGTACTACACATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
17479171 AATAGATCAT
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
98 4 0.05
99 29 0.39
101 42 0.56
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAACCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGACTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:17481413 original size:6 final size:6
Alignment explanation
Indices: 17481396--17481425 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
17481386 ACTCAATTAG
*
17481396 AAATAA ACATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA
17481426 TAACATAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:17481651 original size:16 final size:16
Alignment explanation
Indices: 17481632--17481671 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
17481622 AGAGTAATAA
17481632 AAAATAATAAT-AAAAG
1 AAAATAA-AATAAAAAG
*
17481648 AAAAGAAAATAAAAAG
1 AAAATAAAATAAAAAG
17481664 AAAATAAA
1 AAAATAAA
17481672 TTAGTACAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 3 0.14
16 18 0.86
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.12
Consensus pattern (16 bp):
AAAATAAAATAAAAAG
Found at i:17481705 original size:16 final size:16
Alignment explanation
Indices: 17481680--17481722 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
17481670 AATTAGTACA
17481680 ATAAAAATAAATAAT-
1 ATAAAAATAAATAATG
17481695 ATAACAAAT-AATAATG
1 ATAA-AAATAAATAATG
17481711 ATAATAAATAAA
1 ATAA-AAATAAA
17481723 ATAAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 10 0.42
16 12 0.50
17 2 0.08
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (16 bp):
ATAAAAATAAATAATG
Found at i:17486924 original size:37 final size:36
Alignment explanation
Indices: 17486873--17486965 Score: 96
Period size: 37 Copynumber: 2.5 Consensus size: 36
17486863 GAAAGTACGG
* * * *
17486873 AGCTTAAAGAGTTAAAGGATTCAAGAATAGACTAGTA
1 AGCTTGAAGGGTTAAAGGA-TCAAGAAGAAACTAGTA
** *
17486910 AGCTTGAAGGGTTAAAGGGATCGGGAAGAAAGTAGTA
1 AGCTTGAAGGGTTAAA-GGATCAAGAAGAAACTAGTA
*
17486947 AGCTTGAAGGGTTGAAGGA
1 AGCTTGAAGGGTTAAAGGA
17486966 AAAGGGAACA
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
36 3 0.06
37 41 0.87
38 3 0.06
ACGTcount: A:0.40, C:0.06, G:0.32, T:0.22
Consensus pattern (36 bp):
AGCTTGAAGGGTTAAAGGATCAAGAAGAAACTAGTA
Found at i:17486973 original size:37 final size:37
Alignment explanation
Indices: 17486905--17486981 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 37
17486895 AAGAATAGAC
* ** *
17486905 TAGTAAGCTTGAAGGGTTAAAGGGATCGGGAAGAAAG
1 TAGTAAGCTTGAAGGGTTAAAGGAAAAGGGAACAAAG
*
17486942 TAGTAAGCTTGAAGGGTTGAAGGAAAAGGGAACAAAG
1 TAGTAAGCTTGAAGGGTTAAAGGAAAAGGGAACAAAG
17486979 TAG
1 TAG
17486982 AGAATTTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.40, C:0.05, G:0.36, T:0.18
Consensus pattern (37 bp):
TAGTAAGCTTGAAGGGTTAAAGGAAAAGGGAACAAAG
Found at i:17487069 original size:37 final size:37
Alignment explanation
Indices: 17487027--17487105 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
17487017 AGGTAAGAAA
* * *
17487027 GTAGGGAGGTTCAATAGTTGAAGAAAAATAGAAGACT
1 GTAGGGAGCTTCAAGAGTTGAAGAAAAACAGAAGACT
* * *
17487064 GTAGGGAGCTTCAAGGGTTGAAGGAAAACAGAAGATT
1 GTAGGGAGCTTCAAGAGTTGAAGAAAAACAGAAGACT
17487101 GTAGG
1 GTAGG
17487106 TTGAATGAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.39, C:0.06, G:0.34, T:0.20
Consensus pattern (37 bp):
GTAGGGAGCTTCAAGAGTTGAAGAAAAACAGAAGACT
Found at i:17494200 original size:20 final size:20
Alignment explanation
Indices: 17494157--17494202 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
17494147 AAAATAATCT
* *
17494157 TCATTTTTCTCATTTTACTT
1 TCATTTTGCTCATTTTACTA
17494177 TCATTTTGCTCATTATT-CTA
1 TCATTTTGCTCATT-TTACTA
17494197 TCATTT
1 TCATTT
17494203 ACTTTGCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.17, C:0.20, G:0.02, T:0.61
Consensus pattern (20 bp):
TCATTTTGCTCATTTTACTA
Done.