Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 60 of 230
Found at i:16474266 original size:56 final size:56
Alignment explanation
Indices: 16474203--16474353 Score: 293
Period size: 56 Copynumber: 2.7 Consensus size: 56
16474193 TATTGTAAGG
*
16474203 GACATAACTTAATTAATTAATATTATACATAACTTACATTAATATTATACATAGAT
1 GACATAACTTAATTAATTAATATTATACATAACTTACATTAATATTATACATAAAT
16474259 GACATAACTTAATTAATTAATATTATACATAACTTACATTAATATTATACATAAAT
1 GACATAACTTAATTAATTAATATTATACATAACTTACATTAATATTATACATAAAT
16474315 GACATAACTTAATTAATTAATATTATACATAACTTACAT
1 GACATAACTTAATTAATTAATATTATACATAACTTACAT
16474354 AAATTAATTA
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 94 1.00
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (56 bp):
GACATAACTTAATTAATTAATATTATACATAACTTACATTAATATTATACATAAAT
Found at i:16474319 original size:22 final size:22
Alignment explanation
Indices: 16474274--16474319 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
16474264 AACTTAATTA
* *
16474274 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAAATGAC
16474296 ATTAATATTATACATAAATGAC
1 ATTAATATTATACATAAATGAC
16474318 AT
1 AT
16474320 AACTTAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (22 bp):
ATTAATATTATACATAAATGAC
Found at i:16474339 original size:34 final size:34
Alignment explanation
Indices: 16474296--16474442 Score: 180
Period size: 34 Copynumber: 4.5 Consensus size: 34
16474286 CATAACTTAC
16474296 ATTAATATTATACATAAATGACATAACTTAATTA
1 ATTAATATTATACATAAATGACATAACTTAATTA
* * *
16474330 ATTAATATTATACATAACTTACATAAATTAATTA
1 ATTAATATTATACATAAATGACATAACTTAATTA
* * *
16474364 GTT-A-A-TATACATAAATTACATAACTT-A--C
1 ATTAATATTATACATAAATGACATAACTTAATTA
* *
16474392 ATTAATATGATACATAAATGACATAACTTAGTTA
1 ATTAATATTATACATAAATGACATAACTTAATTA
16474426 ATTAATATTATACATAA
1 ATTAATATTATACATAA
16474443 CTTACAACTT
Statistics
Matches: 94, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
28 2 0.02
29 1 0.01
30 2 0.02
31 38 0.40
32 1 0.01
33 1 0.01
34 49 0.52
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.38
Consensus pattern (34 bp):
ATTAATATTATACATAAATGACATAACTTAATTA
Found at i:16474354 original size:9 final size:9
Alignment explanation
Indices: 16474340--16474568 Score: 60
Period size: 9 Copynumber: 26.7 Consensus size: 9
16474330 ATTAATATTA
16474340 TACATAACT
1 TACATAACT
*
16474349 TACATAAAT
1 TACATAACT
* *
16474358 TA-ATTAGT
1 TACATAACT
16474366 TA-AT-A-T
1 TACATAACT
*
16474372 -ACATAAAT
1 TACATAACT
16474380 TACATAACT
1 TACATAACT
*
16474389 TACATTAATAT
1 TACA-TAA-CT
*
16474400 GATACATAAAT
1 --TACATAACT
*
16474411 GACATAACT
1 TACATAACT
**
16474420 TAGTTAA-T
1 TACATAACT
*
16474428 TA-AT-ATT
1 TACATAACT
16474435 ATACATAACT
1 -TACATAACT
16474445 TAC--AACT
1 TACATAACT
16474452 TACATAACT
1 TACATAACT
**
16474461 TACATATTTT
1 TACATA-ACT
*
16474471 TA-ATTA-T
1 TACATAACT
* *
16474478 T-CGTAAAT
1 TACATAACT
16474486 TACATAACT
1 TACATAACT
* *
16474495 TACTTAATT
1 TACATAACT
*
16474504 TTCATAA--
1 TACATAACT
*
16474511 TAAATAACT
1 TACATAACT
*
16474520 TACATAAAT
1 TACATAACT
* *
16474529 AAC-T-TCT
1 TACATAACT
16474536 TACATAACT
1 TACATAACT
** *
16474545 TATGTGACT
1 TACATAACT
16474554 TACATAACT
1 TACATAACT
16474563 TACATA
1 TACATA
16474569 GCATAATTTT
Statistics
Matches: 159, Mismatches: 39, Indels: 44
0.66 0.16 0.18
Matches are distributed among these distances:
5 1 0.01
6 4 0.03
7 23 0.14
8 18 0.11
9 95 0.60
10 8 0.05
11 3 0.02
12 3 0.02
13 4 0.03
ACGTcount: A:0.44, C:0.14, G:0.03, T:0.39
Consensus pattern (9 bp):
TACATAACT
Found at i:16474376 original size:56 final size:54
Alignment explanation
Indices: 16474203--16474377 Score: 230
Period size: 56 Copynumber: 3.1 Consensus size: 54
16474193 TATTGTAAGG
*
16474203 GACATAACTTAATTAATTAATATTATACATAACTTACATTAA-TATTATACATAGAT
1 GACATAACTTAATTAATTAATATTATACATAACTTACATAAATTATTATA-AT--AT
*
16474259 GACATAACTTAATTAATTAATATTATACATAACTTACATTAA-TATTATACATAAAT
1 GACATAACTTAATTAATTAATATTATACATAACTTACATAAATTATTATA-AT--AT
16474315 GACATAACTTAATTAATTAATATTATACATAACTTACATAAATTAATTAGTTAATAT
1 GACATAACTTAATTAATTAATATTATACATAACTTACATAAATT-ATTA--TAATAT
16474372 -ACATAA
1 GACATAA
16474378 ATTACATAAC
Statistics
Matches: 113, Mismatches: 2, Indels: 8
0.92 0.02 0.07
Matches are distributed among these distances:
56 102 0.90
57 3 0.03
58 4 0.04
59 2 0.02
60 2 0.02
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.39
Consensus pattern (54 bp):
GACATAACTTAATTAATTAATATTATACATAACTTACATAAATTATTATAATAT
Found at i:16474416 original size:96 final size:90
Alignment explanation
Indices: 16474240--16474448 Score: 303
Period size: 96 Copynumber: 2.3 Consensus size: 90
16474230 CATAACTTAC
* *
16474240 ATTAATATTATACATAGA-TGACATAACTTAATTAATTAATATTATACATAACTTACATTAATAT
1 ATTAATATTATACATA-ACTTACATAAATTAATTAATTAATATTATACATAACTTACATTAATAT
*
16474304 TATACATAAATGACATAACTTAATTA
65 GATACATAAATGACATAACTTAATTA
*
16474330 ATTAATATTATACATAACTTACATAAATTAATTAGTTAATATACATAAATTACATAACTTACATT
1 ATTAATATTATACATAACTTACATAAATTAATTAATTAATAT---T--A-TACATAACTTACATT
*
16474395 AATATGATACATAAATGACATAACTTAGTTA
60 AATATGATACATAAATGACATAACTTAATTA
16474426 ATTAATATTATACATAACTTACA
1 ATTAATATTATACATAACTTACA
16474449 ACTTACATAA
Statistics
Matches: 107, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
89 1 0.01
90 37 0.35
93 1 0.01
95 1 0.01
96 67 0.63
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.38
Consensus pattern (90 bp):
ATTAATATTATACATAACTTACATAAATTAATTAATTAATATTATACATAACTTACATTAATATG
ATACATAAATGACATAACTTAATTA
Found at i:16474523 original size:34 final size:34
Alignment explanation
Indices: 16474448--16474526 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
16474438 CATAACTTAC
* * ***
16474448 AACTTACATAACTTACATATTTTTAATTATTCGT
1 AACTTACATAACTTACATAATTTTAATAATAAAT
* * *
16474482 AAATTACATAACTTACTTAATTTTCATAATAAAT
1 AACTTACATAACTTACATAATTTTAATAATAAAT
16474516 AACTTACATAA
1 AACTTACATAA
16474527 ATAACTTCTT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.43, C:0.14, G:0.01, T:0.42
Consensus pattern (34 bp):
AACTTACATAACTTACATAATTTTAATAATAAAT
Found at i:16474599 original size:25 final size:25
Alignment explanation
Indices: 16474570--16474625 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
16474560 ACTTACATAG
* *
16474570 CATAATTTTCATAATACACAACTTA
1 CATAATTTGCATAATAAACAACTTA
** *
16474595 CATAATTTGGGTAATAAATAACTTA
1 CATAATTTGCATAATAAACAACTTA
16474620 CATAAT
1 CATAAT
16474626 ACATAACTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (25 bp):
CATAATTTGCATAATAAACAACTTA
Found at i:16474625 original size:16 final size:16
Alignment explanation
Indices: 16474606--16474639 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
16474596 ATAATTTGGG
16474606 TAATAAATAACTTACA
1 TAATAAATAACTTACA
*
16474622 TAATACATAACTTACA
1 TAATAAATAACTTACA
16474638 TA
1 TA
16474640 GCTTAACTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (16 bp):
TAATAAATAACTTACA
Found at i:16480139 original size:66 final size:65
Alignment explanation
Indices: 16480041--16480205 Score: 197
Period size: 66 Copynumber: 2.5 Consensus size: 65
16480031 GAGCAAATTA
* * * * * * *
16480041 CACAATTTAAAGCGGAGGCAACATCGAGAGAAGCTGATGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTAAGGTTCAACAAAAG-TATGAAGAACTCCA
16480105 G
65 G
*
16480106 CTACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTAAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTAAGGTTCAACAAAAGTATGAAGAACTCCA
16480171 G
65 G
* * *
16480172 CAGCAGCTTAGAGCAGATGCGGCAGCGAGAGAAG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAG
16480206 AACAGGCTGC
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
65 2 0.02
66 80 0.93
67 4 0.05
ACGTcount: A:0.40, C:0.19, G:0.27, T:0.15
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTAAGGTTCAACAAAAGTATGAAGAACTCCAG
Found at i:16480218 original size:21 final size:21
Alignment explanation
Indices: 16480193--16480273 Score: 81
Period size: 21 Copynumber: 3.9 Consensus size: 21
16480183 AGCAGATGCG
* *
16480193 GCAGCGAGAGAAGAACAGGCT
1 GCAGCGAGGGAAGAAGAGGCT
* *
16480214 GCAGCAAGGGAAGTAGAGGCT
1 GCAGCGAGGGAAGAAGAGGCT
** * *
16480235 AAAGCGAGGGAAGCAGAGGTT
1 GCAGCGAGGGAAGAAGAGGCT
*
16480256 GCAGCGAGGGAAGCAGAG
1 GCAGCGAGGGAAGAAGAG
16480274 CAGCGTCAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.36, C:0.15, G:0.43, T:0.06
Consensus pattern (21 bp):
GCAGCGAGGGAAGAAGAGGCT
Found at i:16480646 original size:43 final size:42
Alignment explanation
Indices: 16480579--16480785 Score: 175
Period size: 43 Copynumber: 4.7 Consensus size: 42
16480569 ATCTGCCAAA
*
16480579 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATTAGGGTC
1 TTTAGCGGCGTTTTTGG-AAAAGCGCCGCTATAGATAAGGGTC
** * *
16480622 TTTAGCGGCGTTTTTGCGCGAAGCGCCGCTATATAGACAAAGGGTA
1 TTTAGCGGCGTTTTTG-GAAAAGCGCCGC--TATAGA-TAAGGGTC
* *
16480668 TTTAGCGGCGTTTTCTGGATAAGCGCCGGCTATAGATCAGGGTC
1 TTTAGCGGCGTTTT-TGGAAAAGCGCC-GCTATAGATAAGGGTC
* ** * * *
16480712 TATT-GCGGCGTTTGTGGGAAAAATGCTGCTTTAGATCAGGGTC
1 T-TTAGCGGCGTTT-TTGGAAAAGCGCCGCTATAGATAAGGGTC
*
16480755 TATT-GCGGCGTTTTTGGGAAAAGCGCTGCTA
1 T-TTAGCGGCGTTTTT-GGAAAAGCGCCGCTA
16480786 AAGGCCATGA
Statistics
Matches: 135, Mismatches: 20, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
42 1 0.01
43 65 0.48
44 23 0.17
45 15 0.11
46 27 0.20
47 4 0.03
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.30
Consensus pattern (42 bp):
TTTAGCGGCGTTTTTGGAAAAGCGCCGCTATAGATAAGGGTC
Found at i:16480800 original size:43 final size:43
Alignment explanation
Indices: 16480696--16480806 Score: 105
Period size: 43 Copynumber: 2.6 Consensus size: 43
16480686 ATAAGCGCCG
* * * *
16480696 GCTATAGATCAGGGTCTATTGCGGCGTTTGTGGGAAAAATGCT
1 GCTAAAGACCAGGATCTATTGCGGCGTTTGTGGGAAAAACGCT
** * * * *
16480739 GCTTTAGATCAGGGTCTATTGCGGCGTTTTTGGGAAAAGCGCT
1 GCTAAAGACCAGGATCTATTGCGGCGTTTGTGGGAAAAACGCT
* * *
16480782 GCTAAAGGCCATGATCTATAGCGGC
1 GCTAAAGACCAGGATCTATTGCGGC
16480807 ACTTATATAA
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.29
Consensus pattern (43 bp):
GCTAAAGACCAGGATCTATTGCGGCGTTTGTGGGAAAAACGCT
Found at i:16480840 original size:43 final size:44
Alignment explanation
Indices: 16480793--16480917 Score: 159
Period size: 43 Copynumber: 2.9 Consensus size: 44
16480783 CTAAAGGCCA
* *
16480793 TGATCTATAGCGGCACTTATATAAAAAACGCCGCTACAGAC-CC
1 TGATCTATAGCGGCGCTTATATAAAAAACGCCGCTAAAGACACC
16480836 TGATCTATAGCGGCGCTT-TCA-ACAAAAACGCCGCTAAAGACACC
1 TGATCTATAGCGGCGCTTAT-ATA-AAAAACGCCGCTAAAGACACC
* * *
16480880 -AATCTATAGCGGCGGTTATATTAAAAACGCCGCTAAAG
1 TGATCTATAGCGGCGCTTATATAAAAAACGCCGCTAAAG
16480918 CTCTTAGTCT
Statistics
Matches: 72, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
42 2 0.03
43 67 0.93
44 3 0.04
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (44 bp):
TGATCTATAGCGGCGCTTATATAAAAAACGCCGCTAAAGACACC
Found at i:16481104 original size:22 final size:22
Alignment explanation
Indices: 16481076--16481118 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
16481066 TTGCGGCGCT
* *
16481076 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCACTAAAAGCCTA
16481098 AAAAAGCGCCACTAAAAGCCT
1 AAAAAGCGCCACTAAAAGCCT
16481119 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.28, G:0.19, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCACTAAAAGCCTA
Found at i:16482708 original size:22 final size:21
Alignment explanation
Indices: 16482679--16482727 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
16482669 TTTTTTTATA
16482679 TTTTTTT-ATTAACTTTTGTCT
1 TTTTTTTAATT-ACTTTTGTCT
* *
16482700 TTTTCTTTAATTATTTTTTTCT
1 TTTT-TTTAATTACTTTTGTCT
16482722 TTTTTT
1 TTTTTT
16482728 AAGTTTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 6 0.25
22 15 0.62
23 3 0.12
ACGTcount: A:0.12, C:0.08, G:0.02, T:0.78
Consensus pattern (21 bp):
TTTTTTTAATTACTTTTGTCT
Found at i:16482767 original size:18 final size:16
Alignment explanation
Indices: 16482731--16482777 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
16482721 TTTTTTTAAG
*
16482731 TTTTATATTTTTCTTA
1 TTTTATTTTTTTCTTA
16482747 TTTTATTTTGTTTCTTTA
1 TTTTATTTT-TTTC-TTA
16482765 TTTTATTTATTTT
1 TTTTATTT-TTTT
16482778 TTGTTATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 8 0.30
17 4 0.15
18 14 0.52
19 1 0.04
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (16 bp):
TTTTATTTTTTTCTTA
Found at i:16482877 original size:32 final size:33
Alignment explanation
Indices: 16482834--16483108 Score: 134
Period size: 32 Copynumber: 8.0 Consensus size: 33
16482824 ATAATATATA
* *
16482834 ATTTTTAAAATTTAAAATATTA-TTTTTAGATT
1 ATTTTTTAAATTTAAAATATTATTTTTTAAATT
*
16482866 ATTTTTTAAATTTTAAATATTATTTTTTTAAATT
1 ATTTTTTAAATTTAAAATATTA-TTTTTTAAATT
* *
16482900 ATGTCTTATAAATTT-AAA-A-TATTTTTGAAATT
1 AT-T-TTTTAAATTTAAAATATTATTTTTTAAATT
* * *
16482932 AATTTTTTTAAATTTTAAATTTTAAATATATATTTAAAAAT
1 -A-TTTTTTAAATTTAAAATATT--AT-T-T-TTT-AAATT
* * * * ** *
16482973 ATAATTTTAAA--CAAAATAAAATAATTTAAAAAAT
1 AT-TTTTTAAATTTAAAAT--ATTATTTTTTAAATT
* *
16483007 ATATTTTTAAATTTTAAATATATATTTTTGAAATT
1 AT-TTTTTAAATTTAAAATAT-TATTTTTTAAATT
*
16483042 ATTTCTTATAAATTTTAAAA-ATATATTTTTGAAATT
1 ATTT-TT-TAAA-TTTAAAATAT-TATTTTTTAAATT
* *
16483078 ATTTTTTTAATTTTAAATATTA-TTTTTAAAT
1 ATTTTTTAAATTTAAAATATTATTTTTTAAAT
16483109 ATTAAATATA
Statistics
Matches: 189, Mismatches: 29, Indels: 50
0.71 0.11 0.19
Matches are distributed among these distances:
32 47 0.25
33 15 0.08
34 36 0.19
35 21 0.11
36 38 0.20
37 9 0.05
38 6 0.03
39 2 0.01
40 11 0.06
41 4 0.02
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (33 bp):
ATTTTTTAAATTTAAAATATTATTTTTTAAATT
Found at i:16482979 original size:33 final size:34
Alignment explanation
Indices: 16482942--16483033 Score: 109
Period size: 34 Copynumber: 2.7 Consensus size: 34
16482932 AATTTTTTTA
16482942 AATTTTAAATTTTAAATATATATTT-AAAAATAT
1 AATTTTAAATTTTAAATATATATTTAAAAAATAT
** *
16482975 AATTTTAAA--CAAAATAAAATAATTTAAAAAATAT
1 AATTTTAAATTTTAAAT-ATAT-ATTTAAAAAATAT
*
16483009 ATTTTTAAATTTTAAATATATATTT
1 AATTTTAAATTTTAAATATATATTT
16483034 TTGAAATTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
31 4 0.09
32 3 0.06
33 13 0.28
34 20 0.43
35 3 0.06
36 4 0.09
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (34 bp):
AATTTTAAATTTTAAATATATATTTAAAAAATAT
Found at i:16482990 original size:17 final size:16
Alignment explanation
Indices: 16482967--16483017 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
16482957 ATATATATTT
16482967 AAAAATATAATTTTAA
1 AAAAATATAATTTTAA
*
16482983 ACAAAATAAAATAATTT-A
1 A-AAAATATAAT--TTTAA
*
16483001 AAAAATATATTTTTAA
1 AAAAATATAATTTTAA
16483017 A
1 A
16483018 TTTTAAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
15 3 0.11
16 3 0.11
17 17 0.61
18 2 0.07
19 3 0.11
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAAATATAATTTTAA
Found at i:16483029 original size:21 final size:22
Alignment explanation
Indices: 16482995--16483041 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
16482985 AAAATAAAAT
16482995 AATTTAAAAAATATATTTTT-A
1 AATTTAAAAAATATATTTTTGA
* *
16483016 AATTTTAAATATATATTTTTGA
1 AATTTAAAAAATATATTTTTGA
16483038 AATT
1 AATT
16483042 ATTTCTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
AATTTAAAAAATATATTTTTGA
Found at i:16483054 original size:36 final size:34
Alignment explanation
Indices: 16483010--16483108 Score: 148
Period size: 36 Copynumber: 2.9 Consensus size: 34
16483000 AAAAAATATA
16483010 TTTTTAAATTTTAAATATATATTTTTGAAATTAT
1 TTTTTAAATTTTAAATATATATTTTTGAAATTAT
*
16483044 TTCTTATAAATTTTAAAAATATATTTTTGAAATTAT
1 TT-TT-TAAATTTTAAATATATATTTTTGAAATTAT
*
16483080 TTTTTTAATTTTAAATAT-TATTTTT-AAAT
1 TTTTTAAATTTTAAATATATATTTTTGAAAT
16483109 ATTAAATATA
Statistics
Matches: 60, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
32 4 0.07
33 7 0.12
34 14 0.23
35 4 0.07
36 31 0.52
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (34 bp):
TTTTTAAATTTTAAATATATATTTTTGAAATTAT
Found at i:16483103 original size:20 final size:20
Alignment explanation
Indices: 16483075--16483125 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
16483065 TATTTTTGAA
* *
16483075 ATTATTTTTTTAATTTTAAAT
1 ATTA-TTTTTAAATATTAAAT
16483096 ATTATTTTTAAATATTAAAT
1 ATTATTTTTAAATATTAAAT
16483116 A-TATTTTTAA
1 ATTATTTTTAA
16483126 TAATATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 9 0.32
20 15 0.54
21 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTATTTTTAAATATTAAAT
Found at i:16483106 original size:13 final size:13
Alignment explanation
Indices: 16483088--16483112 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16483078 ATTTTTTTAA
16483088 TTTTAAATATTAT
1 TTTTAAATATTAT
16483101 TTTTAAATATTA
1 TTTTAAATATTA
16483113 AATATATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAAATATTAT
Found at i:16483132 original size:21 final size:20
Alignment explanation
Indices: 16483073--16483132 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
16483063 TATATTTTTG
* *
16483073 AAAT-TATTTTTTTAATTTT
1 AAATATATTTTTATAATATT
16483092 AAATATTATTTTTA-AATATT
1 AAATA-TATTTTTATAATATT
16483112 AAATATATTTTTAATAATATT
1 AAATATATTTTT-ATAATATT
16483133 TAAACATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 11 0.31
20 11 0.31
21 13 0.37
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
AAATATATTTTTATAATATT
Found at i:16483145 original size:142 final size:141
Alignment explanation
Indices: 16482868--16483125 Score: 353
Period size: 142 Copynumber: 1.8 Consensus size: 141
16482858 TTTAGATTAT
*
16482868 TTTTTAAATTTTAAATATTATTTTTTTAAATTATGTCTTATAAATTTAAAATATTTTTGAAATTA
1 TTTTTAAATTTTAAATATTATTTTTTGAAATTATGTCTTATAAATTTAAAATATTTTTGAAATTA
* *
16482933 ATTTTTTTAAATTTTAAATTTTAAATATATATTTAAAAATATAATTTTAAACAAAATAAAATAAT
66 ATTTTTTTAAATTTTAAATATTAAATATAAATTT-AAAATATAATTTTAAACAAAATAAAATAAT
16482998 TTAAAAAATATA
130 TTAAAAAATATA
*
16483010 TTTTTAAATTTTAAATA-TATATTTTTGAAATTATTTCTTATAAATTTTAAAAATATATTTTTGA
1 TTTTTAAATTTTAAATATTAT-TTTTTGAAATTATGTCTTATAAA-TTT--AAA-ATATTTTTGA
** * *
16483074 AATT-ATTTTTTT-AATTTTAAATATTATTTTTAAATATT-AAATATATTTTTAA
61 AATTAATTTTTTTAAATTTTAAATATTAAATATAAAT-TTAAAATATAATTTTAA
16483126 TAATATTTAA
Statistics
Matches: 102, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
141 3 0.03
142 38 0.37
143 16 0.16
144 18 0.18
145 13 0.13
146 14 0.14
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (141 bp):
TTTTTAAATTTTAAATATTATTTTTTGAAATTATGTCTTATAAATTTAAAATATTTTTGAAATTA
ATTTTTTTAAATTTTAAATATTAAATATAAATTTAAAATATAATTTTAAACAAAATAAAATAATT
TAAAAAATATA
Found at i:16483210 original size:11 final size:11
Alignment explanation
Indices: 16483188--16483217 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
16483178 AAAAAGGTTT
16483188 AAATATATTTAA
1 AAATA-ATTTAA
16483200 AAATAATTTAA
1 AAATAATTTAA
16483211 AAATAAT
1 AAATAAT
16483218 AATTTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AAATAATTTAA
Found at i:16483220 original size:14 final size:14
Alignment explanation
Indices: 16483201--16483227 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16483191 TATATTTAAA
16483201 AATAATTTAAAAAT
1 AATAATTTAAAAAT
16483215 AATAATTTAAAAA
1 AATAATTTAAAAA
16483228 ATTCTGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AATAATTTAAAAAT
Found at i:16483341 original size:11 final size:12
Alignment explanation
Indices: 16483325--16483363 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
16483315 TCTTCTTCTT
*
16483325 TTTTTTTTTAAT
1 TTTTTTTTTAAC
*
16483337 TTTTTTTTTTAC
1 TTTTTTTTTAAC
16483349 -TTTTTTTTAAC
1 TTTTTTTTTAAC
16483360 TTTT
1 TTTT
16483364 GTCATTTCTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.13, C:0.05, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTTTTTAAC
Found at i:16483342 original size:14 final size:13
Alignment explanation
Indices: 16483323--16483356 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
16483313 CTTCTTCTTC
16483323 TTTTTTTTTTTAA
1 TTTTTTTTTTTAA
*
16483336 TTTTTTTTTTTAC
1 TTTTTTTTTTTAA
16483349 TTTTTTTT
1 TTTTTTTT
16483357 AACTTTTGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTTTTTAA
Found at i:16483505 original size:22 final size:23
Alignment explanation
Indices: 16483462--16483517 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 23
16483452 GAAATGTATA
16483462 TTTGAAATGTTTTATAATATATATAT
1 TTTGAAA--TTTTATAATATATAT-T
16483488 TTT-AAATTTTA-AATATATATT
1 TTTGAAATTTTATAATATATATT
16483509 TTTGAAATT
1 TTTGAAATT
16483518 ATTTTTCTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.14
22 14 0.48
23 5 0.17
25 3 0.10
26 3 0.10
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (23 bp):
TTTGAAATTTTATAATATATATT
Found at i:16483564 original size:34 final size:33
Alignment explanation
Indices: 16483491--16483583 Score: 116
Period size: 34 Copynumber: 2.7 Consensus size: 33
16483481 TATATATTTT
**
16483491 AAATTTTAAATATATATTTTTGAAATTATTTTTCT
1 AAATTTTAAATAT-TATTTTT-AAATTATTTTTAA
16483526 AAATTTTAAATATTATTTTTAAATTATTGTTTAA
1 AAATTTTAAATATTATTTTTAAATTATT-TTTAA
*
16483560 AAA-TTGAAATATTATTTTTTAAAT
1 AAATTTTAAATATTA-TTTTTAAAT
16483584 ATTAAATATA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
33 18 0.34
34 22 0.42
35 13 0.25
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (33 bp):
AAATTTTAAATATTATTTTTAAATTATTTTTAA
Found at i:16483570 original size:33 final size:33
Alignment explanation
Indices: 16483498--16483583 Score: 102
Period size: 33 Copynumber: 2.5 Consensus size: 33
16483488 TTTAAATTTT
* * *
16483498 AAATATATATTTTTGAAATTATTTTTCTAAATTTT
1 AAATAT-TATTTTT-AAATTATTTTTCAAAAATTG
16483533 AAATATTATTTTTAAATTATTGTTT-AAAAATTG
1 AAATATTATTTTTAAATTATT-TTTCAAAAATTG
16483566 AAATATTATTTTTTAAAT
1 AAATATTA-TTTTTAAAT
16483584 ATTAAATATA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
33 21 0.46
34 19 0.41
35 6 0.13
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (33 bp):
AAATATTATTTTTAAATTATTTTTCAAAAATTG
Found at i:16483592 original size:21 final size:21
Alignment explanation
Indices: 16483548--16483614 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 21
16483538 TTATTTTTAA
* *
16483548 ATTATTGTTTAAAAATTGAAAT
1 ATTATTTTTTAAATATT-AAAT
16483570 ATTATTTTTTAAATATTAAAT
1 ATTATTTTTTAAATATTAAAT
* *
16483591 A-TATTTTTAATAATATAAAAT
1 ATTATTTTTTA-AATATTAAAT
16483612 ATT
1 ATT
16483615 TAAATATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.21
21 15 0.38
22 16 0.41
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (21 bp):
ATTATTTTTTAAATATTAAAT
Found at i:16483599 original size:19 final size:19
Alignment explanation
Indices: 16483544--16483615 Score: 67
Period size: 19 Copynumber: 3.6 Consensus size: 19
16483534 AATATTATTT
16483544 TTAAAT-TATTGTTTAAAAA
1 TTAAATATATT-TTTAAAAA
*
16483563 TTGAAATATTATTTTTTAAATA
1 TT-AAATA-TA-TTTTTAAAAA
*
16483585 TTAAATATATTTTTAATAA
1 TTAAATATATTTTTAAAAA
16483604 TATAAA-ATATTT
1 T-TAAATATATTT
16483616 AAATATTTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
19 17 0.38
20 10 0.22
21 5 0.11
22 11 0.24
23 2 0.04
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
TTAAATATATTTTTAAAAA
Found at i:16483620 original size:18 final size:19
Alignment explanation
Indices: 16483576--16483620 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
16483566 AAATATTATT
16483576 TTTTAAAT-ATTAAATATA
1 TTTTAAATAATTAAATATA
*
16483594 TTTTTAATAATATAAA-ATA
1 TTTTAAATAAT-TAAATATA
16483613 -TTTAAATA
1 TTTTAAATA
16483621 TTTTAAAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 14 0.61
19 5 0.22
20 4 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTTAAATAATTAAATATA
Found at i:16483715 original size:34 final size:33
Alignment explanation
Indices: 16483654--16483730 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 33
16483644 TTTATTATTA
* *
16483654 GTTTTATAATATTTTAAATGTATATTTTAATTT
1 GTTTTATAATTTTTTAAATGTATATTTTAAATT
*
16483687 GTTTTATAATTTTTTTAAT-TATAAATTTTAAATT
1 GTTTTATAATTTTTTAAATGTAT--ATTTTAAATT
*
16483721 ATTTTA-AATT
1 GTTTTATAATT
16483731 ATGATTTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
32 3 0.08
33 21 0.55
34 14 0.37
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (33 bp):
GTTTTATAATTTTTTAAATGTATATTTTAAATT
Found at i:16483725 original size:23 final size:24
Alignment explanation
Indices: 16483688--16483767 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 24
16483678 TTTTAATTTG
*
16483688 TTTTATAATT-TTTTTAATTATAAA
1 TTTTA-AATTATTTTAAATTATAAA
* *
16483712 TTTTAAATTATTTTAAATTATGAT
1 TTTTAAATTATTTTAAATTATAAA
* * * *
16483736 TTTTAAATAATTTAAAATATATTAT
1 TTTTAAATTATTTTAAAT-TATAAA
16483761 TTTTAAA
1 TTTTAAA
16483768 AATATGGCGT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
23 4 0.08
24 32 0.67
25 12 0.25
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (24 bp):
TTTTAAATTATTTTAAATTATAAA
Found at i:16483725 original size:24 final size:24
Alignment explanation
Indices: 16483657--16483748 Score: 75
Period size: 24 Copynumber: 3.8 Consensus size: 24
16483647 ATTATTAGTT
16483657 TTATAATATTTTAAATGTATATTTTAA
1 TTATAA-ATTTTAAAT-TAT-TTTTAA
*
16483684 TT-T--GTTTTATAATT-TTTTTAA
1 TTATAAATTTTA-AATTATTTTTAA
*
16483705 TTATAAATTTTAAATTATTTTAAA
1 TTATAAATTTTAAATTATTTTTAA
* * *
16483729 TTATGATTTTTAAATAATTT
1 TTATAAATTTTAAATTATTT
16483749 AAAATATATT
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
21 8 0.15
22 2 0.04
23 10 0.19
24 31 0.57
26 1 0.02
27 2 0.04
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (24 bp):
TTATAAATTTTAAATTATTTTTAA
Found at i:16483753 original size:24 final size:24
Alignment explanation
Indices: 16483703--16483767 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
16483693 TAATTTTTTT
* * *
16483703 AATTATAAATTTTAAATTATTTTA
1 AATTATAATTTTTAAATAATTTAA
*
16483727 AATTATGATTTTTAAATAATTTAA
1 AATTATAATTTTTAAATAATTTAA
*
16483751 AATATATTATTTTTAAA
1 AAT-TATAATTTTTAAA
16483768 AATATGGCGT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
24 23 0.66
25 12 0.34
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
AATTATAATTTTTAAATAATTTAA
Found at i:16483790 original size:140 final size:134
Alignment explanation
Indices: 16483585--16483854 Score: 332
Period size: 140 Copynumber: 2.0 Consensus size: 134
16483575 TTTTTAAATA
* *
16483585 TTAAATATATTTTTAATAATATAAAATATTTAAATATTTTAAAGATATGACCTTTCAAATTTATT
1 TTAAATATATTTTTAATAATATAAAATATTT-AATATTTTAAAAATATGACCTTTCAAATGTATT
** *
16483650 ATTAGTTTTATAATATTTTAAATGTATATTTT-AATTTGTTTTATAATTTTT-TTAATTATAAAT
65 ATT--TTTTATAATATTTTAAA--TAT-TTTTAAATTT-TAATATAATTTTTATAAATTATAAAT
16483713 TTTAAATTATT
124 TTTAAATTATT
* * *
16483724 TTAAATTATGATTTTTAAATAATTTAAAATATATT-AT-TTTTAAAAATATGGCGTTTCAAATGT
1 TTAAA-TAT-ATTTTT-AATAATATAAAATAT-TTAATATTTTAAAAATATGACCTTTCAAATGT
*
16483787 ATTATTTTTTATAATATTTTAAATATTTTTAAATTTTAATATAATTTTTATAAATTATTAATTTT
62 ATTATTTTTTATAATATTTTAAATATTTTTAAATTTTAATATAATTTTTATAAATTATAAATTTT
16483852 AAA
127 AAA
16483855 GATATTCAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
135 15 0.13
136 24 0.21
138 17 0.15
139 5 0.04
140 31 0.27
141 8 0.07
142 14 0.12
143 2 0.02
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (134 bp):
TTAAATATATTTTTAATAATATAAAATATTTAATATTTTAAAAATATGACCTTTCAAATGTATTA
TTTTTTATAATATTTTAAATATTTTTAAATTTTAATATAATTTTTATAAATTATAAATTTTAAAT
TATT
Found at i:16483824 original size:17 final size:19
Alignment explanation
Indices: 16483802--16483836 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
16483792 TTTTTATAAT
16483802 ATTTTAA-AT-ATTTTTAA
1 ATTTTAATATAATTTTTAA
16483819 ATTTTAATATAATTTTTA
1 ATTTTAATATAATTTTTA
16483837 TAAATTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTTAATATAATTTTTAA
Found at i:16483849 original size:28 final size:30
Alignment explanation
Indices: 16483796--16483853 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
16483786 TATTATTTTT
*
16483796 TATAATATTTTAAATATTTTTAAATTTTAA
1 TATAATATTTTAAATATTATTAAATTTTAA
16483826 TATAAT-TTTTATAA-ATTATT-AATTTTAA
1 TATAATATTTTA-AATATTATTAAATTTTAA
16483854 AGATATTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 8 0.31
29 10 0.38
30 8 0.31
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (30 bp):
TATAATATTTTAAATATTATTAAATTTTAA
Found at i:16483987 original size:7 final size:7
Alignment explanation
Indices: 16483970--16483999 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
16483960 TTTTTTAATA
16483970 TAATAATT
1 TAAT-ATT
16483978 TAATATT
1 TAATATT
16483985 TAATATT
1 TAATATT
16483992 TAATATT
1 TAATATT
16483999 T
1 T
16484000 TATTTTGGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.82
8 4 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TAATATT
Found at i:16487320 original size:30 final size:30
Alignment explanation
Indices: 16487243--16487349 Score: 115
Period size: 30 Copynumber: 3.6 Consensus size: 30
16487233 CGGTGGTTGC
* ** *
16487243 TCTGGGTGAAATGAACTCAAACTGCCTATG
1 TCTGGGTGATATGAACTTGAACCGCCTATG
* *
16487273 TTTGGGTGATATGAACTTGAACCGCTTATG
1 TCTGGGTGATATGAACTTGAACCGCCTATG
* * *
16487303 TCTGGGTGATATGAACTTGAACTGGCAATG
1 TCTGGGTGATATGAACTTGAACCGCCTATG
* *
16487333 TCCGAGTGATATGAACT
1 TCTGGGTGATATGAACT
16487350 ACTCTGCGAC
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (30 bp):
TCTGGGTGATATGAACTTGAACCGCCTATG
Found at i:16489631 original size:71 final size:72
Alignment explanation
Indices: 16489539--16489689 Score: 241
Period size: 71 Copynumber: 2.1 Consensus size: 72
16489529 TTAAAATATA
* * * * *
16489539 TTTTTAAAAATATATTGAATATATTATAATTTTAATATTGGTTATACTTAACAT-TTTTTAATAT
1 TTTTTAAAAATATATTAAATATATTAAAATTTTAAAATTGGCTATACATAACATGTTTTTAATAT
16489603 ATTTAAT
66 ATTTAAT
16489610 TTTTTAAAAATATATTAAATATATTAAAATTTTAAAATTGGCTATACATAACATGTTTTTAATAT
1 TTTTTAAAAATATATTAAATATATTAAAATTTTAAAATTGGCTATACATAACATGTTTTTAATAT
16489675 ATTTAAT
66 ATTTAAT
16489682 TTCTTTAA
1 TT-TTTAA
16489690 GTTTTTAAAC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
71 49 0.67
72 19 0.26
73 5 0.07
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (72 bp):
TTTTTAAAAATATATTAAATATATTAAAATTTTAAAATTGGCTATACATAACATGTTTTTAATAT
ATTTAAT
Found at i:16489636 original size:20 final size:20
Alignment explanation
Indices: 16489598--16489638 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
16489588 AACATTTTTT
* * *
16489598 AATATATTTAATTTTTTAAA
1 AATATATTAAATATATTAAA
16489618 AATATATTAAATATATTAAA
1 AATATATTAAATATATTAAA
16489638 A
1 A
16489639 TTTTAAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AATATATTAAATATATTAAA
Found at i:16489805 original size:40 final size:41
Alignment explanation
Indices: 16489752--16489836 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 41
16489742 AAAAATATAT
* *
16489752 ATTAAGTACATAAATTTATGAATGTGTACTAAAATTAAAAA
1 ATTAAGTACATAAATTTATAAATATGTACTAAAATTAAAAA
* *
16489793 ATTAA-TATATAAATTTATAAATATGTATTAAAATTAAAAA
1 ATTAAGTACATAAATTTATAAATATGTACTAAAATTAAAAA
16489833 ATTA
1 ATTA
16489837 TAACCAACAC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 35 0.88
41 5 0.12
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (41 bp):
ATTAAGTACATAAATTTATAAATATGTACTAAAATTAAAAA
Found at i:16489806 original size:20 final size:18
Alignment explanation
Indices: 16489781--16489836 Score: 51
Period size: 22 Copynumber: 2.9 Consensus size: 18
16489771 GAATGTGTAC
16489781 TAAAATTAAAAAATTAAT
1 TAAAATTAAAAAATTAAT
*
16489799 ATATAAATTTATAAATATGT-AT
1 -TA-AAA-TTA-AAAAAT-TAAT
16489821 TAAAATTAAAAAATTA
1 TAAAATTAAAAAATTA
16489837 TAACCAACAC
Statistics
Matches: 30, Mismatches: 2, Indels: 11
0.70 0.05 0.26
Matches are distributed among these distances:
17 1 0.03
18 5 0.17
19 5 0.17
20 6 0.20
21 5 0.17
22 7 0.23
23 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
TAAAATTAAAAAATTAAT
Found at i:16490367 original size:19 final size:20
Alignment explanation
Indices: 16490332--16490375 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
16490322 ATATATTTTT
*
16490332 AAATAAATTTATTTTTTAAC
1 AAATAAATCTATTTTTTAAC
16490352 AAATAAATCT-TTTTTTAAC
1 AAATAAATCTATTTTTTAAC
16490371 AAATA
1 AAATA
16490376 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATAAATCTATTTTTTAAC
Found at i:16490380 original size:16 final size:16
Alignment explanation
Indices: 16490312--16490381 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
16490302 TAATTTTTAC
* * *
16490312 TTTTTAATATATATAT
1 TTTTTAACAAATATTT
* *
16490328 TTTTAAATAAAT-TTAT
1 TTTTTAACAAATATT-T
16490344 TTTTTAACAAATAAATCTT
1 TTTTTAACAAAT--AT-TT
16490363 TTTTTAACAAATATTT
1 TTTTTAACAAATATTT
16490379 TTT
1 TTT
16490382 ATTTTTTAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
15 1 0.02
16 26 0.59
17 2 0.05
19 14 0.32
20 1 0.02
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTTTAACAAATATTT
Found at i:16492636 original size:18 final size:18
Alignment explanation
Indices: 16492597--16492636 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
16492587 GTCAGACATG
* *
16492597 GAGGAAAGGGATATAATT
1 GAGGAAAAGGATATAATC
*
16492615 GAGGAAAAGGATATTATC
1 GAGGAAAAGGATATAATC
16492633 GAGG
1 GAGG
16492637 GTGATACTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.03, G:0.35, T:0.20
Consensus pattern (18 bp):
GAGGAAAAGGATATAATC
Found at i:16499078 original size:21 final size:22
Alignment explanation
Indices: 16499049--16499095 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
16499039 CAGAAGGAGT
*
16499049 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
16499071 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
16499092 GAGT
1 GAGT
16499096 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:16504916 original size:16 final size:16
Alignment explanation
Indices: 16504892--16504928 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
16504882 TATTTTTCAA
16504892 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
* *
16504908 TATTTTTTAAATTTAT
1 TATTATTTAAAATTAT
16504924 TATTA
1 TATTA
16504929 AAATAAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:16518616 original size:40 final size:40
Alignment explanation
Indices: 16518564--16518959 Score: 605
Period size: 40 Copynumber: 9.8 Consensus size: 40
16518554 ATTACCACAA
* * *
16518564 GCACAATTGCCTTCGGGTCTTAACCC-GAGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGA-TATATCAACTC
* *
16518604 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
16518644 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
16518684 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATGTCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA--TCAACTC
16518726 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
16518766 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATGTCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA--TCAACTC
* *
16518808 GCACAAATGCCTTCGAGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
16518848 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATGTCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA--TCAACTC
* *
16518890 GCACAAATGCCTTCGGGTCTTAGCCTGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
16518930 GCACAAATGCCTTCTGGTCTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
16518960 GTATTCAAAT
Statistics
Matches: 328, Mismatches: 21, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
40 212 0.65
41 2 0.01
42 114 0.35
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:16518757 original size:82 final size:82
Alignment explanation
Indices: 16518564--16518967 Score: 654
Period size: 82 Copynumber: 5.0 Consensus size: 82
16518554 ATTACCACAA
* * * * *
16518564 GCACAATTGCCTTCGGGTCTTAACCC-GAGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGA-TATATCAACTCGCACAAATGCCTGCGGGTCTTAGC
*
16518628 CCGGATATA--TCAACTT
65 CCGGATATATGTCAACTC
16518644 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
16518709 CGGATATATGTCAACTC
66 CGGATATATGTCAACTC
16518726 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
16518791 CGGATATATGTCAACTC
66 CGGATATATGTCAACTC
* *
16518808 GCACAAATGCCTTCGAGTCTTAGCCCGGATATATCAACTTGCACAAATGCCTGCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
16518873 CGGATATATGTCAACTC
66 CGGATATATGTCAACTC
* * * *
16518890 GCACAAATGCCTTCGGGTCTTAGCCTGGATATATCAACTTGCACAAATGCCTTCTGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
*
16518955 CGGATGTAT-TCAA
66 CGGATATATGTCAA
16518968 ATGCTCATGC
Statistics
Matches: 308, Mismatches: 13, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
80 65 0.21
81 6 0.02
82 237 0.77
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (82 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
CGGATATATGTCAACTC
Found at i:16527425 original size:40 final size:40
Alignment explanation
Indices: 16527373--16527768 Score: 621
Period size: 40 Copynumber: 9.8 Consensus size: 40
16527363 ATTACCACAA
* * * *
16527373 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
16527413 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
16527453 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
16527493 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATGTCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA--TCAACTC
* *
16527535 GCACAACTGCCTTCGAGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
16527575 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATGTCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA--TCAACTC
*
16527617 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
16527657 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATGTCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA--TCAACTC
*
16527699 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
16527739 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
16527769 GTATTCAAAT
Statistics
Matches: 329, Mismatches: 21, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
40 215 0.65
42 114 0.35
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:16527568 original size:82 final size:82
Alignment explanation
Indices: 16527373--16527776 Score: 670
Period size: 82 Copynumber: 5.0 Consensus size: 82
16527363 ATTACCACAA
* * * * * *
16527373 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
*
16527438 CGGATATA--TCAACTT
66 CGGATATATGTCAACTC
16527453 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
16527518 CGGATATATGTCAACTC
66 CGGATATATGTCAACTC
* *
16527535 GCACAACTGCCTTCGAGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
16527600 CGGATATATGTCAACTC
66 CGGATATATGTCAACTC
*
16527617 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGCCTGCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
16527682 CGGATATATGTCAACTC
66 CGGATATATGTCAACTC
* *
16527699 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
*
16527764 CGGATGTAT-TCAA
66 CGGATATATGTCAA
16527777 ATGCTCATGC
Statistics
Matches: 308, Mismatches: 14, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
80 67 0.22
81 4 0.01
82 237 0.77
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (82 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
CGGATATATGTCAACTC
Found at i:16548940 original size:21 final size:21
Alignment explanation
Indices: 16548907--16548947 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
16548897 TTTATTGAAA
16548907 CAACAATTCAAACATAAACAT
1 CAACAATTCAAACATAAACAT
* * *
16548928 CAACCATTTAAACCTAAACA
1 CAACAATTCAAACATAAACA
16548948 AATTAGCTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.54, C:0.27, G:0.00, T:0.20
Consensus pattern (21 bp):
CAACAATTCAAACATAAACAT
Found at i:16561184 original size:18 final size:18
Alignment explanation
Indices: 16561139--16561173 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
16561129 ATGAGTTTAC
*
16561139 AAATATTTTAAATTATTG
1 AAATCTTTTAAATTATTG
16561157 AAATCTTTTAAATTATT
1 AAATCTTTTAAATTATT
16561174 TATGATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (18 bp):
AAATCTTTTAAATTATTG
Found at i:16564305 original size:13 final size:13
Alignment explanation
Indices: 16564287--16564320 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
16564277 ATTCATTTAA
16564287 CATTTCATA-TTTT
1 CATTTCA-AGTTTT
16564300 CATTTCAAGTTTT
1 CATTTCAAGTTTT
16564313 CATTTCAA
1 CATTTCAA
16564321 ATGTCCCCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 1 0.05
13 19 0.95
ACGTcount: A:0.26, C:0.18, G:0.03, T:0.53
Consensus pattern (13 bp):
CATTTCAAGTTTT
Found at i:16564392 original size:14 final size:13
Alignment explanation
Indices: 16564349--16564393 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
16564339 TCTATATCTA
16564349 TATAAACATTTCG
1 TATAAACATTTCG
*
16564362 TATAAACATTTCA
1 TATAAACATTTCG
**
16564375 TATAATTATTTTCG
1 TATAAACA-TTTCG
16564389 TATAA
1 TATAA
16564394 CTGATTCATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
13 18 0.67
14 9 0.33
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.44
Consensus pattern (13 bp):
TATAAACATTTCG
Found at i:16564431 original size:27 final size:27
Alignment explanation
Indices: 16564401--16564454 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
16564391 TAACTGATTC
16564401 ATATAAACA-TTCAATATATCT-ATTTTT
1 ATATAAACATTTC-ATATAT-TGATTTTT
*
16564428 ATATAACCATTTCATATATTGATTTTT
1 ATATAAACATTTCATATATTGATTTTT
16564455 CCACTTGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 1 0.04
27 20 0.83
28 3 0.12
ACGTcount: A:0.37, C:0.11, G:0.02, T:0.50
Consensus pattern (27 bp):
ATATAAACATTTCATATATTGATTTTT
Found at i:16564442 original size:40 final size:40
Alignment explanation
Indices: 16564336--16564445 Score: 109
Period size: 40 Copynumber: 2.8 Consensus size: 40
16564326 CCCTTTTTAC
* * * *
16564336 ATATCTATATCTATATAAACATTTCGTATAAACATTTCAT
1 ATATCTATTTTTATATAACCATTTCATATAAACATTTCAT
** *
16564376 ATAAT-TATTTTCGTATAACTGA-TTCATATAAACA-TTCAAT
1 AT-ATCTATTTTTATATAAC-CATTTCATATAAACATTTC-AT
16564416 ATATCTATTTTTATATAACCATTTCATATA
1 ATATCTATTTTTATATAACCATTTCATATA
16564446 TTGATTTTTC
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
39 6 0.11
40 46 0.84
41 3 0.05
ACGTcount: A:0.39, C:0.14, G:0.03, T:0.45
Consensus pattern (40 bp):
ATATCTATTTTTATATAACCATTTCATATAAACATTTCAT
Found at i:16564530 original size:25 final size:25
Alignment explanation
Indices: 16564497--16564558 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
16564487 ATACACGGGA
* *
16564497 ATAA-TGCTCACTCAAGCTGTAACT
1 ATAATTGCTCACACAAGCTGCAACT
* *
16564521 ATAATTGCTCACACGAGTTGCAACT
1 ATAATTGCTCACACAAGCTGCAACT
*
16564546 GTAATTGCTCACA
1 ATAATTGCTCACA
16564559 TAGGCTGTGA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 4 0.12
25 28 0.88
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (25 bp):
ATAATTGCTCACACAAGCTGCAACT
Found at i:16564814 original size:46 final size:46
Alignment explanation
Indices: 16564747--16564838 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
16564737 CACGAGGTTC
16564747 ATACGGGCTGTGGGTCACATTCATAACATATAAATGTTTAATCACT
1 ATACGGGCTGTGGGTCACATTCATAACATATAAATGTTTAATCACT
16564793 ATACGGGCTGTGGGTCACATTCATAACATATAAATGTTTAATCACT
1 ATACGGGCTGTGGGTCACATTCATAACATATAAATGTTTAATCACT
16564839 TCTTTGTCTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (46 bp):
ATACGGGCTGTGGGTCACATTCATAACATATAAATGTTTAATCACT
Found at i:16572177 original size:7 final size:7
Alignment explanation
Indices: 16572158--16572220 Score: 67
Period size: 7 Copynumber: 8.9 Consensus size: 7
16572148 TTAGCCTCTC
16572158 CATTTTT
1 CATTTTT
16572165 -ACTTTTT
1 CA-TTTTT
16572172 CATTTTTTT
1 CA--TTTTT
16572181 CATTTTT
1 CATTTTT
16572188 CATTTTT
1 CATTTTT
16572195 CA-TTTT
1 CATTTTT
16572201 CATTTTT
1 CATTTTT
* *
16572208 CATCTCT
1 CATTTTT
16572215 CATTTT
1 CATTTT
16572221 CTCTTTTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
6 7 0.15
7 32 0.68
8 1 0.02
9 7 0.15
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.68
Consensus pattern (7 bp):
CATTTTT
Found at i:16572177 original size:14 final size:13
Alignment explanation
Indices: 16572158--16572228 Score: 61
Period size: 14 Copynumber: 5.0 Consensus size: 13
16572148 TTAGCCTCTC
16572158 CATTTTTACTTTTT
1 CATTTTT-CTTTTT
16572172 CATTTTTTTCATTTTT
1 CA--TTTTTC-TTTTT
*
16572188 CATTTTTCATTTT
1 CATTTTTCTTTTT
* *
16572201 CATTTTTCATCTCT
1 CATTTTTC-TTTTT
16572215 CATTTTCTCTTTTT
1 CATTTT-TCTTTTT
16572229 TTTTGAATTG
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
13 12 0.26
14 19 0.41
15 3 0.07
16 12 0.26
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.69
Consensus pattern (13 bp):
CATTTTTCTTTTT
Found at i:16572227 original size:20 final size:20
Alignment explanation
Indices: 16572177--16572221 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
16572167 TTTTTCATTT
* *
16572177 TTTTCATTTTTCATTTTTCA
1 TTTTCATTTTTCATCTCTCA
16572197 TTTTCATTTTTCATCTCTCA
1 TTTTCATTTTTCATCTCTCA
16572217 TTTTC
1 TTTTC
16572222 TCTTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.13, C:0.20, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTCATTTTTCATCTCTCA
Found at i:16573078 original size:22 final size:23
Alignment explanation
Indices: 16573029--16573078 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
16573019 TTTTTCCTTC
16573029 TTTTTTCATTTTGATTTGGATAA
1 TTTTTTCATTTTGATTTGGATAA
* *
16573052 CTTTTT-ATTTTGACTTT-GATCA
1 TTTTTTCATTTTGA-TTTGGATAA
16573074 TTTTT
1 TTTTT
16573079 CTTTTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.18, C:0.08, G:0.10, T:0.64
Consensus pattern (23 bp):
TTTTTTCATTTTGATTTGGATAA
Found at i:16573771 original size:35 final size:35
Alignment explanation
Indices: 16573729--16573813 Score: 152
Period size: 35 Copynumber: 2.4 Consensus size: 35
16573719 GTATAAATTC
*
16573729 ATGAATAATTATTTGTACCATATGATTACGAATGA
1 ATGAATAATAATTTGTACCATATGATTACGAATGA
*
16573764 ATGAATAATAATTTGTACCATATGATTATGAATGA
1 ATGAATAATAATTTGTACCATATGATTACGAATGA
16573799 ATGAATAATAATTTG
1 ATGAATAATAATTTG
16573814 GAAGAAAATC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.38
Consensus pattern (35 bp):
ATGAATAATAATTTGTACCATATGATTACGAATGA
Found at i:16578296 original size:3 final size:3
Alignment explanation
Indices: 16578288--16578322 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
16578278 AAGCAAAAAC
* *
16578288 TAA TAA TAA TAA TAA TAA TAA TGA TGA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
16578323 GTGGAAACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:16584948 original size:17 final size:18
Alignment explanation
Indices: 16584911--16584952 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
16584901 GGTATTTGGC
*
16584911 ATCTGATAATTCTATTTT
1 ATCTGATAATTCTATTGT
*
16584929 ATCTGAT-ATTCTGTTGT
1 ATCTGATAATTCTATTGT
16584946 ATCTGAT
1 ATCTGAT
16584953 TGTGAGGCGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.52
Consensus pattern (18 bp):
ATCTGATAATTCTATTGT
Found at i:16586311 original size:11 final size:11
Alignment explanation
Indices: 16586295--16586341 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
16586285 TAAAAAAAGG
16586295 TATTTTAAAAA
1 TATTTTAAAAA
16586306 TATTTTAAAAA
1 TATTTTAAAAA
**
16586317 TA-TAAAAAAA
1 TATTTTAAAAA
16586327 GTATTTTAAAAA
1 -TATTTTAAAAA
16586339 TAT
1 TAT
16586342 AAAAATAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
10 6 0.20
11 18 0.60
12 6 0.20
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:16586326 original size:22 final size:22
Alignment explanation
Indices: 16586301--16586346 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
16586291 AAGGTATTTT
16586301 AAAAATATTTTAAAAATATAAA
1 AAAAATATTTTAAAAATATAAA
*
16586323 AAAAGTATTTTAAAAATATAAA
1 AAAAATATTTTAAAAATATAAA
16586345 AA
1 AA
16586347 TAAAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (22 bp):
AAAAATATTTTAAAAATATAAA
Found at i:16586339 original size:33 final size:33
Alignment explanation
Indices: 16586268--16586341 Score: 123
Period size: 33 Copynumber: 2.2 Consensus size: 33
16586258 AATAAACACC
*
16586268 AAAAAAATTTTAAAAAATAAAAAAAGGTATTTT
1 AAAAATATTTTAAAAAATAAAAAAAGGTATTTT
16586301 AAAAATATTTTAAAAATATAAAAAAA-GTATTTT
1 AAAAATATTTTAAAAA-ATAAAAAAAGGTATTTT
16586334 AAAAATAT
1 AAAAATAT
16586342 AAAAATAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
33 30 0.77
34 9 0.23
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (33 bp):
AAAAATATTTTAAAAAATAAAAAAAGGTATTTT
Found at i:16586359 original size:33 final size:34
Alignment explanation
Indices: 16586278--16586364 Score: 85
Period size: 33 Copynumber: 2.6 Consensus size: 34
16586268 AAAAAAATTT
16586278 TAAAAAATAAAAAAAGGTATTTTAAAAATATTTTAAAAA
1 TAAAAAAT--AAAAA-GTATTTTAAAAATA--TTAAAAA
*
16586317 T--ATAA-AAAAAGTATTTTAAAAATA-TAAAAA
1 TAAAAAATAAAAAGTATTTTAAAAATATTAAAAA
16586347 TAAAAAATAAAAA-TATTT
1 TAAAAAATAAAAAGTATTT
16586365 ATTATATTCA
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
30 7 0.16
32 8 0.19
33 19 0.44
34 5 0.12
37 3 0.07
39 1 0.02
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (34 bp):
TAAAAAATAAAAAGTATTTTAAAAATATTAAAAA
Found at i:16589271 original size:27 final size:26
Alignment explanation
Indices: 16589241--16589311 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
16589231 ATAAAAATAC
* *
16589241 TAAAATTTTGTTAAAAATTATAAATTT
1 TAAAATTTTATTAAAAATGA-AAATTT
* **
16589268 TAAAACTTTATTATTAATGAAAATTT
1 TAAAATTTTATTAAAAATGAAAATTT
16589294 TAAAATTTTATTATAAAA
1 TAAAATTTTATTA-AAAA
16589312 AAATTAAAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
26 18 0.51
27 17 0.49
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (26 bp):
TAAAATTTTATTAAAAATGAAAATTT
Found at i:16596143 original size:24 final size:26
Alignment explanation
Indices: 16596116--16596172 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
16596106 AAAAATAACT
16596116 AAAATATTAT-AACTTTTT-TTTACC
1 AAAATATTATAAACTTTTTATTTACC
* *
16596140 AAAATATTATAAATTTTTTATTTACT
1 AAAATATTATAAACTTTTTATTTACC
16596166 AAAATAT
1 AAAATAT
16596173 AAAAAAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 10 0.34
25 7 0.24
26 12 0.41
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (26 bp):
AAAATATTATAAACTTTTTATTTACC
Found at i:16596169 original size:26 final size:24
Alignment explanation
Indices: 16596113--16596172 Score: 84
Period size: 24 Copynumber: 2.4 Consensus size: 24
16596103 ATAAAAAATA
16596113 ACTAAAATATTATAACTTTTTTTT
1 ACTAAAATATTATAACTTTTTTTT
* *
16596137 ACCAAAATATTATAAATTTTTTATTT
1 ACTAAAATATTAT-AACTTTTT-TTT
16596163 ACTAAAATAT
1 ACTAAAATAT
16596173 AAAAAAAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 12 0.39
25 7 0.23
26 12 0.39
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.48
Consensus pattern (24 bp):
ACTAAAATATTATAACTTTTTTTT
Found at i:16596339 original size:19 final size:19
Alignment explanation
Indices: 16596312--16596381 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
16596302 TCAACTCATT
*
16596312 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
16596331 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
* *
16596349 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
16596368 TTTTAATTTAATAA
1 TTTTAATTTAATAA
16596382 ACTATTAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 15 0.35
19 28 0.65
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:16596360 original size:37 final size:37
Alignment explanation
Indices: 16596317--16596387 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
16596307 TCATTTTTTT
16596317 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
16596354 ATTTAATAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
16596388 AAGTAATACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
Found at i:16596658 original size:30 final size:31
Alignment explanation
Indices: 16596599--16596660 Score: 99
Period size: 33 Copynumber: 2.0 Consensus size: 31
16596589 ATTATTTTCT
16596599 TTTTATTCCCCTTCAACTCATTTTTTTAGTAAA
1 TTTTATTCCCCTTCAACTCA--TTTTTAGTAAA
16596632 TTTTATTCCCCTTCAACTCA-TTTTAGTAA
1 TTTTATTCCCCTTCAACTCATTTTTAGTAA
16596661 TAATAAAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
30 9 0.31
33 20 0.69
ACGTcount: A:0.24, C:0.23, G:0.03, T:0.50
Consensus pattern (31 bp):
TTTTATTCCCCTTCAACTCATTTTTAGTAAA
Found at i:16596752 original size:30 final size:31
Alignment explanation
Indices: 16596716--16596777 Score: 99
Period size: 33 Copynumber: 2.0 Consensus size: 31
16596706 AGTTTTATTA
16596716 TTACT-AAAATGAGTTGAAGGGGAATAAAAT
1 TTACTAAAAATGAGTTGAAGGGGAATAAAAT
16596746 TTACTAAAAAAATGAGTTGAAGGGGAATAAAA
1 TTACT--AAAAATGAGTTGAAGGGGAATAAAA
16596778 AGAAAAGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
30 5 0.17
33 24 0.83
ACGTcount: A:0.50, C:0.03, G:0.23, T:0.24
Consensus pattern (31 bp):
TTACTAAAAATGAGTTGAAGGGGAATAAAAT
Found at i:16597026 original size:19 final size:18
Alignment explanation
Indices: 16596970--16597026 Score: 78
Period size: 18 Copynumber: 3.1 Consensus size: 18
16596960 AGTATTACTT
* *
16596970 AATAGTTTATTAAATGAG
1 AATAGTTTATTAAATAAA
*
16596988 AATAGTTTATTAAATTAA
1 AATAGTTTATTAAATAAA
16597006 AATAGATTTATTAAATAAA
1 AATAG-TTTATTAAATAAA
16597025 AA
1 AA
16597027 AATGAGTTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
18 21 0.60
19 14 0.40
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.39
Consensus pattern (18 bp):
AATAGTTTATTAAATAAA
Found at i:16597131 original size:27 final size:27
Alignment explanation
Indices: 16597090--16597141 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
16597080 CAATTAGCCC
16597090 CTTTGGCACTATTGGTGCCGCCAATCA
1 CTTTGGCACTATTGGTGCCGCCAATCA
16597117 CTTTGGCACCT-TTGGTGCCGCCAAT
1 CTTTGGCA-CTATTGGTGCCGCCAAT
16597142 GTGATTGGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
27 22 0.92
28 2 0.08
ACGTcount: A:0.15, C:0.31, G:0.23, T:0.31
Consensus pattern (27 bp):
CTTTGGCACTATTGGTGCCGCCAATCA
Found at i:16598758 original size:16 final size:17
Alignment explanation
Indices: 16598738--16598782 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
16598728 GAAATAGTTA
16598738 TATTTAGAACAATCATG
1 TATTTAGAACAATCATG
* *
16598755 -ATTTGGAACAA-CTTG
1 TATTTAGAACAATCATG
16598770 TATTTAGAACAAT
1 TATTTAGAACAAT
16598783 TGTGTTTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 3 0.13
16 20 0.87
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (17 bp):
TATTTAGAACAATCATG
Found at i:16599665 original size:15 final size:15
Alignment explanation
Indices: 16599645--16599677 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
16599635 AATCACATTC
16599645 ATATTATATATACTA
1 ATATTATATATACTA
16599660 ATATTATATATACTA
1 ATATTATATATACTA
16599675 ATA
1 ATA
16599678 GGATTATGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATTATATATACTA
Found at i:16602350 original size:79 final size:82
Alignment explanation
Indices: 16602239--16602423 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
16602229 GCTACTCGTT
* *
16602239 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
16602302 GGATTTAGTAAC-TCGAA
65 GGATATAGTAACTTAGAA
**
16602319 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* * *
16602382 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGAA
16602399 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
16602424 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 56 0.61
80 33 0.36
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGAA
Found at i:16602423 original size:40 final size:40
Alignment explanation
Indices: 16602220--16602423 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
16602210 CGGAATTTAA
** *
16602220 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
16602260 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
16602300 CCGGATTTAGTAACTCGAACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
16602339 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
16602379 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
16602419 CCGGA
1 CCGGA
16602424 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:16610358 original size:79 final size:82
Alignment explanation
Indices: 16610247--16610431 Score: 247
Period size: 79 Copynumber: 2.3 Consensus size: 82
16610237 GCTACTCGTT
* *
16610247 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
16610310 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
**
16610327 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
16610390 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
16610407 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
16610432 TATCATTCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 56 0.60
80 34 0.37
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:16610431 original size:40 final size:40
Alignment explanation
Indices: 16610228--16610434 Score: 253
Period size: 40 Copynumber: 5.2 Consensus size: 40
16610218 CGGAATTTAA
** *
16610228 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
16610268 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
16610308 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
16610347 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
16610387 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
16610427 CCGGATAT
1 CCGGATAT
16610435 CATTCAAATA
Statistics
Matches: 146, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
38 2 0.01
39 34 0.23
40 98 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:16613262 original size:22 final size:22
Alignment explanation
Indices: 16613234--16613287 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
16613224 ATTTATGTTT
16613234 TTAACTTTTATTTATTTAATTA
1 TTAACTTTTATTTATTTAATTA
*
16613256 TTAACTTTTATTTATTTAATTT
1 TTAACTTTTATTTATTTAATTA
16613278 TTAACATTTT
1 TTAAC-TTTT
16613288 TGACATATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 26 0.87
23 4 0.13
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.65
Consensus pattern (22 bp):
TTAACTTTTATTTATTTAATTA
Found at i:16613964 original size:19 final size:15
Alignment explanation
Indices: 16613927--16613968 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
16613917 TGCTTAAGGC
16613927 TTAATTAATTAATGG
1 TTAATTAATTAATGG
*
16613942 TTAATTAAGTTAATTG
1 TTAATTAA-TTAATGG
*
16613958 -TGATTAATTAA
1 TTAATTAATTAA
16613969 AATTTAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 4 0.17
15 14 0.58
16 6 0.25
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (15 bp):
TTAATTAATTAATGG
Found at i:16632691 original size:16 final size:16
Alignment explanation
Indices: 16632670--16632701 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
16632660 AATATGTACA
16632670 TGTCTAGGGTTGGATC
1 TGTCTAGGGTTGGATC
16632686 TGTCTAGGGTTGGATC
1 TGTCTAGGGTTGGATC
16632702 CTAATTGGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTCTAGGGTTGGATC
Found at i:16638233 original size:43 final size:43
Alignment explanation
Indices: 16638194--16638287 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 43
16638184 ATTATTATGG
* * *
16638194 GATATTATCTTTTAGCAATTTGATTCTTAATGAG-ATATTATAA
1 GATATTATCTCTTAGCAATATGATTCCTAATG-GCATATTATAA
16638237 GATATTATCTCTTAGCAATATGATTCCTAATGGCATATTATAA
1 GATATTATCTCTTAGCAATATGATTCCTAATGGCATATTATAA
16638280 GATATTAT
1 GATATTAT
16638288 TATGGGCTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 1 0.02
43 46 0.98
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.44
Consensus pattern (43 bp):
GATATTATCTCTTAGCAATATGATTCCTAATGGCATATTATAA
Found at i:16639001 original size:181 final size:181
Alignment explanation
Indices: 16638697--16639061 Score: 649
Period size: 181 Copynumber: 2.0 Consensus size: 181
16638687 AACTTTCCAC
*
16638697 TGTTAGTGCACATGGTTCCTGAAATCCACATGCCAGTGTGAAAGTCTATTGCATGTGTACAACTT
1 TGTTAGTGCACATGGTTCCTGAAATCCACATGCCAGTGTGAAAGTCTATTGCATGTATACAACTT
16638762 CCAAAATGCTCTAATGTTCTAATTTCCACCCATTTTTCACTCCTATTGCTCCCAAGTGCCCTATT
66 CCAAAATGCTCTAATGTTCTAATTTCCACCCATTTTTCACTCCTATTGCTCCCAAGTGCCCTATT
16638827 AAGCATCAAAACACGAATATAAAGAATTAAGAGTGTACAATTTACCATTAA
131 AAGCATCAAAACACGAATATAAAGAATTAAGAGTGTACAATTTACCATTAA
* *
16638878 TGTTAGTGCACATGGTTCCTGAAATCCACATGCCGGTGTGAAAGTCTATTGCATGTATACAGCTT
1 TGTTAGTGCACATGGTTCCTGAAATCCACATGCCAGTGTGAAAGTCTATTGCATGTATACAACTT
**
16638943 CTGAAATGCTCTAATGTTCTAATTTCCACCCATTTTTCACTCCTATTGCTCCCAAGTGCCCTATT
66 CCAAAATGCTCTAATGTTCTAATTTCCACCCATTTTTCACTCCTATTGCTCCCAAGTGCCCTATT
* * * *
16639008 AAGCATCAAAACATGAATATAAAGAATTAGGAGTGTATATTTTACCATTAA
131 AAGCATCAAAACACGAATATAAAGAATTAAGAGTGTACAATTTACCATTAA
16639059 TGT
1 TGT
16639062 CACATAATCA
Statistics
Matches: 175, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
181 175 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.33
Consensus pattern (181 bp):
TGTTAGTGCACATGGTTCCTGAAATCCACATGCCAGTGTGAAAGTCTATTGCATGTATACAACTT
CCAAAATGCTCTAATGTTCTAATTTCCACCCATTTTTCACTCCTATTGCTCCCAAGTGCCCTATT
AAGCATCAAAACACGAATATAAAGAATTAAGAGTGTACAATTTACCATTAA
Found at i:16640948 original size:19 final size:18
Alignment explanation
Indices: 16640893--16640949 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
16640883 AATATACCGG
16640893 ATATTAATAAAAAATATT
1 ATATTAATAAAAAATATT
* **
16640911 A-ATAAATATTTAAAT-TT
1 ATATTAATA-AAAAATATT
16640928 ATATTTAATAAAAAATATT
1 ATA-TTAATAAAAAATATT
16640947 ATA
1 ATA
16640950 AAAATAGAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 7
0.69 0.14 0.17
Matches are distributed among these distances:
17 9 0.31
18 10 0.34
19 10 0.34
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATTAATAAAAAATATT
Found at i:16642865 original size:18 final size:18
Alignment explanation
Indices: 16642815--16642867 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
16642805 TTACTTTTAG
*
16642815 TTTA-TTTTTCATTTTAA
1 TTTATTTTTTCATTTCAA
* *
16642832 GTTATTGATTT-ATTTCAA
1 TTTATT-TTTTCATTTCAA
16642850 TTTATTTTTTCATTTCAA
1 TTTATTTTTTCATTTCAA
16642868 CGTGTTTCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
17 6 0.21
18 19 0.68
19 3 0.11
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.64
Consensus pattern (18 bp):
TTTATTTTTTCATTTCAA
Found at i:16643574 original size:30 final size:33
Alignment explanation
Indices: 16643515--16643574 Score: 81
Period size: 30 Copynumber: 1.9 Consensus size: 33
16643505 TTTTTAACTT
16643515 TTTAAAAATATTTATACTAATTTTAATTTAATA
1 TTTAAAAATATTTATACTAATTTTAATTTAATA
* *
16643548 TTTAATAAT-TTTATA-T-ATTTTCATTTA
1 TTTAAAAATATTTATACTAATTTTAATTTA
16643575 TTAAAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 10 0.40
31 1 0.04
32 6 0.24
33 8 0.32
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (33 bp):
TTTAAAAATATTTATACTAATTTTAATTTAATA
Found at i:16653956 original size:20 final size:21
Alignment explanation
Indices: 16653927--16653979 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
16653917 TTCAAGTTTA
16653927 TGGCTCAACATA-GGTTGATC
1 TGGCTCAACATAGGGTTGATC
* * *
16653947 TGGCTTAACATAGGGTTGTTG
1 TGGCTCAACATAGGGTTGATC
16653968 TGGCTCAACATA
1 TGGCTCAACATA
16653980 AGGATGCGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 11 0.39
21 17 0.61
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (21 bp):
TGGCTCAACATAGGGTTGATC
Found at i:16655347 original size:16 final size:17
Alignment explanation
Indices: 16655328--16655360 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
16655318 TTTTAGATGT
16655328 TAATTAATT-TAATTTA
1 TAATTAATTCTAATTTA
*
16655344 TAATTATTTCTAATTTA
1 TAATTAATTCTAATTTA
16655361 GGCTTGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
TAATTAATTCTAATTTA
Found at i:16664879 original size:20 final size:20
Alignment explanation
Indices: 16664835--16664975 Score: 104
Period size: 20 Copynumber: 7.0 Consensus size: 20
16664825 ACACCACACT
* *
16664835 AGAGGCATCATAGATGCATAAC
1 AGAGGCACCAAAG-TGCA-AAC
16664857 AGAGGCACCAAAGTGCAAAC
1 AGAGGCACCAAAGTGCAAAC
* * *
16664877 AGAGACA-CAAATGTGTAAGC
1 AGAGGCACCAAA-GTGCAAAC
** * *
16664897 AGAGGCACCGTAGTGCGAAT
1 AGAGGCACCAAAGTGCAAAC
* * *
16664917 AGAGACACCGAAGTGCGAAC
1 AGAGGCACCAAAGTGCAAAC
* * *
16664937 AAAGGCACCAAAGTGAAAAA
1 AGAGGCACCAAAGTGCAAAC
*
16664957 AGAGGCACCGAAGTGCAAA
1 AGAGGCACCAAAGTGCAAA
16664976 TCACGTACAA
Statistics
Matches: 93, Mismatches: 24, Indels: 6
0.76 0.20 0.05
Matches are distributed among these distances:
19 4 0.04
20 72 0.77
21 6 0.06
22 11 0.12
ACGTcount: A:0.43, C:0.20, G:0.27, T:0.10
Consensus pattern (20 bp):
AGAGGCACCAAAGTGCAAAC
Found at i:16672690 original size:29 final size:29
Alignment explanation
Indices: 16672569--16672720 Score: 151
Period size: 29 Copynumber: 5.2 Consensus size: 29
16672559 GTATCGACGC
***
16672569 CCATCGAATATGAAAAGGGATGGTGACGA
1 CCATCGAATATGAAAAGGGATGGTTTTGA
* **
16672598 GCATCGAATATGAAAAGGGATGGTGATGA
1 CCATCGAATATGAAAAGGGATGGTTTTGA
* * * *
16672627 TCATCGAATATGAAATGGGATGGCTTTAA
1 CCATCGAATATGAAAAGGGATGGTTTTGA
*
16672656 CTATCGAATATGAAAAGGGATGGTTTTGA
1 CCATCGAATATGAAAAGGGATGGTTTTGA
* * * * *
16672685 CCATCGATTAAAGAAAATGAATTGTTTTGA
1 CCATCGAAT-ATGAAAAGGGATGGTTTTGA
16672715 CCATCG
1 CCATCG
16672721 TTTAGCACAC
Statistics
Matches: 103, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
29 81 0.79
30 22 0.21
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.26
Consensus pattern (29 bp):
CCATCGAATATGAAAAGGGATGGTTTTGA
Found at i:16679368 original size:5 final size:5
Alignment explanation
Indices: 16679358--16679385 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
16679348 CAGGTTTCTT
16679358 AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAA
16679386 GAATTGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:16694195 original size:6 final size:6
Alignment explanation
Indices: 16694187--16694221 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
16694177 AACCGAGGAA
*
16694187 GAAGAA GAAGAG GAAGAG GAAGAG GAAGAG GAAGA
1 GAAGAG GAAGAG GAAGAG GAAGAG GAAGAG GAAGA
16694222 AAGAGGCGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (6 bp):
GAAGAG
Found at i:16712691 original size:2 final size:2
Alignment explanation
Indices: 16712684--16712709 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16712674 GGCATGTTTA
16712684 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
16712710 AATTTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:16714584 original size:25 final size:25
Alignment explanation
Indices: 16714555--16714667 Score: 84
Period size: 25 Copynumber: 4.5 Consensus size: 25
16714545 ACCACATGGG
16714555 TTTCCAGATAATTTGCCACAAAGGC
1 TTTCCAGATAATTTGCCACAAAGGC
* * *** *
16714580 TTTCCAAATGATACACTAC-AAGTGC
1 TTTCCAGATAATTTGCCACAAAG-GC
*
16714605 TTTCCAAATAATTTGCCACAAAGGC
1 TTTCCAGATAATTTGCCACAAAGGC
* * * * *
16714630 TTTCTAGAGAATTTTCCATAAAGGT
1 TTTCCAGATAATTTGCCACAAAGGC
* *
16714655 TTTCTAGAGAATT
1 TTTCCAGATAATT
16714668 CTCGAGTTTA
Statistics
Matches: 69, Mismatches: 17, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
24 3 0.04
25 63 0.91
26 3 0.04
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (25 bp):
TTTCCAGATAATTTGCCACAAAGGC
Found at i:16715572 original size:86 final size:85
Alignment explanation
Indices: 16715423--16715589 Score: 271
Period size: 86 Copynumber: 2.0 Consensus size: 85
16715413 GTAGCAAGTT
* * *
16715423 CTTAAAAGATCATAAGATTTCCATTAAAATCCCTATTATAGACATTTTACTAAAATTTAAACTAC
1 CTTAAAAGATCATAACATTTCCATTAAAATCCCCATTACAGACATTTTACTAAAATTTAAACTAC
16715488 ATGCGACCCCTCATGCAACTA
66 ATGCGACCCC-CATGCAACTA
* * *
16715509 CTTAAAATATCATAACATTTCCATTAGAATCCCCATTACAGACATTTTACTAAAATTTCAACTAC
1 CTTAAAAGATCATAACATTTCCATTAAAATCCCCATTACAGACATTTTACTAAAATTTAAACTAC
16715574 ATGCGACCCCCATGCA
66 ATGCGACCCCCATGCA
16715590 GGGCCTTCCT
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
85 6 0.08
86 69 0.92
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.31
Consensus pattern (85 bp):
CTTAAAAGATCATAACATTTCCATTAAAATCCCCATTACAGACATTTTACTAAAATTTAAACTAC
ATGCGACCCCCATGCAACTA
Found at i:16729251 original size:22 final size:22
Alignment explanation
Indices: 16729226--16729272 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
16729216 CTAAGAGTCG
* * *
16729226 TAAACAGGATAGCTATAAGCTA
1 TAAACAGAATAGCTACAAGCCA
*
16729248 TAAACAGAATGGCTACAAGCCA
1 TAAACAGAATAGCTACAAGCCA
16729270 TAA
1 TAA
16729273 GTACAGTAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (22 bp):
TAAACAGAATAGCTACAAGCCA
Found at i:16729319 original size:32 final size:32
Alignment explanation
Indices: 16729264--16729402 Score: 190
Period size: 32 Copynumber: 4.4 Consensus size: 32
16729254 GAATGGCTAC
* *
16729264 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
16729295 AAGCCATCAGTAGCAGTGATATGATCGGTACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
*
16729327 AAGCCATCAGTAACGGTAATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
** *
16729359 AAGCCATCAGTAATGGTAATATGATCAGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
16729391 AAGCCATCAGTA
1 AAGCCATCAGTA
16729403 GCATCACAGC
Statistics
Matches: 96, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
31 10 0.10
32 86 0.90
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:16729425 original size:23 final size:24
Alignment explanation
Indices: 16729399--16729446 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
16729389 CAAAGCCATC
16729399 AGTAGC-ATCACAGCAAAGCTGCT
1 AGTAGCAATCACAGCAAAGCTGCT
*
16729422 AGTAGCAGTATCGCAGCAAAGCTGC
1 AGTAGCA--ATCACAGCAAAGCTGC
16729447 CAATAATAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 6 0.29
26 15 0.71
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.17
Consensus pattern (24 bp):
AGTAGCAATCACAGCAAAGCTGCT
Found at i:16729457 original size:26 final size:26
Alignment explanation
Indices: 16729409--16729458 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
16729399 AGTAGCATCA
* * *
16729409 CAGCAAAGCTGCTAGTAGCAGTATCG
1 CAGCAAAGCTGCCAATAACAGTATCG
*
16729435 CAGCAAAGCTGCCAATAATAGTAT
1 CAGCAAAGCTGCCAATAACAGTAT
16729459 ATGTGGCCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
CAGCAAAGCTGCCAATAACAGTATCG
Found at i:16729601 original size:24 final size:23
Alignment explanation
Indices: 16729574--16729655 Score: 83
Period size: 24 Copynumber: 3.5 Consensus size: 23
16729564 CCATGCTCAG
16729574 AATCAGTCATTCAAATCACAGACA
1 AATCAGTCATTCAAA-CACAGACA
* * *
16729598 AATCAATCATACCAAACACAGACG
1 AATCAGTCAT-TCAAACACAGACA
* * * *
16729622 AATCAGTGATTTAACCACAGATA
1 AATCAGTCATTCAAACACAGACA
16729645 AATCAGTCATT
1 AATCAGTCATT
16729656 TGACCTCGAG
Statistics
Matches: 46, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
23 18 0.39
24 24 0.52
25 4 0.09
ACGTcount: A:0.45, C:0.23, G:0.10, T:0.22
Consensus pattern (23 bp):
AATCAGTCATTCAAACACAGACA
Found at i:16729733 original size:27 final size:27
Alignment explanation
Indices: 16729695--16729925 Score: 302
Period size: 27 Copynumber: 8.6 Consensus size: 27
16729685 CCACCAGGGC
*
16729695 ATTACGTTCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
16729722 ATTACGGTCATTCTACCCTACAAGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
16729749 ATTACGGTTATTTTACCCTACAAGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
*
16729776 ACTACGGTCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
16729803 ATTACAGTCATTTTACCTTAAAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
16729830 ATTACGGTCATTTTACCCAATAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
16729857 ATTACGGTCATTTTACCTTCCA-GGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
16729883 ATTATGGTCATTTTACCCTACATGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
*
16729910 ATTACGATCATTTTAC
1 ATTACGGTCATTTTAC
16729926 AACCTTTCCG
Statistics
Matches: 176, Mismatches: 27, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 22 0.12
27 154 0.88
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAGGGGT
Found at i:16756697 original size:11 final size:11
Alignment explanation
Indices: 16756681--16756707 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
16756671 GTTGTATTTC
16756681 TTTTTTTCTTT
1 TTTTTTTCTTT
16756692 TTTTTTTCTTT
1 TTTTTTTCTTT
16756703 TTTTT
1 TTTTT
16756708 GATGTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:16761581 original size:17 final size:17
Alignment explanation
Indices: 16761546--16761579 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
16761536 AAGTGGTTAC
16761546 AAGGAGATGAAAGGTTT
1 AAGGAGATGAAAGGTTT
*
16761563 AAGGAAGATGGAAGGTT
1 AAGG-AGATGAAAGGTT
16761580 AAAGATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.41, C:0.00, G:0.38, T:0.21
Consensus pattern (17 bp):
AAGGAGATGAAAGGTTT
Found at i:16761724 original size:24 final size:24
Alignment explanation
Indices: 16761697--16761759 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
16761687 CATCTTTCAT
** *
16761697 CTTTCATCTCCCTTGGCCTTCCAC
1 CTTTCATCTCCCTTAACCTTCAAC
* * *
16761721 CTTTCATCTTCTTTAACCTTTAAC
1 CTTTCATCTCCCTTAACCTTCAAC
16761745 CTTTCATCTCCCTTA
1 CTTTCATCTCCCTTA
16761760 TGTTGGGAAA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.14, C:0.38, G:0.03, T:0.44
Consensus pattern (24 bp):
CTTTCATCTCCCTTAACCTTCAAC
Found at i:16761880 original size:16 final size:16
Alignment explanation
Indices: 16761859--16761889 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16761849 TTCACTATTA
*
16761859 TGTCTTTTTTATTTTC
1 TGTCTTTTATATTTTC
16761875 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
16761890 GCATGCATAG
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:0.10, C:0.10, G:0.06, T:0.74
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:16763524 original size:37 final size:35
Alignment explanation
Indices: 16763461--16763529 Score: 86
Period size: 37 Copynumber: 1.9 Consensus size: 35
16763451 GTTCCAAAAA
*
16763461 TAATATTATTTTAATAGTTTAATATTAAATTTAATT
1 TAATATTATCTTAATAGTTTAATATT-AATTTAATT
*
16763497 TAATACTTATCTTAATAGTATT-TTATTAATTTA
1 TAATA-TTATCTTAATAGT-TTAATATTAATTTA
16763530 GTATTAAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 11 0.38
37 16 0.55
38 2 0.07
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (35 bp):
TAATATTATCTTAATAGTTTAATATTAATTTAATT
Done.