Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 165 of 196
Found at i:48372468 original size:30 final size:30
Alignment explanation
Indices: 48372434--48372529 Score: 79
Period size: 30 Copynumber: 3.0 Consensus size: 30
48372424 ATTTTTTTTC
48372434 TTATATCAATATTCTTTTTAATTTTTAATT
1 TTATATCAATATTCTTTTTAATTTTTAATT
* *
48372464 TTATATCACATTTGATTTTTTTTAATTTTTAAATAA
1 TTATATCA-A--T-ATTCTTTTTAATTTTT-AAT-T
* *
48372500 TTGT-T-AATAATCTTTTATAATTTTTAATT
1 TTATATCAATATTCTTTT-TAATTTTTAATT
48372529 T
1 T
48372530 GTTTACCATT
Statistics
Matches: 53, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
29 1 0.02
30 17 0.32
31 10 0.19
33 2 0.04
34 16 0.30
35 4 0.08
36 3 0.06
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.61
Consensus pattern (30 bp):
TTATATCAATATTCTTTTTAATTTTTAATT
Found at i:48381419 original size:17 final size:17
Alignment explanation
Indices: 48381397--48381494 Score: 61
Period size: 17 Copynumber: 5.4 Consensus size: 17
48381387 ATTAAATCAC
48381397 TACATAATTAAAAATAT
1 TACATAATTAAAAATAT
*** *
48381414 TACATAAATCTTTGAATCAC
1 TACAT-AAT-TAAAAAT-AT
48381434 TACATAATTAAAAATAT
1 TACATAATTAAAAATAT
*** *
48381451 TACATAAGTCTTTGAATCAC
1 TACATAA-T-TAAAAAT-AT
*
48381471 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
48381488 TACATAA
1 TACATAA
48381495 GTCTTGAATT
Statistics
Matches: 58, Mismatches: 17, Indels: 12
0.67 0.20 0.14
Matches are distributed among these distances:
17 21 0.36
18 11 0.19
19 12 0.21
20 14 0.24
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.34
Consensus pattern (17 bp):
TACATAATTAAAAATAT
Found at i:48381432 original size:37 final size:37
Alignment explanation
Indices: 48381391--48381519 Score: 208
Period size: 37 Copynumber: 3.5 Consensus size: 37
48381381 ACCCGAATTA
*
48381391 AATCACTACATAATTAAAAATATTACATAAATCTTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
48381428 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
*
48381465 AATCACTACATAATTAAAAACATTACATAAGTC-TTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
*
48381501 AATTAAC-ACATAATTAAAA
1 AA-TCACTACATAATTAAAA
48381520 TATAAGTCTT
Statistics
Matches: 88, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
36 17 0.19
37 71 0.81
ACGTcount: A:0.50, C:0.14, G:0.04, T:0.33
Consensus pattern (37 bp):
AATCACTACATAATTAAAAATATTACATAAGTCTTTG
Found at i:48381439 original size:20 final size:20
Alignment explanation
Indices: 48381414--48381477 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
48381404 TTAAAAATAT
48381414 TACATAAATCTTTGAATCAC
1 TACATAAATCTTTGAATCAC
*** *
48381434 TACAT-AAT-TAAAAAT-AT
1 TACATAAATCTTTGAATCAC
*
48381451 TACATAAGTCTTTGAATCAC
1 TACATAAATCTTTGAATCAC
48381471 TACATAA
1 TACATAA
48381478 TTAAAAACAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 6 0.19
18 6 0.19
19 7 0.22
20 13 0.41
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (20 bp):
TACATAAATCTTTGAATCAC
Found at i:48383839 original size:20 final size:20
Alignment explanation
Indices: 48383814--48383855 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
48383804 TTCTGCAAGA
48383814 AAAAAAGTATATAATAAATT
1 AAAAAAGTATATAATAAATT
48383834 AAAAAAGTATATAATAAATT
1 AAAAAAGTATATAATAAATT
48383854 AA
1 AA
48383856 TTAGCCTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (20 bp):
AAAAAAGTATATAATAAATT
Found at i:48384356 original size:23 final size:24
Alignment explanation
Indices: 48384330--48384385 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
48384320 TTGGTTTTTT
*
48384330 TATTTTTTATTT-AATT-TATTACA
1 TATTTTTTATTTAAATTAAATTA-A
48384353 TATTTTATT-TTTAAATTAAATTAA
1 TATTTT-TTATTTAAATTAAATTAA
48384377 TATTTTTTA
1 TATTTTTTA
48384386 CCTGCCCTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 11 0.39
24 13 0.46
25 4 0.14
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (24 bp):
TATTTTTTATTTAAATTAAATTAA
Found at i:48385405 original size:6 final size:6
Alignment explanation
Indices: 48385394--48385418 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
48385384 GAGTGAAAAT
48385394 TGAAAG TGAAAG TGAAAG TGAAAG T
1 TGAAAG TGAAAG TGAAAG TGAAAG T
48385419 AGGGAGGGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.32, T:0.20
Consensus pattern (6 bp):
TGAAAG
Found at i:48386626 original size:50 final size:49
Alignment explanation
Indices: 48386572--48386790 Score: 199
Period size: 50 Copynumber: 4.4 Consensus size: 49
48386562 AGCCATGTAA
* ** * *
48386572 CGGGAAGCTCATGTGAGCTGTATAACGGAAAGCTCTTGCGAGCTAATTAT
1 CGGGAAGCTCATGAGAGCCATATAACGGAAAGCTCATGAGAG-TAATTAT
* * * *
48386622 CGGGAAGCTTAT-ACGAGCCATA-AACGGAAAGCTCATGCGAGCAAAATAT
1 CGGGAAGCTCATGA-GAGCCATATAACGGAAAGCTCATGAGAG-TAATTAT
* * * *
48386671 CGGGAAGCTCGTGAGAGCCATATAACGGGAAGCTCAAGAGAGTCATTAAT
1 CGGGAAGCTCATGAGAGCCATATAACGGAAAGCTCATGAGAGTAATT-AT
* * * * * *
48386721 TGAGAAGCTCATGAGAGCTAAATAACAGAAAGCTCATGAGAGTCAAGTAT
1 CGGGAAGCTCATGAGAGCCATATAACGGAAAGCTCATGAGAGT-AATTAT
*
48386771 CGGGAAGCTCGTGAGAGCCA
1 CGGGAAGCTCATGAGAGCCA
48386791 AATATCAGCA
Statistics
Matches: 135, Mismatches: 29, Indels: 10
0.78 0.17 0.06
Matches are distributed among these distances:
49 44 0.33
50 89 0.66
51 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (49 bp):
CGGGAAGCTCATGAGAGCCATATAACGGAAAGCTCATGAGAGTAATTAT
Found at i:48386711 original size:25 final size:25
Alignment explanation
Indices: 48386561--48386790 Score: 146
Period size: 25 Copynumber: 9.2 Consensus size: 25
48386551 AAGCTCTTCC
* *
48386561 GAGCCATGTAACGGGAAGCTCATGT
1 GAGCCATATAACGGGAAGCTCATGA
** * * *
48386586 GAGCTGTATAACGGAAAGCTCTTGC
1 GAGCCATATAACGGGAAGCTCATGA
* * *
48386611 GAGCTA-ATTATCGGGAAGCTTAT-A
1 GAGCCATA-TAACGGGAAGCTCATGA
* *
48386635 CGAGCCATA-AACGGAAAGCTCATGC
1 -GAGCCATATAACGGGAAGCTCATGA
* * * *
48386660 GAGCAAAATATCGGGAAGCTCGTGA
1 GAGCCATATAACGGGAAGCTCATGA
*
48386685 GAGCCATATAACGGGAAGCTCAAGA
1 GAGCCATATAACGGGAAGCTCATGA
* * *
48386710 GAGTCAT-TAATTGAGAAGCTCATGA
1 GAGCCATATAA-CGGGAAGCTCATGA
* * * *
48386735 GAGCTAAATAACAGAAAGCTCATGA
1 GAGCCATATAACGGGAAGCTCATGA
* * *
48386760 GAGTCA-AGTATCGGGAAGCTCGTGA
1 GAGCCATA-TAACGGGAAGCTCATGA
48386785 GAGCCA
1 GAGCCA
48386791 AATATCAGCA
Statistics
Matches: 151, Mismatches: 46, Indels: 16
0.71 0.22 0.08
Matches are distributed among these distances:
24 22 0.15
25 125 0.83
26 4 0.03
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATGA
Found at i:48386794 original size:50 final size:50
Alignment explanation
Indices: 48386648--48386812 Score: 165
Period size: 50 Copynumber: 3.3 Consensus size: 50
48386638 GCCATAAACG
* * *
48386648 GAAAGCTCATGCGAG-CAAAATATCGGGAAGCTCGTGAGAGCCATATAACG
1 GAAAGCTCATGAGAGTC-AAATATCGGGAAGCTCGTGAGAGCCAAATAACA
* * * * *
48386698 GGAAGCTCAAGAGAGTCATTAAT-T-GAGAAGCTCATGAGAGCTAAATAACA
1 GAAAGCTCATGAGAGTCA--AATATCGGGAAGCTCGTGAGAGCCAAATAACA
* *
48386748 GAAAGCTCATGAGAGTCAAGTATCGGGAAGCTCGTGAGAGCCAAATATCA
1 GAAAGCTCATGAGAGTCAAATATCGGGAAGCTCGTGAGAGCCAAATAACA
* * *
48386798 GCACGCTCATAAGAG
1 GAAAGCTCATGAGAG
48386813 CTGTTGTGTG
Statistics
Matches: 92, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
48 2 0.02
49 1 0.01
50 84 0.91
51 2 0.02
52 3 0.03
ACGTcount: A:0.38, C:0.18, G:0.27, T:0.18
Consensus pattern (50 bp):
GAAAGCTCATGAGAGTCAAATATCGGGAAGCTCGTGAGAGCCAAATAACA
Found at i:48386805 original size:25 final size:25
Alignment explanation
Indices: 48386648--48386813 Score: 102
Period size: 25 Copynumber: 6.6 Consensus size: 25
48386638 GCCATAAACG
* * *
48386648 GAAAGCTCATGCGAGCAAAATATCG
1 GAAAGCTCATGAGAGCCAAATATCA
* * * * *
48386673 GGAAGCTCGTGAGAGCCATATAACG
1 GAAAGCTCATGAGAGCCAAATATCA
* * * *
48386698 GGAAGCTCAAGAGAGTCATTAAT-TGA
1 GAAAGCTCATGAGAGCCA--AATATCA
* *
48386724 G-AAGCTCATGAGAGCTAAATAACA
1 GAAAGCTCATGAGAGCCAAATATCA
* * *
48386748 GAAAGCTCATGAGAGTCAAGTATCG
1 GAAAGCTCATGAGAGCCAAATATCA
* *
48386773 GGAAGCTCGTGAGAGCCAAATATCA
1 GAAAGCTCATGAGAGCCAAATATCA
* * *
48386798 GCACGCTCATAAGAGC
1 GAAAGCTCATGAGAGC
48386814 TGTTGTGTGT
Statistics
Matches: 105, Mismatches: 32, Indels: 8
0.72 0.22 0.06
Matches are distributed among these distances:
23 3 0.03
24 2 0.02
25 97 0.92
26 1 0.01
27 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.27, T:0.17
Consensus pattern (25 bp):
GAAAGCTCATGAGAGCCAAATATCA
Found at i:48393845 original size:92 final size:91
Alignment explanation
Indices: 48393688--48393896 Score: 260
Period size: 92 Copynumber: 2.3 Consensus size: 91
48393678 TTGATTTTAG
** *
48393688 TAAATTCATATAAGAACAATTTATTATTGAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
48393753 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
* *
48393780 TAAATTCATATAAGAAAATTTATTATCAAGTATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
*
48393844 TATGTAATAATTATTATTTTAGATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
48393872 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
48393897 GTTATAATTA
Statistics
Matches: 102, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
90 1 0.01
91 28 0.27
92 70 0.69
93 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:48394025 original size:66 final size:63
Alignment explanation
Indices: 48393950--48394160 Score: 192
Period size: 66 Copynumber: 3.4 Consensus size: 63
48393940 AAATATATTT
48393950 AATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTTT-ATTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
48394015 G
63 G
* * * * **
48394016 AATATTAATTATTAAGAATTTTA-TTAA--AT--TATA-TAT--TTTAATTAAAAT-ATAT-TT
1 AATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
*
48394070 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
48394134 AG
62 AG
*
48394136 AATATTAATTATTAAGAATTTTATT
1 AATATTAATTATTTA-AATTTTATT
48394161 AAATTATATA
Statistics
Matches: 113, Mismatches: 15, Indels: 35
0.69 0.09 0.21
Matches are distributed among these distances:
53 5 0.04
54 13 0.12
55 5 0.04
56 12 0.11
57 1 0.01
58 3 0.03
59 6 0.05
61 6 0.05
62 3 0.03
63 1 0.01
64 12 0.11
65 9 0.08
66 32 0.28
67 5 0.04
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (63 bp):
AATATTAATTATTTAAATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:48394058 original size:120 final size:120
Alignment explanation
Indices: 48393919--48394204 Score: 488
Period size: 120 Copynumber: 2.4 Consensus size: 120
48393909 TTAAATTATT
* * * *
48393919 TTAAATCATATATTATAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-TTTATAG
1 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTAT-ATTTTACAG
48393981 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
63 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
48394039 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
1 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
48394104 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
66 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
48394159 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
48394205 TAAATATGAT
Statistics
Matches: 159, Mismatches: 4, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
119 6 0.04
120 151 0.95
121 2 0.01
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
Found at i:48394061 original size:18 final size:17
Alignment explanation
Indices: 48394033--48394067 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48394023 ATTATTAAGA
*
48394033 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
48394050 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
48394068 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:48394181 original size:18 final size:17
Alignment explanation
Indices: 48394153--48394187 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48394143 ATTATTAAGA
*
48394153 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
48394170 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
48394188 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:48394326 original size:156 final size:157
Alignment explanation
Indices: 48394141--48394456 Score: 571
Period size: 156 Copynumber: 2.0 Consensus size: 157
48394131 ATAAGAATAT
48394141 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* * *
48394206 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
48394271 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
48394298 TAATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
48394362 AATTATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
48394427 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
48394454 TAA
1 TAA
48394457 GGGTATTCTA
Statistics
Matches: 153, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
156 147 0.96
157 6 0.04
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:48394337 original size:18 final size:17
Alignment explanation
Indices: 48394309--48394343 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48394299 AATTATAAGA
*
48394309 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
48394326 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
48394344 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:48394343 original size:16 final size:16
Alignment explanation
Indices: 48394309--48394366 Score: 52
Period size: 16 Copynumber: 3.6 Consensus size: 16
48394299 AATTATAAGA
48394309 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
48394326 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
48394342 A-TTTAA-TAATAAT-T
1 ATTTTAATTAA-AATAT
48394356 ATGTTTAATTA
1 AT-TTTAATTA
48394367 TGATTAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 5 0.14
15 8 0.22
16 10 0.28
17 7 0.19
18 6 0.17
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:48394600 original size:16 final size:16
Alignment explanation
Indices: 48394579--48394614 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
48394569 GATTTGCTAT
*
48394579 TACACCTCTACTCCAA
1 TACACCTCTAATCCAA
48394595 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
48394611 TACA
1 TACA
48394615 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.39, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:48400422 original size:20 final size:21
Alignment explanation
Indices: 48400397--48400442 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
48400387 AGAGCTCGAG
* *
48400397 GTTCAAGATTTGA-ATTTAAA
1 GTTCAAGATTCGAGATCTAAA
*
48400417 GTTCAAGGTTCGAGATCTAAA
1 GTTCAAGATTCGAGATCTAAA
48400438 GTTCA
1 GTTCA
48400443 TGGGTTAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.35
Consensus pattern (21 bp):
GTTCAAGATTCGAGATCTAAA
Found at i:48401286 original size:21 final size:21
Alignment explanation
Indices: 48401243--48401288 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
48401233 GATGAAGGAT
* *
48401243 GAAAACATGAAGCAAAGCGAC
1 GAAAACACGAAGCAAAGCAAC
*
48401264 GAAAACACGAAGCAAAGTAAC
1 GAAAACACGAAGCAAAGCAAC
48401285 GAAA
1 GAAA
48401289 TCCCCCCCCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.57, C:0.17, G:0.22, T:0.04
Consensus pattern (21 bp):
GAAAACACGAAGCAAAGCAAC
Found at i:48407948 original size:21 final size:21
Alignment explanation
Indices: 48407922--48407962 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
48407912 TTTGGGTTGA
48407922 TCAGCTCTCAAGAGCTTCTGC
1 TCAGCTCTCAAGAGCTTCTGC
*
48407943 TCAGCTCTCACGAGCTTCTG
1 TCAGCTCTCAAGAGCTTCTG
48407963 TTAGCGTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.34, G:0.20, T:0.29
Consensus pattern (21 bp):
TCAGCTCTCAAGAGCTTCTGC
Found at i:48409725 original size:18 final size:18
Alignment explanation
Indices: 48409688--48409723 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
48409678 TTAAAATCAT
*
48409688 ATAAAAGGATATAAATAA
1 ATAAAACGATATAAATAA
48409706 ATAAAACGATAT-AATAA
1 ATAAAACGATATAAATAA
48409723 A
1 A
48409724 ATGAATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.22
Consensus pattern (18 bp):
ATAAAACGATATAAATAA
Found at i:48410897 original size:16 final size:17
Alignment explanation
Indices: 48410864--48410904 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
48410854 TTATTTATTA
48410864 TTTATTTTTATTGTGGT
1 TTTATTTTTATTGTGGT
*
48410881 TTTATTTTTTTTG-GGT
1 TTTATTTTTATTGTGGT
48410897 TTCTATTT
1 TT-TATTT
48410905 GGGCCCGGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.10, C:0.02, G:0.15, T:0.73
Consensus pattern (17 bp):
TTTATTTTTATTGTGGT
Found at i:48411452 original size:96 final size:95
Alignment explanation
Indices: 48411342--48411518 Score: 248
Period size: 96 Copynumber: 1.9 Consensus size: 95
48411332 CTAATTTATG
* * * * *
48411342 GCTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGC-TATCTTCAGTCTGCTCCCCTG
1 GCTTCAATCCGTTCCACTACAACCTCAGGGAAATAAGATTCGCGTA--TTCAATCTACTCCACTG
48411406 CAACTTCAGGAAGATAAGAATTGTGACTTTAA
64 CAACTTCAGGAAGATAAGAATTGTGACTTTAA
* *
48411438 GCTTTAATCCGTTCCACTGCAACCTCAGGGAAATAAGATTCGCGTATTCAATCTACTCCACTGCA
1 GCTTCAATCCGTTCCACTACAACCTCAGGGAAATAAGATTCGCGTATTCAATCTACTCCACTGCA
* *
48411503 GCTTCAGGGAGATAAG
66 ACTTCAGGAAGATAAG
48411519 GTTTATAACT
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
95 30 0.42
96 39 0.55
97 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (95 bp):
GCTTCAATCCGTTCCACTACAACCTCAGGGAAATAAGATTCGCGTATTCAATCTACTCCACTGCA
ACTTCAGGAAGATAAGAATTGTGACTTTAA
Found at i:48411641 original size:77 final size:77
Alignment explanation
Indices: 48411523--48411668 Score: 193
Period size: 77 Copynumber: 1.9 Consensus size: 77
48411513 GATAAGGTTT
* * * * * * *
48411523 ATAACTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCGATTTACTCCAC
1 ATAACTTCAATCTGCTCCACTGCAACTTCAGAGAAATAAGATTCGCCATCTTCAATCTACTCCAC
48411588 TGCATAAGATCC
66 TGCATAAGATCC
* * * *
48411600 ATAACTTCAATCTGTTCCACTGCAACTTTAGGGAAATAAGATTCGCCATCTTCAATCTGCTCCAC
1 ATAACTTCAATCTGCTCCACTGCAACTTCAGAGAAATAAGATTCGCCATCTTCAATCTACTCCAC
48411665 TGCA
66 TGCA
48411669 ACTTCAGGGA
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
77 58 1.00
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.32
Consensus pattern (77 bp):
ATAACTTCAATCTGCTCCACTGCAACTTCAGAGAAATAAGATTCGCCATCTTCAATCTACTCCAC
TGCATAAGATCC
Found at i:48411774 original size:44 final size:45
Alignment explanation
Indices: 48411604--48411774 Score: 150
Period size: 45 Copynumber: 3.8 Consensus size: 45
48411594 AGATCCATAA
* * * * * * *
48411604 CTTCAATCTGTTCCACTGCAACTTTAGGGAAATAAGA-TTCGCCAT
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTT-ACTAG
* *
48411649 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTACTAT
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTACTAG
* ** * * * *
48411694 CTTCAGTCCACTCCACTGCAACTT-TAGGTAGTTAAGACTT-GTGG
1 CTTCAATCTGCTCCACTGCAACTTCAAGG-AGATAAGACTTACTAG
*
48411738 CTTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGA
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGA
48411775 TTTGCAGTCT
Statistics
Matches: 103, Mismatches: 20, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
44 30 0.29
45 71 0.69
46 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTACTAG
Found at i:48413255 original size:49 final size:49
Alignment explanation
Indices: 48413195--48413288 Score: 127
Period size: 49 Copynumber: 1.9 Consensus size: 49
48413185 GATAATGACA
* *
48413195 TGCCAAAGCCATGTTCCAAACATGGTCTTACATGGGATGTT-TCATGTAC
1 TGCCAAAGCCATATCCCAAACATGGTCTTACATGGGA-GTTCTCATGTAC
* * *
48413244 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCAT
1 TGCCAAAGCCATATCCCAAACATGGTCTTACATGGGAGTTCTCAT
48413289 ATTGGTGCCC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 3 0.08
49 36 0.92
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (49 bp):
TGCCAAAGCCATATCCCAAACATGGTCTTACATGGGAGTTCTCATGTAC
Found at i:48413337 original size:50 final size:50
Alignment explanation
Indices: 48413244--48413441 Score: 164
Period size: 50 Copynumber: 3.8 Consensus size: 50
48413234 TTTCATGTAC
* * * * **
48413244 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATTGG
1 TGCCAATGACATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATTGG
* * * * *
48413294 TGCCCATGTCATGTCCCAGACATGATCTTAC-GGGGTACCTCTCATCTCGG
1 TGCCAATGACATGTCCCAGACATGGTCTTACAGGGG-ACCTCTCATATTGG
* * * *
48413344 TGCCAACGACATGTCCCAAACATGGTTTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAATGACATGTCCCAGACATGGTCTTACAGGGGACCTCTCAT-AT-T---GG
* * *
48413399 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGACATGTCCCAGACATGGTCTTACAGGGGACCTCT
48413442 TTACCCAAAT
Statistics
Matches: 116, Mismatches: 24, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
49 3 0.03
50 70 0.60
51 4 0.03
55 2 0.02
56 37 0.32
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGACATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATTGG
Found at i:48416239 original size:46 final size:46
Alignment explanation
Indices: 48416172--48416356 Score: 280
Period size: 46 Copynumber: 4.0 Consensus size: 46
48416162 ACATTGCTAT
* *
48416172 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
* * * * *
48416218 AACTCAATATGATTTTCTTCACTGAAACATCATACCTACTTTTCAT
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
*
48416264 AACTCAGTATGGTTTTCTTCACCGAAACACTATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
* *
48416310 AACTCGGTATGGTTTCCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
48416356 A
1 A
48416357 CTTTTCCATG
Statistics
Matches: 124, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 124 1.00
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
Found at i:48417629 original size:16 final size:17
Alignment explanation
Indices: 48417583--48417630 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
48417573 AAATTCTTTT
48417583 TAAATCACAAAATTCAA
1 TAAATCACAAAATTCAA
*
48417600 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAA
*
48417617 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
48417631 TTCTAAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAATCACAAAATTCAA
Found at i:48425745 original size:46 final size:46
Alignment explanation
Indices: 48425608--48425747 Score: 235
Period size: 46 Copynumber: 3.0 Consensus size: 46
48425598 CCATGGCAAA
*
48425608 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAA
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
* *
48425654 TTGTAAAAAGTAAGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
* *
48425700 TTGTGAAAAGTAGGTATGGTATTTCAGTGAAGGAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
48425746 TT
1 TT
48425748 ATAGCATTGT
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 87 1.00
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.29
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
Found at i:48435722 original size:27 final size:26
Alignment explanation
Indices: 48435692--48435745 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
48435682 GAATGTTTTG
48435692 ATTTTGGTT-ATAATGGCATGTATATGT
1 ATTTTGGTTAATAATGGC-T-TATATGT
* *
48435719 ATTTTGTTTAATGATGGCTTATATGT
1 ATTTTGGTTAATAATGGCTTATATGT
48435745 A
1 A
48435746 GTGTGTTGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 8 0.33
27 9 0.38
28 7 0.29
ACGTcount: A:0.26, C:0.04, G:0.20, T:0.50
Consensus pattern (26 bp):
ATTTTGGTTAATAATGGCTTATATGT
Found at i:48445791 original size:18 final size:18
Alignment explanation
Indices: 48445770--48445804 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48445760 TTATTTCACC
*
48445770 ATTTTTTTTTACAATTTT
1 ATTTTTATTTACAATTTT
*
48445788 ATTTTTATTTATAATTT
1 ATTTTTATTTACAATTT
48445805 CTAATAACTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTTTATTTACAATTTT
Found at i:48454839 original size:15 final size:15
Alignment explanation
Indices: 48454819--48454851 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
48454809 AGAATTTAAT
48454819 TTTAAAGATTT-AGGA
1 TTTAAAG-TTTAAGGA
48454834 TTTAAAGTTTAAGGA
1 TTTAAAGTTTAAGGA
48454849 TTT
1 TTT
48454852 TGTTGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.18
15 14 0.82
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (15 bp):
TTTAAAGTTTAAGGA
Found at i:48458129 original size:20 final size:20
Alignment explanation
Indices: 48458104--48458151 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
48458094 TTTTAAAAAC
*
48458104 AATTTTTTTTAGTTTAATGT
1 AATTTTTTTTAATTTAATGT
48458124 AATTTTTTTTAATTTAATGT
1 AATTTTTTTTAATTTAATGT
*
48458144 GATTTTTT
1 AATTTTTT
48458152 AATTTTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (20 bp):
AATTTTTTTTAATTTAATGT
Found at i:48462355 original size:44 final size:43
Alignment explanation
Indices: 48462219--48462400 Score: 213
Period size: 43 Copynumber: 4.2 Consensus size: 43
48462209 CCACATAAAT
* * * *
48462219 GCCGCTAAAGAACATGACGTTTAACAGCGCTTTTATAACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAAC
* * * *
48462262 GTCGCTAAAGATCATGACCTTTAGCGGCACTTTTATCACAATC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAAC
* *
48462305 GTCGCTAAAGAACATGACATTTAGCGGCGCTTTTTATCACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGC-TTTTATCACAAAC
* * *
48462349 GCCGCTAAATAACATGACCTTTAGCGACG-TTTTATTTACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTA-TCACAAAC
*
48462392 GCTGCTAAA
1 GCCGCTAAA
48462401 AGTACCGTTC
Statistics
Matches: 119, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
42 5 0.04
43 77 0.65
44 37 0.31
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.27
Consensus pattern (43 bp):
GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAAC
Found at i:48468249 original size:9 final size:9
Alignment explanation
Indices: 48468235--48469012 Score: 357
Period size: 9 Copynumber: 86.3 Consensus size: 9
48468225 TAAGTATAAA
48468235 TAAGTTATG
1 TAAGTTATG
48468244 TAAGTTATG
1 TAAGTTATG
* * *
48468253 ATATGATATA
1 -TAAGTTATG
*
48468263 T-ATTTATG
1 TAAGTTATG
48468271 TAAGTTATG
1 TAAGTTATG
*
48468280 TGAGTTATG
1 TAAGTTATG
*
48468289 TGAGTTATG
1 TAAGTTATG
* * *
48468298 ATATGATATA
1 -TAAGTTATG
*
48468308 T-ATTTATG
1 TAAGTTATG
48468316 T-A-TTATG
1 TAAGTTATG
48468323 TAAGTTATG
1 TAAGTTATG
*
48468332 TGAGTTATG
1 TAAGTTATG
48468341 TAAGTTATG
1 TAAGTTATG
* *
48468350 -ATA-TGATA
1 TA-AGTTATG
*
48468358 TAGATTTATG
1 TA-AGTTATG
48468368 T-A-TTATG
1 TAAGTTATG
48468375 TAAG---T-
1 TAAGTTATG
48468380 TAAGTTATG
1 TAAGTTATG
*
48468389 TGAGTTATG
1 TAAGTTATG
48468398 TAAGTTATG
1 TAAGTTATG
* *
48468407 ATATGATATATA
1 -TAAG-T-TATG
48468419 TAAGTTAT-
1 TAAGTTATG
48468427 TAAGTTATG
1 TAAGTTATG
48468436 TAAGTTATG
1 TAAGTTATG
*
48468445 TGAGTTATG
1 TAAGTTATG
* *
48468454 TTATGATATATA
1 -TAAG-T-TATG
*
48468466 TAAGTTGT-
1 TAAGTTATG
48468474 TAAGTTATG
1 TAAGTTATG
*
48468483 TATG-TATG
1 TAAGTTATG
*
48468491 TGAGTTATG
1 TAAGTTATG
*
48468500 TAAGTTAAG
1 TAAGTTATG
* *
48468509 ATATGATATATA
1 -TAAG-T-TATG
48468521 TAAGTTAT-
1 TAAGTTATG
*
48468529 TATGTTATG
1 TAAGTTATG
48468538 TAAGTTATG
1 TAAGTTATG
*
48468547 TGAGTTATG
1 TAAGTTATG
* *
48468556 ATATGATATATA
1 -TAAG-T-TATG
48468568 TAAGTTAT-
1 TAAGTTATG
48468576 TAAGTTATG
1 TAAGTTATG
*
48468585 TATG-TATG
1 TAAGTTATG
*
48468593 TGAGTTATG
1 TAAGTTATG
48468602 TAAGTTATG
1 TAAGTTATG
* * *
48468611 ATATGATATA
1 -TAAGTTATG
*
48468621 T-ATTTATG
1 TAAGTTATG
48468629 T-A-TTATG
1 TAAGTTATG
48468636 TAAGTTATG
1 TAAGTTATG
48468645 TAAGTTATG
1 TAAGTTATG
*
48468654 TGAGTTATG
1 TAAGTTATG
48468663 TAAGTTATGG
1 TAAGTTAT-G
* *
48468673 TATGATATATA
1 TAAG-T-TATG
*
48468684 TAAGTTA-C
1 TAAGTTATG
48468692 TAAGTTATG
1 TAAGTTATG
*
48468701 TATG-TATG
1 TAAGTTATG
*
48468709 TGAGTTATG
1 TAAGTTATG
48468718 TAAGTTATG
1 TAAGTTATG
* * *
48468727 ATATGGTATA
1 -TAAGTTATG
*
48468737 T-ATTTATG
1 TAAGTTATG
48468745 T-A-TTATG
1 TAAGTTATG
48468752 TAAGTTATGG
1 TAAGTTAT-G
* *
48468762 TATGATATATA
1 TAAG-T-TATG
48468773 TAAGTTAT-
1 TAAGTTATG
48468781 TAAGTTATG
1 TAAGTTATG
48468790 TAAGTTATG
1 TAAGTTATG
48468799 TAAGTTATG
1 TAAGTTATG
*
48468808 TGAGTTATG
1 TAAGTTATG
* * *
48468817 ATATGATATA
1 -TAAGTTATG
*
48468827 T-A--TATA
1 TAAGTTATG
48468833 TAAGTTAT-
1 TAAGTTATG
*
48468841 TAAGTTACG
1 TAAGTTATG
48468850 TAAG-TATG
1 TAAGTTATG
*
48468858 TGAGTTATG
1 TAAGTTATG
48468867 TAAGTTATG
1 TAAGTTATG
** *
48468876 ATCTGATATATA
1 -TAAG-T-TATG
48468888 TAAGTTAT-
1 TAAGTTATG
*
48468896 TAAGTTAAG
1 TAAGTTATG
* *
48468905 ATCCAAAGTTTTTT
1 -T---AAG-TTATG
* *
48468919 TAA-TTCTT
1 TAAGTTATG
48468927 TAAAGTTATG
1 T-AAGTTATG
*
48468937 TAAATTATG
1 TAAGTTATG
*
48468946 TAACTTATG
1 TAAGTTATG
*
48468955 TTATGGTTAT-
1 -TA-AGTTATG
*
48468965 TAAATTATG
1 TAAGTTATG
48468974 TAAGTTATG
1 TAAGTTATG
*
48468983 TGAGTTATG
1 TAAGTTATG
* *
48468992 TAAATTATA
1 TAAGTTATG
48469001 TAAGTTATG
1 TAAGTTATG
48469010 TAA
1 TAA
48469013 AATTTGATAT
Statistics
Matches: 583, Mismatches: 119, Indels: 134
0.70 0.14 0.16
Matches are distributed among these distances:
5 4 0.01
6 6 0.01
7 25 0.04
8 121 0.21
9 302 0.52
10 68 0.12
11 31 0.05
12 20 0.03
13 4 0.01
14 2 0.00
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:48468352 original size:47 final size:48
Alignment explanation
Indices: 48468235--48468902 Score: 266
Period size: 47 Copynumber: 13.1 Consensus size: 48
48468225 TAAGTATAAA
* *
48468235 TAAGTTATGTAAGTTATG-ATA-TGAT-ATATAT-T-TATGTAAGTTATG
1 TAAGTTATGTGAGTTATGTA-AGTTATGATATATATTTATGT-AGTTATG
*
48468280 TGAGTTATGTGAGTTATG--A--TATGATATATATTTATGTA-TTATG
1 TAAGTTATGTGAGTTATGTAAGTTATGATATATATTTATGTAGTTATG
48468323 TAAGTTATGTGAGTTATGTAAGTTATGATATGATATAGATTTATGTA-TTATGTAAG
1 TAAGTTATGTGAGTTATGTAAGTTATG--AT-ATAT--ATTTATGTAGTTA--T--G
* *
48468379 TTAAGTTATGTGAGTTATGTAAGTTATGATATGATATATAT-AAGTTAT-
1 -TAAGTTATGTGAGTTATGTAAGTTATGATAT-ATATTTATGTAGTTATG
* * *
48468427 TAAGTTATGTAAGTTATGTGAGTTATGTTATGATATATATAAGTTGTTAAGTTATG
1 TAAGTTATGTGAGTTATGTAAGTTATG--AT-ATATAT-TTA--TG-T-AGTTATG
*
48468483 TATG-TATGTGAGTTATGTAAGTTAAGATATGATATATATAAGTTAT-TATGTTATG
1 TAAGTTATGTGAGTTATGTAAG-T----TATGATATATAT---TTATGTA-GTTATG
* * *
48468538 TAAGTTATGTGAGTTATGATATGATAT-ATATA-AGTTAT-TAAGTTATG
1 TAAGTTATGTGAGTTATG-TAAGTTATGATATATATTTATGT-AGTTATG
*
48468585 TATG-TATGTGAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATG
1 TAAGTTATGTGAGTTATGTAAG---T--TATG--ATATA--TA--T-TTATGT-AGTTATG
* * *
48468645 TAAGTTATGTGAGTTATGTAAGTTATGGTATGATATATAT-AAGTTACTAAG
1 TAAGTTATGTGAGTTATGTAAGTTATGATAT-ATATTTATGTAGTTA-T--G
*
48468696 TTATGTATGTATGTGAGTTATGTAAGTTATGATATGGTATATATTTATGTA-TTATG
1 TAA-G--T-TATGTGAGTTATGTAAGTTATG--A---TATATATTTATGTAGTTATG
* *
48468752 TAAGTTATG-GTATGATATATATAAG-T-T-AT-TA-AGTTATGTAAGTTATG
1 TAAGTTATGTG-A-G-T-TATGTAAGTTATGATATATATTTATGT-AGTTATG
* * *
48468799 TAAGTTATGTGAGTTATGATATGATATAT-ATATATAAGTTAT-TAAGTTACG
1 TAAGTTATGTGAGTTATG-TAAG-T-TATGATATAT-ATTTATGT-AGTTATG
* * *
48468850 TAAG-TATGTGAGTTATGTAAGTTATGATCTGATATATAT-AAGTTAT-
1 TAAGTTATGTGAGTTATGTAAGTTATGATAT-ATATTTATGTAGTTATG
48468896 TAAGTTA
1 TAAGTTA
48468903 AGATCCAAAG
Statistics
Matches: 491, Mismatches: 44, Indels: 174
0.69 0.06 0.25
Matches are distributed among these distances:
42 2 0.00
43 29 0.06
44 5 0.01
45 36 0.07
46 21 0.04
47 69 0.14
48 16 0.03
49 17 0.03
50 30 0.06
51 23 0.05
52 29 0.06
53 18 0.04
54 10 0.02
55 66 0.13
56 26 0.05
57 37 0.08
58 4 0.01
59 16 0.03
60 20 0.04
61 17 0.03
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (48 bp):
TAAGTTATGTGAGTTATGTAAGTTATGATATATATTTATGTAGTTATG
Found at i:48468528 original size:102 final size:103
Alignment explanation
Indices: 48468266--48468867 Score: 625
Period size: 102 Copynumber: 5.8 Consensus size: 103
48468256 TGATATATAT
* * *
48468266 TTATGTAAGTTATGTGAGTTATGTGAGTTATGATATGATATATATTTATGTATTATGTAAGTTAT
1 TTATGTATG-TATGTGAGTTATGTAAGTTATGATATGATATATA--TAAG--TTATGTAAGTTAT
* * * * *
48468331 GTGAGTTATGTAAGTTATGATATGATATAGATTTATGTATTATGTAAG
61 GTAAGTTATGTGAGTTATGTTATGATAT--ATATAAG--TTAT-TAAG
*
48468379 TTAAG--T-TATGTGAGTTATGTAAGTTATGATATGATATATATAAGTTAT-TAAGTTATGTAAG
1 TTATGTATGTATGTGAGTTATGTAAGTTATGATATGATATATATAAGTTATGTAAGTTATGTAAG
*
48468440 TTATGTGAGTTATGTTATGATATATATAAGTTGTTAAG
66 TTATGTGAGTTATGTTATGATATATATAAGTTATTAAG
* *
48468478 TTATGTATGTATGTGAGTTATGTAAGTTAAGATATGATATATATAAGTTAT-TATGTTATGTAAG
1 TTATGTATGTATGTGAGTTATGTAAGTTATGATATGATATATATAAGTTATGTAAGTTATGTAAG
*
48468542 TTATGTGAGTTATGATATGATATATATAAGTTATTAAG
66 TTATGTGAGTTATGTTATGATATATATAAGTTATTAAG
*
48468580 TTATGTATGTATGTGAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATG
1 TTATGTATGTATGTGAGTTATGTAAGTTATGATATGATATATA--TAAG--TTATGTAAGTTATG
*
48468645 TAAGTTATGTGAGTTATGTAAGTTATGGTATGATATATATAAGTTACTAAG
62 TAAGTTATGTGAGTTA--T--G---T--TATGATATATATAAGTTATTAAG
*
48468696 TTATGTATGTATGTGAGTTATGTAAGTTATGATATGGTATATAT---TTATGT-A-TTATGTAAG
1 TTATGTATGTATGTGAGTTATGTAAGTTATGATATGATATATATAAGTTATGTAAGTTATGTAAG
48468756 TTA--T--G----G-TATGATATATATAAGTTATTAAG
66 TTATGTGAGTTATGTTATGATATATATAAGTTATTAAG
* * * *
48468785 TTATGTAAGTTATGTAAGTTATGTGAGTTATGATATGATATATATATATAAGTTAT-TAAGTTAC
1 TTATGTATG-TATGTGAGTTATGTAAGTTATGATATG----ATATATATAAGTTATGTAAGTTAT
48468849 GTAAG-TATGTGAGTTATGT
61 GTAAGTTATGTGAGTTATGT
48468868 AAGTTATGAT
Statistics
Matches: 426, Mismatches: 27, Indels: 79
0.80 0.05 0.15
Matches are distributed among these distances:
89 30 0.07
90 25 0.06
94 7 0.02
95 1 0.00
96 1 0.00
97 7 0.02
98 8 0.02
99 9 0.02
100 3 0.01
101 2 0.00
102 136 0.32
103 1 0.00
104 36 0.08
105 6 0.01
106 4 0.01
107 39 0.09
108 1 0.00
109 40 0.09
111 1 0.00
113 4 0.01
114 1 0.00
116 64 0.15
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.46
Consensus pattern (103 bp):
TTATGTATGTATGTGAGTTATGTAAGTTATGATATGATATATATAAGTTATGTAAGTTATGTAAG
TTATGTGAGTTATGTTATGATATATATAAGTTATTAAG
Found at i:48468669 original size:116 final size:116
Alignment explanation
Indices: 48468521--48468789 Score: 425
Period size: 116 Copynumber: 2.3 Consensus size: 116
48468511 ATGATATATA
* * *
48468521 TAAGTTAT-TATGTTATGTAAGTTATGTGAGTTATGATATGATATATATAAGTTATTAAGTTATG
1 TAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGATATGATATATATAAGTTACTAAGTTATG
48468585 TATGTATGTGAGTTATGTAAGTTATGATATGATATATATTTATGTATTATG
66 TATGTATGTGAGTTATGTAAGTTATGATATGATATATATTTATGTATTATG
* *
48468636 TAAGTTATGTAAGTTATGTGAGTTATGTAAGTTATGGTATGATATATATAAGTTACTAAGTTATG
1 TAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGATATGATATATATAAGTTACTAAGTTATG
*
48468701 TATGTATGTGAGTTATGTAAGTTATGATATGGTATATATTTATGTATTATG
66 TATGTATGTGAGTTATGTAAGTTATGATATGATATATATTTATGTATTATG
* *
48468752 TAAGTTATGGTATGATATATATAAGTTAT-TAAGTTATG
1 TAAGTTAT-GTAAG-T-TATGTAAGTTATGTAAGTTATG
48468790 TAAGTTATGT
Statistics
Matches: 141, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
115 8 0.06
116 109 0.77
117 4 0.03
118 10 0.07
119 10 0.07
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.46
Consensus pattern (116 bp):
TAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGATATGATATATATAAGTTACTAAGTTATG
TATGTATGTGAGTTATGTAAGTTATGATATGATATATATTTATGTATTATG
Found at i:48468814 original size:116 final size:118
Alignment explanation
Indices: 48468538--48468902 Score: 401
Period size: 116 Copynumber: 3.1 Consensus size: 118
48468528 TTATGTTATG
* * *
48468538 TAAGTTATGTGAGTTATGATATGATATATATAAGTTATTAAGTTATGTATGTATGTGAGTTATGT
1 TAAGTTAT-TAAGTTATGGTAAGATATATATAAGTTATTAAGTTATGTATGTATGTGAGTTATGT
* *
48468603 AAGTTATGATATGATATATATTTATGTATTATGTAAGTTAT-GTAAG-T-TATG
65 AAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGGTATGATATATA
* * *
48468654 TGAGTTATGTAAGTTATGGTATGATATATATAAGTTACTAAGTTATGTATGTATGTGAGTTATGT
1 TAAGTTAT-TAAGTTATGGTAAGATATATATAAGTTATTAAGTTATGTATGTATGTGAGTTATGT
*
48468719 AAGTTATGATATGGTATATATTTATGTATTATGTAAGTTATGGTATGATATATA
65 AAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGGTATGATATATA
* * *
48468773 TAAGTTATTAAGTTAT-GTAAG-T-TATGTAAGTTATGTGAGTTATGATATG-ATAT-A-TATAT
1 TAAGTTATTAAGTTATGGTAAGATATATATAAGTTAT-TAAGTTATG-TATGTATGTGAGT-TAT
* * * ** ** * *
48468832 ATAAGTTAT--TAAGTTACGTAAGTATGTGAGTTATGTAAGTTATGATCTGATATATA
63 GTAAGTTATGATATGATATATATTTATGT-A-TTATGTAAGTTATGGTATGATATATA
48468888 TAAGTTATTAAGTTA
1 TAAGTTATTAAGTTA
48468903 AGATCCAAAG
Statistics
Matches: 219, Mismatches: 22, Indels: 17
0.85 0.09 0.07
Matches are distributed among these distances:
113 12 0.05
114 2 0.01
115 61 0.28
116 113 0.52
117 12 0.05
118 9 0.04
119 10 0.05
ACGTcount: A:0.34, C:0.01, G:0.20, T:0.45
Consensus pattern (118 bp):
TAAGTTATTAAGTTATGGTAAGATATATATAAGTTATTAAGTTATGTATGTATGTGAGTTATGTA
AGTTATGATATGATATATATTTATGTATTATGTAAGTTATGGTATGATATATA
Found at i:48468859 original size:265 final size:265
Alignment explanation
Indices: 48468235--48468888 Score: 845
Period size: 265 Copynumber: 2.5 Consensus size: 265
48468225 TAAGTATAAA
* * * *
48468235 TAAGTTATGTAAGTTATGATATGATATATAT---TTATGTAAGTTATGTGAGTTATGTGAGTTAT
1 TAAGTTATGTAAGATAAGATAAGATATATATAAGTTATGTAAGTTATGTAAGTTATGTGAGTTAT
*
48468297 GATATGATATATAT-T-TATG-TATT-A--T-GTAAGTTATGTGAGTTATGTAAGTTATGATATG
66 GATATGATATATATATATAAGTTATTAAGTTAGTAAG-TATGTGAGTTATGTAAGTTATGATATG
*
48468355 ATATAGATTTATGTATTATGTAAGTTAAGTTATGTGAGTTATGTAAGTTATGATATGATATATAT
130 ATATATATTTATGTATTATGTAAGTTAAGTTATGTGAGTTATGTAAGTTATGATATGATATATAT
* * *
48468420 AAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTTATGATATATATAAGTTGTTAAGTTATGTA
195 AAGTTACTAAGTTATGTAAGTTATGTGAGTTATGTTAAGATATATATAAGTGGTTAAGTTATGTA
48468485 TGTATG
260 TGTATG
* * * *
48468491 TGAGTTATGTAAGTTAAGATATGATATATATAAGTTAT-TATGTTATGTAAGTTATGTGAGTTAT
1 TAAGTTATGTAAGATAAGATAAGATATATATAAGTTATGTAAGTTATGTAAGTTATGTGAGTTAT
*
48468555 GATATG----ATATATATAAGTTATTAAGTTATGTATGTATGTGAGTTATGTAAGTTATGATATG
66 GATATGATATATATATATAAGTTATTAAGTTA-GTAAGTATGTGAGTTATGTAAGTTATGATATG
*
48468616 ATATATATTTATGTATTATGTAAGTTATGTAAGTTATGTGAGTTATGTAAGTTATGGTATGATAT
130 ATATATATTTATGTATTATGTAAG---T-TAAGTTATGTGAGTTATGTAAGTTATGATATGATAT
* *
48468681 ATATAAGTTACTAAGTTATGTATG-TATGTGAGTTATG-TAAG-T-TATGAT-A-TGGTATATAT
191 ATATAAGTTACTAAGTTATGTAAGTTATGTGAGTTATGTTAAGATATAT-ATAAGTGGT-TA-AG
48468740 TTATGTAT-TATG
253 TTATGTATGTATG
* *
48468752 TAAGTTATGGTATGATATATATAAG-T-TAT-TAAGTTATGTAAGTTATGTAAGTTATGTGAGTT
1 TAAGTTAT-GTAAGATA-AGATAAGATATATATAAGTTATGTAAGTTATGTAAGTTATGTGAGTT
*
48468814 ATGATATGATATATATATATAAGTTATTAAGTTACGTAAGTATGTGAGTTATGTAAGTTATGATC
64 ATGATATGATATATATATATAAGTTATTAAGTTA-GTAAGTATGTGAGTTATGTAAGTTATGATA
48468879 TGATATATAT
128 TGATATATAT
48468889 AAGTTATTAA
Statistics
Matches: 351, Mismatches: 22, Indels: 41
0.85 0.05 0.10
Matches are distributed among these distances:
254 4 0.01
255 1 0.00
256 32 0.09
257 4 0.01
258 31 0.09
259 4 0.01
260 12 0.03
261 101 0.29
262 23 0.07
263 8 0.02
264 14 0.04
265 117 0.33
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (265 bp):
TAAGTTATGTAAGATAAGATAAGATATATATAAGTTATGTAAGTTATGTAAGTTATGTGAGTTAT
GATATGATATATATATATAAGTTATTAAGTTAGTAAGTATGTGAGTTATGTAAGTTATGATATGA
TATATATTTATGTATTATGTAAGTTAAGTTATGTGAGTTATGTAAGTTATGATATGATATATATA
AGTTACTAAGTTATGTAAGTTATGTGAGTTATGTTAAGATATATATAAGTGGTTAAGTTATGTAT
GTATG
Found at i:48468884 original size:59 final size:60
Alignment explanation
Indices: 48468740--48468889 Score: 206
Period size: 59 Copynumber: 2.6 Consensus size: 60
48468730 TGGTATATAT
* *
48468740 TTATGT-A-TTATGTAAGTTATGGTATG--ATA--TATATAAGTTATTAAGTTATGTAAG
1 TTATGTAAGTTATGTAAGTTATGATATGATATATATATATAAGTTATTAAGTTACGTAAG
*
48468794 TTATGTAAGTTATGTGAGTTATGATATGATATATATATATAAGTTATTAAGTTACGTAAG
1 TTATGTAAGTTATGTAAGTTATGATATGATATATATATATAAGTTATTAAGTTACGTAAG
* *
48468854 -TATGTGAGTTATGTAAGTTATGATCTGATATATATA
1 TTATGTAAGTTATGTAAGTTATGATATGATATATATA
48468890 AGTTATTAAG
Statistics
Matches: 84, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
54 6 0.07
55 1 0.01
56 17 0.20
58 3 0.04
59 33 0.39
60 24 0.29
ACGTcount: A:0.35, C:0.01, G:0.19, T:0.45
Consensus pattern (60 bp):
TTATGTAAGTTATGTAAGTTATGATATGATATATATATATAAGTTATTAAGTTACGTAAG
Found at i:48468955 original size:18 final size:18
Alignment explanation
Indices: 48468929--48469053 Score: 94
Period size: 18 Copynumber: 6.9 Consensus size: 18
48468919 TAATTCTTTA
48468929 AAGTTATGTAAATTATGT
1 AAGTTATGTAAATTATGT
* **
48468947 AACTTATGTTATGGTTAT-T
1 AAGTTATG-TA-AATTATGT
* *
48468966 AAATTATGTAAGTTATGT
1 AAGTTATGTAAATTATGT
* *
48468984 GAGTTATGTAAATTATAT
1 AAGTTATGTAAATTATGT
48469002 AAGTTATGTAAAATT-TGAT
1 AAGTTATGT-AAATTATG-T
* * * *
48469021 ATGATATAT-ATTTATGT
1 AAGTTATGTAAATTATGT
48469038 AAGTTATGTAAATTAT
1 AAGTTATGTAAATTAT
48469054 ATATTAATTT
Statistics
Matches: 81, Mismatches: 19, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
17 15 0.19
18 40 0.49
19 22 0.27
20 4 0.05
ACGTcount: A:0.38, C:0.01, G:0.15, T:0.46
Consensus pattern (18 bp):
AAGTTATGTAAATTATGT
Found at i:48469423 original size:76 final size:73
Alignment explanation
Indices: 48469207--48469497 Score: 503
Period size: 73 Copynumber: 4.0 Consensus size: 73
48469197 GGAAGAAATT
48469207 AAAATATAATTAATTTGTCTATATTTATCAAAATAAGTAAAATTAAAAAAATAAGACTTTGAGTT
1 AAAATATAATTAATTTGTCTATATTTATCAAAATAAGTAAAATTAAAAAAATAAGACTTTGAGTT
* *
48469272 GGCATTAG
66 GGCATCAC
*
48469280 AAAATATAATTAATTTGTCGATATTTATCAAAATAAGTAAAATTAAAAAAA-AAGACTTTGAGTT
1 AAAATATAATTAATTTGTCTATATTTATCAAAATAAGTAAAATTAAAAAAATAAGACTTTGAGTT
48469344 GGCATCAC
66 GGCATCAC
48469352 AAAATATAATTAATTTGTCTATATTTATCAAAATAAGTAAAATTTAAAAAAAATTAAGACTTTGA
1 AAAATATAATTAATTTGTCTATATTTATCAAAATAAGTAAAA-TT-AAAAAAA-TAAGACTTTGA
48469417 GTTGGCATCAC
63 GTTGGCATCAC
* *
48469428 AAAATATAATTAATTTGTCTATATTTATCAAAATAAGTAAAATTAAAAAGATAAGACTTTCAGTT
1 AAAATATAATTAATTTGTCTATATTTATCAAAATAAGTAAAATTAAAAAAATAAGACTTTGAGTT
48469493 GGCAT
66 GGCAT
48469498 TAGAAAATCA
Statistics
Matches: 208, Mismatches: 6, Indels: 8
0.94 0.03 0.04
Matches are distributed among these distances:
72 60 0.29
73 70 0.34
74 13 0.06
75 2 0.01
76 63 0.30
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.35
Consensus pattern (73 bp):
AAAATATAATTAATTTGTCTATATTTATCAAAATAAGTAAAATTAAAAAAATAAGACTTTGAGTT
GGCATCAC
Found at i:48469516 original size:148 final size:145
Alignment explanation
Indices: 48469207--48469497 Score: 483
Period size: 148 Copynumber: 2.0 Consensus size: 145
48469197 GGAAGAAATT
*
48469207 AAAATATAATTAATTTGTCTATATTTATCAAAATAAGTAAAATTAAAAAAATAAGACTTTGAGTT
1 AAAATACAATTAATTTGTCTATATTTATCAAAATAAGTAAAATTAAAAAAATAAGACTTTGAGTT
* *
48469272 GGCATTAGAAAATATAATTAATTTGTCGATATTTATCAAAATAAGTAAAATTAAAAAAAAAGACT
66 GGCATCACAAAATATAATTAATTTGTCGATATTTATCAAAATAAGTAAAATTAAAAAAAAAGACT
*
48469337 TTGAGTTGGCATCAC
131 TTCAGTTGGCATCAC
*
48469352 AAAATATAATTAATTTGTCTATATTTATCAAAATAAGTAAAATTTAAAAAAAATTAAGACTTTGA
1 AAAATACAATTAATTTGTCTATATTTATCAAAATAAGTAAAA-TT-AAAAAAA-TAAGACTTTGA
* *
48469417 GTTGGCATCACAAAATATAATTAATTTGTCTATATTTATCAAAATAAGTAAAATTAAAAAGATAA
63 GTTGGCATCACAAAATATAATTAATTTGTCGATATTTATCAAAATAAGTAAAATTAAAAA-AAAA
48469482 GACTTTCAGTTGGCAT
127 GACTTTCAGTTGGCAT
48469498 TAGAAAATCA
Statistics
Matches: 137, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
145 42 0.31
146 2 0.01
147 7 0.05
148 68 0.50
149 18 0.13
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.35
Consensus pattern (145 bp):
AAAATACAATTAATTTGTCTATATTTATCAAAATAAGTAAAATTAAAAAAATAAGACTTTGAGTT
GGCATCACAAAATATAATTAATTTGTCGATATTTATCAAAATAAGTAAAATTAAAAAAAAAGACT
TTCAGTTGGCATCAC
Found at i:48469716 original size:66 final size:66
Alignment explanation
Indices: 48469635--48469783 Score: 210
Period size: 66 Copynumber: 2.3 Consensus size: 66
48469625 TATAAAATCG
* * * *
48469635 ATAATTTATTAAATTAAGTAAAAAATT-GTTAATTTATTCACATAAAATCAAATAAACTAATCAA
1 ATAATTTATTCAATTAAAT-AAAAATTCGATAATTTATTCACATAAAACCAAATAAACTAATCAA
48469699 AC
65 AC
* * * *
48469701 ATAATTTAATCAATTAAATCAAAATTCGATAATTTATTCACATTAAACCGAATAAACTAATCAAA
1 ATAATTTATTCAATTAAATAAAAATTCGATAATTTATTCACATAAAACCAAATAAACTAATCAAA
48469766 C
66 C
48469767 ATAATTTATTCAATTAA
1 ATAATTTATTCAATTAA
48469784 TCAAATATAT
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
65 6 0.08
66 67 0.92
ACGTcount: A:0.51, C:0.11, G:0.03, T:0.35
Consensus pattern (66 bp):
ATAATTTATTCAATTAAATAAAAATTCGATAATTTATTCACATAAAACCAAATAAACTAATCAAA
C
Found at i:48471907 original size:24 final size:24
Alignment explanation
Indices: 48471860--48471907 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
48471850 GAACAAAAGG
*
48471860 GAAAATGAGAAGGAAAAGTTGAGA
1 GAAAATGAGAAGGAAAAGTAGAGA
*
48471884 GAAAGTGAGAGAGGAAAAG-AGAGA
1 GAAAATGAGA-AGGAAAAGTAGAGA
48471908 ATGAGAGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.54, C:0.00, G:0.38, T:0.08
Consensus pattern (24 bp):
GAAAATGAGAAGGAAAAGTAGAGA
Found at i:48473733 original size:124 final size:124
Alignment explanation
Indices: 48473510--48473806 Score: 375
Period size: 124 Copynumber: 2.4 Consensus size: 124
48473500 TTTCTGTAGT
* * * **
48473510 GAAACGGCACCG-TTCTGAGAAATTTTAATACATAGTTGCGGCGTTTTTTGGTCCAAACGCCGAT
1 GAAACGGCGCCGCTT-TTAGAAATTTAAATACATAGTTGCGGCG-TTTTTCCTCCAAACGCCGAT
* * *
48473574 ACTGATTACCATTTGCAACGTTTTCAGCAAAAATGCCACTAAAAAATTAAATTCCTATACC
64 ACTGAATACCATTTGCAACATTTTCAGCAAAAATGCCACTAAAAAATTAAATTCCTATACA
* * *
48473635 GAAACGGCGCTGCTTTTAGAAATTTAAATACATAGTTGCGGCGTTTTTCCTCCAAATGCCGCTA-
1 GAAACGGCGCCGCTTTTAGAAATTTAAATACATAGTTGCGGCGTTTTTCCTCCAAACGCCGATAC
* ***
48473699 TTACATACCATTTGTGGCATTTTCTAG-AAAAATGCCACTAAAAAATTAAATTCCTATACA
66 TGA-ATACCATTTGCAACATTTTC-AGCAAAAATGCCACTAAAAAATTAAATTCCTATACA
* * *
48473759 GAAACGGCTCCGTTTTTAGAAATTTAAATACATAGTTGCAGCGTTTTT
1 GAAACGGCGCCGCTTTTAGAAATTTAAATACATAGTTGCGGCGTTTTT
48473807 TGGACAAAAC
Statistics
Matches: 150, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
123 2 0.01
124 108 0.72
125 38 0.25
126 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (124 bp):
GAAACGGCGCCGCTTTTAGAAATTTAAATACATAGTTGCGGCGTTTTTCCTCCAAACGCCGATAC
TGAATACCATTTGCAACATTTTCAGCAAAAATGCCACTAAAAAATTAAATTCCTATACA
Found at i:48474026 original size:14 final size:14
Alignment explanation
Indices: 48474009--48474112 Score: 97
Period size: 14 Copynumber: 7.5 Consensus size: 14
48473999 ACTAATTAAT
48474009 CTAAACCTTAAACC
1 CTAAACCTTAAACC
* *
48474023 CT-AACTCCT-ATCC
1 CTAAAC-CTTAAACC
* *
48474036 TTTAAACCATAAACC
1 CT-AAACCTTAAACC
48474051 CTAAACCTTAAACC
1 CTAAACCTTAAACC
48474065 CT-AACCTTAAACC
1 CTAAACCTTAAACC
* *
48474078 CTAAACCCTAAATC
1 CTAAACCTTAAACC
* *
48474092 CTAAACCATAATCC
1 CTAAACCTTAAACC
48474106 CTAAACC
1 CTAAACC
48474113 CCTAACTTAT
Statistics
Matches: 73, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
13 20 0.27
14 46 0.63
15 7 0.10
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (14 bp):
CTAAACCTTAAACC
Found at i:48474040 original size:21 final size:20
Alignment explanation
Indices: 48474009--48474109 Score: 96
Period size: 21 Copynumber: 4.9 Consensus size: 20
48473999 ACTAATTAAT
48474009 CTAAACCTTAAACCCTAACTC
1 CTAAACCTTAAACCCTAAC-C
* *
48474030 CT-ATCCTTTAAACCATAAACC
1 CTAAACC-TTAAACCCT-AACC
48474051 CTAAACCTTAAACCCTAACC
1 CTAAACCTTAAACCCTAACC
* * *
48474071 TTAAACCCTAAACCCTAAATC
1 CTAAACCTTAAACCCT-AACC
* *
48474092 CTAAACCATAATCCCTAA
1 CTAAACCTTAAACCCTAA
48474110 ACCCCTAACT
Statistics
Matches: 66, Mismatches: 10, Indels: 9
0.78 0.12 0.11
Matches are distributed among these distances:
20 23 0.35
21 37 0.56
22 6 0.09
ACGTcount: A:0.41, C:0.36, G:0.00, T:0.24
Consensus pattern (20 bp):
CTAAACCTTAAACCCTAACC
Found at i:48474048 original size:7 final size:7
Alignment explanation
Indices: 48474038--48474214 Score: 92
Period size: 7 Copynumber: 25.3 Consensus size: 7
48474028 TCCTATCCTT
*
48474038 TAAACCA
1 TAAACCC
48474045 TAAACCC
1 TAAACCC
*
48474052 TAAACCT
1 TAAACCC
48474059 TAAACCC
1 TAAACCC
*
48474066 T-AACCT
1 TAAACCC
48474072 TAAACCC
1 TAAACCC
48474079 TAAACCC
1 TAAACCC
*
48474086 TAAATCC
1 TAAACCC
*
48474093 TAAACCA
1 TAAACCC
*
48474100 TAATCCC
1 TAAACCC
48474107 TAAACCCC
1 TAAA-CCC
*
48474115 T-AA-CT
1 TAAACCC
*
48474120 TATATCCC
1 TA-AACCC
*
48474128 TTAAACCT
1 -TAAACCC
* * *
48474136 TGAATCA
1 TAAACCC
* *
48474143 TAAAACA
1 TAAACCC
***
48474150 TAAATTA
1 TAAACCC
48474157 TAAACCC
1 TAAACCC
48474164 TAAACCCC
1 TAAA-CCC
48474172 TAAACCC
1 TAAACCC
*
48474179 TAACCCC
1 TAAACCC
*
48474186 T-AACCT
1 TAAACCC
*
48474192 TAAACCA
1 TAAACCC
*
48474199 TAAACCA
1 TAAACCC
*
48474206 TAATCCC
1 TAAACCC
48474213 TA
1 TA
48474215 TCCCCTATCC
Statistics
Matches: 130, Mismatches: 32, Indels: 16
0.73 0.18 0.09
Matches are distributed among these distances:
5 2 0.02
6 9 0.07
7 102 0.78
8 15 0.12
9 2 0.02
ACGTcount: A:0.43, C:0.34, G:0.01, T:0.23
Consensus pattern (7 bp):
TAAACCC
Found at i:48474077 original size:27 final size:28
Alignment explanation
Indices: 48474038--48474113 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
48474028 TCCTATCCTT
*
48474038 TAAACCATAAACCCTAAACCTTAAACCC
1 TAAACCATAAACCCTAAACCCTAAACCC
* *
48474066 T-AACCTTAAACCCTAAACCCTAAATCC
1 TAAACCATAAACCCTAAACCCTAAACCC
*
48474093 TAAACCATAATCCCTAAACCC
1 TAAACCATAAACCCTAAACCC
48474114 CTAACTTATA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 24 0.57
28 18 0.43
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (28 bp):
TAAACCATAAACCCTAAACCCTAAACCC
Found at i:48474183 original size:14 final size:14
Alignment explanation
Indices: 48474157--48474228 Score: 56
Period size: 14 Copynumber: 5.1 Consensus size: 14
48474147 ACATAAATTA
48474157 TAAACCCTAAACCCC
1 TAAACCCT-AACCCC
48474172 TAAACCCTAACCCC
1 TAAACCCTAACCCC
* * *
48474186 T-AACCTTAAACCA
1 TAAACCCTAACCCC
* *
48474199 TAAACCATAATCCC
1 TAAACCCTAACCCC
** *
48474213 TATCCCCTATCCCC
1 TAAACCCTAACCCC
48474227 TA
1 TA
48474229 TCCCCTAAAC
Statistics
Matches: 45, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
13 10 0.22
14 27 0.60
15 8 0.18
ACGTcount: A:0.36, C:0.43, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCCTAACCCC
Found at i:48474190 original size:21 final size:20
Alignment explanation
Indices: 48474169--48474239 Score: 52
Period size: 21 Copynumber: 3.5 Consensus size: 20
48474159 AACCCTAAAC
48474169 CCCTAAACCCTAACCCCTAA
1 CCCTAAACCCTAACCCCTAA
* * * *
48474189 CCTTAAACCATAAACCATAA
1 CCCTAAACCCTAACCCCTAA
** * *
48474209 TCCCTATCCCCTATCCCCTATC
1 -CCCTAAACCCTAACCCCTA-A
48474231 CCCTAAACC
1 CCCTAAACC
48474240 TTGAATTATA
Statistics
Matches: 35, Mismatches: 14, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 16 0.46
21 19 0.54
ACGTcount: A:0.32, C:0.46, G:0.00, T:0.21
Consensus pattern (20 bp):
CCCTAAACCCTAACCCCTAA
Found at i:48474220 original size:7 final size:7
Alignment explanation
Indices: 48474210--48474235 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
48474200 AAACCATAAT
48474210 CCCTATC
1 CCCTATC
48474217 CCCTATC
1 CCCTATC
48474224 CCCTATC
1 CCCTATC
48474231 CCCTA
1 CCCTA
48474236 AACCTTGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.58, G:0.00, T:0.27
Consensus pattern (7 bp):
CCCTATC
Found at i:48474238 original size:105 final size:104
Alignment explanation
Indices: 48474038--48474314 Score: 297
Period size: 105 Copynumber: 2.6 Consensus size: 104
48474028 TCCTATCCTT
* ** * * * * * *
48474038 TAAACCATAAACCCTAAACCTTAAACCCTAACCTTAAACCCTAAACCCTAAATCCTAAACCATAA
1 TAAAACATAAACTATAAACCCTAAACCCTAACCCTAACCCCT-AACCTTAAACCATAAACCATAA
** *
48474103 TCCCTAAACCCCTAACTTATATCCCTTAAACCTTGAATCA
65 TCCCTAAACCCCTAACCCATATCCCCTAAACCTTGAATCA
*
48474143 TAAAACATAAATTATAAACCCTAAACCCCTAAACCCTAACCCCTAACCTTAAACCATAAACCATA
1 TAAAACATAAACTATAAACCCTAAA-CCCT-AACCCTAACCCCTAACCTTAAACCATAAACCATA
* * * *
48474208 ATCCCT-ATCCCCTATCCCCTATCCCCTAAACCTTGAATTA
64 ATCCCTAAACCCCTAACCCATATCCCCTAAACCTTGAATCA
* * *
48474248 TAAAACATAAACTATAAACCCTAAATCCATAACCCTTAAACCCC-AACCCTTAAACAATAAACAA
1 TAAAACATAAACTATAAACCCTAAA-CCCTAACCC-T-AACCCCTAA-CCTTAAACCATAAACCA
48474312 TAA
62 TAA
48474315 ACAATAAATT
Statistics
Matches: 145, Mismatches: 22, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
104 5 0.03
105 77 0.53
106 52 0.36
107 11 0.08
ACGTcount: A:0.43, C:0.34, G:0.01, T:0.23
Consensus pattern (104 bp):
TAAAACATAAACTATAAACCCTAAACCCTAACCCTAACCCCTAACCTTAAACCATAAACCATAAT
CCCTAAACCCCTAACCCATATCCCCTAAACCTTGAATCA
Found at i:48474310 original size:7 final size:7
Alignment explanation
Indices: 48474298--48474322 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
48474288 CCCCAACCCT
48474298 TAAACAA
1 TAAACAA
48474305 TAAACAA
1 TAAACAA
48474312 TAAACAA
1 TAAACAA
48474319 TAAA
1 TAAA
48474323 TTATAATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.12, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACAA
Found at i:48478045 original size:23 final size:23
Alignment explanation
Indices: 48478019--48478063 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
48478009 CAAAAATTAA
48478019 AAAAAATAACA-TTTTAAAAAATG
1 AAAAAA-AACATTTTTAAAAAATG
* *
48478042 AAAACAAATATTTTTAAAAAAT
1 AAAAAAAACATTTTTAAAAAAT
48478064 ATTTATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.29
Consensus pattern (23 bp):
AAAAAAAACATTTTTAAAAAATG
Found at i:48478045 original size:25 final size:23
Alignment explanation
Indices: 48478010--48478063 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 23
48478000 CGCACGTAAC
*
48478010 AAAAATTAAAAAAAATAACATTTTA
1 AAAAATGAAAAAAAAT-A-ATTTTA
* *
48478035 AAAAATGAAAACAAATATTTTTA
1 AAAAATGAAAAAAAATAATTTTA
48478058 AAAAAT
1 AAAAAT
48478064 ATTTATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 11 0.42
24 1 0.04
25 14 0.54
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (23 bp):
AAAAATGAAAAAAAATAATTTTA
Found at i:48478192 original size:20 final size:20
Alignment explanation
Indices: 48478169--48478209 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
48478159 AAAAACCTAT
* * *
48478169 AATTTGTAAAACATTATTAA
1 AATTTATAAAAAAATATTAA
48478189 AATTTATAAAAAAATATTAA
1 AATTTATAAAAAAATATTAA
48478209 A
1 A
48478210 TAAAATTCAA
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:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (20 bp):
AATTTATAAAAAAATATTAA
Found at i:48494045 original size:51 final size:51
Alignment explanation
Indices: 48493969--48494071 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
48493959 ATGTACTTAA
*
48493969 AGAAAACTATTAACTATGTATTGTGTTATAATGGATATCCTCCAGTTTTAG
1 AGAAAACTATTAACTATGGATTGTGTTATAATGGATATCCTCCAGTTTTAG
48494020 AGAAAACTATTAACTATGGATTGTGTTATAATGGATATCCTCCAGTTTTAG
1 AGAAAACTATTAACTATGGATTGTGTTATAATGGATATCCTCCAGTTTTAG
48494071 A
1 A
48494072 AGGGTATTCG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.38
Consensus pattern (51 bp):
AGAAAACTATTAACTATGGATTGTGTTATAATGGATATCCTCCAGTTTTAG
Found at i:48515238 original size:27 final size:26
Alignment explanation
Indices: 48515197--48515249 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
48515187 AATGCGTTCA
*
48515197 TGCTTATATGTAGGTGCTGAAAGATTC
1 TGCTTATATGAAGGTGCTGAAA-ATTC
*
48515224 TGCTTATGTGAAGGTGCTGAAAATTC
1 TGCTTATATGAAGGTGCTGAAAATTC
48515250 CAAGAAACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.36
Consensus pattern (26 bp):
TGCTTATATGAAGGTGCTGAAAATTC
Found at i:48523406 original size:16 final size:16
Alignment explanation
Indices: 48523385--48523454 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
48523375 TTTGGTTCGC
48523385 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
48523401 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
* *
48523417 TGTAATAGAATAGATG
1 TGTAATGGAATAGAGG
*
48523433 CGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
48523449 CGTAAT
1 TGTAAT
48523455 AGGTAATTCT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.39, C:0.03, G:0.33, T:0.26
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:48523523 original size:44 final size:46
Alignment explanation
Indices: 48523436--48523524 Score: 128
Period size: 44 Copynumber: 2.0 Consensus size: 46
48523426 ATAGATGCGT
*
48523436 AATGGAATAGAGGCGTAATAGGTAATTCTTTTATTTCGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTATTTCGTTGAATGG
* * *
48523482 AATGGAATATAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAATG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTATTTCGTTGAATG
48523525 TAATAGAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 18 0.46
45 3 0.08
46 18 0.46
ACGTcount: A:0.28, C:0.06, G:0.28, T:0.38
Consensus pattern (46 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTATTTCGTTGAATGG
Found at i:48523734 original size:15 final size:16
Alignment explanation
Indices: 48523714--48523743 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
48523704 ATATATAATT
48523714 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
48523729 TAATAAATATTCTTA
1 TAATAAATATTCTTA
48523744 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:48523973 original size:15 final size:16
Alignment explanation
Indices: 48523953--48523982 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
48523943 ATATATAATT
48523953 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
48523968 TAATAAATATTCTTA
1 TAATAAATATTCTTA
48523983 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:48523987 original size:119 final size:118
Alignment explanation
Indices: 48523681--48524110 Score: 761
Period size: 119 Copynumber: 3.6 Consensus size: 118
48523671 AACATAATTA
48523681 TTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATA
1 TTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATA
* *
48523746 TGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAAGTA
66 TGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTT--AATTAGTT
*
48523801 TTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCTTTTA
1 TTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATA
*
48523866 TGAATTTACTAAAATCATAATATATAATACTATAAAATAAAATTTAATTAGTTT
66 TGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAATTAG-TT
48523920 TTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATA
1 TTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATA
48523985 TGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAATTAGTT
66 TGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAATTAGTT
* * *
48524038 TTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTTTTTAGTAATAAATATTCATAT
1 TTATTAAATATAATTTAATAAAAATATATAATTTAATAAAA-TTCTTAATAATAAATATTCTTAT
48524103 ATGAATTT
65 ATGAATTT
48524111 GTATAATTTA
Statistics
Matches: 299, Mismatches: 9, Indels: 5
0.96 0.03 0.02
Matches are distributed among these distances:
118 48 0.16
119 143 0.48
120 108 0.36
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (118 bp):
TTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATA
TGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAATTAGTT
Found at i:48524029 original size:38 final size:38
Alignment explanation
Indices: 48523868--48524030 Score: 100
Period size: 38 Copynumber: 4.2 Consensus size: 38
48523858 TTCTTTTATG
*
48523868 AATTTACTAAAATCATAATATATAATACTATAAAATAA
1 AATTTACTAAAATCATAATATATAATACTATAAAATAT
* *** * * *
48523906 AATTTAATTAGTTTTTATTAA-ATATAATTTAATAAAAATATAT
1 AATTT-ACTA-AAATCA-TAATATATAA--TACTATAAA-ATAT
* * ***
48523949 AATTTAATAAAATTCTTAATA-ATAA-A-TATTCTTATAT
1 AATTTACTAAAA-TCATAATATATAATACTA-TAAAATAT
48523986 GAATTTACTAAAATCATAATATATAATACTATAAAATAT
1 -AATTTACTAAAATCATAATATATAATACTATAAAATAT
48524025 AATTTA
1 AATTTA
48524031 ATTAGTTTTA
Statistics
Matches: 89, Mismatches: 23, Indels: 26
0.64 0.17 0.19
Matches are distributed among these distances:
37 13 0.15
38 27 0.30
39 9 0.10
40 10 0.11
41 10 0.11
42 12 0.13
43 8 0.09
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (38 bp):
AATTTACTAAAATCATAATATATAATACTATAAAATAT
Found at i:48524228 original size:91 final size:91
Alignment explanation
Indices: 48524022--48524380 Score: 575
Period size: 91 Copynumber: 4.0 Consensus size: 91
48524012 TACTATAAAA
* * * * *
48524022 TATAATTT-AATTAGTT-TTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTTTTT
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCATAAAA-TTCTT
* * * *
48524085 AGTAATAAATATTCATATATGAATTTG
65 ACTAATAAATTTTCTTATACGAATTTG
48524112 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTA
48524177 CTAATAAATTTTCTTATACGAATTTG
66 CTAATAAATTTTCTTATACGAATTTG
48524203 TATAATTTAAAATAATTATTATTAAATATAA-TT--TAATAATATATAATTTCATAAAATTCTTA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTA
*
48524265 CTAACAAATTTTCTTATACGAATTTG
66 CTAATAAATTTTCTTATACGAATTTG
48524291 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTA
*
48524356 CTAATAAATTTTCTTATATGAATTT
66 CTAATAAATTTTCTTATACGAATTT
48524381 TCTAAAATCA
Statistics
Matches: 252, Mismatches: 12, Indels: 9
0.92 0.04 0.03
Matches are distributed among these distances:
88 85 0.34
89 2 0.01
90 10 0.04
91 116 0.46
92 39 0.15
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (91 bp):
TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTA
CTAATAAATTTTCTTATACGAATTTG
Found at i:48524246 original size:15 final size:15
Alignment explanation
Indices: 48524203--48524256 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 15
48524193 TACGAATTTG
48524203 TATAATTTAA-AATA
1 TATAATTTAATAATA
* *
48524217 -ATTA-TTATTAA-A
1 TATAATTTAATAATA
48524229 TATAATTTAATAATA
1 TATAATTTAATAATA
*
48524244 TATAATTTCATAA
1 TATAATTTAATAA
48524257 AATTCTTACT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
12 4 0.13
13 8 0.26
14 6 0.19
15 13 0.42
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
TATAATTTAATAATA
Found at i:48524313 original size:179 final size:179
Alignment explanation
Indices: 48524022--48524380 Score: 578
Period size: 179 Copynumber: 2.0 Consensus size: 179
48524012 TACTATAAAA
* * * *
48524022 TATAATTTAATTAGTTTTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTTTTTAG
1 TATAATTTAAATAATTTTATTAAATATAATTTAAT--AAATATATAATTTAATAAAATTTCTTAC
* *
48524087 TAATAAATATTCATATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAATTTAATAAT
64 TAACAAATATTCATATACGAATTTGTATAATTTAAAATAATTATTATTAAATATAATTTAATAAT
48524152 AATATATAATTTCATAAAATTCTTACTAATAAATTTTCTTATACGAATTTG
129 AATATATAATTTCATAAAATTCTTACTAATAAATTTTCTTATACGAATTTG
*
48524203 TATAATTTAAAATAATTATTATTAAATATAATTTAAT-AATATATAATTTCATAAAA-TTCTTAC
1 TATAATTT-AAATAATT-TTATTAAATATAATTTAATAAATATATAATTTAATAAAATTTCTTAC
* *
48524266 TAACAAATTTTCTTATACGAATTTGTATAATTTAAAATAATTATTATTAAATATAATTTAATAAT
64 TAACAAATATTCATATACGAATTTGTATAATTTAAAATAATTATTATTAAATATAATTTAATAAT
*
48524331 AATATATAATTTCATAAAATTCTTACTAATAAATTTTCTTATATGAATTT
129 AATATATAATTTCATAAAATTCTTACTAATAAATTTTCTTATACGAATTT
48524381 TCTAAAATCA
Statistics
Matches: 166, Mismatches: 10, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
179 115 0.69
180 18 0.11
181 8 0.05
182 6 0.04
183 19 0.11
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (179 bp):
TATAATTTAAATAATTTTATTAAATATAATTTAATAAATATATAATTTAATAAAATTTCTTACTA
ACAAATATTCATATACGAATTTGTATAATTTAAAATAATTATTATTAAATATAATTTAATAATAA
TATATAATTTCATAAAATTCTTACTAATAAATTTTCTTATACGAATTTG
Found at i:48528116 original size:21 final size:21
Alignment explanation
Indices: 48528072--48528132 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
48528062 ATGCCCGTGC
* ** *
48528072 GAAGGCCACTCACGCTTGTGT
1 GAAGGCCACACACGCCCGTAT
*
48528093 GAAGGCCACACGCGCCCGTAT
1 GAAGGCCACACACGCCCGTAT
*
48528114 GAAGGCCATACACGCCCGT
1 GAAGGCCACACACGCCCGT
48528133 GTGGAGGGGC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.23, C:0.34, G:0.28, T:0.15
Consensus pattern (21 bp):
GAAGGCCACACACGCCCGTAT
Found at i:48531674 original size:17 final size:16
Alignment explanation
Indices: 48531648--48531679 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
48531638 TTTTACTTCC
48531648 AAAAATAAAATAAATT
1 AAAAATAAAATAAATT
48531664 AAAAATCAAAATAAAT
1 AAAAAT-AAAATAAAT
48531680 AACTAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAAATAAAATAAATT
Found at i:48537985 original size:21 final size:21
Alignment explanation
Indices: 48537959--48538063 Score: 77
Period size: 21 Copynumber: 5.0 Consensus size: 21
48537949 CTAGGTTTTT
*
48537959 AGTTTAGCTCTTTTGAGCTTC
1 AGTTTAGCTCTTATGAGCTTC
* * * * * *
48537980 AGTTTAACCCTAATGGGTTTT
1 AGTTTAGCTCTTATGAGCTTC
*
48538001 AGTTTAGCTCTTCTGAGCTTC
1 AGTTTAGCTCTTATGAGCTTC
* * *
48538022 AGATTTACCT-TTATGGGTTTC
1 AG-TTTAGCTCTTATGAGCTTC
* *
48538043 CGTTCAGCTCTTATGAGCTTC
1 AGTTTAGCTCTTATGAGCTTC
48538064 CGTTCAACCC
Statistics
Matches: 59, Mismatches: 23, Indels: 4
0.69 0.27 0.05
Matches are distributed among these distances:
20 5 0.08
21 48 0.81
22 6 0.10
ACGTcount: A:0.17, C:0.20, G:0.19, T:0.44
Consensus pattern (21 bp):
AGTTTAGCTCTTATGAGCTTC
Found at i:48538018 original size:42 final size:42
Alignment explanation
Indices: 48537927--48538083 Score: 181
Period size: 42 Copynumber: 3.7 Consensus size: 42
48537917 AGTCAACTCA
* * *
48537927 TATGAGTTTCAGTTTAACCCTTCTAGGTTTTTAGTTTAGCTCT
1 TATGAGCTTCAGTTTAACCCTTAT-GGGTTTTAGTTTAGCTCT
* *
48537970 TTTGAGCTTCAGTTTAACCCTAATGGGTTTTAGTTTAGCTCT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTTAGTTTAGCTCT
* * ** *
48538012 TCTGAGCTTCAGATTT-ACCTTTATGGGTTTCCGTTCAGCTCT
1 TATGAGCTTCAG-TTTAACCCTTATGGGTTTTAGTTTAGCTCT
* *
48538054 TATGAGCTTCCGTTCAACCCTTATGGGTTT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTT
48538084 CTTTTTAGCA
Statistics
Matches: 97, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
41 2 0.02
42 72 0.74
43 23 0.24
ACGTcount: A:0.17, C:0.20, G:0.18, T:0.45
Consensus pattern (42 bp):
TATGAGCTTCAGTTTAACCCTTATGGGTTTTAGTTTAGCTCT
Found at i:48540311 original size:20 final size:21
Alignment explanation
Indices: 48540275--48540313 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
48540265 GTTGTATTAA
*
48540275 AAATAGATAAATGAATAAAGT
1 AAATAGATAAATAAATAAAGT
48540296 AAATAGA-AAATAAATAAA
1 AAATAGATAAATAAATAAA
48540314 TAGGGGTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (21 bp):
AAATAGATAAATAAATAAAGT
Found at i:48548361 original size:6 final size:6
Alignment explanation
Indices: 48548352--48548385 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
48548342 AAAACGACCA
*
48548352 CCACGT CCACGT CCACGT CCACGC CCACGT CCAC
1 CCACGT CCACGT CCACGT CCACGT CCACGT CCAC
48548386 CTCGATGTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.18, C:0.56, G:0.15, T:0.12
Consensus pattern (6 bp):
CCACGT
Found at i:48552263 original size:27 final size:27
Alignment explanation
Indices: 48552233--48552285 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
48552223 GCATAACAGA
*
48552233 TTTTTATTTGAATTTGTTTATTTTGTC
1 TTTTTATTTGAATTTGTTTACTTTGTC
48552260 TTTTTATTTGAATTTGTTTACTTTGT
1 TTTTTATTTGAATTTGTTTACTTTGT
48552286 GTTTGATTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.15, C:0.04, G:0.11, T:0.70
Consensus pattern (27 bp):
TTTTTATTTGAATTTGTTTACTTTGTC
Found at i:48553904 original size:44 final size:44
Alignment explanation
Indices: 48553848--48554004 Score: 224
Period size: 44 Copynumber: 3.4 Consensus size: 44
48553838 TATCACTTGC
48553848 CACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
1 CACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
48553892 CACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTAT
1 CACTTGTCACTGATCAGATAAGTGTAGCTGAAGC--T-AC----CACTTAT
* * *
48553943 CACTTGCCACTGATCAGATAAGTGTAGCTGAAACTACTACTTAT
1 CACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
48553987 CACTTGTCACTGATCAGA
1 CACTTGTCACTGATCAGA
48554005 AATACTCAAA
Statistics
Matches: 102, Mismatches: 4, Indels: 14
0.85 0.03 0.12
Matches are distributed among these distances:
44 57 0.56
46 1 0.01
47 2 0.02
48 2 0.02
49 1 0.01
51 39 0.38
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (44 bp):
CACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
Found at i:48553940 original size:51 final size:51
Alignment explanation
Indices: 48553885--48553997 Score: 183
Period size: 51 Copynumber: 2.2 Consensus size: 51
48553875 CTGAAGCTAC
* *
48553885 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTA-TCACTTAT
1 CACTTATCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTACT-ACTTAT
48553936 CACTTATCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTACTACTTAT
1 CACTTATCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTACTACTTAT
*
48553987 CACTTGTCACT
1 CACTTATCACT
48553998 GATCAGAAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
51 57 0.98
52 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (51 bp):
CACTTATCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTACTACTTAT
Found at i:48553959 original size:95 final size:94
Alignment explanation
Indices: 48553791--48554004 Score: 347
Period size: 95 Copynumber: 2.3 Consensus size: 94
48553781 TATGTATAAT
* * *
48553791 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCAAAGCTACCACTTATCACTTGCCACTTGTC
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCAAAGCTACCACTTATCACTTACCACTTGCC
*
48553856 ACTGATCAGATAAGTGTAGCTGAAGCTAC
66 ACTGATCAGATAAGTGTAGCTGAAACTAC
* * *
48553885 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTATCACTTGC
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGC-AAAGCTACCACTTATCACTTACCACTTGC
48553950 CACTGATCAGATAAGTGTAGCTGAAACTAC
65 CACTGATCAGATAAGTGTAGCTGAAACTAC
*
48553980 TACTTATCACTTGTCACTGATCAGA
1 CACTTATCACTTGTCACTGATCAGA
48554005 AATACTCAAA
Statistics
Matches: 111, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
94 34 0.31
95 77 0.69
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (94 bp):
CACTTATCACTTGTCACTGATCAGATAAGTGTAGCAAAGCTACCACTTATCACTTACCACTTGCC
ACTGATCAGATAAGTGTAGCTGAAACTAC
Found at i:48554539 original size:43 final size:43
Alignment explanation
Indices: 48554464--48554555 Score: 107
Period size: 43 Copynumber: 2.1 Consensus size: 43
48554454 TTTGGAAAAG
* *
48554464 CGCCGCTAAAGACCATGACCTATAGCGACGCTTCTCTAACAAA
1 CGCCGCTAAAGACCATAACCTATAGCGACGCTTCTCCAACAAA
* * *
48554507 CGCCGCTAAAGA-CATTAACCTTTAGC-AGCGCTTTTCCCACAAA
1 CGCCGCTAAAGACCA-TAACCTATAGCGA-CGCTTCTCCAACAAA
48554550 CGCCGC
1 CGCCGC
48554556 CATAGCTCAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
42 3 0.07
43 39 0.93
ACGTcount: A:0.29, C:0.35, G:0.16, T:0.20
Consensus pattern (43 bp):
CGCCGCTAAAGACCATAACCTATAGCGACGCTTCTCCAACAAA
Found at i:48554582 original size:86 final size:86
Alignment explanation
Indices: 48554477--48554641 Score: 201
Period size: 86 Copynumber: 1.9 Consensus size: 86
48554467 CGCTAAAGAC
*
48554477 CATGACCTATAGCGACGC-TTCTCTAACAAACGCCGCTAAAGACAT-TA-ACCTTTAGCAGCGCT
1 CATGACCTATAGCGACGCTTTCTC-AACAAACGCCGCTAAAG-C-TCTATACCTTTAGCAGCACT
48554539 TTTCCCACAAACGCCGCCATAGCT
63 TTTCCCACAAACGCCGCCATAGCT
* * * * * * * *
48554563 CATGAGCTTTAGCGGCGCTTTTTCCACAAACGTCGCTATAGCTCTATACCTTTAGCGGCACTTTT
1 CATGACCTATAGCGACGCTTTCTCAACAAACGCCGCTAAAGCTCTATACCTTTAGCAGCACTTTT
48554628 CCCACAAACGCCGC
66 CCCACAAACGCCGC
48554642 TATAACTCGA
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
84 1 0.01
85 3 0.04
86 59 0.88
87 4 0.06
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.25
Consensus pattern (86 bp):
CATGACCTATAGCGACGCTTTCTCAACAAACGCCGCTAAAGCTCTATACCTTTAGCAGCACTTTT
CCCACAAACGCCGCCATAGCT
Found at i:48554643 original size:43 final size:43
Alignment explanation
Indices: 48554502--48554645 Score: 177
Period size: 43 Copynumber: 3.3 Consensus size: 43
48554492 CGCTTCTCTA
* *
48554502 ACAAACGCCGCTAAAGACAT-TA-ACCTTTAGCAGCGCTTTTCCC
1 ACAAACGCCGCTATAG-C-TCTATACCTTTAGCGGCGCTTTTCCC
* * *
48554545 ACAAACGCCGCCATAGCTC-ATGAGCTTTAGCGGCGCTTTTTCC
1 ACAAACGCCGCTATAGCTCTAT-ACCTTTAGCGGCGCTTTTCCC
* *
48554588 ACAAACGTCGCTATAGCTCTATACCTTTAGCGGCACTTTTCCC
1 ACAAACGCCGCTATAGCTCTATACCTTTAGCGGCGCTTTTCCC
48554631 ACAAACGCCGCTATA
1 ACAAACGCCGCTATA
48554646 ACTCGATAAC
Statistics
Matches: 86, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 81 0.94
44 2 0.02
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (43 bp):
ACAAACGCCGCTATAGCTCTATACCTTTAGCGGCGCTTTTCCC
Found at i:48559942 original size:19 final size:20
Alignment explanation
Indices: 48559914--48559956 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
48559904 AAATTATAAA
*
48559914 TTTTAGTTTTTTTATTTCAT
1 TTTTAGTTTTTGTATTTCAT
*
48559934 TTTTA-TTTTTGTATTTTAT
1 TTTTAGTTTTTGTATTTCAT
48559953 TTTT
1 TTTT
48559957 TTCTTATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (20 bp):
TTTTAGTTTTTGTATTTCAT
Found at i:48560349 original size:14 final size:14
Alignment explanation
Indices: 48560331--48560369 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
48560321 CTTCTAGCCC
48560331 CTAACCCCTAAC-T
1 CTAACCCCTAACTT
48560344 CTTAACCCCTAACTT
1 C-TAACCCCTAACTT
48560359 CTAACCCCTAA
1 CTAACCCCTAA
48560370 ACCATAATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 1 0.04
14 21 0.88
15 2 0.08
ACGTcount: A:0.31, C:0.44, G:0.00, T:0.26
Consensus pattern (14 bp):
CTAACCCCTAACTT
Found at i:48561108 original size:82 final size:82
Alignment explanation
Indices: 48560946--48561096 Score: 248
Period size: 82 Copynumber: 1.8 Consensus size: 82
48560936 CCCCTGACAA
* * * *
48560946 CTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACGCTAATTAATCTAAATCCTAAACCCT
1 CTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCAT
48561011 AACCCGACCCCGAATCT
66 AACCCGACCCCGAATCT
* *
48561028 CTAACCCCTAAACATTATTTAATATATAAATTAAAATACACTAATTAATCTAAACCCTAAATCAT
1 CTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCAT
48561093 AACC
66 AACC
48561097 TGTCGCTGAA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 63 1.00
ACGTcount: A:0.44, C:0.25, G:0.02, T:0.28
Consensus pattern (82 bp):
CTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCAT
AACCCGACCCCGAATCT
Found at i:48561143 original size:7 final size:7
Alignment explanation
Indices: 48561120--48561166 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
48561110 ATAAACCTTA
48561120 AACCCCT
1 AACCCCT
* *
48561127 AACTCAT
1 AACCCCT
*
48561134 AACCTCT
1 AACCCCT
*
48561141 AACCCTT
1 AACCCCT
48561148 AACCCCT
1 AACCCCT
48561155 AACCCCT
1 AACCCCT
48561162 AACCC
1 AACCC
48561167 ATAAACCTTA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.32, C:0.49, G:0.00, T:0.19
Consensus pattern (7 bp):
AACCCCT
Found at i:48561191 original size:14 final size:14
Alignment explanation
Indices: 48561172--48561201 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
48561162 AACCCATAAA
48561172 CCTTAAATCACAAC
1 CCTTAAATCACAAC
*
48561186 CCTTAAATCAGAAC
1 CCTTAAATCACAAC
48561200 CC
1 CC
48561202 CTAATCCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.37, G:0.03, T:0.20
Consensus pattern (14 bp):
CCTTAAATCACAAC
Found at i:48561622 original size:89 final size:89
Alignment explanation
Indices: 48561521--48561700 Score: 315
Period size: 89 Copynumber: 2.0 Consensus size: 89
48561511 TTATTTCTAC
* * *
48561521 GTGTCGTTATTTCAAATTTATCCATTTTTAACAAATTTTCAATTAAAAATAAATTGAATTTTAAT
1 GTGTCATTATTTCAAATTTATCCATTTTTAACAAATATTAAATTAAAAATAAATTGAATTTTAAT
48561586 TAATATAAATAAACAAATTAAATA
66 TAATATAAATAAACAAATTAAATA
*
48561610 GTGTCATTATTTCAAATTTATCTATTTTTAACAAATATTAAATTAAAAATAAATTGAATTTTAAT
1 GTGTCATTATTTCAAATTTATCCATTTTTAACAAATATTAAATTAAAAATAAATTGAATTTTAAT
*
48561675 TAATATAAATAAATAAATTAAATA
66 TAATATAAATAAACAAATTAAATA
48561699 GT
1 GT
48561701 AAATAGACAG
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
89 86 1.00
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.42
Consensus pattern (89 bp):
GTGTCATTATTTCAAATTTATCCATTTTTAACAAATATTAAATTAAAAATAAATTGAATTTTAAT
TAATATAAATAAACAAATTAAATA
Found at i:48561781 original size:41 final size:41
Alignment explanation
Indices: 48561724--48561958 Score: 301
Period size: 41 Copynumber: 5.7 Consensus size: 41
48561714 AAATGTTCTT
*
48561724 GCGGCGCTTTTCCAAAAACGCCGCTAAAGAACTGAGTATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGAACTGAGCATTA
* *
48561765 GCGGCGCTGTTACAAAAACGCCGCTAAAGAACTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGAACTGAGCATTA
* * * **
48561806 GCGGTGCTTATCCAAAAACGCCACTAAAGATTTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGAACTGAGCATTA
* * * *
48561847 GCGGCGCTTCTCCATAAACGTCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGAACTGAGCATTA
*
48561888 GCGGCGCTTTTCCAAAAACGCCGCTAAA-AATCTAAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGAA-CTGAGCATTA
* **
48561929 GCAGCGCTTTTTTAAAAAACGCCGCTAAAG
1 GCGGCGC-TTTTCCAAAAACGCCGCTAAAG
48561959 CTCGAAAGGC
Statistics
Matches: 167, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
40 1 0.01
41 147 0.88
42 19 0.11
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGAACTGAGCATTA
Found at i:48562039 original size:40 final size:40
Alignment explanation
Indices: 48561995--48562131 Score: 150
Period size: 40 Copynumber: 3.4 Consensus size: 40
48561985 GAGCTTTGGG
* * * *
48561995 TTTTTTGCGGCATTTTTCCAAAAATCGCCGCTAATGCTC-A
1 TTTTTAGCGGCGTTTTT-CAAAAAGCGCAGCTAATGCTCGA
*
48562035 TTTTTAGCGGCGTTTTTGAAAAAGCGCAGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTTCAAAAAGCGCAGCTAATGCTCGA
* * ** * *
48562075 TCTTTAGCGGCGTTTTACGTAAAGCGCCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTTTCAAAAAGCGCAGCTAATGCTCGA
*
48562115 TTTTTAGGGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
48562132 TGTCCAAACG
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 18 0.22
40 63 0.78
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTCAAAAAGCGCAGCTAATGCTCGA
Found at i:48562647 original size:39 final size:39
Alignment explanation
Indices: 48562604--48562687 Score: 152
Period size: 39 Copynumber: 2.2 Consensus size: 39
48562594 TCTCATGATT
48562604 TACAACTTTATTGCTTACACCGTTTCTTCTTTGAGAAAC
1 TACAACTTTATTGCTTACACCGTTTCTTCTTTGAGAAAC
*
48562643 TACAATTTTATTGCTTACACCGTTTCTTCTTTGAGAAAC
1 TACAACTTTATTGCTTACACCGTTTCTTCTTTGAGAAAC
48562682 TA-AACT
1 TACAACT
48562688 CAATAAGCTT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
38 3 0.07
39 40 0.93
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (39 bp):
TACAACTTTATTGCTTACACCGTTTCTTCTTTGAGAAAC
Found at i:48572924 original size:45 final size:45
Alignment explanation
Indices: 48572860--48573019 Score: 302
Period size: 45 Copynumber: 3.6 Consensus size: 45
48572850 TGTCCTGAAG
48572860 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
1 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
48572905 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
1 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
*
48572950 ACAAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
1 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
*
48572995 ACTAGGAAGGAACCTGAGGATGGTG
1 ACTAGGAAGGAGCCTGAGGATGGTG
48573020 AGAACAGAAG
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 112 1.00
ACGTcount: A:0.26, C:0.09, G:0.47, T:0.17
Consensus pattern (45 bp):
ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
Found at i:48579021 original size:23 final size:24
Alignment explanation
Indices: 48578995--48579054 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 24
48578985 TTTCATAAAA
48578995 ATATAATATAATAAAATTAA-ATT
1 ATATAATATAATAAAATTAATATT
* *
48579018 ATAT-ATAATATTAATATTAATATT
1 ATATAAT-ATAATAAAATTAATATT
*
48579042 AAATAAATATAAT
1 ATAT-AATATAAT
48579055 TATATACTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
22 2 0.07
23 15 0.52
24 6 0.21
25 4 0.14
26 2 0.07
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
ATATAATATAATAAAATTAATATT
Found at i:48579030 original size:17 final size:18
Alignment explanation
Indices: 48578994--48579051 Score: 57
Period size: 17 Copynumber: 3.3 Consensus size: 18
48578984 TTTTCATAAA
*
48578994 AATATAATATAATAAAATT
1 AATATTATAT-ATAAAATT
*
48579013 AA-ATTATATATAATATT
1 AATATTATATATAAAATT
* *
48579030 AATATTA-ATATTAAATA
1 AATATTATATATAAAATT
48579047 AATAT
1 AATAT
48579052 AATTATATAC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
17 21 0.64
18 10 0.30
19 2 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AATATTATATATAAAATT
Found at i:48579996 original size:3 final size:3
Alignment explanation
Indices: 48579988--48580019 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
48579978 ATCATGAAAT
48579988 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
48580020 GAAAAATAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:48580291 original size:26 final size:26
Alignment explanation
Indices: 48580256--48580309 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
48580246 CATTTTTACT
48580256 ATAATAAAAATATATAATTTAATTTA
1 ATAATAAAAATATATAATTTAATTTA
48580282 ATAATAAAAATATATAATTTAATTTA
1 ATAATAAAAATATATAATTTAATTTA
48580308 AT
1 AT
48580310 TCCGCCCTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
ATAATAAAAATATATAATTTAATTTA
Found at i:48582724 original size:4 final size:4
Alignment explanation
Indices: 48582715--48582739 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
48582705 TTTAGTCCTC
48582715 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
48582740 GATTTTTACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:48596086 original size:73 final size:73
Alignment explanation
Indices: 48595990--48596143 Score: 254
Period size: 73 Copynumber: 2.1 Consensus size: 73
48595980 CGTGTGGCCA
48595990 GGCCGTGTGTCTCACATGGTCAAGAGACACGCCTATGTCTCAAGCCATGTGGACATTCGAAATAG
1 GGCCGTGTGTCTCACATGGTCAAGAGACACGCCTATGTCTCAAGCCATGTGGACATTCGAAATAG
48596055 GGGCACAC
66 GGGCACAC
* * * * *
48596063 GGCTGTGTGTCTCACATGGTCAAGAGACACGTCTGTGTCTCAGGCCGTGTGGACATTCGAAATAG
1 GGCCGTGTGTCTCACATGGTCAAGAGACACGCCTATGTCTCAAGCCATGTGGACATTCGAAATAG
*
48596128 GGGCACAT
66 GGGCACAC
48596136 GGCCGTGT
1 GGCCGTGT
48596144 CCCAGCCCGT
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.23, C:0.24, G:0.31, T:0.23
Consensus pattern (73 bp):
GGCCGTGTGTCTCACATGGTCAAGAGACACGCCTATGTCTCAAGCCATGTGGACATTCGAAATAG
GGGCACAC
Found at i:48596501 original size:54 final size:54
Alignment explanation
Indices: 48596415--48596530 Score: 205
Period size: 54 Copynumber: 2.1 Consensus size: 54
48596405 TAGTATGCTC
*
48596415 ACACGGGCATGTGGCTTGGCCGTGTGACCCAAGTCAGTAAGCACCCTAATTTGG
1 ACACGGGCATGTGGCTTGACCGTGTGACCCAAGTCAGTAAGCACCCTAATTTGG
* *
48596469 ACATGGGCATGTGGCTTGACCGTGTGACCCAAGTCATTAAGCACCCTAATTTGG
1 ACACGGGCATGTGGCTTGACCGTGTGACCCAAGTCAGTAAGCACCCTAATTTGG
48596523 ACACGGGC
1 ACACGGGC
48596531 TGGGACACAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.22
Consensus pattern (54 bp):
ACACGGGCATGTGGCTTGACCGTGTGACCCAAGTCAGTAAGCACCCTAATTTGG
Found at i:48597638 original size:25 final size:24
Alignment explanation
Indices: 48597574--48597688 Score: 95
Period size: 24 Copynumber: 4.7 Consensus size: 24
48597564 AGCTCTTTCA
* *
48597574 AGCCATATAACGGGAAGCTCAAGTG
1 AGCCAT-TAACGGGAAGCTCCAGAG
* * * *
48597599 AGTCGTGTAACGGAAAGCTCCGGAG
1 AGCCAT-TAACGGGAAGCTCCAGAG
* * *
48597624 AGCCATTAACGGGAAGTTCAAGCG
1 AGCCATTAACGGGAAGCTCCAGAG
* * *
48597648 AGCCAATATCGAGAAGCTCCAGAG
1 AGCCATTAACGGGAAGCTCCAGAG
48597672 AGCCATTAATCGGGAAG
1 AGCCATTAA-CGGGAAG
48597689 TTCATAAGAG
Statistics
Matches: 66, Mismatches: 23, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
24 38 0.58
25 28 0.42
ACGTcount: A:0.34, C:0.21, G:0.30, T:0.16
Consensus pattern (24 bp):
AGCCATTAACGGGAAGCTCCAGAG
Found at i:48597698 original size:25 final size:23
Alignment explanation
Indices: 48597622--48597711 Score: 81
Period size: 25 Copynumber: 3.7 Consensus size: 23
48597612 AAAGCTCCGG
*
48597622 AGAGCCATTAACGGGAAGTTCAA
1 AGAGCCATTATCGGGAAGTTCAA
* * * * *
48597645 GCGAGCCAATATCGAGAAGCTCCAG
1 -AGAGCCATTATCGGGAAG-TTCAA
48597670 AGAGCCATTAATCGGGAAGTTCATA
1 AGAGCCATT-ATCGGGAAGTTCA-A
48597695 AGAGCCAGTTATCGGGA
1 AGAGCCA-TTATCGGGA
48597712 TGCTTTGAAG
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
24 24 0.47
25 25 0.49
26 2 0.04
ACGTcount: A:0.34, C:0.20, G:0.28, T:0.18
Consensus pattern (23 bp):
AGAGCCATTATCGGGAAGTTCAA
Found at i:48599609 original size:42 final size:42
Alignment explanation
Indices: 48599556--48599655 Score: 164
Period size: 42 Copynumber: 2.4 Consensus size: 42
48599546 CTATATGAAT
*
48599556 GGCACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAATG
1 GGCACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAACG
* *
48599598 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAACG
1 GGCACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAACG
*
48599640 GGTACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
48599656 TACCGAGAGC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.36, C:0.11, G:0.28, T:0.25
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAACG
Found at i:48603084 original size:27 final size:27
Alignment explanation
Indices: 48603046--48603112 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
48603036 TAGGAAAAGA
48603046 AAAAGAAAAAAAAGGGAAGAA-GAAAAC
1 AAAAGAAAAAAAAGGGAA-AATGAAAAC
* *
48603073 AAAAGAAGAAAAAGGGAAAATGAAAAAG
1 AAAAGAAAAAAAAGGGAAAATG-AAAAC
*
48603101 AAAATAAAAAAA
1 AAAAGAAAAAAA
48603113 GGTGCAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.06
27 18 0.53
28 14 0.41
ACGTcount: A:0.76, C:0.01, G:0.19, T:0.03
Consensus pattern (27 bp):
AAAAGAAAAAAAAGGGAAAATGAAAAC
Found at i:48603665 original size:18 final size:18
Alignment explanation
Indices: 48603639--48603674 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
48603629 TCATTGATGG
48603639 ATCTCATATTGAGATTGT
1 ATCTCATATTGAGATTGT
*
48603657 ATCTTATATTGAGATTGT
1 ATCTCATATTGAGATTGT
48603675 GAATGAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.08, G:0.17, T:0.47
Consensus pattern (18 bp):
ATCTCATATTGAGATTGT
Found at i:48611086 original size:20 final size:20
Alignment explanation
Indices: 48611063--48611110 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
48611053 ATTTATTTAT
*
48611063 TAAAATAACAATTTTATAAA
1 TAAAATAACAATCTTATAAA
* *
48611083 TAAAATTATAATCTTATAAA
1 TAAAATAACAATCTTATAAA
48611103 TAAAATAA
1 TAAAATAA
48611111 TTTAAGGGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (20 bp):
TAAAATAACAATCTTATAAA
Found at i:48621884 original size:43 final size:43
Alignment explanation
Indices: 48621837--48622066 Score: 300
Period size: 43 Copynumber: 5.3 Consensus size: 43
48621827 GTGTCGCTAA
* * *
48621837 CTTTAGCGGCGCTCTTCCCACAAACTCCGCTAAAGACCAAAAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
*
48621880 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGGC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* * * *
48621923 CTTTAGCGACGCTTTTCCCAAAAATGCTGCTAAAGA-CAATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAA-GAC
*
48621966 CTTTAGCGGCGTTTTTCCCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
** * * **
48622009 CTTTAGCGGCGCTTTTCCCTGAAGCGCCGCTAAAAAATAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
*
48622052 CTTTAGCGACGCTTT
1 CTTTAGCGGCGCTTT
48622067 CTCCAAAAAC
Statistics
Matches: 163, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
42 3 0.02
43 157 0.96
44 3 0.02
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
Found at i:48621984 original size:129 final size:129
Alignment explanation
Indices: 48621837--48622075 Score: 363
Period size: 129 Copynumber: 1.9 Consensus size: 129
48621827 GTGTCGCTAA
*
48621837 CTTTAGCGGCGCTCTTCCCACAAACTCCGCTAAAGACCAAAACCTTTAGCGGCGCTTTTCCCACA
1 CTTTAGCGGCGCTCTTCCCACAAACGCCGCTAAAGACCAAAACCTTTAGCGGCGCTTTTCCCACA
* * *
48621902 AACGCCGCTAAAGACCAAGGCCTTTAGCGACGCTTT-TCCCAAAAATGCTGCTAAAGACAATGAC
66 AACGCCGCTAAAAAACAAGACCTTTAGCGACGCTTTCT-CCAAAAATGCTGCTAAAGACAATGAC
* * * **
48621966 CTTTAGCGGCGTTTTTCCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCTGA
1 CTTTAGCGGCGCTCTTCCCACAAACGCCGCTAAAGACCAAAACCTTTAGCGGCGCTTTTCCCACA
* *
48622031 AGCGCCGCTAAAAAATAAGACCTTTAGCGACGCTTTCTCCAAAAA
66 AACGCCGCTAAAAAACAAGACCTTTAGCGACGCTTTCTCCAAAAA
48622076 CACCACTAAA
Statistics
Matches: 98, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
129 97 0.99
130 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (129 bp):
CTTTAGCGGCGCTCTTCCCACAAACGCCGCTAAAGACCAAAACCTTTAGCGGCGCTTTTCCCACA
AACGCCGCTAAAAAACAAGACCTTTAGCGACGCTTTCTCCAAAAATGCTGCTAAAGACAATGAC
Found at i:48623101 original size:68 final size:67
Alignment explanation
Indices: 48622991--48623419 Score: 406
Period size: 68 Copynumber: 6.3 Consensus size: 67
48622981 ATGGAAAGTG
*
48622991 GCACTT-TAACACTTCAATTTACAGCGATAAAACATCTCAATTTGCAGCACTTAAACACTTCAAT
1 GCACTTAT-ACACTTCAA-TTACAGCGATAAAACATCTCAATTTCCAGCAC-TAAACACTTCAAT
48623055 TTGCA
63 TTGCA
* *
48623060 GCACTTATACACCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAGCTAAATACTTCAATTT
1 GCACTTATACACTTCAATTACAGCGATAAAACATCTCAATTTCCAGCA-CTAAACACTTCAATTT
48623125 GCA
65 GCA
* * * * * * *
48623128 GCACTTAAACACTTCAATTTACATC-ATTTAAACA-CTTAAATTTGCAGTACTTAACA-TATCAA
1 GCACTTATACACTTCAA-TTACAGCGA-TAAAACATC-TCAATTTCCAGCACTAAACACT-TCAA
**
48623190 TTAACA
62 TTTGCA
* *
48623196 ACATTTATACA-TCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATT
1 GCACTTATACACT-TCAATTACAGCGATAAAACATCTCAATTTCCAGC-ACTAAACACTTCAATT
48623260 TGCA
64 TGCA
* * * * *
48623264 GCACTTAAACACTTCAATTTACAAC-ATTTAAACA-CTTAAATTTGCAGCACTTAAACA-TATCA
1 GCACTTATACACTTCAA-TTACAGCGA-TAAAACATC-TCAATTTCCAGCAC-TAAACACT-TCA
**
48623326 ATTAACA
61 ATTTGCA
* * * * *
48623333 ACATTTATACACCTCAATTACAACGATAAAACATCTCAATTTCCAGCAACTAAATACTTCAATTT
1 GCACTTATACACTTCAATTACAGCGATAAAACATCTCAATTTCCAGC-ACTAAACACTTCAATTT
*
48623398 GCT
65 GCA
*
48623401 GCACTTAAACACTTCAATT
1 GCACTTATACACTTCAATT
48623420 TGAAGAACTA
Statistics
Matches: 290, Mismatches: 49, Indels: 43
0.76 0.13 0.11
Matches are distributed among these distances:
67 23 0.08
68 173 0.60
69 93 0.32
70 1 0.00
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.31
Consensus pattern (67 bp):
GCACTTATACACTTCAATTACAGCGATAAAACATCTCAATTTCCAGCACTAAACACTTCAATTTG
CA
Found at i:48623385 original size:137 final size:137
Alignment explanation
Indices: 48622991--48623420 Score: 670
Period size: 137 Copynumber: 3.1 Consensus size: 137
48622981 ATGGAAAGTG
* * * *
48622991 GCACTTTAACACTTCAATTTACAGCGA-TAAAACA-TCTCAATTTGCAGCACTTAAACACT-TCA
1 GCACTTAAACACTTCAATTTACAAC-ATTTAAACACT-TAAATTTGCAGCACTTAAACA-TATCA
** * * *
48623053 ATTTGCAGCACTTATACACCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAGCTAAATACT
63 ATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAATACT
48623118 TCAATTTGCA
128 TCAATTTGCA
* *
48623128 GCACTTAAACACTTCAATTTACATCATTTAAACACTTAAATTTGCAGTACTT-AACATATCAATT
1 GCACTTAAACACTTCAATTTACAACATTTAAACACTTAAATTTGCAGCACTTAAACATATCAATT
* *
48623192 AACAACATTTATACATCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCA
66 AACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAATACTTCA
48623257 ATTTGCA
131 ATTTGCA
48623264 GCACTTAAACACTTCAATTTACAACATTTAAACACTTAAATTTGCAGCACTTAAACATATCAATT
1 GCACTTAAACACTTCAATTTACAACATTTAAACACTTAAATTTGCAGCACTTAAACATATCAATT
*
48623329 AACAACATTTATACACCTCAATTACAACGATAAAACATCTCAATTTCCAGCAACTAAATACTTCA
66 AACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAATACTTCA
*
48623394 ATTTGCT
131 ATTTGCA
48623401 GCACTTAAACACTTCAATTT
1 GCACTTAAACACTTCAATTT
48623421 GAAGAACTAT
Statistics
Matches: 271, Mismatches: 18, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
135 1 0.00
136 126 0.46
137 143 0.53
138 1 0.00
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.31
Consensus pattern (137 bp):
GCACTTAAACACTTCAATTTACAACATTTAAACACTTAAATTTGCAGCACTTAAACATATCAATT
AACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAATACTTCA
ATTTGCA
Found at i:48623421 original size:23 final size:23
Alignment explanation
Indices: 48622991--48623420 Score: 275
Period size: 23 Copynumber: 18.9 Consensus size: 23
48622981 ATGGAAAGTG
*
48622991 GCACTTTAACACTTCAATTTACA
1 GCACTTAAACACTTCAATTTACA
* *
48623014 GCGA-TAAAACA-TCTCAATTTGCA
1 GC-ACTTAAACACT-TCAATTTACA
*
48623037 GCACTTAAACACTTCAATTTGCA
1 GCACTTAAACACTTCAATTTACA
* *
48623060 GCACTTATACACCTCAA-TTACA
1 GCACTTAAACACTTCAATTTACA
* *
48623082 GCGA-TAAAACA-TCTCAATTTCCA
1 GC-ACTTAAACACT-TCAATTTACA
* *
48623105 GCAGC-TAAATACTTCAATTTGCA
1 GCA-CTTAAACACTTCAATTTACA
48623128 GCACTTAAACACTTCAATTTACA
1 GCACTTAAACACTTCAATTTACA
* * * *
48623151 TCATTTAAACACTTAAATTTGCA
1 GCACTTAAACACTTCAATTTACA
* *
48623174 GTACTT-AACA-TATCAATTAACA
1 GCACTTAAACACT-TCAATTTACA
* * *
48623196 ACATTTATACA-TCTCAA-TTACA
1 GCACTTAAACACT-TCAATTTACA
* *
48623218 GCGA-TAAAACA-TCTCAATTTCCA
1 GC-ACTTAAACACT-TCAATTTACA
*
48623241 GCAAC-TAAACACTTCAATTTGCA
1 GC-ACTTAAACACTTCAATTTACA
48623264 GCACTTAAACACTTCAATTTACA
1 GCACTTAAACACTTCAATTTACA
* * * *
48623287 ACATTTAAACACTTAAATTTGCA
1 GCACTTAAACACTTCAATTTACA
*
48623310 GCACTTAAACA-TATCAATTAACA
1 GCACTTAAACACT-TCAATTTACA
* * * *
48623333 ACATTTATACACCTCAA-TTACA
1 GCACTTAAACACTTCAATTTACA
* * *
48623355 ACGA-TAAAACA-TCTCAATTTCCA
1 GC-ACTTAAACACT-TCAATTTACA
* * *
48623378 GCAAC-TAAATACTTCAATTTGCT
1 GC-ACTTAAACACTTCAATTTACA
48623401 GCACTTAAACACTTCAATTT
1 GCACTTAAACACTTCAATTT
48623421 GAAGAACTAT
Statistics
Matches: 316, Mismatches: 65, Indels: 52
0.73 0.15 0.12
Matches are distributed among these distances:
21 1 0.00
22 69 0.22
23 241 0.76
24 5 0.02
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.31
Consensus pattern (23 bp):
GCACTTAAACACTTCAATTTACA
Found at i:48626261 original size:26 final size:26
Alignment explanation
Indices: 48626230--48626279 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
48626220 GAATTATTGC
48626230 TTTTTTATAAATTGATTTATTTTTTG
1 TTTTTTATAAATTGATTTATTTTTTG
48626256 TTTTTTATAAATTGATTTATTTTT
1 TTTTTTATAAATTGATTTATTTTT
48626280 GCAGCGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (26 bp):
TTTTTTATAAATTGATTTATTTTTTG
Found at i:48626610 original size:14 final size:14
Alignment explanation
Indices: 48626593--48626634 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
48626583 CCCCTAACAT
48626593 CTAACCCTTAAACC
1 CTAACCCTTAAACC
*
48626607 CTAAACCTTAAATCC
1 CTAACCCTTAAA-CC
48626622 C-AACCCTTAAACC
1 CTAACCCTTAAACC
48626635 ATAATCCCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 2 0.08
14 20 0.80
15 3 0.12
ACGTcount: A:0.38, C:0.40, G:0.00, T:0.21
Consensus pattern (14 bp):
CTAACCCTTAAACC
Found at i:48626626 original size:28 final size:28
Alignment explanation
Indices: 48626595--48626649 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
48626585 CCTAACATCT
* *
48626595 AACCCTTAAACCCTAAACCTTAAATCCC
1 AACCCTTAAACCATAAACCCTAAATCCC
*
48626623 AACCCTTAAACCATAATCCCTAAATCC
1 AACCCTTAAACCATAAACCCTAAATCC
48626650 ATACTCCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.40, C:0.38, G:0.00, T:0.22
Consensus pattern (28 bp):
AACCCTTAAACCATAAACCCTAAATCCC
Found at i:48626640 original size:20 final size:20
Alignment explanation
Indices: 48626603--48626642 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
48626593 CTAACCCTTA
*
48626603 AACCCTAAACCTTAAATCCC
1 AACCCTAAACCATAAATCCC
48626623 AACCCTTAAACCAT-AATCCC
1 AACCC-TAAACCATAAATCCC
48626643 TAAATCCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (20 bp):
AACCCTAAACCATAAATCCC
Found at i:48626651 original size:15 final size:14
Alignment explanation
Indices: 48626629--48626663 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
48626619 TCCCAACCCT
48626629 TAAACCATAATCCC
1 TAAACCATAATCCC
*
48626643 TAAATCCATACTCCC
1 TAAA-CCATAATCCC
48626658 TAAACC
1 TAAACC
48626664 TTAAAATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCATAATCCC
Done.