Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 148 of 211
Found at i:46572786 original size:31 final size:30
Alignment explanation
Indices: 46572751--46572850 Score: 76
Period size: 31 Copynumber: 3.1 Consensus size: 30
46572741 TCTAAAATTA
46572751 AAAATTAAAATA-TATTTAACACTTTATTTCT
1 AAAATTAAAA-ACTATTTAA-ACTTTATTTCT
* * *
46572782 AAAATTAAGATTAAAATTATTTTATACTTTATTTTT
1 AAAATT---A--AAAACTA-TTTAAACTTTATTTCT
*
46572818 AAAACTAAAAACTATTTAAACCTTTATTTCT
1 AAAATTAAAAACTATTTAAA-CTTTATTTCT
46572849 AA
1 AA
46572851 GCTTAACTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
30 5 0.09
31 23 0.42
33 1 0.02
34 1 0.02
35 1 0.02
36 20 0.36
37 4 0.07
ACGTcount: A:0.45, C:0.09, G:0.01, T:0.45
Consensus pattern (30 bp):
AAAATTAAAAACTATTTAAACTTTATTTCT
Found at i:46572811 original size:36 final size:38
Alignment explanation
Indices: 46572736--46572828 Score: 127
Period size: 36 Copynumber: 2.5 Consensus size: 38
46572726 TAAATATATA
46572736 TTATTTCTAAAATTAAAAATTAAAATATATTTAACACT
1 TTATTTCTAAAATTAAAAATTAAAATATATTTAACACT
* * *
46572774 TTATTTCTAAAATT-AAGATTAAAAT-TATTTTATACT
1 TTATTTCTAAAATTAAAAATTAAAATATATTTAACACT
* *
46572810 TTATTTTTAAAACTAAAAA
1 TTATTTCTAAAATTAAAAA
46572829 CTATTTAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
36 21 0.44
37 13 0.27
38 14 0.29
ACGTcount: A:0.47, C:0.06, G:0.01, T:0.45
Consensus pattern (38 bp):
TTATTTCTAAAATTAAAAATTAAAATATATTTAACACT
Found at i:46573060 original size:14 final size:14
Alignment explanation
Indices: 46573041--46573072 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
46573031 AGGTCATTTA
46573041 GCCCAACCAAACTG
1 GCCCAACCAAACTG
46573055 GCCCAACCAAACTG
1 GCCCAACCAAACTG
46573069 GCCC
1 GCCC
46573073 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:46578180 original size:14 final size:14
Alignment explanation
Indices: 46578161--46578192 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
46578151 AGGTCATTTA
46578161 GCCCAACCAAACTG
1 GCCCAACCAAACTG
46578175 GCCCAACCAAACTG
1 GCCCAACCAAACTG
46578189 GCCC
1 GCCC
46578193 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:46582269 original size:3 final size:3
Alignment explanation
Indices: 46582263--46582299 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
46582253 TAGTAGTAGT
*
46582263 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGG AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
46582300 TTGTATTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:46586110 original size:218 final size:218
Alignment explanation
Indices: 46585723--46586168 Score: 714
Period size: 218 Copynumber: 2.0 Consensus size: 218
46585713 CCTATTCATT
*
46585723 TCGTTCATTTTTATTCAAACAGACAATTCATTTCTGGTTTCAACAAGTTAGCGGAGGGACCGATT
1 TCGTTCA-ATTTATTCAAACAGACAATTCATTTCTGGTTTCAACAAGTTAGCGGAGGGACCGATT
46585788 GAACATATGTAGTTGAGGCTCAAATGATTTATAATTAAATTCTGGCTTTTCGCTTATTAATTATA
65 GAACATATGTAGTTGAGGCTCAAATGATTTATAATTAAATTCTGGCTTTTCGCTTATTAATTATA
*
46585853 AACGCATTTAGTCACGAAGTCATTCCACTATAGTATCGTGATTGAGTTCTCCTCAACAACATACC
130 AACGCATTTAGTCACGAAGTCAGTCCACTATAGTATCGTGATTGAGTTCTCCTCAACAACATACC
* *
46585918 ATTACGAAAGCAACTGCTCAATGC
195 ATTACGAAAGCAAATACTCAATGC
* *
46585942 TCGTTCAATTTATTCAAACACG-CAGTTCATTTCTGGTTTCAACGAGTTAGCGGAGGGACCGATT
1 TCGTTCAATTTATTCAAACA-GACAATTCATTTCTGGTTTCAACAAGTTAGCGGAGGGACCGATT
* * * * *
46586006 GGACATATGTAGTTGAGGCTCAAATGATTTATATTTAAGTTTTGGCTTTTCGTTTATTAATTATA
65 GAACATATGTAGTTGAGGCTCAAATGATTTATAATTAAATTCTGGCTTTTCGCTTATTAATTATA
* * *
46586071 AACTCATTTAGTCACGAAGTCAGTCCACTATAGTATCGTGATTGAGTTCTCCTTAACGACATACC
130 AACGCATTTAGTCACGAAGTCAGTCCACTATAGTATCGTGATTGAGTTCTCCTCAACAACATACC
* *
46586136 ATTATGAAAGCAAATACTTAATGC
195 ATTACGAAAGCAAATACTCAATGC
*
46586160 TCGTCCAAT
1 TCGTTCAAT
46586169 GACCTTGTCA
Statistics
Matches: 209, Mismatches: 17, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
218 201 0.96
219 8 0.04
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (218 bp):
TCGTTCAATTTATTCAAACAGACAATTCATTTCTGGTTTCAACAAGTTAGCGGAGGGACCGATTG
AACATATGTAGTTGAGGCTCAAATGATTTATAATTAAATTCTGGCTTTTCGCTTATTAATTATAA
ACGCATTTAGTCACGAAGTCAGTCCACTATAGTATCGTGATTGAGTTCTCCTCAACAACATACCA
TTACGAAAGCAAATACTCAATGC
Found at i:46593302 original size:15 final size:16
Alignment explanation
Indices: 46593276--46593305 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
46593266 AGCCCCATTC
46593276 TTTCTATTTTTTTCTT
1 TTTCTATTTTTTTCTT
46593292 TTTCT-TTTTTTTCT
1 TTTCTATTTTTTTCT
46593306 GCAACTGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTCTATTTTTTTCTT
Found at i:46598468 original size:5 final size:5
Alignment explanation
Indices: 46598458--46598502 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
46598448 AATAAGGAAA
** * *
46598458 GATAT GATAT GATAT GATAT GATAT GGCAT GACAT GATAA GATAT
1 GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT
46598503 TATGCTAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.33
Consensus pattern (5 bp):
GATAT
Found at i:46612272 original size:21 final size:21
Alignment explanation
Indices: 46612246--46612297 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
46612236 GTGGTGGTGG
* *
46612246 TGAGATTAGTTACTGTAACAA
1 TGAGATTAGATACTATAACAA
*
46612267 TGAGATTAGATACTATATCAA
1 TGAGATTAGATACTATAACAA
46612288 TGAGATTAGA
1 TGAGATTAGA
46612298 AATAGCGGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (21 bp):
TGAGATTAGATACTATAACAA
Found at i:46619027 original size:3 final size:3
Alignment explanation
Indices: 46619001--46619058 Score: 62
Period size: 3 Copynumber: 18.7 Consensus size: 3
46618991 TATACATAAA
* * * *
46619001 TAT TAT ATAT AAT TAT TAT AAT TAT TAAC CAT TAT TAT TAT TAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
46619048 TAT TAT TAT TA
1 TAT TAT TAT TA
46619059 AATAAAGTAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
3 41 0.91
4 4 0.09
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:46619609 original size:12 final size:12
Alignment explanation
Indices: 46619592--46619622 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
46619582 GAAGTAGGGG
*
46619592 AGAAAAAGTGAA
1 AGAAAAAGGGAA
46619604 AGAAAAAGGGAA
1 AGAAAAAGGGAA
46619616 AGAAAAA
1 AGAAAAA
46619623 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (12 bp):
AGAAAAAGGGAA
Found at i:46620371 original size:37 final size:37
Alignment explanation
Indices: 46620303--46620392 Score: 103
Period size: 37 Copynumber: 2.4 Consensus size: 37
46620293 ATGTGTGGAA
* *
46620303 TTGAATCTAATAT-TGACTTGAAAATGGAAAAGTGAATT
1 TTGAATCGAAT-TGTGACTTGAAAATGAAAAAGTGAA-T
*
46620341 TTGAATCGAATTGTGA-TTGAAAGTGAAAAAGTGAAT
1 TTGAATCGAATTGTGACTTGAAAATGAAAAAGTGAAT
* *
46620377 TTGAATTGAAATGTGA
1 TTGAATCGAATTGTGA
46620393 ATTTGGAGTC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
36 15 0.33
37 18 0.39
38 13 0.28
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.33
Consensus pattern (37 bp):
TTGAATCGAATTGTGACTTGAAAATGAAAAAGTGAAT
Found at i:46623228 original size:24 final size:25
Alignment explanation
Indices: 46623196--46623242 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
46623186 CTATGGTTAA
46623196 ATGACTAATTTGTCTGTG-TTTGGT
1 ATGACTAATTTGTCTGTGATTTGGT
*
46623220 ATGATTAATTTGTCTGTGATTTG
1 ATGACTAATTTGTCTGTGATTTG
46623243 AATGACTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.19, C:0.06, G:0.23, T:0.51
Consensus pattern (25 bp):
ATGACTAATTTGTCTGTGATTTGGT
Found at i:46623247 original size:24 final size:24
Alignment explanation
Indices: 46623195--46623249 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
46623185 TCTATGGTTA
46623195 AATGACTAATTTGTCTGTGTTTGG
1 AATGACTAATTTGTCTGTGTTTGG
* *
46623219 TATGATTAATTTGTCTGTGATTT-G
1 AATGACTAATTTGTCTGTG-TTTGG
46623243 AATGACT
1 AATGACT
46623250 GATTCTAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.24, C:0.07, G:0.22, T:0.47
Consensus pattern (24 bp):
AATGACTAATTTGTCTGTGTTTGG
Found at i:46623494 original size:32 final size:32
Alignment explanation
Indices: 46623440--46623629 Score: 136
Period size: 32 Copynumber: 5.9 Consensus size: 32
46623430 ATGGCTGCCA
* * *
46623440 ATCATAGTACCATTATTGATGGCTTTGTGCAG
1 ATCATATTACCGTTACTGATGGCTTTGTGCAG
* *
46623472 ATCATATTACCGTTACCT-ATGGCTGTGTGCTG
1 ATCATATTACCGTTA-CTGATGGCTTTGTGCAG
* * *
46623504 ATCAT-TTCACTGTTACTGATAG-TTGTGTGCCG
1 ATCATATT-ACCGTTACTGATGGCTT-TGTGCAG
* * * * *
46623536 ATCATATCACTGCTACTAATGGCTTTGTGCCG
1 ATCATATTACCGTTACTGATGGCTTTGTGCAG
* * *
46623568 GTCATGTTACCGTTACTGATGGCTGTGTGTCAG
1 ATCATATTACCGTTACTGATGGCTTTGTG-CAG
* * * *
46623601 -TCATATCACTGCTACTGATAGCTTTGTGC
1 ATCATATTACCGTTACTGATGGCTTTGTGC
46623630 CAATCACATT
Statistics
Matches: 124, Mismatches: 27, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
31 6 0.05
32 112 0.90
33 6 0.05
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (32 bp):
ATCATATTACCGTTACTGATGGCTTTGTGCAG
Found at i:46623558 original size:64 final size:64
Alignment explanation
Indices: 46623490--46623635 Score: 161
Period size: 64 Copynumber: 2.3 Consensus size: 64
46623480 ACCGTTACCT
* * *
46623490 ATGGCTGTGTGCTGATCAT-TTCACTGTTACTGATAGTTGTGTGCC-GATCATATCACTGCTACT
1 ATGGCTGTGTGCCGATCATGTT-ACCGTTACTGATAGCTGTGTGCCAG-TCATATCACTGCTACT
46623553 A
64 A
* * * * *
46623554 ATGGCTTTGTGCCGGTCATGTTACCGTTACTGATGGCTGTGTGTCAGTCATATCACTGCTACTG
1 ATGGCTGTGTGCCGATCATGTTACCGTTACTGATAGCTGTGTGCCAGTCATATCACTGCTACTA
* * *
46623618 ATAGCTTTGTGCCAATCA
1 ATGGCTGTGTGCCGATCA
46623636 CATTATTATA
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
64 66 0.96
65 3 0.04
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.36
Consensus pattern (64 bp):
ATGGCTGTGTGCCGATCATGTTACCGTTACTGATAGCTGTGTGCCAGTCATATCACTGCTACTA
Found at i:46623610 original size:96 final size:96
Alignment explanation
Indices: 46623458--46623635 Score: 245
Period size: 96 Copynumber: 1.9 Consensus size: 96
46623448 ACCATTATTG
* * *
46623458 ATGGCTTTGTGCAGATCATATTACCGTTACCTATGGCTGTGTGCTGATCATTTCACTGTTACTGA
1 ATGGCTTTGTGCAGATCATATTACCGTTACCTATGGCTGTGTGCAGATCATATCACTGCTACTGA
*
46623523 TAG-TTGTGTGCCGATCATATCACTGCTACTA
66 TAGCTT-TGTGCCAATCATATCACTGCTACTA
* * *
46623554 ATGGCTTTGTGCCGGTCATGTTACCGTTA-CTGATGGCTGTGTGTCAG-TCATATCACTGCTACT
1 ATGGCTTTGTGCAGATCATATTACCGTTACCT-ATGGCTGTGTG-CAGATCATATCACTGCTACT
46623617 GATAGCTTTGTGCCAATCA
64 GATAGCTTTGTGCCAATCA
46623636 CATTATTATA
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
95 2 0.03
96 66 0.92
97 4 0.06
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (96 bp):
ATGGCTTTGTGCAGATCATATTACCGTTACCTATGGCTGTGTGCAGATCATATCACTGCTACTGA
TAGCTTTGTGCCAATCATATCACTGCTACTA
Found at i:46623917 original size:28 final size:28
Alignment explanation
Indices: 46623873--46623926 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
46623863 CATATTAATA
*
46623873 CTGTATCGGGCTTAGGCCCACATTGTTT
1 CTGTATCGGGCTAAGGCCCACATTGTTT
*
46623901 CTGTATTGGGCTAAGGCCCACATTGT
1 CTGTATCGGGCTAAGGCCCACATTGT
46623927 ACTATTACTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.17, C:0.24, G:0.26, T:0.33
Consensus pattern (28 bp):
CTGTATCGGGCTAAGGCCCACATTGTTT
Found at i:46625060 original size:266 final size:272
Alignment explanation
Indices: 46624549--46625070 Score: 646
Period size: 273 Copynumber: 1.9 Consensus size: 272
46624539 ATTTTGGATT
* * * * * *
46624549 GTTATGGAATTTTTAATTTGTTTGGAATTCTTGCCTTTAAAGTGTTAGATATATTTAAATTGTTT
1 GTTATGAAATTTTTAATTTATTCGGAATTCTTACCTTTAAAGTATTAGATATATTTAAATTGTTG
* * * * * * *
46624614 TGAGATTGTTATGTTTAATTTATTTGTATTGTTATTTAATTCCTTTTGTTAATTTACATTTATTT
66 TGAAATTATTATGTTCAACTTATTTGGATTATTATTTAATTACTTTTGTTAATTTACATTTATTT
* * * * * *
46624679 ATTGTTATTTATGAATAATTTTTATTTAAAATTAATTTTTTTGGCTTGATTTTATATTATTTTGC
131 ATTATTAATTATAAATAAATTTTATTTAAAATT-ATTTTTTTGGCTTGATTCTATATTATTTTAC
* * * *
46624744 ATATTTGGATTTGAATTTTTGCAGCTCCAGATATCCGACATATAATTGAAAATGTTAAATTTGGA
195 AGATTTGGATTCGAATTTTTGCAACTCCAGATATCCGACATATAATTGAAAATGTGAAATTTGGA
46624809 TTTTTTGCAAATA
260 TTTTTTGCAAATA
** *
46624822 GTTATGAAATTTTTAATTTATTCGGAATTCTTATGTTT-AAGTTATTAGGTATATTTAAATTGTT
1 GTTATGAAATTTTTAATTTATTCGGAATTCTTACCTTTAAAG-TATTAGATATATTTAAATTGTT
* * *
46624886 GTGAAATTATTATGTTCAACTTGTTTGGCTTATTATTTAATTACTTTT-TT-ATTTTCATTTATT
65 GTGAAATTATTATGTTCAACTTATTTGGATTATTATTTAATTACTTTTGTTAATTTACATTTATT
*
46624949 TATTATTAATTATAAATAAATTTTATTT-AAA-T-TTTTTTT-GTTTGATTCTATATTATTTTAC
130 TATTATTAATTATAAATAAATTTTATTTAAAATTATTTTTTTGGCTTGATTCTATATTATTTTAC
* * * * *
46625010 GGATTTGGATTCGGATTTTTGCAACTTC-GAATTTCCGACATATGATTGAAAATGTGAAATT
195 AGATTTGGATTCGAATTTTTGCAACTCCAG-ATATCCGACATATAATTGAAAATGTGAAATT
46625071 CAAATTTTTT
Statistics
Matches: 212, Mismatches: 35, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
265 1 0.00
266 69 0.33
267 7 0.03
269 1 0.00
270 3 0.01
271 36 0.17
272 5 0.02
273 90 0.42
ACGTcount: A:0.28, C:0.06, G:0.13, T:0.53
Consensus pattern (272 bp):
GTTATGAAATTTTTAATTTATTCGGAATTCTTACCTTTAAAGTATTAGATATATTTAAATTGTTG
TGAAATTATTATGTTCAACTTATTTGGATTATTATTTAATTACTTTTGTTAATTTACATTTATTT
ATTATTAATTATAAATAAATTTTATTTAAAATTATTTTTTTGGCTTGATTCTATATTATTTTACA
GATTTGGATTCGAATTTTTGCAACTCCAGATATCCGACATATAATTGAAAATGTGAAATTTGGAT
TTTTTGCAAATA
Found at i:46625182 original size:14 final size:15
Alignment explanation
Indices: 46625163--46625199 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
46625153 TGTTTCACTA
46625163 AAAATGACTTTC-AG
1 AAAATGACTTTCTAG
46625177 AAAATGA-TTTCTAG
1 AAAATGACTTTCTAG
46625191 AAAA-GACTT
1 AAAATGACTT
46625200 ACTTTCTGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 6 0.29
14 15 0.71
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.30
Consensus pattern (15 bp):
AAAATGACTTTCTAG
Found at i:46625495 original size:14 final size:14
Alignment explanation
Indices: 46625476--46625514 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
46625466 TTATTTCATT
*
46625476 GAAAATGACTTCTG
1 GAAAATGACTTCTA
* *
46625490 GAAAATTATTTCTA
1 GAAAATGACTTCTA
46625504 GAAAATGACTT
1 GAAAATGACTT
46625515 ACTTTTCTAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.33
Consensus pattern (14 bp):
GAAAATGACTTCTA
Found at i:46625900 original size:29 final size:29
Alignment explanation
Indices: 46625867--46625950 Score: 105
Period size: 33 Copynumber: 2.8 Consensus size: 29
46625857 TTAAAATTTG
*
46625867 AAAAGTACAGGGACTAAATTCTTGAAAAT
1 AAAAGTACAGGGACTAAATTCTTAAAAAT
*
46625896 AAAAGTACAAGGACTAACTAAATTCTTAAAAAT
1 AAAAGTAC-AGG---GACTAAATTCTTAAAAAT
*
46625929 AAAAGTATAGGGACTAAATTCT
1 AAAAGTACAGGGACTAAATTCT
46625951 AAATTTGTGA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
29 18 0.38
30 3 0.06
32 3 0.06
33 23 0.49
ACGTcount: A:0.50, C:0.11, G:0.14, T:0.25
Consensus pattern (29 bp):
AAAAGTACAGGGACTAAATTCTTAAAAAT
Found at i:46625921 original size:33 final size:33
Alignment explanation
Indices: 46625879--46625945 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
46625869 AAGTACAGGG
*
46625879 ACTAAATTCTTGAAAATAAAAGTACAAGGACTA
1 ACTAAATTCTTAAAAATAAAAGTACAAGGACTA
* *
46625912 ACTAAATTCTTAAAAATAAAAGTATAGGGACTA
1 ACTAAATTCTTAAAAATAAAAGTACAAGGACTA
46625945 A
1 A
46625946 ATTCTAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.52, C:0.10, G:0.12, T:0.25
Consensus pattern (33 bp):
ACTAAATTCTTAAAAATAAAAGTACAAGGACTA
Found at i:46629947 original size:12 final size:12
Alignment explanation
Indices: 46629930--46629954 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46629920 CTTGAAATGC
46629930 CTTCTCTTCACT
1 CTTCTCTTCACT
46629942 CTTCTCTTCACT
1 CTTCTCTTCACT
46629954 C
1 C
46629955 CTTTCTGCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.44, G:0.00, T:0.48
Consensus pattern (12 bp):
CTTCTCTTCACT
Found at i:46631858 original size:24 final size:23
Alignment explanation
Indices: 46631829--46631876 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
46631819 ATAAGTAACA
46631829 TATAAAAACATAATAAAATATTTT
1 TATAAAAACA-AATAAAATATTTT
** *
46631853 TATAAAATTAAATATAATATTTT
1 TATAAAAACAAATAAAATATTTT
46631876 T
1 T
46631877 TATTTAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
TATAAAAACAAATAAAATATTTT
Found at i:46632045 original size:20 final size:20
Alignment explanation
Indices: 46632008--46632046 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
46631998 TAAATTTAAA
* * *
46632008 AATTAAATTAATACTTATAT
1 AATTAAAATAAAAATTATAT
46632028 AATTAAAATAAAAATTATA
1 AATTAAAATAAAAATTATA
46632047 ATATGAATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTAAAATAAAAATTATAT
Found at i:46634462 original size:19 final size:20
Alignment explanation
Indices: 46634427--46634468 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
46634417 TAATATTCTC
*
46634427 ATTAAAAATCATGAAAAT-T
1 ATTAAAAATAATGAAAATAT
46634446 ATTAAAAATAAAT-AAAATAT
1 ATTAAAAAT-AATGAAAATAT
46634466 ATT
1 ATT
46634469 TAAGATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
ATTAAAAATAATGAAAATAT
Found at i:46634511 original size:8 final size:9
Alignment explanation
Indices: 46634489--46634543 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
46634479 TATAATTAAT
46634489 TAAAAATTG
1 TAAAAATTG
46634498 TAAAAATTG
1 TAAAAATTG
**
46634507 TAAAAATCA
1 TAAAAATTG
*
46634516 TAAAAACTTA
1 TAAAAA-TTG
*
46634526 TAAAAATTCA
1 TAAAAATT-G
46634536 TAAAAATT
1 TAAAAATT
46634544 TATAACTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
9 24 0.59
10 17 0.41
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (9 bp):
TAAAAATTG
Found at i:46634536 original size:20 final size:19
Alignment explanation
Indices: 46634489--46634571 Score: 75
Period size: 18 Copynumber: 4.4 Consensus size: 19
46634479 TATAATTAAT
* *
46634489 TAAAAATT-GTAAAAATTG
1 TAAAAATTCATAAAAATTA
46634507 TAAAAA-TCATAAAAACTTA
1 TAAAAATTCATAAAAA-TTA
46634526 TAAAAATTCATAAAAATTTA
1 TAAAAATTCATAAAAA-TTA
*
46634546 TAACTAA-T-ATAAAAATTA
1 TAA-AAATTCATAAAAATTA
*
46634564 TTAAAATT
1 TAAAAATT
46634572 TTATAGAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
17 3 0.06
18 18 0.33
19 15 0.28
20 16 0.30
21 2 0.04
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (19 bp):
TAAAAATTCATAAAAATTA
Found at i:46636441 original size:19 final size:20
Alignment explanation
Indices: 46636417--46636465 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
46636407 ACGCAACTTA
* *
46636417 TTATAAATTTTTTA-AAGTT
1 TTATAAATTATTGATAAGTT
46636436 TTAT-AATTATTGATAAGTT
1 TTATAAATTATTGATAAGTT
*
46636455 TTATAATTTAT
1 TTATAAATTAT
46636466 ATGTTTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 7 0.28
19 13 0.52
20 5 0.20
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (20 bp):
TTATAAATTATTGATAAGTT
Found at i:46636484 original size:19 final size:19
Alignment explanation
Indices: 46636434--46636494 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
46636424 TTTTTTAAAG
* *
46636434 TTTTATAATTATTGATAAG-
1 TTTTATAA-TATTTATATGT
46636453 TTTTAT-A-ATTTATATGT
1 TTTTATAATATTTATATGT
*
46636470 TTTTATAATATTTATTTGT
1 TTTTATAATATTTATATGT
46636489 TTTTAT
1 TTTTAT
46636495 GCTTTTTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
16 7 0.19
17 6 0.17
18 2 0.06
19 21 0.58
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.64
Consensus pattern (19 bp):
TTTTATAATATTTATATGT
Found at i:46644125 original size:19 final size:19
Alignment explanation
Indices: 46644096--46644140 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
46644086 AAATGTACTA
46644096 ATTAA-TTTTTTGGACCAC
1 ATTAATTTTTTTGGACCAC
46644114 ATTAATTTTTTTGGACCAC
1 ATTAATTTTTTTGGACCAC
46644133 ATTAATTT
1 ATTAATTT
46644141 AAGATCTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 5 0.19
19 21 0.81
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.49
Consensus pattern (19 bp):
ATTAATTTTTTTGGACCAC
Found at i:46648430 original size:48 final size:48
Alignment explanation
Indices: 46648374--46648471 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
46648364 AAATCGCAGC
46648374 CCAATACGTTAGGGCACAATTTCTCAAAATTCTAAACATTGAATATTA
1 CCAATACGTTAGGGCACAATTTCTCAAAATTCTAAACATTGAATATTA
*
46648422 CCAATACGTTAGGGTACAATTTCTCAAAATTCTAAACATTGAATATTA
1 CCAATACGTTAGGGCACAATTTCTCAAAATTCTAAACATTGAATATTA
46648470 CC
1 CC
46648472 TTTATTATTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (48 bp):
CCAATACGTTAGGGCACAATTTCTCAAAATTCTAAACATTGAATATTA
Found at i:46649158 original size:36 final size:37
Alignment explanation
Indices: 46649118--46649193 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 37
46649108 TGAAACATAG
* *
46649118 AAAATATATAAAA-GTATGTGTATATATATAT-TTATA
1 AAAAT-TAAAAAATGTATATGTATATATATATATTATA
* *
46649154 AAAATTAAAAAATGTGTATGTATATGTATATATTATA
1 AAAATTAAAAAATGTATATGTATATATATATATTATA
46649191 AAA
1 AAA
46649194 CGTATATATG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
35 6 0.18
36 20 0.59
37 8 0.24
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.39
Consensus pattern (37 bp):
AAAATTAAAAAATGTATATGTATATATATATATTATA
Found at i:46649755 original size:23 final size:22
Alignment explanation
Indices: 46649725--46649791 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
46649715 AAATTAAATC
*
46649725 TCTAAGATTATAAAATCATATCT
1 TCTAAGATT-GAAAATCATATCT
* *
46649748 TCTAAGATTGCATATCATATCT
1 TCTAAGATTGAAAATCATATCT
* * *
46649770 TTTAAGATTGCATATCATATCT
1 TCTAAGATTGAAAATCATATCT
46649792 AAGATTGCAT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
22 31 0.77
23 9 0.22
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.42
Consensus pattern (22 bp):
TCTAAGATTGAAAATCATATCT
Found at i:46649764 original size:22 final size:22
Alignment explanation
Indices: 46649739--46649804 Score: 102
Period size: 22 Copynumber: 3.1 Consensus size: 22
46649729 AGATTATAAA
46649739 ATCATATCTTCTAAGATTGCAT
1 ATCATATCTTCTAAGATTGCAT
*
46649761 ATCATATCTTTTAAGATTGCAT
1 ATCATATCTTCTAAGATTGCAT
46649783 ATCATA---TCTAAGATTGCAT
1 ATCATATCTTCTAAGATTGCAT
46649802 ATC
1 ATC
46649805 CTTGAAGATT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
19 15 0.36
22 27 0.64
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (22 bp):
ATCATATCTTCTAAGATTGCAT
Found at i:46649814 original size:17 final size:17
Alignment explanation
Indices: 46649763--46649814 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
46649753 GATTGCATAT
*
46649763 CATATCTTTTAAGATTG
1 CATATCATTTAAGATTG
46649780 CATATCATATCTAAGATTG
1 CATATCAT-T-TAAGATTG
* *
46649799 CATATCCTTGAAGATT
1 CATATCATTTAAGATT
46649815 ATGTTTCCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 13 0.43
18 2 0.07
19 15 0.50
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (17 bp):
CATATCATTTAAGATTG
Found at i:46651059 original size:33 final size:33
Alignment explanation
Indices: 46650983--46651095 Score: 86
Period size: 33 Copynumber: 3.4 Consensus size: 33
46650973 CATAGTCCAA
* * * *
46650983 CTATGGTCTTACATAT-ACATTGCCATGACCCTG
1 CTATGGTCTTACAT-TCAAAATGCCATAACCCAG
* * ***
46651016 CCATGATCTTACATTCATTGTGCCATAACCCAG
1 CTATGGTCTTACATTCAAAATGCCATAACCCAG
* * *
46651049 TTATGGTCTTATCA-TCAAAATGTCATAGCCCAG
1 CTATGGTCTTA-CATTCAAAATGCCATAACCCAG
46651082 CTATGGTCTTACAT
1 CTATGGTCTTACAT
46651096 ATAAACACTG
Statistics
Matches: 61, Mismatches: 16, Indels: 6
0.73 0.19 0.07
Matches are distributed among these distances:
32 3 0.05
33 56 0.92
34 2 0.03
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.34
Consensus pattern (33 bp):
CTATGGTCTTACATTCAAAATGCCATAACCCAG
Found at i:46651160 original size:101 final size:100
Alignment explanation
Indices: 46650970--46651231 Score: 339
Period size: 101 Copynumber: 2.6 Consensus size: 100
46650960 GTTTCTTTTG
* * * ** ** * *
46650970 TGTCATAGTCCAACTATGGTCTTACATAT--ACATTGCCATGACCCTGCCATGATCTTACATTCA
1 TGTCATAGCCCAGCTATGGTCTTACATATAAACACTGCCATGGTCCAACCATG-TCTTACGTCCA
* *
46651033 TTGTGCCATAACCCAGTTATGGTCTTATCATCAAAA
65 TAGTGCCATAACCCAGTTATGATCTTATCATCAAAA
*
46651069 TGTCATAGCCCAGCTATGGTCTTACATATAAACACTGCCATGGTCCAACCATAGTCCTACGTCCA
1 TGTCATAGCCCAGCTATGGTCTTACATATAAACACTGCCATGGTCCAACCAT-GTCTTACGTCCA
* *
46651134 TAGTGTCATAACCCAGTTATGATCTTATCATCAGAA
65 TAGTGCCATAACCCAGTTATGATCTTATCATCAAAA
* *
46651170 TGCCATAGCTCAGCTATGGTCTTACATATAAACACTGCCATGGTCCAACCATGGTCTTACGT
1 TGTCATAGCCCAGCTATGGTCTTACATATAAACACTGCCATGGTCCAACCAT-GTCTTACGT
46651232 TTGAATAATT
Statistics
Matches: 142, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
99 27 0.19
101 114 0.80
102 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (100 bp):
TGTCATAGCCCAGCTATGGTCTTACATATAAACACTGCCATGGTCCAACCATGTCTTACGTCCAT
AGTGCCATAACCCAGTTATGATCTTATCATCAAAA
Found at i:46653093 original size:111 final size:111
Alignment explanation
Indices: 46652894--46653109 Score: 342
Period size: 111 Copynumber: 1.9 Consensus size: 111
46652884 ATCCCGAAAG
* * *
46652894 CTTTATAACCAATACTTCTCCCTAACAGTCTAAATATCATTACATTCTCCATACTCTTGTCAATC
1 CTTTATAACCAATACTTCTCCCTAACAGTCTAAATACCACTACATTCCCCATACTCTTGTCAATC
*
46652959 AAACTGTGAACTCTATCAAGAAACCTAATCTCGAGATATGGGACAA
66 AAACTATGAACTCTATCAAGAAACCTAATCTCGAGATATGGGACAA
* *
46653005 CTTTATAACCGATACTTCTCCTTAACAGTCTAAATACCACTACATTCCCCATACTCTTGTCAATC
1 CTTTATAACCAATACTTCTCCCTAACAGTCTAAATACCACTACATTCCCCATACTCTTGTCAATC
* * * *
46653070 AACCTATGAACTCTCTTAGGAAACCTAATCTCGAGATATG
66 AAACTATGAACTCTATCAAGAAACCTAATCTCGAGATATG
46653110 AGCCCTCTTT
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
111 95 1.00
ACGTcount: A:0.33, C:0.27, G:0.09, T:0.31
Consensus pattern (111 bp):
CTTTATAACCAATACTTCTCCCTAACAGTCTAAATACCACTACATTCCCCATACTCTTGTCAATC
AAACTATGAACTCTATCAAGAAACCTAATCTCGAGATATGGGACAA
Found at i:46655804 original size:5 final size:5
Alignment explanation
Indices: 46655796--46655853 Score: 53
Period size: 5 Copynumber: 10.8 Consensus size: 5
46655786 ATATACTAAA
* * *
46655796 ATATG ATATG ATATGAG ATATG ACATA ATATG ATATG AAATCTG ATATG
1 ATATG ATATG ATAT--G ATATG ATATG ATATG ATATG --ATATG ATATG
46655845 ATATG ATAT
1 ATATG ATAT
46655854 TTTATAAGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
5 34 0.79
7 9 0.21
ACGTcount: A:0.43, C:0.03, G:0.17, T:0.36
Consensus pattern (5 bp):
ATATG
Found at i:46655829 original size:22 final size:22
Alignment explanation
Indices: 46655801--46655853 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
46655791 CTAAAATATG
*
46655801 ATATGATATGAGATATGACATA
1 ATATGATATGAAATATGACATA
* * *
46655823 ATATGATATGAAATCTGATATG
1 ATATGATATGAAATATGACATA
46655845 ATATGATAT
1 ATATGATAT
46655854 TTTATAAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.43, C:0.04, G:0.17, T:0.36
Consensus pattern (22 bp):
ATATGATATGAAATATGACATA
Found at i:46659225 original size:9 final size:9
Alignment explanation
Indices: 46659207--46659236 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
46659197 AGTTTGGTCA
*
46659207 TTTTTAAAT
1 TTTTTGAAT
46659216 TTTTTGAAT
1 TTTTTGAAT
46659225 TTTTTGAAT
1 TTTTTGAAT
46659234 TTT
1 TTT
46659237 AAAATTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (9 bp):
TTTTTGAAT
Found at i:46660195 original size:34 final size:34
Alignment explanation
Indices: 46660147--46660229 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 34
46660137 CAAATGTCAT
*
46660147 ATCAAAATGTCATATTACCAGAAA-CATATATCAG
1 ATCAAAATGTCATATTACCA-AAAGCATATATCAA
* ** *
46660181 ATCAGAATGTCATATTTTCAAAAGCATATGTCAA
1 ATCAAAATGTCATATTACCAAAAGCATATATCAA
46660215 ATCAAAATGTCATAT
1 ATCAAAATGTCATAT
46660230 CAGATCAGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
33 3 0.07
34 39 0.93
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.30
Consensus pattern (34 bp):
ATCAAAATGTCATATTACCAAAAGCATATATCAA
Found at i:46662173 original size:5 final size:5
Alignment explanation
Indices: 46662163--46662187 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
46662153 TTTGGCCCAA
46662163 GCCCG GCCCG GCCCG GCCCG GCCCG
1 GCCCG GCCCG GCCCG GCCCG GCCCG
46662188 AATATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.60, G:0.40, T:0.00
Consensus pattern (5 bp):
GCCCG
Found at i:46670113 original size:2 final size:2
Alignment explanation
Indices: 46670106--46670130 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
46670096 AAAGAAAAAT
46670106 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
46670131 TTGAGGAGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:46672600 original size:23 final size:21
Alignment explanation
Indices: 46672566--46672621 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 21
46672556 ACTCTAGAAT
46672566 TTTTCTCTTCTTCTCCTCCTCTTC
1 TTTT-TCTTCTTCT--TCCTCTTC
46672590 TTTTTCTTCTTCTTCCTCTTC
1 TTTTTCTTCTTCTTCCTCTTC
46672611 TCTTTT-TTCTT
1 T-TTTTCTTCTT
46672622 TTACTGCCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
21 14 0.45
22 4 0.13
23 9 0.29
24 4 0.13
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTTCTTCTTCTTCCTCTTC
Found at i:46672613 original size:26 final size:24
Alignment explanation
Indices: 46672565--46672620 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
46672555 CACTCTAGAA
46672565 TTTTTCTCTTCTTCTCCTCCTCTT
1 TTTTTCTCTTCTTCTCCTCCTCTT
* *
46672589 CTTTT-TCTTCTTCTTCCTCTTCTCT
1 TTTTTCTCTTCTTC-TCCTCCTCT-T
46672614 TTTTTCT
1 TTTTTCT
46672621 TTTACTGCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 8 0.31
24 12 0.46
25 5 0.19
26 1 0.04
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTTTCTCTTCTTCTCCTCCTCTT
Found at i:46674656 original size:50 final size:50
Alignment explanation
Indices: 46674577--46674817 Score: 306
Period size: 50 Copynumber: 4.8 Consensus size: 50
46674567 TTTTTTGTAC
* * * * ** *
46674577 TGCCAATGCCATATCCTAGATATGTTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* ** *
46674627 TGCCTATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCTG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
** * *
46674677 TGCCAGCGCCATGTCCCAAACATGGTCTTACATGGGACCTCTTATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
46674727 TGCCAACT-CCATGTCCCAAACATGGTCTTACATGGGACCTCTTATCTCGG
1 TGCCAA-TGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
46674777 TGCCAATGCCATGTCCCAGACAT-GTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
46674818 TTACCCAAAT
Statistics
Matches: 167, Mismatches: 22, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
49 19 0.11
50 148 0.89
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:46679244 original size:17 final size:17
Alignment explanation
Indices: 46679213--46679255 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
46679203 ATGAATATTT
46679213 TATATTTT-GATTTAAA
1 TATATTTTAGATTTAAA
*
46679229 TATATTTTATATTTAAA
1 TATATTTTAGATTTAAA
*
46679246 AATTATTTTA
1 TA-TATTTTA
46679256 ATAGTATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 8 0.35
17 8 0.35
18 7 0.30
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (17 bp):
TATATTTTAGATTTAAA
Found at i:46679254 original size:18 final size:17
Alignment explanation
Indices: 46679222--46679255 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
46679212 TTATATTTTG
*
46679222 ATTTAAATATATTTTAT
1 ATTTAAAAATATTTTAT
46679239 ATTTAAAAATTATTTTA
1 ATTTAAAAA-TATTTTA
46679256 ATAGTATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTAAAAATATTTTAT
Found at i:46690490 original size:13 final size:13
Alignment explanation
Indices: 46690474--46690498 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46690464 AATTATAAAT
46690474 GTAAATAAAATAA
1 GTAAATAAAATAA
46690487 GTAAATAAAATA
1 GTAAATAAAATA
46690499 CCAAAATGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
GTAAATAAAATAA
Found at i:46690712 original size:348 final size:345
Alignment explanation
Indices: 46690335--46691027 Score: 1093
Period size: 348 Copynumber: 2.0 Consensus size: 345
46690325 TCAATTGGAA
* *
46690335 TTAAAATGAAATTAAGGGCATAAATTGTAAAAATAAGTAAATACTTAAATACTTAAATAAATAAA
1 TTAAAATGAAATTAAGGGCATAAATTGTAAAAATAAGTAAATACATAAATACGTAAATAAATAAA
* * **
46690400 ATGAGAATTATAAAAGATTGAAATTAAATAAATCGAGGGCTAAATCGGAATTAGAATG-AATTAA
66 ATGAGAATTATAAAAGATTAAAATTAAATAAACCGAGGGCTAAATCAAAATTAGAATGAAATTAA
** *
46690464 AATTATAAATGTAAATAAAATAAGTAAATAAAATACCAAAATGAAAATGCAAAAATATTAAAAAT
131 AATTATAAATGTAAATAAAATAAGTAAATAAAATACCAAAACAAAAATGCAAAAAAATT-AAAA-
*
46690529 AAAAAAAAAGAAAAAAGGACTAAATTGTTAAAGGATCGAAATAAAAAAATAAACTTTAATGGATA
194 AAAAAAAAAGAAAAAAGGACTAAATGGTTAAAGGATCGAAATAAAAAAATAAACTTTAATGGATA
* * *
46690594 AATTTAAAAAAAAAGAAAAAGAAAAAGACTTG-CTTTAGGACCAAAATAAAACACGCATAAAGGA
259 AATTT--AAAAAAAGAAAAAGAAAAAGAC-TGACATTAAGACCAAAATAAAACACACATAAAGGA
46690658 GGAGGGACTAACTGGGAAATTATTC
321 GGAGGGACTAACTGGGAAATTATTC
* *
46690683 TTAAAATGAAATTAAGGGCATAAATTGTAAAAATAAGTAAATAGATAATTACGTAAATAAATAAA
1 TTAAAATGAAATTAAGGGCATAAATTGTAAAAATAAGTAAATACATAAATACGTAAATAAATAAA
46690748 ATGAGAATTATAAAAGATTAAAATTAAATAAACCGAGGGCTAAATCAAAATTAGAATGAAATTAA
66 ATGAGAATTATAAAAGATTAAAATTAAATAAACCGAGGGCTAAATCAAAATTAGAATGAAATTAA
* * *
46690813 AATTATAAATGTAAATAAAATAAGTAAATAAAATGCTAAAACAAAAATGCAAAAAAATTAAAAAG
131 AATTATAAATGTAAATAAAATAAGTAAATAAAATACCAAAACAAAAATGCAAAAAAATTAAAAAA
*
46690878 AAAAAAAGAAAAAAGGACTCAATGGTTAAAGGATCGAAATAAAAAAATAAACTTTAATGGATAAA
196 AAAAAAAGAAAAAAGGACTAAATGGTTAAAGGATCGAAATAAAAAAATAAACTTTAATGGATAAA
**** * **
46690943 TTTTTTTAAAGAAAAAGAAAAAGGCTGACATTAAGACCAAAATAAAACACATGTAAAGGAGGAGG
261 TTTAAAAAAAGAAAAAGAAAAAGACTGACATTAAGACCAAAATAAAACACACATAAAGGAGGAGG
46691008 GACTAACTGGGAAATTATTC
326 GACTAACTGGGAAATTATTC
46691028 CCTATCCCAA
Statistics
Matches: 317, Mismatches: 26, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
344 2 0.01
345 69 0.22
347 67 0.21
348 119 0.38
349 60 0.19
ACGTcount: A:0.57, C:0.06, G:0.14, T:0.23
Consensus pattern (345 bp):
TTAAAATGAAATTAAGGGCATAAATTGTAAAAATAAGTAAATACATAAATACGTAAATAAATAAA
ATGAGAATTATAAAAGATTAAAATTAAATAAACCGAGGGCTAAATCAAAATTAGAATGAAATTAA
AATTATAAATGTAAATAAAATAAGTAAATAAAATACCAAAACAAAAATGCAAAAAAATTAAAAAA
AAAAAAAGAAAAAAGGACTAAATGGTTAAAGGATCGAAATAAAAAAATAAACTTTAATGGATAAA
TTTAAAAAAAGAAAAAGAAAAAGACTGACATTAAGACCAAAATAAAACACACATAAAGGAGGAGG
GACTAACTGGGAAATTATTC
Found at i:46702174 original size:5 final size:5
Alignment explanation
Indices: 46702164--46702212 Score: 91
Period size: 5 Copynumber: 10.0 Consensus size: 5
46702154 TGATTTAATT
46702164 ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATT-A ATTAA
1 ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA
46702213 CTAATTAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.09
5 39 0.91
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATTAA
Found at i:46702263 original size:17 final size:18
Alignment explanation
Indices: 46702241--46702277 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
46702231 AATAGAAAAT
46702241 AATTAT-AGGGTTGGATA
1 AATTATAAGGGTTGGATA
*
46702258 AATTATAAGTGTTGGATA
1 AATTATAAGGGTTGGATA
46702276 AA
1 AA
46702278 AATCCAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTATAAGGGTTGGATA
Found at i:46708496 original size:21 final size:22
Alignment explanation
Indices: 46708472--46708514 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
46708462 TATTAATATT
46708472 TTAG-ATTATTAAT-ACGAAAAA
1 TTAGTATT-TTAATGACGAAAAA
*
46708493 TTAGTATTTTAATGATGAAAAA
1 TTAGTATTTTAATGACGAAAAA
46708515 AATTTTCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.49, C:0.02, G:0.12, T:0.37
Consensus pattern (22 bp):
TTAGTATTTTAATGACGAAAAA
Found at i:46710213 original size:24 final size:23
Alignment explanation
Indices: 46710186--46710239 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
46710176 AATATATAAT
*
46710186 ATTAATTTTAAATATTTCTAAGAA
1 ATTAATTTTAAATATTTATAA-AA
* *
46710210 ATTAATATTAATTATTTATAAAA
1 ATTAATTTTAAATATTTATAAAA
*
46710233 TTTAATT
1 ATTAATT
46710240 AGAATATATA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
ATTAATTTTAAATATTTATAAAA
Found at i:46710251 original size:20 final size:19
Alignment explanation
Indices: 46710226--46710272 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
46710216 ATTAATTATT
46710226 TATAAAATTTAATTAGAATA
1 TATAAAATTTAATTA-AATA
* * *
46710246 TATAAACTATATTTAAATA
1 TATAAAATTTAATTAAATA
46710265 TA-AAAATT
1 TATAAAATT
46710273 AAAAATTTGT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
18 4 0.18
19 6 0.27
20 12 0.55
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
TATAAAATTTAATTAAATA
Found at i:46714401 original size:20 final size:21
Alignment explanation
Indices: 46714371--46714423 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
46714361 TTTAAGATTA
46714371 TAAAAAATATAAAAA-TA-TT
1 TAAAAAATATAAAAATTATTT
46714390 TAAAATAATATAAAAATTATTT
1 TAAAA-AATATAAAAATTATTT
*
46714412 TAAAAATTATAA
1 TAAAAAATATAA
46714424 TAAGGGTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 5 0.17
20 10 0.33
21 8 0.27
22 7 0.23
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
TAAAAAATATAAAAATTATTT
Found at i:46714452 original size:10 final size:9
Alignment explanation
Indices: 46714369--46714453 Score: 53
Period size: 9 Copynumber: 8.8 Consensus size: 9
46714359 TTTTTAAGAT
46714369 TATAAAAAA
1 TATAAAAAA
46714378 TATAAAAATA
1 TATAAAAA-A
*
46714388 TTTAAAATAA
1 TATAAAA-AA
46714398 TATAAAAATTA
1 TATAAAAA--A
* *
46714409 TTTTAAAAAT
1 -TATAAAAAA
* *
46714419 TATAATAAG
1 TATAAAAAA
**
46714428 GGTAAAAAA
1 TATAAAAAA
46714437 TATAAAAAA
1 TATAAAAAA
46714446 TATTAAAA
1 TA-TAAAA
46714454 TTTATTTAAA
Statistics
Matches: 57, Mismatches: 13, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
9 29 0.51
10 19 0.33
11 2 0.04
12 7 0.12
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.32
Consensus pattern (9 bp):
TATAAAAAA
Found at i:46714502 original size:22 final size:22
Alignment explanation
Indices: 46714471--46714518 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
46714461 AAAATAGTAT
46714471 AAAATCACAAAAAAATATAT-TA
1 AAAATCACAAAAAAATAT-TCTA
* *
46714493 AAAATTACAAGAAAATATTCTA
1 AAAATCACAAAAAAATATTCTA
46714515 AAAA
1 AAAA
46714519 ATTCTCTCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.67, C:0.08, G:0.02, T:0.23
Consensus pattern (22 bp):
AAAATCACAAAAAAATATTCTA
Found at i:46715319 original size:16 final size:16
Alignment explanation
Indices: 46715243--46715321 Score: 65
Period size: 16 Copynumber: 4.9 Consensus size: 16
46715233 ATGTATAATA
*
46715243 AAACAAAATA-AAAAGA
1 AAAC-AAATAGAAAAGG
*
46715259 AAAGAAATAGTAAAA-G
1 AAACAAATAG-AAAAGG
*
46715275 AAACAAGATAG-AAACG
1 AAACAA-ATAGAAAAGG
46715291 AAACAGAATAGAAAAGG
1 AAACA-AATAGAAAAGG
*
46715308 AAACAAAAAGAAAA
1 AAACAAATAGAAAA
46715322 AGGGAAAAAG
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
15 8 0.15
16 26 0.50
17 18 0.35
ACGTcount: A:0.72, C:0.06, G:0.15, T:0.06
Consensus pattern (16 bp):
AAACAAATAGAAAAGG
Found at i:46719469 original size:16 final size:17
Alignment explanation
Indices: 46719440--46719477 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
46719430 CATAAAAATA
*
46719440 AAATTAATAAAAATTT-
1 AAATTAACAAAAATTTG
*
46719456 AAATTAACACAAATTTG
1 AAATTAACAAAAATTTG
46719473 AAATT
1 AAATT
46719478 GAAATTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (17 bp):
AAATTAACAAAAATTTG
Found at i:46720685 original size:5 final size:5
Alignment explanation
Indices: 46720672--46720701 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
46720662 TTTTGCACAC
*
46720672 TAAAA TAAAT TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT
46720702 AAAAGTTAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
TAAAT
Found at i:46720695 original size:15 final size:15
Alignment explanation
Indices: 46720672--46720705 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
46720662 TTTTGCACAC
46720672 TAAAATAAATTAAAT
1 TAAAATAAATTAAAT
*
46720687 TAAATTAAATTAAA-
1 TAAAATAAATTAAAT
46720701 TAAAA
1 TAAAA
46720706 GTTAGAACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
TAAAATAAATTAAAT
Found at i:46720767 original size:53 final size:54
Alignment explanation
Indices: 46720684--46720800 Score: 202
Period size: 53 Copynumber: 2.2 Consensus size: 54
46720674 AAATAAATTA
*
46720684 AATTAA-ATTAAATTAAATAAAAGTTAGAACATTATCTAGGTCGTTCGTCTTTC
1 AATTAATATTAAATTAAATAAAAGTTAGAACATTATCTAGGTCATTCGTCTTTC
*
46720737 AATTAATATTAAA-TAAATAAAAGTTTGAACATTATCTAGGTCATTCGTCTTTC
1 AATTAATATTAAATTAAATAAAAGTTAGAACATTATCTAGGTCATTCGTCTTTC
46720790 AATTAATATTA
1 AATTAATATTA
46720801 TTTTACAGTA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
53 55 0.90
54 6 0.10
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.39
Consensus pattern (54 bp):
AATTAATATTAAATTAAATAAAAGTTAGAACATTATCTAGGTCATTCGTCTTTC
Found at i:46721636 original size:5 final size:5
Alignment explanation
Indices: 46721626--46721650 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
46721616 AAAAGAAGAT
46721626 GAGAA GAGAA GAGAA GAGAA GAGAA
1 GAGAA GAGAA GAGAA GAGAA GAGAA
46721651 AGGAGAACGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (5 bp):
GAGAA
Found at i:46724572 original size:18 final size:18
Alignment explanation
Indices: 46724529--46724572 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
46724519 ACCCAATCCA
* *
46724529 AACCCAAGTATTCAACCC
1 AACCCAATTACTCAACCC
46724547 AACCCAATTACTCAACCC
1 AACCCAATTACTCAACCC
46724565 AACCCAAT
1 AACCCAAT
46724573 CATAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.41, C:0.41, G:0.02, T:0.16
Consensus pattern (18 bp):
AACCCAATTACTCAACCC
Found at i:46725678 original size:6 final size:6
Alignment explanation
Indices: 46725667--46725711 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
46725657 AATAACAAAA
* *
46725667 AAATTT AAATTT AAATTT AAATTT AAA-TT AAATCT AAATCT AAAT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAAT
46725712 ATATTTTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
5 5 0.14
6 32 0.86
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (6 bp):
AAATTT
Found at i:46725699 original size:17 final size:17
Alignment explanation
Indices: 46725667--46725711 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
46725657 AATAACAAAA
*
46725667 AAATTTAAATTTAAATTT
1 AAATTTAAA-TTAAATCT
46725685 AAATTTAAATTAAATCT
1 AAATTTAAATTAAATCT
*
46725702 AAATCTAAAT
1 AAATTTAAAT
46725712 ATATTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 16 0.64
18 9 0.36
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATTTAAATTAAATCT
Found at i:46725720 original size:23 final size:23
Alignment explanation
Indices: 46725668--46725721 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
46725658 ATAACAAAAA
* * *
46725668 AATTTAAATTTAAATTTAAATTT
1 AATTTAAATCTAAATCTAAATAT
*
46725691 AAATTAAATCTAAATCTAAATAT
1 AATTTAAATCTAAATCTAAATAT
*
46725714 ATTTTAAA
1 AATTTAAA
46725722 ATTATTTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
AATTTAAATCTAAATCTAAATAT
Found at i:46755057 original size:3 final size:3
Alignment explanation
Indices: 46755049--46755075 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
46755039 AACCCACTCA
46755049 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
46755076 CATTTATTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:46755118 original size:15 final size:16
Alignment explanation
Indices: 46755089--46755119 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
46755079 TTATTCAAAT
46755089 ATATATTTTTAAGTTA
1 ATATATTTTTAAGTTA
46755105 ATATATTTTT-AGTTA
1 ATATATTTTTAAGTTA
46755120 TTAAAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (16 bp):
ATATATTTTTAAGTTA
Found at i:46756455 original size:23 final size:22
Alignment explanation
Indices: 46756419--46756488 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 22
46756409 ATTTACGACT
*
46756419 TGAATATG-AAATGAAATTGAAA
1 TGAAAATGAAAATGAAA-TGAAA
* *
46756441 TGAGAATGAAAATGAGAATGATA
1 TGAAAATGAAAATGA-AATGAAA
*
46756464 TGAAAATGGAAATAGAAATGAAA
1 TGAAAATGAAAAT-GAAATGAAA
46756487 TG
1 TG
46756489 GATGTTACAA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
22 6 0.15
23 29 0.74
24 4 0.10
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (22 bp):
TGAAAATGAAAATGAAATGAAA
Found at i:46756488 original size:17 final size:17
Alignment explanation
Indices: 46756424--46756490 Score: 68
Period size: 17 Copynumber: 3.9 Consensus size: 17
46756414 CGACTTGAAT
*
46756424 ATGAAATG-AAATTGAA
1 ATGAAATGAAAATGGAA
46756440 ATGAGAATGAAAAT-GAGA
1 ATGA-AATGAAAATGGA-A
*
46756458 ATGATATGAAAATGGAA
1 ATGAAATGAAAATGGAA
46756475 ATAGAAATG-AAATGGA
1 AT-GAAATGAAAATGGA
46756491 TGTTACAATC
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
16 4 0.09
17 24 0.55
18 16 0.36
ACGTcount: A:0.55, C:0.00, G:0.24, T:0.21
Consensus pattern (17 bp):
ATGAAATGAAAATGGAA
Found at i:46759174 original size:55 final size:55
Alignment explanation
Indices: 46759011--46759175 Score: 267
Period size: 55 Copynumber: 3.0 Consensus size: 55
46759001 TCTTCTTAGT
* * * *
46759011 TGTTGGAATACTGCTTATTTTGAATTGATTTTTTATATGTTTAAATCGATTGTCA
1 TGTTGGAATACTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGATTGTTA
* * *
46759066 TGTTAGAATACTGATTCTTTTGAATCGATTATTTATATGTTTAATTCGATTGTTA
1 TGTTGGAATACTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGATTGTTA
46759121 TGTTGGAATACTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGATTGTTA
1 TGTTGGAATACTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGATTGTTA
46759176 CATAACACGT
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 100 1.00
ACGTcount: A:0.26, C:0.08, G:0.16, T:0.50
Consensus pattern (55 bp):
TGTTGGAATACTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGATTGTTA
Found at i:46762892 original size:26 final size:26
Alignment explanation
Indices: 46762838--46762898 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
46762828 AGCCATATCA
*
46762838 GGAAGCTCACAAAGAGCCTTTAATCG
1 GGAAGCTCACAAAGAGCCTATAATCG
* *
46762864 GGAATCTCACGAAGAGCCATATAAT-G
1 GGAAGCTCACAAAGAGCC-TATAATCG
*
46762890 GGACGCTCA
1 GGAAGCTCA
46762899 TAAGAGCTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 24 0.83
27 5 0.17
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCCTATAATCG
Found at i:46764928 original size:48 final size:48
Alignment explanation
Indices: 46764874--46765017 Score: 225
Period size: 48 Copynumber: 3.0 Consensus size: 48
46764864 ATAGAATAGC
* * *
46764874 AGTACACTTAAATATTTCCCAAGATTAGTCACAAAGGAATAACCCAGT
1 AGTACACTTAAATACTTCCCAAGATTAGTCACAGAGGAATAACCCAAT
* * *
46764922 AGTACACTTAAATACCTCCCAAGATTACTTACAGAGGAATAACCCAAT
1 AGTACACTTAAATACTTCCCAAGATTAGTCACAGAGGAATAACCCAAT
*
46764970 AGTACACTTAAATACTTCTCAAGATTAGTCACAGAGGAATAACCCAAT
1 AGTACACTTAAATACTTCCCAAGATTAGTCACAGAGGAATAACCCAAT
46765018 TTTATACTAA
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 86 1.00
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.24
Consensus pattern (48 bp):
AGTACACTTAAATACTTCCCAAGATTAGTCACAGAGGAATAACCCAAT
Found at i:46771763 original size:13 final size:13
Alignment explanation
Indices: 46771747--46771771 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46771737 TTTTTTTAAA
46771747 TTTTAATTAATAT
1 TTTTAATTAATAT
46771760 TTTTAATTAATA
1 TTTTAATTAATA
46771772 AACATATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAATTAATAT
Found at i:46773143 original size:49 final size:49
Alignment explanation
Indices: 46773083--46773199 Score: 144
Period size: 49 Copynumber: 2.4 Consensus size: 49
46773073 CTCCCAATAC
* * **
46773083 ACGGTGCTTATACGGTCGCAGGTTGAAGTATAACTAGGGCTCTTAGTTG
1 ACGGTGGTTATACGGTCACAGGTTGAAGTATAACTAGGGAGCTTAGTTG
* * *
46773132 ACGGTGGTTATACGGTCACGGGTTGGAGTATAACTCGGGAGCTTAGTTG
1 ACGGTGGTTATACGGTCACAGGTTGAAGTATAACTAGGGAGCTTAGTTG
** *
46773181 ACAATGGTTATGCGGTCAC
1 ACGGTGGTTATACGGTCAC
46773200 GGATTTAAGT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 58 1.00
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.29
Consensus pattern (49 bp):
ACGGTGGTTATACGGTCACAGGTTGAAGTATAACTAGGGAGCTTAGTTG
Found at i:46778971 original size:26 final size:26
Alignment explanation
Indices: 46778936--46778987 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
46778926 AATGTGAAAG
*
46778936 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
46778962 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
46778988 TTTCATTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:46779071 original size:104 final size:102
Alignment explanation
Indices: 46778858--46779225 Score: 603
Period size: 103 Copynumber: 3.6 Consensus size: 102
46778848 TGTATATAAA
** * * *
46778858 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGT-ATCCACCATATCTT
*
46778923 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
65 TGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
46778961 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCG-TATCCACCATATCT
46779026 TTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
64 TTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
46779065 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TATCCACCATATCTT
*
46779130 TGAAATAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
46779168 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTATCCACCA
46779226 ATAACGGCTA
Statistics
Matches: 253, Mismatches: 9, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
102 8 0.03
103 172 0.68
104 72 0.28
105 1 0.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (102 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTATCCACCATATCTTT
GAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:46785884 original size:26 final size:26
Alignment explanation
Indices: 46785849--46785899 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
46785839 AATGTGAAAG
*
46785849 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
46785875 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
46785900 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:46786025 original size:104 final size:103
Alignment explanation
Indices: 46785771--46786137 Score: 614
Period size: 103 Copynumber: 3.6 Consensus size: 103
46785761 TGTATATAAA
** * * *
46785771 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
46785835 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
*
46785874 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
46785939 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
46785978 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
*
46786043 TGAAA--TAAAAGGGGGTTGCTATGTGCTGATTCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
* *
46786079 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
46786138 ATAACGGTTA
Statistics
Matches: 252, Mismatches: 10, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
101 62 0.25
102 25 0.10
103 90 0.36
104 75 0.30
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:46786089 original size:26 final size:26
Alignment explanation
Indices: 46786054--46786105 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
46786044 GAAATAAAAG
*
46786054 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
46786080 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
46786106 TTCAGTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:46796311 original size:18 final size:18
Alignment explanation
Indices: 46796288--46796323 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
46796278 TGCATCCTTA
46796288 CACTTATCA-TATTCATAT
1 CACTTATCACT-TTCATAT
46796306 CACTTATCACTTTCATAT
1 CACTTATCACTTTCATAT
46796324 AATGCACCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 16 0.94
19 1 0.06
ACGTcount: A:0.31, C:0.25, G:0.00, T:0.44
Consensus pattern (18 bp):
CACTTATCACTTTCATAT
Found at i:46797575 original size:14 final size:14
Alignment explanation
Indices: 46797558--46797604 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
46797548 TTCTTGAGCA
46797558 CTTAATCTTAATTT
1 CTTAATCTTAATTT
* *
46797572 CTTAACCTAAATTT
1 CTTAATCTTAATTT
* *
46797586 TTTAATATTAATTT
1 CTTAATCTTAATTT
46797600 -TTAAT
1 CTTAAT
46797605 ATTTTATTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 5 0.19
14 22 0.81
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (14 bp):
CTTAATCTTAATTT
Found at i:46806924 original size:24 final size:24
Alignment explanation
Indices: 46806887--46806944 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
46806877 CAAGACCCAC
*
46806887 AAAATTATAAA-TTTAGGGTGTTTGA
1 AAAATTA-AAATTTTA-AGTGTTTGA
*
46806912 TAAATTAAAATTTTAAGTGTTTGA
1 AAAATTAAAATTTTAAGTGTTTGA
46806936 AAAATTAAA
1 AAAATTAAA
46806945 GTTATTGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 19 0.66
25 10 0.34
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.40
Consensus pattern (24 bp):
AAAATTAAAATTTTAAGTGTTTGA
Found at i:46809767 original size:15 final size:15
Alignment explanation
Indices: 46809748--46809777 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
46809738 CCAAAAAACA
46809748 AAAAACAAAAACCTGC
1 AAAAA-AAAAACCTGC
46809764 AAAAAAAAAACCTG
1 AAAAAAAAAACCTG
46809778 TGGCGACACC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.67, C:0.20, G:0.07, T:0.07
Consensus pattern (15 bp):
AAAAAAAAAACCTGC
Found at i:46809808 original size:27 final size:27
Alignment explanation
Indices: 46809778--46809836 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
46809768 AAAAAACCTG
* *
46809778 TGGCGACACCAAAGGTGCCAAAGTGAT
1 TGGCCACACCAAAGGTGCCAAAGAGAT
**
46809805 TGGCCTGACCAAAGGTGCCAAAGAGAT
1 TGGCCACACCAAAGGTGCCAAAGAGAT
46809832 TGGCC
1 TGGCC
46809837 TGACCGGACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.24, G:0.31, T:0.15
Consensus pattern (27 bp):
TGGCCACACCAAAGGTGCCAAAGAGAT
Found at i:46809837 original size:27 final size:27
Alignment explanation
Indices: 46809785--46809841 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
46809775 CTGTGGCGAC
*
46809785 ACCAAAGGTGCCAAAGTGATTGGCCTG
1 ACCAAAGGTGCCAAAGAGATTGGCCTG
46809812 ACCAAAGGTGCCAAAGAGATTGGCCTG
1 ACCAAAGGTGCCAAAGAGATTGGCCTG
46809839 ACC
1 ACC
46809842 GGACTAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.25, G:0.28, T:0.16
Consensus pattern (27 bp):
ACCAAAGGTGCCAAAGAGATTGGCCTG
Found at i:46810859 original size:7 final size:7
Alignment explanation
Indices: 46810847--46810873 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
46810837 GTTGAAAGAG
46810847 AATAATA
1 AATAATA
46810854 AATAATA
1 AATAATA
46810861 AATAATA
1 AATAATA
46810868 AATAAT
1 AATAAT
46810874 GAAGGTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AATAATA
Found at i:46811268 original size:19 final size:19
Alignment explanation
Indices: 46811244--46811306 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
46811234 AAGCAATAGT
46811244 TTATTAAAGTAAAATAGAG
1 TTATTAAAGTAAAATAGAG
*** ** * *
46811263 TTATTACTTTTTAATAAAC
1 TTATTAAAGTAAAATAGAG
46811282 TTATTAAAGTAAAATAGAG
1 TTATTAAAGTAAAATAGAG
46811301 TTATTA
1 TTATTA
46811307 CTTAATTAGA
Statistics
Matches: 30, Mismatches: 14, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (19 bp):
TTATTAAAGTAAAATAGAG
Found at i:46811994 original size:23 final size:23
Alignment explanation
Indices: 46811957--46812014 Score: 71
Period size: 23 Copynumber: 2.3 Consensus size: 23
46811947 ATTTTTGTAT
*
46811957 ATTTTGGTAAATAAAAAAAATTATAAT
1 ATTTTGGTAAAT--AAAAAA--ATAAC
46811984 ATTTTGGTAAATAAAAAAATAAC
1 ATTTTGGTAAATAAAAAAATAAC
46812007 ATTTTGGT
1 ATTTTGGT
46812015 TATTTTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 12 0.40
25 6 0.20
27 12 0.40
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (23 bp):
ATTTTGGTAAATAAAAAAATAAC
Found at i:46813845 original size:20 final size:20
Alignment explanation
Indices: 46813817--46813861 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
46813807 AAGCAACTCC
*
46813817 ACTTCACTCTCACATAGATG
1 ACTTAACTCTCACATAGATG
*
46813837 ACTTAACTCTCACATAGGTG
1 ACTTAACTCTCACATAGATG
46813857 ACTTA
1 ACTTA
46813862 TGTTGTTCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.31
Consensus pattern (20 bp):
ACTTAACTCTCACATAGATG
Found at i:46816322 original size:60 final size:59
Alignment explanation
Indices: 46816258--46816370 Score: 138
Period size: 59 Copynumber: 1.9 Consensus size: 59
46816248 TTCTGAAACG
* * * *
46816258 AAATCAAAACATAATTTTGTTAAATAG-CAAGATTAAATCTTGAAACAAAATTATATCATT
1 AAATCAAAACA-AAATCTGTTAAA-AGACAAGAATAAATCCTGAAACAAAATTATATCATT
** *
46816318 AAATCAAATTAAAATCTGTTAAAAGACAAGAATAAATCCTGAAACAGAATTAT
1 AAATCAAAACAAAATCTGTTAAAAGACAAGAATAAATCCTGAAACAAAATTAT
46816371 TTGATTACGT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
58 2 0.04
59 34 0.76
60 9 0.20
ACGTcount: A:0.52, C:0.11, G:0.08, T:0.29
Consensus pattern (59 bp):
AAATCAAAACAAAATCTGTTAAAAGACAAGAATAAATCCTGAAACAAAATTATATCATT
Found at i:46816682 original size:87 final size:84
Alignment explanation
Indices: 46816407--46816798 Score: 443
Period size: 84 Copynumber: 4.6 Consensus size: 84
46816397 AACAATATCG
** * * * **
46816407 AATAAAATCTTATTAAACGGCAGAAATAAATCCCGAAACAAATTTTATTTAATTCAATTCAAATT
1 AATAAAATCTTATTAAACGGTGGGAATAAATCCCGAAACAGATTTTATTTAATTTAATTCTCATT
46816472 TTGAAACAAAATAAAATCA
66 TTGAAACAAAATAAAATCA
* * *
46816491 AATAAAATCTTATTAAACGATGGGAATAAATCTCGAAACAGATTTTATTTAATTCT-ATTCTAAT
1 AATAAAATCTTATTAAACGGTGGGAATAAATCCCGAAACAGATTTTATTTAATT-TAATTCTCAT
*
46816555 TTGGAAACAAAATAAAATCA
65 TTTGAAACAAAATAAAATCA
*
46816575 AATAAAATTTTATTAAACGGTGGGAATAAATCCCGAAACAGATTTTATTTAATTTAATTTCTCGA
1 AATAAAATCTTATTAAACGGTGGGAATAAATCCCGAAACAGATTTTATTTAATTTAA-TTCTC-A
* *
46816640 TTTTAGCAACAAAATCAAATCA
64 TTTT-GAAACAAAATAAAATCA
* *
46816662 AAT-AAATCTTTATTAAACGGTGAGAATAAATCCCGAAACATATTTTATTTAATTTAATTTCTCA
1 AATAAAATC-TTATTAAACGGTGGGAATAAATCCCGAAACAGATTTTATTTAATTTAA-TTCTCA
* * **
46816726 TTTTTAGAAATAAAACAAAATTTGG
64 -TTTT-GAAACAAAATAAAA--TCA
* * *
46816751 AATAAAATC--ATTGAACAGCGGGAATAAATCCCGAAAC-GAATTTTATTT
1 AATAAAATCTTATTAAACGGTGGGAATAAATCCCGAAACAG-ATTTTATTT
46816799 TACTCGTTTT
Statistics
Matches: 267, Mismatches: 30, Indels: 19
0.84 0.09 0.06
Matches are distributed among these distances:
83 1 0.00
84 126 0.47
85 4 0.01
86 9 0.03
87 118 0.44
89 4 0.01
90 5 0.02
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.33
Consensus pattern (84 bp):
AATAAAATCTTATTAAACGGTGGGAATAAATCCCGAAACAGATTTTATTTAATTTAATTCTCATT
TTGAAACAAAATAAAATCA
Found at i:46816936 original size:79 final size:77
Alignment explanation
Indices: 46816726--46816956 Score: 291
Period size: 79 Copynumber: 2.9 Consensus size: 77
46816716 TAATTTCTCA
* * * * * *
46816726 TTTTTAGAAATAAAACAAAATTTGGAATAAAATCATTGAACAGCGGGAATAAATCCCGAAACGAA
1 TTTTTGGAAATAAAACAAAATTTGGAATAAAATCGTTGAAC-GAGGG-ATCAATCCCGAAATGGA
46816791 TTTTATTTTACTCG
64 TTTTATTTTACTCG
* *
46816805 TTTTTGGAAATAAAACAAAATTTGGAATAAAATTGTTGAACGACGAGAATCAATCCCGAAATGGA
1 TTTTTGGAAATAAAACAAAATTTGGAATAAAATCGTTGAACGA-G-GGATCAATCCCGAAATGGA
*
46816870 CTTTATTTTACTCG
64 TTTTATTTTACTCG
* * * *
46816884 TTTTTGGAAATAAAACCAAATTTGGAATAGAATCGTTAAACGGTAGGGATCAATCCCGAAATAGA
1 TTTTTGGAAATAAAACAAAATTTGGAATAAAATCGTTGAAC-G-AGGGATCAATCCCGAAATGGA
46816949 TTTTATTT
64 TTTTATTT
46816957 ACCTTTAATT
Statistics
Matches: 132, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
78 1 0.01
79 127 0.96
80 3 0.02
81 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (77 bp):
TTTTTGGAAATAAAACAAAATTTGGAATAAAATCGTTGAACGAGGGATCAATCCCGAAATGGATT
TTATTTTACTCG
Found at i:46826332 original size:17 final size:18
Alignment explanation
Indices: 46826304--46826337 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
46826294 ATTGTAAATT
46826304 AATAATTAAAATATAAAA
1 AATAATTAAAATATAAAA
*
46826322 AATAA-TAAAATGTAAA
1 AATAATTAAAATATAAA
46826338 GCTAATGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
AATAATTAAAATATAAAA
Found at i:46827967 original size:51 final size:50
Alignment explanation
Indices: 46827887--46828227 Score: 312
Period size: 51 Copynumber: 6.7 Consensus size: 50
46827877 ATACCCGGTT
* * * *
46827887 CACATAGTAGCCTGTACATAATACTACACATGTGACCATTTTCATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCA-TATCATCCGATA
* * * * * * *
46827938 CACGTAGTAGCCTACACAAAGTACTACACACGTGATCAAAGCTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATATC-ATCCGATA
* * * *
46827989 CGCATAGTAGCCTGCACATAGTATTACACATGCGACC-TATCATTCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATATCA-TCCGATA
*
46828039 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATTTTCATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCA-TATCATCCGATA
* * * ** * *
46828090 CACGTAGTAGCTTGCACATAGTACTGCACACGTGATTGA-AGCTATTC-AGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATATC-ATCCGA-TA
* * * * * *
46828141 CGCATAGTAGCCTACACATAGTACTACACATGCGACC-TATCATTTCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATATCA-TCCGATA
*
46828191 CACGTAGTAGCCTGCACATAGTACTACACACGTGACC
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACC
46828228 TAGCAACTTC
Statistics
Matches: 229, Mismatches: 51, Indels: 21
0.76 0.17 0.07
Matches are distributed among these distances:
49 2 0.01
50 83 0.36
51 139 0.61
52 5 0.02
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATATCATCCGATA
Found at i:46828086 original size:101 final size:100
Alignment explanation
Indices: 46827881--46828229 Score: 346
Period size: 101 Copynumber: 3.5 Consensus size: 100
46827871 TAAATGATAC
* * * * * *
46827881 CCGGTTCACATAGTAGCCTGTACATAATACTACACATGTGACCATTTTCA-TCCGATACACGTAG
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACC--TATCATTCCGATACACATAG
* * * *
46827945 TAGCCTACACAAAGTACTACACACGTGATCAAAGCTAT
64 TAGCCTACACATAGTACTACACACGTGACCATATC-AT
* * * *
46827983 CCGGTACGCATAGTAGCCTGCACATAGTATTACACATGCGACCTATCATTCCGATACACATAGTA
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCTATCATTCCGATACACATAGTA
* *
46828048 GCCTGCACATAGTACTACACACGTGACCATTTTCAT
66 GCCTACACATAGTACTACACACGTGACCA-TATCAT
* * * * * * * *
46828084 CCGATACACGTAGTAGCTTGCACATAGTACTGCACACGTGA-TTGAAGCTATTCAG-TACGCATA
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCT--ATC-ATTCCGATACACATA
* *
46828147 GTAGCCTACACATAGTACTACACATGCGACC-TATCATT
63 GTAGCCTACACATAGTACTACACACGTGACCATATCA-T
* *
46828185 TCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCTA
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCTA
46828230 GCAACTTCAC
Statistics
Matches: 205, Mismatches: 35, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
100 10 0.05
101 114 0.56
102 76 0.37
103 5 0.02
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (100 bp):
CCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCTATCATTCCGATACACATAGTA
GCCTACACATAGTACTACACACGTGACCATATCAT
Found at i:46828163 original size:152 final size:152
Alignment explanation
Indices: 46827887--46828227 Score: 538
Period size: 152 Copynumber: 2.2 Consensus size: 152
46827877 ATACCCGGTT
* * *
46827887 CACATAGTAGCCTGTACATAATACTACACATGTGACCATTTTCATCCGATACACGTAGTAGCCTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATTTTCATCCGATACACGTAGTAGCCTA
* * *
46827952 CACAAAGTACTACACACGTGATCAAAGCTATCCGGTACGCATAGTAGCCTGCACATAGTATTACA
66 CACAAAGTACTACACACGTGATCAAAGCTATCCAGTACGCATAGTAGCCTACACATAGTACTACA
46828017 CATGCGACCTATCATTCCGATA
131 CATGCGACCTATCATTCCGATA
* *
46828039 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATTTTCATCCGATACACGTAGTAGCTTG
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATTTTCATCCGATACACGTAGTAGCCTA
* * ** *
46828104 CACATAGTACTGCACACGTGATTGAAGCTATTCAGTACGCATAGTAGCCTACACATAGTACTACA
66 CACAAAGTACTACACACGTGATCAAAGCTATCCAGTACGCATAGTAGCCTACACATAGTACTACA
* *
46828169 CATGCGACCTATCATTTCGGTA
131 CATGCGACCTATCATTCCGATA
*
46828191 CACGTAGTAGCCTGCACATAGTACTACACACGTGACC
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACC
46828228 TAGCAACTTC
Statistics
Matches: 173, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
152 173 1.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (152 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATTTTCATCCGATACACGTAGTAGCCTA
CACAAAGTACTACACACGTGATCAAAGCTATCCAGTACGCATAGTAGCCTACACATAGTACTACA
CATGCGACCTATCATTCCGATA
Found at i:46830299 original size:16 final size:15
Alignment explanation
Indices: 46830277--46830323 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
46830267 ATTAAAAAAT
46830277 AATATAAAATTTATA
1 AATATAAAATTTATA
**
46830292 AGATATAACCTTTATA
1 A-ATATAAAATTTATA
*
46830308 AA-AAAAAATTTATA
1 AATATAAAATTTATA
46830322 AA
1 AA
46830324 GTGAACAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
14 11 0.42
15 2 0.08
16 13 0.50
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (15 bp):
AATATAAAATTTATA
Found at i:46841601 original size:23 final size:23
Alignment explanation
Indices: 46841566--46841610 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
46841556 TGGAGTATAA
* *
46841566 AAGTTTTATATTTTTATATGTAC
1 AAGTTTTATATTTATACATGTAC
46841589 AAGTTTTGA-ATTTATACATGTA
1 AAGTTTT-ATATTTATACATGTA
46841611 TATACAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.51
Consensus pattern (23 bp):
AAGTTTTATATTTATACATGTAC
Found at i:46842237 original size:42 final size:42
Alignment explanation
Indices: 46842190--46842362 Score: 249
Period size: 42 Copynumber: 4.1 Consensus size: 42
46842180 CAGTGCCTAT
*
46842190 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGATGAAACAATATCAGACTTTACGTCTAG
* *
46842232 CAGGCTTAATGCCGATGAAATAATTTCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGATGAAACAATATCAGACTTTACGTCTAG
*
46842274 CAGGCTTAATGCTGATGAAACAATATCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGATGAAACAATATCAGACTTTACGTCTAG
* * * * * *
46842316 TAGGCTTAATGCCGGTGAAA-TATTTCAGACTATATGTCTAG
1 CAGGCTTAATGCCGATGAAACAATATCAGACTTTACGTCTAG
46842357 CAGGCT
1 CAGGCT
46842363 AAGTGCTGGT
Statistics
Matches: 117, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
41 22 0.19
42 95 0.81
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (42 bp):
CAGGCTTAATGCCGATGAAACAATATCAGACTTTACGTCTAG
Found at i:46842335 original size:84 final size:83
Alignment explanation
Indices: 46842190--46842370 Score: 283
Period size: 84 Copynumber: 2.2 Consensus size: 83
46842180 CAGTGCCTAT
* *
46842190 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCCGATGAAATAA
1 CAGGCTTAATGCTGATGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCCGATGAAAT-A
*
46842255 TTTCAGACTTTACGTCTAG
65 TTTCAGACTATACGTCTAG
* *
46842274 CAGGCTTAATGCTGATGAAACAATATCAGACTTTACGTCTAGTAGGCTTAATGCCGGTGAAATAT
1 CAGGCTTAATGCTGATGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCCGATGAAATAT
*
46842339 TTCAGACTATATGTCTAG
66 TTCAGACTATACGTCTAG
46842357 CAGGC-TAAGTGCTG
1 CAGGCTTAA-TGCTG
46842371 GTGTACTGAA
Statistics
Matches: 90, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
82 3 0.03
83 28 0.31
84 59 0.66
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (83 bp):
CAGGCTTAATGCTGATGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCCGATGAAATAT
TTCAGACTATACGTCTAG
Found at i:46849048 original size:23 final size:23
Alignment explanation
Indices: 46849013--46849057 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
46849003 TGGAGTATAA
* *
46849013 AAGTTTTATATTTTTATATGTAC
1 AAGTTTTATATTTATACATGTAC
46849036 AAGTTTTGA-ATTTATACATGTA
1 AAGTTTT-ATATTTATACATGTA
46849058 TATACAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.51
Consensus pattern (23 bp):
AAGTTTTATATTTATACATGTAC
Found at i:46849440 original size:42 final size:42
Alignment explanation
Indices: 46849393--46849619 Score: 302
Period size: 42 Copynumber: 5.5 Consensus size: 42
46849383 CAGTGCCTAT
46849393 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
* *
46849435 CAGGCTTAATGCCGGTGAAATAATTTCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
46849477 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
* * *
46849519 CAGGCTTAATGCCGGTGAAAC-ATTTCAGACTATATGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
* * * *
46849560 CAGGC-TAAGTGCCGGTG-TACTGA-ATCAGGCTTTAAGTCTAG
1 CAGGCTTAA-TGCCGGTGAAAC-AATATCAGACTTTACGTCTAG
*
46849601 CAGGC-TAAGTGCCAGTGAA
1 CAGGCTTAA-TGCCGGTGAA
46849620 TCTGTTTAAA
Statistics
Matches: 167, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
40 5 0.03
41 60 0.36
42 102 0.61
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (42 bp):
CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
Found at i:46872662 original size:21 final size:20
Alignment explanation
Indices: 46872638--46872684 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
46872628 AAAATAATGG
*
46872638 AATATATATAGA-ATAATAAAA
1 AATATATATA-ACAAAAT-AAA
*
46872659 AATATTTATAACAAAATAAA
1 AATATATATAACAAAATAAA
46872679 AATATA
1 AATATA
46872685 AAAAGGGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (20 bp):
AATATATATAACAAAATAAA
Found at i:46874585 original size:44 final size:43
Alignment explanation
Indices: 46874314--46874641 Score: 231
Period size: 44 Copynumber: 7.5 Consensus size: 43
46874304 GATCTACTCT
* ** **
46874314 CTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCA
1 CTGCAACTTCAGGGAGATAAGAT-CTTGGTTTTAATCTGCTCCA
* * *
46874358 CTGCAACTTCAGGGAGATAGGAT-TGTCAGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATCT-T-GGTTTTAATCTGCTCCA
* * * ***
46874402 CTGCAACTTCAGGGAGATAAGGT-TCGCCATCTTCGGTCTGC-CTCA
1 CTGCAACTTCAGGGAGATAAGATCTTG--GT-TTTAATCTGCTC-CA
* * *
46874447 CTGCAACTTTA-GGAGGATAAGA-CTTGCTTACTTAGTCTGCTCCA
1 CTGCAACTTCAGGGA-GATAAGATCTTGGTT--TTAATCTGCTCCA
* * * *** *
46874491 CTGCAACTTTAGGGAGATAAGA-C-TAGATGCGATCTGCT-CT
1 CTGCAACTTCAGGGAGATAAGATCTTGGTTTTAATCTGCTCCA
* *
46874531 CTGCAGCTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATCT-TGGTTTTAATCTGCTCCA
* * *
46874575 CTGCAACTTCAGGGAGATAGGATCATTGGCTTTAATCTGCTGCA
1 CTGCAACTTCAGGGAGATAAGATC-TTGGTTTTAATCTGCTCCA
46874619 CTGCAACTTCAGGGAGATAAGAT
1 CTGCAACTTCAGGGAGATAAGAT
46874642 TCGCCATCTT
Statistics
Matches: 221, Mismatches: 46, Indels: 34
0.73 0.15 0.11
Matches are distributed among these distances:
40 20 0.09
41 7 0.03
42 1 0.00
43 13 0.06
44 148 0.67
45 32 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (43 bp):
CTGCAACTTCAGGGAGATAAGATCTTGGTTTTAATCTGCTCCA
Found at i:46875059 original size:44 final size:44
Alignment explanation
Indices: 46874961--46875289 Score: 304
Period size: 44 Copynumber: 7.4 Consensus size: 44
46874951 GGGCTAAATG
* * * * *
46874961 TCTTCGTTCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTGCTAT
1 TCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCT-T
* * * ***
46875007 T-TTTGATCTATTTCATGTTGATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
** * * *** * * * *
46875050 TCTTCGATCTACTTTGTCACCAGTATGGGAAAACAAGATTTTCTA
1 TCTTCGATCTAC-TTCACGCCAATACATGAAGACAAGATCTGCTT
*
46875095 TCTTCGATCTATTTCACGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
** * * *
46875139 TCTTCGATCTACTT--CGCCACCAGTATGGAAAGACAAGATTTGCTA
1 TCTTCGATCTACTTCACGCCAATA-CAT-G-AAGACAAGATCTGCTT
*
46875184 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
*
46875228 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
*
46875272 TCTTCGATCTATTTCACG
1 TCTTCGATCTACTTCACG
46875290 ACAACCTAGG
Statistics
Matches: 222, Mismatches: 54, Indels: 16
0.76 0.18 0.05
Matches are distributed among these distances:
42 6 0.03
43 4 0.02
44 136 0.61
45 67 0.30
46 3 0.01
47 6 0.03
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (44 bp):
TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
Found at i:46875120 original size:89 final size:89
Alignment explanation
Indices: 46875027--46875289 Score: 363
Period size: 89 Copynumber: 3.0 Consensus size: 89
46875017 TTTCATGTTG
* *
46875027 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTTGTCACCAGTATGGGAAA-ACAAGATTT
1 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTAT-GGAAAGACAAGATTT
* *
46875091 TCTATCTTCGATCTATTTCACGCCA
65 GCTATCTTCGATCTACTTCACGCCA
46875116 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGAAAGACAAGATTTG
1 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGAAAGACAAGATTTG
46875181 CTATCTTCGATCTACTTCACGCCA
66 CTATCTTCGATCTACTTCACGCCA
* * ** * *
46875205 ATACATGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATA-CAT-G-AAGACAAGATC
1 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTT--CGCCACCAGTATGGAAAGACAAGATT
* *
46875267 TGCTTTCTTCGATCTATTTCACG
64 TGCTATCTTCGATCTACTTCACG
46875290 ACAACCTAGG
Statistics
Matches: 159, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
88 36 0.23
89 115 0.72
90 2 0.01
91 6 0.04
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.32
Consensus pattern (89 bp):
ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGAAAGACAAGATTTG
CTATCTTCGATCTACTTCACGCCA
Found at i:46875352 original size:88 final size:88
Alignment explanation
Indices: 46875290--46875750 Score: 697
Period size: 88 Copynumber: 5.2 Consensus size: 88
46875280 CTATTTCACG
* * * * *
46875290 ACAACCTAGGGAGGCAAGGTTGGTATCTTTGATCTGCTTCACTGTTGGTATAGGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
* *
46875355 TGCTATCTTCAACTTGCTTCACT
66 TGCTATCTTCAACCTGCTCCACT
*
46875378 ACAACCCAGGGAGGCAAGGCTAGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
46875443 TGCTATCTTCAACCTGCTCCACT
66 TGCTATCTTCAACCTGCTCCACT
* *
46875466 ACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGTAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
*
46875531 TGCTATCTTCAACCTGGTCCACT
66 TGCTATCTTCAACCTGCTCCACT
* * **
46875554 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGTAGGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
46875619 TGCTATCTTCAACCTGCTCCACT
66 TGCTATCTTCAACCTGCTCCACT
* * * *
46875642 AAAACCCAAGGAGGCAAGGCTGGTATCTTCGATCTGATTTACTGTCGGTACAGGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
* * * *
46875707 TACTATTTTCAACCTACTCCGCT
66 TGCTATCTTCAACCTGCTCCACT
* *
46875730 GCAAACCAGGGAGGCAAGGCT
1 ACAACCCAGGGAGGCAAGGCT
46875751 TTGTGCTTTC
Statistics
Matches: 338, Mismatches: 35, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 338 1.00
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (88 bp):
ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
TGCTATCTTCAACCTGCTCCACT
Found at i:46875701 original size:44 final size:44
Alignment explanation
Indices: 46875301--46875703 Score: 233
Period size: 44 Copynumber: 9.2 Consensus size: 44
46875291 CAACCTAGGG
* * * * *
46875301 AGGCAAGGTTGGTATCTTTGATCTGCTTCACTGTTGGTATAGGA
1 AGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATACAGGA
* * * * * ** *
46875345 AGGCAAGATCTGCTATCTTC-AACTTGCTTCACT-ACAACCCAGGG
1 AGGCAAG-GCTGGTATCTTCGATC-TGCTTCACTGTCGATACAGGA
* *
46875389 AGGCAAGGCTAGTATCTTCGATCTGCTTCACTGTCGGTACAGGA
1 AGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATACAGGA
* * * * * * ** *
46875433 AGGCAAGATCTGCTATCTTCAACCTGCTCCACT-ACGACCCAGGG
1 AGGCAAG-GCTGGTATCTTCGATCTGCTTCACTGTCGATACAGGA
* *
46875477 AGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGTA
1 AGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATACAGGA
* * * * * * * * ** *
46875521 AGGCAAGATCTGCTATCTTCAACCTGGTCCACT-ACAACCCAGGG
1 AGGCAAG-GCTGGTATCTTCGATCTGCTTCACTGTCGATACAGGA
* **
46875565 AGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGTAGGA
1 AGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATACAGGA
* * * * * *** **
46875609 AGGCAAGATCTGCTATCTTCAACCTGCTCCACT-AAAACCCAAGG-
1 AGGCAAG-GCTGGTATCTTCGATCTGCTTCACTGTCGATAC-AGGA
* * *
46875653 AGGCAAGGCTGGTATCTTCGATCTGATTTACTGTCGGTACAGGA
1 AGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATACAGGA
46875697 AGGCAAG
1 AGGCAAG
46875704 ATCTACTATT
Statistics
Matches: 251, Mismatches: 96, Indels: 24
0.68 0.26 0.06
Matches are distributed among these distances:
43 77 0.31
44 97 0.39
45 77 0.31
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (44 bp):
AGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATACAGGA
Found at i:46877106 original size:22 final size:20
Alignment explanation
Indices: 46877076--46877119 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
46877066 CACCTTGGTC
46877076 TTTTTCCTTCTTCGTTTCTTT
1 TTTTTCCTTCTTCGTTT-TTT
* *
46877097 TTTTTCCCTTTTTTGTTTTTT
1 TTTTT-CCTTCTTCGTTTTTT
46877118 TT
1 TT
46877120 CTTTTTTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.00, C:0.18, G:0.05, T:0.77
Consensus pattern (20 bp):
TTTTTCCTTCTTCGTTTTTT
Found at i:46877215 original size:14 final size:15
Alignment explanation
Indices: 46877192--46877224 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
46877182 ATTGATGCTT
*
46877192 TTCCAGATAAGG-CC
1 TTCCACATAAGGTCC
46877206 TTCCACATAAGGTCC
1 TTCCACATAAGGTCC
46877221 TTCC
1 TTCC
46877225 CAGCATGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.27
Consensus pattern (15 bp):
TTCCACATAAGGTCC
Found at i:46882088 original size:21 final size:20
Alignment explanation
Indices: 46882064--46882110 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
46882054 AAAATAATGG
*
46882064 AATATATATAGA-ATAATAAAA
1 AATATATATA-ACAAAAT-AAA
*
46882085 AATATTTATAACAAAATAAA
1 AATATATATAACAAAATAAA
46882105 AATATA
1 AATATA
46882111 AAAAGGGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (20 bp):
AATATATATAACAAAATAAA
Found at i:46887204 original size:3 final size:3
Alignment explanation
Indices: 46887196--46887258 Score: 108
Period size: 3 Copynumber: 21.0 Consensus size: 3
46887186 AACAAAAAGA
* *
46887196 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT TTT CTT CTT CTT TTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
46887244 CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT
46887259 TTTTTGTAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
CTT
Found at i:46888945 original size:15 final size:15
Alignment explanation
Indices: 46888925--46888954 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
46888915 GATTTTCGAA
46888925 TTATTTAATAATAAT
1 TTATTTAATAATAAT
46888940 TTATTTAATAATAAT
1 TTATTTAATAATAAT
46888955 AATTAATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTATTTAATAATAAT
Found at i:46901032 original size:12 final size:13
Alignment explanation
Indices: 46901008--46901036 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
46900998 GGGCTATAAC
46901008 TATTGCATTTATT
1 TATTGCATTTATT
46901021 TATTGC-TTTATT
1 TATTGCATTTATT
46901033 TATT
1 TATT
46901037 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Done.