Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 52 of 332
Found at i:15407560 original size:16 final size:15
Alignment explanation
Indices: 15407527--15407562 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
15407517 TTGTTTTTAA
*
15407527 TTTATTTTTATTATT
1 TTTATTTTTATTAGT
15407542 TTTATTTTCTATTAGT
1 TTTATTTT-TATTAGT
15407558 TTTAT
1 TTTAT
15407563 GTCTTTTACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (15 bp):
TTTATTTTTATTAGT
Found at i:15408011 original size:10 final size:10
Alignment explanation
Indices: 15407996--15408152 Score: 59
Period size: 9 Copynumber: 16.4 Consensus size: 10
15407986 GGCATGTGAC
15407996 AAAAAATTAT
1 AAAAAATTAT
15408006 AAAAAA-TA-
1 AAAAAATTAT
15408014 AAAATAA--AT
1 AAAA-AATTAT
*
15408023 -AAAAGTTAT
1 AAAAAATTAT
15408032 -AAAAATTAT
1 AAAAAATTAT
* **
15408041 TAAATTTTAAT
1 AAAAAATT-AT
15408052 AAAAATATT-T
1 AAAAA-ATTAT
*
15408062 -AAAATTTAT
1 AAAAAATTAT
** *
15408071 TGAAAATTAG
1 AAAAAATTAT
15408081 AAAAAA-TAT
1 AAAAAATTAT
*
15408090 -AAAAATCAT
1 AAAAAATTAT
15408099 AAAAAAATTAT
1 -AAAAAATTAT
*
15408110 AAAAAAACTAT
1 -AAAAAATTAT
**
15408121 AAAATTTTAT
1 AAAAAATTAT
* *
15408131 -AAAAAGTGT
1 AAAAAATTAT
15408140 -AAAAATTAT
1 AAAAAATTAT
15408149 AAAA
1 AAAA
15408153 TATATAGAAA
Statistics
Matches: 108, Mismatches: 26, Indels: 26
0.68 0.16 0.16
Matches are distributed among these distances:
7 1 0.01
8 15 0.14
9 35 0.32
10 32 0.30
11 23 0.21
12 2 0.02
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:15408033 original size:9 final size:9
Alignment explanation
Indices: 15407997--15408171 Score: 86
Period size: 10 Copynumber: 18.4 Consensus size: 9
15407987 GCATGTGACA
15407997 AAAAATTAT
1 AAAAATTAT
15408006 AAAAA--AT
1 AAAAATTAT
*
15408013 AAAAATAAAT
1 AAAAAT-TAT
*
15408023 AAAAGTTAT
1 AAAAATTAT
15408032 AAAAATTATT
1 AAAAATTA-T
**
15408042 AAATTTTAAT
1 AAAAATT-AT
*
15408052 AAAAATATTT
1 AAAAAT-TAT
*
15408062 AAAATTTATT
1 AAAAATTA-T
* *
15408072 GAAAATTAG
1 AAAAATTAT
*
15408081 AAAAAATAT
1 AAAAATTAT
*
15408090 AAAAATCATAA
1 AAAAAT--TAT
15408101 AAAAATTAT
1 AAAAATTAT
*
15408110 AAAAAAACTAT
1 --AAAAATTAT
*
15408121 AAAATTTTAT
1 AAAA-ATTAT
* *
15408131 AAAAAGTGT
1 AAAAATTAT
15408140 AAAAATTAT
1 AAAAATTAT
15408149 -AAAATATAT
1 AAAAAT-TAT
*
15408158 AGAAATATAT
1 AAAAAT-TAT
15408168 AAAA
1 AAAA
15408172 TTTTATAAAG
Statistics
Matches: 123, Mismatches: 29, Indels: 27
0.69 0.16 0.15
Matches are distributed among these distances:
7 7 0.06
8 5 0.04
9 44 0.36
10 49 0.40
11 18 0.15
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:15408124 original size:19 final size:20
Alignment explanation
Indices: 15408101--15408152 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
15408091 AAAATCATAA
15408101 AAAAATTATAAAAAAACTAT
1 AAAAATTATAAAAAAACTAT
* * * *
15408121 -AAAATTTTATAAAAAGTGT
1 AAAAATTATAAAAAAACTAT
15408140 AAAAATTATAAAA
1 AAAAATTATAAAA
15408153 TATATAGAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (20 bp):
AAAAATTATAAAAAAACTAT
Found at i:15408438 original size:10 final size:10
Alignment explanation
Indices: 15408425--15408571 Score: 84
Period size: 10 Copynumber: 15.4 Consensus size: 10
15408415 TTTTGATGCA
15408425 TTTTATAATT
1 TTTTATAATT
*
15408435 TTTTATGA-T
1 TTTTATAATT
**
15408444 TTTTATAAAA
1 TTTTATAATT
* *
15408454 TGTTACAAATTT
1 TTTTA-TAA-TT
15408466 TTTTATAATT
1 TTTTATAATT
*
15408476 TTTTCTAA--
1 TTTTATAATT
15408484 TTTTA-AATAT
1 TTTTATAAT-T
*
15408494 TTTTATATTT
1 TTTTATAATT
*
15408504 TTATTA-AAAT
1 TT-TTATAATT
15408514 TTTTATAATT
1 TTTTATAATT
15408524 TTTTAT--TT
1 TTTTATAATT
*
15408532 TTATTA-AA-A
1 TT-TTATAATT
15408541 TTTTATAA--
1 TTTTATAATT
15408549 TTTTATAA-T
1 TTTTATAATT
15408558 TTTTATAATT
1 TTTTATAATT
15408568 TTTT
1 TTTT
15408572 TGTCATATGT
Statistics
Matches: 106, Mismatches: 16, Indels: 30
0.70 0.11 0.20
Matches are distributed among these distances:
7 2 0.02
8 19 0.18
9 26 0.25
10 46 0.43
11 9 0.08
12 4 0.04
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (10 bp):
TTTTATAATT
Found at i:15408501 original size:8 final size:9
Alignment explanation
Indices: 15408465--15408570 Score: 87
Period size: 9 Copynumber: 11.6 Consensus size: 9
15408455 GTTACAAATT
15408465 TTTTTATAA
1 TTTTTATAA
*
15408474 TTTTTTCTAA
1 -TTTTTATAA
*
15408484 -TTTTAAATA
1 TTTTTATA-A
15408493 TTTTTAT-A
1 TTTTTATAA
15408501 TTTTTATTAAAA
1 TTTTTA-T--AA
15408513 TTTTTATAA
1 TTTTTATAA
15408522 TTTTT-T-A
1 TTTTTATAA
15408529 TTTTTATTAAA
1 TTTTTA-T-AA
*
15408540 ATTTTATAA
1 TTTTTATAA
15408549 -TTTTATAA
1 TTTTTATAA
15408557 TTTTTATAA
1 TTTTTATAA
15408566 TTTTT
1 TTTTT
15408571 TTGTCATATG
Statistics
Matches: 80, Mismatches: 5, Indels: 23
0.74 0.05 0.21
Matches are distributed among these distances:
7 6 0.08
8 21 0.26
9 25 0.31
10 14 0.17
11 7 0.09
12 7 0.09
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTTTATAA
Found at i:15408515 original size:20 final size:22
Alignment explanation
Indices: 15408486--15408526 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
15408476 TTTTCTAATT
15408486 TTAAATATTTTTAT-ATTTTTA
1 TTAAATATTTTTATAATTTTTA
15408507 TTAAA-ATTTTTATAATTTTT
1 TTAAATATTTTTATAATTTTT
15408527 TATTTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
TTAAATATTTTTATAATTTTTA
Found at i:15408525 original size:28 final size:27
Alignment explanation
Indices: 15408494--15408563 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 27
15408484 TTTTAAATAT
15408494 TTTTATATTTTTATTAAAATTTTTATAA
1 TTTTATATTTTTATTAAAA-TTTTATAA
*
15408522 TTTTTTATTTTTATTAAAATTTTATAA
1 TTTTATATTTTTATTAAAATTTTATAA
15408549 TTTTATAATTTTTAT
1 TTTTAT-ATTTTTAT
15408564 AATTTTTTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 13 0.33
28 26 0.67
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTTATATTTTTATTAAAATTTTATAA
Found at i:15408572 original size:28 final size:28
Alignment explanation
Indices: 15408466--15408571 Score: 105
Period size: 28 Copynumber: 3.9 Consensus size: 28
15408456 TTACAAATTT
* *
15408466 TTTTATAATTTTT-TCT-AATTTTAAATAT
1 TTTTATAATTTTTAT-TAAATTTT-TATAA
15408494 TTTTAT-ATTTTTATTAAAATTTTTATAA
1 TTTTATAATTTTTATT-AAATTTTTATAA
* *
15408522 TTTT-TTATTTTTATTAAAATTTTATAA
1 TTTTATAATTTTTATTAAATTTTTATAA
*
15408549 TTTTATAATTTTTA-TAATTTTTT
1 TTTTATAATTTTTATTAAATTTTT
15408572 TGTCATATGT
Statistics
Matches: 67, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
27 30 0.45
28 31 0.46
29 6 0.09
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (28 bp):
TTTTATAATTTTTATTAAATTTTTATAA
Found at i:15409589 original size:6 final size:6
Alignment explanation
Indices: 15409542--15409573 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
15409532 AATAGTCCTT
15409542 TACAGA TACAGA TACAGA TACAGA TACAGA TA
1 TACAGA TACAGA TACAGA TACAGA TACAGA TA
15409574 AACAGAACAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.19
Consensus pattern (6 bp):
TACAGA
Found at i:15409815 original size:13 final size:13
Alignment explanation
Indices: 15409781--15409825 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
15409771 ATCCCACCCC
*
15409781 AAATACAGATATAA
1 AAATACAGATA-CA
15409795 AAATACAGATACA
1 AAATACAGATACA
*
15409808 ATATACAGATACA
1 AAATACAGATACA
*
15409821 GAATA
1 AAATA
15409826 ACATATTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.60, C:0.11, G:0.09, T:0.20
Consensus pattern (13 bp):
AAATACAGATACA
Found at i:15409819 original size:19 final size:20
Alignment explanation
Indices: 15409783--15409822 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
15409773 CCCACCCCAA
15409783 ATACAGATATAAAAATACAG
1 ATACAGATATAAAAATACAG
* *
15409803 ATACA-ATATACAGATACAG
1 ATACAGATATAAAAATACAG
15409822 A
1 A
15409823 ATAACATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.57, C:0.12, G:0.10, T:0.20
Consensus pattern (20 bp):
ATACAGATATAAAAATACAG
Found at i:15415853 original size:28 final size:28
Alignment explanation
Indices: 15415822--15415920 Score: 92
Period size: 28 Copynumber: 3.5 Consensus size: 28
15415812 CTGACCGATC
*
15415822 TCGCACACATATTGCTCGGTTAAAGAAT
1 TCGCACACATAGTGCTCGGTTAAAGAAT
* * * ** * **
15415850 TCGCATACACAGTGCCCACTGACTG-AT
1 TCGCACACATAGTGCTCGGTTAAAGAAT
15415877 CTCGCACACATAGTGCTCGGTTAAAGAAT
1 -TCGCACACATAGTGCTCGGTTAAAGAAT
*
15415906 TCGCACACACAGTGC
1 TCGCACACATAGTGC
15415921 CTTAATTCAT
Statistics
Matches: 51, Mismatches: 18, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
27 2 0.04
28 47 0.92
29 2 0.04
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGGTTAAAGAAT
Found at i:15415886 original size:56 final size:56
Alignment explanation
Indices: 15415799--15415921 Score: 219
Period size: 56 Copynumber: 2.2 Consensus size: 56
15415789 GAAATCCGCC
*
15415799 CACACAGTGCCCACTGACCGATCTCGCACACATATTGCTCGGTTAAAGAATTCGCA
1 CACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATTCGCA
* *
15415855 TACACAGTGCCCACTGACTGATCTCGCACACATAGTGCTCGGTTAAAGAATTCGCA
1 CACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATTCGCA
15415911 CACACAGTGCC
1 CACACAGTGCC
15415922 TTAATTCATT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (56 bp):
CACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATTCGCA
Found at i:15415932 original size:25 final size:25
Alignment explanation
Indices: 15415904--15415958 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
15415894 CGGTTAAAGA
15415904 ATTCGCACACACAGTGCCT-TAATTC
1 ATTCGCACACACAGTGCCTAT-ATTC
* * *
15415929 ATTCTCACTCATAGTGCCTATATTC
1 ATTCGCACACACAGTGCCTATATTC
15415954 ATTCG
1 ATTCG
15415959 TTATTACACA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 24 0.96
26 1 0.04
ACGTcount: A:0.25, C:0.29, G:0.11, T:0.35
Consensus pattern (25 bp):
ATTCGCACACACAGTGCCTATATTC
Found at i:15416138 original size:43 final size:42
Alignment explanation
Indices: 15416077--15416219 Score: 178
Period size: 43 Copynumber: 3.3 Consensus size: 42
15416067 CTTTGCTCGA
** *
15416077 ATCACCGGCATTAAGCCTGCTAGGCACGAAGACCTAAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAG-CCTGAATACAC
* *
15416120 ATCACCGGCACGAAGCCTGCTAGGAACGAAGGCTCGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGCCT-GAATACAC
* * * *
15416163 ATCACCAGCACAAAGCCTGCTAGGCATGAAGGCCTGATTACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAA-GCCTGAATACAC
15416206 ATCACCGGCACGAA
1 ATCACCGGCACGAA
15416220 TGCACTTCAG
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 2 0.02
43 80 0.94
44 3 0.04
ACGTcount: A:0.34, C:0.31, G:0.22, T:0.14
Consensus pattern (42 bp):
ATCACCGGCACGAAGCCTGCTAGGCACGAAGCCTGAATACAC
Found at i:15416268 original size:40 final size:40
Alignment explanation
Indices: 15416208--15416409 Score: 332
Period size: 40 Copynumber: 5.0 Consensus size: 40
15416198 GATTACACAT
* * *
15416208 CACCGGCACGAATGCACTTCAGGACTTAGCCCGGATGTAA
1 CACCAGCACGAATGCTCTTCAGGACTTAGCCCGGATATAA
* * *
15416248 CACTAGCACGAATGCTCTTCAAGACTTAGCCCAGATATAA
1 CACCAGCACGAATGCTCTTCAGGACTTAGCCCGGATATAA
*
15416288 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCAGGACTTAGCCCGGATATAA
15416328 CACCAGCACGAATGCTCTTCAGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCAGGACTTAGCCCGGATATAA
15416368 CACCAGCACGAATGCTCTTCAGGACTTAGCCCGAGATATAA
1 CACCAGCACGAATGCTCTTCAGGACTTAGCCCG-GATATAA
15416409 C
1 C
15416410 TCTCATTTCT
Statistics
Matches: 150, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
40 142 0.95
41 8 0.05
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCAGGACTTAGCCCGGATATAA
Found at i:15428247 original size:5 final size:5
Alignment explanation
Indices: 15428239--15428285 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
15428229 GTCATTATAT
*
15428239 TAATA TAATA TAATTT TAATA TAATA TAATA -ATATAA TAATA TAATA
1 TAATA TAATA TAA-TA TAATA TAATA TAATA TA-AT-A TAATA TAATA
15428286 ATATGATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
4 1 0.03
5 27 0.75
6 7 0.19
7 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TAATA
Found at i:15428259 original size:16 final size:16
Alignment explanation
Indices: 15428238--15428268 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
15428228 TGTCATTATA
15428238 TTAATATAATATAATT
1 TTAATATAATATAATT
15428254 TTAATATAATATAAT
1 TTAATATAATATAAT
15428269 AATATAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAATATAATATAATT
Found at i:15428278 original size:16 final size:16
Alignment explanation
Indices: 15428259--15428289 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
15428249 TAATTTTAAT
15428259 ATAATATAATAATATA
1 ATAATATAATAATATA
15428275 ATAATATAATAATAT
1 ATAATATAATAATAT
15428290 GATATTTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATAATATAATAATATA
Found at i:15428294 original size:13 final size:13
Alignment explanation
Indices: 15428234--15428285 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
15428224 TTTATGTCAT
*
15428234 TATATTAATATAA
1 TATAATAATATAA
*
15428247 TATAAT--TTTAA
1 TATAATAATATAA
15428258 TATAAT-ATAATAA
1 TATAATAAT-ATAA
15428271 TATAATAATATAA
1 TATAATAATATAA
15428284 TA
1 TA
15428286 ATATGATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
11 10 0.30
12 1 0.03
13 20 0.61
14 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TATAATAATATAA
Found at i:15433076 original size:20 final size:21
Alignment explanation
Indices: 15433033--15433078 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
15433023 ACTGTTTTGT
15433033 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
15433053 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
15433072 TATGGGC
1 TATGGGC
15433079 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:15435464 original size:20 final size:20
Alignment explanation
Indices: 15435425--15435475 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
15435415 CGTGTTTGCT
* *
15435425 TTCCGTTTAGCTCTTATGAGC
1 TTCCG-TTAACTCATATGAGC
*
15435446 TTCCGTTAACTCATATGAGT
1 TTCCGTTAACTCATATGAGC
*
15435466 TTCAGTTAAC
1 TTCCGTTAAC
15435476 CCCTTTGGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.41
Consensus pattern (20 bp):
TTCCGTTAACTCATATGAGC
Found at i:15435552 original size:39 final size:39
Alignment explanation
Indices: 15435506--15435645 Score: 199
Period size: 39 Copynumber: 3.6 Consensus size: 39
15435496 GCTCTGATGA
*
15435506 GCTTCAGTTAGCCTTTGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* * *
15435545 GCTTCAGTAAGCCTTCGGGCTTCTGTTTAACACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* *
15435584 GCCTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* * *
15435623 GCTTCAGCTAGACTTTGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
15435646 AGATTACGAT
Statistics
Matches: 88, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 88 1.00
ACGTcount: A:0.13, C:0.25, G:0.24, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
Found at i:15440473 original size:43 final size:43
Alignment explanation
Indices: 15440425--15440592 Score: 198
Period size: 43 Copynumber: 3.9 Consensus size: 43
15440415 TACCGAGATA
*
15440425 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTG
1 TGATTACATGTAAGACCATATCTGGGACATTGGCATTGTATTG
* *
15440468 TGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTTATT-
1 TGATTACATGTAAGACCATATCTGGGACATTGGCATTG-TATTG
* * * * * *
15440511 CGATTTCGTGTAAGACCCTATCTGGGACAGTGGCATCG-ATATG
1 TGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT-TG
* *
15440554 TGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTA
1 TGATTACATGTAAGACCATATCTGGGACATTGGCATTGTA
15440593 CGAGTTTTAT
Statistics
Matches: 107, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
41 2 0.02
42 8 0.07
43 93 0.87
44 4 0.04
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (43 bp):
TGATTACATGTAAGACCATATCTGGGACATTGGCATTGTATTG
Found at i:15440578 original size:86 final size:85
Alignment explanation
Indices: 15440433--15440591 Score: 221
Period size: 86 Copynumber: 1.9 Consensus size: 85
15440423 TATGATTACA
* * * * * *
15440433 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTACGTGTAAGACCATGTCTGGGACAT
1 TGTAAGACCATATCTGGGACAGTGGCATCGTATTGTGATAACATGTAAGACCATATCTGGGACA-
15440498 TGGCATTGTTATTCGATTTCG
65 TGGCATTGTTATTCGATTTCG
* *
15440519 TGTAAGACCCTATCTGGGACAGTGGCATCG-ATATGTGATAACATGTAAGACCATATCTGGGATA
1 TGTAAGACCATATCTGGGACAGTGGCATCGTAT-TGTGATAACATGTAAGACCATATCTGGGACA
15440583 TGGCATTGT
65 TGGCATTGT
15440592 ACGAGTTTTA
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
85 11 0.17
86 53 0.83
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (85 bp):
TGTAAGACCATATCTGGGACAGTGGCATCGTATTGTGATAACATGTAAGACCATATCTGGGACAT
GGCATTGTTATTCGATTTCG
Found at i:15452693 original size:43 final size:43
Alignment explanation
Indices: 15452597--15452789 Score: 210
Period size: 43 Copynumber: 4.5 Consensus size: 43
15452587 TATACCATAT
* * * * *
15452597 ATGGTCTTACATGTTATCA-TATATCGATGCCACTGTCCCAGAC
1 ATGGTCTTACACGTAATCACAATA-CAATGCCAATGTCCCAGAC
* * * ** * *
15452640 AAGATTTTACACAAAATCA-TATAACAATACCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACAAT-ACAATGCCAATGTCCCAGAC
* *
15452683 ATGGTCTTACACGTAATCACAATACAATGCCAATATCCCAGAT
1 ATGGTCTTACACGTAATCACAATACAATGCCAATGTCCCAGAC
15452726 ATGGTCTTACACGTAATCACAATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACAATACAATGCCAATGTCCCAGAC
* *
15452769 ATGGTCTTTCATGTAATCACA
1 ATGGTCTTACACGTAATCACA
15452790 TTTCGATATC
Statistics
Matches: 125, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
43 122 0.98
44 3 0.02
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACAATACAATGCCAATGTCCCAGAC
Found at i:15453094 original size:21 final size:20
Alignment explanation
Indices: 15453070--15453115 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
15453060 TATATATATT
* *
15453070 CAAAATTAATCCATTTAATC
1 CAAAATCAATCAATTTAATC
*
15453090 ACAAAATCAATCAATTTCATC
1 -CAAAATCAATCAATTTAATC
15453111 CAAAA
1 CAAAA
15453116 CACACAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (20 bp):
CAAAATCAATCAATTTAATC
Found at i:15455138 original size:22 final size:22
Alignment explanation
Indices: 15455110--15455153 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
15455100 AATTTGGTTT
15455110 GATGAAACCTTAATGATAAGTG
1 GATGAAACCTTAATGATAAGTG
15455132 GATGAAACCTTAATGATAAGTG
1 GATGAAACCTTAATGATAAGTG
15455154 AATTGGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.27
Consensus pattern (22 bp):
GATGAAACCTTAATGATAAGTG
Found at i:15460423 original size:17 final size:17
Alignment explanation
Indices: 15460403--15460451 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
15460393 TAATACTTCA
15460403 TAAATATATATACATAC
1 TAAATATATATACATAC
* *
15460420 TAAA-A-ATATACGTAA
1 TAAATATATATACATAC
15460435 T-AATAATATATACATAC
1 TAAAT-ATATATACATAC
15460452 AAAGTACACT
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
14 2 0.08
15 9 0.36
16 2 0.08
17 12 0.48
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (17 bp):
TAAATATATATACATAC
Found at i:15460430 original size:15 final size:17
Alignment explanation
Indices: 15460408--15460451 Score: 56
Period size: 15 Copynumber: 2.7 Consensus size: 17
15460398 CTTCATAAAT
15460408 ATATATACATACTAA-A
1 ATATATACATACTAATA
* *
15460424 A-ATATACGTAATAATA
1 ATATATACATACTAATA
15460440 ATATATACATAC
1 ATATATACATAC
15460452 AAAGTACACT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
15 11 0.50
16 3 0.14
17 8 0.36
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.32
Consensus pattern (17 bp):
ATATATACATACTAATA
Found at i:15460512 original size:16 final size:18
Alignment explanation
Indices: 15460472--15460518 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
15460462 AATATTTAAA
* *
15460472 AATAATAATAGTAAATAT
1 AATATTAATATTAAATAT
15460490 AATATTAATATTAAATA-
1 AATATTAATATTAAATAT
15460507 AA-ATTAATATTA
1 AATATTAATATTA
15460519 CAAATTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 10 0.37
17 2 0.07
18 15 0.56
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
AATATTAATATTAAATAT
Found at i:15462696 original size:89 final size:88
Alignment explanation
Indices: 15462324--15462737 Score: 457
Period size: 89 Copynumber: 4.6 Consensus size: 88
15462314 GTGAGCCAAA
* * * * *
15462324 GCTCAACTCACCTCTCGCCATATGAGTTGGTCTTTTTGAAACTTAATTTGAAAAGT--AGATTTT
1 GCTCAACTCACTTCTCGCAATATGAGTT-G-ATTTTTGAAACATAAATTGAAAA-TAAAGATTTT
* **
15462387 GAAAATACC-CTGTCATGTGACCCGAG
63 GAAAATACCTC-GACATGTGGTCCGAG
* * * * *
15462413 GCCCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATACAAATTGAAAAAAAAAGGA-A
1 GCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTGAAACAT--AAATTG-AAAATAAA-GATT
15462477 TTGAAAACT-CCTC-AGCATGTGAG-CCGAG
61 TTGAAAA-TACCTCGA-CATGTG-GTCCGAG
* * *
15462505 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTTGAAAA-AAAAAATTT
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG--AAACATAAA-TTGAAAATAAAGATTTT
*
15462569 GAAAATACCTCGACATGTGGTTCGAG
63 GAAAATACCTCGACATGTGGTCCGAG
15462595 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAAATAACAGATTTTGA
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAAATAA-AGATTTTGA
*
15462660 AAATACCTCGACATGTGGTTCGAG
65 AAATACCTCGACATGTGGTCCGAG
*
15462684 GCTTAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAAATA
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAAATA
15462738 CCTCAACGTG
Statistics
Matches: 284, Mismatches: 21, Indels: 40
0.82 0.06 0.12
Matches are distributed among these distances:
87 7 0.02
88 21 0.07
89 113 0.40
90 65 0.23
91 18 0.06
92 52 0.18
93 8 0.03
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (88 bp):
GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAAATAAAGATTTTGAA
AATACCTCGACATGTGGTCCGAG
Found at i:15462765 original size:71 final size:73
Alignment explanation
Indices: 15462656--15462789 Score: 209
Period size: 71 Copynumber: 1.9 Consensus size: 73
15462646 ATAACAGATT
* * * *
15462656 TTGAAAATACCTCGACATGTGGTTCGAGGCTTAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 TTGAAAATACCTCAACATGTGCTTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
15462721 AACATAAA
66 AACATAAA
*
15462729 TTGAAAATACCTCAACGTGT-CTT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 TTGAAAATACCTCAACATGTGCTTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
15462790 TTTTTGAAAC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
71 36 0.64
72 2 0.04
73 18 0.32
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (73 bp):
TTGAAAATACCTCAACATGTGCTTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
AACATAAA
Found at i:15475774 original size:17 final size:17
Alignment explanation
Indices: 15475754--15475802 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
15475744 TAATACTTCA
15475754 TAAATATATATACATAC
1 TAAATATATATACATAC
*
15475771 TAAA-A-ATATACATAA
1 TAAATATATATACATAC
15475786 T-AATAATATATACATAC
1 TAAAT-ATATATACATAC
15475803 AAAGTACACT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 2 0.07
15 10 0.37
16 2 0.07
17 13 0.48
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAATATATATACATAC
Found at i:15475781 original size:15 final size:17
Alignment explanation
Indices: 15475759--15475802 Score: 65
Period size: 15 Copynumber: 2.7 Consensus size: 17
15475749 CTTCATAAAT
15475759 ATATATACATACTAA-A
1 ATATATACATACTAATA
*
15475775 A-ATATACATAATAATA
1 ATATATACATACTAATA
15475791 ATATATACATAC
1 ATATATACATAC
15475803 AAAGTACACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 12 0.50
16 3 0.12
17 9 0.38
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (17 bp):
ATATATACATACTAATA
Found at i:15475863 original size:16 final size:18
Alignment explanation
Indices: 15475823--15475869 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
15475813 AATATTTAAA
* *
15475823 AATAATAATAGTAAATAT
1 AATATTAATATTAAATAT
15475841 AATATTAATATTAAATA-
1 AATATTAATATTAAATAT
15475858 AA-ATTAATATTA
1 AATATTAATATTA
15475870 CAAATTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 10 0.37
17 2 0.07
18 15 0.56
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
AATATTAATATTAAATAT
Found at i:15479573 original size:40 final size:40
Alignment explanation
Indices: 15479475--15479737 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
15479465 TCCTCGTTCA
* * * * *
15479475 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
15479514 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
15479554 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
15479594 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
15479634 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
15479674 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
15479714 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
15479738 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:15487527 original size:40 final size:40
Alignment explanation
Indices: 15487429--15487691 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
15487419 TCCTCGTTCA
* * * * *
15487429 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
15487468 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
15487508 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
15487548 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
15487588 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
15487628 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
15487668 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
15487692 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:15496224 original size:27 final size:27
Alignment explanation
Indices: 15496186--15496239 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
15496176 TAATTTAGTC
15496186 CACGTGATACTCTTTGGACCTTTTCAT
1 CACGTGATACTCTTTGGACCTTTTCAT
15496213 CACGTGATACTCTTTGGACCTTTTCAT
1 CACGTGATACTCTTTGGACCTTTTCAT
15496240 TATCCTAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.19, C:0.26, G:0.15, T:0.41
Consensus pattern (27 bp):
CACGTGATACTCTTTGGACCTTTTCAT
Found at i:15496874 original size:17 final size:17
Alignment explanation
Indices: 15496843--15496876 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15496833 CTATTGAACT
*
15496843 GTATCCACTAGTGGATG
1 GTATCCACCAGTGGATG
*
15496860 GTATCCACCATTGGATG
1 GTATCCACCAGTGGATG
15496877 TTTCGAAATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (17 bp):
GTATCCACCAGTGGATG
Found at i:15504516 original size:15 final size:15
Alignment explanation
Indices: 15504498--15504527 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15504488 TATATTAACA
15504498 TTGAACATATGTATT
1 TTGAACATATGTATT
*
15504513 TTGAATATATGTATT
1 TTGAACATATGTATT
15504528 CTAAACAAGG
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:0.33, C:0.03, G:0.13, T:0.50
Consensus pattern (15 bp):
TTGAACATATGTATT
Found at i:15509891 original size:22 final size:22
Alignment explanation
Indices: 15509862--15509927 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
15509852 TGCTCTAATG
*
15509862 AACAGAGAGCACTAAAGTGCTA
1 AACAGAGAGCACTAATGTGCTA
* *
15509884 TACAGAGAGCACGAATGTGCTA
1 AACAGAGAGCACTAATGTGCTA
*
15509906 AACAAAGAGCACTAATGTGCTA
1 AACAGAGAGCACTAATGTGCTA
15509928 GTAATCGGTG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.17
Consensus pattern (22 bp):
AACAGAGAGCACTAATGTGCTA
Found at i:15518081 original size:18 final size:17
Alignment explanation
Indices: 15518050--15518093 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
15518040 CAAATGGGTC
15518050 GTGTGGGCCACACGGGA
1 GTGTGGGCCACACGGGA
*
15518067 GTGTGGGCGCACACGGGT
1 GTGTGGGC-CACACGGGA
*
15518085 GTGTAGGCC
1 GTGTGGGCC
15518094 CACATGGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.14, C:0.23, G:0.48, T:0.16
Consensus pattern (17 bp):
GTGTGGGCCACACGGGA
Found at i:15518097 original size:18 final size:18
Alignment explanation
Indices: 15518057--15518103 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
15518047 GTCGTGTGGG
* *
15518057 CCACACGGGAGTGTGGGC
1 CCACACGGGTGTGTAGGC
*
15518075 GCACACGGGTGTGTAGGC
1 CCACACGGGTGTGTAGGC
*
15518093 CCACATGGGTG
1 CCACACGGGTG
15518104 AACCAAACGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.17, C:0.26, G:0.43, T:0.15
Consensus pattern (18 bp):
CCACACGGGTGTGTAGGC
Found at i:15518625 original size:40 final size:40
Alignment explanation
Indices: 15518550--15518626 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
15518540 ATGGTACCTT
* *
15518550 TTGGTGTGTAGGGCTGGATGGGTTGACTATGTCCCCAAAC
1 TTGGTGTGCAGGGCTGGATGGGTTGACTATATCCCCAAAC
* * *
15518590 TTGGTGTGCAGGGTTGGATGGGTTGATTTTATCCCCA
1 TTGGTGTGCAGGGCTGGATGGGTTGACTATATCCCCA
15518627 CATAGTGTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.16, C:0.16, G:0.35, T:0.34
Consensus pattern (40 bp):
TTGGTGTGCAGGGCTGGATGGGTTGACTATATCCCCAAAC
Found at i:15519498 original size:25 final size:26
Alignment explanation
Indices: 15519468--15519518 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
15519458 AAGTAAATAT
*
15519468 AATATAATATATATTTTAA-GTTAAA
1 AATATAATAGATATTTTAATGTTAAA
*
15519493 AATATATTAGATATTTTAATGTTAAA
1 AATATAATAGATATTTTAATGTTAAA
15519519 CTGCCTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (26 bp):
AATATAATAGATATTTTAATGTTAAA
Found at i:15519499 original size:27 final size:26
Alignment explanation
Indices: 15519456--15519518 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 26
15519446 TACTTATTAA
* *
15519456 TTAAG-TAAATATAATATAATATATATT
1 TTAAGTTAAAAATAATAT--TAGATATT
15519483 TTAAGTTAAAAAT-ATATTAGATATT
1 TTAAGTTAAAAATAATATTAGATATT
15519508 TTAATGTTAAA
1 TTAA-GTTAAA
15519519 CTGCCTTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 11 0.34
26 6 0.19
27 9 0.28
28 6 0.19
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.44
Consensus pattern (26 bp):
TTAAGTTAAAAATAATATTAGATATT
Found at i:15523132 original size:25 final size:23
Alignment explanation
Indices: 15523053--15523142 Score: 96
Period size: 22 Copynumber: 4.0 Consensus size: 23
15523043 TGCACAAATG
* *
15523053 AACA-AGAACACTAAAGTGCTAT
1 AACAGAGAGCACTAATGTGCTAT
*
15523075 -ACAGAGAGCACGAATGTGCTA-
1 AACAGAGAGCACTAATGTGCTAT
*
15523096 AACAGAAAGCACTAATGTGCTAGT
1 AACAGAGAGCACTAATGTGCTA-T
*
15523120 AATCAGAGAGCACTAACGTGCTA
1 AA-CAGAGAGCACTAATGTGCTA
15523143 ATTATCAGAG
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
21 3 0.05
22 33 0.59
24 2 0.04
25 18 0.32
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.18
Consensus pattern (23 bp):
AACAGAGAGCACTAATGTGCTAT
Found at i:15523149 original size:25 final size:23
Alignment explanation
Indices: 15523061--15523154 Score: 93
Period size: 22 Copynumber: 4.0 Consensus size: 23
15523051 TGAACAAGAA
*
15523061 CACTAAAGTGCT-ATACAGAGAG
1 CACTAATGTGCTAATACAGAGAG
* *
15523083 CACGAATGTGCTAA-ACAGAAAG
1 CACTAATGTGCTAATACAGAGAG
*
15523105 CACTAATGTGCTAGTAATCAGAGAG
1 CACTAATGTGCTAAT-A-CAGAGAG
*
15523130 CACTAACGTGCTAATTATCAGAGAG
1 CACTAATGTGCTAA-TA-CAGAGAG
15523155 TGCGCTAGAG
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
22 29 0.49
23 1 0.02
24 1 0.02
25 27 0.46
26 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.20
Consensus pattern (23 bp):
CACTAATGTGCTAATACAGAGAG
Found at i:15523284 original size:8 final size:8
Alignment explanation
Indices: 15523271--15523298 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
15523261 ATCATATTTG
15523271 CACAATTC
1 CACAATTC
15523279 CACAATTC
1 CACAATTC
15523287 CACAATTC
1 CACAATTC
15523295 CACA
1 CACA
15523299 TATATTCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.21
Consensus pattern (8 bp):
CACAATTC
Found at i:15524111 original size:21 final size:20
Alignment explanation
Indices: 15524079--15524117 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
15524069 TTTCGATCTG
*
15524079 TTTCTTTCTTATTTATATTC
1 TTTCTTTCTTATATATATTC
*
15524099 TTTCTTTTGTTATATATAT
1 TTTC-TTTCTTATATATAT
15524118 ATATATATAA
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:0.18, C:0.10, G:0.03, T:0.69
Consensus pattern (20 bp):
TTTCTTTCTTATATATATTC
Found at i:15530487 original size:13 final size:13
Alignment explanation
Indices: 15530471--15530497 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15530461 AATTAATTCT
15530471 ATTAATTGATTTG
1 ATTAATTGATTTG
15530484 ATTAATTGATTTG
1 ATTAATTGATTTG
15530497 A
1 A
15530498 GTGTTTAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (13 bp):
ATTAATTGATTTG
Found at i:15530677 original size:21 final size:21
Alignment explanation
Indices: 15530633--15530678 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
15530623 ATTATTTAAC
*
15530633 TAAAACATTATTATAAATGAAT
1 TAAAACATTATTAT-AAGGAAT
15530655 TAAAACATCTATTAT-AGGAAT
1 TAAAACAT-TATTATAAGGAAT
15530676 TAA
1 TAA
15530679 TTAGTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 8 0.36
23 6 0.27
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.35
Consensus pattern (21 bp):
TAAAACATTATTATAAGGAAT
Found at i:15535410 original size:26 final size:26
Alignment explanation
Indices: 15535374--15535426 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
15535364 TATATGAGTG
15535374 TTGGTAGCCCAAATTAGGTCTTCATA
1 TTGGTAGCCCAAATTAGGTCTTCATA
15535400 TTGGTAGCCCAAATTAGGTCTTCATA
1 TTGGTAGCCCAAATTAGGTCTTCATA
15535426 T
1 T
15535427 AAAGTTGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (26 bp):
TTGGTAGCCCAAATTAGGTCTTCATA
Found at i:15548711 original size:17 final size:18
Alignment explanation
Indices: 15548684--15548717 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
15548674 CCCTCATCCT
*
15548684 CTAAGGGGAAATAAAAAG
1 CTAAGGGGAAAGAAAAAG
15548702 CTAA-GGGAAAGAAAAA
1 CTAAGGGGAAAGAAAAA
15548718 ATTGACTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.59, C:0.06, G:0.26, T:0.09
Consensus pattern (18 bp):
CTAAGGGGAAAGAAAAAG
Found at i:15550907 original size:20 final size:20
Alignment explanation
Indices: 15550882--15550920 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
15550872 CCACTCATGG
*
15550882 AATTTCAGATTTGATCAAAC
1 AATTTCAGATTTGAGCAAAC
15550902 AATTTCAGATTTGAGCAAA
1 AATTTCAGATTTGAGCAAA
15550921 ATTCTATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
AATTTCAGATTTGAGCAAAC
Found at i:15557156 original size:43 final size:41
Alignment explanation
Indices: 15557058--15557159 Score: 109
Period size: 41 Copynumber: 2.4 Consensus size: 41
15557048 ATGGTTATGA
* * *
15557058 GTAAGACCATGTCTGGGACATCGGCATCGTATTTGTTTCGT
1 GTAAGACCACGTCTGGGACATCGGCATCGTATGTGTTTCAT
* *
15557099 ATAAGACC-CTGTCTGGGACAAT-GGTATCGATATGTGATTTCAT
1 GTAAGACCAC-GTCTGGGAC-ATCGGCATCG-TATGTG-TTTCAT
15557142 GTAAGACCACGTCTGGGA
1 GTAAGACCACGTCTGGGA
15557160 TGTTGGCATT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
41 22 0.44
42 7 0.14
43 20 0.40
44 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (41 bp):
GTAAGACCACGTCTGGGACATCGGCATCGTATGTGTTTCAT
Found at i:15559239 original size:143 final size:143
Alignment explanation
Indices: 15559092--15559467 Score: 443
Period size: 143 Copynumber: 2.6 Consensus size: 143
15559082 GTGCGAAACG
* *
15559092 TAGGTCAGCGAGTTGTGTCGGAGTTTATCAGCTGGGAACATAGGTCTATGAGCTATTTCGGAGTT
1 TAGGTCAGCGAGTTGTGTCGGAGTTTATCAGCTGGGAACGTAGGTCCATGAGCTATTTCGGAGTT
* * * *
15559157 GCTAGCTTATA-TCAGCAAACTCAAAGAAT-TCAGGTTGTGAGCTTAACTTAGCTAACTTTTAAA
66 GCGAGCTTA-ACTCAACAAACTCAAAGAATCT-AGGTTGCGAGCTTAACTTAGCTAACCTTTAAA
15559220 CAGCAATTGGGAACA
129 CAGCAATTGGGAACA
* ** * * * *
15559235 TAGGTCCGCGAGTTGTGTTAGAGTTTATTAGCTGGGAATGTAGGTCCGTGAGCTATTTTGGAGTT
1 TAGGTCAGCGAGTTGTGTCGGAGTTTATCAGCTGGGAACGTAGGTCCATGAGCTATTTCGGAGTT
* *
15559300 GCGAGCTTAACTCAACAAACTCAAAGAATCTAGGTTGCGAGCTTAATTTAGCTAACCTTTGAACA
66 GCGAGCTTAACTCAACAAACTCAAAGAATCTAGGTTGCGAGCTTAACTTAGCTAACCTTTAAACA
* **
15559365 TCAATTGGGAATG
131 GCAATTGGGAACA
** * * * * **
15559378 TATTTCCA-TGAGTTGTGTGGGAGTTTATCAGTTGGGAACGTAGATCCATGAGCTATTTTAGAGT
1 TAGGT-CAGCGAGTTGTGTCGGAGTTTATCAGCTGGGAACGTAGGTCCATGAGCTATTTCGGAGT
* * *
15559442 TACGTGCTTAACTCAACTAACTCAAA
65 TGCGAGCTTAACTCAACAAACTCAAA
15559468 TAGATGGAGG
Statistics
Matches: 197, Mismatches: 33, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
142 1 0.01
143 194 0.98
144 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (143 bp):
TAGGTCAGCGAGTTGTGTCGGAGTTTATCAGCTGGGAACGTAGGTCCATGAGCTATTTCGGAGTT
GCGAGCTTAACTCAACAAACTCAAAGAATCTAGGTTGCGAGCTTAACTTAGCTAACCTTTAAACA
GCAATTGGGAACA
Found at i:15561821 original size:20 final size:20
Alignment explanation
Indices: 15561755--15561821 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
15561745 ATTTTGATAA
*
15561755 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
15561775 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
15561795 ACATGATATGTATGATAGGC
1 ACATGATATGTATGATATGC
15561815 ACATGAT
1 ACATGAT
15561822 GTGTTCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:15561898 original size:24 final size:24
Alignment explanation
Indices: 15561871--15562019 Score: 244
Period size: 24 Copynumber: 6.2 Consensus size: 24
15561861 GAGGAAGTGA
*
15561871 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
15561895 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
15561919 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
15561943 AAGAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
15561967 AAGAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
15561991 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
15562015 AAAAG
1 AAAAG
15562020 AGGTTAGGCC
Statistics
Matches: 117, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 117 1.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:15569559 original size:8 final size:8
Alignment explanation
Indices: 15569543--15569578 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
15569533 TTAAAGCACT
*
15569543 AAATACCG
1 AAATGCCG
*
15569551 AAAAGCCG
1 AAATGCCG
15569559 AAATGCCG
1 AAATGCCG
15569567 AAATGCCG
1 AAATGCCG
15569575 AAAT
1 AAAT
15569579 TCTGGCATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.11
Consensus pattern (8 bp):
AAATGCCG
Found at i:15570034 original size:25 final size:25
Alignment explanation
Indices: 15570002--15570049 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
15569992 TTATAACATG
* *
15570002 AAAATGACCGTTTTACCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
15570027 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
15570050 GTTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:15570152 original size:20 final size:20
Alignment explanation
Indices: 15570086--15570142 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
15570076 ATTTTGATAA
*
15570086 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
15570106 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
15570126 ACATGATATGTATGATA
1 ACATGATATGTATGATA
15570143 GGAAAATGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:15570317 original size:25 final size:24
Alignment explanation
Indices: 15570202--15570321 Score: 179
Period size: 24 Copynumber: 5.0 Consensus size: 24
15570192 GAGGAAGTGA
*
15570202 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
15570226 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
15570250 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
15570274 AAAAGGGCTTTTGTCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
15570298 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
15570322 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
24 77 0.88
25 11 0.12
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:15580037 original size:18 final size:18
Alignment explanation
Indices: 15580004--15580115 Score: 107
Period size: 18 Copynumber: 6.2 Consensus size: 18
15579994 AGTTTCATTT
* *
15580004 AGTAACATTCAATTATTC
1 AGTAACAATCATTTATTC
* *
15580022 AGTACCAATTATTTATTC
1 AGTAACAATCATTTATTC
* **
15580040 AGTAATAATCATTTGCTC
1 AGTAACAATCATTTATTC
* *
15580058 AGTAGCAATCAGTTATTC
1 AGTAACAATCATTTATTC
*
15580076 AGTAACGATCATTTATTC
1 AGTAACAATCATTTATTC
* * *
15580094 AGTAACAGTCAGTCATTC
1 AGTAACAATCATTTATTC
15580112 AGTA
1 AGTA
15580116 CTTTTATTTA
Statistics
Matches: 73, Mismatches: 21, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 73 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.37
Consensus pattern (18 bp):
AGTAACAATCATTTATTC
Found at i:15585336 original size:25 final size:25
Alignment explanation
Indices: 15585301--15585350 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
15585291 TTTCCAAAAA
*
15585301 ATCTTCCTCCCCTCTCACTATATTC
1 ATCTTCCTCCCCTCTCACCATATTC
*
15585326 ATCTTCTTCCCCTCTCACCATATTC
1 ATCTTCCTCCCCTCTCACCATATTC
15585351 TTTCTTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.16, C:0.44, G:0.00, T:0.40
Consensus pattern (25 bp):
ATCTTCCTCCCCTCTCACCATATTC
Found at i:15590977 original size:18 final size:17
Alignment explanation
Indices: 15590956--15590989 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15590946 TATAATAGTT
15590956 AAAATAAATAAAAGAAAC
1 AAAATAAA-AAAAGAAAC
*
15590974 AAAATAGAAAAAGAAA
1 AAAATAAAAAAAGAAA
15590990 GAACAAAGAA
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:0.79, C:0.03, G:0.09, T:0.09
Consensus pattern (17 bp):
AAAATAAAAAAAGAAAC
Found at i:15591004 original size:21 final size:20
Alignment explanation
Indices: 15590966--15591050 Score: 64
Period size: 21 Copynumber: 4.0 Consensus size: 20
15590956 AAAATAAATA
15590966 AAAGAAACAA-AATAGAAAAAG
1 AAAGAAA-AAGAAT-GAAAAAG
*
15590987 AAAGAACAAAGAATGAAAACG
1 AAAGAA-AAAGAATGAAAAAG
* * *
15591008 AAATAGAAATGAAAGAAAAAGGG
1 AAAGA-AAAAGAATGAAAAA--G
*
15591031 AAAGAAAAAGAATGGAAAAG
1 AAAGAAAAAGAATGAAAAAG
15591051 TAGGGTTTTG
Statistics
Matches: 50, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
20 1 0.02
21 28 0.56
22 16 0.32
23 5 0.10
ACGTcount: A:0.69, C:0.04, G:0.21, T:0.06
Consensus pattern (20 bp):
AAAGAAAAAGAATGAAAAAG
Found at i:15594751 original size:6 final size:6
Alignment explanation
Indices: 15594742--15594769 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
15594732 AAAAATTAGT
15594742 AAATAA AAATAA AAATAA AAATAA AAAT
1 AAATAA AAATAA AAATAA AAATAA AAAT
15594770 GGCTAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:15598259 original size:18 final size:17
Alignment explanation
Indices: 15598238--15598284 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 17
15598228 CTCACATGCT
15598238 CGTGTGGACCCACACACC
1 CGTGTGG-CCCACACACC
*
15598256 CGTGTGGCCCCACACGCC
1 CGTGTGG-CCCACACACC
15598274 CGTGTGGCCCA
1 CGTGTGGCCCA
15598285 TATGCCCAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.15, C:0.45, G:0.28, T:0.13
Consensus pattern (17 bp):
CGTGTGGCCCACACACC
Found at i:15601954 original size:44 final size:44
Alignment explanation
Indices: 15601841--15602043 Score: 142
Period size: 44 Copynumber: 4.6 Consensus size: 44
15601831 CTTGATTTGT
* * * ** **
15601841 TCCATTGCAATTTCAAAGAGATAAGACCTGCTTTCTTCAGTCTGC
1 TCCACTGCAATTTCAGAGAGATAAGACTTG-TAACTTCAACCTGC
* * * *
15601886 TCCACTACCACTTT-AGGGACATAAGACTTGTAACTTCAACCTGC
1 TCCACT-GCAATTTCAGAGAGATAAGACTTGTAACTTCAACCTGC
* * *
15601930 TCTACTGCAATTTCAGAGAGATAAGA-TTCGCTATCTTCAATCC-GT
1 TCCACTGCAATTTCAGAGAGATAAGACTT-G-TAACTTCAA-CCTGC
* * ** *
15601975 TCCACTGCAATTTCAAAGAGATAGGACTCATAACTTTAACCTGC
1 TCCACTGCAATTTCAGAGAGATAAGACTTGTAACTTCAACCTGC
* * *
15602019 CCCACTGCAATTTCAGGGGGATAAG
1 TCCACTGCAATTTCAGAGAGATAAG
15602044 GTTTATAGCT
Statistics
Matches: 120, Mismatches: 31, Indels: 15
0.72 0.19 0.09
Matches are distributed among these distances:
43 9 0.08
44 54 0.45
45 49 0.41
46 8 0.07
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (44 bp):
TCCACTGCAATTTCAGAGAGATAAGACTTGTAACTTCAACCTGC
Found at i:15602375 original size:45 final size:45
Alignment explanation
Indices: 15602283--15603015 Score: 198
Period size: 45 Copynumber: 16.6 Consensus size: 45
15602273 AAATCTGCTT
* *
15602283 CACTGCAACTTCAGGAAGACAAGATTCACCGTCTTTGATCTACTC
1 CACTGCAACTTCAGGGAGACAAGATTCACCGTCTTAGATCTACTC
* *
15602328 CACTGCAACTTCAGGGAGGCAAGA-TCTA-CGATCTTCAG-TCTATTC
1 CACTGCAACTTCAGGGAGACAAGATTC-ACCG-TCTT-AGATCTACTC
* * * *** * * * *
15602373 CACTACAACTT-AGGGAGATAGGA-T-GGTGGCTTAAATCTGCTT
1 CACTGCAACTTCAGGGAGACAAGATTCACCGTCTTAGATCTACTC
* * ** * * * *
15602415 CACTGCAACTTCAGGAAGACAA-TTTTGCTGTCTTCGATTTTCTC
1 CACTGCAACTTCAGGGAGACAAGATTCACCGTCTTAGATCTACTC
* ** *
15602459 CACTGCAACTTCAGGGAGACAA-AATCTACAATCTTCAG-CCTACTC
1 CACTGCAACTTCAGGGAGACAAGATTC-ACCGTCTT-AGATCTACTC
* * * * *** * * * *
15602504 CACTACAACTTTAGGGAGATAGGA-T-GGTGGCTTAAATCTGCTT
1 CACTGCAACTTCAGGGAGACAAGATTCACCGTCTTAGATCTACTC
* * ** * * *
15602547 CACTGCAACTTCAAGAAGACAAGATTTGCCGTCTTCGATTTGCTC
1 CACTGCAACTTCAGGGAGACAAGATTCACCGTCTTAGATCTACTC
** * *
15602592 CACTGCAACTTCAGGGAGACAAGA-TCTACAATCTTCAG-CCTACTT
1 CACTGCAACTTCAGGGAGACAAGATTC-ACCGTCTT-AGATCTACTC
* * * * *** * * * *
15602637 CACTACAACTTTAGGGAGATAGGA-T-GGTGGCTTAAATCTGCTT
1 CACTGCAACTTCAGGGAGACAAGATTCACCGTCTTAGATCTACTC
* * *** * * *
15602680 CACTGCAACTTAAGGAAGACAAGATTCGTTGTCTTCGATTTGCTC
1 CACTGCAACTTCAGGGAGACAAGATTCACCGTCTTAGATCTACTC
* ** * *
15602725 CACTGCAACTTTAGGGAGACAAGA-TCTACAATCTTCAG-CCTACTT
1 CACTGCAACTTCAGGGAGACAAGATTC-ACCGTCTT-AGATCTACTC
* * * * * * *** * * * *
15602770 CACTACAAATTTAGAGAGATAGGA-T-GGTGGCTTAAATCTGCTT
1 CACTGCAACTTCAGGGAGACAAGATTCACCGTCTTAGATCTACTC
* ** * * *
15602813 CACTGCAACTTCAGGAAGACAAGATTTGCCGTTTTTGATCTGCTC
1 CACTGCAACTTCAGGGAGACAAGATTCACCGTCTTAGATCTACTC
*** *
15602858 CACTGCAACTTCAGGGAGACAAGATAT-AAAATCTTCAG-CCTACTC
1 CACTGCAACTTCAGGGAGACAAGAT-TCACCGTCTT-AGATCTACTC
* * * * * ** * * * *
15602903 CACTACAACTTTAGAGAGA-TAGAAT-AGTGGCTTAAATTTACTT
1 CACTGCAACTTCAGGGAGACAAGATTCACCGTCTTAGATCTACTC
* * * * *
15602946 CACTGTAACTCCAGGAAGACAAGATTCACCGTCTTCGATCTGCTC
1 CACTGCAACTTCAGGGAGACAAGATTCACCGTCTTAGATCTACTC
*
15602991 CACTGCAACTTCAGAGAGACAAGAT
1 CACTGCAACTTCAGGGAGACAAGAT
15603016 CTTTAGAATC
Statistics
Matches: 481, Mismatches: 178, Indels: 58
0.67 0.25 0.08
Matches are distributed among these distances:
41 1 0.00
42 21 0.04
43 108 0.22
44 60 0.12
45 284 0.59
46 7 0.01
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (45 bp):
CACTGCAACTTCAGGGAGACAAGATTCACCGTCTTAGATCTACTC
Found at i:15602627 original size:133 final size:133
Alignment explanation
Indices: 15602240--15603017 Score: 1139
Period size: 133 Copynumber: 5.9 Consensus size: 133
15602230 TCAACCGGCC
* * * * *
15602240 CCACTACTA-TTTAGTGAGATAGAATGATGGTTTAAATCTGCTTCACTGCAACTTCAGGAAGACA
1 CCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACA
* * * * * *
15602304 AGATTCACCGTCTTTGATCTACTCCACTGCAACTTCAGGGAGGCAAGATCTACGATCTTCAGTCT
66 AGATTCGCCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCT
*
15602369 ATT
131 ACT
15602372 CCACTACAAC-TTAGGGAGATAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACA
1 CCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACA
* * * * * *
15602436 A-TTTTGCTGTCTTCGATTTTCTCCACTGCAACTTCAGGGAGACAAAATCTACAATCTTCAGCCT
66 AGATTCGCCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCT
15602500 ACT
131 ACT
*
15602503 CCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAAGAAGACA
1 CCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACA
* *
15602568 AGATTTGCCGTCTTCGATTTGCTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCT
66 AGATTCGCCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCT
15602633 ACT
131 ACT
* *
15602636 TCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTAAGGAAGACA
1 CCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACA
** * *
15602701 AGATTCGTTGTCTTCGATTTGCTCCACTGCAACTTTAGGGAGACAAGATCTACAATCTTCAGCCT
66 AGATTCGCCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCT
15602766 ACT
131 ACT
* * *
15602769 TCACTACAAATTTAGAGAGATAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACA
1 CCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACA
* * * * *
15602834 AGATTTGCCGTTTTTGATCTGCTCCACTGCAACTTCAGGGAGACAAGATATAAAATCTTCAGCCT
66 AGATTCGCCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCT
15602899 ACT
131 ACT
* * * * * * *
15602902 CCACTACAACTTTAGAGAGATAGAATAGTGGCTTAAATTTACTTCACTGTAACTCCAGGAAGACA
1 CCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACA
* *
15602967 AGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGAGAGACAAGATCT
66 AGATTCGCCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAGACAAGATCT
15603018 TTAGAATCAG
Statistics
Matches: 588, Mismatches: 55, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
131 64 0.11
132 113 0.19
133 411 0.70
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (133 bp):
CCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACA
AGATTCGCCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCT
ACT
Found at i:15603141 original size:64 final size:64
Alignment explanation
Indices: 15603040--15603167 Score: 202
Period size: 64 Copynumber: 2.0 Consensus size: 64
15603030 TCATAGGCCT
* * *
15603040 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGTTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGAATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
* * *
15603104 ATGCTTATGTCAAATAATTAGAATGCTATGATTGAAATGGATCAAGTGCTCCTAACTAAATGTG
1 ATGCTTATGCCAAATAATTAGAATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
15603168 TCATGAATGA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGAATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
Found at i:15603671 original size:39 final size:39
Alignment explanation
Indices: 15603617--15603696 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
15603607 GTCTAGGGAG
15603617 ATAGCCATAATTTAGACTCCTATGTCTCAAATATTTCCA
1 ATAGCCATAATTTAGACTCCTATGTCTCAAATATTTCCA
15603656 ATAGCCATAATTTAGACTCCTATGTCTCAAATATTTCCA
1 ATAGCCATAATTTAGACTCCTATGTCTCAAATATTTCCA
15603695 AT
1 AT
15603697 CCTTAGGCTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.36
Consensus pattern (39 bp):
ATAGCCATAATTTAGACTCCTATGTCTCAAATATTTCCA
Found at i:15604940 original size:18 final size:18
Alignment explanation
Indices: 15604913--15604950 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
15604903 TGGGTTTTTC
*
15604913 TTCTTCTTCTTCTTCTTT
1 TTCTTCTTCTTATTCTTT
*
15604931 TTCTTTTTCTTATTCTTT
1 TTCTTCTTCTTATTCTTT
15604949 TT
1 TT
15604951 TTATTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (18 bp):
TTCTTCTTCTTATTCTTT
Found at i:15604948 original size:12 final size:12
Alignment explanation
Indices: 15604913--15604960 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
15604903 TGGGTTTTTC
* *
15604913 TTCTTCTTCTTC
1 TTCTTATTCTTT
*
15604925 TTCTTTTTCTTT
1 TTCTTATTCTTT
15604937 TTCTTATTCTTT
1 TTCTTATTCTTT
15604949 TT-TTATT-TTT
1 TTCTTATTCTTT
15604959 TT
1 TT
15604961 TGCCTTTGCC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
10 5 0.15
11 5 0.15
12 23 0.70
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (12 bp):
TTCTTATTCTTT
Found at i:15604959 original size:21 final size:21
Alignment explanation
Indices: 15604907--15604958 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
15604897 TGTTATTGGG
* *
15604907 TTTTTCTTCTTCTTCTTCTTC
1 TTTTTCTTTTTCTTATTCTTC
15604928 TTTTTCTTTTTCTTATTCTT-
1 TTTTTCTTTTTCTTATTCTTC
*
15604948 TTTTTATTTTT
1 TTTTTCTTTTT
15604959 TTTGCCTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 10 0.36
21 18 0.64
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTTCTTTTTCTTATTCTTC
Found at i:15615439 original size:13 final size:13
Alignment explanation
Indices: 15615417--15615467 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
15615407 TTTAGCAATA
*
15615417 CTTTTGAAAAGTG
1 CTTTTAAAAAGTG
15615430 CTTTTAAAAAGTG
1 CTTTTAAAAAGTG
*
15615443 -TTATAGAAAAGTG
1 CTTTTA-AAAAGTG
*
15615456 CTTTTGAAAAGT
1 CTTTTAAAAAGT
15615468 TTGGTTTAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
12 4 0.12
13 25 0.78
14 3 0.09
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.37
Consensus pattern (13 bp):
CTTTTAAAAAGTG
Found at i:15615735 original size:20 final size:19
Alignment explanation
Indices: 15615719--15615764 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
15615709 ATTTAATTAG
15615719 AATATATAAACTATAATTTA
1 AATATATAAA-TATAATTTA
* **
15615739 AATATTTAAATATAACCTA
1 AATATATAAATATAATTTA
15615758 AATATAT
1 AATATAT
15615765 GTAATTAGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (19 bp):
AATATATAAATATAATTTA
Found at i:15618454 original size:46 final size:46
Alignment explanation
Indices: 15618401--15618579 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 46
15618391 TATTTGGGCA
15618401 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
15618447 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGTTCGA-GAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTT--ATG-GATGCGAA-T--G
* *
15618498 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
15618546 -CTCGAGCTCGTTGAATTGAGTCCGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
15618580 CGGGCGGGTT
Statistics
Matches: 114, Mismatches: 7, Indels: 24
0.79 0.05 0.17
Matches are distributed among these distances:
45 1 0.01
46 60 0.53
47 3 0.03
48 4 0.04
49 6 0.05
50 5 0.04
51 4 0.04
52 3 0.03
53 28 0.25
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:15619947 original size:27 final size:27
Alignment explanation
Indices: 15619917--15619968 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
15619907 GTAAATCCAC
15619917 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTATTTCTA-TAATTTTGT
*
15619944 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAAGGTATTTCTATAATTTT
15619969 TAGAAAGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAAAGGTATTTCTATAATTTTGT
Found at i:15620020 original size:27 final size:26
Alignment explanation
Indices: 15619980--15620102 Score: 131
Period size: 27 Copynumber: 4.6 Consensus size: 26
15619970 AGAAAGTTAT
**
15619980 GGGTATTTCT-GTAATTTTGTAAATCAG
1 GGGTATTT-TGGTAATTTTACAAAT-AG
*
15620007 GGGTATTTTGGTAATTTTACAAATTG
1 GGGTATTTTGGTAATTTTACAAATAG
* * *
15620033 AGAGTATTTCGGTAATTTCACAAACTAG
1 -GGGTATTTTGGTAATTTTACAAA-TAG
* *
15620061 TGGTATTTTGGTAATTTTACAACTAG
1 GGGTATTTTGGTAATTTTACAAATAG
15620087 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
15620103 CTACCCTACA
Statistics
Matches: 80, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
26 20 0.25
27 58 0.73
28 2 0.03
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAATAG
Found at i:15620153 original size:26 final size:26
Alignment explanation
Indices: 15620122--15620183 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
15620112 AGAGGTATTT
*
15620122 CAGTAATTCCTCAATCGAGGGTAAAA
1 CAGTAATTCCTAAATCGAGGGTAAAA
** **
15620148 TGGTAATTTTGTAAATCGAGGGTAAAA
1 CAGTAA-TTCCTAAATCGAGGGTAAAA
15620175 CAGTAATTC
1 CAGTAATTC
15620184 TATGAATCGA
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (26 bp):
CAGTAATTCCTAAATCGAGGGTAAAA
Found at i:15620191 original size:27 final size:27
Alignment explanation
Indices: 15620134--15620198 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
15620124 GTAATTCCTC
** * *
15620134 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTATA
*
15620161 AATCGAGGGTAAAACAGTAATTCTATG
1 AATCGAGGGTAAAACAGTAATTCTATA
*
15620188 AATCGAAGGTA
1 AATCGAGGGTA
15620199 CTTTGGTAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTATA
Found at i:15621875 original size:26 final size:26
Alignment explanation
Indices: 15621845--15621895 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
15621835 AAATCAGATA
15621845 GTTTAAAATAAATAATATATAAAAGG
1 GTTTAAAATAAATAATATATAAAAGG
* *
15621871 GTTTAAGATAAATAATATGTAAAAG
1 GTTTAAAATAAATAATATATAAAAG
15621896 AGATATTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.55, C:0.00, G:0.14, T:0.31
Consensus pattern (26 bp):
GTTTAAAATAAATAATATATAAAAGG
Found at i:15621911 original size:29 final size:28
Alignment explanation
Indices: 15621822--15621920 Score: 80
Period size: 26 Copynumber: 3.5 Consensus size: 28
15621812 ATGGTAGTAT
**
15621822 ATAAA-AAGTATATAAATCAGATAGTTTAAA
1 ATAAATAA-TATATAAAAGAGATA-TTT-AA
*
15621852 ATAAATAATATATAAAAG-G--GTTTAA
1 ATAAATAATATATAAAAGAGATATTTAA
*
15621877 GATAAATAATATGTAAAAGAGATATTTGAA
1 -ATAAATAATATATAAAAGAGATATTT-AA
*
15621907 ATAAATAATGTATA
1 ATAAATAATATATA
15621921 CATATGTAGG
Statistics
Matches: 56, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
25 2 0.04
26 20 0.36
27 1 0.02
29 16 0.29
30 15 0.27
31 2 0.04
ACGTcount: A:0.56, C:0.01, G:0.12, T:0.31
Consensus pattern (28 bp):
ATAAATAATATATAAAAGAGATATTTAA
Found at i:15624505 original size:48 final size:47
Alignment explanation
Indices: 15624429--15624704 Score: 204
Period size: 48 Copynumber: 5.8 Consensus size: 47
15624419 TAAGGGAGGG
* * * *
15624429 TGCCAATGCCATATCCCAGATATAGTCTTACATGGGAGCATACATTGA
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACACA-TGA
*
15624477 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACAT-A
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACACATGA
* * * ** * *
15624523 T-CGAA-GCCGATAACCCAG-CTACGGTCTTACACAAT-GTCTCATA-ACGA
1 TGCCAATGCC-ATATCCCAGAC-ATGGTCTT--AC-ATGGGATCACACATGA
* * * * *
15624570 TGCCAATGCCATGTCCTAAACATGGTCTTACATGGAATCACATAATGA
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACA-CATGA
* * ** *
15624618 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCACATGTCAA
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACACAT-GA
* * * *
15624666 TGCCGATGCCATATCCCAGATATGGTCTTATACGGGATC
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGATC
15624705 TCATCAGTCC
Statistics
Matches: 179, Mismatches: 36, Indels: 26
0.74 0.15 0.11
Matches are distributed among these distances:
44 4 0.02
45 19 0.11
46 10 0.06
47 11 0.06
48 131 0.73
49 4 0.02
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (47 bp):
TGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACACATGA
Found at i:15629930 original size:22 final size:23
Alignment explanation
Indices: 15629905--15629950 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
15629895 CAACCAAATC
15629905 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
15629927 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
15629950 A
1 A
15629951 CGTCATCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:15629956 original size:23 final size:22
Alignment explanation
Indices: 15629912--15629961 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
15629902 ATCAATTCAA
*
15629912 CATATTTTCAAGATAAATTCAT
1 CATATTTTCAAGATAAAGTCAT
*
15629934 GCATATTTAT-AAGATAACGTCAT
1 -CATATTT-TCAAGATAAAGTCAT
15629957 CATAT
1 CATAT
15629962 ATCTAAAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 5 0.21
23 18 0.75
24 1 0.04
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (22 bp):
CATATTTTCAAGATAAAGTCAT
Found at i:15636390 original size:93 final size:93
Alignment explanation
Indices: 15636231--15636402 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
15636221 CGCCCATAAG
* * *
15636231 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
15636296 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* * *
15636324 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATTCATAAGTGAACTCGGACTTAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
15636389 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
15636403 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:15636399 original size:46 final size:46
Alignment explanation
Indices: 15636225--15636399 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
15636215 GTAACCCGCC
* * * *
15636225 CATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATC
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATT
* * *
15636271 CATAGGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTT
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A-TT
*
15636316 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATT
1 -CA--TAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATT
* *
15636364 CATAAGTGAACTCGGACTTAACTCAACGAGTTCGGA
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
15636400 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 62 0.58
47 30 0.28
48 3 0.03
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (46 bp):
CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATT
Found at i:15636418 original size:46 final size:44
Alignment explanation
Indices: 15636232--15636418 Score: 121
Period size: 46 Copynumber: 4.0 Consensus size: 44
15636222 GCCCATAAGC
* ** * *
15636232 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCATAGGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAT-C-TA-GT
* *
15636278 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTACATTTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACATCT-AGT
* * * *
15636325 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATTCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCA-ACATCTAGT
*
15636371 GAACTCGGACTTAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA-CAT-CTAGT
15636417 GA
1 GA
15636419 CATGTCACTT
Statistics
Matches: 112, Mismatches: 16, Indels: 26
0.73 0.10 0.17
Matches are distributed among these distances:
44 8 0.07
45 2 0.02
46 60 0.54
47 32 0.29
48 1 0.01
49 5 0.04
50 4 0.04
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (44 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACATCTAGT
Found at i:15640399 original size:22 final size:23
Alignment explanation
Indices: 15640374--15640419 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
15640364 CAACCAAATC
15640374 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
15640396 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
15640419 A
1 A
15640420 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:15640425 original size:23 final size:23
Alignment explanation
Indices: 15640381--15640425 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
15640371 ATCAATTCAA
*
15640381 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
15640404 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
15640426 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:15653071 original size:48 final size:48
Alignment explanation
Indices: 15652992--15653084 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
15652982 TAAGGTAGGG
* * * *
15652992 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGAGCACACATTGA
1 TGCCAATGCCATATCCCAAACATGATCTTACATGGGAGCACACATTGA
* * *
15653040 TGCCAATGCCATGTCCCAAACATGATTTTACATGGGATCACACAT
1 TGCCAATGCCATATCCCAAACATGATCTTACATGGGAGCACACAT
15653085 ATTGAAGCCG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (48 bp):
TGCCAATGCCATATCCCAAACATGATCTTACATGGGAGCACACATTGA
Found at i:15653183 original size:48 final size:48
Alignment explanation
Indices: 15653108--15653223 Score: 119
Period size: 48 Copynumber: 2.4 Consensus size: 48
15653098 GCCTAGCTAC
* * * * **
15653108 GGTCTTACACGATG-TCTCATAATGATACCAATGTTATGTCCCAAACAT
1 GGTCTTACATGA-GATCACATAACGATACCAAAGCCATGTCCCAAACAT
* * *
15653156 GGTCTTACATG-GAATCACATAACGATACTAAAGCCATGTCCTAGACAT
1 GGTCTTACATGAG-ATCACATAACGATACCAAAGCCATGTCCCAAACAT
15653204 GGTCTTACATGAGATCACAT
1 GGTCTTACATGAGATCACAT
15653224 GTCAATACCG
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
46 1 0.02
48 54 0.96
49 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.28
Consensus pattern (48 bp):
GGTCTTACATGAGATCACATAACGATACCAAAGCCATGTCCCAAACAT
Found at i:15653240 original size:48 final size:48
Alignment explanation
Indices: 15653143--15653246 Score: 111
Period size: 48 Copynumber: 2.2 Consensus size: 48
15653133 TACCAATGTT
* *
15653143 ATGTCCCAAACATGGTCTTACATGGAATCACATAACGATACTAAAGCC
1 ATGTCCCAAACATGGTCTTACATGGAATCACATAACAATACCAAAGCC
* * ** * *
15653191 ATGTCCTAGACATGGTCTTACAT-GAGATCACATGTCAATACCGATGCC
1 ATGTCCCAAACATGGTCTTACATGGA-ATCACATAACAATACCAAAGCC
*
15653239 ATATCCCA
1 ATGTCCCA
15653247 GATGTGGTCT
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
47 2 0.04
48 43 0.96
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (48 bp):
ATGTCCCAAACATGGTCTTACATGGAATCACATAACAATACCAAAGCC
Found at i:15654905 original size:47 final size:47
Alignment explanation
Indices: 15654836--15654927 Score: 184
Period size: 47 Copynumber: 2.0 Consensus size: 47
15654826 TATATATGGA
15654836 TCAAACAGGCCCCACCGGCTTGGTACCTTGAACTTCACCAATTCCAC
1 TCAAACAGGCCCCACCGGCTTGGTACCTTGAACTTCACCAATTCCAC
15654883 TCAAACAGGCCCCACCGGCTTGGTACCTTGAACTTCACCAATTCC
1 TCAAACAGGCCCCACCGGCTTGGTACCTTGAACTTCACCAATTCC
15654928 TCATTGCGTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.25, C:0.38, G:0.15, T:0.22
Consensus pattern (47 bp):
TCAAACAGGCCCCACCGGCTTGGTACCTTGAACTTCACCAATTCCAC
Found at i:15665659 original size:18 final size:18
Alignment explanation
Indices: 15665636--15665670 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
15665626 AACCTACTAA
15665636 AAGTAAATAC-ACTAAGTT
1 AAGTAAA-ACTACTAAGTT
15665654 AAGTAAAACTACTAAGT
1 AAGTAAAACTACTAAGT
15665671 AAAATCACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.26
Consensus pattern (18 bp):
AAGTAAAACTACTAAGTT
Found at i:15667458 original size:12 final size:12
Alignment explanation
Indices: 15667441--15667465 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15667431 TTAAATATTG
15667441 ATATATATGTAT
1 ATATATATGTAT
15667453 ATATATATGTAT
1 ATATATATGTAT
15667465 A
1 A
15667466 CTTTGTAGTA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATATATATGTAT
Found at i:15669056 original size:131 final size:131
Alignment explanation
Indices: 15668743--15669120 Score: 467
Period size: 131 Copynumber: 2.9 Consensus size: 131
15668733 TAAGAATTCT
* * *
15668743 TTAAAACGAAGGCGATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGC
1 TTAAAACGAAGGCAATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGTGCTGGGTTGC
* * * *
15668808 AATTTCTCGTTTGCTCAAAGTAATCGAAGGTCCCTTTAGAATTTCACCCATGTCTTTTAAAAATT
66 AATTTCTCGTTTGTTCAAAATAATCGAAGGTCCCTTTAGAATTTCACTCATGTCTTTTAAAAACT
15668873 C
131 C
* * * *
15668874 TTTAAACGAAGGCAATGTTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGTGCGGGGTTAC
1 TTAAAACGAAGGCAATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGTGCTGGGTTGC
* *
15668939 AATTTCTCGTTTGTTCAAAATAATCGAAGGTCCCTTTTGAATTTCACTTATGT-TTTCTAAAAAC
66 AATTTCTCGTTTGTTCAAAATAATCGAAGGTCCCTTTAGAATTTCACTCATGTCTTT-TAAAAAC
15669003 TC
130 TC
* * * * *
15669005 TTCAAAACGAAGGTAATATTCGATGTTTGGAAATTTGGGGAATC-TGCCCTATTC-TGCTGGGTT
1 TT-AAAACGAAGGCAATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTA-TCGTGCTGGGTT
* * * * * * *
15669068 GCGATTTC-CTATTTGTCCAAAATGATCAAAGATTCCTTTAGAATTTCACTCAT
64 GCAATTTCTC-GTTTGTTCAAAATAATCGAAGGTCCCTTTAGAATTTCACTCAT
15669121 ACTCTCTAAA
Statistics
Matches: 212, Mismatches: 31, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
130 4 0.02
131 172 0.81
132 36 0.17
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (131 bp):
TTAAAACGAAGGCAATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGTGCTGGGTTGC
AATTTCTCGTTTGTTCAAAATAATCGAAGGTCCCTTTAGAATTTCACTCATGTCTTTTAAAAACT
C
Found at i:15672117 original size:21 final size:21
Alignment explanation
Indices: 15672092--15672134 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
15672082 CTTGAGCAAT
15672092 ATAGAAGAAATGAAAGGAAAA
1 ATAGAAGAAATGAAAGGAAAA
15672113 ATAGAAGAAATGAAAGGAAAA
1 ATAGAAGAAATGAAAGGAAAA
15672134 A
1 A
15672135 CTGTGAGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.23, T:0.09
Consensus pattern (21 bp):
ATAGAAGAAATGAAAGGAAAA
Found at i:15683947 original size:39 final size:40
Alignment explanation
Indices: 15683892--15684004 Score: 149
Period size: 40 Copynumber: 2.9 Consensus size: 40
15683882 TAGCTAGCAT
* * * *
15683892 AGCCTGCAGGTTTTTAA-CCCGGATGTC-ATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGAT-ACGATTCCAGCACAA
15683931 AGCCTGCGGGTCTTTAAGCCCGGATACGATTCCAGCACAA
1 AGCCTGCGGGTCTTTAAGCCCGGATACGATTCCAGCACAA
* *
15683971 AGCCTGCGGGTCTTTAAGCTCGGATACCATTCCA
1 AGCCTGCGGGTCTTTAAGCCCGGATACGATTCCA
15684005 CATCAAATAA
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
39 16 0.24
40 50 0.76
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATACGATTCCAGCACAA
Found at i:15687852 original size:132 final size:130
Alignment explanation
Indices: 15687527--15687902 Score: 459
Period size: 131 Copynumber: 2.9 Consensus size: 130
15687517 TAAGAATTCT
* * * * * *
15687527 TTAAAATGAAGGCGATATTTGATATTTGGCAATTCGCGGAATCGTGCCGTAATGTGTTGGGTTGC
1 TTAAAACGAAGGCAATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATTGTGCTGGGTTGC
* * *
15687592 AATTTCTCGTTTGCTCAAAGTAATCGAAGGTCCCTTTAGAATTTCACCTATGTCTTTTAAAAAAT
66 AATTTCTCGTTTGTTCAAAATAATCGAAGGT-CCTTTAGAATTTCACTTATGTCTTTTAAAAAAT
15687657 C
130 C
* * * *
15687658 TTTAAACGAAGGCGATGTTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGTGCTGGGTTGC
1 TTAAAACGAAGGCAATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATTGTGCTGGGTTGC
* * * *
15687723 AATTTCTCGTTTGTTCAAAATAATCAAAGGTCCATTTTGAATTTCACTTATGT-TTTCTGAAAAG
66 AATTTCTCGTTTGTTCAAAATAATCGAAGGTCC-TTTAGAATTTCACTTATGTCTTT-TAAAAAA
15687787 TC
129 TC
* * * *
15687789 TTCAAAACGAAGGTAATATTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATTGTGCTGGGTTT
1 TT-AAAACGAAGGCAATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATTGTGCTGGGTTG
* * * *
15687854 CGATTTC-CTGTTTGTCCAAAATGATCGAAGATTCCTTTAGAATTTCACT
65 CAATTTCTC-GTTTGTTCAAAATAATCGAAG-GTCCTTTAGAATTTCACT
15687903 CATACTCTCT
Statistics
Matches: 211, Mismatches: 29, Indels: 9
0.85 0.12 0.04
Matches are distributed among these distances:
130 5 0.02
131 112 0.53
132 91 0.43
133 3 0.01
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (130 bp):
TTAAAACGAAGGCAATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATTGTGCTGGGTTGC
AATTTCTCGTTTGTTCAAAATAATCGAAGGTCCTTTAGAATTTCACTTATGTCTTTTAAAAAATC
Found at i:15690230 original size:20 final size:20
Alignment explanation
Indices: 15690205--15690243 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
15690195 TTGTAATTAG
*
15690205 TTGTAATCCCTTAATTCTAA
1 TTGTAATCCCCTAATTCTAA
15690225 TTGTAATCCCCTAATTCTA
1 TTGTAATCCCCTAATTCTA
15690244 TGATAGTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.05, T:0.44
Consensus pattern (20 bp):
TTGTAATCCCCTAATTCTAA
Found at i:15690639 original size:63 final size:62
Alignment explanation
Indices: 15690483--15690650 Score: 192
Period size: 63 Copynumber: 2.7 Consensus size: 62
15690473 CACAAACATT
* * * * * * *
15690483 GAGTTACACAGCTTGGGCACATGCCCGTGTCCCTGACCGTGTGGTTTTATACTGCAAACAGA
1 GAGTTACACGGCCTAGGCACACGCCCGTGTCCCTGGCCGTGTGGTTTTACACTCCAAACAGA
* * * *
15690545 GAGTTACACGGCCTGGGCACACACCCGTGTCCCTGGCTGTGTGGTTTTTACACTCCAAACAGT
1 GAGTTACACGGCCTAGGCACACGCCCGTGTCCCTGGCCGTGTGG-TTTTACACTCCAAACAGA
* * * *
15690608 GAGTTACATGGCCTAGGCATACGCCCATGTCCCTGGCCATGTG
1 GAGTTACACGGCCTAGGCACACGCCCGTGTCCCTGGCCGTGTG
15690651 AACCCTGCTA
Statistics
Matches: 89, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
62 38 0.43
63 51 0.57
ACGTcount: A:0.20, C:0.29, G:0.26, T:0.25
Consensus pattern (62 bp):
GAGTTACACGGCCTAGGCACACGCCCGTGTCCCTGGCCGTGTGGTTTTACACTCCAAACAGA
Found at i:15691340 original size:16 final size:16
Alignment explanation
Indices: 15691286--15691340 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
15691276 AGGGAAAATC
15691286 GAAAAA-GAAGAAAAA
1 GAAAAAGGAAGAAAAA
*
15691301 GTAGAGAAGGAAGAAAAA
1 G-A-AAAAGGAAGAAAAA
*
15691319 GGAAAAGGAA-AAATAA
1 GAAAAAGGAAGAAA-AA
15691335 GAAAAA
1 GAAAAA
15691341 CAATAGGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
15 4 0.12
16 15 0.47
17 3 0.09
18 10 0.31
ACGTcount: A:0.71, C:0.00, G:0.25, T:0.04
Consensus pattern (16 bp):
GAAAAAGGAAGAAAAA
Found at i:15691355 original size:41 final size:41
Alignment explanation
Indices: 15691266--15691356 Score: 105
Period size: 41 Copynumber: 2.2 Consensus size: 41
15691256 TACGACAATT
* *
15691266 AAAGAAGAAAAGGGAAAATCGAAAAAGAAGAAAAAGTAGAG
1 AAAGAAGAAAAAGGAAAATCGAAAAAGAAGAAAAAATAGAG
* * *
15691307 AAGGAAGAAAAAGGAAAA-GGAAAAATAAGAAAAACAATAG-G
1 AAAGAAGAAAAAGGAAAATCGAAAAAGAAG-AAAA-AATAGAG
15691348 AAAGAAGAA
1 AAAGAAGAA
15691357 CTAACGTTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
40 9 0.21
41 29 0.69
42 4 0.10
ACGTcount: A:0.68, C:0.02, G:0.25, T:0.04
Consensus pattern (41 bp):
AAAGAAGAAAAAGGAAAATCGAAAAAGAAGAAAAAATAGAG
Found at i:15692021 original size:28 final size:27
Alignment explanation
Indices: 15691973--15692026 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
15691963 TATTTGAATG
* *
15691973 ATAAATTTTTATTTGTTAAATTTATTA
1 ATAAATTTTTATTTGTGAAATGTATTA
15692000 ATAAATATTTTATATT-TGAAATGTATT
1 ATAAAT-TTTTAT-TTGTGAAATGTATT
15692027 TAGTTTCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 6 0.26
28 15 0.65
29 2 0.09
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (27 bp):
ATAAATTTTTATTTGTGAAATGTATTA
Found at i:15694126 original size:18 final size:18
Alignment explanation
Indices: 15694086--15694126 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
15694076 TTTGCTTTAG
*
15694086 CATTCTTGATGGCTTTGT
1 CATTTTTGATGGCTTTGT
15694104 CATTTTTGATGGCTTTGT
1 CATTTTTGATGGCTTTGT
15694122 CATTT
1 CATTT
15694127 GCAAGCATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.12, C:0.15, G:0.20, T:0.54
Consensus pattern (18 bp):
CATTTTTGATGGCTTTGT
Found at i:15694461 original size:147 final size:147
Alignment explanation
Indices: 15694238--15694504 Score: 446
Period size: 147 Copynumber: 1.8 Consensus size: 147
15694228 ATTCCCATGG
*
15694238 CCTGGGGCGCTTCCTCCACTTCCTACCACATTGCTAACAGGACTGCCCCCTCTGCCAAGCATTCC
1 CCTGGGGCGCTTCCTCCACTTCCTACCACATTGCCAACAGGACTGCCCCCTCTGCCAAGCATTCC
*
15694303 CTCAGTCCCCACAATCCCAACTACAATTCCCCCTATTCCTTTCTCTTT-TCCACCATTGCCATCT
66 CTCAGTCCCCACAACCCCAACTACAATTCCCCCTATTCCTTTCT-TTTCTCCACCATTGCCATCT
15694367 TTCCCTGATCTCCCAAAC
130 TTCCCTGATCTCCCAAAC
** *
15694385 CCTGGGGCGCTTCCTCCACTTGTTACCACATTGCCAAGAGGACTGCCCCCTCTGCCAAGCATTCC
1 CCTGGGGCGCTTCCTCCACTTCCTACCACATTGCCAACAGGACTGCCCCCTCTGCCAAGCATTCC
* * *
15694450 TTCAGTCCCCACAACCCCAACTACAGTTCCCTCTATTCCTTTCTTTTCTCCACCA
66 CTCAGTCCCCACAACCCCAACTACAATTCCCCCTATTCCTTTCTTTTCTCCACCA
15694505 CCTTCTCGTT
Statistics
Matches: 111, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
146 3 0.03
147 108 0.97
ACGTcount: A:0.19, C:0.43, G:0.11, T:0.28
Consensus pattern (147 bp):
CCTGGGGCGCTTCCTCCACTTCCTACCACATTGCCAACAGGACTGCCCCCTCTGCCAAGCATTCC
CTCAGTCCCCACAACCCCAACTACAATTCCCCCTATTCCTTTCTTTTCTCCACCATTGCCATCTT
TCCCTGATCTCCCAAAC
Found at i:15695909 original size:28 final size:27
Alignment explanation
Indices: 15695861--15695914 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
15695851 TATTTGAATG
* *
15695861 ATAAATTTTTATTTGTTAAATTTATTA
1 ATAAATTTTTATTTGTGAAATGTATTA
15695888 ATAAATATTTTATATT-TGAAATGTATT
1 ATAAAT-TTTTAT-TTGTGAAATGTATT
15695915 TAGTTTCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 6 0.26
28 15 0.65
29 2 0.09
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (27 bp):
ATAAATTTTTATTTGTGAAATGTATTA
Found at i:15697484 original size:42 final size:42
Alignment explanation
Indices: 15697425--15697589 Score: 222
Period size: 42 Copynumber: 3.9 Consensus size: 42
15697415 AAATATTTGA
*
15697425 GATAGCTTCGACTATGCATTGGCACTTAGTGTGCGAGATCGG
1 GATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATCGG
* *
15697467 GATAGCTTCGGCTATGCATTGGCACTTAGTGTGTGAGATCAG
1 GATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATCGG
* * * *
15697509 GATAGCTTCGGCTATGCATGGGCACTTAGTGTGCGTGATTGA
1 GATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATCGG
** * * *
15697551 TTTAGCTTCGTCTACGTATTGGCACTTAGTGTGCGAGAT
1 GATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGAT
15697590 TCCCGAGAAA
Statistics
Matches: 107, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 107 1.00
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (42 bp):
GATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATCGG
Found at i:15697692 original size:32 final size:32
Alignment explanation
Indices: 15697655--15697721 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
15697645 TGAGTATGAG
*
15697655 ATTGGTACAAGATGGTACATGTATGTATGGAA
1 ATTGGTACAAGATGGTACAGGTATGTATGGAA
*
15697687 ATTGGTACGAGATGGTACAGGTATGTATGGAA
1 ATTGGTACAAGATGGTACAGGTATGTATGGAA
15697719 ATT
1 ATT
15697722 CAATTGAGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.33, C:0.06, G:0.30, T:0.31
Consensus pattern (32 bp):
ATTGGTACAAGATGGTACAGGTATGTATGGAA
Found at i:15707902 original size:39 final size:39
Alignment explanation
Indices: 15707844--15707982 Score: 206
Period size: 39 Copynumber: 3.6 Consensus size: 39
15707834 TCGTGATCTA
* * *
15707844 AAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAATGG
1 AAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAATGG
15707883 AAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAATGG
1 AAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAATGG
* * *
15707922 AAGCCTGAAGGCTAACTGAAGCACGCAAGTGCTAAACGG
1 AAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAATGG
* *
15707961 AAGCCGGAAGGCTAACTTAAGC
1 AAGCCCGAAGGCTAACTGAAGC
15707983 TCATCAGAGT
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 92 1.00
ACGTcount: A:0.37, C:0.22, G:0.27, T:0.14
Consensus pattern (39 bp):
AAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAATGG
Found at i:15710029 original size:16 final size:16
Alignment explanation
Indices: 15710008--15710040 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
15709998 CACATTATCA
15710008 AGATCAATTCAGAGTT
1 AGATCAATTCAGAGTT
15710024 AGATCAATTCAGAGTT
1 AGATCAATTCAGAGTT
15710040 A
1 A
15710041 TAGTCATACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (16 bp):
AGATCAATTCAGAGTT
Found at i:15710194 original size:15 final size:15
Alignment explanation
Indices: 15710176--15710217 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
15710166 GAAGCCCAGA
15710176 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
15710191 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
*
15710206 ATAAGGAAATCC
1 ATAAAGAAATCC
15710218 CATTTACAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.55, C:0.14, G:0.14, T:0.17
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:15713532 original size:39 final size:39
Alignment explanation
Indices: 15713473--15713612 Score: 165
Period size: 39 Copynumber: 3.6 Consensus size: 39
15713463 ATCATTATTT
* * * * *
15713473 GAAGCCCAAAGTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACAAAAGTGCTAAAAG
* * * *
15713512 GAAGCCCGAAGGCTAACTGAATCACACAACTGTTAAAAG
1 GAAGCCCGAAGGCTAACTGAAGCACAAAAGTGCTAAAAG
*
15713551 GAAGCCCGAAGGCTAACTAAAGCACAAAAGTGCTAAATA-
1 GAAGCCCGAAGGCTAACTGAAGCACAAAAGTGCTAAA-AG
*
15713590 GAAGCCCGAAGGCTAACTTAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
15713613 TCATCAGAGT
Statistics
Matches: 86, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 85 0.99
40 1 0.01
ACGTcount: A:0.41, C:0.23, G:0.22, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACAAAAGTGCTAAAAG
Done.