Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000250.1 Hibiscus syriacus cultivar Beakdansim tig00000452_pilon, 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: 2850692
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 12
Found at i:2207209 original size:68 final size:65
Alignment explanation
Indices: 2207029--2207229 Score: 202
Period size: 60 Copynumber: 3.1 Consensus size: 65
2207019 TAATAAGGTT
* * * *
2207029 ATTTATTTTAAAATAATTTATTTTAAAATAATTTATTTTAAA-AT--A---ATTTATTATAAAAT
1 ATTTATTATAAAATAATTTACTTTAAAATAAATTATTATAAATATGGATTGATTTATT-TAAAAT
2207088 A
65 A
2207089 ATTTATTATAAAATAATTTACTTTAAAATAAATTATTATAAATATGGATTGATTTATTTAAAATA
1 ATTTATTATAAAATAATTTACTTTAAAATAAATTATTATAAATATGGATTGATTTATTTAAAATA
* * * * * *
2207154 ATTTATT-TTAAATAATTTA-TTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTT
1 ATTTATTATAAAATAATTTACTT--TA--AAATAAATTATTAT-AAATATGGATTGATTTATTTA
2207217 AAATA
61 AAATA
2207222 ATTTATTA
1 ATTTATTA
2207230 GTATGGATTG
Statistics
Matches: 119, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
60 38 0.32
61 2 0.02
63 3 0.03
64 11 0.09
65 16 0.13
66 7 0.06
67 10 0.08
68 32 0.27
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (65 bp):
ATTTATTATAAAATAATTTACTTTAAAATAAATTATTATAAATATGGATTGATTTATTTAAAATA
Found at i:2207217 original size:54 final size:54
Alignment explanation
Indices: 2207154--2207819 Score: 450
Period size: 54 Copynumber: 12.1 Consensus size: 54
2207144 ATTTAAAATA
2207154 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
*
2207208 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
*
2207262 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
* * *
2207315 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTA-TTAGTATGAATTGATTTATTTTAAAATATGGATTG
* * * * *
2207359 ATTACTATGTATTGATTTATTT-TAAAATATGAATTGATTTATTTTAAATAATTTATTAGTATGG
1 ATT--TAT-T-TTAAATAATTTAT-TAGTATGAATTGATTTA-TTT---TAA---A--A-TATGG
2207423 ATTG
51 ATTG
** * * * ** * * *
2207427 ATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATA-ATTTATTAGTA-TGAATTGATTTATTTTA-AAATATGGATTG
* *
2207481 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
* * * * * *
2207535 ATTTATTATT--GT-AGTT-TTATGGATTG-ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATT-TTAAATAATTTATTA-GTA-TGAATTGA-TTT--AT--TTTA-AAATATGGATTG
* *
2207593 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
* * * * *
2207647 ATTTATTTTAAAATATATATTGATTTA-TTTTAAATAATTTA--TT--AGTATGGATTG
1 ATTTATTTT-AAATA-AT-TT-A-TTAGTATGAATTGATTTATTTTAAAATATGGATTG
* ***
2207701 ATTTATTTTAAATAATTTATTTGTAT-AGATTGATTTATTATTGTAGTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGA-ATTGATTTA-T-TT-TA-AAATATGGATTG
2207759 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
2207813 ATTTATT
1 ATTTATT
2207820 ATTGTAGTTG
Statistics
Matches: 483, Mismatches: 65, Indels: 128
0.71 0.10 0.19
Matches are distributed among these distances:
44 6 0.01
46 2 0.00
47 27 0.06
48 2 0.00
49 5 0.01
50 12 0.02
51 6 0.01
52 13 0.03
53 28 0.06
54 205 0.42
55 31 0.06
56 7 0.01
57 12 0.02
58 72 0.15
59 13 0.03
60 9 0.02
61 3 0.01
62 4 0.01
63 7 0.01
64 6 0.01
65 4 0.01
66 3 0.01
68 6 0.01
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
Found at i:2207256 original size:22 final size:22
Alignment explanation
Indices: 2207231--2207273 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2207221 AATTTATTAG
2207231 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
2207253 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2207274 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:2207275 original size:108 final size:108
Alignment explanation
Indices: 2207154--2207819 Score: 485
Period size: 112 Copynumber: 6.1 Consensus size: 108
2207144 ATTTAAAATA
2207154 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
2207219 ATAATTTATTAGTATGGATTGATTTATTTTA-AAATATGGATTG
66 ATAATTTATT-GTATGGATTGATTTATTTTATAAATATGGATTG
*
2207262 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATATGGATTGATTTA--TT--
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
* *
2207322 AT--TGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTACTATGTATTG
66 ATAATTTA-TTGTATGGATTGATTTATTTT--AT-A---A--A-TATGGATTG
* * * * * *
2207373 ATTTATTTTAAAATATGAATTGATTTA-TTTTAAATAATTTA--TT--AGTATGGATTGATTTAT
1 ATTTATTTT--AA-AT-AATTTA-TTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTAT
** ** * ** * * *
2207433 TTTAAA-ATATGGATTG-ATTTATTTTAAATAATTTATTAGTATGGATTG
61 TTTAAATA-ATTTATTGTATGGA-TTGATTTATTTTATAAATATGGATTG
* *
2207481 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATT-
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATT-TTA
* * * * * * *
2207545 -GTAGTTT-TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
65 AATAATTTAT-TGTATGGATTGA-TTT--AT--TTTATAAATATGGATTG
* *
2207593 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
* ** * ** * * *
2207658 A-ATATATATTG-ATTTATTTTAAATAATTTATTAGTATGGATTG
66 ATA-ATTTATTGTATGGA-TTGATTTATTTTATAAATATGGATTG
* ***
2207701 ATTTATTTTAAATAATTTATTTGTAT-AGATTGATTTATTATTGTAGTTGTATGGATTGATTTAT
1 ATTTATTTTAAATAATTTATTAGTATGA-ATTGATTTA-T-TT-TA-AAATATGGATTGATTTAT
*
2207765 TTTAAATAATTTATTAGTATGAATTGATTTATTTTA-AAATATGGATTG
61 TTTAAATAATTTATT-GTATGGATTGATTTATTTTATAAATATGGATTG
2207813 ATTTATT
1 ATTTATT
2207820 ATTGTAGTTG
Statistics
Matches: 447, Mismatches: 60, Indels: 98
0.74 0.10 0.16
Matches are distributed among these distances:
101 22 0.05
102 2 0.00
103 5 0.01
104 14 0.03
105 5 0.01
106 5 0.01
107 24 0.05
108 132 0.30
109 3 0.01
110 5 0.01
111 22 0.05
112 140 0.31
113 23 0.05
114 8 0.02
115 16 0.04
116 7 0.02
117 11 0.02
118 3 0.01
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (108 bp):
ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
ATAATTTATTGTATGGATTGATTTATTTTATAAATATGGATTG
Found at i:2207311 original size:21 final size:21
Alignment explanation
Indices: 2207285--2207354 Score: 77
Period size: 21 Copynumber: 3.1 Consensus size: 21
2207275 AATTTATTAG
2207285 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
**
2207306 TATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTA-T-TT-TA--AA
2207332 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2207353 TA
1 TA
2207355 ATTTATTACT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
21 16 0.40
22 1 0.03
23 4 0.10
24 4 0.10
25 1 0.03
26 14 0.35
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (21 bp):
TATGGATTGATTTATTTTAAA
Found at i:2207349 original size:187 final size:191
Alignment explanation
Indices: 2207154--2207658 Score: 679
Period size: 187 Copynumber: 2.6 Consensus size: 191
2207144 ATTTAAAATA
2207154 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATG-ATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
2207219 ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
65 ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
***
2207284 GTATGGATTGATTTATTTTAAAT-ATGGA-TTG-AT-TT-A-TTATTGTAGTTGTATGGATTG
130 GTATGGATTGATTTATTTTAAATAATGGATTTGTATGTTGATTTATTGTA-AAATATGGATTG
* *
2207341 ATTTATTTTAAATAATTTATTACTATGTATTGATTTATTTTAAAATATGAATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATG-ATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
2207406 ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
65 ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
** *
2207471 GTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTG
130 GTATGGATTGATTTATTTTAAATAATGGATTTGTAT-G-TTGATTTATTGTAAAATATGGATTG
* * * * * *
2207535 ATTTATTATT--GT-AGTT-TTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATT
1 ATTTATT-TTAAATAATTTATTA-GTA-TGATTGA-TTT--AT--TTTA-AAATATGGATTGATT
*
2207596 TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTTTAAA
57 TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAA
2207659 ATATATATTG
Statistics
Matches: 283, Mismatches: 18, Indels: 23
0.87 0.06 0.07
Matches are distributed among these distances:
187 150 0.53
188 3 0.01
189 3 0.01
190 2 0.01
191 3 0.01
192 8 0.03
193 8 0.03
194 17 0.06
195 11 0.04
197 4 0.01
198 74 0.26
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (191 bp):
ATTTATTTTAAATAATTTATTAGTATGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAA
TAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
TATGGATTGATTTATTTTAAATAATGGATTTGTATGTTGATTTATTGTAAAATATGGATTG
Found at i:2207380 original size:22 final size:22
Alignment explanation
Indices: 2207364--2207406 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2207354 AATTTATTAC
*
2207364 TATGTATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
2207386 TATGAATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
2207407 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:2207443 original size:22 final size:22
Alignment explanation
Indices: 2207418--2207460 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2207408 AATTTATTAG
2207418 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
2207440 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2207461 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:2207593 original size:32 final size:32
Alignment explanation
Indices: 2207552--2207802 Score: 259
Period size: 32 Copynumber: 8.7 Consensus size: 32
2207542 ATTGTAGTTT
2207552 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
2207584 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
2207616 TATGGATTGATTTATTTT-AA-AA--TA-T-G
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
2207642 -A---ATTGATTTATTTTAAAA-------TA-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
2207662 TAT--ATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
2207692 TATGGATTGATTTATTTTAAATAATTTATTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
* *
2207724 TATAGATTGATTTA--TT--AT--TGTAGTT-G
1 TATGGATTGATTTATTTTAAATAATTTA-TTAG
2207750 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
2207782 TATGAATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2207803 ATATGGATTG
Statistics
Matches: 189, Mismatches: 7, Indels: 46
0.78 0.03 0.19
Matches are distributed among these distances:
20 1 0.01
21 1 0.01
22 29 0.15
23 2 0.01
25 1 0.01
26 18 0.10
27 3 0.02
28 6 0.03
29 2 0.01
30 9 0.05
31 4 0.02
32 113 0.60
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (32 bp):
TATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:2207598 original size:18 final size:18
Alignment explanation
Indices: 2207575--2207631 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
2207565 ATTTTAAATA
2207575 ATTTATTAGTATGGATTG
1 ATTTATTAGTATGGATTG
* * *
2207593 ATTTATT--T-T-AAATA
1 ATTTATTAGTATGGATTG
2207607 ATTTATTAGTATGGATTG
1 ATTTATTAGTATGGATTG
2207625 ATTTATT
1 ATTTATT
2207632 TTAAAATATG
Statistics
Matches: 29, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
14 9 0.31
15 1 0.03
16 2 0.07
17 1 0.03
18 16 0.55
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (18 bp):
ATTTATTAGTATGGATTG
Found at i:2207603 original size:220 final size:220
Alignment explanation
Indices: 2207253--2207914 Score: 826
Period size: 220 Copynumber: 3.0 Consensus size: 220
2207243 TATTTTAAAA
*
2207253 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
* *
2207317 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTACTATGTATTGATTTATTTT
66 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
2207382 AAAATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
131 AAAATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
2207447 TGATTTATTTTAAATAATTTATTAG
196 TGATTTATTTTAAATAATTTATTAG
2207472 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
2207537 TTATTATTGTAGTTTTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
66 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
** ** * ** * * * * *
2207602 -AAATAATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGAATTGATTTATTTTAAAATATA
131 AAAAT-ATGAATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
*
2207664 TATTGATTTATTTTAAATAATTTATTAG
193 GATTGATTTATTTTAAATAATTTATTAG
* ***
2207692 TATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTATTGTAGTTGTATGGAT
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTA-T-TT-TA-AAATATGGAT
* * * *
2207757 TGATTTATTTTAAATAATTTA-TTAGTATGAATTGATTTATTTT-AA-AA--TA-T-GGATTGAT
62 TGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
* * *** *
2207815 TTA-TTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTT
120 TGATTTATTTTA-AAATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTT
2207879 TAAAATATGGATTGATTTATTTTAAATAATTTATTA
184 TAAAATATGGATTGATTTATTTTAAATAATTTATTA
2207915 TTGTAGTTGT
Statistics
Matches: 380, Mismatches: 44, Indels: 33
0.83 0.10 0.07
Matches are distributed among these distances:
219 53 0.14
220 178 0.47
221 11 0.03
222 8 0.02
223 18 0.05
224 78 0.21
225 2 0.01
226 4 0.01
228 4 0.01
229 4 0.01
230 20 0.05
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (220 bp):
TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
AAAATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
TGATTTATTTTAAATAATTTATTAG
Found at i:2207641 original size:22 final size:22
Alignment explanation
Indices: 2207616--2207680 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
2207606 AATTTATTAG
*
2207616 TATGGATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
2207638 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
2207660 TAT-ATATTGATTTATTTTAAA
1 TATGA-ATTGATTTATTTTAAA
2207681 TAATTTATTA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
21 1 0.02
22 40 0.98
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.52
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:2207822 original size:80 final size:80
Alignment explanation
Indices: 2207728--2207899 Score: 335
Period size: 80 Copynumber: 2.1 Consensus size: 80
2207718 TATTTGTATA
2207728 GATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGAT
1 GATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGAT
2207793 TTATTTTAAAATATG
66 TTATTTTAAAATATG
*
2207808 GATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 GATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGAT
2207873 TTATTTTAAAATATG
66 TTATTTTAAAATATG
2207888 GATTGATTTATT
1 GATTGATTTATT
2207900 TTAAATAATT
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 91 1.00
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (80 bp):
GATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGAT
TTATTTTAAAATATG
Found at i:2207887 original size:22 final size:22
Alignment explanation
Indices: 2207862--2207904 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2207852 AATTTATTAG
2207862 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
2207884 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2207905 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:2207901 original size:54 final size:54
Alignment explanation
Indices: 2207332--2207914 Score: 442
Period size: 54 Copynumber: 10.6 Consensus size: 54
2207322 ATTGTAGTTG
* *
2207332 TATGGATTGATTTATTTTAAATAATTTATTACTATGTATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
2207386 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
2207440 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* * * ** * * * ***
2207493 TA---ATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTT
1 TATGGATTGATTTATTTTAAATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAA
2207552 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
** ** * ** * * * *
2207605 TAATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGAATTGATTTATTTTAAAA
1 T-ATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
**
2207660 TATATATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA
* * * *
2207716 TTTATTTGTATAGATTGA-TTT--ATTATTGTAGTT-GTATGGATTGATTTATTTT-AAA
1 --TA--TGGATTGATTTATTTTAAATAATT-TA-TTAGTATGGATTGATTTATTTTAAAA
* * * * * * ***
2207771 TA---ATTTA-TTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTA-TTTTAAATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAA
2207830 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
2207884 TATGGATTGATTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTATTA
2207915 TTGTAGTTGT
Statistics
Matches: 414, Mismatches: 72, Indels: 86
0.72 0.13 0.15
Matches are distributed among these distances:
47 2 0.00
48 3 0.01
49 1 0.00
50 18 0.04
51 6 0.01
52 5 0.01
53 18 0.04
54 207 0.50
55 23 0.06
56 14 0.03
57 9 0.02
58 53 0.13
59 9 0.02
60 13 0.03
62 30 0.07
63 3 0.01
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
Found at i:2207964 original size:31 final size:31
Alignment explanation
Indices: 2207929--2207987 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
2207919 AGTTGTATGG
* *
2207929 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
2207960 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
2207988 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:2215417 original size:21 final size:20
Alignment explanation
Indices: 2215393--2215431 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
2215383 CATCAAATTC
*
2215393 TTTGTTGAAGCCATGAAATCT
1 TTTGTCGAAGCCAT-AAATCT
*
2215414 TTTGTCGAGGCCATAAAT
1 TTTGTCGAAGCCATAAAT
2215432 TCCTACAGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (20 bp):
TTTGTCGAAGCCATAAATCT
Found at i:2223037 original size:3 final size:3
Alignment explanation
Indices: 2223031--2223098 Score: 100
Period size: 3 Copynumber: 22.3 Consensus size: 3
2223021 TAAAAAAAAT
* *
2223031 TAA TAA TAA TAA TAA TAA TAA TAA TGAA TAA TGA TAA TAA TAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
*
2223077 TAA TAA TGA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA T
2223099 GGATAATGGA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
3 55 0.95
4 3 0.05
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:2223357 original size:45 final size:45
Alignment explanation
Indices: 2223289--2224330 Score: 1694
Period size: 45 Copynumber: 23.2 Consensus size: 45
2223279 CTCAGAAGGT
* * * * * *
2223289 TTACAGATGACTCGGAGGCTTTGAAAACATTATACACTGAAGGTC
1 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGC
*
2223334 TTACAGATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGGGC
1 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGC
* *
2223379 TTACAGATGACCCGAAGATTTTGAAAACATCATGAACTGAAGGGC
1 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGC
2223424 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGC
1 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGC
* * * *
2223469 TTGCAGATAACGCGGAGGTTTTGAAAACATCATGCACTGAAGGGC
1 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGC
*
2223514 TTACAGATGACCCGAAGATTTTGAAAACATCATGCACTGAAGGGC
1 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGC
* * *
2223559 TTACAGATGACTCGAAGGTTTTGAAAACATCATGCACTGATGGGA
1 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGC
*
2223604 TTACAGATGACCCGAAGGTTTTCAAAACATCATGCACTGAAGGGC
1 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGC
*
2223649 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGATGGGC
1 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGC
*
2223694 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCATTGAAGGGC
1 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGC
* *
2223739 TTACAGATGACCCAAAGGTTTTGAAAACATCAT-AACTGAAGGGC
1 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGC
*
2223783 TTACAGATGACCCGATGGTTTTGAAAACATCATGCACTGAAGGGC
1 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGC
* *
2223828 TTACAGGTGACCCGAAGGTTTTGAAAACATCATGCACTGACGGGC
1 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGC
*
2223873 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTTAAGGGC
1 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGC
* *
2223918 TTACAGATGA--CGTAGAGGTTTTGAAAATATAATGCACTGAAGGGC
1 TTACAGATGACCCG-A-AGGTTTTGAAAACATCATGCACTGAAGGGC
*
2223963 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTAAAGGGC
1 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGC
2224008 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGC
1 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGC
2224053 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGC
1 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGC
* * *
2224098 TTACAGATGACCCAAAAGATTTGAAAACATCATGCACTGAAGGGC
1 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGC
2224143 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGC
1 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGC
*
2224188 TTACAGATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGGGC
1 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGC
* * *
2224233 TTACAGATGACCTGGAGGATTTGAAAACATCATGCACTGAAGGGC
1 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGC
** *
2224278 TTACAGATGACCCGAATATTTTGAAAACATCATGCACTGAAGGTC
1 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGC
2224323 TTACAGAT
1 TTACAGAT
2224331 ATGGGAAATA
Statistics
Matches: 923, Mismatches: 69, Indels: 10
0.92 0.07 0.01
Matches are distributed among these distances:
43 2 0.00
44 41 0.04
45 877 0.95
46 1 0.00
47 2 0.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (45 bp):
TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGC
Found at i:2225064 original size:44 final size:44
Alignment explanation
Indices: 2225001--2225101 Score: 177
Period size: 44 Copynumber: 2.3 Consensus size: 44
2224991 AATAAAGCGT
*
2225001 TCATCTTTGAAAAGAGAATCTATCATCTTTGAAGAGA-GAATCTA
1 TCATCTTTGAAGAGAGAATCTATCATCTTTGAAGA-ATGAATCTA
2225045 TCATCTTTGAAGAGAGAATCTATCATCTTTGAAGAATGAATCTA
1 TCATCTTTGAAGAGAGAATCTATCATCTTTGAAGAATGAATCTA
2225089 TCATCTTTGAAGA
1 TCATCTTTGAAGA
2225102 ATGTAGATGT
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
43 1 0.02
44 54 0.98
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.34
Consensus pattern (44 bp):
TCATCTTTGAAGAGAGAATCTATCATCTTTGAAGAATGAATCTA
Found at i:2225104 original size:22 final size:21
Alignment explanation
Indices: 2225001--2225102 Score: 159
Period size: 22 Copynumber: 4.7 Consensus size: 21
2224991 AATAAAGCGT
*
2225001 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAGA-AGAATCTA
2225023 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAGA-AGAATCTA
2225045 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAGA-AGAATCTA
2225067 TCATCTTTGAAGAATGAATCTA
1 TCATCTTTGAAGAA-GAATCTA
2225089 TCATCTTTGAAGAA
1 TCATCTTTGAAGAA
2225103 TGTAGATGTA
Statistics
Matches: 78, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
21 1 0.01
22 77 0.99
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (21 bp):
TCATCTTTGAAGAAGAATCTA
Found at i:2229423 original size:10 final size:9
Alignment explanation
Indices: 2229408--2229451 Score: 56
Period size: 8 Copynumber: 5.1 Consensus size: 9
2229398 CTTGATTCAA
*
2229408 TTTTTTCCT
1 TTTTTTTCT
2229417 TTTTTTTC-
1 TTTTTTTCT
2229425 TTTTTTTCT
1 TTTTTTTCT
*
2229434 TTTTTCT-T
1 TTTTTTTCT
2229442 TTTTTTTCT
1 TTTTTTTCT
2229451 T
1 T
2229452 ATGAATGAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
8 15 0.50
9 15 0.50
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:2229436 original size:15 final size:15
Alignment explanation
Indices: 2229418--2229446 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2229408 TTTTTTCCTT
2229418 TTTTTTCTTTTTTTC
1 TTTTTTCTTTTTTTC
2229433 TTTTTTCTTTTTTT
1 TTTTTTCTTTTTTT
2229447 TTCTTATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTTTCTTTTTTTC
Found at i:2229450 original size:17 final size:17
Alignment explanation
Indices: 2229408--2229451 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
2229398 CTTGATTCAA
*
2229408 TTTTTTCCTTTTTTTTC
1 TTTTTTTCTTTTTTTTC
2229425 TTTTTTTCTTTTTTCTT-
1 TTTTTTTCTTTTTT-TTC
2229442 TTTTTTTCTT
1 TTTTTTTCTT
2229452 ATGAATGAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 23 0.92
18 2 0.08
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (17 bp):
TTTTTTTCTTTTTTTTC
Found at i:2229759 original size:2 final size:2
Alignment explanation
Indices: 2229752--2229819 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
2229742 ACAACAAGGG
2229752 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
2229794 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
2229820 TTGAAAGGAT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2233658 original size:46 final size:47
Alignment explanation
Indices: 2233591--2233682 Score: 150
Period size: 46 Copynumber: 2.0 Consensus size: 47
2233581 CTTGATATAA
* * *
2233591 AAATCCTAACCTCATGCTTTCTAGTTCCATGCTTTGTTTGGAAAAAT
1 AAATCCTAACCGCATGATTTCTAGTTCCATGCTTTGTTTAGAAAAAT
2233638 AAAT-CTAACCGCATGATTTCTAGTTCCATGCTTTGTTTAGAAAAA
1 AAATCCTAACCGCATGATTTCTAGTTCCATGCTTTGTTTAGAAAAA
2233683 AATGAAATCA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
46 38 0.90
47 4 0.10
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (47 bp):
AAATCCTAACCGCATGATTTCTAGTTCCATGCTTTGTTTAGAAAAAT
Found at i:2235165 original size:21 final size:22
Alignment explanation
Indices: 2235107--2235165 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
2235097 ATATGACTAC
2235107 ATAATAA-T-AATA-AT-AACA
1 ATAATAATTAAATATATAAACA
2235125 ATAATAATTAAATATATAAACA
1 ATAATAATTAAATATATAAACA
2235147 TATAA-AATTAAA-ATATAAA
1 -ATAATAATTAAATATATAAA
2235166 TAAACAATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
18 7 0.19
19 1 0.03
20 4 0.11
21 9 0.25
22 11 0.31
23 4 0.11
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (22 bp):
ATAATAATTAAATATATAAACA
Found at i:2238325 original size:64 final size:63
Alignment explanation
Indices: 2238199--2238341 Score: 184
Period size: 64 Copynumber: 2.2 Consensus size: 63
2238189 GTGCACTAAG
*
2238199 AGTGCATCGATGCAAAAAATGCATTCGATGTTTCAAAGAAGCCTGAGTGCATCGATGCATGGTC
1 AGTGCATCGATGCATAAAATGCATTCGATGTTTCAAAGAAGCCTGAGTGCATCGAT-CATGGTC
* *
2238263 TGTGCATCGATGCATAAAATGTATTCGATGTTTTTCATAA-AA-CCTGAGTGCATTCGAT-ATGG
1 AGTGCATCGATGCATAAAATGCATTCGATG--TTTCA-AAGAAGCCTGAGTGCA-TCGATCATGG
*
2238325 TG
62 TC
2238327 AGTGCATCGATGCAT
1 AGTGCATCGATGCAT
2238342 CAATGAGTGC
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
64 46 0.66
65 10 0.14
66 12 0.17
67 2 0.03
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (63 bp):
AGTGCATCGATGCATAAAATGCATTCGATGTTTCAAAGAAGCCTGAGTGCATCGATCATGGTC
Found at i:2238350 original size:20 final size:20
Alignment explanation
Indices: 2238325--2238362 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2238315 TTCGATATGG
2238325 TGAGTGCATCGATGCATCAA
1 TGAGTGCATCGATGCATCAA
*
2238345 TGAGTGCATCGGTGCATC
1 TGAGTGCATCGATGCATC
2238363 CCTTCACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (20 bp):
TGAGTGCATCGATGCATCAA
Found at i:2239654 original size:34 final size:32
Alignment explanation
Indices: 2239601--2239670 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
2239591 CCTTACAAAC
*
2239601 TCCCTAGTTTTTCCGGGCTAAACTATAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTATAACCTT
*
2239633 TCCCTAGGTTTTACACGGGCTAAGCTATAACCTT
1 TCCCTA-GTTTTAC-CGGGCTAAACTATAACCTT
2239667 TCCC
1 TCCC
2239671 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 6 0.18
33 6 0.18
34 22 0.65
ACGTcount: A:0.21, C:0.30, G:0.14, T:0.34
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTATAACCTT
Found at i:2240058 original size:21 final size:21
Alignment explanation
Indices: 2240034--2240082 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
2240024 TGAACAGTGA
* *
2240034 GGGAATCGGTACCCTCAAGGG
1 GGGAATCGATACCATCAAGGG
2240055 GGGAATCGATACCATCAAGGG
1 GGGAATCGATACCATCAAGGG
2240076 GGGAATC
1 GGGAATC
2240083 AGTTCACTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.20, G:0.37, T:0.14
Consensus pattern (21 bp):
GGGAATCGATACCATCAAGGG
Found at i:2254986 original size:21 final size:20
Alignment explanation
Indices: 2254956--2254998 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
2254946 ATCATTGTAG
* *
2254956 GAATTTATGGCCTCGACGAAA
1 GAATTCATGGCCTCCAC-AAA
2254977 GAATTCATGGCCTCCACAAA
1 GAATTCATGGCCTCCACAAA
2254997 GA
1 GA
2254999 CCTTGATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (20 bp):
GAATTCATGGCCTCCACAAA
Found at i:2255073 original size:21 final size:21
Alignment explanation
Indices: 2255049--2255098 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
2255039 AGTTTTGTTA
2255049 CAAAGCCAAGCAACACTTTTG
1 CAAAGCCAAGCAACACTTTTG
2255070 CAAAGCCAAGCAACACTTTTG
1 CAAAGCCAAGCAACACTTTTG
*
2255091 AAAAGCCA
1 CAAAGCCA
2255099 TTGTTCATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.42, C:0.28, G:0.14, T:0.16
Consensus pattern (21 bp):
CAAAGCCAAGCAACACTTTTG
Found at i:2258462 original size:18 final size:18
Alignment explanation
Indices: 2258425--2258459 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2258415 CGGTTCGTCA
*
2258425 AGCTCCTAGCCTAGCACC
1 AGCTCCTAGCCTAACACC
2258443 AGCTCCTAGCC-AACACC
1 AGCTCCTAGCCTAACACC
2258460 CAGTTCCAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.26, C:0.46, G:0.14, T:0.14
Consensus pattern (18 bp):
AGCTCCTAGCCTAACACC
Found at i:2261160 original size:155 final size:149
Alignment explanation
Indices: 2260885--2261188 Score: 529
Period size: 155 Copynumber: 2.0 Consensus size: 149
2260875 GTCGGGTAGC
2260885 TTAGCAAGTCATAGTAATTCATTCAAGTAGGATAATTGTTGTCAAGATAAAGTTTAACATAAGTC
1 TTAGCAAGTCATAGTAATTCATTCAAGTAGGATAATTGTTGTCAAGATAAAGTTTAACATAAGTC
2260950 TTTGTGATACGTTGAATATATGAGGTTATTGCATTATATTTAAACCAACACTTGTCTTA-TTTAT
66 TTTGTGATACGTTGAATATATGAGGTTATTGCATTATATTTAAACCAACACTTGTCTTATTTTAT
2261014 TCCAACATTATGTATACTT
131 TCCAACATTATGTATACTT
*
2261033 TTAGCAAGTCATAGTAATTCATTCTAGACTTAGGATAATTGTTGTCAAGATAAAAGTTTAACATA
1 TTAGCAAGTCATAGTAATTCATTC-A-A-GTAGGATAATTGTTGTCAAGAT-AAAGTTTAACATA
2261098 AGTGCTTTGTGATACGTCTGAATATATGAGGTTATTTGCATTATATTTAAACCAACACTTGTCTT
62 AGT-CTTTGTGATACGT-TGAATATATGAGGTTA-TTGCATTATATTTAAACCAACACTTGTCTT
2261163 ATTTTATTCCAACATTATGTATACTT
124 ATTTTATTCCAACATTATGTATACTT
2261189 ATTTTGCCTC
Statistics
Matches: 147, Mismatches: 1, Indels: 8
0.94 0.01 0.05
Matches are distributed among these distances:
148 24 0.16
149 1 0.01
150 1 0.01
151 21 0.14
152 16 0.11
153 13 0.09
154 16 0.11
155 31 0.21
156 24 0.16
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.40
Consensus pattern (149 bp):
TTAGCAAGTCATAGTAATTCATTCAAGTAGGATAATTGTTGTCAAGATAAAGTTTAACATAAGTC
TTTGTGATACGTTGAATATATGAGGTTATTGCATTATATTTAAACCAACACTTGTCTTATTTTAT
TCCAACATTATGTATACTT
Found at i:2261992 original size:19 final size:19
Alignment explanation
Indices: 2261927--2261993 Score: 52
Period size: 19 Copynumber: 3.4 Consensus size: 19
2261917 AATACCTCAA
2261927 TATCGATACTC-CTATTGGTAG
1 TATCGATACTCTCTA-T-G-AG
2261948 TATCGATACTCTACCCT-TG-G
1 TATCGATACTCT---CTATGAG
2261968 TA-CGATACTCTCTATGAG
1 TATCGATACTCTCTATGAG
2261986 TATCGATA
1 TATCGATA
2261994 TAAAAAATGT
Statistics
Matches: 39, Mismatches: 0, Indels: 16
0.71 0.00 0.29
Matches are distributed among these distances:
16 2 0.05
17 2 0.05
18 3 0.08
19 14 0.36
20 3 0.08
21 11 0.28
22 1 0.03
23 1 0.03
25 2 0.05
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.36
Consensus pattern (19 bp):
TATCGATACTCTCTATGAG
Found at i:2268086 original size:20 final size:20
Alignment explanation
Indices: 2268063--2268100 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2268053 AAGTATTAAT
2268063 CCTTGAGTATCAATACTCCA
1 CCTTGAGTATCAATACTCCA
* *
2268083 CCTTGGGTATTAATACTC
1 CCTTGAGTATCAATACTC
2268101 TATAACAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.34
Consensus pattern (20 bp):
CCTTGAGTATCAATACTCCA
Found at i:2269683 original size:3 final size:3
Alignment explanation
Indices: 2269675--2269717 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
2269665 TTTCATCCCC
2269675 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2269718 AGTAGTAGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2269723 original size:3 final size:3
Alignment explanation
Indices: 2269717--2269801 Score: 136
Period size: 3 Copynumber: 28.7 Consensus size: 3
2269707 ATTATTATTA
2269717 TAG TAG TAG TAG TAG TA- TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
* * *
2269764 TAG TAG TAG TAA TAA TAA TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
2269802 ATATTATTTT
Statistics
Matches: 79, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
2 2 0.03
3 77 0.97
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:2271771 original size:130 final size:129
Alignment explanation
Indices: 2271505--2271842 Score: 391
Period size: 130 Copynumber: 2.6 Consensus size: 129
2271495 TAAACTAATT
* *
2271505 TAATAAATGACTGCTTTAAGGCATGAGAGGTCATTTATTCTCAGTTGGAAATAATAAAGATATTA
1 TAATAAATGA-TACTTTAAGGCATGAGAGGTCATTTATTCTCA-TTGGAAAT-AT-TAGATATTA
* * * *
2271570 CT-GTTTCTCT-TGAGTCAATATTAATTTTTAAGACAGAATAGTGATATCTCTTCATTTCAATTG
62 TTATTTTCTCTCTGAATCAATATTAATTATTAAGACAGAATAGTGATATCTCTTCATTTCAATTG
2271633 GAG
127 GAG
2271636 TAATAAATGATTACTTTAAGGCATGAGAGGTCATTTATTCTCGATTGGAAATATTAGATATTATT
1 TAATAAATGA-TACTTTAAGGCATGAGAGGTCATTTATTCTC-ATTGGAAATATTAGATATTATT
*
2271701 ATTTTCACTCT-AATCAATATTGAA-TATTAAGAC-GAAATAGTGATATCTCTTCATTTCAATTA
64 ATTTTCTCTCTGAATCAATATT-AATTATTAAGACAG-AATAGTGATATCTCTTCATTTCAATT-
2271763 GG-G
126 GGAG
* * * * * * *
2271766 TAATAAATGACAGTTTTAAGGCATGAAAGGTCATTTATTCTTAAATGGAAAAAAATAGATATTAT
1 TAATAAATGATA-CTTTAAGGCATGAGAGGTCATTTATTC-TCATTGG-AAATATTAGATATTAT
*
2271831 CATTTTCTCTCT
63 TATTTTCTCTCT
2271843 TAAAATTATT
Statistics
Matches: 181, Mismatches: 17, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
129 11 0.06
130 91 0.50
131 78 0.43
132 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (129 bp):
TAATAAATGATACTTTAAGGCATGAGAGGTCATTTATTCTCATTGGAAATATTAGATATTATTAT
TTTCTCTCTGAATCAATATTAATTATTAAGACAGAATAGTGATATCTCTTCATTTCAATTGGAG
Found at i:2281091 original size:16 final size:16
Alignment explanation
Indices: 2281045--2281094 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
2281035 AAAAAAGGGA
2281045 AAATGAAAAAAT-AAT
1 AAATGAAAAAATAAAT
* *
2281060 GAAAAGTAAAAA-AAAT
1 -AAATGAAAAAATAAAT
2281076 AAATGAAAAAATAAAT
1 AAATGAAAAAATAAAT
2281092 AAA
1 AAA
2281095 AAGATAGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 9 0.32
16 19 0.68
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (16 bp):
AAATGAAAAAATAAAT
Found at i:2281105 original size:13 final size:11
Alignment explanation
Indices: 2281069--2281107 Score: 51
Period size: 12 Copynumber: 3.3 Consensus size: 11
2281059 TGAAAAGTAA
2281069 AAAAAATAAAT
1 AAAAAATAAAT
2281080 GAAAAAATAAAT
1 -AAAAAATAAAT
2281092 AAAAAGATAGAAT
1 AAAAA-ATA-AAT
2281105 AAA
1 AAA
2281108 TAAAAGGAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 5 0.20
12 14 0.56
13 6 0.24
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (11 bp):
AAAAAATAAAT
Found at i:2282570 original size:135 final size:134
Alignment explanation
Indices: 2282332--2282881 Score: 640
Period size: 135 Copynumber: 4.1 Consensus size: 134
2282322 GTCGAACTCG
* * * *
2282332 ATTCAATCTTCCTTGAAGAATAGTGGAATGAATCAACATTGCCAGATATGATTTTCCCTCAAGAA
1 ATTCAATCTTCCCTGAAGAATAGTGGAATGAATCAACATTTCCAGATCTGATTTTCCCTGAAGAA
* * *
2282397 GTAGTAGAGA-AGATCCCTCTTTTTTCTAGATTTGATCTTCCATGAGGAACAGTGGAACAAGTTT
66 -TAGTAGA-ACAGATCCCTCTTCTTTCCAGATTTGATCTTCCCTGAGGAACAGTGGAACAAGTTT
*
2282461 ACCTCG
129 ACCTCA
*
2282467 ATTCAATCTTCCCTGAAGAATAGTGGAATGAATCAACATTTCTAGATCTGATTTTCCCTGAA-AA
1 ATTCAATCTTCCCTGAAGAATAGTGGAATGAATCAACATTTCCAGATCTGATTTTCCCTGAAGAA
* * * * * * *
2282531 TACGTCAGAACAAATGCCCTC-TCTTTCTAGATTTGATCTTCCCTTAGTATCAGTTGAACAAGTA
66 TA-GT-AGAACAGAT-CCCTCTTCTTTCCAGATTTGATCTTCCCTGAGGAACAGTGGAACAAGTT
*
2282595 TCCCTCA
128 TACCTCA
* * * * * *
2282602 ATTCAATCTTCCTTGAAGAACAGTGGAATGAATCAACATTCCCATATCTAATTTTCCTTGAAGAA
1 ATTCAATCTTCCCTGAAGAATAGTGGAATGAATCAACATTTCCAGATCTGATTTTCCCTGAAG-A
* * * * *
2282667 ATAGTGGAACAGATCCCATC-TCTTTCCAGATTTGATATTCCCTAAGTAGCAGTGGAACAAGTTT
65 ATAGTAGAACAGATCCC-TCTTCTTTCCAGATTTGATCTTCCCTGAGGAACAGTGGAACAAGTTT
*
2282731 GCCTCA
129 ACCTCA
** * * *
2282737 ATTTGATCTTCCCTGAAGAATAGTGGAATGAATTAACATTTCTAGATCTGATTTTCCCTTAAGAA
1 ATTCAATCTTCCCTGAAGAATAGTGGAATGAATCAACATTTCCAGATCTGATTTTCCCTGAAGAA
* * * * * *
2282802 GCAGTGGAACAGATCCCTCTTTTTTCCAGATTTGATCTTTCCTGAGGAACACTGGAACAAGTCTA
66 -TAGTAGAACAGATCCCTCTTCTTTCCAGATTTGATCTTCCCTGAGGAACAGTGGAACAAGTTTA
2282867 CCTCA
130 CCTCA
2282872 ATTCAATCTT
1 ATTCAATCTT
2282882 TTATGACGAA
Statistics
Matches: 352, Mismatches: 54, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
133 2 0.01
134 12 0.03
135 327 0.93
136 7 0.02
137 4 0.01
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.33
Consensus pattern (134 bp):
ATTCAATCTTCCCTGAAGAATAGTGGAATGAATCAACATTTCCAGATCTGATTTTCCCTGAAGAA
TAGTAGAACAGATCCCTCTTCTTTCCAGATTTGATCTTCCCTGAGGAACAGTGGAACAAGTTTAC
CTCA
Found at i:2282835 original size:270 final size:270
Alignment explanation
Indices: 2282332--2282907 Score: 714
Period size: 270 Copynumber: 2.1 Consensus size: 270
2282322 GTCGAACTCG
* * *
2282332 ATTCAATCTTCCTTGAAGAATAGTGGAATGAATCAACATTGCCAGATATGATTTTCCCTCAAGAA
1 ATTCAATCTTCCTTGAAGAACAGTGGAATGAATCAACATTCCCAGATATAATTTTCCCTCAAGAA
* * * * *
2282397 GTAGTAGAGAAGATCCCTCTTTTTTCTAGATTTGATCTTCCATGAGGAACAGTGGAACAAGTTTA
66 ATAGTAGAGAAGATCCCTCTTCTTTCCAGATTTGATATTCCATAAGGAACAGTGGAACAAGTTTA
*
2282462 CCTCGATTCAATCTTCCCTGAAGAATAGTGGAATGAATCAACATTTCTAGATCTGATTTTCCCTG
131 CCTCAATTCAATCTTCCCTGAAGAATAGTGGAATGAATCAACATTTCTAGATCTGATTTTCCCTG
* * * * * * *
2282527 AAAATACGTCAGAACAAATGCCCTCTCTTTCTAGATTTGATCTTCCCTTAGTATCAGTTGAACAA
196 AAAACACGTCAGAACAAATGCCCTCTCTTTCCAGATTTGATCTTCCCTGAGGAACACTGGAACAA
*
2282592 GTATCCCTCA
261 GTATACCTCA
* * * *
2282602 ATTCAATCTTCCTTGAAGAACAGTGGAATGAATCAACATTCCCATATCTAATTTTCCTTGAAGAA
1 ATTCAATCTTCCTTGAAGAACAGTGGAATGAATCAACATTCCCAGATATAATTTTCCCTCAAGAA
* * * *
2282667 ATAGTGGA-ACAGATCCCATC-TCTTTCCAGATTTGATATTCCCTAAGTAGCAGTGGAACAAGTT
66 ATAGTAGAGA-AGATCCC-TCTTCTTTCCAGATTTGATATTCCATAAGGAACAGTGGAACAAGTT
* ** *
2282730 TGCCTCAATTTGATCTTCCCTGAAGAATAGTGGAATGAATTAACATTTCTAGATCTGATTTTCCC
129 TACCTCAATTCAATCTTCCCTGAAGAATAGTGGAATGAATCAACATTTCTAGATCTGATTTTCCC
* * * * *
2282795 TTAAGAAGCA-GT-GGAACAGAT-CCCTCTTTTTTCCAGATTTGATCTTTCCTGAGGAACACTGG
194 TGAA-AA-CACGTCAGAACAAATGCCCTC-TCTTTCCAGATTTGATCTTCCCTGAGGAACACTGG
*
2282857 AACAAGTCTACCTCA
256 AACAAGTATACCTCA
* * *
2282872 ATTCAATCTT-TTATGACGAACAGTGGAATTAATCAA
1 ATTCAATCTTCCT-TGAAGAACAGTGGAATGAATCAA
2282908 TGTTTCTTGA
Statistics
Matches: 262, Mismatches: 38, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
269 7 0.03
270 248 0.95
271 6 0.02
272 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.32
Consensus pattern (270 bp):
ATTCAATCTTCCTTGAAGAACAGTGGAATGAATCAACATTCCCAGATATAATTTTCCCTCAAGAA
ATAGTAGAGAAGATCCCTCTTCTTTCCAGATTTGATATTCCATAAGGAACAGTGGAACAAGTTTA
CCTCAATTCAATCTTCCCTGAAGAATAGTGGAATGAATCAACATTTCTAGATCTGATTTTCCCTG
AAAACACGTCAGAACAAATGCCCTCTCTTTCCAGATTTGATCTTCCCTGAGGAACACTGGAACAA
GTATACCTCA
Found at i:2282936 original size:135 final size:134
Alignment explanation
Indices: 2282332--2282954 Score: 622
Period size: 135 Copynumber: 4.6 Consensus size: 134
2282322 GTCGAACTCG
* * * * * *
2282332 ATTCAATCTTCCTTGAAGAATAGTGGAATGAATCAACATTGCCAGATATGATTTTCCCTCAAGAA
1 ATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTTCTAGATCTGATTTTCCCTGAAGAA
** * * * *
2282397 GTAGTAGAGA-AGATCCCTCTTTTTTCTAGATTTGATCTTCCATGAGGAACAGTGGAACAAGTTT
66 ACAGTGGA-ACAGATCCCTC-TCTTTCCAGATTTGATCTTCCCTGAGGAACAGTGGAACAAGTTT
*
2282461 ACCTCG
129 ACCTCA
*
2282467 ATTCAATCTTCCCTGAAGAATAGTGGAATGAATCAACATTTCTAGATCTGATTTTCCCTGAA-AA
1 ATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTTCTAGATCTGATTTTCCCTGAAGAA
* * * * * * * *
2282531 TAC-GTCAGAACAAATGCCCTCTCTTTCTAGATTTGATCTTCCCTTAGTATCAGTTGAACAAGTA
66 -ACAGT-GGAACAGAT-CCCTCTCTTTCCAGATTTGATCTTCCCTGAGGAACAGTGGAACAAGTT
*
2282595 TCCCTCA
128 TACCTCA
* * * * * *
2282602 ATTCAATCTTCCTTGAAGAACAGTGGAATGAATCAACATTCCCATATCTAATTTTCCTTGAAGAA
1 ATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTTCTAGATCTGATTTTCCCTGAAGAA
* * * * * *
2282667 ATAGTGGAACAGATCCCATCTCTTTCCAGATTTGATATTCCCTAAGTAGCAGTGGAACAAGTTTG
66 ACAGTGGAACAGATCCC-TCTCTTTCCAGATTTGATCTTCCCTGAGGAACAGTGGAACAAGTTTA
2282732 CCTCA
130 CCTCA
** * * *
2282737 ATTTGATCTTCCCTGAAGAATAGTGGAATGAATTAACATTTCTAGATCTGATTTTCCCTTAAGAA
1 ATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTTCTAGATCTGATTTTCCCTGAAGAA
* * * * *
2282802 GCAGTGGAACAGATCCCTCTTTTTTCCAGATTTGATCTTTCCTGAGGAACACTGGAACAAGTCTA
66 ACAGTGGAACAGATCCCTC-TCTTTCCAGATTTGATCTTCCCTGAGGAACAGTGGAACAAGTTTA
2282867 CCTCA
130 CCTCA
*** * * ** * * * * *
2282872 ATTCAATCTTTTATGACGAACAGTGGAATTAATCAATGTTTCTTGATTTGATCTACCATGAAGAA
1 ATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTTCTAGATCTGATTTTCCCTGAAGAA
* **
2282937 ACAATGGAGGAGATCCCT
66 ACAGTGGAACAGATCCCT
2282955 TATCAAAGCA
Statistics
Matches: 403, Mismatches: 77, Indels: 16
0.81 0.16 0.03
Matches are distributed among these distances:
134 10 0.02
135 384 0.95
136 9 0.02
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.32
Consensus pattern (134 bp):
ATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTTCTAGATCTGATTTTCCCTGAAGAA
ACAGTGGAACAGATCCCTCTCTTTCCAGATTTGATCTTCCCTGAGGAACAGTGGAACAAGTTTAC
CTCA
Found at i:2284985 original size:20 final size:21
Alignment explanation
Indices: 2284945--2284986 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
2284935 ATCAGATTGT
2284945 CCAGGGGGTACCGATTCCCCC
1 CCAGGGGGTACCGATTCCCCC
2284966 CCAGGGGGTACCGATTCCCCC
1 CCAGGGGGTACCGATTCCCCC
2284987 TGTTTAACGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.43, G:0.29, T:0.14
Consensus pattern (21 bp):
CCAGGGGGTACCGATTCCCCC
Found at i:2288303 original size:20 final size:20
Alignment explanation
Indices: 2288249--2288309 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
2288239 TCAGATTGTT
*
2288249 CAGGGGGTACAGATTCCACC
1 CAGGGGGTACAGATTCCCCC
* *
2288269 TAGGGGGAACAGATTCCCCC
1 CAGGGGGTACAGATTCCCCC
2288289 CAGGGGGTATC-GATTCCCCC
1 CAGGGGGTA-CAGATTCCCCC
2288309 C
1 C
2288310 TGTTTAACGG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 34 0.97
21 1 0.03
ACGTcount: A:0.21, C:0.33, G:0.30, T:0.16
Consensus pattern (20 bp):
CAGGGGGTACAGATTCCCCC
Found at i:2289575 original size:131 final size:131
Alignment explanation
Indices: 2289338--2289694 Score: 455
Period size: 131 Copynumber: 2.7 Consensus size: 131
2289328 GAAAATAATA
* ** * * * * *
2289338 ATATCTCCTCATTTCGGTTGGGGTAATAATTAACTACTTTAAAGCATTAGAGGTCATTTATCCTC
1 ATATCTCTTCATTTCAATTGGGGTAATAAATAACTTCTTTAAGGCATAAGAGGTCATTTATTCTC
* * * * * * * *
2289403 AATTGGAAATAATCAGATATTACCATTTTCTCTCGAGTCAATATTGATTTTTAAGATGGAATAGT
66 GATTGGAAATAATTAGATATTATCATTTTCACTCGAATCAATATTGAATTTTAAGACGAAATAGT
2289468 G
131 G
* * * * *
2289469 ATATCTCTTCATTTCTATTGGAGTTATAAATAACTTCTTTAAGGCATGAGAGGTCATTTATTCTT
1 ATATCTCTTCATTTCAATTGGGGTAATAAATAACTTCTTTAAGGCATAAGAGGTCATTTATTCTC
* *
2289534 GATTGGAAATCATTAGATATTATTATTTTCACTCGAATCAATATTGAATTTTAAGACGAAATAGT
66 GATTGGAAATAATTAGATATTATCATTTTCACTCGAATCAATATTGAATTTTAAGACGAAATAGT
2289599 G
131 G
* * *
2289600 ATATCTCTTCATTTCAATTGGGGTAATAAATTA-TTGTTTTAAGGCATAAAAGGTCATTTATTCT
1 ATATCTCTTCATTTCAATTGGGGTAATAAATAACTT-CTTTAAGGCATAAGAGGTCATTTATTCT
*
2289664 CGATTGGAAATAATTAGATATTATCGTTTTC
65 CGATTGGAAATAATTAGATATTATCATTTTC
2289695 TCTCTTAAAA
Statistics
Matches: 193, Mismatches: 32, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
130 2 0.01
131 191 0.99
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (131 bp):
ATATCTCTTCATTTCAATTGGGGTAATAAATAACTTCTTTAAGGCATAAGAGGTCATTTATTCTC
GATTGGAAATAATTAGATATTATCATTTTCACTCGAATCAATATTGAATTTTAAGACGAAATAGT
G
Found at i:2291429 original size:33 final size:33
Alignment explanation
Indices: 2291385--2291448 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
2291375 TTTTTCGTAA
* *
2291385 TTTATTCCAAACCCTTTAAATCACATCATAAGC
1 TTTATTCCAAACACTATAAATCACATCATAAGC
* * *
2291418 TTTATTTCAAACACTATAAATTATATCATAA
1 TTTATTCCAAACACTATAAATCACATCATAA
2291449 TCTCCAAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.38
Consensus pattern (33 bp):
TTTATTCCAAACACTATAAATCACATCATAAGC
Found at i:2291809 original size:288 final size:285
Alignment explanation
Indices: 2291148--2291901 Score: 908
Period size: 288 Copynumber: 2.6 Consensus size: 285
2291138 TTTCAAGACT
* * * * * * *
2291148 TATAAATTATATCACAATCTCTAAA-CCAAATCAACTTT--TTCATCAAATTTTCAAATGAATGC
1 TATAAATTATATCATAATCTCCAAATTC-TATAAACTTTCGTTCACCAACTTTTCAAATGAATGC
* * *
2291210 AATTTAGTTCAATTTGATATTAATTTCAACTTTACATTTTACAATTGTTTCAATTTGAACCTTGT
65 AATTTAGTCCAATTTGATATTAATTTCAACTTTTCATTTTACAATTGTTTCAATTTG-ATCTTGT
* * *
2291275 GTGTTGTTTAATTTATTCAAATTTTATTTTGTAATTTTATGTTTATTCAATTTAATCCTTAAAAT
129 GTGTTGTTTAATTTATTTAAATTTCAATTTGTAATTTTATGTTTATTCAATTTAATCCTTAAAAT
* ** * * *
2291340 TATTTTTTTATCCAAAATTAGGTCATAATTATATATTTTTCGTAATTTATTCCAAACCCTTTAAA
194 TATATTTTTATCCAAAATTACCTCATAATTATATATTTTTCGTAATTTACTCCAAAACCTATAAA
* * * *
2291405 TCACATCATAAGCTTTATTTCAAACAC
259 TCACACCATAAACGTCATTTCAAACAC
* * ** **
2291432 TATAAATTATATCATAATCTCCAAATTCTATAAACTTTCGTTAACCAACTTTTTAGGTGAATATA
1 TATAAATTATATCATAATCTCCAAATTCTATAAACTTTCGTTCACCAACTTTTCAAATGAATGCA
* *
2291497 ACTTAGTCCAATTTGATATTAATTTCAGCTTTTCATTTTACAATTGTTTCAATTTGATCTTTGTG
66 ATTTAGTCCAATTTGATATTAATTTCAACTTTTCATTTTACAATTGTTTCAATTTGATC-TTGTG
* * * * *
2291562 TGTTGTTTAATTTATTTAAATTTCAGTTTATAATTTTATGTTTGTTGAATTTAGTCCTTAAAATT
130 TGTTGTTTAATTTATTTAAATTTCAATTTGTAATTTTATGTTTATTCAATTTAATCCTTAAAATT
* * *
2291627 ATATTTTTATCCAAAATTGACCT-ATAACTATTTCTATTTTTTGTAATTTACTCCAAAACCTATA
195 ATATTTTTATCCAAAATT-ACCTCATAA-T-TATATATTTTTCGTAATTTACTCCAAAACCTATA
* * *
2291691 AATTACACCATAAACGTCATTTTAAACTC
257 AATCACACCATAAACGTCATTTCAAACAC
* * *
2291720 TATAAATTATATCATTATCTCCAAATTTTATAAACTTTTGTTCACCAACTTTTCAAATGAATGCA
1 TATAAATTATATCATAATCTCCAAATTCTATAAACTTTCGTTCACCAACTTTTCAAATGAATGCA
* * * * * *
2291785 ATTTAGTCCATTTTGATATTAATTTTATCTTTAT-ATTTTACAATTGTTTCATTTTGATCTCGTA
66 ATTTAGTCCAATTTGATATTAATTTCAACTTT-TCATTTTACAATTGTTTCAATTTGATCTTGTG
* * *
2291849 TGTTGTTTAATTAATTTCAATTTCAATTTGTAATTATTA-GTTTATCCAATTTA
130 TGTTGTTTAATTTATTTAAATTTCAATTTGTAATT-TTATGTTTATTCAATTTA
2291902 GTACTTTGGT
Statistics
Matches: 397, Mismatches: 64, Indels: 15
0.83 0.13 0.03
Matches are distributed among these distances:
284 31 0.08
285 3 0.01
286 153 0.39
287 48 0.12
288 161 0.41
289 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.06, T:0.47
Consensus pattern (285 bp):
TATAAATTATATCATAATCTCCAAATTCTATAAACTTTCGTTCACCAACTTTTCAAATGAATGCA
ATTTAGTCCAATTTGATATTAATTTCAACTTTTCATTTTACAATTGTTTCAATTTGATCTTGTGT
GTTGTTTAATTTATTTAAATTTCAATTTGTAATTTTATGTTTATTCAATTTAATCCTTAAAATTA
TATTTTTATCCAAAATTACCTCATAATTATATATTTTTCGTAATTTACTCCAAAACCTATAAATC
ACACCATAAACGTCATTTCAAACAC
Found at i:2292012 original size:111 final size:110
Alignment explanation
Indices: 2291796--2292001 Score: 306
Period size: 110 Copynumber: 1.9 Consensus size: 110
2291786 TTTAGTCCAT
* * * *
2291796 TTTGATATTAATTTTATCTTTATATTTTACAATTGTTTCATTTTGATCTCGTATGTTGTTTAATT
1 TTTGATATTAATTATATCTTTATATTTTAAAATTGTTTCAATTTGATCCCGTATGTTGTTTAATT
* *
2291861 AATTTCAATTTCAATTTGTAATTATTAGTTTATCCAATTTAGTAC
66 AATTTAAATTTCAATTCGTAATTATTAGTTTATCCAATTTAGTAC
* * *
2291906 TTTGGTATTGATTATATCTTTATATTTTAAAATTGTTTCAATTTGATCCCTGTGTGTT-TATTAA
1 TTTGATATTAATTATATCTTTATATTTTAAAATTGTTTCAATTTGATCCC-GTATGTTGT-TTAA
2291970 TTAATTTAAATTTCAATTCGTAATTATTAGTT
64 TTAATTTAAATTTCAATTCGTAATTATTAGTT
2292002 AGTTCAATTT
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
110 45 0.53
111 40 0.47
ACGTcount: A:0.28, C:0.08, G:0.09, T:0.55
Consensus pattern (110 bp):
TTTGATATTAATTATATCTTTATATTTTAAAATTGTTTCAATTTGATCCCGTATGTTGTTTAATT
AATTTAAATTTCAATTCGTAATTATTAGTTTATCCAATTTAGTAC
Found at i:2295920 original size:15 final size:17
Alignment explanation
Indices: 2295887--2295921 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
2295877 CGGATCACTA
2295887 TTTTAGATATCCGAAAT
1 TTTTAGATATCCGAAAT
2295904 TTTTAGAT-TCC-AAAT
1 TTTTAGATATCCGAAAT
2295919 TTT
1 TTT
2295922 CGAATTAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 3 0.17
17 8 0.44
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.49
Consensus pattern (17 bp):
TTTTAGATATCCGAAAT
Found at i:2296182 original size:60 final size:59
Alignment explanation
Indices: 2296053--2296210 Score: 149
Period size: 59 Copynumber: 2.7 Consensus size: 59
2296043 ACTATAACCT
* * * * * * ***
2296053 TCATTTTAAATTGGACCTTAAACTTTTGAATATTCACTTTCAATGCTAAATTATGACTC
1 TCATTCTAAATTGGTCCTTAAACTTTTGAACATTCAATTTCAATCCTAAACTATGAAAA
* *
2296112 TCATTCTAAATTGGTCCTTAAACTTTTGAACATTATAATTTCATTCCTAAACTATGAAAA
1 TCATTCTAAATTGGTCCTTAAACTTTTGAACATT-CAATTTCAATCCTAAACTATGAAAA
* * *
2296172 TCTTTCTAAATT-GTCCTCAAAAC-TTTGAATATTCGAATT
1 TCATTCTAAATTGGTCCT-TAAACTTTTGAACATTC-AATT
2296211 ACATCCCCAA
Statistics
Matches: 81, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
59 49 0.60
60 32 0.40
ACGTcount: A:0.34, C:0.17, G:0.08, T:0.42
Consensus pattern (59 bp):
TCATTCTAAATTGGTCCTTAAACTTTTGAACATTCAATTTCAATCCTAAACTATGAAAA
Found at i:2305771 original size:90 final size:90
Alignment explanation
Indices: 2305618--2305785 Score: 309
Period size: 90 Copynumber: 1.9 Consensus size: 90
2305608 CCTAACACAC
*
2305618 CCTTTTATATCCAAGTTACCCTAATCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
2305683 ATTTAATTAATTGGAATCTAATAAT
66 ATTTAATTAATTGGAATCTAATAAT
* *
2305708 CCTTTTATGTCCAAGTTTCCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
2305773 ATTTAATTAATTG
66 ATTTAATTAATTG
2305786 AAATTAAATA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 75 1.00
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.46
Consensus pattern (90 bp):
CCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTGGAATCTAATAAT
Found at i:2308143 original size:90 final size:90
Alignment explanation
Indices: 2307985--2308158 Score: 296
Period size: 90 Copynumber: 1.9 Consensus size: 90
2307975 ACACACCCTC
2307985 TTATATCCAAGTTACCCTAATCATATTAGGGTTTTCATTATTTCAAATTAATTAAATCTATATTT
1 TTATATCCAAGTTACCCTAATCATATTAGGGTTTTCATTATTTCAAATTAATTAAATCTATATTT
*
2308050 AATTAATTGAAATTTAATAATCCTT
66 AATTAATTGAAATTAAATAATCCTT
* * *
2308075 TTATGTCCAAGTTACCCTAATGATATTAGGGATTTT-TTTATTTCAAATTAATTAAATCTATATT
1 TTATATCCAAGTTACCCTAATCATATTAGGG-TTTTCATTATTTCAAATTAATTAAATCTATATT
2308139 TAATTAATTGAAATTAAATA
65 TAATTAATTGAAATTAAATA
2308159 TTCGGGATTA
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
90 75 0.95
91 4 0.05
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.45
Consensus pattern (90 bp):
TTATATCCAAGTTACCCTAATCATATTAGGGTTTTCATTATTTCAAATTAATTAAATCTATATTT
AATTAATTGAAATTAAATAATCCTT
Found at i:2314020 original size:2 final size:2
Alignment explanation
Indices: 2314010--2314039 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
2314000 CAAAAAAAAC
2314010 AT AT CAT 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
2314040 AGTTGTCGCG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2320412 original size:16 final size:15
Alignment explanation
Indices: 2320391--2320429 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
2320381 ATAAAGGTTT
2320391 TATGAATGATTCAAGG
1 TATGAATG-TTCAAGG
*
2320407 TATGAACTGTTCAAGT
1 TATGAA-TGTTCAAGG
2320423 TATGAAT
1 TATGAAT
2320430 TTTTACGAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 18 0.86
17 2 0.10
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.36
Consensus pattern (15 bp):
TATGAATGTTCAAGG
Found at i:2321438 original size:15 final size:15
Alignment explanation
Indices: 2321417--2321455 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
2321407 TGATATATTT
2321417 TTAATTTTTTAATA-
1 TTAATTTTTTAATAC
*
2321431 TATAATTTTTTTATAC
1 T-TAATTTTTTAATAC
2321447 TTAATTTTT
1 TTAATTTTT
2321456 CAAATGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 1 0.05
15 20 0.91
16 1 0.05
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (15 bp):
TTAATTTTTTAATAC
Found at i:2322706 original size:20 final size:19
Alignment explanation
Indices: 2322683--2322730 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
2322673 CGATATACCA
*
2322683 GGTAAAAATATGATAAAATC
1 GGTAAAAA-ATGATAAAACC
*
2322703 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
2322723 GGTAAAAA
1 GGTAAAAA
2322731 GTTACCGGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 3 0.12
20 18 0.75
21 3 0.12
ACGTcount: A:0.54, C:0.08, G:0.17, T:0.21
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:2322817 original size:181 final size:180
Alignment explanation
Indices: 2322471--2322938 Score: 658
Period size: 182 Copynumber: 2.6 Consensus size: 180
2322461 GATCCAAATT
* * * **
2322471 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCAGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGA-AAAACCGGTATCAAAATGATA
* * * * * *
2322536 ACACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACATTTC
65 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACATTTC
*
2322601 GTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
130 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATAC-TTTA
* *
2322653 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAATCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGA-AAAACCGGTATCAAAATGATA
* *
2322718 AAACCGGTAAAAAGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
65 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACA-TTT
** *
2322782 -GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTA
129 CGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTA
** * *
2322833 AAAAAAATATCGATCCACAACGATATAACAGGT-AAAAGAT-AAAAACCGGTATCAAAATGAT-A
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGAAAAACCGGTATCAAAATGATAA
2322895 AACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
66 AACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
2322939 CGTAAGTACG
Statistics
Matches: 258, Mismatches: 27, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
176 43 0.17
177 19 0.07
178 1 0.00
179 6 0.02
180 33 0.13
181 58 0.22
182 98 0.38
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.26
Consensus pattern (180 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGAAAAACCGGTATCAAAATGATAA
AACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACATTTCG
TGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTA
Found at i:2325144 original size:21 final size:21
Alignment explanation
Indices: 2325105--2325170 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
2325095 AAGACAATCA
*
2325105 AGAGTCGAAGAGAAAACTTGAT
1 AGAGTCGAAGAG-AAACTTGAG
2325127 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
2325148 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
2325169 AG
1 AG
2325171 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
21 29 0.71
22 12 0.29
ACGTcount: A:0.42, C:0.11, G:0.30, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:2327058 original size:19 final size:19
Alignment explanation
Indices: 2327034--2327082 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
2327024 AATGTAGGGT
2327034 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
2327053 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
2327072 TAATTTTGTAT
1 TAATTTTGTAT
2327083 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:2327692 original size:195 final size:199
Alignment explanation
Indices: 2327338--2328045 Score: 1119
Period size: 195 Copynumber: 3.6 Consensus size: 199
2327328 GTGCAACCAT
*
2327338 AAAGTGTCGATCCCATAAACATCGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
*
2327403 TCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTAATGTATCGACACTTTTG
66 CCGGTACAAGTATACCGG-TTTATGAGAGAATAGGTCT--A-AA--TAATGTATCGACACTTTTG
*
2327468 TAGTTTGTGTCGATATTTTTGGTCCATAATGAATGGCAAACAAGGTGCAACAATAAAGTGTCGAT
125 TAGTTTGTGTCGATATTTTTGGTCCATAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGAT
2327533 -CATATATAA
190 CCATATATAA
*
2327542 AAAGTGTCGAT-CGATAAACATCGAAACCCATAAGTATAATGTAATAGGTAA-TTTTCAATCTAA
1 AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
*
2327605 CCGGTACAAGTATACCGGTTTATGAGAGAATAGGTCT-AATAATGTATCGACACTTTTTTAGTTT
66 CCGGTACAAGTATACCGGTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTT
2327669 GTGTCGATATTTTTGGTCCATAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATAT
131 GTGTCGATATTTTTGGTCCATAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATAT
2327734 ATAA
196 ATAA
2327738 AAAGTGTCGATCCCATAAAACATC----CCCATAAGTATAATGTAATAGGTAATTTTTCAATCTA
1 AAAGTGTCGATCCCAT-AAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTA
* * *
2327799 ACTGGTACAAGTATACCGATTT-T-AGAGAATAGGTCTAAATAA-GTGTCGACACTTTTGTAG-T
65 ACCGGTACAAGTATACCGGTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTT
* * *
2327860 TGTGTCG--ATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCAT-AAGTGTCGATCCATA
130 TGTGTCGATATTTTTGGTCCATAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATA
2327922 TATAA
195 TATAA
2327927 AAAGTGTCGAT--CATAAACATCGAAACCCATAAGTATAATGTAATA-GTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
*
2327989 TCGGTACAAGTATACCGGTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTT
66 CCGGTACAAGTATACCGGTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTT
2328046 AATCTAACCG
Statistics
Matches: 475, Mismatches: 17, Indels: 36
0.90 0.03 0.07
Matches are distributed among these distances:
186 7 0.01
187 3 0.01
189 66 0.14
190 58 0.12
191 19 0.04
192 20 0.04
193 29 0.06
194 31 0.07
195 113 0.24
196 20 0.04
197 5 0.01
198 7 0.01
201 19 0.04
202 29 0.06
203 38 0.08
204 11 0.02
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.31
Consensus pattern (199 bp):
AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
CCGGTACAAGTATACCGGTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTT
GTGTCGATATTTTTGGTCCATAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATAT
ATAA
Found at i:2328065 original size:64 final size:63
Alignment explanation
Indices: 2327982--2328108 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 63
2327972 GTAATTTTTC
*
2327982 AATCTAATCGGTACAAGTATACCGG-TTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTT
1 AATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCT-AA-AATGTATCGACACTTT
*
2328046 AATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAAATGTGTCGACACTTT
1 AATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAAATGTATCGACACTTT
2328109 TGTAGTTTGT
Statistics
Matches: 60, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
63 15 0.25
64 26 0.43
65 19 0.32
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.31
Consensus pattern (63 bp):
AATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAAATGTATCGACACTTT
Found at i:2328725 original size:200 final size:200
Alignment explanation
Indices: 2328046--2328706 Score: 1157
Period size: 200 Copynumber: 3.3 Consensus size: 200
2328036 TCGACACTTT
*
2328046 AATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCT-AA-AATGTGTCGACACTTT
1 AATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTT
*
2328109 TGTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCA
66 TGTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCG
2328174 ATCCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAAT
131 ATCCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAAT
2328239 TTTTC
196 TTTTC
*
2328244 AATCTAATCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTT
1 AATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTT
* *
2328309 TGTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCG
66 TGTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCG
*
2328374 AACCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAAT
131 ATCCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAAT
2328439 TTTTC
196 TTTTC
* *
2328444 AATCTAACCGGTACAAGTATATCGGTTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTT
1 AATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTT
*
2328509 TGTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGTAAACAGGGTGCAACCATAAAGTGTCG
66 TGTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCG
* *
2328574 ATCCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCAAAAGTATAATGTATTAGGTAAT
131 ATCCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAAT
2328639 TTTTC
196 TTTTC
* * * *
2328644 AATCTAACCGGTATAAGTATACCGGTTTTATGGGAGAATTGGTATATAAT-ATGTATCGACACT
1 AATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTA-AATAATGTATCGACACT
2328707 GTTTAATGTT
Statistics
Matches: 440, Mismatches: 20, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
198 44 0.10
199 2 0.00
200 391 0.89
201 3 0.01
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (200 bp):
AATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTT
TGTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCG
ATCCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAAT
TTTTC
Found at i:2330181 original size:6 final size:6
Alignment explanation
Indices: 2330170--2330233 Score: 65
Period size: 6 Copynumber: 10.7 Consensus size: 6
2330160 CAAGCGATAA
* * * * *
2330170 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGAAG ATGACG ATGATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* *
2330218 ATGATG ATGATG ATGA
1 ATGAAG ATGAAG ATGA
2330234 TGATCCAAAC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.22
Consensus pattern (6 bp):
ATGAAG
Found at i:2330219 original size:3 final size:3
Alignment explanation
Indices: 2330187--2330237 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
2330177 TGAAGCTGAC
* * * *
2330187 GAT GAA GAT GAC GAT GAA GAT GAC GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
2330235 GAT
1 GAT
2330238 CCAAACAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.37, C:0.04, G:0.33, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:2330237 original size:12 final size:12
Alignment explanation
Indices: 2330170--2330233 Score: 83
Period size: 12 Copynumber: 5.3 Consensus size: 12
2330160 CAAGCGATAA
*
2330170 ATGAAGATGAAG
1 ATGACGATGAAG
*
2330182 CTGACGATGAAG
1 ATGACGATGAAG
2330194 ATGACGATGAAG
1 ATGACGATGAAG
*
2330206 ATGACGATGATG
1 ATGACGATGAAG
* *
2330218 ATGATGATGATG
1 ATGACGATGAAG
2330230 ATGA
1 ATGA
2330234 TGATCCAAAC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 47 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.22
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:2331774 original size:183 final size:182
Alignment explanation
Indices: 2331438--2331842 Score: 670
Period size: 183 Copynumber: 2.2 Consensus size: 182
2331428 CAAAGTTTTC
* * *
2331438 ACACTTTTTAATATTGTGTCGGTACTTTATGTCTAGAATGGAAGAAAAATGTGTCGATGCCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
*
2331503 CAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATA
66 CAAAAAGTGTCGATT--AAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
* *
2331568 TAATCGGTATATATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
129 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
2331622 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* * *
2331687 CAAACAGTGTCGACATT-TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
66 CAAAAAGTGTCG--ATTAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
2331751 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
129 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
2331805 ACACTTTTTAATTTTGTGTCGGTAC-TTATGTCCAGAAT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
2331843 TATAATACTA
Statistics
Matches: 209, Mismatches: 10, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
182 13 0.06
183 120 0.57
184 73 0.35
186 3 0.01
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (182 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
CAAAAAGTGTCGATTAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATA
ACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:2331951 original size:117 final size:118
Alignment explanation
Indices: 2331717--2331958 Score: 398
Period size: 117 Copynumber: 2.1 Consensus size: 118
2331707 ACATCGGAAC
2331717 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAA-GTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
*
2331782 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTATGT
65 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTATGT
* * * *
2331836 CCAGAATTATAA-TACTAGATAATTTTGTAATATAATCGGTATAAGTATACCGGTTTTATTAGCG
1 CCAGAATTATAAGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCG
*
2331900 -ATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGT
66 AATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTAC-TTATGT
2331953 CCAGAA
1 CCAGAA
2331959 GGAAGAAAAA
Statistics
Matches: 116, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
116 44 0.38
117 60 0.52
119 12 0.10
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (118 bp):
CCAGAATTATAAGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCG
AATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTATGT
Found at i:2332089 original size:298 final size:299
Alignment explanation
Indices: 2331551--2332139 Score: 1078
Period size: 298 Copynumber: 2.0 Consensus size: 299
2331541 TATAATGTAA
2331551 TAGATAATTTTGTAATATAATCGGTATATATATACCGGTTTTATGAGCGAATAGGTCTACAACCT
1 TAGATAATTTTGTAATATAATCGGTATATATATACCGGTTTTATGAGCGAATAGGTCTACAACCT
2331616 ATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATA
66 ATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATA
*
2331681 CCTTGTCAAACAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTG
131 CCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTG
*
2331746 TAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTT
196 TAATATAACCGGTATAAATATACCGGCTTTATGAGCGAATAGGTCTACAACCTATATCGACACTT
2331811 TTTAATTTTGTGTCGGTAC-TTATGTCCAGAATTATAATAC
261 TTTAA--TTGTGTCGGTACTTTATGTCCAGAATTATAATAC
*
2331851 TAGATAATTTTGTAATATAATCGGTATA-AGTATACCGGTTTTATTAGCG-ATAGGTCTACAACC
1 TAGATAATTTTGTAATATAATCGGTATATA-TATACCGGTTTTATGAGCGAATAGGTCTACAACC
*
2331914 TATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAA-GGAAGAAAAATGTGTCGAT
65 TATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGAT
2331978 ACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTT
130 ACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTT
*
2332043 GTAATATAATCGGTATAAATATACCGGCTTTATGAGCGAATAGGTCTACAACCTATATCGACACT
195 GTAATATAACCGGTATAAATATACCGGCTTTATGAGCGAATAGGTCTACAACCTATATCGACACT
2332108 TTTTAATTGTGTCGGTACTTTATGTCCAGAAT
260 TTTTAATTGTGTCGGTACTTTATGTCCAGAAT
2332140 GGAAGCAAAA
Statistics
Matches: 282, Mismatches: 5, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
296 12 0.04
297 13 0.05
298 152 0.54
299 59 0.21
300 46 0.16
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (299 bp):
TAGATAATTTTGTAATATAATCGGTATATATATACCGGTTTTATGAGCGAATAGGTCTACAACCT
ATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATA
CCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTG
TAATATAACCGGTATAAATATACCGGCTTTATGAGCGAATAGGTCTACAACCTATATCGACACTT
TTTAATTGTGTCGGTACTTTATGTCCAGAATTATAATAC
Found at i:2332155 original size:181 final size:181
Alignment explanation
Indices: 2331836--2332322 Score: 847
Period size: 181 Copynumber: 2.7 Consensus size: 181
2331826 GTACTTATGT
* * *
2331836 CCAGAATTATAA--TACTAGATAATTTTGTAATATAATCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAATCGGTATAAATATACCGGTTTTATGAGC
*
2331899 G-ATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAA-GGA
66 GAATAGGTCTACAACCTATATCGACACTTTTT-A-ATTGTGTCGGTACTTTATGTCCAGAATGGA
2331962 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAAC
129 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAAC
*
2332015 CCAGAATTATAATGTAATAGATAATTTTGTAATATAATCGGTATAAATATACCGGCTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAATCGGTATAAATATACCGGTTTTATGAGC
2332080 GAATAGGTCTACAACCTATATCGACACTTTTTAATTGTGTCGGTACTTTATGTCCAGAATGGAAG
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATTGTGTCGGTACTTTATGTCCAGAATGGAAG
*
2332145 CAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAAC
131 AAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAAC
*
2332196 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAATCGGTATAAATATACCGGTTTTATGAGC
2332261 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAAT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAA--TTGTGTCGGTACTTTATGTCCAGAAT
2332323 TATAATGTAC
Statistics
Matches: 294, Mismatches: 8, Indels: 8
0.95 0.03 0.03
Matches are distributed among these distances:
179 12 0.04
180 26 0.09
181 201 0.68
182 29 0.10
183 26 0.09
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (181 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAATCGGTATAAATATACCGGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATTGTGTCGGTACTTTATGTCCAGAATGGAAG
AAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAAC
Found at i:2332412 original size:120 final size:120
Alignment explanation
Indices: 2332196--2332442 Score: 440
Period size: 120 Copynumber: 2.1 Consensus size: 120
2332186 ACATCGGAAC
2332196 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
*
2332261 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
* * *
2332316 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
* *
2332381 GAATAGGTCTACAACCTATGTCGACAGTTTTTAATATTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
2332436 CCAGAAT
1 CCAGAAT
2332443 GGAAGAAAAA
Statistics
Matches: 121, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 121 1.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.38
Consensus pattern (120 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:2332560 original size:303 final size:301
Alignment explanation
Indices: 2332015--2332625 Score: 1096
Period size: 303 Copynumber: 2.0 Consensus size: 301
2332005 ACATCGGAAC
*
2332015 CCAGAATTATAATGTAATAGATAATTTTGTAATATAATCGGTATAAATATACCGGCTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGCTTTATGAGC
2332080 GAATAGGTCTACAACCTATATCGACACTTTTTAATTGTGTCGGTACTTTATGTCCAGAATGGAAG
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATTGTGTCGGTACTTTATGTCCAGAATGGAAG
*
2332145 CAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATG
131 AAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATG
**
2332210 TAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAA
196 TAATAGATAATTTTGTAATATAACCGGTATAAATATACCAATTTTATGAGCGAATAGGTCTACAA
*
2332275 CCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
261 CCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
* * * *
2332316 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGCTTTATGAGC
* *
2332381 GAATAGGTCTACAACCTATGTCGACAGTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCTATATCGACACTTTTT-A-ATTGTGTCGGTACTTTATGTCCAGAATGGA
2332446 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
129 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
*
2332511 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAATTTTATGAGTGAATAGGTCTAC
194 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAATTTTATGAGCGAATAGGTCTAC
2332576 AACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
259 AACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
2332619 CCAGAAT
1 CCAGAAT
2332626 GGAAGAAAAA
Statistics
Matches: 296, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
301 90 0.30
302 1 0.00
303 205 0.69
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.35
Consensus pattern (301 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGCTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATTGTGTCGGTACTTTATGTCCAGAATGGAAG
AAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATG
TAATAGATAATTTTGTAATATAACCGGTATAAATATACCAATTTTATGAGCGAATAGGTCTACAA
CCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:2332624 original size:183 final size:183
Alignment explanation
Indices: 2332316--2332991 Score: 1165
Period size: 183 Copynumber: 3.7 Consensus size: 183
2332306 TACTTTATGT
* * * *
2332316 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
* *
2332381 GAATAGGTCTACAACCTATGTCGACAGTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
2332446 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAAC
131 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAAC
* *
2332499 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAATTTTATGAGT
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
2332564 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
* *
2332629 AGAAAAATATGTTGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAAC
131 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAAC
*
2332682 CCAGAATTATAATGTAATAGATAATTTTGTAATATAATCGGTATAAATATACCGGA-TTTATGAG
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACC-GATTTTATGAG
* *
2332746 CGAATATGTCTACAACTTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGG
65 CGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGG
* * *
2332811 AAGAAAAATGTGTCGATACCTTGTCAAACAGTGTCGACATTTACCCATTGGAAC
130 AAGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAAC
* *
2332865 CCAGAATTATAATGTAATAGATAATTTTGTATTATAACCGGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
*
2332930 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAAT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
2332992 TATAATGTAC
Statistics
Matches: 465, Mismatches: 26, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
182 1 0.00
183 463 1.00
184 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (183 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAAC
Found at i:2332937 original size:669 final size:669
Alignment explanation
Indices: 2331836--2333476 Score: 2949
Period size: 669 Copynumber: 2.5 Consensus size: 669
2331826 GTACTTATGT
* * * *
2331836 CCAGAATTATAA--TACTAGATAATTTTGTAATATAATCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
*
2331899 G-ATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAA-GGA
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
2331962 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
131 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
*
2332027 TGTAATAGATAATTTTGTAATATAATCGGTATAAATATACCGGCTTTATGAGCGAATAGGTCTAC
196 TGTAATAGATAATTTTGTAATATAATCGGTATAAATATACCGGATTTATGAGCGAATAGGTCTAC
*
2332092 AACCTATATCGACACTTTTT-A-ATTGTGTCGGTACTTTATGTCCAGAATGGAAGCAAAATGTGT
261 AACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGT
2332155 CGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAA
326 CGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAA
2332220 TTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGA
391 TTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGA
2332285 CACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAATTATAATGTACTAGATAATTTTGTAATA
456 CACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAATTATAATGTACTAGATAATTTTGTAATA
* *
2332350 TAACCGGTATAAGTATACCGGTTTTATTAGCGAATAGGTCTACAACCTATGTCGACAGTTTTTAA
521 TAACCGGTATAAGTATACCGGTTTTATTAGCGAATAGGTCTACAACCTATGTCAACACTTTTTAA
* *
2332415 TATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTGTC
586 TATTGTGTCGGTACTTTATGTCCAAAATGGAAGAAAAATATGTCGATACCTTGTCAAAAAGTGTC
2332480 GACATTTACACATCGGAAC
651 GACATTTACACATCGGAAC
** *
2332499 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAATTTTATGAGT
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
2332564 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
* *
2332629 AGAAAAATATGTTGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
131 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
*
2332694 TGTAATAGATAATTTTGTAATATAATCGGTATAAATATACCGGATTTATGAGCGAATATGTCTAC
196 TGTAATAGATAATTTTGTAATATAATCGGTATAAATATACCGGATTTATGAGCGAATAGGTCTAC
*
2332759 AACTTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGT
261 AACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGT
* * *
2332824 CGATACCTTGTCAAACAGTGTCGACATTTACCCATTGGAACCCAGAATTATAATGTAATAGATAA
326 CGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAA
*
2332889 TTTTGTATTATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGA
391 TTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGA
2332954 CACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAATTATAATGTACTAGATAATTTTGTAATA
456 CACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAATTATAATGTACTAGATAATTTTGTAATA
2333019 TAACCGGTATAAGTATACCGGTTTTATTAGCGAATAGGTCTACAACCTATGTCAACACTTTTTAA
521 TAACCGGTATAAGTATACCGGTTTTATTAGCGAATAGGTCTACAACCTATGTCAACACTTTTTAA
2333084 TATTGTGTCGGTACTTTATGTCCAAAATGGAAGAAAAATATGTCGATACCTTGTCAAAAAGTGTC
586 TATTGTGTCGGTACTTTATGTCCAAAATGGAAGAAAAATATGTCGATACCTTGTCAAAAAGTGTC
* *
2333149 GGCATTTACACATTGGAAC
651 GACATTTACACATCGGAAC
*
2333168 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGATAT-AATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
*
2333232 GAATAGGTCTACAACCTATATCGACACTTTTTAATA-TGTGTCGGTACTTTATATCCAGAATGGA
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
2333296 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAAACCCAGAATTATA
131 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGG-AACCCAGAATTATA
*
2333361 ATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACC-GATTTTATGAGCGAATAGGTCT
195 ATGTAATAGATAATTTTGTAATATAATCGGTATAAATATACCGGA-TTTATGAGCGAATAGGTCT
*
2333425 ACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAAT
259 ACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
2333477 TATAATGTAC
Statistics
Matches: 935, Mismatches: 35, Indels: 11
0.95 0.04 0.01
Matches are distributed among these distances:
663 12 0.01
665 45 0.05
666 58 0.06
667 225 0.24
668 177 0.19
669 418 0.45
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (669 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
TGTAATAGATAATTTTGTAATATAATCGGTATAAATATACCGGATTTATGAGCGAATAGGTCTAC
AACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGT
CGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAA
TTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGA
CACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAATTATAATGTACTAGATAATTTTGTAATA
TAACCGGTATAAGTATACCGGTTTTATTAGCGAATAGGTCTACAACCTATGTCAACACTTTTTAA
TATTGTGTCGGTACTTTATGTCCAAAATGGAAGAAAAATATGTCGATACCTTGTCAAAAAGTGTC
GACATTTACACATCGGAAC
Found at i:2333078 original size:120 final size:120
Alignment explanation
Indices: 2332865--2333107 Score: 423
Period size: 120 Copynumber: 2.0 Consensus size: 120
2332855 CCATTGGAAC
*
2332865 CCAGAATTATAATGTAATAGATAATTTTGTATTATAACCGGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
* *
2332930 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCAACACTTTTTAATATTGTGTCGGTACTTTATGT
* * *
2332985 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
*
2333050 GAATAGGTCTACAACCTATGTCAACACTTTTTAATATTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCAACACTTTTTAATATTGTGTCGGTACTTTATGT
2333105 CCA
1 CCA
2333108 AAATGGAAGA
Statistics
Matches: 116, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 116 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (120 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
GAATAGGTCTACAACCTATATCAACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:2333094 original size:303 final size:301
Alignment explanation
Indices: 2332682--2333292 Score: 1042
Period size: 303 Copynumber: 2.0 Consensus size: 301
2332672 ACATCGGAAC
*
2332682 CCAGAATTATAATGTAATAGATAATTTTGTAATATAATCGGTATAAATATACCGGATTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGATTTATGAGC
* * * *
2332747 GAATATGTCTACAACTTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCTATATCAACACTTTTTAATATTGTGTCGGTACTTTATGTCCAAAATGGA
* * *
2332812 AGAAAAATGTGTCGATACCTTGTCAAACAGTGTCGACATTTACCCATTGGAACCCAGAATTATAA
131 AGAAAAATATGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATTGGAACCCAGAATTATAA
* *
2332877 TGTAATAGATAATTTTGTATTATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
196 TGTAATAGATAATTTTGTAATATAACCGATAT-AATATACCGGTTTTATGAGCGAATAGGTCTAC
* *
2332942 AACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
260 AACCTATATCGACACTTTTTAA-TATGTGTCGGTACTTTATAT
* * * *
2332985 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGATTTATGAGC
*
2333050 GAATAGGTCTACAACCTATGTCAACACTTTTTAATATTGTGTCGGTACTTTATGTCCAAAATGGA
66 GAATAGGTCTACAACCTATATCAACACTTTTTAATATTGTGTCGGTACTTTATGTCCAAAATGGA
*
2333115 AGAAAAATATGTCGATACCTTGTCAAAAAGTGTCGGCATTTACACATTGGAACCCAGAATTATAA
131 AGAAAAATATGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATTGGAACCCAGAATTATAA
2333180 TGTAATAGATAATTTTGTAATATAACCGATATAATATACCGGTTTTATGAGCGAATAGGTCTACA
196 TGTAATAGATAATTTTGTAATATAACCGATATAATATACCGGTTTTATGAGCGAATAGGTCTACA
2333245 ACCTATATCGACACTTTTTAATATGTGTCGGTACTTTATAT
261 ACCTATATCGACACTTTTTAATATGTGTCGGTACTTTATAT
2333286 CCAGAAT
1 CCAGAAT
2333293 GGAAGAAAAA
Statistics
Matches: 290, Mismatches: 18, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
301 25 0.09
302 54 0.19
303 211 0.73
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (301 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGATTTATGAGC
GAATAGGTCTACAACCTATATCAACACTTTTTAATATTGTGTCGGTACTTTATGTCCAAAATGGA
AGAAAAATATGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATTGGAACCCAGAATTATAA
TGTAATAGATAATTTTGTAATATAACCGATATAATATACCGGTTTTATGAGCGAATAGGTCTACA
ACCTATATCGACACTTTTTAATATGTGTCGGTACTTTATAT
Found at i:2333353 original size:182 final size:181
Alignment explanation
Indices: 2332985--2333476 Score: 831
Period size: 182 Copynumber: 2.7 Consensus size: 181
2332975 TACTTTATGT
* *
2332985 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAA-TATACCGGTTTTATGAGC
* * *
2333050 GAATAGGTCTACAACCTATGTCAACACTTTTTAATATTGTGTCGGTACTTTATGTCCAAAATGGA
65 GAATAGGTCTACAACCTATATCGACACTTTTTAATA-TGTGTCGGTACTTTATGTCCAGAATGGA
* *
2333115 AGAAAAATATGTCGATACCTTGTCAAAAAGTGTCGGCATTTACACATTGGAAC
129 AGAAAAATATGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAAC
*
2333168 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGATATAATATACCGGTTTTATGAGCG
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAATATACCGGTTTTATGAGCG
*
2333233 AATAGGTCTACAACCTATATCGACACTTTTTAATATGTGTCGGTACTTTATATCCAGAATGGAAG
66 AATAGGTCTACAACCTATATCGACACTTTTTAATATGTGTCGGTACTTTATGTCCAGAATGGAAG
*
2333298 AAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAAAC
131 AAAAATATGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGG-AAC
*
2333350 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTAT-AATATACCGGTTTTATGAGC
*
2333415 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAAT
65 GAATAGGTCTACAACCTATATCGACACTTTTTAA-TATGTGTCGGTACTTTATGTCCAGAAT
2333477 TATAATGTAC
Statistics
Matches: 292, Mismatches: 14, Indels: 5
0.94 0.05 0.02
Matches are distributed among these distances:
181 73 0.25
182 97 0.33
183 97 0.33
184 25 0.09
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (181 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAATATACCGGTTTTATGAGCG
AATAGGTCTACAACCTATATCGACACTTTTTAATATGTGTCGGTACTTTATGTCCAGAATGGAAG
AAAAATATGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAAC
Found at i:2333565 original size:119 final size:120
Alignment explanation
Indices: 2333350--2333595 Score: 440
Period size: 119 Copynumber: 2.1 Consensus size: 120
2333340 CATCGGAAAC
2333350 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
*
2333415 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
* * *
2333470 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAA-ATACCGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
*
2333534 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
2333589 CCAGAAT
1 CCAGAAT
2333596 GGAAGAAAAA
Statistics
Matches: 121, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
119 75 0.62
120 46 0.38
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.37
Consensus pattern (120 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:2333673 original size:484 final size:485
Alignment explanation
Indices: 2332015--2333759 Score: 2329
Period size: 486 Copynumber: 3.6 Consensus size: 485
2332005 ACATCGGAAC
* * * *
2332015 CCAGAATTATAATGTAATAGATAATTTTGTAATATAATCGGTATAAATATACCGGCTTTATGAGC
1 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAA-ATACCGGTTTTATTAGC
*
2332080 GAATAGGTCTACAACCTATATCGACACTTTTT-A-ATTGTGTCGGTACTTTATGTCCAGAATGGA
65 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
* *
2332143 AGCAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
130 AGAAAAATATGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
*
2332208 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
195 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATATGTCTAC
* * **
2332273 AACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAATTATAATGTACTAGAT
260 AACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATATCCAGAA-TGGAA-G-A--A-A-
* ** * * * ** ** * * * *
2332338 AATTTTGTAATATAACC-GGT--ATAAGTATACCG-GTTTTA-TTAGC-GAA--TAG-GTCTACA
318 AA-TGTGT-CGAT-ACCTTGTCAAAAAGTGT--CGACATTTACACATCGGAACCCAGAAT-TATA
** * * * * *** ** * * ** * **
2332394 ACCTATGTCGACAGTTTT-TAATATTGTGTCGGTACTTTATGT-CCAGAATGGAAGA-AAAAT-G
377 ATGTA-ATAGATAATTTTGTAATA-T-AACCGGTA-TAAATATACC-GATTTTATGAGCGAATAG
* * * * * * * ** **** *
2332455 TGTCGA-TACCT-TGTCAAAAAGTGTCGACATTTACACATCGG-A----A--C
437 -GTCTACAACCTATATC-GACACTTTTTA-ATTT-TGTGTCGGTACTTTATGT
* ** * *
2332499 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAATTTTATGAGT
1 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAA-ATACCGGTTTTATTAGC
*
2332564 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
65 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
*
2332629 AGAAAAATATGTTGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
130 AGAAAAATATGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
* *
2332694 TGTAATAGATAATTTTGTAATATAATCGGTATAAATATACCGGATTTATGAGCGAATATGTCTAC
195 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATATGTCTAC
* *
2332759 AACTTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGT
260 AACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATATCCAGAATGGAAGAAAAATGTGT
* * *
2332824 CGATACCTTGTCAAACAGTGTCGACATTTACCCATTGGAACCCAGAATTATAATGTAATAGATAA
325 CGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAA
* *
2332889 TTTTGTATTATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGA
390 TTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCGA
2332954 CACTTTTTAATTTTGTGTCGGTACTTTATGT
455 CACTTTTTAATTTTGTGTCGGTACTTTATGT
*
2332985 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAA-AATACCGGTTTTATTAGC
* *
2333050 GAATAGGTCTACAACCTATGTCAACACTTTTTAATATTGTGTCGGTACTTTATGTCCAAAATGGA
65 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
* *
2333115 AGAAAAATATGTCGATACCTTGTCAAAAAGTGTCGGCATTTACACATTGGAACCCAGAATTATAA
130 AGAAAAATATGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
* *
2333180 TGTAATAGATAATTTTGTAATATAACCGATAT-AATATACCGGTTTTATGAGCGAATAGGTCTAC
195 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATATGTCTAC
2333244 AACCTATATCGACACTTTTTAATA-TGTGTCGGTACTTTATATCCAGAATGGAAGAAAAATGTGT
260 AACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATATCCAGAATGGAAGAAAAATGTGT
2333308 CGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAAACCCAGAATTATAATGTAATAGATA
325 CGATACCTTGTCAAAAAGTGTCGACATTTACACATCGG-AACCCAGAATTATAATGTAATAGATA
2333373 ATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
389 ATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
2333438 ACACTTTTTAATTTTGTGTCGGTACTTTATGT
454 ACACTTTTTAATTTTGTGTCGGTACTTTATGT
2333470 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAAATACCGGTTTTATTAGCG
1 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAAATACCGGTTTTATTAGCG
2333535 AATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAA
66 AATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAA
*
2333600 GAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAAT
131 GAAAAATATGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAAT
2333665 GTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGA-CGAATATGTCTACA
196 GTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATATGTCTACA
2333729 ACCTATATCGACACTTTTTAATATTGTGTCG
261 ACCTATATCGACACTTTTTAATATTGTGTCG
2333760 CTAATTTTTA
Statistics
Matches: 1137, Mismatches: 96, Indels: 55
0.88 0.07 0.04
Matches are distributed among these distances:
476 3 0.00
477 6 0.01
478 8 0.01
479 21 0.02
480 23 0.02
481 20 0.02
482 15 0.01
483 2 0.00
484 377 0.33
485 249 0.22
486 413 0.36
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (485 bp):
CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAAATACCGGTTTTATTAGCG
AATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAA
GAAAAATATGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAAT
GTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATATGTCTACA
ACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATATCCAGAATGGAAGAAAAATGTGTC
GATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAAT
TTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCGAC
ACTTTTTAATTTTGTGTCGGTACTTTATGT
Found at i:2334658 original size:97 final size:97
Alignment explanation
Indices: 2334492--2334687 Score: 376
Period size: 97 Copynumber: 2.0 Consensus size: 97
2334482 CATTCATCTG
2334492 ATAAGGACTTAATCTCTGCCTCAATCCGGTACAATGTCTCCCGTATAAGTTCATCTTGGAACACA
1 ATAAGGACTTAATCTCTGCCTCAATCCGGTACAATGTCTCCCGTATAAGTTCATCTTGGAACACA
2334557 CGAAAAGATTCAC-GGTAAAAAATCGCAGCGGC
66 CG-AAAGATTCACGGGTAAAAAATCGCAGCGGC
2334589 ATAAGGACTTAATCTCTGCCTCAATCCGGTACAATGTCTCCCGTATAAGTTCATCTTGGAACACA
1 ATAAGGACTTAATCTCTGCCTCAATCCGGTACAATGTCTCCCGTATAAGTTCATCTTGGAACACA
2334654 CGAAAGATTCACGGGTAAAAAATCGCAGCGGC
66 CGAAAGATTCACGGGTAAAAAATCGCAGCGGC
2334686 AT
1 AT
2334688 GGCTTTCAAG
Statistics
Matches: 98, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
96 10 0.10
97 88 0.90
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (97 bp):
ATAAGGACTTAATCTCTGCCTCAATCCGGTACAATGTCTCCCGTATAAGTTCATCTTGGAACACA
CGAAAGATTCACGGGTAAAAAATCGCAGCGGC
Found at i:2337224 original size:87 final size:87
Alignment explanation
Indices: 2337119--2337281 Score: 254
Period size: 87 Copynumber: 1.9 Consensus size: 87
2337109 AAATAGGTCA
* * *
2337119 ATATAAGCGTTACCTATTACATTATATAAGCACTACCTAATATGTTATTGTACTTAATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCACTACCTAATATATTATTATACTTAATAATATTT
2337184 CCCGTTAAATACCTATTTTATT
66 CCCGTTAAATACCTATTTTATT
* ** *
2337206 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATATTATTATACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCACTACCTAATATATTATTATACTTAATAATATTT
*
2337271 CCGGTTAAATA
66 CCCGTTAAATA
2337282 ATATAACATA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 68 1.00
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCACTACCTAATATATTATTATACTTAATAATATTT
CCCGTTAAATACCTATTTTATT
Found at i:2337252 original size:23 final size:23
Alignment explanation
Indices: 2337193--2337253 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
2337183 TCCCGTTAAA
*
2337193 TACCTATTTTATTATATAAGCGC
1 TACCTATTATATTATATAAGCGC
* * *
2337216 TATCTATTACATTATATAAGCGT
1 TACCTATTATATTATATAAGCGC
*
2337239 TACCTAATATATTAT
1 TACCTATTATATTAT
2337254 TATACTTGAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (23 bp):
TACCTATTATATTATATAAGCGC
Found at i:2342727 original size:23 final size:23
Alignment explanation
Indices: 2342697--2342756 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
2342687 TAATTTTAAC
*
2342697 TTAAAATATTTTATTTTTAATAT
1 TTAAAATATTTTATTTCTAATAT
*
2342720 TTAAAATACTTTATTTCTAATAT
1 TTAAAATATTTTATTTCTAATAT
*
2342743 TTAAAA-ATTCTATT
1 TTAAAATATTTTATT
2342757 AATTTAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
22 6 0.18
23 27 0.82
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (23 bp):
TTAAAATATTTTATTTCTAATAT
Found at i:2343573 original size:20 final size:20
Alignment explanation
Indices: 2343479--2343847 Score: 449
Period size: 20 Copynumber: 18.4 Consensus size: 20
2343469 GATTTTCCAT
* ** *
2343479 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
2343499 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
2343519 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2343539 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
2343559 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
2343579 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2343599 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2343619 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
2343639 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2343659 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2343679 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2343699 AATCGCAACTCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2343719 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
2343739 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2343759 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
2343779 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
2343799 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
2343819 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
2343839 AATCACAAC
1 AATCGCAAC
2343848 ACTGAAATTG
Statistics
Matches: 303, Mismatches: 38, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
19 3 0.01
20 297 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:2344745 original size:12 final size:12
Alignment explanation
Indices: 2344728--2344752 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2344718 ATATAATCCT
2344728 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2344740 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2344752 G
1 G
2344753 TCCCGAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:2347052 original size:19 final size:19
Alignment explanation
Indices: 2347030--2347315 Score: 300
Period size: 19 Copynumber: 16.4 Consensus size: 19
2347020 CGGAAAATAC
*
2347030 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2347049 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
*
2347063 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2347082 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
2347096 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2347115 AATTGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2347134 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
2347148 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2347167 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
2347186 AATCG-AA-CCGACAT---
1 AATCGCAATGCGAAATGAA
*
2347200 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
2347219 AATCGCAATACGAAATG-A
1 AATCGCAATGCGAAATGAA
2347237 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2347256 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
2347270 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2347289 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2347308 AATCGCAA
1 AATCGCAA
2347316 CGAGATAATC
Statistics
Matches: 226, Mismatches: 15, Indels: 52
0.77 0.05 0.18
Matches are distributed among these distances:
14 45 0.20
15 4 0.02
16 16 0.07
17 16 0.07
18 21 0.09
19 124 0.55
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:2347090 original size:52 final size:52
Alignment explanation
Indices: 2347030--2347337 Score: 251
Period size: 52 Copynumber: 5.9 Consensus size: 52
2347020 CGGAAAATAC
*
2347030 AATCGCAACGCGA-AAT-GAAAATCCCAACATGAAAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAGAATCG-AAATCCCAA-ATGAAAATCGCAATGCGAAATGAA
* * * * *
2347082 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATTGCAATGCGAAATGAA
1 AATCGCAACGCGAGAATCGAAATCCCAAATGAAAATCGCAATGCGAAATGAA
* * * *
2347134 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGCGAGAATCGAAATCCCAAATGAAAATCGCAATGCGAAATGAA
* * * * * *
2347186 AATCG-AAC-CGACATAATCGCAATGCGAAATTAAAATCGCAATACGAAATG-A
1 AATCGCAACGCG--AGAATCGAAATCCCAAATGAAAATCGCAATGCGAAATGAA
* * *
2347237 AATCGCAATGCGA-AAT-GAAAATCGC-AACGAAAGAATCGCAATGCGAAATGAA
1 AATCGCAACGCGAGAATCG-AAATCCCAAATG-AA-AATCGCAATGCGAAATGAA
* * *
2347289 AATCGCAATGCGA-AAT-GAAAATCGCAACGA-GATAATCGCAATGCGAAAT
1 AATCGCAACGCGAGAATCG-AAATCCCAA--ATGAAAATCGCAATGCGAAAT
2347338 TATAAACGCA
Statistics
Matches: 223, Mismatches: 20, Indels: 26
0.83 0.07 0.10
Matches are distributed among these distances:
49 3 0.01
50 9 0.04
51 26 0.12
52 169 0.76
53 13 0.06
54 2 0.01
55 1 0.00
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.15
Consensus pattern (52 bp):
AATCGCAACGCGAGAATCGAAATCCCAAATGAAAATCGCAATGCGAAATGAA
Found at i:2347259 original size:70 final size:71
Alignment explanation
Indices: 2347030--2347315 Score: 312
Period size: 70 Copynumber: 4.1 Consensus size: 71
2347020 CGGAAAATAC
* * *
2347030 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA-AATCGCAACGCGAAATGAAAATCGCAA--C
1 AATCGCAATGCGAAATGAAAATCGCAACGA--AAGAATCGCAATGCGAAATGAAAATCGCAATGC
*
2347091 G--A-GAG
64 GAAATGAA
* *
2347096 AATCGCAATGCGAAATGAAAATTGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAAAATCGCAA
2347156 TGCGAAATGAA
61 TGCGAAATGAA
* * * *
2347167 AATCGCAATGCGAAATGAAAATCG-AACCGACATAATCGCAATGCGAAATTAAAATCGCAATACG
1 AATCGCAATGCGAAATGAAAATCGCAA-CGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCG
2347231 AAATG-A
65 AAATGAA
2347237 AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
2347302 AATGAA
66 AATGAA
2347308 AATCGCAA
1 AATCGCAA
2347316 CGAGATAATC
Statistics
Matches: 185, Mismatches: 16, Indels: 33
0.79 0.07 0.14
Matches are distributed among these distances:
66 42 0.23
67 3 0.02
68 5 0.03
69 7 0.04
70 67 0.36
71 61 0.33
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (71 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
AATGAA
Found at i:2347272 original size:122 final size:124
Alignment explanation
Indices: 2347096--2347347 Score: 431
Period size: 122 Copynumber: 2.1 Consensus size: 124
2347086 GCAACGAGAG
* * *
2347096 AATCGCAATGCGAAATGAAAATTGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
1 AATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
2347161 AATGAAAATCGCAATGCGAAATGAAAATCG-AACCGACATAATCGCAATGCGAAATTA-A
66 AATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGACATAATCGCAATGCGAAATTATA
2347219 AATCGCAATACGAAATG-AAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
1 AATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
*
2347283 AATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAATTATA
66 AATGAAAATCGCAATGCGAAATGAAAATCGCAACGACATAATCGCAATGCGAAATTATA
2347342 AA-CGCA
1 AATCGCA
2347348 TTGCGATTTT
Statistics
Matches: 123, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
122 102 0.83
123 21 0.17
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.16
Consensus pattern (124 bp):
AATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
AATGAAAATCGCAATGCGAAATGAAAATCGCAACGACATAATCGCAATGCGAAATTATA
Found at i:2347293 original size:33 final size:33
Alignment explanation
Indices: 2347030--2347296 Score: 244
Period size: 33 Copynumber: 7.8 Consensus size: 33
2347020 CGGAAAATAC
* *
2347030 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA-
1 AATCGCAATGCGAAATGAAAATCGCAACGA--AAG
* *
2347063 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
*
2347096 AATCGCAATGCGAAATGAAAATTGCAATGCGAAATG
1 AATCGCAATGCGAAATGAAAATCGCAA--CGAAA-G
*
2347132 AAAATCGCAA--CG--A-GAGAATCGCAATGCGAAATG
1 --AATCGCAATGCGAAATGAAAATCGCAA--CGAAA-G
* *
2347165 AAAATCGCAATGCGAAATGAAAATCG-AACCGACAT
1 --AATCGCAATGCGAAATGAAAATCGCAA-CGAAAG
*
2347200 AATCGCAATGCGAAATTAAAATCGCAATACGAAATG
1 AATCGCAATGCGAAATGAAAATCGC-A-ACGAAA-G
2347236 AAATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 -AATCGCAATGCGAAATGAAAATCGCAACGAAAG
2347270 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
2347297 TGCGAAATGA
Statistics
Matches: 202, Mismatches: 15, Indels: 34
0.80 0.06 0.14
Matches are distributed among these distances:
32 1 0.00
33 130 0.64
34 3 0.01
35 17 0.08
36 9 0.04
37 27 0.13
38 15 0.07
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAAAG
Found at i:2347353 original size:52 final size:51
Alignment explanation
Indices: 2347219--2347353 Score: 198
Period size: 52 Copynumber: 2.6 Consensus size: 51
2347209 GCGAAATTAA
* *
2347219 AATCGCAATACGAAATGAAATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAATGCGAAATGAAAACGCAATGCGAAATGAAAATCGCAACGAAAG
* *
2347270 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAT
1 AATCGCAATGCGAAATGAAAA-CGCAATGCGAAATGAAAATCGCAACGAAAG
* *
2347322 AATCGCAATGCGAAATTATAAACGCATTGCGA
1 AATCGCAATGCGAAATGA-AAACGCAATGCGA
2347354 TTTTCATTTC
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
51 19 0.25
52 54 0.71
53 3 0.04
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.16
Consensus pattern (51 bp):
AATCGCAATGCGAAATGAAAACGCAATGCGAAATGAAAATCGCAACGAAAG
Found at i:2347450 original size:19 final size:19
Alignment explanation
Indices: 2347344--2347442 Score: 133
Period size: 19 Copynumber: 5.6 Consensus size: 19
2347334 AAATTATAAA
2347344 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2347363 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
2347383 CGCATTGCGA--TTC---T
1 CGCATTGCGATTTTCATTT
2347397 CG--TTGCGA-TTTCATTT
1 CGCATTGCGATTTTCATTT
2347413 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2347432 CGCATTGCGAT
1 CGCATTGCGAT
2347443 AGTCATTTTG
Statistics
Matches: 72, Mismatches: 0, Indels: 15
0.83 0.00 0.17
Matches are distributed among these distances:
12 6 0.08
13 3 0.04
14 3 0.04
16 3 0.04
17 3 0.04
18 6 0.08
19 29 0.40
20 19 0.26
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.43
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:2347567 original size:14 final size:14
Alignment explanation
Indices: 2347548--2347584 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2347538 CATCAATTAC
2347548 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2347562 ACAAATCATCTTTT
1 ACAAATCAACTTTT
2347576 ACAAATCAA
1 ACAAATCAA
2347585 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2349463 original size:19 final size:19
Alignment explanation
Indices: 2349423--2349487 Score: 78
Period size: 18 Copynumber: 3.4 Consensus size: 19
2349413 TAGTTTACTT
* *
2349423 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
2349443 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
2349462 TCGCAACGCG-AATGAAAA
1 TCGCAACGCGAAACCAAAA
2349480 TCGCAACG
1 TCGCAACG
2349488 ACAGAATCGC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.34
19 14 0.34
20 13 0.32
ACGTcount: A:0.45, C:0.28, G:0.17, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:2349497 original size:14 final size:14
Alignment explanation
Indices: 2349478--2349533 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 14
2349468 CGCGAATGAA
*
2349478 AATCGCAACGACAG
1 AATCGCAACGAAAG
*
2349492 AATCGCAATGCAAATG
1 AATCGCAACG-AAA-G
2349508 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
2349524 AATCGCAACG
1 AATCGCAACG
2349534 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
14 19 0.54
15 2 0.06
16 2 0.06
17 3 0.09
18 9 0.26
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:2349508 original size:32 final size:32
Alignment explanation
Indices: 2349460--2349550 Score: 146
Period size: 32 Copynumber: 2.8 Consensus size: 32
2349450 GCGAAACCAA
* *
2349460 AATCGCAACGCGAATGAAAATCGCAACGACAG
1 AATCGCAACGCAAATGAAAATCGCAACGAAAG
*
2349492 AATCGCAATGCAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCAAATGAAAATCGCAACGAAAG
2349524 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGC-AAATGAAAATCGCAA
2349551 TGCGATTTTG
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
32 39 0.72
33 15 0.28
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (32 bp):
AATCGCAACGCAAATGAAAATCGCAACGAAAG
Found at i:2349548 original size:19 final size:19
Alignment explanation
Indices: 2349423--2349555 Score: 110
Period size: 19 Copynumber: 7.6 Consensus size: 19
2349413 TAGTTTACTT
* *
2349423 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
2349443 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
2349462 TCGCAACGCG-AATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2349480 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
2349494 TCGCAATGC-AAATGAAAA
1 TCGCAACGCGAAATGAAAA
2349512 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
2349526 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2349545 TCGCAATGCGA
1 TCGCAACGCGA
2349556 TTTTGGTTTC
Statistics
Matches: 93, Mismatches: 8, Indels: 25
0.74 0.06 0.20
Matches are distributed among these distances:
14 16 0.17
15 2 0.02
16 12 0.13
17 5 0.05
18 20 0.22
19 26 0.28
20 12 0.13
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:2349573 original size:19 final size:19
Alignment explanation
Indices: 2349551--2349679 Score: 109
Period size: 19 Copynumber: 7.3 Consensus size: 19
2349541 AAAATCGCAA
2349551 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2349570 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
2349584 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2349603 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
2349617 TGCGA-TTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
2349635 TGCGATTTTGGTTTCGCGTT
1 TGCGATTTTGGTTTCGCG-T
* *
2349655 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
2349675 TGCGA
1 TGCGA
2349680 AAGTAAACTA
Statistics
Matches: 88, Mismatches: 9, Indels: 25
0.72 0.07 0.20
Matches are distributed among these distances:
13 2 0.02
14 19 0.22
15 1 0.01
16 3 0.03
17 1 0.01
18 10 0.11
19 29 0.33
20 16 0.18
21 7 0.08
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:2349593 original size:33 final size:33
Alignment explanation
Indices: 2349551--2349641 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
2349541 AAAATCGCAA
2349551 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
2349584 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
2349617 TGCGA-TTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
2349642 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 18 0.33
33 35 0.64
34 2 0.04
ACGTcount: A:0.08, C:0.19, G:0.29, T:0.45
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:2349880 original size:91 final size:93
Alignment explanation
Indices: 2349724--2350192 Score: 830
Period size: 91 Copynumber: 5.1 Consensus size: 93
2349714 TTGAATGGAT
2349724 AAATTTACTTTCAACC-AAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2349788 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2349816 -AATTTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2349879 AGTTTAGCAGAATTGGCAGCAAACCGAAC
66 AGTTTAGCAGAATTGGCAGC-AACCGAAC
2349908 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTT-AAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2349971 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
2349999 AAATTTACTTTCAACCAAAAGACAAAACAACGACAAATA-TA--TCACAGTGTT-AAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2350060 AGTTTAGCAGAATTGGCAGCAAACCGAAC
66 AGTTTAGCAGAATTGGCAGC-AACCGAAC
2350089 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2350154 AGTTTAGCAGAATTGGCAGCAACCCCGAAC
66 AGTTTAGCAGAATTGGCAGCAA--CCGAAC
2350184 AAATTTACT
1 AAATTTACT
2350193 AAGCAATCTA
Statistics
Matches: 363, Mismatches: 2, Indels: 21
0.94 0.01 0.05
Matches are distributed among these distances:
89 40 0.11
90 53 0.15
91 120 0.33
92 42 0.12
93 38 0.10
94 55 0.15
95 15 0.04
ACGTcount: A:0.46, C:0.20, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:2351925 original size:19 final size:18
Alignment explanation
Indices: 2351901--2351997 Score: 84
Period size: 19 Copynumber: 5.7 Consensus size: 18
2351891 GCAACGAGAG
2351901 ATCGCAACGCGAGATGACA
1 ATCGCAACGCGAGATGA-A
2351920 ATCGCAA--CGAGA-G-A
1 ATCGCAACGCGAGATGAA
*
2351934 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAGATG-AA
2351953 ATCGCAA--CGAGA-G-A
1 ATCGCAACGCGAGATGAA
*
2351967 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAGATG-AA
*
2351986 ATCGCAATGCGA
1 ATCGCAACGCGA
2351998 TTTTGGTTTC
Statistics
Matches: 64, Mismatches: 4, Indels: 20
0.73 0.05 0.23
Matches are distributed among these distances:
14 16 0.25
16 10 0.16
17 11 0.17
19 27 0.42
ACGTcount: A:0.42, C:0.23, G:0.25, T:0.10
Consensus pattern (18 bp):
ATCGCAACGCGAGATGAA
Found at i:2351938 original size:14 final size:14
Alignment explanation
Indices: 2351887--2351975 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
2351877 TTGAAATGAA
2351887 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2351901 -ATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
2351917 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
2351933 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
2351952 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2351966 AATCGCAACG
1 AATCGCAACG
2351976 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 22
0.72 0.02 0.26
Matches are distributed among these distances:
13 7 0.11
14 20 0.32
15 6 0.10
16 4 0.06
17 7 0.11
18 1 0.02
19 17 0.27
ACGTcount: A:0.42, C:0.24, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:2351943 original size:33 final size:33
Alignment explanation
Indices: 2351879--2351992 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
2351869 TCTTTTGGTT
2351879 GAAATGAAAATCGCAACGAGAG-ATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
2351911 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2351944 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2351977 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
2351993 TGCGATTTTG
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
32 20 0.26
33 57 0.74
ACGTcount: A:0.45, C:0.21, G:0.25, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:2352028 original size:14 final size:14
Alignment explanation
Indices: 2352009--2352063 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
2351999 TTTGGTTTCG
2352009 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2352023 CGTTGCGATTTCCATTTCG
1 CGTTGCGA-TT-C---TCT
2352042 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2352056 CGTTGCGA
1 CGTTGCGA
2352064 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.29
ACGTcount: A:0.09, C:0.27, G:0.24, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2352088 original size:18 final size:18
Alignment explanation
Indices: 2352020--2352089 Score: 58
Period size: 18 Copynumber: 4.1 Consensus size: 18
2352010 GTTGCGATTC
*
2352020 TCTCGTTGCGATTTCCATT
1 TCTCGTTGCGATTTTCA-T
*
2352039 TCGCGTTGCGA--TTC--
1 TCTCGTTGCGATTTTCAT
***
2352053 TCTCGTTGCGACAGTCAT
1 TCTCGTTGCGATTTTCAT
2352071 TCTCGTTGCGATTTTCAT
1 TCTCGTTGCGATTTTCAT
2352089 T
1 T
2352090 TATCTCGTTG
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
14 10 0.25
16 2 0.05
17 2 0.05
18 16 0.40
19 10 0.25
ACGTcount: A:0.11, C:0.26, G:0.20, T:0.43
Consensus pattern (18 bp):
TCTCGTTGCGATTTTCAT
Found at i:2352222 original size:33 final size:33
Alignment explanation
Indices: 2352180--2352250 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
2352170 AATACTAACT
*
2352180 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
2352213 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
2352246 TGAAA
1 TGAAA
2352251 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:2352482 original size:22 final size:22
Alignment explanation
Indices: 2352430--2352484 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
2352420 TGGTTGTGAG
**
2352430 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
2352452 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
2352474 GGATTTCTTCG
1 GGATTTCTTCG
2352485 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:2352654 original size:20 final size:20
Alignment explanation
Indices: 2352629--2352822 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
2352619 CTTTAAATAT
2352629 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2352649 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
2352671 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2352690 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
2352710 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
2352730 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2352750 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2352770 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
2352790 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
2352810 CGCGTTGCGATTT
1 CGCGTTGCGATTT
2352823 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:2352816 original size:60 final size:60
Alignment explanation
Indices: 2352629--2352822 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
2352619 CTTTAAATAT
**
2352629 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
2352690 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
2352750 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
2352810 CGCGTTGCGATTT
1 CGCGTTGCGATTT
2352823 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:2352839 original size:21 final size:20
Alignment explanation
Indices: 2352815--2352891 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
2352805 ATATTCGCGT
2352815 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
2352836 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
2352856 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
2352878 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
2352892 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:2352902 original size:20 final size:20
Alignment explanation
Indices: 2352877--2352928 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2352867 AAGAATCGCG
*
2352877 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
2352897 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
2352917 TTGCGATTCTGG
1 TTGCGATTCTGG
2352929 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:2353107 original size:14 final size:13
Alignment explanation
Indices: 2353084--2353143 Score: 52
Period size: 13 Copynumber: 4.7 Consensus size: 13
2353074 GATTTTTTTT
2353084 TAAA-AATAATAA
1 TAAATAATAATAA
2353096 TAATATAATAATAA
1 TAA-ATAATAATAA
* *
2353110 TAAATAAAAAAAA
1 TAAATAATAATAA
**
2353123 CGAA-AATAATAA
1 TAAATAATAATAA
*
2353135 AAAATAATA
1 TAAATAATA
2353144 TAAAGTTATA
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
12 11 0.30
13 15 0.41
14 11 0.30
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (13 bp):
TAAATAATAATAA
Found at i:2353427 original size:15 final size:15
Alignment explanation
Indices: 2353407--2353450 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
2353397 ATATACATAT
2353407 AATAATAATAACATG
1 AATAATAATAACATG
* *
2353422 AATAATAAAAAAATG
1 AATAATAATAACATG
2353437 AATAA-AATATACAT
1 AATAATAATA-ACAT
2353451 ATAATAAAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 3 0.12
15 21 0.88
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.25
Consensus pattern (15 bp):
AATAATAATAACATG
Found at i:2353851 original size:37 final size:37
Alignment explanation
Indices: 2353801--2353905 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
2353791 GTGCTTGTGG
* * * *
2353801 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * * *
2353838 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
2353875 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
2353906 GACGAAAATG
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:2354751 original size:105 final size:105
Alignment explanation
Indices: 2354448--2355077 Score: 853
Period size: 105 Copynumber: 6.0 Consensus size: 105
2354438 GCATTGTTCC
** **
2354448 GAGTCCAATATCC-TCTGTCATGAAGTTGAAATTGGCTCTG-GAACCGGGAAATTGTTTGTTGAC
1 GAGTCCAATATCCTTC-GTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAATTG-TTGTTGAC
* * * * * *
2354511 AACCA-CCGTCCCTTCGTTGTGAAGTTGATCTTGTGTTGTCTC
63 AAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
2354553 GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGACTCTGA-A-T--GAAATT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAG
* *
2354613 CAGCGGTCCCTTTGTCGTGGAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
2354653 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAG
* *
2354718 CAGCGGTCCATTCGTCGTGAAGTTGAACTTGCGTTTTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
2354758 GAGTCCAATATCCTTCGTTGTGAATTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAG
*
2354823 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * * *
2354863 AAGTCCAATATCCTTTGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAG
2354928 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
2354968 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTG-TTGTTGACAA
* * * * *
2355033 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
2355074 GAGT
1 GAGT
2355078 GTCACGATAT
Statistics
Matches: 473, Mismatches: 43, Indels: 17
0.89 0.08 0.03
Matches are distributed among these distances:
99 12 0.03
100 68 0.14
101 7 0.01
102 1 0.00
104 7 0.01
105 326 0.69
106 52 0.11
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:2355324 original size:36 final size:36
Alignment explanation
Indices: 2355277--2355352 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
2355267 TGTTTGGAGA
* * *
2355277 GAAACTGTCTCAAGGGAGACAAAATTCGTTTCAAGG
1 GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
*
2355313 GAAACTATCTCAAGCGAGATAAAATTCATTTCAAGG
1 GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
2355349 GAAA
1 GAAA
2355353 TGTTTTCAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (36 bp):
GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
Found at i:2355479 original size:107 final size:105
Alignment explanation
Indices: 2355252--2355572 Score: 499
Period size: 107 Copynumber: 3.1 Consensus size: 105
2355242 TTCGTTAAAT
* ** *
2355252 TGTTTTCAAAGTTTATGTTTGGAGAGAAACTGTCTCAAGGGAGACAAAA--TTC-GTTTCAAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* *
2355314 AAACTATCTCA-AGCGAGATAAAATTCATTTCAAGGGAAA
66 AAACTATCTCAGAGAGAGAAAAAATTCATTTCAAGGGAAA
*
2355353 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCTAGGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* *
2355418 AAACTATCTCAAGAGAGAGAGAAAAAATCATTTCGAGGGAAA
66 AAACTATCTC-AGAGAGAGA-AAAAATTCATTTCAAGGGAAA
2355460 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
*
2355525 AAACTATCTCAG-GAGAGAAAAAATTAATTTCAAGGGAAA
66 AAACTATCTCAGAGAGAGAAAAAATTCATTTCAAGGGAAA
2355564 TGTTTTCAA
1 TGTTTTCAA
2355573 GAGAAACTGT
Statistics
Matches: 201, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
101 45 0.22
103 3 0.01
104 46 0.23
105 7 0.03
106 8 0.04
107 92 0.46
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (105 bp):
TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
AAACTATCTCAGAGAGAGAAAAAATTCATTTCAAGGGAAA
Found at i:2355529 original size:39 final size:39
Alignment explanation
Indices: 2355475--2355549 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
2355465 TCAATGTTTA
* *
2355475 TGTTTCAAGAGAAACTGTCTCAAGG-GAGACAAAATTTTC
1 TGTTTCAAGAGAAACTATCTC-AGGAGAGAAAAAATTTTC
* *
2355514 TGTTTCGAGGGAAACTATCTCAGGAGAGAAAAAATT
1 TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATT
2355550 AATTTCAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 3 0.10
39 28 0.90
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (39 bp):
TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATTTTC
Done.