Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 54 of 206
Found at i:15167202 original size:25 final size:25
Alignment explanation
Indices: 15167170--15167232 Score: 126
Period size: 25 Copynumber: 2.5 Consensus size: 25
15167160 GAAGAGCTAT
15167170 TAACGGGAAGCTCACAAGAACCATA
1 TAACGGGAAGCTCACAAGAACCATA
15167195 TAACGGGAAGCTCACAAGAACCATA
1 TAACGGGAAGCTCACAAGAACCATA
15167220 TAACGGGAAGCTC
1 TAACGGGAAGCTC
15167233 GTGAGAGCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.41, C:0.24, G:0.22, T:0.13
Consensus pattern (25 bp):
TAACGGGAAGCTCACAAGAACCATA
Found at i:15172706 original size:24 final size:23
Alignment explanation
Indices: 15172661--15172708 Score: 60
Period size: 26 Copynumber: 2.0 Consensus size: 23
15172651 GTAATTTTTT
*
15172661 AAAATTTTTTTAAAAAATATATA
1 AAAATTTTTATAAAAAATATATA
15172684 AAAATATTTTATAACAAAAATATAT
1 AAAAT-TTTTAT-A-AAAAATATAT
15172709 TTTAATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.24
24 5 0.24
25 1 0.05
26 10 0.48
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AAAATTTTTATAAAAAATATATA
Found at i:15176636 original size:4 final size:4
Alignment explanation
Indices: 15176627--15176667 Score: 66
Period size: 4 Copynumber: 10.2 Consensus size: 4
15176617 GTGAAAGAAT
15176627 AATA AATA AATA AATA AATA AATAA AATA AAT- AATA AATA A
1 AATA AATA AATA AATA AATA AAT-A AATA AATA AATA AATA A
15176668 CATCAAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 3 0.09
4 28 0.80
5 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:15179311 original size:35 final size:36
Alignment explanation
Indices: 15179217--15179312 Score: 90
Period size: 35 Copynumber: 2.7 Consensus size: 36
15179207 GCATTCGCAC
*
15179217 GTAAGACCATAGC-GAGGCTATGACAATTATTCAAAT
1 GTAAGACCATAGCTG-GGCTATGGCAATTATTCAAAT
* * * * * *
15179253 GTAAGACCATGGTTGGACCATGGCAGTGT-TT-ATAT
1 GTAAGACCATAGCTGGGCTATGGCAAT-TATTCAAAT
15179288 GTAAGACCATAGCTGGGCTATGGCA
1 GTAAGACCATAGCTGGGCTATGGCA
15179313 TTCAAATGAT
Statistics
Matches: 47, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
35 24 0.51
36 21 0.45
37 2 0.04
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (36 bp):
GTAAGACCATAGCTGGGCTATGGCAATTATTCAAAT
Found at i:15179460 original size:33 final size:32
Alignment explanation
Indices: 15179387--15179464 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 32
15179377 CAGTGTTTAT
** *
15179387 ATGTAAGACCATAGTTGGGTTATGGCATTCTG
1 ATGTAAGACCATAAATGGGTTATGGCATACTG
*
15179419 ATGATAAGACCATAAATGTGTTATGGCACTAC-G
1 ATG-TAAGACCATAAATGGGTTATGGCA-TACTG
15179452 AATGTAAGACCAT
1 -ATGTAAGACCAT
15179465 GGCAGAGCCA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
32 3 0.08
33 31 0.79
34 5 0.13
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.29
Consensus pattern (32 bp):
ATGTAAGACCATAAATGGGTTATGGCATACTG
Found at i:15179476 original size:101 final size:101
Alignment explanation
Indices: 15179250--15179512 Score: 325
Period size: 101 Copynumber: 2.6 Consensus size: 101
15179240 CAATTATTCA
* *
15179250 AATGTAAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGGGCTATGGCATT
1 AATGTAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGACCATAGTTGGGCTATGGCATT
* ** * *
15179315 CAAATGATAAGATCATATCTGGGTTTTGGCACTATG
66 CAAATGATAAGACCATAAATGGGTTATGGCACTACG
* * *
15179351 GACGTAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGACCATAGTTGGGTTATGGCATT
1 AATGTAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGACCATAGTTGGGCTATGGCATT
** *
15179416 CTGATGATAAGACCATAAATGTGTTATGGCACTACG
66 CAAATGATAAGACCATAAATGGGTTATGGCACTACG
** * * * *
15179452 AATGTAAGACCATGG-CAGAGCCATGATAATG--CATATGTAAGACCATAGTTGGACTATGGCA
1 AATGTAAGACCATGGTTGGA-CCATGACAGTGTTTATATGTAAGACCATAGTTGGGCTATGGCA
15179513 CAAAGGAAAC
Statistics
Matches: 139, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
99 27 0.19
100 2 0.01
101 110 0.79
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (101 bp):
AATGTAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGACCATAGTTGGGCTATGGCATT
CAAATGATAAGACCATAAATGGGTTATGGCACTACG
Found at i:15180189 original size:5 final size:5
Alignment explanation
Indices: 15180179--15180204 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
15180169 TGAGCATTCG
15180179 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
15180205 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:15181242 original size:9 final size:9
Alignment explanation
Indices: 15181228--15181264 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
15181218 TATAGTTTGA
15181228 TATTCGAAT
1 TATTCGAAT
15181237 TATTCGAAT
1 TATTCGAAT
*
15181246 TATTCGAGT
1 TATTCGAAT
15181255 TATTCGAAT
1 TATTCGAAT
15181264 T
1 T
15181265 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:15181335 original size:9 final size:9
Alignment explanation
Indices: 15181318--15181348 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
15181308 TCGAATTGAT
15181318 TCGAATAAC
1 TCGAATAAC
*
15181327 TCGATTAAC
1 TCGAATAAC
15181336 TCGAATAAC
1 TCGAATAAC
15181345 TCGA
1 TCGA
15181349 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:15185090 original size:42 final size:43
Alignment explanation
Indices: 15184980--15185090 Score: 118
Period size: 43 Copynumber: 2.6 Consensus size: 43
15184970 TCGTACAATG
* * * **
15184980 CCAATGTCGCAGACGTGGTCTTACATGTAATCAAACAACGATG
1 CCAATGTCCCAGACATGGTCTTACACGTAATCAAACAACGACC
* * *
15185023 CCACTGTCCCAGACA-GAGTCTTACACGTAATCATA-TACGACC
1 CCAATGTCCCAGACATG-GTCTTACACGTAATCAAACAACGACC
*
15185065 CCAATGTCTCAGACATGGTCTTACAC
1 CCAATGTCCCAGACATGGTCTTACAC
15185091 ATAAATCTCA
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
42 27 0.48
43 29 0.52
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (43 bp):
CCAATGTCCCAGACATGGTCTTACACGTAATCAAACAACGACC
Found at i:15188645 original size:15 final size:15
Alignment explanation
Indices: 15188625--15188654 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15188615 ACATATAAGG
15188625 GTTTGCATATAAATA
1 GTTTGCATATAAATA
*
15188640 GTTTGCGTATAAATA
1 GTTTGCATATAAATA
15188655 TTTCTTTGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.40
Consensus pattern (15 bp):
GTTTGCATATAAATA
Found at i:15188842 original size:49 final size:50
Alignment explanation
Indices: 15188754--15188853 Score: 130
Period size: 49 Copynumber: 2.0 Consensus size: 50
15188744 ATTTATTTCT
* **
15188754 CCATAAGTGTAGCATAAAATTAAACACTCTCCAAACACACCTTATATATC
1 CCATAAGTGTAGCATAAAAGTAAACACTCTCCAAACACACCCCATATATC
* * **
15188804 CCATAAGTGTCGTAT-AAAGTAAACACTCTCCATTCACACCCCATATATC
1 CCATAAGTGTAGCATAAAAGTAAACACTCTCCAAACACACCCCATATATC
15188853 C
1 C
15188854 TTAGGGCCTC
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
49 30 0.70
50 13 0.30
ACGTcount: A:0.38, C:0.29, G:0.07, T:0.26
Consensus pattern (50 bp):
CCATAAGTGTAGCATAAAAGTAAACACTCTCCAAACACACCCCATATATC
Found at i:15192611 original size:13 final size:13
Alignment explanation
Indices: 15192593--15192620 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
15192583 TTTAAACCCG
15192593 TTAGAAAAATATT
1 TTAGAAAAATATT
15192606 TTAGAAAAATATT
1 TTAGAAAAATATT
15192619 TT
1 TT
15192621 CTAAACCTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (13 bp):
TTAGAAAAATATT
Found at i:15197193 original size:11 final size:11
Alignment explanation
Indices: 15197177--15197202 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
15197167 TATTTTTTAA
15197177 TTTTAAAATAC
1 TTTTAAAATAC
15197188 TTTTAAAATAC
1 TTTTAAAATAC
15197199 TTTT
1 TTTT
15197203 TTTAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:15197211 original size:39 final size:39
Alignment explanation
Indices: 15197161--15197304 Score: 150
Period size: 38 Copynumber: 3.5 Consensus size: 39
15197151 AATATTTTTA
*
15197161 TTTTTTT-ATTTTTTAATTTTAAAATACTTTTAAAATAC
1 TTTTTTTAATTTTTTAATTTTAAAATATTTTTAAAATAC
* *
15197199 TTTTTTTAATTTTTTAATTTTAAAAT-TTTTTAAATTTTTTTAAAA
1 TTTTTTTAATTTTTTAATTTTAAAATATTTTTAAA-------ATAC
15197244 TACTTTTTTTAATTTTTTAATTTTAAAATATTTTTAAAATAC
1 T--TTTT-TTAATTTTTTAATTTTAAAATATTTTTAAAATAC
15197286 TTTTTTTAA-TTTTTAATTT
1 TTTTTTTAATTTTTTAATTT
15197305 AATTTTTAAA
Statistics
Matches: 89, Mismatches: 5, Indels: 24
0.75 0.04 0.20
Matches are distributed among these distances:
38 24 0.27
39 22 0.25
40 4 0.04
42 3 0.03
45 3 0.03
47 4 0.04
48 21 0.24
49 8 0.09
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (39 bp):
TTTTTTTAATTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:15197229 original size:10 final size:10
Alignment explanation
Indices: 15197216--15197283 Score: 54
Period size: 10 Copynumber: 6.9 Consensus size: 10
15197206 AATTTTTTAA
15197216 TTTTAAAATT
1 TTTTAAAATT
*
15197226 TTTTAAATTT
1 TTTTAAAATT
15197236 TTTTAAAATACT
1 TTTTAAAAT--T
**
15197248 TTTTTTAATT
1 TTTTAAAATT
15197258 TTTT--AA--
1 TTTTAAAATT
15197264 TTTTAAAATAT
1 TTTTAAAAT-T
15197275 TTTTAAAAT
1 TTTTAAAAT
15197284 ACTTTTTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
6 4 0.09
8 4 0.09
10 22 0.47
11 9 0.19
12 8 0.17
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTAAAATT
Found at i:15197244 original size:48 final size:49
Alignment explanation
Indices: 15197188--15197281 Score: 181
Period size: 48 Copynumber: 1.9 Consensus size: 49
15197178 TTTAAAATAC
15197188 TTTTAAAATACTTTTTTTAATTTTTTAATTTTAAAAT-TTTTTAAATTT
1 TTTTAAAATACTTTTTTTAATTTTTTAATTTTAAAATATTTTTAAATTT
15197236 TTTTAAAATACTTTTTTTAATTTTTTAATTTTAAAATATTTTTAAA
1 TTTTAAAATACTTTTTTTAATTTTTTAATTTTAAAATATTTTTAAA
15197282 ATACTTTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 37 0.82
49 8 0.18
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (49 bp):
TTTTAAAATACTTTTTTTAATTTTTTAATTTTAAAATATTTTTAAATTT
Found at i:15197252 original size:14 final size:14
Alignment explanation
Indices: 15197233--15197294 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
15197223 ATTTTTTAAA
15197233 TTTTTTTAAAATAC
1 TTTTTTTAAAATAC
**
15197247 TTTTTTT--AATTT
1 TTTTTTTAAAATAC
15197259 TTTAATTTTAAAATA-
1 TTT--TTTTAAAATAC
15197274 --TTTTTAAAATAC
1 TTTTTTTAAAATAC
15197286 TTTTTTTAA
1 TTTTTTTAA
15197295 TTTTTAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 14
0.69 0.05 0.25
Matches are distributed among these distances:
11 10 0.26
12 6 0.16
13 1 0.03
14 18 0.47
16 3 0.08
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTTTTAAAATAC
Found at i:15197252 original size:40 final size:39
Alignment explanation
Indices: 15197208--15197298 Score: 137
Period size: 39 Copynumber: 2.3 Consensus size: 39
15197198 CTTTTTTTAA
* *
15197208 TTTTTTAATTTTAAAATTTTTTAAATTTTTTTAAAATACT
1 TTTTTTAATTTTAAAA-TTTTAAAATATTTTTAAAATACT
**
15197248 TTTTTTAATTTTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTTTAATTTTAAAATTTTAAAATATTTTTAAAATACT
15197287 TTTTTTAATTTT
1 TTTTTTAATTTT
15197299 TAATTTAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 33 0.70
40 14 0.30
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (39 bp):
TTTTTTAATTTTAAAATTTTAAAATATTTTTAAAATACT
Found at i:15197267 original size:7 final size:8
Alignment explanation
Indices: 15197200--15197238 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
15197190 TTAAAATACT
15197200 TTTTTTAA
1 TTTTTTAA
15197208 TTTTTTAA
1 TTTTTTAA
**
15197216 TTTTAAAA
1 TTTTTTAA
15197224 TTTTTTAAA
1 TTTTTT-AA
15197233 TTTTTT
1 TTTTTT
15197239 TAAAATACTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
8 18 0.69
9 8 0.31
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (8 bp):
TTTTTTAA
Found at i:15197299 original size:48 final size:45
Alignment explanation
Indices: 15197199--15197299 Score: 123
Period size: 48 Copynumber: 2.1 Consensus size: 45
15197189 TTTAAAATAC
*
15197199 TTTTTTTAATTTTTTAATTTTAAAATTTTTTAAATTTTTTTAAAATAC
1 TTTTTTTAATTTTTTAATTTTAAAATTTTTTAAATTTTTTT---ATAA
15197247 TTTTTTTAATTTTTTAATTTTAAAATATTTTTAAAATACTTTTTT-TAA
1 TTTTTTTAATTTTTTAATTTTAAAAT-TTTTT-AAAT--TTTTTTATAA
15197295 TTTTT
1 TTTTT
15197300 AATTTAATTT
Statistics
Matches: 48, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
48 33 0.69
49 5 0.10
50 4 0.08
52 6 0.12
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (45 bp):
TTTTTTTAATTTTTTAATTTTAAAATTTTTTAAATTTTTTTATAA
Found at i:15197315 original size:33 final size:31
Alignment explanation
Indices: 15197169--15197317 Score: 102
Period size: 28 Copynumber: 4.9 Consensus size: 31
15197159 TATTTTTTTA
*
15197169 TTTTTTAATTTTAAAATACTTTTAAAATACT
1 TTTTTTAATTTTAAAATATTTTTAAAATACT
* *
15197200 TTTTTTAATTTT---TTAATTTTAAAAT--T
1 TTTTTTAATTTTAAAATATTTTTAAAATACT
* * *
15197226 TTTTAAATT-TTTTTAAAATACTTTTT---TTA-A
1 TTTT---TTAATTTTAAAATA-TTTTTAAAATACT
15197256 TTTTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTTTAATTTTAAAATATTTTTAAAATACT
**
15197287 TTTTTTAATTTTTAATTTAATTTTTAAAATA
1 TTTTTTAA-TTTTAAAAT-ATTTTTAAAATA
15197318 AATTTTTAGT
Statistics
Matches: 91, Mismatches: 12, Indels: 28
0.69 0.09 0.21
Matches are distributed among these distances:
26 5 0.05
27 7 0.08
28 25 0.27
29 3 0.03
30 6 0.07
31 22 0.24
32 11 0.12
33 12 0.13
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (31 bp):
TTTTTTAATTTTAAAATATTTTTAAAATACT
Found at i:15197324 original size:33 final size:31
Alignment explanation
Indices: 15197254--15197324 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 31
15197244 TACTTTTTTT
15197254 AATTTTTTAATTTTAAAATATTTTTAAAATA
1 AATTTTTTAATTTTAAAATATTTTTAAAATA
** **
15197285 CTTTTTTTAATTTTTAATTTAATTTTTAAAATA
1 AATTTTTTAA-TTTTAAAAT-ATTTTTAAAATA
15197318 AATTTTT
1 AATTTTT
15197325 AGTATTTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
31 8 0.25
32 7 0.22
33 17 0.53
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (31 bp):
AATTTTTTAATTTTAAAATATTTTTAAAATA
Found at i:15197324 original size:87 final size:85
Alignment explanation
Indices: 15197161--15197316 Score: 255
Period size: 87 Copynumber: 1.8 Consensus size: 85
15197151 AATATTTTTA
15197161 TTTTTTTATTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAATTTTTTAATTTTAAAATT
1 TTTTTTTATTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAATTTTTTAATTTT-AAATT
15197226 TTTTAAATTTTTTTAAAATAC
65 TTTTAAATTTTTTTAAAATAC
*
15197247 TTTTTTTAATTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAA-TTTTTAA-TTT-AATT
1 TTTTTTT-ATTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAATTTTTTAATTTTAAATT
*
15197309 TTTAAAAT
65 TTTTAAAT
15197317 AAATTTTTAG
Statistics
Matches: 67, Mismatches: 2, Indels: 5
0.91 0.03 0.07
Matches are distributed among these distances:
83 11 0.16
85 3 0.04
86 14 0.21
87 39 0.58
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (85 bp):
TTTTTTTATTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAATTTTTTAATTTTAAATTT
TTTAAATTTTTTTAAAATAC
Found at i:15214906 original size:24 final size:24
Alignment explanation
Indices: 15214859--15214903 Score: 69
Period size: 21 Copynumber: 2.0 Consensus size: 24
15214849 ACATTTTTAG
15214859 AAAAATATAAGAAATATATATTAT
1 AAAAATATAAGAAATATATATTAT
15214883 AAAAATA-AA-AAATA-ATATTAT
1 AAAAATATAAGAAATATATATTAT
15214904 TATGAATATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.33
22 5 0.24
23 2 0.10
24 7 0.33
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (24 bp):
AAAAATATAAGAAATATATATTAT
Found at i:15220320 original size:20 final size:21
Alignment explanation
Indices: 15220295--15220338 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
15220285 TTTTCTAAAA
*
15220295 TTTTAACTATAT-TTTTATTT
1 TTTTAACTATATATTTAATTT
*
15220315 TTTTAATTATATATTTAATTT
1 TTTTAACTATATATTTAATTT
15220336 TTT
1 TTT
15220339 GAATTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTAACTATATATTTAATTT
Found at i:15220337 original size:21 final size:20
Alignment explanation
Indices: 15220295--15220343 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
15220285 TTTTCTAAAA
* *
15220295 TTTTAACTATATTTTTATTT
1 TTTTAATTATATTTTAATTT
15220315 TTTTAATTATATATTTAATTT
1 TTTTAATTATAT-TTTAATTT
*
15220336 TTTGAATT
1 TTTTAATT
15220344 TTTATAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTAATTATATTTTAATTT
Found at i:15223785 original size:5 final size:5
Alignment explanation
Indices: 15223775--15223807 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
15223765 ATTTTCTCTC
15223775 CTTCT CTTCT CTTCT CTTTCT CTTCT CTTCT CT
1 CTTCT CTTCT CTTCT C-TTCT CTTCT CTTCT CT
15223808 GTAAAACCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (5 bp):
CTTCT
Found at i:15223795 original size:16 final size:16
Alignment explanation
Indices: 15223771--15223807 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
15223761 CACCATTTTC
*
15223771 TCTCCTTCTCTTCTCT
1 TCTCTTTCTCTTCTCT
15223787 TCTCTTTCTCTTCTCT
1 TCTCTTTCTCTTCTCT
15223803 TCTCT
1 TCTCT
15223808 GTAAAACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (16 bp):
TCTCTTTCTCTTCTCT
Found at i:15226130 original size:126 final size:126
Alignment explanation
Indices: 15225905--15226157 Score: 497
Period size: 126 Copynumber: 2.0 Consensus size: 126
15225895 TTTAGTTGAA
*
15225905 CTTGGAGTAGCCACACATTTTTCTAGACTGGGCTTGAGGTCTGGTTACCATCAGACTAGAATGTG
1 CTTGGAGTAGCCACACATTTTTCTAGACTGGGCTTGAGGTCTGGTTACCATCAGACTAGAATGCG
15225970 GGTCAAGGATGTTCACAAAACATCTAAAACTCATGAGGGGCATTATGATTTCTTGGTCATG
66 GGTCAAGGATGTTCACAAAACATCTAAAACTCATGAGGGGCATTATGATTTCTTGGTCATG
15226031 CTTGGAGTAGCCACACATTTTTCTAGACTGGGCTTGAGGTCTGGTTACCATCAGACTAGAATGCG
1 CTTGGAGTAGCCACACATTTTTCTAGACTGGGCTTGAGGTCTGGTTACCATCAGACTAGAATGCG
15226096 GGTCAAGGATGTTCACAAAACATCTAAAACTCATGAGGGGCATTATGATTTCTTGGTCATG
66 GGTCAAGGATGTTCACAAAACATCTAAAACTCATGAGGGGCATTATGATTTCTTGGTCATG
15226157 C
1 C
15226158 CCTTTGGTTT
Statistics
Matches: 126, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
126 126 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (126 bp):
CTTGGAGTAGCCACACATTTTTCTAGACTGGGCTTGAGGTCTGGTTACCATCAGACTAGAATGCG
GGTCAAGGATGTTCACAAAACATCTAAAACTCATGAGGGGCATTATGATTTCTTGGTCATG
Found at i:15229700 original size:30 final size:31
Alignment explanation
Indices: 15229666--15229729 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 31
15229656 AAAAGCTTAG
*
15229666 GTACCAAATTAAGAAATAGCAT-AAGTTCAA
1 GTACCAAATTAAGAAAAAGCATCAAGTTCAA
**
15229696 GTACCAAATTAAGAAAAAGTGTCAAGTTCAA
1 GTACCAAATTAAGAAAAAGCATCAAGTTCAA
15229727 GTA
1 GTA
15229730 TTGAATTGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 19 0.63
31 11 0.37
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.23
Consensus pattern (31 bp):
GTACCAAATTAAGAAAAAGCATCAAGTTCAA
Found at i:15243624 original size:15 final size:15
Alignment explanation
Indices: 15243604--15243633 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15243594 AAGTATATTA
15243604 AAAATATAATATAAT
1 AAAATATAATATAAT
*
15243619 AAAATATAGTATAAT
1 AAAATATAATATAAT
15243634 CATTAAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
AAAATATAATATAAT
Found at i:15244972 original size:21 final size:20
Alignment explanation
Indices: 15244934--15244972 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
15244924 TAAGACATGG
*
15244934 AATTAATTAGAAATTAAATC
1 AATTAATTAGAAAATAAATC
*
15244954 AATTAGATTATAAAATAAA
1 AATTA-ATTAGAAAATAAA
15244973 CAGTACAGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (20 bp):
AATTAATTAGAAAATAAATC
Found at i:15246373 original size:98 final size:97
Alignment explanation
Indices: 15246186--15246379 Score: 325
Period size: 98 Copynumber: 2.0 Consensus size: 97
15246176 ACAATAAAAT
* *
15246186 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCAATACGTTAGGGTACGATTCCT
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCAATACGTTAGGGCACAATTCCT
*
15246251 CTAGAATCCCAAACTCGGAATATTTCCTTTAC
66 CTAAAATCCCAAACTCGGAATATTTCCTTTAC
* *
15246283 TTTAAAAGAACATCCACTTCTCCAAGATTTATGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACA-CCAATACGTTAGGGCACAATTCC
*
15246348 TTTAAAATCCCAAACTCGGAATATTTCCTTTA
65 TCTAAAATCCCAAACTCGGAATATTTCCTTTA
15246380 TTGTTTTTAG
Statistics
Matches: 90, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
97 39 0.43
98 51 0.57
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.29
Consensus pattern (97 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCAATACGTTAGGGCACAATTCCT
CTAAAATCCCAAACTCGGAATATTTCCTTTAC
Found at i:15247854 original size:19 final size:19
Alignment explanation
Indices: 15247830--15247942 Score: 172
Period size: 19 Copynumber: 5.8 Consensus size: 19
15247820 AATCATATAT
15247830 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
15247849 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
15247868 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
15247887 TCTAAGATTGCATATATCAAA
1 TCTAAGATTGC--ATATCATA
*
15247908 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
15247927 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
15247943 CTCAAAAATT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
19 67 0.80
21 17 0.20
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:15247913 original size:40 final size:40
Alignment explanation
Indices: 15247830--15247941 Score: 192
Period size: 40 Copynumber: 2.9 Consensus size: 40
15247820 AATCATATAT
*
15247830 TCTAAGATTGCATATCATATCTAAGATT--ATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCAAA
15247868 TCTAAGATTGCATATCATATCTAAGATTGCATATATCAAA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCAAA
*
15247908 TCTAAGATTACATATCATATCTAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
15247942 CCTCAAAAAT
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
38 28 0.40
40 42 0.60
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCAAA
Found at i:15247915 original size:59 final size:56
Alignment explanation
Indices: 15247823--15247942 Score: 188
Period size: 59 Copynumber: 2.1 Consensus size: 56
15247813 ATTACAAAAT
* *
15247823 CATAT-ATTCTAAGATTGCATATCATATCTAAGATTATATATCATATCTAAGATTG
1 CATATCATTCTAAGATTGCATATCAAATCTAAGATTACATATCATATCTAAGATTG
15247878 CATATCATATCTAAGATTGCATATATCAAATCTAAGATTACATATCATATCTAAGATTG
1 CATATCAT-TCTAAGATTGC--ATATCAAATCTAAGATTACATATCATATCTAAGATTG
15247937 CATATC
1 CATATC
15247943 CTCAAAAATT
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
55 5 0.08
56 2 0.03
57 11 0.19
59 41 0.69
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.38
Consensus pattern (56 bp):
CATATCATTCTAAGATTGCATATCAAATCTAAGATTACATATCATATCTAAGATTG
Found at i:15248986 original size:3 final size:3
Alignment explanation
Indices: 15248980--15249008 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
15248970 AAAAGAAAGG
15248980 AGA AGA AGA AGA AGA AGA AG- AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
15249009 GGGCGGTGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:15249076 original size:20 final size:20
Alignment explanation
Indices: 15249039--15249077 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
15249029 AAGTAAAAGA
*
15249039 GAGAAAGAGAATAGAGAAAC
1 GAGAAAGAGAAGAGAGAAAC
15249059 GAGAAAGA-AAGAGAAGAAA
1 GAGAAAGAGAAGAG-AGAAA
15249078 AAAATAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.64, C:0.03, G:0.31, T:0.03
Consensus pattern (20 bp):
GAGAAAGAGAAGAGAGAAAC
Found at i:15252451 original size:49 final size:49
Alignment explanation
Indices: 15252369--15252462 Score: 134
Period size: 49 Copynumber: 1.9 Consensus size: 49
15252359 TCAAGAAGGG
* * * *
15252369 ATAAATAGTGATAAGAGTGTAGACAGTGAAAGACTAAGTTTAGCAATGT
1 ATAAATAGTGATAAGAGCGCAGACAATGAAAGACCAAGTTTAGCAATGT
* *
15252418 ATAAATAGTGATAAGAGCGCGGACAATGGAAGACCAAGTTTAGCA
1 ATAAATAGTGATAAGAGCGCAGACAATGAAAGACCAAGTTTAGCA
15252463 TAGCATAGCA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.43, C:0.10, G:0.26, T:0.22
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGCGCAGACAATGAAAGACCAAGTTTAGCAATGT
Found at i:15253383 original size:23 final size:23
Alignment explanation
Indices: 15253357--15253431 Score: 105
Period size: 23 Copynumber: 3.3 Consensus size: 23
15253347 TTGGTGGAAG
*
15253357 CATTCTAACACTACGGTGCAATT
1 CATTCTAACACTATGGTGCAATT
15253380 CATTCTAACACTATGGTGCAATT
1 CATTCTAACACTATGGTGCAATT
** * *
15253403 CATTCTGGCGCTATAGTGCAATT
1 CATTCTAACACTATGGTGCAATT
15253426 CATTCT
1 CATTCT
15253432 GGCACTTTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.35
Consensus pattern (23 bp):
CATTCTAACACTATGGTGCAATT
Found at i:15254306 original size:19 final size:19
Alignment explanation
Indices: 15254282--15254390 Score: 155
Period size: 19 Copynumber: 5.6 Consensus size: 19
15254272 TTTGAGGATG
15254282 TGCAATCTTAGATATGATA
1 TGCAATCTTAGATATGATA
**
15254301 TGCAATCCAAGATATGATATA
1 TGCAATCTTAGATATG--ATA
15254322 TGCAATCTTAGATATGATA
1 TGCAATCTTAGATATGATA
*
15254341 TGCAATCTTAGAGATGATA
1 TGCAATCTTAGATATGATA
**
15254360 TATAATCTTAGATATGATA
1 TGCAATCTTAGATATGATA
15254379 TGCAATCTTAGA
1 TGCAATCTTAGA
15254391 ATATATGATT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
19 61 0.78
21 17 0.22
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
TGCAATCTTAGATATGATA
Found at i:15254376 original size:38 final size:39
Alignment explanation
Indices: 15254284--15254390 Score: 171
Period size: 40 Copynumber: 2.7 Consensus size: 39
15254274 TGAGGATGTG
** *
15254284 CAATCTTAGATATGATATGCAATCCAAGATATGATATAT
1 CAATCTTAGATATGATATGCAATCTTAGAGATGATATAT
15254323 GCAATCTTAGATATGATATGCAATCTTAGAGATGATATAT
1 -CAATCTTAGATATGATATGCAATCTTAGAGATGATATAT
15254363 -AATCTTAGATATGATATGCAATCTTAGA
1 CAATCTTAGATATGATATGCAATCTTAGA
15254391 ATATATGATT
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
38 28 0.44
40 36 0.56
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (39 bp):
CAATCTTAGATATGATATGCAATCTTAGAGATGATATAT
Found at i:15255066 original size:23 final size:23
Alignment explanation
Indices: 15255029--15255072 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
15255019 TATATATATA
15255029 TTTTTTAAAACGAATATTTTCCT
1 TTTTTTAAAACGAATATTTTCCT
* *
15255052 TTTTTTTAAATGAATATTTTC
1 TTTTTTAAAACGAATATTTTC
15255073 ATATATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.57
Consensus pattern (23 bp):
TTTTTTAAAACGAATATTTTCCT
Found at i:15261767 original size:68 final size:68
Alignment explanation
Indices: 15261648--15261887 Score: 216
Period size: 69 Copynumber: 3.5 Consensus size: 68
15261638 CAACGAAATC
* * * * * * * *
15261648 TGTTGGTTGCCATAACTGAGCAATAGTTTTATACCTTATAATCTCCATGTTTATTGTCCCGATGG
1 TGTTGGTTGCCATAGC-GAGCTATGGTCTTACACCTTGTAATCTTCGTGTTTATTGTCCCGATGG
15261713 ACTT
65 ACTT
* * * **
15261717 TGTTGGTCGCTATAGCGGAGCTATGGTC-TACACCTTGTAATCTTCGTGTTTACTGTCCCGGCGG
1 TGTTGGTTGCCATAGC-GAGCTATGGTCTTACACCTTGTAATCTTCGTGTTTATTGTCCCGATGG
*
15261781 GCTT
65 ACTT
* * * * *
15261785 TGTTAGTTGCCATAGTCGAGCTACGGTCTTACACATTGTAATACTT-GTGTTTATTGTTCCGATA
1 TGTTGGTTGCCATAG-CGAGCTATGGTCTTACACCTTGTAAT-CTTCGTGTTTATTGTCCCGATG
15261849 GACTCT
64 GACT-T
* *
15261855 T-TTGGTTTCCATAGTTGAGCTATGGTCTTACAC
1 TGTTGGTTGCCATAG-CGAGCTATGGTCTTACAC
15261888 ATTAAGCCTC
Statistics
Matches: 137, Mismatches: 30, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
68 54 0.39
69 78 0.57
70 5 0.04
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (68 bp):
TGTTGGTTGCCATAGCGAGCTATGGTCTTACACCTTGTAATCTTCGTGTTTATTGTCCCGATGGA
CTT
Found at i:15265283 original size:17 final size:18
Alignment explanation
Indices: 15265263--15265299 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
15265253 TAAAGTTTTT
15265263 ATAATAATAAA-AA-TAAA
1 ATAAT-ATAAAGAACTAAA
15265280 ATAATATAAAGAACTAAA
1 ATAATATAAAGAACTAAA
15265298 AT
1 AT
15265300 TCGAGAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.28
17 7 0.39
18 6 0.33
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (18 bp):
ATAATATAAAGAACTAAA
Found at i:15271542 original size:16 final size:15
Alignment explanation
Indices: 15271521--15271552 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
15271511 CCATTTCCCA
15271521 TTTATTTTTATTCTTT
1 TTTATTTTTATT-TTT
15271537 TTTATTTTTATTTTT
1 TTTATTTTTATTTTT
15271552 T
1 T
15271553 AAAAGTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTATTTTTATTTTT
Found at i:15272293 original size:25 final size:25
Alignment explanation
Indices: 15272231--15272293 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
15272221 GGAATTTTAG
* *
15272231 AATCTGTATTCTAGATTGTATATTT
1 AATCTGTATTCTGGATTGTATATTC
* *
15272256 AATTTGTATTCTGGATTGTATGTTC
1 AATCTGTATTCTGGATTGTATATTC
15272281 AATCTGTATTCTG
1 AATCTGTATTCTG
15272294 CTTAGTTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.24, C:0.10, G:0.16, T:0.51
Consensus pattern (25 bp):
AATCTGTATTCTGGATTGTATATTC
Found at i:15274546 original size:38 final size:37
Alignment explanation
Indices: 15274476--15274548 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
15274466 TTTTCATAAT
* *
15274476 TTCACTTTTTTACTTTTAATCACTATTCAATTCAAAA
1 TTCACTTTTTCACTTTTAATCAATATTCAATTCAAAA
15274513 TTCACTTTTTCA-TTTTCAAGTCAATATTCAATTCAA
1 TTCACTTTTTCACTTTT-AA-TCAATATTCAATTCAA
15274549 TTCCATACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.32, C:0.19, G:0.01, T:0.48
Consensus pattern (37 bp):
TTCACTTTTTCACTTTTAATCAATATTCAATTCAAAA
Found at i:15274729 original size:45 final size:45
Alignment explanation
Indices: 15274649--15274970 Score: 443
Period size: 45 Copynumber: 7.2 Consensus size: 45
15274639 AATAATAACA
* * * *
15274649 GTACACGGTGG-ATCAGCACACAGC-ACCACCCTTATAGTCAATG
1 GTACCCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATG
* * *
15274692 ATACTCGGTGTAATCAGCACAT-GACAACCACCTTTATAATCAATG
1 GTACCCGGTGGAATCAGCACATAG-CAACCACCTTTATAATCAATG
*
15274737 GTACCCGGTGGAATCAACACATAGCAACCACCTTTATAATCAATG
1 GTACCCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATG
* *
15274782 GTACCCGGTAGAATCAGCACATAACAACCACCTTTATAATCAATG
1 GTACCCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATG
15274827 GTACCCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATG
1 GTACCCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATG
* * *
15274872 GTACCTGGTGGAATCAACACATAGCAACCACCGTTATAATCAATG
1 GTACCCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATG
* * * *
15274917 GTACTCGGTGGAATCAGTACATAGCAACCACCGTTACAATCAATG
1 GTACCCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATG
* *
15274962 ATACTCGGT
1 GTACCCGGT
15274971 ACACGTAGTA
Statistics
Matches: 251, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
43 9 0.04
44 10 0.04
45 231 0.92
46 1 0.00
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (45 bp):
GTACCCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATG
Found at i:15287496 original size:25 final size:26
Alignment explanation
Indices: 15287435--15287501 Score: 64
Period size: 28 Copynumber: 2.5 Consensus size: 26
15287425 AATATTTTTT
*
15287435 AAAATATTTATATTTTATTATTTTAA
1 AAAAAATTTATATTTTATTATTTTAA
* *
15287461 AATTAATAATTT-TATTTTATTTTTTTGA
1 AA--AA-AATTTATATTTTATTATTTTAA
15287489 AAAAAATTATATA
1 AAAAAATT-TATA
15287502 GTGATCTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
25 4 0.12
26 5 0.15
27 2 0.06
28 18 0.55
29 4 0.12
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (26 bp):
AAAAAATTTATATTTTATTATTTTAA
Found at i:15289287 original size:6 final size:6
Alignment explanation
Indices: 15289273--15289302 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
15289263 CGGCTGATAC
*
15289273 CGCCTT CGCCAT CGCCAT CGCCAT CGCCAT
1 CGCCAT CGCCAT CGCCAT CGCCAT CGCCAT
15289303 GTCTCTCTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.13, C:0.50, G:0.17, T:0.20
Consensus pattern (6 bp):
CGCCAT
Found at i:15299059 original size:27 final size:27
Alignment explanation
Indices: 15299021--15299089 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
15299011 GAGGAGGGTA
*
15299021 TCCCATGGGCGGCACCAAAT-GTGCCTT
1 TCCCATGGGCGGCACC-AATGGTGCCAT
* *
15299048 TCCCATAGGCGGCACCGATGGTGCCAT
1 TCCCATGGGCGGCACCAATGGTGCCAT
15299075 TCCCATGGGCGGCAC
1 TCCCATGGGCGGCAC
15299090 TGCCCATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 2 0.05
27 35 0.95
ACGTcount: A:0.17, C:0.35, G:0.29, T:0.19
Consensus pattern (27 bp):
TCCCATGGGCGGCACCAATGGTGCCAT
Found at i:15299157 original size:10 final size:10
Alignment explanation
Indices: 15299142--15299292 Score: 87
Period size: 10 Copynumber: 15.9 Consensus size: 10
15299132 GAAGGAGAGG
15299142 GAAAGAAGAA
1 GAAAGAAGAA
15299152 GAAAG-A-AA
1 GAAAGAAGAA
*
15299160 GAAAGAAAAA
1 GAAAGAAGAA
15299170 GAAAGAA-AA
1 GAAAGAAGAA
* *
15299179 GGAAAGGAGAG
1 -GAAAGAAGAA
15299190 GAAAG-A-AA
1 GAAAGAAGAA
15299198 GAAA-AAGAA
1 GAAAGAAGAA
15299207 GGAAAGAA-AA
1 -GAAAGAAGAA
* *
15299217 GGAAAGGAGAG
1 -GAAAGAAGAA
15299228 GAAAG-A-AA
1 GAAAGAAGAA
15299236 GAAA-AAGAA
1 GAAAGAAGAA
15299245 GGAAAGAA-AA
1 -GAAAGAAGAA
*
15299255 GGAAAGGAGAA
1 -GAAAGAAGAA
15299266 GAAA-AA-AA
1 GAAAGAAGAA
*
15299274 AAAAGAAAGAA
1 GAAAG-AAGAA
15299285 G-AAGAAGA
1 GAAAGAAGA
15299293 GGGAAGGAAG
Statistics
Matches: 114, Mismatches: 10, Indels: 35
0.72 0.06 0.22
Matches are distributed among these distances:
8 24 0.21
9 15 0.13
10 65 0.57
11 10 0.09
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAAGAAGAA
Found at i:15299194 original size:38 final size:38
Alignment explanation
Indices: 15299141--15299318 Score: 206
Period size: 38 Copynumber: 4.8 Consensus size: 38
15299131 AGAAGGAGAG
* *
15299141 GGAAAGAAGAAGAAAGAAAGAAAGAAAAAGAAAGAAAA
1 GGAAAGGAGAGGAAAGAAAGAAAGAAAAAGAAAGAAAA
*
15299179 GGAAAGGAGAGGAAAGAAAGAAA-AAGAAGGAAAGAAAA
1 GGAAAGGAGAGGAAAGAAAGAAAGAA-AAAGAAAGAAAA
*
15299217 GGAAAGGAGAGGAAAGAAAGAAA-AAGAAGGAAAGAAAA
1 GGAAAGGAGAGGAAAGAAAGAAAGAA-AAAGAAAGAAAA
* * * *
15299255 GGAAAGGAGAAGAAAAAAAAAAAGAAAGAAG-AAGAAGA
1 GGAAAGGAGAGGAAAGAAAGAAAGAAA-AAGAAAGAAAA
*
15299293 GGGAAGGA-AGG-AA-AAAGAAAGAAAAA
1 GGAAAGGAGAGGAAAGAAAGAAAGAAAAA
15299319 CAGGTAATTT
Statistics
Matches: 126, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
34 2 0.02
35 10 0.08
36 2 0.02
37 4 0.03
38 104 0.83
39 4 0.03
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (38 bp):
GGAAAGGAGAGGAAAGAAAGAAAGAAAAAGAAAGAAAA
Found at i:15299316 original size:10 final size:10
Alignment explanation
Indices: 15299142--15299318 Score: 84
Period size: 10 Copynumber: 18.0 Consensus size: 10
15299132 GAAGGAGAGG
*
15299142 GAAAGAAGAA
1 GAAAGAAAAA
15299152 GAAAG--AAA
1 GAAAGAAAAA
15299160 GAAAGAAAAA
1 GAAAGAAAAA
*
15299170 GAAAGAAAAG
1 GAAAGAAAAA
15299180 GAAAGGAGAGGAAA
1 GAAA-GA-A--AAA
15299194 GAAAGAAAAA
1 GAAAGAAAAA
* *
15299204 GAAGGAAAGA
1 GAAAGAAAAA
* *
15299214 -AAAGGAAAG
1 GAAAGAAAAA
* *
15299223 GAGAG-GAAA
1 GAAAGAAAAA
15299232 GAAAGAAAAA
1 GAAAGAAAAA
* *
15299242 GAAGGAAAGA
1 GAAAGAAAAA
*
15299252 -AAAG-GAAA
1 GAAAGAAAAA
*
15299260 G-GAGAAGAAA
1 GAAAGAA-AAA
15299270 -AAA-AAAAA
1 GAAAGAAAAA
*
15299278 GAAAGAAGAA
1 GAAAGAAAAA
** *
15299288 GAAGAGGGAAG
1 GAA-AGAAAAA
*
15299299 GAAGGAAAAA
1 GAAAGAAAAA
15299309 GAAAGAAAAA
1 GAAAGAAAAA
15299319 CAGGTAATTT
Statistics
Matches: 120, Mismatches: 32, Indels: 30
0.66 0.18 0.16
Matches are distributed among these distances:
8 14 0.12
9 19 0.16
10 69 0.57
11 8 0.07
12 2 0.02
13 2 0.02
14 6 0.05
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (10 bp):
GAAAGAAAAA
Found at i:15299829 original size:158 final size:158
Alignment explanation
Indices: 15299648--15300164 Score: 583
Period size: 158 Copynumber: 3.3 Consensus size: 158
15299638 TATTTAATAA
* * * *
15299648 ATTTTAAACATAATGCATTGAAATAA-AGTAAAATTATAAAATTAGAAATTATGATATTTTTTAA
1 ATTTCAAACAAAATGCACTGAAATAATA-TAAAATAATAAAATTAGAAATTATGATATTTTTTAA
*
15299712 AATAATAAAATGCGGAGAAAAAAATACGAACAAATGACCGAAGTAAGAGTGTTTTACTAAATTTT
65 AATAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTACTAAATTTT
15299777 TTAAAAATTTAGAAATAATTAATACAAAT
130 TTAAAAATTTAGAAATAATTAATACAAAT
* *
15299806 ATTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAA-TACGAAAATAAT-ATATTTTTAT
1 ATTTCAAACAAAATGCACTGAAATAATATAAAATAATAAAATTA-G-AAATTATGATA-TTTT-T
* * * * * * * * *
15299869 TGAAAGTAATAAAATTCGG-GAAAATAATACGAGCAGAGGGCAGGAA-TAAGGGTTTTTTTTACA
62 T-AAAATAATAAAATGCGGAGAAAAAAATACGAACAAATGGC-CGAAGTAAGAG--TGTTTT--A
* * *
15299932 CTAAATTAATTTAAAAA--TA-CACTAAATTAAT---AA-
121 CTAAATT-TTTTAAAAATTTAGAAAT-AATTAATACAAAT
* * **
15299965 ATTTCAAACATAATGCATTGAAATAA-AGTAAAATTCTAAAATTAGAAATTATGATATTTTTTAA
1 ATTTCAAACAAAATGCACTGAAATAATA-TAAAATAATAAAATTAGAAATTATGATATTTTTTAA
*
15300029 AATAATAAAATGCAGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTACTAAATTTT
65 AATAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTACTAAATTTT
*
15300094 TTAAAAATTCAGAAATAATTAATACAAAT
130 TTAAAAATTTAGAAATAATTAATACAAAT
*
15300123 ATTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAAT
1 ATTTCAAACAAAATGCACTGAAATAATATAAAATAATAAAAT
15300165 ACGAAAATAA
Statistics
Matches: 289, Mismatches: 44, Indels: 52
0.75 0.11 0.14
Matches are distributed among these distances:
152 8 0.03
153 8 0.03
154 8 0.03
155 7 0.02
156 17 0.06
157 29 0.10
158 84 0.29
159 50 0.17
160 28 0.10
161 18 0.06
162 7 0.02
163 9 0.03
164 8 0.03
165 8 0.03
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (158 bp):
ATTTCAAACAAAATGCACTGAAATAATATAAAATAATAAAATTAGAAATTATGATATTTTTTAAA
ATAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTACTAAATTTTT
TAAAAATTTAGAAATAATTAATACAAAT
Found at i:15300210 original size:46 final size:44
Alignment explanation
Indices: 15300160--15300253 Score: 111
Period size: 43 Copynumber: 2.1 Consensus size: 44
15300150 ATAAAATAAT
* *
15300160 AAAATACGAAAATAAT-ATATTTTTATTGAAAGTAATAAAATTCGG-G
1 AAAATAAG-AAATAATGATA-TTTT-TT-AAAGTAATAAAATGCGGAG
*
15300206 AAAATAAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAG
1 AAAATAAGAAATAATGATATTTTTTAAAGTAATAAAATGCGGAG
15300250 AAAA
1 AAAA
15300254 AAATACGAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
43 16 0.37
44 7 0.16
45 10 0.23
46 10 0.23
ACGTcount: A:0.52, C:0.03, G:0.14, T:0.31
Consensus pattern (44 bp):
AAAATAAGAAATAATGATATTTTTTAAAGTAATAAAATGCGGAG
Found at i:15301975 original size:12 final size:12
Alignment explanation
Indices: 15301954--15301991 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
15301944 GGCCGAGCAG
15301954 GAGCCCCAGCCA
1 GAGCCCCAGCCA
*
15301966 GAGCCACAGCCA
1 GAGCCCCAGCCA
15301978 GAGCCCCAGCCA
1 GAGCCCCAGCCA
15301990 GA
1 GA
15301992 TCCGGAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.29, C:0.45, G:0.26, T:0.00
Consensus pattern (12 bp):
GAGCCCCAGCCA
Found at i:15305592 original size:42 final size:40
Alignment explanation
Indices: 15305464--15305598 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 40
15305454 CCACTAACCC
*
15305464 TAATAGCTAACACAATAACAATAATAATAGTTTTATACTCAAAA
1 TAATA-CTAAC-C-ATAACAATAATAATAGTTTTTTACT-AAAA
**
15305508 TAATACTAA-C-TAACAATAATAATTAGGGTTTTACTAAAAA
1 TAATACTAACCATAACAATAATAA-TAGTTTTTTACT-AAAA
* *
15305548 TAATAACTAACCATAATAATAATACTAGTTTTTTACTAACAA
1 TAAT-ACTAACCATAACAATAATAATAGTTTTTTACTAA-AA
15305590 TAATACTAA
1 TAATACTAA
15305599 GTAACATCTA
Statistics
Matches: 78, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
39 12 0.15
40 17 0.22
41 13 0.17
42 17 0.22
43 14 0.18
44 5 0.06
ACGTcount: A:0.50, C:0.13, G:0.04, T:0.33
Consensus pattern (40 bp):
TAATACTAACCATAACAATAATAATAGTTTTTTACTAAAA
Found at i:15305782 original size:10 final size:10
Alignment explanation
Indices: 15305754--15305789 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
15305744 AATACCTTTT
15305754 TTTTTCTCTTC
1 TTTTTCTC-TC
*
15305765 TCTTTCTCTC
1 TTTTTCTCTC
15305775 TTTTTCTCTC
1 TTTTTCTCTC
15305785 TTTTT
1 TTTTT
15305790 TCGGCACCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 16 0.70
11 7 0.30
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTTTCTCTC
Found at i:15305977 original size:19 final size:19
Alignment explanation
Indices: 15305953--15305991 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
15305943 GCTGTAGGCT
*
15305953 TTTTTTTTTCATT-TTTTTG
1 TTTTTTTGT-ATTATTTTTG
15305972 TTTTTTTGTATTATTTTTG
1 TTTTTTTGTATTATTTTTG
15305991 T
1 T
15305992 AAATAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.08, C:0.03, G:0.08, T:0.82
Consensus pattern (19 bp):
TTTTTTTGTATTATTTTTG
Found at i:15307781 original size:15 final size:16
Alignment explanation
Indices: 15307743--15307782 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
15307733 CAGTAAACCT
15307743 TTAATTTTTACTTTAC
1 TTAATTTTTACTTTAC
*
15307759 TTAATTTTTATTTTA-
1 TTAATTTTTACTTTAC
15307774 TT-ATTTTTA
1 TTAATTTTTA
15307783 TATGTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 7 0.30
15 2 0.09
16 14 0.61
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (16 bp):
TTAATTTTTACTTTAC
Found at i:15312641 original size:30 final size:30
Alignment explanation
Indices: 15312605--15312664 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
15312595 ACTTAACAAG
15312605 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
15312635 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
15312665 TAATAAAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.57, C:0.15, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:15322654 original size:25 final size:25
Alignment explanation
Indices: 15322604--15322664 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
15322594 AAATTGTATT
* *
15322604 ACATCATATCAGATCAGACCATAGC
1 ACATCATATCAGATCAAACCACAGC
*
15322629 ACATCATATC-GAATCAAATCACAGC
1 ACATCATATCAG-ATCAAACCACAGC
* *
15322654 ATAACATATCA
1 ACATCATATCA
15322665 TAACCTACCC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 1 0.03
25 28 0.97
ACGTcount: A:0.44, C:0.26, G:0.08, T:0.21
Consensus pattern (25 bp):
ACATCATATCAGATCAAACCACAGC
Found at i:15329518 original size:36 final size:36
Alignment explanation
Indices: 15329471--15329542 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
15329461 AATTGTGCCT
15329471 TCATTTCCATTTCCATCACCACCAAATAAATAAAAA
1 TCATTTCCATTTCCATCACCACCAAATAAATAAAAA
15329507 TCATTTCCATTTCCATCACCACCAAATAAATAAAAA
1 TCATTTCCATTTCCATCACCACCAAATAAATAAAAA
15329543 CTTTTAGTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (36 bp):
TCATTTCCATTTCCATCACCACCAAATAAATAAAAA
Found at i:15330520 original size:2 final size:2
Alignment explanation
Indices: 15330513--15330542 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15330503 GAGCTTATAC
15330513 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
15330543 AAGGGACAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:15331086 original size:3 final size:3
Alignment explanation
Indices: 15331078--15331103 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
15331068 ACACATAGAA
15331078 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
15331104 AGAAGTAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:15331674 original size:3 final size:3
Alignment explanation
Indices: 15331666--15331692 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15331656 TAAAATAGAT
15331666 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
15331693 AAGCATGCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:15335798 original size:61 final size:61
Alignment explanation
Indices: 15335717--15335843 Score: 247
Period size: 61 Copynumber: 2.1 Consensus size: 61
15335707 CTAAATGAGT
15335717 ATGTG-GTTGCTATGCAAATTATCTTAACTTATGAATATGTGTGTATTATGATTAAAGGAC
1 ATGTGAGTTGCTATGCAAATTATCTTAACTTATGAATATGTGTGTATTATGATTAAAGGAC
15335777 ATGTGAGTTGCTATGCAAATTATCTTAACTTATGAATATGTGTGTATTATGATTAAAGGAC
1 ATGTGAGTTGCTATGCAAATTATCTTAACTTATGAATATGTGTGTATTATGATTAAAGGAC
15335838 ATGTGA
1 ATGTGA
15335844 CCATTATGCA
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
60 5 0.08
61 61 0.92
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.39
Consensus pattern (61 bp):
ATGTGAGTTGCTATGCAAATTATCTTAACTTATGAATATGTGTGTATTATGATTAAAGGAC
Found at i:15335919 original size:39 final size:39
Alignment explanation
Indices: 15335871--15335974 Score: 106
Period size: 39 Copynumber: 2.7 Consensus size: 39
15335861 TATAAAGATG
* *
15335871 TTTTAGAGTATTGTGGTATATGCTTGAATG-TT-ATGTGA
1 TTTTAGAGTATTGTGATATATGCTTGAA-GCTTCATGAGA
* *
15335909 TTTTACGAGTATTATGACATATGCTT-AAGCTTCATGAGA
1 TTTTA-GAGTATTGTGATATATGCTTGAAGCTTCATGAGA
* *
15335948 TTATATGAGTATGGTGATATATGCTTG
1 TTTTA-GAGTATTGTGATATATGCTTG
15335975 TATCTTAGGT
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
37 1 0.02
38 9 0.17
39 43 0.81
ACGTcount: A:0.27, C:0.07, G:0.23, T:0.43
Consensus pattern (39 bp):
TTTTAGAGTATTGTGATATATGCTTGAAGCTTCATGAGA
Found at i:15339771 original size:69 final size:69
Alignment explanation
Indices: 15339673--15340215 Score: 317
Period size: 69 Copynumber: 7.9 Consensus size: 69
15339663 GATGGGAGTT
* * ** * * * * *
15339673 TTTGCTCTCGTTAACTGTGTTATAGGCTGTGAGTCTAT-GCTTGCGAGCCTTAATATGGCAGTTA
1 TTTGCTCTCGCTAACTGTATTGGAAGCTGTGACTCT-TCGCCTGTGAGCCTTAATATGACAGTTA
15339737 GGAGC
65 GGAGC
* * * * * *
15339742 TTTGGTCTCGCTAACTGTATTTGAAGCTGTAACTCTTCGCCTGTAAGCCTTAATATAACAGTTGG
1 TTTGCTCTCGCTAACTGTATTGGAAGCTGTGACTCTTCGCCTGTGAGCCTTAATATGACAGTTAG
15339807 GAGC
66 GAGC
* * * **
15339811 TTTGCTCTCGCTAACTGTGTCGGAAGCTGTGACTCTTCGCCTGTGAGCCTTAGTATGACAACTAG
1 TTTGCTCTCGCTAACTGTATTGGAAGCTGTGACTCTTCGCCTGTGAGCCTTAATATGACAGTTAG
15339876 GAGC
66 GAGC
* * * * * * * * *
15339880 TTTGCTCTTGCTAACTGTATTGGAGGCTGCGGCTCTTCGCCAGTGAGCCTTAATATAATAGCTGG
1 TTTGCTCTCGCTAACTGTATTGGAAGCTGTGACTCTTCGCCTGTGAGCCTTAATATGACAGTTAG
15339945 GAGC
66 GAGC
** * ** * * * * * ** *
15339949 TTTATTCTCGATAACTGCGTTAG-AGAT-TACGATTCTTTGCATACGAGCCTTAATTTGACAGTT
1 TTTGCTCTCGCTAACTGTATTGGAAGCTGT--GACTCTTCGCCTGTGAGCCTTAATATGACAGTT
15340012 -GCGAGC
64 AG-GAGC
* * * * * * * * *
15340018 TTTGCTCTTGCTAACTGCATTGGAGGTTGTGGCTCTTCGCCTGCGAGCTTTAATATGATAGTTGG
1 TTTGCTCTCGCTAACTGTATTGGAAGCTGTGACTCTTCGCCTGTGAGCCTTAATATGACAGTTAG
15340083 GAGC
66 GAGC
* * * * ** * * * * * * * * *
15340087 TTTACTCTCACTGACTCTGCTAGAGGTTGTGGCTTTTCGTCTGCT-AGCCTTAATACGATAGCT-
1 TTTGCTCTCGCTAACTGTATTGGAAGCTGTGACTCTTCGCCTG-TGAGCCTTAATATGACAGTTA
15340150 GGAAGC
65 GG-AGC
* * * * ** *
15340156 TTTGCTCTCACTAACTGTGTTAGAGGCTACGGCTCTTC-CCTTGTGAGCCTTAATATGACA
1 TTTGCTCTCGCTAACTGTATTGGAAGCTGTGACTCTTCGCC-TGTGAGCCTTAATATGACA
15340216 CGAATTTTGT
Statistics
Matches: 363, Mismatches: 100, Indels: 22
0.75 0.21 0.05
Matches are distributed among these distances:
68 8 0.02
69 351 0.97
70 3 0.01
71 1 0.00
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.34
Consensus pattern (69 bp):
TTTGCTCTCGCTAACTGTATTGGAAGCTGTGACTCTTCGCCTGTGAGCCTTAATATGACAGTTAG
GAGC
Found at i:15339929 original size:138 final size:137
Alignment explanation
Indices: 15339647--15340211 Score: 424
Period size: 138 Copynumber: 4.1 Consensus size: 137
15339637 CTGAATCTGC
* * * * * * * * *
15339647 GAGCCGTAATATGATAGATGGGAGTTTTTGCTCTCGTTAACTGTGTTATAGGCTGTGAGTCTATG
1 GAGCCTTAATATAATAGTTGGGAG-CTTTACTCTCGATAACTGTGTTAGAAGCTGTGACTCT-TG
* * ** * * * * **
15339712 CTTGCGAGCCTTAATATGGCAGTTAGGAGCTTTGGTCTCGCTAACTGTATTTGAAGCTGTAACTC
64 CATGCGAGCCTTAATATGACAACTAGGAGCTTTGCTCTTGCTAACTGTATTGGAGGCTGTGGCTC
15339777 TTCGCCTGT
129 TTCGCCTGT
* * * * **
15339786 AAGCCTTAATATAACAGTTGGGAGCTTTGCTCTCGCTAACTGTGTCGGAAGCTGTGACTCTTCGC
1 GAGCCTTAATATAATAGTTGGGAGCTTTACTCTCGATAACTGTGTTAGAAGCTGTGACTCTT-GC
* * * *
15339851 CTGTGAGCCTTAGTATGACAACTAGGAGCTTTGCTCTTGCTAACTGTATTGGAGGCTGCGGCTCT
65 ATGCGAGCCTTAATATGACAACTAGGAGCTTTGCTCTTGCTAACTGTATTGGAGGCTGTGGCTCT
*
15339916 TCGCCAGT
130 TCGCCTGT
* * * * *
15339924 GAGCCTTAATATAATAGCTGGGAGCTTTATTCTCGATAACTGCGTTAG-AGAT-TACGATTCTTT
1 GAGCCTTAATATAATAGTTGGGAGCTTTACTCTCGATAACTGTGTTAGAAGCTGT--GACTC-TT
* * * * * *
15339987 GCATACGAGCCTTAATTTGAC-AGTTGCGAGCTTTGCTCTTGCTAACTGCATTGGAGGTTGTGGC
63 GCATGCGAGCCTTAATATGACAACTAG-GAGCTTTGCTCTTGCTAACTGTATTGGAGGCTGTGGC
*
15340051 TCTTCGCCTGC
127 TCTTCGCCTGT
* * * * * * * * *
15340062 GAGCTTTAATATGATAGTTGGGAGCTTTACTCTC-ACTGACTCTGCTAGAGGTTGTGGCTTTTCG
1 GAGCCTTAATATAATAGTTGGGAGCTTTACTCTCGA-TAACTGTGTTAGAAGCTGTGACTCTT-G
* * * * ** * * **
15340126 TC-TGCTAGCCTTAATACGATAGCT-GGAAGCTTTGCTCTCACTAACTGTGTTAGAGGCTACGGC
64 -CATGCGAGCCTTAATATGACAACTAGG-AGCTTTGCTCTTGCTAACTGTATTGGAGGCTGTGGC
15340189 TCTTC-CCTTGT
127 TCTTCGCC-TGT
15340200 GAGCCTTAATAT
1 GAGCCTTAATAT
15340212 GACACGAATT
Statistics
Matches: 334, Mismatches: 79, Indels: 27
0.76 0.18 0.06
Matches are distributed among these distances:
136 1 0.00
137 13 0.04
138 294 0.88
139 25 0.07
140 1 0.00
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (137 bp):
GAGCCTTAATATAATAGTTGGGAGCTTTACTCTCGATAACTGTGTTAGAAGCTGTGACTCTTGCA
TGCGAGCCTTAATATGACAACTAGGAGCTTTGCTCTTGCTAACTGTATTGGAGGCTGTGGCTCTT
CGCCTGT
Found at i:15353616 original size:44 final size:44
Alignment explanation
Indices: 15353553--15353645 Score: 170
Period size: 44 Copynumber: 2.1 Consensus size: 44
15353543 AGTGTTTGAG
*
15353553 TAAATGCTTTCAATATATTAACTCAGAAAGAATAAAGTAATTAC
1 TAAATGCTCTCAATATATTAACTCAGAAAGAATAAAGTAATTAC
15353597 TAAATGCTCTCAATATATTAACTCAGAAAGAATAAAGTAATTAC
1 TAAATGCTCTCAATATATTAACTCAGAAAGAATAAAGTAATTAC
15353641 -AAATG
1 TAAATG
15353646 AAGGAAGAGA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 5 0.10
44 43 0.90
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.30
Consensus pattern (44 bp):
TAAATGCTCTCAATATATTAACTCAGAAAGAATAAAGTAATTAC
Found at i:15357360 original size:31 final size:31
Alignment explanation
Indices: 15357322--15357418 Score: 91
Period size: 31 Copynumber: 3.3 Consensus size: 31
15357312 TTTGGTCTGG
15357322 GTACCAAATTAAACATTAAAGCCAAACTCAA
1 GTACCAAATTAAACATTAAAGCCAAACTCAA
15357353 GTACCAAATTGAAA-A--AAA---AAACTC-A
1 GTACCAAATT-AAACATTAAAGCCAAACTCAA
* * *
15357378 GATACCAAATTGAACATTGAAGCCAGACTCAA
1 G-TACCAAATTAAACATTAAAGCCAAACTCAA
*
15357410 GTACGAAAT
1 GTACCAAAT
15357419 GTTATGGTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
25 4 0.08
26 16 0.30
28 2 0.04
29 3 0.06
31 23 0.43
32 5 0.09
ACGTcount: A:0.51, C:0.20, G:0.11, T:0.19
Consensus pattern (31 bp):
GTACCAAATTAAACATTAAAGCCAAACTCAA
Found at i:15358653 original size:30 final size:30
Alignment explanation
Indices: 15358588--15358654 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
15358578 TTATTACACT
* * *
15358588 CAAATAAGTCCTTCACCCTTCATTTGTATC
1 CAAATAAGTCCTCCAACCTTCATTTATATC
15358618 CAAATAAGT-CTCCAACCTTCAATTTATA-C
1 CAAATAAGTCCTCCAACCTTC-ATTTATATC
15358647 CTAAATAA
1 C-AAATAA
15358655 ACCCTTAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 11 0.34
30 21 0.66
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.33
Consensus pattern (30 bp):
CAAATAAGTCCTCCAACCTTCATTTATATC
Found at i:15364557 original size:63 final size:61
Alignment explanation
Indices: 15364480--15364610 Score: 219
Period size: 63 Copynumber: 2.1 Consensus size: 61
15364470 TTTGACAAAA
* *
15364480 CTTAT-ATATTTTGGTACTTAAGAGTAACAATGTTAACTTTTTTTTTTGTCTTTATTTTGGGT
1 CTTATGATATTTTGGTACTTAAGAGTAACAATGCTAAC--TTTTTTTAGTCTTTATTTTGGGT
15364542 CTTATGATATTTTGGTACTTAAGAGTAACAATGCTAACTTTTTTTAGTCTTTATTTTGGGT
1 CTTATGATATTTTGGTACTTAAGAGTAACAATGCTAACTTTTTTTAGTCTTTATTTTGGGT
15364603 CTTATGAT
1 CTTATGAT
15364611 TAATTAAATT
Statistics
Matches: 66, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
61 30 0.45
62 5 0.08
63 31 0.47
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.52
Consensus pattern (61 bp):
CTTATGATATTTTGGTACTTAAGAGTAACAATGCTAACTTTTTTTAGTCTTTATTTTGGGT
Found at i:15365558 original size:195 final size:196
Alignment explanation
Indices: 15365210--15365587 Score: 557
Period size: 195 Copynumber: 1.9 Consensus size: 196
15365200 TATCACGGTA
* * * *
15365210 TTGTTATCAATCTTTAATTAGTGTCGAGTTAACTTGTGGCATCAACTCAATCAAATACATTAATA
1 TTGTTATCAATCTTTAATCAGTGTCAAGTTAACTTGTGACACCAACTCAATCAAATACATTAATA
* * *
15365275 TAGATAATATACAATTGATGAATGTAATAAAGTGTGCATAATGAAAATTGATATGTACAAAAAGA
66 TAGATAATATACAATTGATGAAGGTAATAAAGGGTGCATAATGAAAATTGAAATGTACAAAAAGA
*
15365340 TCAAAACAAAGTTTTAGTTGAGTGGTAAATTAAA-GATTTTACTAATGTAATTGGTCCGGGTTGG
131 TCAAAACAAAGTTTTAGTTGAGTGGTAAATTAAATG-TTTTACTAAAGTAATTGGTCCGGGTTGG
15365404 TG
195 TG
* * *
15365406 TTGTTATCAATCTTTAGTCGGTGTCAAGTTAACTTGTGACACCGACTCAATCAAATACATTAATA
1 TTGTTATCAATCTTTAATCAGTGTCAAGTTAACTTGTGACACCAACTCAATCAAATACATTAATA
15365471 TAGAT-ATATACAATTGATTG-AGGTAATAAAGGGTGCATAAT-AAAATTTGAAATGTACAAAAA
66 TAGATAATATACAATTGA-TGAAGGTAATAAAGGGTGCATAATGAAAA-TTGAAATGTACAAAAA
* * * * *
15365533 TATTAAAATAAAGTTTTATTTGAGTGTTAAATTAAATGTTTTACTAAAGTAATTG
129 GATCAAAACAAAGTTTTAGTTGAGTGGTAAATTAAATGTTTTACTAAAGTAATTG
15365588 TTCTTGGTTC
Statistics
Matches: 163, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
194 4 0.02
195 93 0.57
196 66 0.40
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.35
Consensus pattern (196 bp):
TTGTTATCAATCTTTAATCAGTGTCAAGTTAACTTGTGACACCAACTCAATCAAATACATTAATA
TAGATAATATACAATTGATGAAGGTAATAAAGGGTGCATAATGAAAATTGAAATGTACAAAAAGA
TCAAAACAAAGTTTTAGTTGAGTGGTAAATTAAATGTTTTACTAAAGTAATTGGTCCGGGTTGGT
G
Found at i:15368624 original size:23 final size:24
Alignment explanation
Indices: 15368585--15368634 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
15368575 TAAAAACATT
* *
15368585 TTATATTAATATTAAATAAAATAA
1 TTATATCAATATTAAATAAAAAAA
15368609 TTATATCAAT-TTAAATAAAAAAA
1 TTATATCAATATTAAATAAAAAAA
15368632 TTA
1 TTA
15368635 CGTCTCCGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
TTATATCAATATTAAATAAAAAAA
Found at i:15378244 original size:37 final size:36
Alignment explanation
Indices: 15378170--15378278 Score: 121
Period size: 37 Copynumber: 2.9 Consensus size: 36
15378160 TTTTCTGTTA
* **
15378170 GACTAGCTTTTTAGAGCCATTGGTGTGTTATTTGGTG
1 GACTAGC-TCTTAGAGCCATTGGTGTGTTATCAGGTG
15378207 GACTAGCTCTTCAGAGCCATTGGTGTGTTATCAGGTG
1 GACTAGCTCTT-AGAGCCATTGGTGTGTTATCAGGTG
* * *
15378244 GATTGGCTCTTACGAG-CATCTGGCGTGTTATCAGG
1 GACTAGCTCTTA-GAGCCAT-TGGTGTGTTATCAGG
15378279 GGTAGATTAG
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
36 7 0.11
37 56 0.89
ACGTcount: A:0.17, C:0.17, G:0.30, T:0.36
Consensus pattern (36 bp):
GACTAGCTCTTAGAGCCATTGGTGTGTTATCAGGTG
Found at i:15378300 original size:39 final size:35
Alignment explanation
Indices: 15378152--15378311 Score: 113
Period size: 37 Copynumber: 4.3 Consensus size: 35
15378142 ACTCCCTATT
* * * * *
15378152 TTGGCGTGTTTTCTGTTAGACTAGCTTTTTAGAGCCA
1 TTGGCGTGTTATCAGGTAGATTAGC-TCTTAGAG-CA
* ** * *
15378189 TTGGTGTGTTATTTGGTGGACTAGCTCTTCAGAGCCA
1 TTGGCGTGTTATCAGGTAGATTAGCTCTT-AGAG-CA
* * *
15378226 TTGGTGTGTTATCAGGTGGATTGGCTCTTACGAGCA
1 TTGGCGTGTTATCAGGTAGATTAGCTCTTA-GAGCA
15378262 TCTGGCGTGTTATCAGGGGTAGATTAGCTCTTATGAGCA
1 T-TGGCGTGTTATCA--GGTAGATTAGCTCTTA-GAGCA
15378301 TTTGGCGTGTT
1 -TTGGCGTGTT
15378312 TCGATTGGAA
Statistics
Matches: 103, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
36 7 0.07
37 67 0.65
39 28 0.27
40 1 0.01
ACGTcount: A:0.16, C:0.15, G:0.30, T:0.39
Consensus pattern (35 bp):
TTGGCGTGTTATCAGGTAGATTAGCTCTTAGAGCA
Found at i:15385868 original size:24 final size:24
Alignment explanation
Indices: 15385841--15385924 Score: 68
Period size: 24 Copynumber: 3.5 Consensus size: 24
15385831 ATTAAGAATG
15385841 TTATTAAATTATATATTATTATTT
1 TTATTAAATTATATATTATTATTT
* *
15385865 TTATTAAGTTATAT-TTAATAATAATT
1 TTATTAAATTATATATT-AT--TATTT
*
15385891 ATATTAAA--ATATGATTACTT-TTT
1 TTATTAAATTATAT-ATTA-TTATTT
15385914 TTATTAAATTA
1 TTATTAAATTA
15385925 AATTTAATAA
Statistics
Matches: 46, Mismatches: 6, Indels: 15
0.69 0.09 0.22
Matches are distributed among these distances:
23 11 0.24
24 20 0.43
25 2 0.04
26 13 0.28
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.56
Consensus pattern (24 bp):
TTATTAAATTATATATTATTATTT
Found at i:15386133 original size:16 final size:16
Alignment explanation
Indices: 15386112--15386146 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
15386102 TGAATTACTG
*
15386112 ATTACAGCTCTATTCC
1 ATTACAGCCCTATTCC
15386128 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCC
15386144 ATT
1 ATT
15386147 CCAATAAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.31, G:0.06, T:0.37
Consensus pattern (16 bp):
ATTACAGCCCTATTCC
Found at i:15388595 original size:17 final size:18
Alignment explanation
Indices: 15388570--15388606 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
15388560 TCTTTTAAAA
15388570 ATTATAAATATAT-AAATT
1 ATTATAAATAT-TGAAATT
15388588 ATTA-AAATATTGAAATT
1 ATTATAAATATTGAAATT
15388605 AT
1 AT
15388607 ATTTTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 1 0.06
17 13 0.72
18 4 0.22
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
ATTATAAATATTGAAATT
Found at i:15393610 original size:45 final size:44
Alignment explanation
Indices: 15393471--15393613 Score: 144
Period size: 45 Copynumber: 3.2 Consensus size: 44
15393461 AATCCAACAA
* * *
15393471 ATGGAATGGGCCTCTGGCTGTGGGTACACAACAAA-AATCTTGTAG
1 ATGGAAT-TGCCTCTGGCTGTGGATACACAACAAATAA-CTCGTAG
* * * * * *
15393516 ATGAAATATGCTTCTGGCTGTGGATTTCACAGCAAATAACCCGCAG
1 ATGGAAT-TGCCTCTGGCTGTGGA-TACACAACAAATAACTCGTAG
*
15393562 ATGGAATTCGCCTCTGGCCGTGGATACACAACAAATAACTCGTAG
1 ATGGAATT-GCCTCTGGCTGTGGATACACAACAAATAACTCGTAG
15393607 ATGGAAT
1 ATGGAAT
15393614 CAACCTTTGG
Statistics
Matches: 78, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
45 44 0.56
46 32 0.41
47 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (44 bp):
ATGGAATTGCCTCTGGCTGTGGATACACAACAAATAACTCGTAG
Found at i:15393635 original size:45 final size:45
Alignment explanation
Indices: 15393485--15393643 Score: 126
Period size: 45 Copynumber: 3.5 Consensus size: 45
15393475 AATGGGCCTC
* * **
15393485 TGGCTGTGGGTACACAACAAA-AATCTTGTAGATGAAAT-ATGCTT
1 TGGCTGTGGGTACACAACAAATAA-CTCGTAGATGGAATCAACCTT
* * * * * * *
15393529 CTGGCTGTGGATTTCACAGCAAATAACCCGCAGATGGAATTC-GCCTC
1 -TGGCTGTGG-GTACACAACAAATAACTCGTAGATGGAA-TCAACCTT
* *
15393576 TGGCCGTGGATACACAACAAATAACTCGTAGATGGAATCAACCTT
1 TGGCTGTGGGTACACAACAAATAACTCGTAGATGGAATCAACCTT
*
15393621 TGGTTGTGGGTACACAAACAAAT
1 TGGCTGTGGGTACAC-AACAAAT
15393644 TTTACAGATA
Statistics
Matches: 87, Mismatches: 21, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
44 2 0.02
45 47 0.54
46 33 0.38
47 5 0.06
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (45 bp):
TGGCTGTGGGTACACAACAAATAACTCGTAGATGGAATCAACCTT
Found at i:15403777 original size:86 final size:86
Alignment explanation
Indices: 15403672--15403834 Score: 227
Period size: 86 Copynumber: 1.9 Consensus size: 86
15403662 GTGGAAAAAT
*
15403672 GCCGCTATAGAACATGATTTTTAGCGACACTTCTCATAAAAACGCCGCTAAAGAACATGATCTTT
1 GCCGCTATAGAACATGATTTTTAGCGACACTTCTCATAAAAACGCCGCAAAAGAACATGATCTTT
15403737 AGTGGCGCTTTTCCTACAAAC
66 AGTGGCGCTTTTCCTACAAAC
* ** * ** * * *
15403758 GCCGCTATAGAACATGATTTTTAGCGGCGTTTTTTTTACAAACGCCGCAAAAGATCATGTTCTTT
1 GCCGCTATAGAACATGATTTTTAGCGACACTTCTCATAAAAACGCCGCAAAAGAACATGATCTTT
*
15403823 AGTGGCGTTTTT
66 AGTGGCGCTTTT
15403835 AGTAAAAGTG
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
86 66 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (86 bp):
GCCGCTATAGAACATGATTTTTAGCGACACTTCTCATAAAAACGCCGCAAAAGAACATGATCTTT
AGTGGCGCTTTTCCTACAAAC
Found at i:15403798 original size:43 final size:43
Alignment explanation
Indices: 15403672--15403834 Score: 166
Period size: 43 Copynumber: 3.8 Consensus size: 43
15403662 GTGGAAAAAT
* * * * *
15403672 GCCGCTATAGAACATGATTTTTAGCGACACTTCTCATAAAAAC
1 GCCGCTAAAGAACATGATTTTTAGCGGCGCTTTTCATACAAAC
* * *
15403715 GCCGCTAAAGAACATGATCTTTAGTGGCGCTTTTCCTACAAAC
1 GCCGCTAAAGAACATGATTTTTAGCGGCGCTTTTCATACAAAC
* * **
15403758 GCCGCTATAGAACATGATTTTTAGCGGCGTTTTTTTTACAAAC
1 GCCGCTAAAGAACATGATTTTTAGCGGCGCTTTTCATACAAAC
* * * *
15403801 GCCGCAAAAGATCATG-TTCTTTAGTGGCGTTTTT
1 GCCGCTAAAGAACATGATT-TTTAGCGGCGCTTTT
15403835 AGTAAAAGTG
Statistics
Matches: 101, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 2 0.02
43 99 0.98
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (43 bp):
GCCGCTAAAGAACATGATTTTTAGCGGCGCTTTTCATACAAAC
Found at i:15403874 original size:86 final size:83
Alignment explanation
Indices: 15403710--15403963 Score: 244
Period size: 86 Copynumber: 3.0 Consensus size: 83
15403700 ACTTCTCATA
* ** *
15403710 AAAACGCCGCTAAAGAACATGATCTTTAGTGGCGCTTTTCCTACAAA-CGCCGCTATAGAACATG
1 AAAACGCCGCTAAAGATCATG-TCTTTAGTGGCG-TTTTTGTA-AAAGCGCCGCTAAAGAACATG
* * **
15403774 ATT-TTTAGCGGCGTTTTTTTT
63 -TTCTATAGCGGCGTTTGTAAT
* * * *
15403795 ACAAACGCCGCAAAAGATCATGTTCTTTAGTGGCGTTTTTAGTAAAAGTGCAGCTAAAGATCATG
1 A-AAACGCCGCTAAAGATCATG-TCTTTAGTGGCGTTTTT-GTAAAAGCGCCGCTAAAGAACATG
*
15403860 TTCTATAGTGGCGTTTGTAAT
63 TTCTATAGCGGCGTTTGTAAT
** *
15403881 AAAA-GTACCGCTAAAGATCATGTCGTTTAACGGCGTTTGTTGTAAAAGCGCCGCTAAAGACCAT
1 AAAACG--CCGCTAAAGATCATGTC-TTTAGTGGCGTTT-TTGTAAAAGCGCCGCTAAAGAACAT
15403945 GTTCTATAGCGGCGTTTGT
62 GTTCTATAGCGGCGTTTGT
15403964 GGGAAAATGC
Statistics
Matches: 140, Mismatches: 21, Indels: 15
0.80 0.12 0.09
Matches are distributed among these distances:
84 1 0.01
85 15 0.11
86 122 0.87
87 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (83 bp):
AAAACGCCGCTAAAGATCATGTCTTTAGTGGCGTTTTTGTAAAAGCGCCGCTAAAGAACATGTTC
TATAGCGGCGTTTGTAAT
Found at i:15403962 original size:43 final size:43
Alignment explanation
Indices: 15403708--15403963 Score: 209
Period size: 43 Copynumber: 6.0 Consensus size: 43
15403698 ACACTTCTCA
* * * * **
15403708 TAAAAACGCCGCTAAAGAACATGATCTTTAGTGGCGCTTT-TCC
1 TAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCG-TTTGTTG
* * * *
15403751 TACAAA-CGCCGCTATAGAACATGATT-TTTAGCGGCGTTTTTTT
1 TA-AAAGCGCCGCTAAAGATCATG-TTCTTTAGCGGCGTTTGTTG
* *
15403794 TACAAA-CGCCGCAAAAGATCATGTTCTTTAGTGGCGTTT-TTAG
1 TA-AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTT-G
* * * * **
15403837 TAAAAGTGCAGCTAAAGATCATGTTCTATAGTGGCGTTTGTAA
1 TAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTTG
** *
15403880 TAAAAGTACCGCTAAAGATCATG-TCGTTTAACGGCGTTTGTTG
1 TAAAAGCGCCGCTAAAGATCATGTTC-TTTAGCGGCGTTTGTTG
* *
15403923 TAAAAGCGCCGCTAAAGACCATGTTCTATAGCGGCGTTTGT
1 TAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGT
15403964 GGGAAAATGC
Statistics
Matches: 176, Mismatches: 28, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
42 12 0.07
43 157 0.89
44 7 0.04
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (43 bp):
TAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTTG
Found at i:15404338 original size:66 final size:66
Alignment explanation
Indices: 15404255--15404385 Score: 165
Period size: 66 Copynumber: 2.0 Consensus size: 66
15404245 TTTGAATCTG
* * * *
15404255 TAGCTGGAGTTCGTCATATTTGC-TTGTTGCCTCTGCTTCCCTCGCTGCTACCTCCGCTTTAAGT
1 TAGCTGGAGTTCATCATATTTGCTTTG-AGCCTCTACTTCCCTCGATGCTACCTCCGCTTTAAGT
15404319 TT
65 TT
* * ** *
15404321 TAGCTGGAGTTCATCATATTTTCTTTGAGCCTTTACTTCTTTCGATGCTGCCTCCGCTTTAAGTT
1 TAGCTGGAGTTCATCATATTTGCTTTGAGCCTCTACTTCCCTCGATGCTACCTCCGCTTTAAGTT
15404386 GAGCAATTTA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
66 52 0.95
67 3 0.05
ACGTcount: A:0.13, C:0.26, G:0.18, T:0.43
Consensus pattern (66 bp):
TAGCTGGAGTTCATCATATTTGCTTTGAGCCTCTACTTCCCTCGATGCTACCTCCGCTTTAAGTT
T
Found at i:15408376 original size:27 final size:27
Alignment explanation
Indices: 15408345--15408565 Score: 246
Period size: 27 Copynumber: 8.2 Consensus size: 27
15408335 TTACACTGTT
*
15408345 ATGACCGAAATAGCCC-CATAGGGTAGA
1 ATGACCGAAATA-CCCTCATAGGGTAAA
*
15408372 ATGACTGAAATACCCTCATAGGGTAAA
1 ATGACCGAAATACCCTCATAGGGTAAA
* * *
15408399 ATGACCGAAATACCCCCATAAGATAAA
1 ATGACCGAAATACCCTCATAGGGTAAA
*
15408426 ATGACCGAAATACCCTCATAGGATAAA
1 ATGACCGAAATACCCTCATAGGGTAAA
* ** * *
15408453 ATAACTAAAATACCCTCACAGGGTAGA
1 ATGACCGAAATACCCTCATAGGGTAAA
* * *
15408480 ATGACTGAAATACCCCCATAAGGTAAA
1 ATGACCGAAATACCCTCATAGGGTAAA
* * * *
15408507 ATGACCGAAATACCCTCACAAGATAGA
1 ATGACCGAAATACCCTCATAGGGTAAA
* *
15408534 ATGATCGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCTCATAGGGTAAA
15408561 ATGAC
1 ATGAC
15408566 TGTCATATCC
Statistics
Matches: 161, Mismatches: 32, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 3 0.02
27 158 0.98
ACGTcount: A:0.43, C:0.23, G:0.17, T:0.18
Consensus pattern (27 bp):
ATGACCGAAATACCCTCATAGGGTAAA
Found at i:15408592 original size:81 final size:81
Alignment explanation
Indices: 15408345--15408567 Score: 315
Period size: 81 Copynumber: 2.8 Consensus size: 81
15408335 TTACACTGTT
* *
15408345 ATGACCGAAATAGCCC-CATAGGGTAGAATGACTGAAATACCCTCATAGGGTAAAATGACCGAAA
1 ATGACCGAAATA-CCCTCATAGGATAGAATGACTGAAATACCCTCATAGGGTAAAATGACTGAAA
15408409 TACCCCCATAAGATAAA
65 TACCCCCATAAGATAAA
* * * * *
15408426 ATGACCGAAATACCCTCATAGGATAAAATAACTAAAATACCCTCACAGGGTAGAATGACTGAAAT
1 ATGACCGAAATACCCTCATAGGATAGAATGACTGAAATACCCTCATAGGGTAAAATGACTGAAAT
*
15408491 ACCCCCATAAGGTAAA
66 ACCCCCATAAGATAAA
* * *
15408507 ATGACCGAAATACCCTCACAAGATAGAATGA-TCGAAATACCCCCATAGGGTAAAATGACTG
1 ATGACCGAAATACCCTCATAGGATAGAATGACT-GAAATACCCTCATAGGGTAAAATGACTG
15408568 TCATATCCCT
Statistics
Matches: 124, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
80 4 0.03
81 120 0.97
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.18
Consensus pattern (81 bp):
ATGACCGAAATACCCTCATAGGATAGAATGACTGAAATACCCTCATAGGGTAAAATGACTGAAAT
ACCCCCATAAGATAAA
Found at i:15417455 original size:42 final size:43
Alignment explanation
Indices: 15417391--15417536 Score: 131
Period size: 42 Copynumber: 3.5 Consensus size: 43
15417381 TGGATACATG
* * * *
15417391 CCCATGTCCTTGTCCGTGTGGCTTACACGGCCTAG-ACATACA
1 CCCATATCCTTGCCCGTGTGGCTTACACAGCCTAGAACACACA
* * * *
15417433 CTCATATCCTTGCCCGTATGGCTCACACAGCCT-GAACACACG
1 CCCATATCCTTGCCCGTGTGGCTTACACAGCCTAGAACACACA
* * *
15417475 CCCATACCCTTGCCCGTGTGG-TTCACACAGCCTAG-GCACACG
1 CCCATATCCTTGCCCGTGTGGCTT-ACACAGCCTAGAACACACA
* *
15417517 CCCATGTCCCTG-CCGTGTGG
1 CCCATATCCTTGCCCGTGTGG
15417537 TCCTAAATCA
Statistics
Matches: 85, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
41 10 0.12
42 74 0.87
43 1 0.01
ACGTcount: A:0.18, C:0.38, G:0.21, T:0.23
Consensus pattern (43 bp):
CCCATATCCTTGCCCGTGTGGCTTACACAGCCTAGAACACACA
Found at i:15417648 original size:61 final size:61
Alignment explanation
Indices: 15417565--15417697 Score: 239
Period size: 61 Copynumber: 2.2 Consensus size: 61
15417555 AAGTTACAAG
* * *
15417565 GCCTAGACACATGCCCGTGTCTGTTTCCTGTGTGAACCTTGTACTAACATGGCCACACACA
1 GCCTGGACACATGCCCGAGTCTGTTTCCTGTGTGAACCCTGTACTAACATGGCCACACACA
15417626 GCCTGGACACATGCCCGAGTCTGTTTCCTGTGTGAACCCTGTACTAACATGGCCACACACA
1 GCCTGGACACATGCCCGAGTCTGTTTCCTGTGTGAACCCTGTACTAACATGGCCACACACA
15417687 GCCTGGACACA
1 GCCTGGACACA
15417698 CGTCCGTGTC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 69 1.00
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.23
Consensus pattern (61 bp):
GCCTGGACACATGCCCGAGTCTGTTTCCTGTGTGAACCCTGTACTAACATGGCCACACACA
Found at i:15417720 original size:61 final size:61
Alignment explanation
Indices: 15417591--15417713 Score: 183
Period size: 61 Copynumber: 2.0 Consensus size: 61
15417581 GTGTCTGTTT
* * ** *
15417591 CCTGTGTGAACCTTGTACTAACATGGCCACACACAGCCTGGACACATGCCCGAGTCTGTTT
1 CCTGTGTGAACCCTGTACTAACATGGCCACACACAGCCTGGACACACGCCCGAGTCCCTTG
* *
15417652 CCTGTGTGAACCCTGTACTAACATGGCCACACACAGCCTGGACACACGTCCGTGTCCCTTG
1 CCTGTGTGAACCCTGTACTAACATGGCCACACACAGCCTGGACACACGCCCGAGTCCCTTG
15417713 C
1 C
15417714 TCGTGTGTTC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.22, C:0.34, G:0.21, T:0.23
Consensus pattern (61 bp):
CCTGTGTGAACCCTGTACTAACATGGCCACACACAGCCTGGACACACGCCCGAGTCCCTTG
Found at i:15422825 original size:61 final size:61
Alignment explanation
Indices: 15422730--15422852 Score: 210
Period size: 61 Copynumber: 2.0 Consensus size: 61
15422720 TGCATTGTAA
* * *
15422730 CACCCCATACCCGGCCTGGATGCCGGGGTGAATATCGAGATGCCGCACCATCGTCTCATGT
1 CACCCCATACCCGGCCTGGATGCCGGGCTGAATATCGAGATGCCACACCATCATCTCATGT
*
15422791 CACCCCATACCCGGCCTGGATGTCGGGCTGAATATCGAGATGCCACACCATCATCTCATGT
1 CACCCCATACCCGGCCTGGATGCCGGGCTGAATATCGAGATGCCACACCATCATCTCATGT
15422852 C
1 C
15422853 GACTTCATTG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.21, C:0.35, G:0.24, T:0.20
Consensus pattern (61 bp):
CACCCCATACCCGGCCTGGATGCCGGGCTGAATATCGAGATGCCACACCATCATCTCATGT
Found at i:15447483 original size:11 final size:11
Alignment explanation
Indices: 15447455--15447486 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
15447445 AAATCTATTT
*
15447455 TAAAATGTACA
1 TAAAATTTACA
15447466 TAAAATTTACA
1 TAAAATTTACA
15447477 TAAAATTTAC
1 TAAAATTTAC
15447487 TTTTAGCAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.34
Consensus pattern (11 bp):
TAAAATTTACA
Found at i:15452697 original size:72 final size:72
Alignment explanation
Indices: 15452580--15452723 Score: 270
Period size: 72 Copynumber: 2.0 Consensus size: 72
15452570 AAGCCAGGAG
15452580 AAAGTGAAATTCAGTGGTTTAACTATGGCAGAATAGAAGATGACTCATGCTTGACCACAAAAACA
1 AAAGTGAAATTCAGTGGTTTAACTATGGCAGAATAGAAGATGACTCATGCTTGACCACAAAAACA
15452645 AGTGGAA
66 AGTGGAA
* *
15452652 AAAGTGAAATTCAGTGGTTTAACTATGGTAGAATAGAAGATGACTCATGCTTGACCACAAAACCA
1 AAAGTGAAATTCAGTGGTTTAACTATGGCAGAATAGAAGATGACTCATGCTTGACCACAAAAACA
15452717 AGTGGAA
66 AGTGGAA
15452724 CTTGCCTGAT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (72 bp):
AAAGTGAAATTCAGTGGTTTAACTATGGCAGAATAGAAGATGACTCATGCTTGACCACAAAAACA
AGTGGAA
Found at i:15452921 original size:21 final size:21
Alignment explanation
Indices: 15452891--15452930 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
15452881 TGAAAATTTG
15452891 ATTTTGATTTTG-ATTCAATAA
1 ATTTTGA-TTTGAATTCAATAA
*
15452912 ATTTTTATTTGAATTCAAT
1 ATTTTGATTTGAATTCAAT
15452931 TATACACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTTTGATTTGAATTCAATAA
Found at i:15455363 original size:20 final size:20
Alignment explanation
Indices: 15455338--15455378 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
15455328 AGTCTTCCTT
15455338 AGTTCATTCTTAAAACCCTG
1 AGTTCATTCTTAAAACCCTG
15455358 AGTTCATTCTTAAAACCCTG
1 AGTTCATTCTTAAAACCCTG
15455378 A
1 A
15455379 TAAATAGCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.34
Consensus pattern (20 bp):
AGTTCATTCTTAAAACCCTG
Found at i:15459552 original size:20 final size:20
Alignment explanation
Indices: 15459527--15459566 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15459517 CGTAAAATGA
*
15459527 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
15459547 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
15459567 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:15459556 original size:34 final size:35
Alignment explanation
Indices: 15459512--15459578 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
15459502 CAGTAAAATA
*
15459512 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
15459546 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
15459579 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:15459582 original size:14 final size:15
Alignment explanation
Indices: 15459506--15459582 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
15459496 GATTGCCAGT
* *
15459506 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
15459520 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
15459534 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
15459554 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
15459569 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
15459583 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:15463995 original size:32 final size:32
Alignment explanation
Indices: 15463954--15464177 Score: 227
Period size: 32 Copynumber: 7.0 Consensus size: 32
15463944 ACTACGATGC
* * *
15463954 TACTGATGGCTTTGTGTCGATCATAGT-ACCGA
1 TACTGATGGCTTTGTGCCGATCATA-TCACTGT
* * * *
15463986 TACTGATGGCTTTATGCCAATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATCACTGT
* * * *
15464018 TACTGATGGCTATGTGCTGATCATTTCATTGT
1 TACTGATGGCTTTGTGCCGATCATATCACTGT
*
15464050 TACTGATGG-TTATGTCCCGATCATATCACTGT
1 TACTGATGGCTT-TGTGCCGATCATATCACTGT
* * *
15464082 TACTGATGGCTTTGTGTCGATCATGTTACTGT
1 TACTGATGGCTTTGTGCCGATCATATCACTGT
* * *
15464114 TATTGATGGCTATGTGCCGATCATATCACTGC
1 TACTGATGGCTTTGTGCCGATCATATCACTGT
* * *
15464146 TACTGATGGCTTTGTGCCAATCACATTACTGT
1 TACTGATGGCTTTGTGCCGATCATATCACTGT
15464178 ACTTATGACT
Statistics
Matches: 156, Mismatches: 33, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
31 2 0.01
32 152 0.97
33 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATCACTGT
Found at i:15464177 original size:96 final size:96
Alignment explanation
Indices: 15463951--15464177 Score: 276
Period size: 96 Copynumber: 2.4 Consensus size: 96
15463941 TTTACTACGA
* * * *
15463951 TGCTACTGATGGCTTTGTGTCGATCATAGTACCGATACTGATGGCTTTATGCCAATCATATTACC
1 TGCTACTGATGGCTTTGTGCCGATCATATTACTGTTACTGATGGCTTTATGCCAATCATATTACC
* * *
15464016 GTTACTGATGGCTATGTGCTGATCATTTCAT
66 GTTACTGATGGCTATGTGCCGATCATATCAC
* * * * * * *
15464047 TGTTACTGATGG-TTATGTCCCGATCATATCACTGTTACTGATGGCTTTGTGTCGATCATGTTAC
1 TGCTACTGATGGCTT-TGTGCCGATCATATTACTGTTACTGATGGCTTTATGCCAATCATATTAC
* *
15464111 TGTTATTGATGGCTATGTGCCGATCATATCAC
65 CGTTACTGATGGCTATGTGCCGATCATATCAC
* *
15464143 TGCTACTGATGGCTTTGTGCCAATCACATTACTGT
1 TGCTACTGATGGCTTTGTGCCGATCATATTACTGT
15464178 ACTTATGACT
Statistics
Matches: 108, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
95 2 0.02
96 104 0.96
97 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (96 bp):
TGCTACTGATGGCTTTGTGCCGATCATATTACTGTTACTGATGGCTTTATGCCAATCATATTACC
GTTACTGATGGCTATGTGCCGATCATATCAC
Found at i:15469865 original size:43 final size:43
Alignment explanation
Indices: 15469750--15469866 Score: 132
Period size: 43 Copynumber: 2.7 Consensus size: 43
15469740 AAGTGTTTCT
* * * *
15469750 ATGTAAGACCACGTCTGGGACGTTGGCATAGACTTGTGTTTTC
1 ATGTAAGACCACGTCTGGGACGTTGGCATTGACTAGTGATTAC
* *
15469793 GTGTAAGACC-CTGTTTGGGACAG-TGGCATTGA-TCAGTGATTAC
1 ATGTAAGACCAC-GTCTGGGAC-GTTGGCATTGACT-AGTGATTAC
15469836 ATGTAAGACCACGTCTGGGACGTTGGCATTG
1 ATGTAAGACCACGTCTGGGACGTTGGCATTG
15469867 TACGAGTTTC
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
42 3 0.05
43 56 0.92
44 2 0.03
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (43 bp):
ATGTAAGACCACGTCTGGGACGTTGGCATTGACTAGTGATTAC
Found at i:15470514 original size:41 final size:44
Alignment explanation
Indices: 15470469--15470566 Score: 157
Period size: 41 Copynumber: 2.3 Consensus size: 44
15470459 TAAGCCATAC
15470469 GAAAATGGCTTAATGTTCTTGTCTATGTTTGATG-T-TTTGTT-
1 GAAAATGGCTTAATGTTCTTGTCTATGTTTGATGTTCTTTGTTG
*
15470510 GAAAATGGCTTAATGTTCTTGTCTATGTTTGGTGTTCTTTGTTG
1 GAAAATGGCTTAATGTTCTTGTCTATGTTTGATGTTCTTTGTTG
*
15470554 GATAATGGCTTAA
1 GAAAATGGCTTAA
15470567 GTATATTTTA
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
41 33 0.63
42 1 0.02
43 6 0.12
44 12 0.23
ACGTcount: A:0.20, C:0.08, G:0.23, T:0.48
Consensus pattern (44 bp):
GAAAATGGCTTAATGTTCTTGTCTATGTTTGATGTTCTTTGTTG
Found at i:15470768 original size:2 final size:2
Alignment explanation
Indices: 15470761--15470798 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
15470751 TGTATAAGTG
15470761 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
15470799 TGGGTTATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15471060 original size:20 final size:20
Alignment explanation
Indices: 15471037--15471077 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
15471027 GTTGAATTTG
*
15471037 GTTTTATTA-AAATGAAGTTA
1 GTTTGATTACAAATGAA-TTA
15471057 GTTTGATTACAAATGAATTA
1 GTTTGATTACAAATGAATTA
15471077 G
1 G
15471078 AAAATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.39, C:0.02, G:0.17, T:0.41
Consensus pattern (20 bp):
GTTTGATTACAAATGAATTA
Found at i:15473311 original size:17 final size:18
Alignment explanation
Indices: 15473279--15473312 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
15473269 AATTTCTTTT
15473279 CAATTTATACCCTAATTC
1 CAATTTATACCCTAATTC
*
15473297 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
15473313 AACTCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (18 bp):
CAATTTATACCCTAATTC
Found at i:15473832 original size:8 final size:8
Alignment explanation
Indices: 15473797--15473849 Score: 61
Period size: 8 Copynumber: 6.1 Consensus size: 8
15473787 ATATATTAGT
15473797 TAATAATA
1 TAATAATA
*
15473805 TTATTAATAA
1 -TAATAAT-A
15473815 TAATACAATA
1 TAAT--AATA
15473825 TAATAATA
1 TAATAATA
15473833 TAATAATA
1 TAATAATA
15473841 TAATAATA
1 TAATAATA
15473849 T
1 T
15473850 TTAATTCATA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
8 21 0.54
9 9 0.23
10 6 0.15
11 3 0.08
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (8 bp):
TAATAATA
Found at i:15473996 original size:27 final size:26
Alignment explanation
Indices: 15473966--15474047 Score: 62
Period size: 25 Copynumber: 3.0 Consensus size: 26
15473956 TAATTTATTT
15473966 TATTTCATAATATAATAATATTAATAA
1 TATTT-ATAATATAATAATATTAATAA
* *
15473993 TATTTA-AATAGAA-AACCA-TAATAA
1 TATTTATAATATAATAA-TATTAATAA
*
15474017 TAATTAATAATTATAATAATAAATTAATAA
1 T-ATTTATAA-TATAATAAT--ATTAATAA
15474047 T
1 T
15474048 TAAATCTCTA
Statistics
Matches: 42, Mismatches: 5, Indels: 13
0.70 0.08 0.22
Matches are distributed among these distances:
24 9 0.21
25 11 0.26
26 3 0.07
27 9 0.21
28 2 0.05
29 1 0.02
30 7 0.17
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (26 bp):
TATTTATAATATAATAATATTAATAA
Found at i:15474026 original size:7 final size:7
Alignment explanation
Indices: 15474010--15474050 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
15474000 ATAGAAAACC
15474010 ATAA-TA
1 ATAATTA
15474016 ATAATTA
1 ATAATTA
15474023 ATAATT-
1 ATAATTA
15474029 ATAA-TA
1 ATAATTA
15474035 ATAAATTA
1 AT-AATTA
15474043 ATAATTA
1 ATAATTA
15474050 A
1 A
15474051 ATCTCTAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
5 1 0.03
6 10 0.32
7 16 0.52
8 4 0.13
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
ATAATTA
Found at i:15474043 original size:20 final size:19
Alignment explanation
Indices: 15474010--15474049 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
15474000 ATAGAAAACC
15474010 ATAATAATAATTAATAATT
1 ATAATAATAATTAATAATT
15474029 ATAATAATAAATTAATAATT
1 ATAATAAT-AATTAATAATT
15474049 A
1 A
15474050 AATCTCTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAATAATAATTAATAATT
Found at i:15478891 original size:24 final size:23
Alignment explanation
Indices: 15478842--15478891 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
15478832 ACATCATTTG
*
15478842 AATAACCAATTTTTATTTAGATT
1 AATAACCAATTTTTATTTAGAAT
15478865 AATAACCAATTTTTTCATTT-GAAT
1 AATAACCAA-TTTTT-ATTTAGAAT
15478889 AAT
1 AAT
15478892 TTCTATTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 9 0.38
24 11 0.46
25 4 0.17
ACGTcount: A:0.40, C:0.10, G:0.04, T:0.46
Consensus pattern (23 bp):
AATAACCAATTTTTATTTAGAAT
Found at i:15487631 original size:12 final size:13
Alignment explanation
Indices: 15487614--15487645 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
15487604 AGAGAAATAA
15487614 AATTTAAGTA-AG
1 AATTTAAGTAGAG
15487626 AATTTAA-TAGAG
1 AATTTAAGTAGAG
15487638 AATTTAAG
1 AATTTAAG
15487646 ATATTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 16 0.89
ACGTcount: A:0.50, C:0.00, G:0.16, T:0.34
Consensus pattern (13 bp):
AATTTAAGTAGAG
Found at i:15488121 original size:20 final size:20
Alignment explanation
Indices: 15488084--15488122 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
15488074 TTTTAGAGAA
*
15488084 TTAAAATTTACTTTTTAAAC
1 TTAAAATTTACTTATTAAAC
15488104 TTAAAATTT-CTTAATTAAA
1 TTAAAATTTACTT-ATTAAA
15488123 AATAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.49
Consensus pattern (20 bp):
TTAAAATTTACTTATTAAAC
Found at i:15496739 original size:2 final size:2
Alignment explanation
Indices: 15496732--15496776 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
15496722 TAGTATAAAG
15496732 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
15496774 AT A
1 AT A
15496777 AATGTATTCG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15497033 original size:41 final size:41
Alignment explanation
Indices: 15496988--15497164 Score: 268
Period size: 41 Copynumber: 4.3 Consensus size: 41
15496978 ATGAATCAAT
15496988 TCAGGCTTAAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
1 TCAGGCTTAAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
*
15497029 TCAGG-TTATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAA
1 TCAGGCTTA-AAGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
*
15497070 TCAGGCTTTAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
1 TCAGGCTTAAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
* *
15497111 TCAGGC-TATAAGCCTAGCAGGCTAGGTGCCGGTGATCTGAA
1 TCAGGCTTA-AAGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
* *
15497152 TCAGACTTTAAGC
1 TCAGGCTTAAAGC
15497165 TTAGTAGACT
Statistics
Matches: 124, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
40 4 0.03
41 117 0.94
42 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (41 bp):
TCAGGCTTAAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
Done.