Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 89 of 129
Found at i:14291658 original size:2 final size:2
Alignment explanation
Indices: 14291647--14291675 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
14291637 TCAAATTCAG
14291647 AT AT -T 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
14291676 TAGATTTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:14292291 original size:27 final size:26
Alignment explanation
Indices: 14292240--14292302 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
14292230 TTAAGATAAA
*
14292240 ATAATATTATTTAATCTAATTTTATTC
1 ATAATATTATTTAATCTAATCTTA-TC
14292267 ATAATATTATCTT-ATC-ATATCTTATC
1 ATAATATTAT-TTAATCTA-ATCTTATC
*
14292293 ATAATTTTAT
1 ATAATATTAT
14292303 ATATCAAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 12 0.38
27 18 0.56
28 2 0.06
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.54
Consensus pattern (26 bp):
ATAATATTATTTAATCTAATCTTATC
Found at i:14295435 original size:10 final size:11
Alignment explanation
Indices: 14295378--14295436 Score: 50
Period size: 11 Copynumber: 5.3 Consensus size: 11
14295368 TATTAAAATA
14295378 TTAAAATAA-T
1 TTAAAATAATT
14295388 TTAAGAATAATT
1 TTAA-AATAATT
* *
14295400 AATTAAATTATTT
1 --TTAAAATAATT
*
14295413 TTAAAATATTT
1 TTAAAATAATT
14295424 TTAAAA-AATT
1 TTAAAATAATT
14295434 TTA
1 TTA
14295437 CTAAATTTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
10 10 0.24
11 21 0.51
12 1 0.02
13 5 0.12
14 4 0.10
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (11 bp):
TTAAAATAATT
Found at i:14295556 original size:10 final size:10
Alignment explanation
Indices: 14295541--14295568 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
14295531 TAAATCAAAA
14295541 AAATTTTAAT
1 AAATTTTAAT
14295551 AAATTTTAAT
1 AAATTTTAAT
14295561 AAATTTTA
1 AAATTTTA
14295569 TGATCTACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
AAATTTTAAT
Found at i:14300029 original size:23 final size:22
Alignment explanation
Indices: 14299997--14300047 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
14299987 TATTTGAATT
*
14299997 TTTTAATTTAAAATTATTAAAAA
1 TTTTATTTTAAAATTATT-AAAA
* *
14300020 TTTTATTTTAGATTTATTAAAA
1 TTTTATTTTAAAATTATTAAAA
14300042 TTTTAT
1 TTTTAT
14300048 ATCATAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 10 0.40
23 15 0.60
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTTATTTTAAAATTATTAAAA
Found at i:14300133 original size:2 final size:2
Alignment explanation
Indices: 14300128--14300161 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
14300118 AATACGTGTG
14300128 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14300162 AAGATGGTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14301546 original size:11 final size:10
Alignment explanation
Indices: 14301505--14301548 Score: 54
Period size: 10 Copynumber: 4.3 Consensus size: 10
14301495 TTAAGATTCA
14301505 TTTATATTTG
1 TTTATATTTG
*
14301515 TTTGA-ATTTA
1 TTT-ATATTTG
14301525 TTTATATTTG
1 TTTATATTTG
14301535 TTTATAATTTG
1 TTTAT-ATTTG
14301546 TTT
1 TTT
14301549 GTTTAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
9 1 0.03
10 19 0.66
11 9 0.31
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.68
Consensus pattern (10 bp):
TTTATATTTG
Found at i:14301557 original size:14 final size:15
Alignment explanation
Indices: 14301529--14301577 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
14301519 AATTTATTTA
14301529 TATTTGTTTATAATT
1 TATTTGTTTATAATT
*
14301544 TGTTTGTTTA-AATT
1 TATTTGTTTATAATT
*
14301558 TATTTGGTTATAATT
1 TATTTGTTTATAATT
14301573 TATTT
1 TATTT
14301578 ATTGTTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
14 12 0.40
15 18 0.60
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.65
Consensus pattern (15 bp):
TATTTGTTTATAATT
Found at i:14302293 original size:21 final size:21
Alignment explanation
Indices: 14302267--14302313 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
14302257 GATCTAGAAG
*
14302267 ATGATGATTTTTTTTATGATT
1 ATGATGATTATTTTTATGATT
14302288 ATGATGATTATTTTTATGATT
1 ATGATGATTATTTTTATGATT
14302309 ATGAT
1 ATGAT
14302314 CAAAGACAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (21 bp):
ATGATGATTATTTTTATGATT
Found at i:14307540 original size:16 final size:16
Alignment explanation
Indices: 14307521--14307556 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
14307511 CTTAATTTTT
14307521 ATATAATATTATATAA
1 ATATAATATTATATAA
* *
14307537 ATATAATATTTTATAC
1 ATATAATATTATATAA
14307553 ATAT
1 ATAT
14307557 GATTACACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATAATATTATATAA
Found at i:14308057 original size:36 final size:38
Alignment explanation
Indices: 14307998--14308078 Score: 112
Period size: 37 Copynumber: 2.2 Consensus size: 38
14307988 TTTTATAATT
* * *
14307998 ATTTTAAAATATGATATTTAATAAATTTTG-AGTTTAA
1 ATTTTAAAATATAAAATTTAATAAATTTTGAAGCTTAA
14308035 ATTTTAAAA-ATAAAATTTAATAAATTTTGAAGCTTAA
1 ATTTTAAAATATAAAATTTAATAAATTTTGAAGCTTAA
*
14308072 ATCTTAA
1 ATTTTAA
14308079 CACATGTAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 18 0.46
37 21 0.54
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.44
Consensus pattern (38 bp):
ATTTTAAAATATAAAATTTAATAAATTTTGAAGCTTAA
Found at i:14308436 original size:21 final size:21
Alignment explanation
Indices: 14308410--14308472 Score: 108
Period size: 21 Copynumber: 3.0 Consensus size: 21
14308400 TTATTTTATT
14308410 TTATCTTATCTTATTATAATA
1 TTATCTTATCTTATTATAATA
14308431 TTATCTTATCTTATTCATAATA
1 TTATCTTATCTTATT-ATAATA
*
14308453 TTATTTTATCTTATTATAAT
1 TTATCTTATCTTATTATAAT
14308473 TATATATATA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
21 20 0.50
22 20 0.50
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.59
Consensus pattern (21 bp):
TTATCTTATCTTATTATAATA
Found at i:14309149 original size:35 final size:37
Alignment explanation
Indices: 14309110--14309180 Score: 94
Period size: 35 Copynumber: 2.0 Consensus size: 37
14309100 ATAAATATCG
*
14309110 ATTTAAATTTAATATTATT-ATCTAAAT-T-CGAATCT
1 ATTTAAA-TAAATATTATTCATCTAAATATCCGAATCT
*
14309145 ATTTAAATAAATATTATTCATTTAAATATCCGAATC
1 ATTTAAATAAATATTATTCATCTAAATATCCGAATC
14309181 AATGGTTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 10 0.32
35 14 0.45
36 1 0.03
37 6 0.19
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.45
Consensus pattern (37 bp):
ATTTAAATAAATATTATTCATCTAAATATCCGAATCT
Found at i:14324321 original size:17 final size:18
Alignment explanation
Indices: 14324290--14324329 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
14324280 AAATTAATTA
14324290 AATTATTATTTTTTTGTT
1 AATTATTATTTTTTTGTT
14324308 AATTATTA-TTTTTTGTT
1 AATTATTATTTTTTTGTT
14324325 AATTA
1 AATTA
14324330 CAAGGGGAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (18 bp):
AATTATTATTTTTTTGTT
Found at i:14327660 original size:21 final size:23
Alignment explanation
Indices: 14327620--14327671 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 23
14327610 TAATTATTTT
*
14327620 ATATATAAAA--TTATTTAAAT-
1 ATATATAAAATTTTATTAAAATA
14327640 ATAT-TAAAATTTTATTAAAATA
1 ATATATAAAATTTTATTAAAATA
14327662 ATATATAAAA
1 ATATATAAAA
14327672 ACAAAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 5 0.19
20 4 0.15
21 9 0.33
22 4 0.15
23 5 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
ATATATAAAATTTTATTAAAATA
Found at i:14331083 original size:31 final size:31
Alignment explanation
Indices: 14331008--14331084 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
14330998 AAATAGTTTC
* * **
14331008 ATATCATTTTAAAAAATTAAATAAAAAATTTT
1 ATATCGTTTT-AAAAATTAAATAAAAAACTCA
* **
14331040 ATATTGGCTTAAAAATTAAATAAAAAACTCA
1 ATATCGTTTTAAAAATTAAATAAAAAACTCA
14331071 ATATCGTTTTAAAA
1 ATATCGTTTTAAAA
14331085 TGCTAAGTAG
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
31 29 0.83
32 6 0.17
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.36
Consensus pattern (31 bp):
ATATCGTTTTAAAAATTAAATAAAAAACTCA
Found at i:14335582 original size:33 final size:33
Alignment explanation
Indices: 14335528--14335593 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
14335518 TCTCACCACT
* *
14335528 CATCCAAATTAAGTATCAGTGAAAAAGAAATGA
1 CATCCAAATGAAGCATCAGTGAAAAAGAAATGA
* *
14335561 CATCCAAATGAAGCATTAGTGAAAAGGAAATGA
1 CATCCAAATGAAGCATCAGTGAAAAAGAAATGA
14335594 ATCGTGGGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.20
Consensus pattern (33 bp):
CATCCAAATGAAGCATCAGTGAAAAAGAAATGA
Found at i:14336933 original size:49 final size:49
Alignment explanation
Indices: 14336880--14336977 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
14336870 CAAAACATCT
*
14336880 TATTTATAAGGGTTAAACCCTTTATACTTTTACTAAATTTTCGATGTGG
1 TATTTATAAGGGTTAAACCCCTTATACTTTTACTAAATTTTCGATGTGG
14336929 TATTTATAAGGGTTAAACCCCTTATACTTTTACTAAATTTTCGATGTGG
1 TATTTATAAGGGTTAAACCCCTTATACTTTTACTAAATTTTCGATGTGG
14336978 GATACTGGAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (49 bp):
TATTTATAAGGGTTAAACCCCTTATACTTTTACTAAATTTTCGATGTGG
Found at i:14338214 original size:46 final size:46
Alignment explanation
Indices: 14338147--14338257 Score: 186
Period size: 46 Copynumber: 2.4 Consensus size: 46
14338137 CTAGCGCCAA
** *
14338147 TCTAATAGTACTAGCAGCTTTCTTTTGAATCCTATTCCAATTAGCG
1 TCTAATAGTACTAAAACCTTTCTTTTGAATCCTATTCCAATTAGCG
*
14338193 TCTAATAGTACTAAAACCTTTCTTTTGAATCTTATTCCAATTAGCG
1 TCTAATAGTACTAAAACCTTTCTTTTGAATCCTATTCCAATTAGCG
14338239 TCTAATAGTACTAAAACCT
1 TCTAATAGTACTAAAACCT
14338258 CGAACCTCGC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 61 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.39
Consensus pattern (46 bp):
TCTAATAGTACTAAAACCTTTCTTTTGAATCCTATTCCAATTAGCG
Found at i:14338402 original size:76 final size:76
Alignment explanation
Indices: 14338276--14338417 Score: 230
Period size: 76 Copynumber: 1.9 Consensus size: 76
14338266 GCTTTGATAC
* * *
14338276 CACTTGTTGGGAAAAATAAAACAGTAAGCTCAAATAAAAAATAAGAACACATAAATTTATTTGGT
1 CACTTATTGGGAAAAATAAAACAGTAAGCTCAAATAAAAAATAAGAACACACAAATATATTTGGT
14338341 TGCTCTGGTAT
66 TGCTCTGGTAT
* * *
14338352 CACTTATTGGGAAAAATAAAATAGTAAGCTCAAATCAAGAATAAGAACACACAAATATATTTGGT
1 CACTTATTGGGAAAAATAAAACAGTAAGCTCAAATAAAAAATAAGAACACACAAATATATTTGGT
14338417 T
66 T
14338418 CGGTCCAACT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
76 60 1.00
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.27
Consensus pattern (76 bp):
CACTTATTGGGAAAAATAAAACAGTAAGCTCAAATAAAAAATAAGAACACACAAATATATTTGGT
TGCTCTGGTAT
Found at i:14343436 original size:29 final size:29
Alignment explanation
Indices: 14343391--14343448 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
14343381 ATCATAAGTC
14343391 ATATAAATAAAAAATAAAAAAATATTTAA
1 ATATAAATAAAAAATAAAAAAATATTTAA
**
14343420 ATAT-AATAAAAATATAAAAATTTATTTAA
1 ATATAAATAAAAA-ATAAAAAAATATTTAA
14343449 GTAATAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (29 bp):
ATATAAATAAAAAATAAAAAAATATTTAA
Found at i:14343440 original size:19 final size:18
Alignment explanation
Indices: 14343397--14343440 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
14343387 AGTCATATAA
14343397 ATAAAAA-ATAAAAAAAT
1 ATAAAAATATAAAAAAAT
**
14343414 ATTTAAATATAATAAAAAT
1 ATAAAAATATAA-AAAAAT
14343433 ATAAAAAT
1 ATAAAAAT
14343441 TTATTTAAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 5 0.24
18 4 0.19
19 12 0.57
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
ATAAAAATATAAAAAAAT
Found at i:14355409 original size:31 final size:32
Alignment explanation
Indices: 14355349--14355410 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
14355339 TGACTCAACT
* * * *
14355349 TGAATTCATATATATATTATTTTATATATATG
1 TGAATTCATATATAAATTAATTCACATATATG
14355381 TGAATT-ATATATAAATTAATTCACATATAT
1 TGAATTCATATATAAATTAATTCACATATAT
14355411 ATACAAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 20 0.77
32 6 0.23
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (32 bp):
TGAATTCATATATAAATTAATTCACATATATG
Found at i:14355468 original size:13 final size:13
Alignment explanation
Indices: 14355452--14355501 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
14355442 TTTATTAAGC
14355452 TTAATTATTATTT
1 TTAATTATTATTT
*
14355465 TTAAGTTA-TATAT
1 TTAA-TTATTATTT
*
14355478 ATAATTATTATTT
1 TTAATTATTATTT
*
14355491 TTAATTTTTAT
1 TTAATTATTAT
14355502 ATATTTAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
12 3 0.10
13 24 0.80
14 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (13 bp):
TTAATTATTATTT
Found at i:14355486 original size:26 final size:26
Alignment explanation
Indices: 14355453--14355505 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
14355443 TTATTAAGCT
14355453 TAATTATTATTTTTAAGTTATATATA
1 TAATTATTATTTTTAAGTTATATATA
* *
14355479 TAATTATTATTTTTAATTTTTATATA
1 TAATTATTATTTTTAAGTTATATATA
14355505 T
1 T
14355506 TTAAATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (26 bp):
TAATTATTATTTTTAAGTTATATATA
Found at i:14357196 original size:32 final size:32
Alignment explanation
Indices: 14357160--14357233 Score: 105
Period size: 32 Copynumber: 2.3 Consensus size: 32
14357150 TTCGTATAAA
* *
14357160 ATATAAAAATT-TTTATATTTATATCATATTTT
1 ATATAAAAATTATTTAT-TATAAATCATATTTT
14357192 ATATAAAAATTATTTATTATAAATCATATTTT
1 ATATAAAAATTATTTATTATAAATCATATTTT
*
14357224 AAATAAAAAT
1 ATATAAAAAT
14357234 ATAAAATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 33 0.87
33 5 0.13
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (32 bp):
ATATAAAAATTATTTATTATAAATCATATTTT
Found at i:14358126 original size:31 final size:28
Alignment explanation
Indices: 14358091--14358147 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 28
14358081 ATATATTTTT
14358091 AAATTTTATTAAATATATATAATTTTTATCA
1 AAATTTTA--AAATATATAT-ATTTTTATCA
*
14358122 AAATTTTAAATTATATATATTTTTAT
1 AAATTTTAAAATATATATATTTTTAT
14358148 TTTTTTATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 8 0.32
29 9 0.36
31 8 0.32
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (28 bp):
AAATTTTAAAATATATATATTTTTATCA
Found at i:14359277 original size:25 final size:26
Alignment explanation
Indices: 14359246--14359295 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
14359236 TAAACTCAAA
** *
14359246 ATTTTAATTAATTAAT-TTATATAAT
1 ATTTTAAAAAATTAATATTAAATAAT
14359271 ATTTTAAAAAATTAATATTAAATAA
1 ATTTTAAAAAATTAATATTAAATAA
14359296 AATTAAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
ATTTTAAAAAATTAATATTAAATAAT
Found at i:14359288 original size:16 final size:16
Alignment explanation
Indices: 14359267--14359309 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
14359257 TTAATTTATA
14359267 TAATATTTTAAAAAAT
1 TAATATTTTAAAAAAT
*
14359283 TAATA-TTAAATAAAAT
1 TAATATTTTAA-AAAAT
14359299 TAA-ATTTTAAA
1 TAATATTTTAAA
14359310 TCTTAACATT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TAATATTTTAAAAAAT
Found at i:14369702 original size:24 final size:24
Alignment explanation
Indices: 14369656--14369708 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
14369646 TTTTAAATTT
*
14369656 TTAATATTTGATTTAAAATTAAAA
1 TTAATATATGATTTAAAATTAAAA
* *
14369680 TTAATATAT-ATTTAATATCTAAAT
1 TTAATATATGATTTAAAAT-TAAAA
14369704 TTAAT
1 TTAAT
14369709 TCAAATCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (24 bp):
TTAATATATGATTTAAAATTAAAA
Found at i:14377268 original size:15 final size:15
Alignment explanation
Indices: 14377243--14377281 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
14377233 ATAAATGAAT
*
14377243 AATATTATATTAATA
1 AATAATATATTAATA
*
14377258 AATCATATATTAATA
1 AATAATATATTAATA
14377273 AATAATATA
1 AATAATATA
14377282 AAGAATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
AATAATATATTAATA
Found at i:14377388 original size:15 final size:15
Alignment explanation
Indices: 14377368--14377408 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
14377358 TATAATTATT
*
14377368 TTTTAATATTAATAA
1 TTTTAATATAAATAA
14377383 TTTTAATAATAAATAA
1 TTTTAAT-ATAAATAA
14377399 TTTTAATATA
1 TTTTAATATA
14377409 TTTTAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTTTAATATAAATAA
Found at i:14377399 original size:36 final size:37
Alignment explanation
Indices: 14377331--14377433 Score: 93
Period size: 36 Copynumber: 2.6 Consensus size: 37
14377321 TAACATAATA
* * *
14377331 TTTTCATATTAAATATTTTTACTAAAATATAATTATT
1 TTTTAATATTAAATAATTTTAATAAAATATAATTATT
14377368 TTTTAATATT-AATAATTTTAATAATAA-ATAATTTTAATAT
1 TTTTAATATTAAATAATTTTAATAA-AATATAA--TT-AT-T
*
14377408 ATTTTAATAATAAATAATTTTTAATA
1 -TTTTAATATTAAATAA-TTTTAATA
14377434 TTTTAATAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
36 16 0.30
37 11 0.20
38 2 0.04
39 2 0.04
40 1 0.02
41 9 0.17
42 5 0.09
43 8 0.15
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (37 bp):
TTTTAATATTAAATAATTTTAATAAAATATAATTATT
Found at i:14377411 original size:10 final size:9
Alignment explanation
Indices: 14377371--14377444 Score: 68
Period size: 9 Copynumber: 8.6 Consensus size: 9
14377361 AATTATTTTT
*
14377371 TAATATTAA
1 TAATTTTAA
14377380 TAATTTTAA
1 TAATTTTAA
*
14377389 TAA--TAAA
1 TAATTTTAA
14377396 TAATTTTAA
1 TAATTTTAA
14377405 TATATTTTAA
1 TA-ATTTTAA
*
14377415 TAA--TAAA
1 TAATTTTAA
14377422 TAATTTTTAA
1 TAA-TTTTAA
14377432 T-ATTTTAA
1 TAATTTTAA
14377440 TAATT
1 TAATT
14377445 ATATTAATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
7 12 0.23
8 7 0.13
9 21 0.40
10 13 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (9 bp):
TAATTTTAA
Found at i:14377411 original size:26 final size:26
Alignment explanation
Indices: 14377371--14377443 Score: 114
Period size: 25 Copynumber: 2.9 Consensus size: 26
14377361 AATTATTTTT
*
14377371 TAATATTAATA-ATTTTAATAATAAA
1 TAATTTTAATATATTTTAATAATAAA
14377396 TAATTTTAATATATTTTAATAATAAA
1 TAATTTTAATATATTTTAATAATAAA
*
14377422 TAATTTTTA-ATATTTTAATAAT
1 TAATTTTAATATATTTTAATAAT
14377444 TATATTAATA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
25 23 0.51
26 22 0.49
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
TAATTTTAATATATTTTAATAATAAA
Found at i:14377427 original size:16 final size:16
Alignment explanation
Indices: 14377368--14377433 Score: 65
Period size: 15 Copynumber: 4.5 Consensus size: 16
14377358 TATAATTATT
*
14377368 TTTTAAT-ATTAATAA
1 TTTTAATAATAAATAA
14377383 TTTTAATAATAAATAA
1 TTTTAATAATAAATAA
14377399 -TTT--TAAT--AT-A
1 TTTTAATAATAAATAA
14377409 TTTTAATAATAAATAA
1 TTTTAATAATAAATAA
14377425 TTTTTAATA
1 -TTTTAATA
14377434 TTTTAATAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 14
0.74 0.02 0.25
Matches are distributed among these distances:
10 1 0.02
11 5 0.12
13 8 0.19
15 12 0.29
16 8 0.19
17 8 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTAATAATAAATAA
Found at i:14377529 original size:28 final size:28
Alignment explanation
Indices: 14377497--14377553 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
14377487 ATAACGAAAA
14377497 ATATTTTTTATTAATTCATTCAAATAAT
1 ATATTTTTTATTAATTCATTCAAATAAT
14377525 ATATTTTTTATTAATTCATTCAAATAAT
1 ATATTTTTTATTAATTCATTCAAATAAT
14377553 A
1 A
14377554 GAAACTCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (28 bp):
ATATTTTTTATTAATTCATTCAAATAAT
Found at i:14384297 original size:7 final size:7
Alignment explanation
Indices: 14384285--14384311 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
14384275 TATCAATCAA
14384285 ATTATTT
1 ATTATTT
14384292 ATTATTT
1 ATTATTT
14384299 ATTATTT
1 ATTATTT
14384306 ATTATT
1 ATTATT
14384312 ACTACTTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
ATTATTT
Found at i:14389695 original size:22 final size:23
Alignment explanation
Indices: 14389661--14389705 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
14389651 CTATTAGATT
14389661 ATTGTTGATGTGAGTAAT-ATGTG
1 ATTGTTGATGTGA-TAATGATGTG
14389684 ATTGTT-ATGTGATAATGATGTG
1 ATTGTTGATGTGATAATGATGTG
14389706 TCTATCGCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.19
22 11 0.52
23 6 0.29
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (23 bp):
ATTGTTGATGTGATAATGATGTG
Found at i:14389781 original size:34 final size:33
Alignment explanation
Indices: 14389742--14389843 Score: 116
Period size: 34 Copynumber: 3.0 Consensus size: 33
14389732 AAATAAAAAA
* *
14389742 ATATTTTTAAGCACAAACGTCATTAAATTTAGCG
1 ATATTTTTAA-TACAAACGTCACTAAATTTAGCG
* * *
14389776 GTATTTTCTGATACAAATGTCACTAAATTTAGCG
1 ATATTTT-TAATACAAACGTCACTAAATTTAGCG
*
14389810 ATATTTTTTTATACAAACGTC-CTAAATTTAGCG
1 ATA-TTTTTAATACAAACGTCACTAAATTTAGCG
14389843 A
1 A
14389844 CGTTTGTACT
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
33 13 0.22
34 39 0.67
35 6 0.10
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (33 bp):
ATATTTTTAATACAAACGTCACTAAATTTAGCG
Found at i:14389840 original size:33 final size:34
Alignment explanation
Indices: 14389754--14389843 Score: 128
Period size: 34 Copynumber: 2.7 Consensus size: 34
14389744 ATTTTTAAGC
* *
14389754 ACAAACGTCATTAAATTTAGCGGTATTTTCTGAT
1 ACAAACGTCACTAAATTTAGCGATATTTTCTGAT
* * *
14389788 ACAAATGTCACTAAATTTAGCGATATTTTTTTAT
1 ACAAACGTCACTAAATTTAGCGATATTTTCTGAT
14389822 ACAAACGTC-CTAAATTTAGCGA
1 ACAAACGTCACTAAATTTAGCGA
14389844 CGTTTGTACT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
33 13 0.26
34 37 0.74
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.37
Consensus pattern (34 bp):
ACAAACGTCACTAAATTTAGCGATATTTTCTGAT
Found at i:14397498 original size:19 final size:19
Alignment explanation
Indices: 14397476--14397514 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
14397466 AAATTATAAA
*
14397476 TAATATTTTAATAATTTTT
1 TAATATATTAATAATTTTT
* *
14397495 TAATATATTATTGATTTTT
1 TAATATATTAATAATTTTT
14397514 T
1 T
14397515 CATTGAATTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (19 bp):
TAATATATTAATAATTTTT
Found at i:14398751 original size:18 final size:18
Alignment explanation
Indices: 14398725--14398775 Score: 86
Period size: 18 Copynumber: 2.8 Consensus size: 18
14398715 ATTATTTAAT
14398725 TTTAA-ATTTAAAATATA
1 TTTAATATTTAAAATATA
14398742 TTTAATATTTAAAATATA
1 TTTAATATTTAAAATATA
14398760 TTTAATATTATAAAAT
1 TTTAATATT-TAAAAT
14398776 TTTAACATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.16
18 21 0.66
19 6 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTAATATTTAAAATATA
Found at i:14400864 original size:51 final size:51
Alignment explanation
Indices: 14400780--14400880 Score: 150
Period size: 51 Copynumber: 2.0 Consensus size: 51
14400770 TAGACATAAG
* *
14400780 ACTTACAAAAAAAAATTTTAAGATAAAAGAGATTCTTAATAGGCAAGTTTA
1 ACTTACAAAAAAAAATTTTAAGAGAAAAGAGATTCTTAATAAGCAAGTTTA
**
14400831 ACTTACAAAAAAGTATTTTAAGAGGAAAA-AGATTCTTAATAAGCAAGTTT
1 ACTTACAAAAAAAAATTTTAAGA-GAAAAGAGATTCTTAATAAGCAAGTTT
14400881 GTATAGTTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 41 0.91
52 4 0.09
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.30
Consensus pattern (51 bp):
ACTTACAAAAAAAAATTTTAAGAGAAAAGAGATTCTTAATAAGCAAGTTTA
Found at i:14400975 original size:90 final size:90
Alignment explanation
Indices: 14400869--14401051 Score: 285
Period size: 90 Copynumber: 2.0 Consensus size: 90
14400859 AAGATTCTTA
* * * * *
14400869 ATAAGCAAGTTTGTATAGTTATAAATAGGTAAAGTCTCTACAGAATTATATATGAGAAAAAGATG
1 ATAAACAAGTTTGTATAGTTATAAATAGATAAAGTCTCTACAGAATTAGATATAAGAAAAAAATG
*
14400934 TAAGAGAGTTAGAAAGTTTTGTGGG
66 TAAGAGAGTGAGAAAGTTTTGTGGG
* *
14400959 ATAAACAAGTTTGTATAGTTATAAATAGATAAAGTCTCTACAGAGTTAGGTATAAGAAAAAAATG
1 ATAAACAAGTTTGTATAGTTATAAATAGATAAAGTCTCTACAGAATTAGATATAAGAAAAAAATG
*
14401024 TAAGAGAGTGATAAAGTTTTGTGGG
66 TAAGAGAGTGAGAAAGTTTTGTGGG
14401049 ATA
1 ATA
14401052 GACACCCATA
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
90 84 1.00
ACGTcount: A:0.43, C:0.04, G:0.22, T:0.31
Consensus pattern (90 bp):
ATAAACAAGTTTGTATAGTTATAAATAGATAAAGTCTCTACAGAATTAGATATAAGAAAAAAATG
TAAGAGAGTGAGAAAGTTTTGTGGG
Found at i:14402184 original size:22 final size:23
Alignment explanation
Indices: 14402148--14402191 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
14402138 ATTGAACTAT
14402148 ATCAATTAAAATAAAAAATCTAA
1 ATCAATTAAAATAAAAAATCTAA
* *
14402171 ATCAA-TAAATTAAAAGATCTA
1 ATCAATTAAAATAAAAAATCTA
14402192 GTTGTATAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.27
Consensus pattern (23 bp):
ATCAATTAAAATAAAAAATCTAA
Found at i:14404937 original size:16 final size:15
Alignment explanation
Indices: 14404892--14404940 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 15
14404882 AAAATTATTT
*
14404892 AATTTTAAATTTAAA
1 AATTTTAAATTTTAA
14404907 ATATATTTAATATTTTAA
1 A-AT-TTTAA-ATTTTAA
14404925 AATTTTAACATTTTAA
1 AATTTTAA-ATTTTAA
14404941 TAATAAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
15 1 0.03
16 14 0.48
17 7 0.24
18 7 0.24
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (15 bp):
AATTTTAAATTTTAA
Found at i:14408910 original size:2 final size:2
Alignment explanation
Indices: 14408898--14408926 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
14408888 GTATGTTGTA
14408898 AT AT A- 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
14408927 TTCTAAATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14410926 original size:18 final size:18
Alignment explanation
Indices: 14410903--14410939 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
14410893 TAAATGAGTT
14410903 TAAAAGAAA-AAGAAAAAC
1 TAAAAGAAAGAA-AAAAAC
14410921 TAAAAGAAAGAAAAAAAC
1 TAAAAGAAAGAAAAAAAC
14410939 T
1 T
14410940 GTACCTAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.76, C:0.05, G:0.11, T:0.08
Consensus pattern (18 bp):
TAAAAGAAAGAAAAAAAC
Found at i:14411502 original size:18 final size:16
Alignment explanation
Indices: 14411474--14411513 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 16
14411464 TATTTATAAA
14411474 AAATATATTTAAAATTATT
1 AAAT-TATTT-AAATT-TT
14411493 AAATTATTTAAATTTT
1 AAATTATTTAAATTTT
14411509 AAATT
1 AAATT
14411514 TTAATGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.33
17 5 0.24
18 5 0.24
19 4 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAATTATTTAAATTTT
Found at i:14412228 original size:244 final size:251
Alignment explanation
Indices: 14411778--14412257 Score: 681
Period size: 250 Copynumber: 1.9 Consensus size: 251
14411768 AATTTCAAGA
14411778 AAGTTTCTCCTATACATCACCCCATCTCAATTTAAAACCAATTTTAAAGTAATTTATCTTTTTCA
1 AAGTTTCTCCTATACATCACCCCATCTCAATTTAAAACCAATTTTAAAGTAATTTATCTTTTTCA
* * * *
14411843 ATTTATTTGTAATTAACATGACTAGTTAAATTTATTACAACTTTTAAAAATATTATTTAATATCT
66 ATTTATGTCTAATAAACATGACTAGTTAAATTTATCACAACTTTTAAAAATATTATTTAATATCT
* *
14411908 TTAATATTTTTTTATAAATAATCCTTACATTATCTTCAATTTTTAAATACATTTCACAAAGAAAA
131 TTAATATTTTTTTAAAAATAATACTTACATTATCTTCAATTTTTAAATACATTTCACAAAGAAAA
* *
14411973 TATGAAAAAAAT-ATATAAATACCAAAACAACTTCTGAAAAGTTTCTCCTTACATC
196 TATAAAAAAAATAATATAAATACCAAAACAACTTCAGAAAAGTTTCTCCTTACATC
* * * * * *
14412028 AAGTTTCTCCTGTATATCATCCCATTTCAATTTAAAACTAATTTTAAAGTAATTTATCTTTTTTA
1 AAGTTTCTCCTATACATCACCCCATCTCAATTTAAAACCAATTTTAAAGTAATTTATCTTTTTCA
* *
14412093 A-TT-TGTCT-ATAAACATGAGTATTTAAATTTATCACAACTTTTAAAAATATTATTTAATATCT
66 ATTTATGTCTAATAAACATGACTAGTTAAATTTATCACAACTTTTAAAAATATTATTTAATATCT
* * * *
14412155 TT-A-A-TTTTTTAAAAATAATACTTGCATTATCTTTAGTTTTTAAATATATTTCACAAA-AAAA
131 TTAATATTTTTTTAAAAATAATACTTACATTATCTTCAATTTTTAAATACATTTCACAAAGAAAA
* *
14412216 TGCA-AAAAAAAATAATATAAATACGAGAACAACTTCAGAAAA
196 T--ATAAAAAAAATAATATAAATACCAAAACAACTTCAGAAAA
14412258 ACCCTCATTT
Statistics
Matches: 205, Mismatches: 22, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
243 5 0.02
244 55 0.27
245 27 0.13
246 1 0.00
247 52 0.25
248 3 0.01
249 2 0.01
250 60 0.29
ACGTcount: A:0.41, C:0.13, G:0.04, T:0.41
Consensus pattern (251 bp):
AAGTTTCTCCTATACATCACCCCATCTCAATTTAAAACCAATTTTAAAGTAATTTATCTTTTTCA
ATTTATGTCTAATAAACATGACTAGTTAAATTTATCACAACTTTTAAAAATATTATTTAATATCT
TTAATATTTTTTTAAAAATAATACTTACATTATCTTCAATTTTTAAATACATTTCACAAAGAAAA
TATAAAAAAAATAATATAAATACCAAAACAACTTCAGAAAAGTTTCTCCTTACATC
Found at i:14413455 original size:23 final size:21
Alignment explanation
Indices: 14413413--14413459 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
14413403 TAACATTTTT
14413413 TTATTTCAAAAAAGGGTCAAA
1 TTATTTCAAAAAAGGGTCAAA
* *
14413434 TTATCTTCTAAAAAATGTTCAAA
1 TTAT-TTC-AAAAAAGGGTCAAA
14413457 TTA
1 TTA
14413460 AATTAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 3 0.14
23 15 0.68
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.36
Consensus pattern (21 bp):
TTATTTCAAAAAAGGGTCAAA
Found at i:14413590 original size:2 final size:2
Alignment explanation
Indices: 14413578--14413630 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
14413568 TTCAATTACT
*
14413578 AC AC TC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
14413620 AC AC AC AC AC A
1 AC AC AC AC AC A
14413631 TATATACCTC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.49, G:0.00, T:0.02
Consensus pattern (2 bp):
AC
Found at i:14417592 original size:25 final size:25
Alignment explanation
Indices: 14417562--14417639 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
14417552 AATTCAATGA
14417562 AACAATATGCATGACTTCAATAATT
1 AACAATATGCATGACTTCAATAATT
* * *
14417587 AACAATGA-G-ATTATTTC-CT--TT
1 AACAAT-ATGCATGACTTCAATAATT
14417608 -ACAAATATGCATGACTTCAATAATT
1 AAC-AATATGCATGACTTCAATAATT
14417633 AACAATA
1 AACAATA
14417640 AAATTGTCTT
Statistics
Matches: 39, Mismatches: 6, Indels: 16
0.64 0.10 0.26
Matches are distributed among these distances:
20 3 0.08
21 6 0.15
22 6 0.15
23 2 0.05
24 6 0.15
25 13 0.33
26 3 0.08
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (25 bp):
AACAATATGCATGACTTCAATAATT
Found at i:14418675 original size:19 final size:19
Alignment explanation
Indices: 14418653--14418696 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
14418643 TTAACTTAAG
14418653 AAAGTTGTTTTAAAAGAAC
1 AAAGTTGTTTTAAAAGAAC
14418672 AAAGTTGTTTTAAAAGAAC
1 AAAGTTGTTTTAAAAGAAC
14418691 AAAGTT
1 AAAGTT
14418697 TTTCAACATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.48, C:0.05, G:0.16, T:0.32
Consensus pattern (19 bp):
AAAGTTGTTTTAAAAGAAC
Found at i:14419651 original size:2 final size:2
Alignment explanation
Indices: 14419634--14419669 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
14419624 GTATGTTGTA
14419634 AT AT A- AT AT A- 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
14419670 TTCTAAATGG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14421647 original size:23 final size:21
Alignment explanation
Indices: 14421604--14421650 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
14421594 GGCTTAAAAC
*
14421604 TTTAAAAAAATCATAAATATA
1 TTTAAAAAAATCAAAAATATA
*
14421625 TTTAATAAAATCAAAAAATTATA
1 TTTAAAAAAATC-AAAAA-TATA
14421648 TTT
1 TTT
14421651 TATATTTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 4 0.18
23 7 0.32
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
TTTAAAAAAATCAAAAATATA
Found at i:14421803 original size:2 final size:2
Alignment explanation
Indices: 14421796--14421831 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
14421786 ACAGGCTGTT
*
14421796 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14421832 AAAGTTCACC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:14423314 original size:232 final size:234
Alignment explanation
Indices: 14422903--14423357 Score: 657
Period size: 232 Copynumber: 2.0 Consensus size: 234
14422893 ACATCACCTT
* *
14422903 ATCTTAATTTAAAACTAATTTTAAACTAATTTATCTTTTCTAATTTATCTAAAGTTAAAATGAAT
1 ATCTCAATTTAAAACCAATTTTAAACTAATTTATCTTTTCTAATTTATCTAAAGTTAAAATGAAT
* * * *
14422968 ATTTAAATTTATCACAATTTTTAAAAGTATTATTTAATATCTTTAATATTTTTGATAAATATTCC
66 AGTTAAATTTATCACAACTTTTAAAAATATTATTTAATATCTTTAATATTTTTGATAAATAATCC
** * * * * * *
14423033 TTGTATTATCTTTAGTTTTTAAATATATTTCACAAAGGAAATGTGAAAAA-AATATATAAATATC
131 TTACATTATCTTCAATTTTTAAATACATTTCACAAAGAAAATATGAAAAATAATATATAAATACC
* *
14423097 AGAACAA-TTTCAGGAAAGTTTCTCCTATATATCACCCC
196 AAAAAAACTTTCAGGAAAGTTTCTCCTATATATCACCCC
* * *
14423135 ATCTCAATTTAAAACCAATTTTAAAGTAATTTATCTATTTC-AATTTATCTGTAA-TTAACATGA
1 ATCTCAATTTAAAACCAATTTTAAACTAATTTATCT-TTTCTAATTTATCT-AAAGTTAAAATGA
* * *
14423198 GTAGTTAAATTTATTACAACTTTTAAAAATATTATTTAATATCTTTAATATTTTTTATAAATAAT
64 ATAGTTAAATTTATCACAACTTTTAAAAATATTATTTAATATCTTTAATATTTTTGATAAATAAT
*
14423263 CCTTACATTATCTTCAATTTTTAAATACATTTCACAAAGAAAATATGAAAAATTATATATAAATA
129 CCTTACATTATCTTCAATTTTTAAATACATTTCACAAAGAAAATATGAAAAATAATATATAAATA
14423328 CCAAAAAAACTTTCAGGAAAGTTTCTCCTA
194 CCAAAAAAACTTTCAGGAAAGTTTCTCCTA
14423358 CATCAAGTTT
Statistics
Matches: 196, Mismatches: 23, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
232 153 0.78
233 23 0.12
234 20 0.10
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.42
Consensus pattern (234 bp):
ATCTCAATTTAAAACCAATTTTAAACTAATTTATCTTTTCTAATTTATCTAAAGTTAAAATGAAT
AGTTAAATTTATCACAACTTTTAAAAATATTATTTAATATCTTTAATATTTTTGATAAATAATCC
TTACATTATCTTCAATTTTTAAATACATTTCACAAAGAAAATATGAAAAATAATATATAAATACC
AAAAAAACTTTCAGGAAAGTTTCTCCTATATATCACCCC
Found at i:14424644 original size:2 final size:2
Alignment explanation
Indices: 14424632--14424706 Score: 141
Period size: 2 Copynumber: 37.5 Consensus size: 2
14424622 TTCAATTACT
*
14424632 AC AC TC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
14424674 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
14424707 ATATATATAT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.49, C:0.49, G:0.00, T:0.01
Consensus pattern (2 bp):
AC
Found at i:14427411 original size:10 final size:10
Alignment explanation
Indices: 14427396--14427425 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
14427386 AGTAGTAAAA
14427396 TGAATAATGG
1 TGAATAATGG
14427406 TGAATAATGG
1 TGAATAATGG
*
14427416 TGTATAATGG
1 TGAATAATGG
14427426 GAGAATTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (10 bp):
TGAATAATGG
Found at i:14427842 original size:16 final size:17
Alignment explanation
Indices: 14427818--14427851 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
14427808 AGAACAGTTG
14427818 TTCCATAAAAGTATTGT
1 TTCCATAAAAGTATTGT
14427835 TTCC-TAAAAGTATTGT
1 TTCCATAAAAGTATTGT
14427851 T
1 T
14427852 CCGTGAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (17 bp):
TTCCATAAAAGTATTGT
Found at i:14427860 original size:16 final size:15
Alignment explanation
Indices: 14427815--14427853 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
14427805 TCAAGAACAG
14427815 TTGTTCCATAAAAGTA
1 TTGTTCC-TAAAAGTA
14427831 TTGTTTCCTAAAAGTA
1 TTG-TTCCTAAAAGTA
14427847 TTGTTCC
1 TTGTTCC
14427854 GTGAAAGAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.18
16 14 0.64
17 4 0.18
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (15 bp):
TTGTTCCTAAAAGTA
Found at i:14427894 original size:15 final size:15
Alignment explanation
Indices: 14427876--14427904 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
14427866 TTCTTTGAAT
14427876 AGTTATTCCGTAAAC
1 AGTTATTCCGTAAAC
14427891 AGTTATTCCGTAAA
1 AGTTATTCCGTAAA
14427905 AATGTTGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (15 bp):
AGTTATTCCGTAAAC
Found at i:14428465 original size:38 final size:37
Alignment explanation
Indices: 14428409--14428532 Score: 110
Period size: 38 Copynumber: 3.3 Consensus size: 37
14428399 AGGAAAGTGT
* * *
14428409 TTTAAAGAAAATAG-GAGAACAAGTAGTGGTAATGTTTC
1 TTTAAA-AAAAAAGAGAGAATAAGTAATGG-AATGTTTC
* **
14428447 TTTAAAAAAAAAGAGAGAATAAGCAATAAAAATGTTTC
1 TTTAAAAAAAAAGAGAGAATAAGTAAT-GGAATGTTTC
* * *
14428485 TTT-ACAAAATAGA-AGAATAAGTAATGAGAGTGTTTC
1 TTTAAAAAAAAAGAGAGAATAAGTAATG-GAATGTTTC
14428521 TTTAAAAAAAAA
1 TTTAAAAAAAAA
14428533 AAGAAAAATT
Statistics
Matches: 68, Mismatches: 14, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
36 21 0.31
37 20 0.29
38 27 0.40
ACGTcount: A:0.51, C:0.05, G:0.17, T:0.27
Consensus pattern (37 bp):
TTTAAAAAAAAAGAGAGAATAAGTAATGGAATGTTTC
Found at i:14428537 original size:36 final size:36
Alignment explanation
Indices: 14428439--14428537 Score: 117
Period size: 36 Copynumber: 2.7 Consensus size: 36
14428429 AAGTAGTGGT
14428439 AATGTTTCTTTAAAAAAAAAGAGAGAATAAGCAATAAA
1 AATGTTTCTTTAAAAAAAAA-A-AGAATAAGCAATAAA
* * * * * *
14428477 AATGTTTCTTTACAAAATAGAAGAATAAGTAATGAG
1 AATGTTTCTTTAAAAAAAAAAAGAATAAGCAATAAA
*
14428513 AGTGTTTCTTTAAAAAAAAAAAGAA
1 AATGTTTCTTTAAAAAAAAAAAGAA
14428538 AAATTAAAAG
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
36 33 0.65
37 1 0.02
38 17 0.33
ACGTcount: A:0.54, C:0.05, G:0.14, T:0.27
Consensus pattern (36 bp):
AATGTTTCTTTAAAAAAAAAAAGAATAAGCAATAAA
Found at i:14428610 original size:35 final size:31
Alignment explanation
Indices: 14428555--14428631 Score: 91
Period size: 35 Copynumber: 2.3 Consensus size: 31
14428545 AAGAAATAGG
*
14428555 TAATATGAGTGTTTCCCTAAAAAAATGAGAATAAA
1 TAAT-TGAATGTTTCCCT-AAAAAAT-AGAA-AAA
*
14428590 TAATGTGAATGTTTTCCTAAAAAATAGAAAAA
1 TAAT-TGAATGTTTCCCTAAAAAATAGAAAAA
14428622 TAATTGAATG
1 TAATTGAATG
14428632 GAACAATTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
31 6 0.15
32 7 0.18
33 4 0.10
34 7 0.18
35 15 0.38
ACGTcount: A:0.48, C:0.06, G:0.14, T:0.31
Consensus pattern (31 bp):
TAATTGAATGTTTCCCTAAAAAATAGAAAAA
Found at i:14431163 original size:59 final size:57
Alignment explanation
Indices: 14431093--14431483 Score: 441
Period size: 59 Copynumber: 6.7 Consensus size: 57
14431083 AAAATTCAAA
* * ** *
14431093 AAAAAAAATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTCGAAATTAAAAGTTTCC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTCC
* *
14431152 AAAAAATATTTTTG-GAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT-A
1 AAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCC
*
14431208 AAAAAAAATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAA-AAATTTCC
1 AAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAA--AATAAATTTCC
* **
14431268 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTAA
1 --AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTCC
* *
14431328 AAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAATTTTC
1 AAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCC
* ** * *
14431386 AAAAAATAAATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTCGAAATTAAAATTTCT
1 AAAAAAT--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTCC
*
14431446 AAAAATTA-TTTTG-GGAAAAAGTTGAAAGTATCAATTTT
1 AAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTT
14431484 TTTTGCACAA
Statistics
Matches: 289, Mismatches: 27, Indels: 34
0.83 0.08 0.10
Matches are distributed among these distances:
56 9 0.03
57 63 0.22
58 24 0.08
59 132 0.46
60 20 0.07
61 34 0.12
62 7 0.02
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.36
Consensus pattern (57 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCC
Found at i:14431304 original size:118 final size:118
Alignment explanation
Indices: 14431091--14431483 Score: 516
Period size: 118 Copynumber: 3.3 Consensus size: 118
14431081 ATAAAATTCA
* * * *
14431091 AAAAAAAAAATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTCGAAATTAAAAGTTTCC--AA
1 AAAAAAAAATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAAATTTCCAAAA
**
14431154 AAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
66 AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
14431207 AAAAAAAAATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAAATTTCCAAAA
1 AAAAAAAAATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAAATTTCCAAAA
14431272 AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
66 AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTT
* * *
14431326 AAAAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTTAAA--AATAAATTTTCAA
1 AAAAAAAAAT-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAA-AAATTTCCAA
* * ** *
14431388 AAAATAA-ATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTCGAAATTAAAATTT
64 AAAA-AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTT
**
14431444 --CTAAAAATTATTTTG-GGAAAAAGTTGAAAGTATCAATTTT
1 AAAAAAAAATT-TTTTGAGG-AAAAGTTGAAAGTATCAATTTT
14431484 TTTTGCACAA
Statistics
Matches: 251, Mismatches: 17, Indels: 18
0.88 0.06 0.06
Matches are distributed among these distances:
115 3 0.01
116 89 0.35
117 2 0.01
118 103 0.41
119 23 0.09
120 31 0.12
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (118 bp):
AAAAAAAAATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAAATTTCCAAAA
AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
Found at i:14433479 original size:35 final size:33
Alignment explanation
Indices: 14433435--14433505 Score: 81
Period size: 35 Copynumber: 2.1 Consensus size: 33
14433425 AATTAAAAGA
*
14433435 AATAGGTAATAT-AAGTGTTTCCCTAAAAATATAAG
1 AATAAGTAATATGAA-TGTTTCCCTAAAAA-AT-AG
* *
14433470 AATAAGTAATGTGAATGTTTTCCTAAAAAATAG
1 AATAAGTAATATGAATGTTTCCCTAAAAAATAG
14433503 AAT
1 AAT
14433506 TGAATGGAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 5 0.16
34 2 0.06
35 23 0.72
36 2 0.06
ACGTcount: A:0.46, C:0.07, G:0.14, T:0.32
Consensus pattern (33 bp):
AATAAGTAATATGAATGTTTCCCTAAAAAATAG
Found at i:14435132 original size:20 final size:18
Alignment explanation
Indices: 14435107--14435149 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 18
14435097 GTTCGCTAAC
*
14435107 GTTTTCGTTTTCTATTTTTT
1 GTTTTCGGTTTC-A-TTTTT
14435127 GTTTTCGGTTTCATTTTT
1 GTTTTCGGTTTCATTTTT
14435145 GTTTT
1 GTTTT
14435150 AAAATTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.45
19 1 0.05
20 11 0.50
ACGTcount: A:0.05, C:0.09, G:0.14, T:0.72
Consensus pattern (18 bp):
GTTTTCGGTTTCATTTTT
Found at i:14435388 original size:30 final size:31
Alignment explanation
Indices: 14435343--14435424 Score: 80
Period size: 30 Copynumber: 2.7 Consensus size: 31
14435333 TACAGTAACG
* *
14435343 TTATAATTATTATATTAATAAAATAATATT-
1 TTATATTTATAATATTAATAAAATAATATTA
*
14435373 TT-TATTATATAATATTAA-ATTAATAATATTA
1 TTATATT-TATAATATTAATA-AAATAATATTA
* *
14435404 TTATATTTATTATATAAATAA
1 TTATATTTATAATATTAATAA
14435425 TTTATATTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
29 4 0.10
30 21 0.51
31 11 0.27
32 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (31 bp):
TTATATTTATAATATTAATAAAATAATATTA
Found at i:14435391 original size:27 final size:25
Alignment explanation
Indices: 14435348--14435473 Score: 75
Period size: 25 Copynumber: 5.0 Consensus size: 25
14435338 TAACGTTATA
*
14435348 ATTATTATATTAATAAAATAATATT
1 ATTATTATATTAATAAAATAATAAT
*
14435373 TTTATTATA-TAATATTAAATTAATAAT
1 ATTATTATATTAATA--AAA-TAATAAT
* * *
14435400 ATTATTATATTTATTATATAAATAAT
1 ATTATTATATTAATAAAAT-AATAAT
* * *
14435426 -TTA-TATTATAAATAACATTATAAT
1 ATTATTA-TATTAATAAAATAATAAT
*
14435450 A-TATTATA--AATAATATTAATAAT
1 ATTATTATATTAATAA-AATAATAAT
14435473 A
1 A
14435474 ACTATATTTA
Statistics
Matches: 78, Mismatches: 14, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
22 5 0.06
23 7 0.09
24 16 0.21
25 22 0.28
26 11 0.14
27 14 0.18
28 3 0.04
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (25 bp):
ATTATTATATTAATAAAATAATAAT
Found at i:14435420 original size:22 final size:22
Alignment explanation
Indices: 14435394--14435467 Score: 82
Period size: 22 Copynumber: 3.5 Consensus size: 22
14435384 ATATTAAATT
14435394 AATAATATTATTATAT-TTATTA
1 AATAATATTATTATATATTA-TA
* *
14435416 TATAA-ATAATT-TATATTATA
1 AATAATATTATTATATATTATA
* *
14435436 AATAACATTATAATATATTATA
1 AATAATATTATTATATATTATA
14435458 AATAATATTA
1 AATAATATTA
14435468 ATAATAACTA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
20 9 0.21
21 12 0.28
22 22 0.51
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (22 bp):
AATAATATTATTATATATTATA
Found at i:14435445 original size:12 final size:12
Alignment explanation
Indices: 14435428--14435467 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
14435418 TAAATAATTT
14435428 ATATTATAAATA
1 ATATTATAAATA
*
14435440 ACATTAT-AAT-
1 ATATTATAAATA
14435450 ATATTATAAATA
1 ATATTATAAATA
14435462 ATATTA
1 ATATTA
14435468 ATAATAACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 6 0.25
11 6 0.25
12 12 0.50
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATTATAAATA
Found at i:14435479 original size:22 final size:22
Alignment explanation
Indices: 14435427--14435479 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
14435417 ATAAATAATT
*
14435427 TATATTATAAATAACATTATAA
1 TATACTATAAATAACATTATAA
* *
14435449 TATATTATAAATAATATTAATAA
1 TATACTATAAATAACATT-ATAA
14435472 TA-ACTATA
1 TATACTATA
14435480 TTTATTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 22 0.79
23 6 0.21
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (22 bp):
TATACTATAAATAACATTATAA
Found at i:14437962 original size:31 final size:31
Alignment explanation
Indices: 14437927--14438001 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
14437917 TGTGAAGGTA
* * *
14437927 TTATTTCGTGAAAGAGTTGTTTCTTAAATAG
1 TTATTTCGTAAAAAAGTTGTTTCATAAATAG
* *
14437958 TTATTTTGTAAAAAAGTTGTTTCATGAATAG
1 TTATTTCGTAAAAAAGTTGTTTCATAAATAG
*
14437989 TTATTTCATAAAA
1 TTATTTCGTAAAA
14438002 TAACTTTAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (31 bp):
TTATTTCGTAAAAAAGTTGTTTCATAAATAG
Found at i:14440713 original size:26 final size:26
Alignment explanation
Indices: 14440684--14440740 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
14440674 TAATATTTTT
*
14440684 AAAAATTATAAAAATATC-AAAACTTA
1 AAAAATTA-AAAAAAATCTAAAACTTA
* *
14440710 AAAAATTAAAAAAAATCTCAAATTTA
1 AAAAATTAAAAAAAATCTAAAACTTA
14440736 AAAAA
1 AAAAA
14440741 AAATTCAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (26 bp):
AAAAATTAAAAAAAATCTAAAACTTA
Found at i:14444265 original size:79 final size:79
Alignment explanation
Indices: 14444134--14444285 Score: 277
Period size: 79 Copynumber: 1.9 Consensus size: 79
14444124 TGCAGCAAGC
*
14444134 AATTCCACCATGTTAATGTCTATTCACAGAAAAATTAATTGTTCAAAAGATTCCATGACAAAGAA
1 AATTCCACCATGTTAATGTCTATCCACAGAAAAATTAATTGTTCAAAAGATTCCATGACAAAGAA
14444199 AAAGAAGCCAAAGT
66 AAAGAAGCCAAAGT
* *
14444213 AATTCCACCATGTTAATGTCTGTCCACCGAAAAATTAATTGTTCAAAAGATTCCATGACAAAGAA
1 AATTCCACCATGTTAATGTCTATCCACAGAAAAATTAATTGTTCAAAAGATTCCATGACAAAGAA
14444278 AAAGAAGC
66 AAAGAAGC
14444286 TAAACAACTT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 70 1.00
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.25
Consensus pattern (79 bp):
AATTCCACCATGTTAATGTCTATCCACAGAAAAATTAATTGTTCAAAAGATTCCATGACAAAGAA
AAAGAAGCCAAAGT
Found at i:14449779 original size:14 final size:15
Alignment explanation
Indices: 14449753--14449781 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14449743 ATCAAATGAA
14449753 TATATTATTAAAATT
1 TATATTATTAAAATT
14449768 TATATT-TTAAAATT
1 TATATTATTAAAATT
14449782 ATAAATTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATATTATTAAAATT
Found at i:14450605 original size:31 final size:33
Alignment explanation
Indices: 14450567--14450629 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 33
14450557 ATATAATTTA
* *
14450567 ATTAAATTGAGTCGAATT-ATTTAA-AAATATG
1 ATTAAATTAAGTCGAATTGATATAATAAATATG
14450598 ATTAAATTAAGTCGAATTGATATAATAAATAT
1 ATTAAATTAAGTCGAATTGATATAATAAATAT
14450630 TTTAATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 17 0.61
32 5 0.18
33 6 0.21
ACGTcount: A:0.48, C:0.03, G:0.11, T:0.38
Consensus pattern (33 bp):
ATTAAATTAAGTCGAATTGATATAATAAATATG
Found at i:14450678 original size:24 final size:26
Alignment explanation
Indices: 14450623--14450694 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 26
14450613 ATTGATATAA
14450623 TAAATATTTTAA--TTTAAATTTGACTT
1 TAAA-ATTTTAATTTTTAAATTTGAC-T
*
14450649 TAAAA-TTTATTATTTTAAATTTGA-T
1 TAAAATTTTAAT-TTTTAAATTTGACT
14450674 T-AAATTTTAATTTTTAAATTT
1 TAAAATTTTAATTTTTAAATTT
14450695 AAATTTAACT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
24 17 0.43
25 8 0.20
26 4 0.10
27 11 0.28
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (26 bp):
TAAAATTTTAATTTTTAAATTTGACT
Found at i:14467871 original size:14 final size:15
Alignment explanation
Indices: 14467852--14467886 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
14467842 TAAAAATTAA
14467852 AAAAATTCT-TTTTT
1 AAAAATTCTATTTTT
*
14467866 AAAAATTTTATTTTT
1 AAAAATTCTATTTTT
14467881 AAAAAT
1 AAAAAT
14467887 AATACATGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (15 bp):
AAAAATTCTATTTTT
Found at i:14473371 original size:31 final size:32
Alignment explanation
Indices: 14473336--14473399 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
14473326 AATCTTTCTC
* * * *
14473336 TTTCTTTCC-TTCTATTTTCTCCTTTTTTTTT
1 TTTCTTTCCATTCCATTTGCTCCCTTTTCTTT
14473367 TTTCTTTCCATTCCATTTGCTCCCTTTTCTTT
1 TTTCTTTCCATTCCATTTGCTCCCTTTTCTTT
14473399 T
1 T
14473400 ATGTTTTAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 9 0.32
32 19 0.68
ACGTcount: A:0.05, C:0.27, G:0.02, T:0.67
Consensus pattern (32 bp):
TTTCTTTCCATTCCATTTGCTCCCTTTTCTTT
Found at i:14474388 original size:17 final size:18
Alignment explanation
Indices: 14474363--14474409 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
14474353 TTTTTTATTT
*
14474363 TATAAAAATTCAA-AAAA
1 TATATAAATTCAATAAAA
14474380 TATATAAATT-AATAAAA
1 TATATAAATTCAATAAAA
14474397 TATAT-AATTCAAT
1 TATATAAATTCAAT
14474410 TTAATTCGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 6 0.22
17 21 0.78
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (18 bp):
TATATAAATTCAATAAAA
Found at i:14475837 original size:30 final size:30
Alignment explanation
Indices: 14475791--14475860 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
14475781 ATTATTTAAT
* * *
14475791 TATTTATTTATA-TTATAATTTATATAATGA
1 TATTTATTAATATTTATAATTTA-AAAATAA
*
14475821 TATTT-TTAATATTTATATTTTAAAAATAA
1 TATTTATTAATATTTATAATTTAAAAATAA
14475850 TATTTATTAAT
1 TATTTATTAAT
14475861 TTCGAGTCGG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
29 15 0.44
30 19 0.56
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (30 bp):
TATTTATTAATATTTATAATTTAAAAATAA
Found at i:14476959 original size:25 final size:25
Alignment explanation
Indices: 14476931--14476978 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
14476921 AAAAATAAAA
14476931 GAAATGAAGGGTTTTTAAAGTAATG
1 GAAATGAAGGGTTTTTAAAGTAATG
* *
14476956 GAAATTAATGGTTTTTAAAGTAA
1 GAAATGAAGGGTTTTTAAAGTAA
14476979 AGAAATATAT
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (25 bp):
GAAATGAAGGGTTTTTAAAGTAATG
Found at i:14477736 original size:51 final size:50
Alignment explanation
Indices: 14477563--14477737 Score: 147
Period size: 51 Copynumber: 3.4 Consensus size: 50
14477553 AGAATTAGTT
*
14477563 CAACTCTTTTGATGAAATC-TAGAAATCATTTCTTAAACTAATTTTAGGATTATCC
1 CAACTC-TTTAATGAAATCTTA-AAA--ATTT-TTAAACTAA-TTTAGGATTATCC
* * ** * *
14477618 CAATTCTTTAATAAAATCTTTAAAAAAAATTTAAACTAATTTTGGATCAT-C
1 CAACTCTTTAATGAAATC-TT-AAAAATTTTTAAACTAATTTAGGATTATCC
* * * *
14477669 CAACTTTTTAACGAAATCTTAAAAATTTTTAAATTAATTTCAAGATTATCC
1 CAACTCTTTAATGAAATCTTAAAAATTTTTAAACTAATTT-AGGATTATCC
*
14477720 CAACTCTTTGATGAAATC
1 CAACTCTTTAATGAAATC
14477738 CAAAAATCAT
Statistics
Matches: 95, Mismatches: 20, Indels: 14
0.74 0.16 0.11
Matches are distributed among these distances:
49 17 0.18
50 7 0.07
51 31 0.33
52 9 0.09
53 9 0.09
54 12 0.13
55 5 0.05
56 4 0.04
57 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.39
Consensus pattern (50 bp):
CAACTCTTTAATGAAATCTTAAAAATTTTTAAACTAATTTAGGATTATCC
Found at i:14478867 original size:34 final size:34
Alignment explanation
Indices: 14478829--14478901 Score: 103
Period size: 34 Copynumber: 2.1 Consensus size: 34
14478819 TTAGAAATTT
*
14478829 TTTTTCAAAGTTTCATAAT-TTCTAGTTACAAGAG
1 TTTTTCAAAGTTTCAT-ATCCTCTAGTTACAAGAG
* *
14478863 TTTTTCAAAGTTTCATATCCTCTGGTTATAAGAG
1 TTTTTCAAAGTTTCATATCCTCTAGTTACAAGAG
14478897 TTTTT
1 TTTTT
14478902 AAATTTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
33 2 0.06
34 33 0.94
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.48
Consensus pattern (34 bp):
TTTTTCAAAGTTTCATATCCTCTAGTTACAAGAG
Found at i:14482265 original size:34 final size:33
Alignment explanation
Indices: 14482222--14482290 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 33
14482212 AATTAAAAGA
*
14482222 AATAGGTAATAT-AAGTGTTTCCCTAAAAATATAG
1 AATAAGTAATATGAA-TGTTTCCCTAAAAA-ATAG
* *
14482256 AATAAGTAATGTGAATGTTTTCCTAAAAAATAG
1 AATAAGTAATATGAATGTTTCCCTAAAAAATAG
14482289 AA
1 AA
14482291 AATAATGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 6 0.19
34 23 0.74
35 2 0.06
ACGTcount: A:0.46, C:0.07, G:0.14, T:0.32
Consensus pattern (33 bp):
AATAAGTAATATGAATGTTTCCCTAAAAAATAG
Found at i:14483915 original size:20 final size:18
Alignment explanation
Indices: 14483890--14483932 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 18
14483880 GTTCGCTAAC
*
14483890 GTTTTCGTTTTCTATTTTTT
1 GTTTTCGGTTTC-A-TTTTT
14483910 GTTTTCGGTTTCATTTTT
1 GTTTTCGGTTTCATTTTT
14483928 GTTTT
1 GTTTT
14483933 AAAATTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.45
19 1 0.05
20 11 0.50
ACGTcount: A:0.05, C:0.09, G:0.14, T:0.72
Consensus pattern (18 bp):
GTTTTCGGTTTCATTTTT
Found at i:14484167 original size:36 final size:38
Alignment explanation
Indices: 14484127--14484225 Score: 121
Period size: 36 Copynumber: 2.6 Consensus size: 38
14484117 ACAGTAACGT
*
14484127 TATAATTATTATATTAATAAA-A-TAATATTTTTATTA
1 TATAATTATTATATTAATAAATATTAATATATTTATTA
* * *
14484163 TATAAATATTAAATTAATAAATATTATTATATTTATTA
1 TATAATTATTATATTAATAAATATTAATATATTTATTA
*
14484201 TATAAATAATTTATATTAATAAATA
1 TAT-AATTA-TTATATTAATAAATA
14484226 ACATTATAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
36 19 0.37
37 1 0.02
38 15 0.29
39 3 0.06
40 14 0.27
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (38 bp):
TATAATTATTATATTAATAAATATTAATATATTTATTA
Found at i:14484184 original size:15 final size:16
Alignment explanation
Indices: 14484159--14484188 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14484149 TAATATTTTT
14484159 ATTATATAAATATTAA
1 ATTATATAAATATTAA
14484175 ATTA-ATAAATATTA
1 ATTATATAAATATTA
14484189 TTATATTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATTATATAAATATTAA
Found at i:14484214 original size:22 final size:22
Alignment explanation
Indices: 14484175--14484254 Score: 80
Period size: 23 Copynumber: 3.8 Consensus size: 22
14484165 TAAATATTAA
*
14484175 ATTAATAAATATTATTATATTT
1 ATTAATAAATAATATTATATTT
14484197 ATTATATAAAT-A-ATT-TA--T
1 ATTA-ATAAATAATATTATATTT
* *
14484215 ATTAATAAATAACATTATAATAT
1 ATTAATAAATAATATTAT-ATTT
14484238 ATTAATAAATAATATTA
1 ATTAATAAATAATATTA
14484255 ATAATAACTA
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
17 6 0.12
18 6 0.12
19 3 0.06
20 3 0.06
21 4 0.08
22 4 0.08
23 23 0.47
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (22 bp):
ATTAATAAATAATATTATATTT
Found at i:14484219 original size:40 final size:40
Alignment explanation
Indices: 14484135--14484277 Score: 147
Period size: 40 Copynumber: 3.7 Consensus size: 40
14484125 GTTATAATTA
* *
14484135 TTATATTAATAAA-A-TAATATTTTTATTATATAAAT-A-
1 TTATATTAATAAATATTATTATATTTATTATATAAATAAT
*
14484171 TTAAATTAATAAATATTATTATATTTATTATATAAATAAT
1 TTATATTAATAAATATTATTATATTTATTATATAAATAAT
** *
14484211 TTATATTAATAAATAACATTATAATATATTA-ATAAATAAT
1 TTATATTAATAAATATTATTAT-ATTTATTATATAAATAAT
* *
14484251 ATTA-A-TAATAACTATTATTTTATTTAT
1 -TTATATTAATAAATATTATTATATTTAT
14484278 ATTATTAATA
Statistics
Matches: 89, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
36 12 0.13
37 1 0.01
38 24 0.27
39 13 0.15
40 29 0.33
41 10 0.11
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (40 bp):
TTATATTAATAAATATTATTATATTTATTATATAAATAAT
Found at i:14484242 original size:23 final size:24
Alignment explanation
Indices: 14484212--14484260 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 24
14484202 ATAAATAATT
14484212 TATATTAATAAATAACATT-ATAA
1 TATATTAATAAATAACATTAATAA
*
14484235 TATATTAATAAATAATATTAATAA
1 TATATTAATAAATAACATTAATAA
14484259 TA
1 TA
14484261 ACTATTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
TATATTAATAAATAACATTAATAA
Found at i:14484287 original size:36 final size:36
Alignment explanation
Indices: 14484126--14484287 Score: 111
Period size: 36 Copynumber: 4.4 Consensus size: 36
14484116 TACAGTAACG
*
14484126 TTATAATTATT-ATATTAATAAAA-TAATATTTTTAT
1 TTATAATTATTAATATTAATAAAACTATTA-TTTTAT
* *
14484161 TATATAAATATTAA-ATTAATAAATATTATTATATTTAT
1 T-TATAATTATTAATATTAATAAA-ACTATTAT-TTTAT
* * **
14484199 TATATAAATAATTTATATTAATAAATAAC-ATTATAATAT
1 T-TAT-AATTATTAATATTAAT-AA-AACTATTATTTTAT
* * *
14484238 AT-TAATAAATAATATTAATAATAACTATTATTTTAT
1 TTATAATTATTAATATTAATAA-AACTATTATTTTAT
14484274 TTAT-ATTATTAATA
1 TTATAATTATTAATA
14484288 ACAAACGGAG
Statistics
Matches: 100, Mismatches: 16, Indels: 21
0.73 0.12 0.15
Matches are distributed among these distances:
35 7 0.07
36 49 0.49
37 5 0.05
38 15 0.15
39 9 0.09
40 11 0.11
41 3 0.03
42 1 0.01
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (36 bp):
TTATAATTATTAATATTAATAAAACTATTATTTTAT
Found at i:14486721 original size:16 final size:16
Alignment explanation
Indices: 14486700--14486730 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14486690 TTCGAGAATA
*
14486700 ATTATTTCGTGAAAGT
1 ATTATTCCGTGAAAGT
14486716 ATTATTCCGTGAAAG
1 ATTATTCCGTGAAAG
14486731 AATTGGTTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (16 bp):
ATTATTCCGTGAAAGT
Found at i:14492600 original size:21 final size:22
Alignment explanation
Indices: 14492561--14492601 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
14492551 ATTAAAAAAA
*
14492561 TTAAAAAATATATATAATATTT
1 TTAAAAAATATATAAAATATTT
*
14492583 TTAAAAATTATA-AAAATAT
1 TTAAAAAATATATAAAATAT
14492602 CAAAACTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
TTAAAAAATATATAAAATATTT
Found at i:14492614 original size:26 final size:26
Alignment explanation
Indices: 14492585--14492641 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
14492575 TAATATTTTT
*
14492585 AAAAATT-ATAAAAATATCAAAACTTA
1 AAAAATTCAAAAAAATATC-AAACTTA
* *
14492611 AAAAATTCAAAAAAATCTCAAATTTA
1 AAAAATTCAAAAAAATATCAAACTTA
14492637 AAAAA
1 AAAAA
14492642 AAAATTCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 18 0.67
27 9 0.33
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.25
Consensus pattern (26 bp):
AAAAATTCAAAAAAATATCAAACTTA
Found at i:14496147 original size:79 final size:79
Alignment explanation
Indices: 14496048--14496203 Score: 269
Period size: 79 Copynumber: 2.0 Consensus size: 79
14496038 CCAGCAAGCA
*
14496048 AATTCCACATGTTTAATGTCTATTCACAGAAAAATTAATTGTTCAAAAGATTCCATGACAAAGAA
1 AATTCCACATGTTTAATGTCTATCCACAGAAAAATTAATTGTTCAAAAGATTCCATGACAAAGAA
14496113 AAAGAAGCTAAAGT
66 AAAGAAGCTAAAGT
* *
14496127 AATTCCACCATG-TTAATGTCTGTCCACCGAAAAATTAATTGTTCAAAAGATTCCATGACAAAGA
1 AATTCCA-CATGTTTAATGTCTATCCACAGAAAAATTAATTGTTCAAAAGATTCCATGACAAAGA
14496191 AAAAGAAGCTAAA
65 AAAAGAAGCTAAA
14496204 CAACTTACTA
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
79 69 0.95
80 4 0.05
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (79 bp):
AATTCCACATGTTTAATGTCTATCCACAGAAAAATTAATTGTTCAAAAGATTCCATGACAAAGAA
AAAGAAGCTAAAGT
Found at i:14497030 original size:37 final size:37
Alignment explanation
Indices: 14496988--14497063 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
14496978 GGTGATATCA
14496988 TTTAAGTAATTTGCATCCAACAGTCCCAAGTAATTTT
1 TTTAAGTAATTTGCATCCAACAGTCCCAAGTAATTTT
14497025 TTTAAGTAATTTGCATCCAACAGTCCCAAGTAATTTT
1 TTTAAGTAATTTGCATCCAACAGTCCCAAGTAATTTT
14497062 TT
1 TT
14497064 AAGACAGAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (37 bp):
TTTAAGTAATTTGCATCCAACAGTCCCAAGTAATTTT
Found at i:14501720 original size:14 final size:15
Alignment explanation
Indices: 14501694--14501722 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14501684 AATCAATGAA
14501694 TATATTATTAAAATT
1 TATATTATTAAAATT
14501709 TATATT-TTAAAATT
1 TATATTATTAAAATT
14501723 ATAAATTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATATTATTAAAATT
Found at i:14502546 original size:31 final size:33
Alignment explanation
Indices: 14502508--14502570 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 33
14502498 ATATAATTTA
* *
14502508 ATTAAATTGAGTCGAATT-ATTTAA-AAATATG
1 ATTAAATTAAGTCGAATTGATATAATAAATATG
14502539 ATTAAATTAAGTCGAATTGATATAATAAATAT
1 ATTAAATTAAGTCGAATTGATATAATAAATAT
14502571 TTTAATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 17 0.61
32 5 0.18
33 6 0.21
ACGTcount: A:0.48, C:0.03, G:0.11, T:0.38
Consensus pattern (33 bp):
ATTAAATTAAGTCGAATTGATATAATAAATATG
Found at i:14502627 original size:26 final size:26
Alignment explanation
Indices: 14502576--14502627 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
14502566 AATATTTTAA
*
14502576 TTTAAATTTGACTTTAAAATTTATTAT
1 TTTAAATTTGAC-TTAAAATTGATTAT
*
14502603 TTTAAATTTGA-TTCAAATTCGATTA
1 TTTAAATTTGACTTAAAATT-GATTA
14502628 AATTTTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 7 0.32
26 4 0.18
27 11 0.50
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.52
Consensus pattern (26 bp):
TTTAAATTTGACTTAAAATTGATTAT
Found at i:14507671 original size:28 final size:28
Alignment explanation
Indices: 14507618--14507672 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
14507608 TCAAAATTAA
* * *
14507618 ATTAATTAAATTATTTTATTTTATTTTT
1 ATTAATCAAATTAATTTATTTAATTTTT
14507646 ATTAATCAAATTAAATTTA-TTAATTTT
1 ATTAATCAAATT-AATTTATTTAATTTT
14507673 AAAAATTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 18 0.78
29 5 0.22
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (28 bp):
ATTAATCAAATTAATTTATTTAATTTTT
Found at i:14509693 original size:2 final size:2
Alignment explanation
Indices: 14509686--14509713 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14509676 GAATACATAC
14509686 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
14509714 TAATTCAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14525414 original size:29 final size:30
Alignment explanation
Indices: 14525376--14525443 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
14525366 ATTTGAAATC
* * *
14525376 TTTCTCTTTCTTTCC-TTCTATTTTCTCCTT
1 TTTCT-TTTCTTTCCATTCCATTTGCTCCCT
*
14525406 TTTTTTTTCTTTCCATTCCATTTGCTCCCT
1 TTTCTTTTCTTTCCATTCCATTTGCTCCCT
14525436 TTTCTTTT
1 TTTCTTTT
14525444 ATGTTTTAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 9 0.28
30 23 0.72
ACGTcount: A:0.04, C:0.28, G:0.01, T:0.66
Consensus pattern (30 bp):
TTTCTTTTCTTTCCATTCCATTTGCTCCCT
Found at i:14526202 original size:5 final size:5
Alignment explanation
Indices: 14526192--14526216 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
14526182 ATTTGAATCA
14526192 GATTT GATTT GATTT GATTT GATTT
1 GATTT GATTT GATTT GATTT GATTT
14526217 TTTAGATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
GATTT
Found at i:14526433 original size:17 final size:17
Alignment explanation
Indices: 14526408--14526454 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
14526398 TTTTTTATTT
*
14526408 TATAAAAATTCAAAAAA
1 TATATAAATTCAAAAAA
*
14526425 TATATAAATTAATAAAAA
1 TATATAAATTCA-AAAAA
14526443 TATAT-AATTCAA
1 TATATAAATTCAA
14526455 TTTAATTCGG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 1 0.04
17 15 0.58
18 10 0.38
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (17 bp):
TATATAAATTCAAAAAA
Found at i:14527875 original size:14 final size:14
Alignment explanation
Indices: 14527844--14527904 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
14527834 TTTAATTAAT
*
14527844 TATTTA-AT-TATT
1 TATTTATATATATA
14527856 TATTTATATATATA
1 TATTTATATATATA
14527870 TATTTATATAATGATA
1 TATTTATAT-AT-ATA
* * *
14527886 TTTTTAAATATTTA
1 TATTTATATATATA
14527900 TATTT
1 TATTT
14527905 TAAAAATAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
12 6 0.15
13 2 0.05
14 18 0.45
15 4 0.10
16 10 0.25
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (14 bp):
TATTTATATATATA
Found at i:14527879 original size:16 final size:15
Alignment explanation
Indices: 14527858--14527921 Score: 53
Period size: 14 Copynumber: 4.3 Consensus size: 15
14527848 TAATTATTTA
14527858 TTTATATATATATA-
1 TTTATATATATATAT
14527872 TTTATATA-ATGATATT
1 TTTATATATAT-ATA-T
* *
14527888 TTTAAATATTTATAT
1 TTTATATATATATAT
* *
14527903 TTTAAAAATA-ATAT
1 TTTATATATATATAT
14527917 TTTAT
1 TTTAT
14527922 TAATTTCGAG
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
13 2 0.05
14 19 0.46
15 9 0.22
16 10 0.24
17 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (15 bp):
TTTATATATATATAT
Found at i:14529029 original size:25 final size:25
Alignment explanation
Indices: 14529001--14529048 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
14528991 AAAAATAAAA
14529001 GAAATGAAGGGTTTTTAAAGTAATG
1 GAAATGAAGGGTTTTTAAAGTAATG
* *
14529026 GAAATTAATGGTTTTTAAAGTAA
1 GAAATGAAGGGTTTTTAAAGTAA
14529049 AGAAATATAT
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (25 bp):
GAAATGAAGGGTTTTTAAAGTAATG
Found at i:14529728 original size:54 final size:52
Alignment explanation
Indices: 14529666--14529812 Score: 161
Period size: 52 Copynumber: 2.8 Consensus size: 52
14529656 AAATCATTTC
*
14529666 TTAAACTAATTTTAGGATTATCCCAATTCTTTAATAAAATCTTTAAAAAAAATT
1 TTAAACTAATTTTAGGATTATCCCAATTCTTTAATGAAATC-TT-AAAAAAATT
* * * * *
14529720 TTAAACTAATTTTTGGATCATCCCAACTT-TTTAACGAAATCTTAAATAATTT
1 TTAAACTAATTTTAGGATTATCCCAA-TTCTTTAATGAAATCTTAAAAAAATT
* * * * *
14529772 TTAAATTAATTTCAAGATTATCCCAACTCTTTGATGAAATC
1 TTAAACTAATTTTAGGATTATCCCAATTCTTTAATGAAATC
14529813 CAAAAATCAT
Statistics
Matches: 77, Mismatches: 14, Indels: 6
0.79 0.14 0.06
Matches are distributed among these distances:
51 1 0.01
52 38 0.49
53 2 0.03
54 34 0.44
55 2 0.03
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.41
Consensus pattern (52 bp):
TTAAACTAATTTTAGGATTATCCCAATTCTTTAATGAAATCTTAAAAAAATT
Found at i:14529796 original size:52 final size:53
Alignment explanation
Indices: 14529647--14529812 Score: 158
Period size: 52 Copynumber: 3.1 Consensus size: 53
14529637 CTCTTTTGAT
* * *
14529647 GAAATCTAGAAATCATTTCTTAAACTAATTTTAGGATTATCCCAA-TTCTTTAAT
1 GAAATCT-TAAATAATTT-TTAAACTAATTTTAGGATTATCCCAACTTCTTTAAC
* * * * *
14529701 AAAATCTTTAAAAAAAATTTTAAACTAATTTTTGGATCATCCCAACTT-TTTAAC
1 GAAATC-TT-AAATAATTTTTAAACTAATTTTAGGATTATCCCAACTTCTTTAAC
* * * * *
14529755 GAAATCTTAAATAATTTTTAAATTAATTTCAAGATTATCCCAAC-TCTTTGAT
1 GAAATCTTAAATAATTTTTAAACTAATTTTAGGATTATCCCAACTTCTTTAAC
14529807 GAAATC
1 GAAATC
14529813 CAAAAATCAT
Statistics
Matches: 90, Mismatches: 18, Indels: 10
0.76 0.15 0.08
Matches are distributed among these distances:
51 1 0.01
52 39 0.43
53 2 0.02
54 39 0.43
55 9 0.10
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.40
Consensus pattern (53 bp):
GAAATCTTAAATAATTTTTAAACTAATTTTAGGATTATCCCAACTTCTTTAAC
Found at i:14530040 original size:11 final size:10
Alignment explanation
Indices: 14530019--14530074 Score: 51
Period size: 11 Copynumber: 5.3 Consensus size: 10
14530009 ACATTTAATT
*
14530019 TTTTTTGTTA
1 TTTTTTATTA
14530029 TTTTGTTATTA
1 TTTT-TTATTA
14530040 TTTTTTATTTA
1 TTTTTTA-TTA
*
14530051 TTATTTCATTA
1 TT-TTTTATTA
14530062 TTATTTT-TTA
1 TT-TTTTATTA
14530072 TTT
1 TTT
14530075 AAATAAATCT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
9 1 0.03
10 12 0.30
11 23 0.57
12 4 0.10
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.77
Consensus pattern (10 bp):
TTTTTTATTA
Found at i:14530053 original size:14 final size:14
Alignment explanation
Indices: 14530034--14530075 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
14530024 TGTTATTTTG
14530034 TTATTATTTTTTAT
1 TTATTATTTTTTAT
*
14530048 TTATTA--TTTCA-
1 TTATTATTTTTTAT
14530059 TTATTATTTTTTAT
1 TTATTATTTTTTAT
14530073 TTA
1 TTA
14530076 AATAAATCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
11 6 0.26
12 4 0.17
13 4 0.17
14 9 0.39
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (14 bp):
TTATTATTTTTTAT
Found at i:14530054 original size:25 final size:25
Alignment explanation
Indices: 14530017--14530075 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
14530007 AAACATTTAA
* **
14530017 TTTTT-TTTGTTATTTTGTTATTAT
1 TTTTTATTTATTATTTCATTATTAT
14530041 TTTTTATTTATTATTTCATTATTAT
1 TTTTTATTTATTATTTCATTATTAT
14530066 TTTTTATTTA
1 TTTTTATTTA
14530076 AATAAATCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
24 5 0.16
25 26 0.84
ACGTcount: A:0.19, C:0.02, G:0.03, T:0.76
Consensus pattern (25 bp):
TTTTTATTTATTATTTCATTATTAT
Found at i:14532702 original size:13 final size:13
Alignment explanation
Indices: 14532680--14532714 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
14532670 CTCTCTTGTT
*
14532680 TTTTTTTTTTTTA
1 TTTTTATTTTTTA
14532693 TTTTTATTTTTTA
1 TTTTTATTTTTTA
*
14532706 TTTTGATTT
1 TTTTTATTT
14532715 GATTTTTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.03, T:0.86
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:14532704 original size:19 final size:19
Alignment explanation
Indices: 14532680--14532732 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
14532670 CTCTCTTGTT
* *
14532680 TTTTTTTTTTTTATTTTTA
1 TTTTTTATTTTTATTTTGA
*
14532699 TTTTTTATTTTGA-TTTGA
1 TTTTTTATTTTTATTTTGA
*
14532717 TTTTTGTGTTTTTATT
1 TTTTT-TATTTTTATT
14532733 GTTTTGTCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
18 9 0.33
19 17 0.63
20 1 0.04
ACGTcount: A:0.11, C:0.00, G:0.08, T:0.81
Consensus pattern (19 bp):
TTTTTTATTTTTATTTTGA
Done.