Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 117 of 144
Found at i:36357721 original size:78 final size:78
Alignment explanation
Indices: 36357592--36357802 Score: 352
Period size: 78 Copynumber: 2.7 Consensus size: 78
36357582 TTAGTTTAAA
*
36357592 AAAAACAATAAAGAGG-CTAACTTCTCAATTTTCATAAAGTAGAGGGATAAATTTTGGAATTAGA
1 AAAAACAATAAAG-GGATTAACTTCTCAATTTTCATAAAGTAGAGGGATAAATTTTGGAATTAGA
36357656 ACATTCAGTAAAAC
65 ACATTCAGTAAAAC
36357670 AAAAACAATAAAGGGATTAACTTCTCAATTTTCATAAAGTAGAGGGATAAATTTTGGAATTAGAA
1 AAAAACAATAAAGGGATTAACTTCTCAATTTTCATAAAGTAGAGGGATAAATTTTGGAATTAGAA
*
36357735 CATTTAGTAAAAC
66 CATTCAGTAAAAC
* * *
36357748 CAAAACAATAAAGGGATCAACTTCTCAATTTTCATGAAGTAGAGGGATAATATTT
1 AAAAACAATAAAGGGATTAACTTCTCAATTTTCATAAAGTAGAGGGATAA-ATTT
36357803 ATAATTGGAC
Statistics
Matches: 126, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
77 2 0.02
78 120 0.95
79 4 0.03
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.28
Consensus pattern (78 bp):
AAAAACAATAAAGGGATTAACTTCTCAATTTTCATAAAGTAGAGGGATAAATTTTGGAATTAGAA
CATTCAGTAAAAC
Found at i:36361318 original size:16 final size:16
Alignment explanation
Indices: 36361297--36361330 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
36361287 AGCCTAAAAG
36361297 AATTTTGTTAAAATAC
1 AATTTTGTTAAAATAC
36361313 AATTTTGTTAAAATAC
1 AATTTTGTTAAAATAC
36361329 AA
1 AA
36361331 AGCCATTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (16 bp):
AATTTTGTTAAAATAC
Found at i:36362408 original size:22 final size:21
Alignment explanation
Indices: 36362368--36362408 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
36362358 AAAATCTAAT
*
36362368 TAAATAAAAAAATTCTATTAA
1 TAAATAAAAAAATTATATTAA
*
36362389 TAAATAAAAATATTTATATT
1 TAAATAAAAA-AATTATATT
36362409 TATATTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
TAAATAAAAAAATTATATTAA
Found at i:36362817 original size:25 final size:26
Alignment explanation
Indices: 36362783--36362843 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 26
36362773 TAGGAGGTTT
**
36362783 TTTTTATTTAATTTTAATATAA-TTA
1 TTTTTATTTAATACTAATATAACTTA
*
36362808 TTTTTATTTAATACTAATATAACTTT
1 TTTTTATTTAATACTAATATAACTTA
36362834 TTTTTATTTA
1 TTTTTATTTA
36362844 GTTCAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 20 0.62
26 12 0.38
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (26 bp):
TTTTTATTTAATACTAATATAACTTA
Found at i:36379840 original size:75 final size:75
Alignment explanation
Indices: 36379746--36379893 Score: 224
Period size: 75 Copynumber: 2.0 Consensus size: 75
36379736 ATCGTCGATT
* *
36379746 TATCCGACTAGCGCTGGGTGCAAACACCGTTGGTTCATCCAACTAGAGCTGGGCTCACATTTAAT
1 TATCCGACGAGCGCTGGGTGCAAACACCGTTGGTTCATCCAACTAGAGCTGGGCTCACATTCAAT
*
36379811 ATTGTCGGCA
66 ACTGTCGGCA
* ** * *
36379821 TATCCGACGAGCGTTGGGTGCAAACATTGTTGGTTTATCCAGCTAGAGCTGGGCTCACATTCAAT
1 TATCCGACGAGCGCTGGGTGCAAACACCGTTGGTTCATCCAACTAGAGCTGGGCTCACATTCAAT
36379886 ACTGTCGG
66 ACTGTCGG
36379894 TTAACTCGAC
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 65 1.00
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.28
Consensus pattern (75 bp):
TATCCGACGAGCGCTGGGTGCAAACACCGTTGGTTCATCCAACTAGAGCTGGGCTCACATTCAAT
ACTGTCGGCA
Found at i:36385462 original size:16 final size:16
Alignment explanation
Indices: 36385437--36385472 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
36385427 CTTTAAAGCT
*
36385437 CATGAGTTAAATAACC
1 CATGAATTAAATAACC
*
36385453 CATGAATTAAATAATC
1 CATGAATTAAATAACC
36385469 CATG
1 CATG
36385473 TTGAAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (16 bp):
CATGAATTAAATAACC
Found at i:36403183 original size:12 final size:12
Alignment explanation
Indices: 36403166--36403207 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
36403156 CCATGTGTGT
* *
36403166 CACACGATCTGG
1 CACACGACCTAG
36403178 CACACGACCTAG
1 CACACGACCTAG
*
36403190 CACACGACCTAC
1 CACACGACCTAG
36403202 CACACG
1 CACACG
36403208 GCCATGTGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.31, C:0.43, G:0.17, T:0.10
Consensus pattern (12 bp):
CACACGACCTAG
Found at i:36404621 original size:26 final size:26
Alignment explanation
Indices: 36404585--36404642 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
36404575 CATATACAAT
* *
36404585 TCTTTTAATTAAATAGAGATTTCTAG
1 TCTTTCAATTAAATAGAGATTTCGAG
36404611 TCTTTCAATTAAATAGAGATTTCGAG
1 TCTTTCAATTAAATAGAGATTTCGAG
*
36404637 ACTTTC
1 TCTTTC
36404643 TAACATAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (26 bp):
TCTTTCAATTAAATAGAGATTTCGAG
Found at i:36409372 original size:14 final size:15
Alignment explanation
Indices: 36409353--36409381 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
36409343 TACATATTAA
36409353 CATATCAATC-TCAT
1 CATATCAATCATCAT
36409367 CATATCAATCATCAT
1 CATATCAATCATCAT
36409382 AATAATCACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.38, C:0.28, G:0.00, T:0.34
Consensus pattern (15 bp):
CATATCAATCATCAT
Found at i:36409779 original size:36 final size:36
Alignment explanation
Indices: 36409737--36409858 Score: 102
Period size: 36 Copynumber: 3.2 Consensus size: 36
36409727 TTTTTTAGTA
36409737 GCATGCTTTACATGCAAATCAGATTTTTAGAATATG
1 GCATGCTTTACATGCAAATCAGATTTTTAGAATATG
* * * **
36409773 GCATGCTTAACATGCGAATAAGATCTTATATATTTTCATAATG
1 GCATGCTTTACATGCAAATCAGAT-TT-T-TA---GAAT-ATG
* *
36409816 GCATGC-TTATCATGCAAATCAGAATTTTAGAATAGG
1 GCATGCTTTA-CATGCAAATCAGATTTTTAGAATATG
36409852 GCATGCT
1 GCATGCT
36409859 CAATATGCGA
Statistics
Matches: 65, Mismatches: 12, Indels: 17
0.69 0.13 0.18
Matches are distributed among these distances:
36 29 0.45
37 4 0.06
38 1 0.02
39 2 0.03
40 2 0.03
41 1 0.02
42 6 0.09
43 20 0.31
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (36 bp):
GCATGCTTTACATGCAAATCAGATTTTTAGAATATG
Found at i:36413594 original size:26 final size:26
Alignment explanation
Indices: 36413563--36413630 Score: 93
Period size: 26 Copynumber: 2.6 Consensus size: 26
36413553 TCCAACCCAC
36413563 AGCTCGTGTGAGC-TAACCCATTTCAT
1 AGCTCGTGTGAGCAT-ACCCATTTCAT
* **
36413589 AGCTCGTTTGAGCATACTTATTTCAT
1 AGCTCGTGTGAGCATACCCATTTCAT
36413615 AGCTCGTGTGAGCATA
1 AGCTCGTGTGAGCATA
36413631 TATGTACAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 36 0.97
27 1 0.03
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.34
Consensus pattern (26 bp):
AGCTCGTGTGAGCATACCCATTTCAT
Found at i:36414085 original size:21 final size:21
Alignment explanation
Indices: 36414061--36414102 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
36414051 GTTATAAAAG
*
36414061 GTTTA-ATGTGATAAATAATGT
1 GTTTATATGTGAGAAA-AATGT
36414082 GTTTATATGTGAGAAAAATGT
1 GTTTATATGTGAGAAAAATGT
36414103 TTATGCTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.40
Consensus pattern (21 bp):
GTTTATATGTGAGAAAAATGT
Found at i:36418293 original size:27 final size:27
Alignment explanation
Indices: 36418237--36418299 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
36418227 TCAGATACGA
*
36418237 TGGATAA-TTTGATGGTTTTATTTTGT
1 TGGATAATTTTCATGGTTTTATTTTGT
*
36418263 TGGATCATTTTCATGGTTTTATTTT-T
1 TGGATAATTTTCATGGTTTTATTTTGT
36418289 ATGGATAATTT
1 -TGGATAATTT
36418300 ATATTGATCC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 7 0.22
27 25 0.78
ACGTcount: A:0.21, C:0.03, G:0.19, T:0.57
Consensus pattern (27 bp):
TGGATAATTTTCATGGTTTTATTTTGT
Found at i:36422642 original size:22 final size:23
Alignment explanation
Indices: 36422595--36422643 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
36422585 TTTTTATTTA
*
36422595 AAAATATTTATAAAAAAGACTTT
1 AAAATATTTATAAAAAAGACTCT
*
36422618 AAAAT-TTTATCAAAAAA-CCTCT
1 AAAATATTTAT-AAAAAAGACTCT
36422640 AAAA
1 AAAA
36422644 ACTAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (23 bp):
AAAATATTTATAAAAAAGACTCT
Found at i:36423432 original size:23 final size:23
Alignment explanation
Indices: 36423405--36423450 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
36423395 ATACACCAAT
36423405 TTATTTATATTAGATAA-ATATAA
1 TTATTTAT-TTAGATAATATATAA
*
36423428 TTATTTATTTATATAATATATAA
1 TTATTTATTTAGATAATATATAA
36423451 ATATAAAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTATTTATTTAGATAATATATAA
Found at i:36423433 original size:27 final size:28
Alignment explanation
Indices: 36423403--36423456 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
36423393 AAATACACCA
36423403 ATTTATTTATAT-TAGATAAATATAATT
1 ATTTATTTATATATAGATAAATATAATT
*
36423430 ATTTATTTATATAATATATAAATATAA
1 ATTTATTTATAT-ATAGATAAATATAA
36423457 AAGGATGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 12 0.50
29 12 0.50
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (28 bp):
ATTTATTTATATATAGATAAATATAATT
Found at i:36423544 original size:29 final size:29
Alignment explanation
Indices: 36423502--36423559 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
36423492 GGATTGGATC
* *
36423502 AAATCAAAATTTCATGTACAAAACTGCACA
1 AAATCAAAAGTTCATATACAAAA-TGCACA
*
36423532 AAATC-AAAGTTCATATATAAAATGCACA
1 AAATCAAAAGTTCATATACAAAATGCACA
36423560 TTAGACCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 6 0.24
29 14 0.56
30 5 0.20
ACGTcount: A:0.52, C:0.17, G:0.07, T:0.24
Consensus pattern (29 bp):
AAATCAAAAGTTCATATACAAAATGCACA
Found at i:36425083 original size:20 final size:18
Alignment explanation
Indices: 36425060--36425097 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
36425050 AATTATTTTT
36425060 TATTTAAATTATAGATTAAA
1 TATTTAAA-TATA-ATTAAA
36425080 TATTTAAATATAATTAAA
1 TATTTAAATATAATTAAA
36425098 GACTTTGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (18 bp):
TATTTAAATATAATTAAA
Found at i:36431196 original size:32 final size:32
Alignment explanation
Indices: 36431150--36431211 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
36431140 TTAAATTGTA
*
36431150 CTTGGTCTTTAGCTTATAAAATAATATTTGGG
1 CTTGATCTTTAGCTTATAAAATAATATTTGGG
*
36431182 CTTGATCTTTAGCTTATTAAATAATATTTG
1 CTTGATCTTTAGCTTATAAAATAATATTTG
36431212 AGTAAGCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.47
Consensus pattern (32 bp):
CTTGATCTTTAGCTTATAAAATAATATTTGGG
Found at i:36435115 original size:68 final size:69
Alignment explanation
Indices: 36434995--36435123 Score: 170
Period size: 68 Copynumber: 1.9 Consensus size: 69
36434985 TTTTCTCAAA
* *** * *
36434995 AATGAAAATGAAAATGGAGAAATGAAATCATTTGGAAATGAATGTGGTTTTCTCCAAAATGGAAA
1 AATGAAAATGAAAATGGAGAAATGAAATCATTTAGAAATGAACAAGGATTTCTCAAAAATGGAAA
36435060 TGGG
66 TGGG
* * *
36435064 AATGGAAATGAAAAT-GATAAATGAATTCATTTAGAAATGAACAAGGATTTCTCAAAAATG
1 AATGAAAATGAAAATGGAGAAATGAAATCATTTAGAAATGAACAAGGATTTCTCAAAAATG
36435124 ATCGTAAGAT
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
68 37 0.73
69 14 0.27
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.26
Consensus pattern (69 bp):
AATGAAAATGAAAATGGAGAAATGAAATCATTTAGAAATGAACAAGGATTTCTCAAAAATGGAAA
TGGG
Found at i:36440024 original size:22 final size:21
Alignment explanation
Indices: 36439999--36440054 Score: 51
Period size: 22 Copynumber: 2.6 Consensus size: 21
36439989 AATAAAAAAT
36439999 AATAAAATAATTAGAGCTAATA
1 AATAAAATAATTAGA-CTAATA
* *
36440021 AATACAAT-ATTGGACTAATA
1 AATAAAATAATTAGACTAATA
* *
36440041 TATAATAAAAATTA
1 AATAA-AATAATTA
36440055 AGTCTAAAAC
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
20 9 0.35
21 7 0.27
22 10 0.38
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.30
Consensus pattern (21 bp):
AATAAAATAATTAGACTAATA
Found at i:36440762 original size:33 final size:32
Alignment explanation
Indices: 36440716--36440808 Score: 114
Period size: 33 Copynumber: 2.8 Consensus size: 32
36440706 AGACTTCCCG
36440716 TGTTTACTGTCCCAACGAACTTACTCTATTCCA
1 TGTTTACT-TCCCAACGAACTTACTCTATTCCA
** * *
36440749 TGTTTACTATCCCAGTGAACTTACTTTATTCCC
1 TGTTTACT-TCCCAACGAACTTACTCTATTCCA
*
36440782 TGTTTACTGCCCTAACGAACTTACTCT
1 TGTTTACTTCCC-AACGAACTTACTCT
36440809 GTGGATGCCA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
32 3 0.06
33 47 0.94
ACGTcount: A:0.23, C:0.29, G:0.10, T:0.39
Consensus pattern (32 bp):
TGTTTACTTCCCAACGAACTTACTCTATTCCA
Found at i:36442544 original size:13 final size:15
Alignment explanation
Indices: 36442509--36442539 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
36442499 AATAGTCTAA
36442509 ACATCCTCCTACCAC
1 ACATCCTCCTACCAC
36442524 ACATCCTCCTACCAC
1 ACATCCTCCTACCAC
36442539 A
1 A
36442540 ACCTCAATCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.52, G:0.00, T:0.19
Consensus pattern (15 bp):
ACATCCTCCTACCAC
Found at i:36443359 original size:13 final size:13
Alignment explanation
Indices: 36443324--36443359 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
36443314 CTTTTTTTTT
36443324 CTTTTA-TTTT-C
1 CTTTTATTTTTCC
36443335 CTTTTATTTTTCC
1 CTTTTATTTTTCC
36443348 CTTTTATTTTTC
1 CTTTTATTTTTC
36443360 TCTCTTCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 6 0.26
12 4 0.17
13 13 0.57
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.72
Consensus pattern (13 bp):
CTTTTATTTTTCC
Found at i:36444261 original size:25 final size:24
Alignment explanation
Indices: 36444233--36444286 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 24
36444223 AAGAGAATGG
*
36444233 AAAATAA-AGAAAAAGAAAGAAAGTT
1 AAAATAACA-AAAAAGAAA-AAAATT
* *
36444258 AAAAGAACATAAAAGAAAAAAATT
1 AAAATAACAAAAAAGAAAAAAATT
36444282 AAAAT
1 AAAAT
36444287 GCTCAAAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
24 9 0.38
25 14 0.58
26 1 0.04
ACGTcount: A:0.74, C:0.02, G:0.11, T:0.13
Consensus pattern (24 bp):
AAAATAACAAAAAAGAAAAAAATT
Found at i:36456185 original size:31 final size:31
Alignment explanation
Indices: 36456149--36456210 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
36456139 ATATAATTTT
36456149 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
36456180 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
36456211 TAATTTGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:36462011 original size:22 final size:23
Alignment explanation
Indices: 36461979--36462042 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
36461969 ATAAATTAAA
36461979 ATATATTAAATT-ATTTTATAATT
1 ATATA-TAAATTAATTTTATAATT
* *
36462002 TTATATAAATTTAATTTTATTATT
1 ATATATAAA-TTAATTTTATAATT
*
36462026 ATATAATAAATAAATTT
1 ATAT-ATAAATTAATTT
36462043 AAATCATCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
22 4 0.12
23 6 0.18
24 19 0.56
25 5 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATATATAAATTAATTTTATAATT
Found at i:36471652 original size:51 final size:51
Alignment explanation
Indices: 36471520--36471706 Score: 209
Period size: 51 Copynumber: 3.7 Consensus size: 51
36471510 AGTGAAAGTG
* * *
36471520 ATGGTCACGTGTGTAGTATTATGTGCAGGCTACTACGTGTACCGGA-A-TG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * * * *
36471569 ATAGGTCGCATATGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGT-
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * * * *
36471620 TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
*
36471672 ATGGTCATATGTGTAGTACTATGTGCAGGCTACTA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
36471707 TGTGAACCAA
Statistics
Matches: 112, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
49 2 0.02
50 37 0.33
51 71 0.63
52 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.32
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
Found at i:36471709 original size:26 final size:26
Alignment explanation
Indices: 36471630--36471710 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
36471620 TTCGATCACG
36471630 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * *
36471656 CGTGTA-T-CGGATG-GTAATGG-T-CATA
1 TGTGTAGTAC-TATGTG-CA-GGCTAC-TA
36471681 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
36471707 TGTG
1 TGTG
36471711 AACCAAACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
24 3 0.08
25 15 0.38
26 19 0.47
27 3 0.08
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.35
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:36471768 original size:45 final size:44
Alignment explanation
Indices: 36471717--36471804 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 44
36471707 TGTGAACCAA
* *
36471717 ACATCATTGATTAGTAAGGTGGTTGATATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGATATG-GCTGAATCCACCGG
*
36471762 ACATCATTGATTAATAAGGTGGTTGCTATGGCTGAATCCACCG
1 ACATCATTGATTAATAAGGTGGTTGATATGGCTGAATCCACCG
36471805 AGTATCTGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 12 0.30
45 28 0.70
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (44 bp):
ACATCATTGATTAATAAGGTGGTTGATATGGCTGAATCCACCGG
Found at i:36481945 original size:45 final size:45
Alignment explanation
Indices: 36481830--36481947 Score: 141
Period size: 45 Copynumber: 2.6 Consensus size: 45
36481820 GCTATACGCC
*
36481830 TAAAAA-GAGTAAGACCATAGCTAAAAGATGTTATGGCATCATGA
1 TAAAAATGAGTAAGACCATAGCTGAAAGATGTTATGGCATCATGA
** * *
36481874 TAAAAATGAGTAAGATTATAGTTGAAATATGTTATGGCATCATGA
1 TAAAAATGAGTAAGACCATAGCTGAAAGATGTTATGGCATCATGA
* * *
36481919 TAAATACT-ATTAATACCATAGCTGAAAGA
1 TAAA-AATGAGTAAGACCATAGCTGAAAGA
36481948 CGCTATTGCA
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
44 6 0.10
45 52 0.87
46 2 0.03
ACGTcount: A:0.45, C:0.09, G:0.18, T:0.28
Consensus pattern (45 bp):
TAAAAATGAGTAAGACCATAGCTGAAAGATGTTATGGCATCATGA
Found at i:36492749 original size:90 final size:91
Alignment explanation
Indices: 36492549--36492901 Score: 341
Period size: 89 Copynumber: 3.9 Consensus size: 91
36492539 TTCAAGGTGT
* * **
36492549 AAAAA-GCCCCCAAACTTTCTT-AAAAAAAGTAATTAAG-CTC--CTTTTTTTTTCCCACTCAAT
1 AAAAACGCCCTCAAACTTT-TTCAAAAAAAGCAATTAAGCCTCTGCTTTTTTTTTGGCACTCAAT
* * *
36492609 TAGGTACTTGAACTTTTAAAAATGCAT-
65 TGGGAACTTGAAC-TTTCAAAATGCATC
* * *
36492636 AAAAACGACCCTTAAACTTTTTCAAAAAAAGCCATTAAGCCTCTGCTTTTTTTTT-TCACTCAAT
1 AAAAACG-CCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCTCTGCTTTTTTTTTGGCACTCAAT
36492700 TGGGAACTTGAACTTTCAAAATGCATC
65 TGGGAACTTGAACTTTCAAAATGCATC
* * * * * * *
36492727 AACAATGCCCTCAAACTTTTTCAATAAAAGCCATTAAACCCCTGC-TTTTTTTT-GCACTTAATT
1 AAAAACGCCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCTCTGCTTTTTTTTTGGCACTCAATT
* *
36492790 -GGATACTTAAACTTTCAAAATGAATC
66 GGGA-ACTTGAACTTTCAAAATGCATC
* * *
36492816 AAAAAGGCCCTCAAATTTTTTTCAAAAAAAGCAATTAAGCC-CTTACTTTTTTTTTGGGCACTCA
1 AAAAACGCCCTCAAA-CTTTTTCAAAAAAAGCAATTAAGCCTC-TGCTTTTTTTTT-GGCACTCA
* * *
36492880 ATTGGGTACTTGATCTGTCAAA
63 ATTGGGAACTTGAACTTTCAAA
36492902 TTGTTGATCT
Statistics
Matches: 222, Mismatches: 30, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
87 5 0.02
88 6 0.03
89 74 0.33
90 72 0.32
91 32 0.14
92 10 0.05
93 21 0.09
94 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.35
Consensus pattern (91 bp):
AAAAACGCCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCTCTGCTTTTTTTTTGGCACTCAATT
GGGAACTTGAACTTTCAAAATGCATC
Found at i:36492826 original size:89 final size:90
Alignment explanation
Indices: 36492549--36492869 Score: 334
Period size: 90 Copynumber: 3.6 Consensus size: 90
36492539 TTCAAGGTGT
* ** *
36492549 AAAAA-GCCCCCAAACTTTCTT-AAAAAAAGTAATTAAGCTCCT--TTTTTTTTCCCACTCAATT
1 AAAAAGGCCCTCAAACTTT-TTCAAAAAAAGCCATTAAGCCCCTGCTTTTTTTT-CCACTCAATT
*
36492610 AGG-TACTTGAACTTTTAAAAATGCAT-
64 AGGATACTTGAAC-TTTCAAAATGCATC
* * * *
36492636 AAAAACGACCCTTAAACTTTTTCAAAAAAAGCCATTAAGCCTCTGCTTTTTTTTTTCACTCAATT
1 AAAAA-GGCCCTCAAACTTTTTCAAAAAAAGCCATTAAGCCCCTGC-TTTTTTTTCCACTCAATT
*
36492701 GGGA-ACTTGAACTTTCAAAATGCATC
64 AGGATACTTGAACTTTCAAAATGCATC
* * * * * *
36492727 AACAATGCCCTCAAACTTTTTCAATAAAAGCCATTAAACCCCTGCTTTTTTTTGCACTTAATT-G
1 AAAAAGGCCCTCAAACTTTTTCAAAAAAAGCCATTAAGCCCCTGCTTTTTTTTCCACTCAATTAG
* *
36492791 GATACTTAAACTTTCAAAATGAATC
66 GATACTTGAACTTTCAAAATGCATC
* * * *
36492816 AAAAAGGCCCTCAAATTTTTTTCAAAAAAAGCAATTAAGCCCTTACTTTTTTTT
1 AAAAAGGCCCTCAAA-CTTTTTCAAAAAAAGCCATTAAGCCCCTGCTTTTTTTT
36492870 TGGGCACTCA
Statistics
Matches: 195, Mismatches: 29, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
87 5 0.03
88 5 0.03
89 76 0.39
90 78 0.40
91 23 0.12
92 8 0.04
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.35
Consensus pattern (90 bp):
AAAAAGGCCCTCAAACTTTTTCAAAAAAAGCCATTAAGCCCCTGCTTTTTTTTCCACTCAATTAG
GATACTTGAACTTTCAAAATGCATC
Found at i:36493073 original size:10 final size:9
Alignment explanation
Indices: 36493034--36493102 Score: 54
Period size: 10 Copynumber: 7.7 Consensus size: 9
36493024 ACATGTGACA
36493034 AAAAATTAT
1 AAAAATTAT
36493043 AAAAA--AT
1 AAAAATTAT
*
36493050 AAAAATCAAT
1 AAAAAT-TAT
*
36493060 AAAAGTTAT
1 AAAAATTAT
36493069 AAAAATTATT
1 AAAAATTA-T
**
36493079 AAATTTTAAT
1 AAAAATT-AT
36493089 AAAAA-TAT
1 AAAAATTAT
36493097 AAAAAT
1 AAAAAT
36493103 ATTTGAAATT
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
7 7 0.15
8 7 0.15
9 15 0.32
10 17 0.36
11 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:36493380 original size:21 final size:20
Alignment explanation
Indices: 36493328--36493380 Score: 67
Period size: 19 Copynumber: 2.7 Consensus size: 20
36493318 GTATAGTAAT
36493328 TTTTATATTTT-TTTACGAA
1 TTTTATATTTTCTTTACGAA
36493347 TTTTATA-TTTCTTTAC-ATA
1 TTTTATATTTTCTTTACGA-A
36493366 TTTTATAATTTTCTT
1 TTTTAT-ATTTTCTT
36493381 AAAACTTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 4 0.13
19 19 0.63
20 1 0.03
21 6 0.20
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTATATTTTCTTTACGAA
Found at i:36493435 original size:18 final size:18
Alignment explanation
Indices: 36493358--36493466 Score: 65
Period size: 19 Copynumber: 5.7 Consensus size: 18
36493348 TTTATATTTC
*
36493358 TTTACATATTTTATAATTT
1 TTTA-ATATTTTATAAATT
* *
36493377 TCTTAAAACTTTATAAAACTT
1 T-TTAATATTTTAT-AAA-TT
* * * *
36493398 TATAATTTTTTTCTATATT
1 TTTAA-TATTTTATAAATT
*
36493417 TTTTATATTTTATAAATT
1 TTTAATATTTTATAAATT
* *
36493435 TTTAAGATTTTTATAAAAT
1 TTTAATA-TTTTATAAATT
*
36493454 TTTAATTTTTTAT
1 TTTAATATTTTAT
36493467 GATTTTTATA
Statistics
Matches: 66, Mismatches: 19, Indels: 11
0.69 0.20 0.11
Matches are distributed among these distances:
18 21 0.32
19 28 0.42
20 10 0.15
21 7 0.11
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.61
Consensus pattern (18 bp):
TTTAATATTTTATAAATT
Found at i:36493483 original size:27 final size:27
Alignment explanation
Indices: 36493416--36493483 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
36493406 TTTTCTATAT
*
36493416 TTTTTAT-ATTTTATAAATTTTTAAGA
1 TTTTTATAATTTTTTAAATTTTTAAGA
** * *
36493442 TTTTTATAAAATTTTAATTTTTTATGA
1 TTTTTATAATTTTTTAAATTTTTAAGA
36493469 TTTTTATAATTTTTT
1 TTTTTATAATTTTTT
36493484 CTAATTTATA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
26 7 0.21
27 27 0.79
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (27 bp):
TTTTTATAATTTTTTAAATTTTTAAGA
Found at i:36493490 original size:19 final size:19
Alignment explanation
Indices: 36493396--36493554 Score: 80
Period size: 18 Copynumber: 8.3 Consensus size: 19
36493386 TTTATAAAAC
*
36493396 TTTATAATTTTTTTCTATATT
1 TTTATAA-TTTTTTATA-ATT
*
36493417 TTT-T-ATATTTTATAAATT
1 TTTATAATTTTTTAT-AATT
**
36493435 TTTA-AGA-TTTTTATAAAA
1 TTTATA-ATTTTTTATAATT
*
36493453 TTT-TAATTTTTTATGATT
1 TTTATAATTTTTTATAATT
*
36493471 TTTATAATTTTTTCTAATT
1 TTTATAATTTTTTATAATT
* ** *
36493490 TATAATAAGTTTTAAATATTAT
1 T-TTATAA-TTTTTTATAAT-T
*
36493512 TTTAT-ATTTTTTATTAAAAT
1 TTTATAATTTTTTA-T-AATT
*
36493532 TTAATAA-TTTTTATAATT
1 TTTATAATTTTTTATAATT
36493550 TTTAT
1 TTTAT
36493555 TTATTTGTAT
Statistics
Matches: 102, Mismatches: 23, Indels: 29
0.66 0.15 0.19
Matches are distributed among these distances:
17 1 0.01
18 36 0.35
19 28 0.27
20 20 0.20
21 15 0.15
22 2 0.02
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTATAATTTTTTATAATT
Found at i:36493560 original size:10 final size:9
Alignment explanation
Indices: 36493406--36493554 Score: 72
Period size: 9 Copynumber: 15.8 Consensus size: 9
36493396 TTTATAATTT
*
36493406 TTTTCTATAT
1 TTTT-TATAA
36493416 TTTTTAT-A
1 TTTTTATAA
36493424 -TTTTATAAA
1 TTTTTAT-AA
36493433 TTTTTA-AGA
1 TTTTTATA-A
36493442 TTTTTATAAA
1 TTTTTAT-AA
* *
36493452 ATTTTA-AT
1 TTTTTATAA
*
36493460 TTTTTATGA
1 TTTTTATAA
36493469 TTTTTATAA
1 TTTTTATAA
*
36493478 TTTTTTCTAA
1 -TTTTTATAA
*
36493488 TTTATAATAA
1 TTT-TTATAA
* *
36493498 GTTTTAAATAT
1 -TTTT-TATAA
*
36493509 TATTTTATAT
1 T-TTTTATAA
36493519 TTTTTATTAAA
1 TTTTTA-T-AA
* *
36493530 ATTTAATAA
1 TTTTTATAA
36493539 TTTTTATAA
1 TTTTTATAA
36493548 TTTTTAT
1 TTTTTAT
36493555 TTATTTGTAT
Statistics
Matches: 108, Mismatches: 17, Indels: 29
0.70 0.11 0.19
Matches are distributed among these distances:
7 6 0.06
8 7 0.06
9 43 0.40
10 36 0.33
11 16 0.15
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:36503046 original size:21 final size:20
Alignment explanation
Indices: 36503021--36503088 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
36503011 ATAAAATGAC
36503021 TTTTCCTGTAAAGACCCAAGT
1 TTTTCCTGTAAA-ACCCAAGT
* *
36503042 TTTTCCTATAAAATCC-AGT
1 TTTTCCTGTAAAACCCAAGT
*
36503061 TAATTTCCTGTAAAACCCTAGGT
1 T--TTTCCTGTAAAACCC-AAGT
36503084 TTTTC
1 TTTTC
36503089 TCTTTTATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
19 4 0.11
20 3 0.08
21 28 0.74
23 3 0.08
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTTCCTGTAAAACCCAAGT
Found at i:36508186 original size:25 final size:25
Alignment explanation
Indices: 36508099--36508187 Score: 101
Period size: 25 Copynumber: 3.6 Consensus size: 25
36508089 AAGCTCGTGC
* * *
36508099 TAGCC-TATAACGGGTAGCTCCGAA
1 TAGCCATATATCGGGGAGCTCCGGA
* *
36508123 GAGCCAT-TAATCGAGGAGCTCCGGA
1 TAGCCATAT-ATCGGGGAGCTCCGGA
36508148 TAGCCATATATCGGGGAGCTCCGGA
1 TAGCCATATATCGGGGAGCTCCGGA
*
36508173 TAGTCATATATCGGG
1 TAGCCATATATCGGG
36508188 AAGTTCAAGC
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
24 5 0.09
25 48 0.89
26 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.21
Consensus pattern (25 bp):
TAGCCATATATCGGGGAGCTCCGGA
Found at i:36508244 original size:26 final size:27
Alignment explanation
Indices: 36508205--36508268 Score: 87
Period size: 26 Copynumber: 2.4 Consensus size: 27
36508195 AGCGAGCCAT
*
36508205 ATCGGGAAGTTCACAAAGAGCCA-ATTA
1 ATCGGGAAGCTCACAAAGAGCCATA-TA
*
36508232 A-CGGGAAGCTCACGAAGAGCCATATA
1 ATCGGGAAGCTCACAAAGAGCCATATA
36508258 ATCGGGAAGCT
1 ATCGGGAAGCT
36508269 TATAAGAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 22 0.67
27 11 0.33
ACGTcount: A:0.38, C:0.20, G:0.27, T:0.16
Consensus pattern (27 bp):
ATCGGGAAGCTCACAAAGAGCCATATA
Found at i:36517455 original size:18 final size:17
Alignment explanation
Indices: 36517424--36517476 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
36517414 TATATCTCAC
36517424 ATTAAAAATAATTTAAAA
1 ATTAAAAAT-ATTTAAAA
36517442 ATTATAAAATATTTAAAA
1 ATTA-AAAATATTTAAAA
* *
36517460 ATCAAAAA-ATATAAAA
1 ATTAAAAATATTTAAAA
36517476 A
1 A
36517477 GTTCATAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 8 0.25
17 4 0.12
18 15 0.47
19 5 0.16
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (17 bp):
ATTAAAAATATTTAAAA
Found at i:36517486 original size:18 final size:17
Alignment explanation
Indices: 36517437--36517493 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
36517427 AAAAATAATT
36517437 TAAAAATT-ATAAAATA
1 TAAAAATTCATAAAATA
*
36517453 TTTAAAAA-TCAAAAAATA
1 --TAAAAATTCATAAAATA
36517471 TAAAAAGTTCATAAAAT-
1 TAAAAA-TTCATAAAATA
36517488 TAAAAA
1 TAAAAA
36517494 AAATGAAGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
16 6 0.18
17 7 0.21
18 21 0.62
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (17 bp):
TAAAAATTCATAAAATA
Found at i:36525652 original size:19 final size:19
Alignment explanation
Indices: 36525631--36525667 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
36525621 TTAAAATACT
*
36525631 TTTTTAAAA-ATATTTTTA
1 TTTTTAAAATAAATTTTTA
36525649 TTTTTAAAATAAATTTTTA
1 TTTTTAAAATAAATTTTTA
36525668 GTGTTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTTAAAATAAATTTTTA
Found at i:36530865 original size:43 final size:43
Alignment explanation
Indices: 36530817--36530906 Score: 171
Period size: 43 Copynumber: 2.1 Consensus size: 43
36530807 TCAAATTCCT
*
36530817 ACTTGTCTTTGAGTAGCCATTTAAGATTCTATAACAGGCTAAA
1 ACTTGTCTTTGAGTAGCCATTGAAGATTCTATAACAGGCTAAA
36530860 ACTTGTCTTTGAGTAGCCATTGAAGATTCTATAACAGGCTAAA
1 ACTTGTCTTTGAGTAGCCATTGAAGATTCTATAACAGGCTAAA
36530903 ACTT
1 ACTT
36530907 TTCATGGGCT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (43 bp):
ACTTGTCTTTGAGTAGCCATTGAAGATTCTATAACAGGCTAAA
Found at i:36531942 original size:22 final size:20
Alignment explanation
Indices: 36531906--36531964 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 20
36531896 GGCCCGGCCC
36531906 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATA--AAAA
36531928 ATTTATTTTAAAAATTAAAAA
1 ATTTATTTTAAAAA-TAAAAA
**
36531949 AAGTATTTTAAAAATA
1 ATTTATTTTAAAAATA
36531965 TTTTAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 2 0.06
21 16 0.48
22 7 0.21
23 8 0.24
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (20 bp):
ATTTATTTTAAAAATAAAAA
Found at i:36531966 original size:11 final size:11
Alignment explanation
Indices: 36531946--36532055 Score: 83
Period size: 11 Copynumber: 10.4 Consensus size: 11
36531936 TAAAAATTAA
36531946 AAAAAGTATTTT
1 AAAAA-TATTTT
36531958 AAAAATATTTT
1 AAAAATATTTT
36531969 --AAA-A--TT
1 AAAAATATTTT
* **
36531975 AAAAAAATTAAA
1 AAAAATATT-TT
36531987 AAAAAGTATTTT
1 AAAAA-TATTTT
36531999 AAAAATATTTT
1 AAAAATATTTT
36532010 AAAAATATTTT
1 AAAAATATTTT
**
36532021 --AAA-ATTAA
1 AAAAATATTTT
36532029 AAAAATTATTTT
1 AAAAA-TATTTT
36532041 AAAAATATTTT
1 AAAAATATTTT
36532052 AAAA
1 AAAA
36532056 TTAAAAAAAT
Statistics
Matches: 78, Mismatches: 9, Indels: 23
0.71 0.08 0.21
Matches are distributed among these distances:
6 2 0.03
8 7 0.09
9 7 0.09
10 3 0.04
11 33 0.42
12 23 0.29
13 3 0.04
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:36532041 original size:31 final size:31
Alignment explanation
Indices: 36531999--36532065 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
36531989 AAAGTATTTT
36531999 AAAAA-TATTTTAAAAATATTTTAAAATTAA
1 AAAAATTATTTTAAAAATATTTTAAAATTAA
36532029 AAAAATTATTTTAAAAATATTTTAAAATTAA
1 AAAAATTATTTTAAAAATATTTTAAAATTAA
36532060 AAAAAT
1 AAAAAT
36532066 AAATATATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 5 0.14
31 31 0.86
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (31 bp):
AAAAATTATTTTAAAAATATTTTAAAATTAA
Found at i:36532056 original size:52 final size:52
Alignment explanation
Indices: 36531924--36532056 Score: 164
Period size: 52 Copynumber: 2.6 Consensus size: 52
36531914 AATAAATACC
* ***
36531924 AAAAATTTATTTTAAAAAT-TAAAAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAAATTATTTTAAAAATATTTTAAAA-TATTTTAAAAATATTTTAAAATTA
**
36531976 AAAAAATTA--AAAAAAAGTATTTTAAAAATATTTTAAAAATATTTTAAAATTA
1 AAAAAATTATTTTAAAAA-TATTTT-AAAATATTTTAAAAATATTTTAAAATTA
36532028 AAAAAATTATTTTAAAAATATTTTAAAAT
1 AAAAAATTATTTTAAAAATATTTTAAAAT
36532057 TAAAAAAATA
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
50 5 0.07
51 1 0.01
52 47 0.69
53 10 0.15
54 5 0.07
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (52 bp):
AAAAAATTATTTTAAAAATATTTTAAAATATTTTAAAAATATTTTAAAATTA
Found at i:36535737 original size:21 final size:21
Alignment explanation
Indices: 36535713--36535755 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
36535703 CTAAACTTAG
*
36535713 CATCGCCTGAGGTTTGCCCAT
1 CATCGCCTAAGGTTTGCCCAT
36535734 CATCGCCTAAGGTTTGCCCAT
1 CATCGCCTAAGGTTTGCCCAT
36535755 C
1 C
36535756 GTCGTCCCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.35, G:0.21, T:0.28
Consensus pattern (21 bp):
CATCGCCTAAGGTTTGCCCAT
Found at i:36538626 original size:40 final size:39
Alignment explanation
Indices: 36538567--36538730 Score: 163
Period size: 40 Copynumber: 4.1 Consensus size: 39
36538557 CTTCTTTGAC
* * *
36538567 ACACAACTTGTCC-TTAGCTCACAGGGAAGTTGTGTTGAT
1 ACACAACTTATCCATAAGCTCACAGGGAAGTT-TGCTGAT
* * *
36538606 ACACAACTTATCTATAAGCTCACAGGGAAACTTTACTGAT
1 ACACAACTTATCCATAAGCTCACAGGG-AAGTTTGCTGAT
**
36538646 ACACAGTTTATCCATAAGCTCACA-GGAGAGCTTTGCTGAT
1 ACACAACTTATCCATAAGCTCACAGGGA-AG-TTTGCTGAT
* *
36538686 ACACAACTTATCCATAAACTCACATGGG-AGCTTTTCTGAT
1 ACACAACTTATCCATAAGCTCACA-GGGAAG-TTTGCTGAT
36538726 ACACA
1 ACACA
36538731 GCTTGGAAAA
Statistics
Matches: 104, Mismatches: 15, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 14 0.13
40 83 0.80
41 4 0.04
42 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.28
Consensus pattern (39 bp):
ACACAACTTATCCATAAGCTCACAGGGAAGTTTGCTGAT
Found at i:36541869 original size:37 final size:36
Alignment explanation
Indices: 36541794--36541893 Score: 107
Period size: 37 Copynumber: 2.8 Consensus size: 36
36541784 ATTAAGTTAT
* * *
36541794 TGATGTTCTAATTTACATGTTAAACATGTTAATATTC
1 TGATGTTCTGATTCACATGTTAAGCATG-TAATATTC
*
36541831 TGATGTTCCGATTCACATGTTAAGCATG-ACATATTTC
1 TGATGTTCTGATTCACATGTTAAGCATGTA-ATA-TTC
*
36541868 TGA--TTCTGATTCGCATGTTAAGCATG
1 TGATGTTCTGATTCACATGTTAAGCATG
36541894 CCACTGTGAT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
35 22 0.40
36 3 0.05
37 30 0.55
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (36 bp):
TGATGTTCTGATTCACATGTTAAGCATGTAATATTC
Found at i:36544342 original size:44 final size:44
Alignment explanation
Indices: 36544273--36544394 Score: 128
Period size: 43 Copynumber: 2.8 Consensus size: 44
36544263 TTTGATATGT
* *
36544273 GATTT-CGTGTAAGACCACG-CTTGGGACGTTGGTATCGAT-TTGA
1 GATTTACGTGTAAGACCTCGTC-TGGGACGTTGGCATCGATATT-A
* *
36544316 GATTTACGTGTAAGACCTTGTCTGGGACAG-TGGCATCGATATTT
1 GATTTACGTGTAAGACCTCGTCTGGGAC-GTTGGCATCGATATTA
* *
36544360 GA-TTACATGTAAAACCTCGTCTGGGACGTTGGCAT
1 GATTTACGTGTAAGACCTCGTCTGGGACGTTGGCAT
36544395 TATACTAGCT
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
42 1 0.01
43 33 0.49
44 29 0.43
45 4 0.06
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (44 bp):
GATTTACGTGTAAGACCTCGTCTGGGACGTTGGCATCGATATTA
Found at i:36550661 original size:50 final size:50
Alignment explanation
Indices: 36550517--36551000 Score: 573
Period size: 50 Copynumber: 9.6 Consensus size: 50
36550507 CGATCTCGTA
* * * * * *
36550517 TAAGACCATGTCTGGGACATGGCATCGACATCAATATGTGA-G--CCAGTG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA-TG
* ** * *
36550565 TAAGACCATGTCTGGGACATGTCATTGGCATTATTGAAATTATGAGAGGTCTCATG
1 TAAGACCATGTCTGGGACATGGCATTGGC---ACCG--A-GATGAGAGGTCCCATG
* * *
36550621 TAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCATA
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATG
* * *
36550671 TAAGACTATGTCTAGGACATGGCATTGGCACCGAGATGAGAGGTCTCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATG
*
36550721 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCTATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATG
36550771 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATG
* *
36550821 TAAGACCATGTCTGGGACATGACGTTGGCACCGAGATGAGAGGTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATG
* *
36550871 TAAGACCATGTCTGGAACATGGCGTTGGCACCGAGATGAGAGGTCTCCCA--
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG--TCCCATG
* * * * **
36550921 TAAGACCATGTCTAGGACATAGCATGGGCACCGATATGAGAACTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATG
* * *
36550971 TAAGACCATATTTGGGATATGGCATTGGCA
1 TAAGACCATGTCTGGGACATGGCATTGGCA
36551001 GTACAGAAAA
Statistics
Matches: 379, Mismatches: 44, Indels: 24
0.85 0.10 0.05
Matches are distributed among these distances:
48 31 0.08
50 300 0.79
51 3 0.01
52 5 0.01
53 2 0.01
54 6 0.02
55 1 0.00
56 29 0.08
57 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATG
Found at i:36552010 original size:25 final size:25
Alignment explanation
Indices: 36551951--36551998 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
36551941 GGAGTTTAGC
*
36551951 GTGCTCTCTGATTGTTAGCACATCA
1 GTGCTCTCTGATTATTAGCACATCA
36551976 GTGCTCTCTGATTATTAGCACAT
1 GTGCTCTCTGATTATTAGCACAT
36551999 TTATGTTCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (25 bp):
GTGCTCTCTGATTATTAGCACATCA
Found at i:36557257 original size:31 final size:32
Alignment explanation
Indices: 36557222--36557291 Score: 92
Period size: 29 Copynumber: 2.3 Consensus size: 32
36557212 ACATGAACTA
* *
36557222 TGATTTAATGTGTAATTATATACAT-AAATTT
1 TGATTTAATGTATAATTATATACATAAAATCT
*
36557253 TGATTT--TGTATAATTTTATACATAAAATCT
1 TGATTTAATGTATAATTATATACATAAAATCT
36557283 TGATTTAAT
1 TGATTTAAT
36557292 CCAATTCTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
29 15 0.45
30 11 0.33
31 6 0.18
32 1 0.03
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.50
Consensus pattern (32 bp):
TGATTTAATGTATAATTATATACATAAAATCT
Found at i:36559728 original size:10 final size:10
Alignment explanation
Indices: 36559700--36559733 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
36559690 TATTTTCGAG
36559700 TTAATGGAAA
1 TTAATGGAAA
36559710 TTAACTGGAAA
1 TTAA-TGGAAA
36559721 TTAATGGAAA
1 TTAATGGAAA
36559731 TTA
1 TTA
36559734 CTATCGTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.47, C:0.03, G:0.18, T:0.32
Consensus pattern (10 bp):
TTAATGGAAA
Found at i:36564388 original size:94 final size:94
Alignment explanation
Indices: 36564249--36564718 Score: 475
Period size: 94 Copynumber: 4.9 Consensus size: 94
36564239 ATATTCGGTA
* * * * * * *
36564249 TTTTT-ACTATTTATGTTAAATAAAAAGGGTTAA-GGAAGAGGTGTGCTCAATTATCAAATAGAT
1 TTTTTGACCATTTATGTTAAACAAAGAGTG-TAAGGGAGGGGGTGTGCTCAATTATCAAATAGGT
* * *
36564312 AAATTAAAAGAGTTTGATGAAAAATT-TAGTT
65 AAATTTAAAGAGTATGATGAAAAATTCCA--T
* * * * * *
36564343 TTTTTTATCGTTTATGTTAAATAATGAGTGAAAGGGA-GGGGTGTGCTCAATTATCAAATAGGTA
1 TTTTTGACCATTTATGTTAAACAAAGAGTGTAAGGGAGGGGGTGTGCTCAATTATCAAATAGGTA
*
36564407 AATTTAAAGTGTATGATGAAAAATTCCAT
66 AATTTAAAGAGTATGATGAAAAATTCCAT
* * * * * * *
36564436 TTTTTTACCATTTTTGTTAAATAAAGAATGTAAGGAAGGGGGTGTGCTAAATTATCAAATAAGTA
1 TTTTTGACCATTTATGTTAAACAAAGAGTGTAAGGGAGGGGGTGTGCTCAATTATCAAATAGGTA
*
36564501 AATTTAAAGAGTCTTGATGAAAAATT-CAGTT
66 AATTTAAAGAGT-ATGATGAAAAATTCCA--T
* *
36564532 TTTTTGACCATTTATGCTACACAAAGAGTGTAAGGGAGGGGGTGTGCTCATTGCTCAATTATCAA
1 TTTTTGACCATTTATGTTAAACAAAGAGTGTAAGGGA-GGGG-GTG-----TGCTCAATTATCAA
*
36564597 ATAGGTAAATTTAAAGAGTATGATGAAAAGTTCCAT
59 ATAGGTAAATTTAAAGAGTATGATGAAAAATTCCAT
* * *
36564633 TTTTTGGCCATTT-TGTTAAACAAAGAGTGTAAGGGAGGGGGTGTGCTAAATTATAAAATAGGTA
1 TTTTTGACCATTTATGTTAAACAAAGAGTGTAAGGGAGGGGGTGTGCTCAATTATCAAATAGGTA
* * *
36564697 AATTAAAATAGTGTGATGAAAA
66 AATTTAAAGAGTATGATGAAAA
36564719 TTTTGGTTGT
Statistics
Matches: 318, Mismatches: 43, Indels: 31
0.81 0.11 0.08
Matches are distributed among these distances:
93 69 0.22
94 92 0.29
95 34 0.11
96 31 0.10
97 4 0.01
98 6 0.02
99 4 0.01
100 21 0.07
101 13 0.04
102 11 0.03
103 33 0.10
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.34
Consensus pattern (94 bp):
TTTTTGACCATTTATGTTAAACAAAGAGTGTAAGGGAGGGGGTGTGCTCAATTATCAAATAGGTA
AATTTAAAGAGTATGATGAAAAATTCCAT
Found at i:36570783 original size:17 final size:17
Alignment explanation
Indices: 36570761--36570803 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
36570751 CCGTGTAGTT
36570761 GGCCGTGTGCGGGACAC
1 GGCCGTGTGCGGGACAC
36570778 GGCCGTGTGCGGGACAC
1 GGCCGTGTGCGGGACAC
36570795 GGCCGTGTG
1 GGCCGTGTG
36570804 ACTGACGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.09, C:0.28, G:0.49, T:0.14
Consensus pattern (17 bp):
GGCCGTGTGCGGGACAC
Found at i:36586663 original size:21 final size:20
Alignment explanation
Indices: 36586628--36586666 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
36586618 GAAGAGGATA
*
36586628 GAAAGTAAAATAAAAAAAAG
1 GAAAGTAAAAGAAAAAAAAG
36586648 GAAAGTTAAAAGAAAAAAA
1 GAAAG-TAAAAGAAAAAAA
36586667 TTAAATTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.10
Consensus pattern (20 bp):
GAAAGTAAAAGAAAAAAAAG
Found at i:36593743 original size:109 final size:109
Alignment explanation
Indices: 36593423--36593760 Score: 529
Period size: 108 Copynumber: 3.1 Consensus size: 109
36593413 TGGATTAAAA
* *
36593423 TTTAGAAGGATATTTGGCTATTTGGTCGAACGAG--AAACCGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
* *
36593486 TTTCTCGAATTTCCAAACGCAAAACAGTGCCTTATTTTGAAAAT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
* * * *
36593530 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAAAAAAATCGAACCCCAGCA-ACTAGGGCCCGT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
*
36593594 TTTCTCAAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
* * *
36593638 TTTGAAAGGATATTTGGTTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTTGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
*
36593703 TTTCTCGAATTTCCAAACGTAAAACATTGCCTTATTTTGAAATT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
*
36593747 TTTTAAAGGATATT
1 TTTAAAAGGATATT
36593761 AGTATGCGTA
Statistics
Matches: 209, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
107 32 0.15
108 99 0.47
109 78 0.37
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (109 bp):
TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
Found at i:36594066 original size:14 final size:15
Alignment explanation
Indices: 36594033--36594068 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
36594023 TATATATTTC
36594033 AAAAT-TAT-TATAT
1 AAAATATATGTATAT
36594046 AAAATATATGTATAT
1 AAAATATATGTATAT
36594061 -AAATATAT
1 AAAATATAT
36594069 AAGTAAGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.24
14 11 0.52
15 5 0.24
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
AAAATATATGTATAT
Found at i:36595996 original size:44 final size:43
Alignment explanation
Indices: 36595922--36596206 Score: 201
Period size: 44 Copynumber: 6.6 Consensus size: 43
36595912 GTGGTTTTAG
*
36595922 TCTGCTCCACTGCAACCTCAGGGA-AGTAAGACTTGTATCTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGA-TAAGACTTGTAT-TTCAA
* *
36595966 CCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTG-ATTT-GA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATTTCAA
* * * * *
36596006 TCTGCTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-T-G-TATTTCAA
* * * **
36596053 TCTGC-CCTACTGCAACTTCAAGGAGATAGGA-TTGGTTTCTTCTG
1 TCTGCTCC-ACTGCAACTTCAGGGAGATAAGACTT-GTAT-TTCAA
* * * * *
36596097 TCTGCTCCACTGTAACTACAGGAAGATAAGAC-TGGA-TTCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATTTCAA
* * * *
36596138 TCTGCTCTACTGCAACTTCAGAGAGATAAGGTCTGTGT-TTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAA-GACT-TGTATTTCAA
*
36596182 TCCGCTCCACTGCAACTTCAGGGAG
1 TCTGCTCCACTGCAACTTCAGGGAG
36596207 GTAGGATTGG
Statistics
Matches: 187, Mismatches: 38, Indels: 32
0.73 0.15 0.12
Matches are distributed among these distances:
40 28 0.15
41 29 0.16
42 5 0.03
43 8 0.04
44 84 0.45
45 4 0.02
46 4 0.02
47 25 0.13
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATTTCAA
Found at i:36596256 original size:129 final size:131
Alignment explanation
Indices: 36595974--36596238 Score: 349
Period size: 129 Copynumber: 2.0 Consensus size: 131
36595964 AACCTGCTCC
* * * * *
36595974 ACTGCAACTTCAGGGAGATAAGA-TTGATTTGATCTGCTCTACTGCAACTTCAGAGAGATGAGAT
1 ACTGCAACTACAGGAAGATAAGACTGGATTCGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
* * **
36596038 CTGTGGTTTTTTTAATCTGCCCTACTGCAACTTCAAGGAGATAGGATTGGTTTCTTCTGTCTGCT
66 CTGTGG-TTTTTTAATCCGCCCTACTGCAACTTCAAGGAGATAGGATTGGTTTCTTCTGCCTAAT
*
36596103 CC
130 CA
* *
36596105 ACTGTAACTACAGGAAGATAAGACTGGATTCGATCTGCTCTACTGCAACTTCAGAGAGATAAGGT
1 ACTGCAACTACAGGAAGATAAGACTGGATTCGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
* *
36596170 CTGT-G-TTTTTAATCCGCTCC-ACTGCAACTTCAGGGAGGTAGGATTGGTTTCTTCTGCCTAAT
66 CTGTGGTTTTTTAATCCGC-CCTACTGCAACTTCAAGGAGATAGGATTGGTTTCTTCTGCCTAAT
*
36596232 TA
130 CA
36596234 ACTGC
1 ACTGC
36596239 GATGTCGGGG
Statistics
Matches: 116, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
129 52 0.45
130 2 0.02
131 21 0.18
132 41 0.35
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (131 bp):
ACTGCAACTACAGGAAGATAAGACTGGATTCGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
CTGTGGTTTTTTAATCCGCCCTACTGCAACTTCAAGGAGATAGGATTGGTTTCTTCTGCCTAATC
A
Found at i:36602236 original size:14 final size:15
Alignment explanation
Indices: 36602212--36602240 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
36602202 TTTTTCTGTG
36602212 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
36602227 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
36602241 AGTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:36611446 original size:109 final size:109
Alignment explanation
Indices: 36611277--36611715 Score: 731
Period size: 109 Copynumber: 4.1 Consensus size: 109
36611267 AATTTAGAAT
* *
36611277 GATATTTGGCTATTTGGTCGAACGAG--AAACCGAAACCCAGCACATTAGGGCACGTTTTCTCAA
1 GATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGA
*
36611340 ATTTCCAAACGCAAAACATTGCTTTATTTTGAAATTTTTAAAAG
66 ATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAAAG
* *
36611384 GATATTTGGCTATTTGGTCGAACGAGAAAAATTGAAACCCAGCACATTAGGGAACGTTTTCTCGA
1 GATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGA
*
36611449 ATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAAAG
66 ATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAAAG
* * * *
36611493 GATATTTGGCTATTTGGTTGAATGAGAAAAATCGAAACCTAGCACATTAGGGCATGTTTTCTCGA
1 GATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGA
*
36611558 ATTTCCAAACGCAAAACATTGCCTTATTGTGAAATTTTTAAAAG
66 ATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAAAG
* *
36611602 GATATTTGGCTATTTGGTCGAACGAAAAAAATCGAAACCCAGCACATTTGGGCACGTTTTCTCGA
1 GATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGA
*
36611667 ATTTCCAAACGCAAAACATTGCCTTATTTTG-AATTTTTTAAAG
66 ATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAAAG
36611710 GATATT
1 GATATT
36611716 AGTATGCGTA
Statistics
Matches: 308, Mismatches: 22, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
107 26 0.08
108 17 0.06
109 265 0.86
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (109 bp):
GATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGA
ATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAAAG
Found at i:36612021 original size:14 final size:15
Alignment explanation
Indices: 36611988--36612023 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
36611978 TATATATTTC
36611988 AAAAT-TAT-TATAT
1 AAAATATATGTATAT
36612001 AAAATATATGTATAT
1 AAAATATATGTATAT
36612016 -AAATATAT
1 AAAATATAT
36612024 AAGTAAGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.24
14 11 0.52
15 5 0.24
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
AAAATATATGTATAT
Found at i:36612296 original size:7 final size:7
Alignment explanation
Indices: 36612284--36612315 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
36612274 TATATATAAC
36612284 AAAATTT
1 AAAATTT
36612291 AAAATTT
1 AAAATTT
36612298 AAAATTT
1 AAAATTT
36612305 AAAATTT
1 AAAATTT
36612312 AAAA
1 AAAA
36612316 AGTATAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AAAATTT
Found at i:36617246 original size:25 final size:25
Alignment explanation
Indices: 36617180--36617248 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 25
36617170 TCTTGTACAA
* *
36617180 GTATGCTCACACGAGCCGTAAATCG
1 GTATGCTCTCACGAGCTGTAAATCG
* **
36617205 ATATGCTCTCAAAAGCTGTAAATCG
1 GTATGCTCTCACGAGCTGTAAATCG
36617230 GTATGCTCTCACGAGCTGT
1 GTATGCTCTCACGAGCTGT
36617249 GGGTCGAAAC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.26
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTGTAAATCG
Found at i:36618952 original size:9 final size:9
Alignment explanation
Indices: 36618938--36618963 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
36618928 AACAAAACAT
36618938 AAAAATTTA
1 AAAAATTTA
36618947 AAAAATTTA
1 AAAAATTTA
36618956 AAAAATTT
1 AAAAATTT
36618964 TAGAAACAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
AAAAATTTA
Found at i:36624285 original size:18 final size:18
Alignment explanation
Indices: 36624262--36624321 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
36624252 CTGTCCCTTA
36624262 TTCCTCACATACATCTTC
1 TTCCTCACATACATCTTC
*
36624280 TTCCTCGGTCAT--ATCTTC
1 TTCCTC--ACATACATCTTC
*
36624298 TTCCTTATC-TACATCTTC
1 TTCCTCA-CATACATCTTC
36624316 TTCCTC
1 TTCCTC
36624322 GATTGCATCT
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
16 1 0.03
17 1 0.03
18 28 0.85
20 3 0.09
ACGTcount: A:0.15, C:0.37, G:0.03, T:0.45
Consensus pattern (18 bp):
TTCCTCACATACATCTTC
Found at i:36624330 original size:18 final size:18
Alignment explanation
Indices: 36624271--36624333 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 18
36624261 ATTCCTCACA
*
36624271 TACATCTTCTTCCTCGGT
1 TACATCTTCTTCCTCGAT
* * *
36624289 CATATCTTCTTCCT-TAT
1 TACATCTTCTTCCTCGAT
36624306 CTACATCTTCTTCCTCGAT
1 -TACATCTTCTTCCTCGAT
*
36624325 TGCATCTTC
1 TACATCTTC
36624334 ATCATCATCT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
17 1 0.03
18 32 0.91
19 2 0.06
ACGTcount: A:0.14, C:0.33, G:0.06, T:0.46
Consensus pattern (18 bp):
TACATCTTCTTCCTCGAT
Found at i:36624344 original size:36 final size:36
Alignment explanation
Indices: 36624271--36624344 Score: 85
Period size: 36 Copynumber: 2.1 Consensus size: 36
36624261 ATTCCTCACA
* * * * *
36624271 TACATCTTCTTCCTCGGTCATATCTTCTTCCTTATC
1 TACATCTTCTTCCTCGATCACATCTTCATCATCATC
**
36624307 TACATCTTCTTCCTCGATTGCATCTTCATCATCATC
1 TACATCTTCTTCCTCGATCACATCTTCATCATCATC
36624343 TA
1 TA
36624345 TGCCTTTATT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.18, C:0.32, G:0.05, T:0.45
Consensus pattern (36 bp):
TACATCTTCTTCCTCGATCACATCTTCATCATCATC
Found at i:36625697 original size:22 final size:21
Alignment explanation
Indices: 36625630--36625702 Score: 57
Period size: 22 Copynumber: 3.5 Consensus size: 21
36625620 ATATGAGTAT
36625630 TGTGATATATGCTTAAAAGTTA
1 TGTGATATATGCTTAAAA-TTA
**
36625652 TGTGATTATATG---AGCA-T-
1 TGTGA-TATATGCTTAAAATTA
36625669 TGTGATATATGCTTAAAATTTA
1 TGTGATATATGCTTAAAA-TTA
36625691 TGTGATAATATG
1 TGTGAT-ATATG
36625703 TGTAATGCGA
Statistics
Matches: 39, Mismatches: 4, Indels: 15
0.67 0.07 0.26
Matches are distributed among these distances:
16 6 0.15
17 5 0.13
18 1 0.03
19 2 0.05
20 2 0.05
21 1 0.03
22 11 0.28
23 11 0.28
ACGTcount: A:0.34, C:0.04, G:0.19, T:0.42
Consensus pattern (21 bp):
TGTGATATATGCTTAAAATTA
Found at i:36625725 original size:39 final size:39
Alignment explanation
Indices: 36625584--36625725 Score: 196
Period size: 39 Copynumber: 3.6 Consensus size: 39
36625574 AACATGTTTT
* *
36625584 TGAGTATTATGATATATGCTT-GAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAAAT-TTATGTGATTATA
*
36625623 TGAGTATTGTGATATATGCTTAAAAGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAAATTTATGTGATTATA
* *
36625662 TGAGCATTGTGATATATGCTTAAAATTTATGTGATAATA
1 TGAGTATTGTGATATATGCTTAAAATTTATGTGATTATA
* * *
36625701 TGTGTAATGCGATATATGCTTAAAA
1 TGAGTATTGTGATATATGCTTAAAA
36625726 GTGAATATGA
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 90 0.98
40 2 0.02
ACGTcount: A:0.34, C:0.04, G:0.20, T:0.42
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAAATTTATGTGATTATA
Found at i:36628313 original size:21 final size:21
Alignment explanation
Indices: 36628271--36628314 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
36628261 CTCCTACTAG
* **
36628271 TTAGGGTTTGGGGTTTTTGGT
1 TTAGGGTTAGGGGTTTGGGGT
*
36628292 TTAGGGTTAGGGTTTTGGGGT
1 TTAGGGTTAGGGGTTTGGGGT
36628313 TT
1 TT
36628315 TTAGGTTTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.07, C:0.00, G:0.43, T:0.50
Consensus pattern (21 bp):
TTAGGGTTAGGGGTTTGGGGT
Found at i:36628560 original size:97 final size:96
Alignment explanation
Indices: 36628357--36628660 Score: 348
Period size: 97 Copynumber: 3.2 Consensus size: 96
36628347 AAATAAGAGT
** * * * * * * *
36628357 TTAGGGTTTAGGGTTTTTTAATTAAATTAATTATAAAATTTT-CAAAACTGGATTAG-GTTT-TG
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAGAGTTTAAG
* * * * *
36628419 TGTTTATGGTTTTTAAAGAAAAAATTAATTAAA
66 -GTTAAGGGTTTTT-AAGGAAAAATCAAATAAA
36628452 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTA-AAATTTTTTAAAAAAATTAGATTA-AGGTTT
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAA-TTTTT-AAAAAATTAGATTAGA-GTTT
*
36628515 AATGTTAAGGGTTTTTAAGGAAAAATCAAATAAA
63 AAGGTTAAGGGTTTTTAAGGAAAAATCAAATAAA
* *
36628549 TTCGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAGAGTTTAGG
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAGAGTTTAAG
*
36628614 GTTTAGGGTTTTTAAGGAAAAACTCAAATAAA
66 GTTAAGGGTTTTTAAGGAAAAA-TCAAATAAA
*
36628646 TTAGGGTTTGGGGTT
1 TTAGGGTTTAGGGTT
36628661 TAGGGTTAGT
Statistics
Matches: 179, Mismatches: 21, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
94 3 0.02
95 33 0.18
96 40 0.22
97 85 0.47
98 18 0.10
ACGTcount: A:0.38, C:0.03, G:0.19, T:0.41
Consensus pattern (96 bp):
TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAGAGTTTAAG
GTTAAGGGTTTTTAAGGAAAAATCAAATAAA
Found at i:36628922 original size:126 final size:126
Alignment explanation
Indices: 36628693--36628987 Score: 430
Period size: 126 Copynumber: 2.3 Consensus size: 126
36628683 TTGTTAATTT
* * *
36628693 AAAAAAGCTCCCATGTGGATGCTCTTTTACTACAGTAG-TCCTGAAAAAATAATTTTGAGAAGAC
1 AAAAAAGCTCCCACGTGGATGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGAAGAC
* **
36628757 GATTCTGAGAAAATAGTGTCAAAAACGCTTTAAGTAGGATGCATCGTCAACAAAAGTACTG
66 GATTCTAAGAAAATAGTGTCAAAAACGCTTTAAACAGGATGCATCGTCAACAAAAGTACTG
* * * *
36628818 AAAGAAGCTCCCACGTAGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGAC
1 AAAAAAGCTCCCACGTGGATGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGAAGAC
* * * * * *
36628883 GTTTCTAAGCAAATAGTGTCAAAAACGTTTTAAACAGGATGCTTTGTCAGCAAAAGTACTG
66 GATTCTAAGAAAATAGTGTCAAAAACGCTTTAAACAGGATGCATCGTCAACAAAAGTACTG
*
36628944 AAAAAAGCTCCCACGTGGATGCGCTTTTGCTACAGTAGCTCCTG
1 AAAAAAGCTCCCACGTGGATGCACTTTTGCTACAGTAGCTCCTG
36628988 TTTGGCCTGA
Statistics
Matches: 149, Mismatches: 20, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
125 32 0.21
126 117 0.79
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (126 bp):
AAAAAAGCTCCCACGTGGATGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGAAGAC
GATTCTAAGAAAATAGTGTCAAAAACGCTTTAAACAGGATGCATCGTCAACAAAAGTACTG
Found at i:36632177 original size:35 final size:34
Alignment explanation
Indices: 36632162--36632229 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
36632152 TGTAAAAGTA
* *
36632162 AATTTCTCTTTTATTACATGAAATAATATAGAAG
1 AATTTCTATTTTATTACATGAAATAATATAAAAG
*
36632196 AATTTCTATTTTATTACATCAAATAATATCAAAA
1 AATTTCTATTTTATTACATGAAATAATAT-AAAA
36632230 TATTCAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 27 0.90
35 3 0.10
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.41
Consensus pattern (34 bp):
AATTTCTATTTTATTACATGAAATAATATAAAAG
Found at i:36632362 original size:21 final size:21
Alignment explanation
Indices: 36632338--36632378 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
36632328 AGCTTCTGGT
* *
36632338 GGGGGTTGTGGTTGCTCCGGC
1 GGGGATTGTGGTTCCTCCGGC
*
36632359 GGGGATTTTGGTTCCTCCGG
1 GGGGATTGTGGTTCCTCCGG
36632379 TAGGGGATCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.02, C:0.20, G:0.46, T:0.32
Consensus pattern (21 bp):
GGGGATTGTGGTTCCTCCGGC
Found at i:36633300 original size:7 final size:7
Alignment explanation
Indices: 36633288--36633312 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
36633278 TATTAGTTAT
36633288 ATACATA
1 ATACATA
36633295 ATACATA
1 ATACATA
36633302 ATACATA
1 ATACATA
36633309 ATAC
1 ATAC
36633313 TAAATACTAA
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:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (7 bp):
ATACATA
Found at i:36633318 original size:7 final size:7
Alignment explanation
Indices: 36633308--36633333 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
36633298 CATAATACAT
36633308 AATACTA
1 AATACTA
36633315 AATACTA
1 AATACTA
36633322 AATACTA
1 AATACTA
36633329 AATAC
1 AATAC
36633334 CAATCGACTA
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:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:36633318 original size:14 final size:14
Alignment explanation
Indices: 36633288--36633333 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
36633278 TATTAGTTAT
36633288 ATACATAATAC-ATA
1 ATACATAATACTA-A
36633302 ATACATAATACTAA
1 ATACATAATACTAA
36633316 ATAC-TAAATACTAA
1 ATACAT-AATACTAA
36633330 ATAC
1 ATAC
36633334 CAATCGACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.03
14 28 0.93
15 1 0.03
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (14 bp):
ATACATAATACTAA
Found at i:36635866 original size:35 final size:34
Alignment explanation
Indices: 36635851--36635918 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
36635841 TGTAAAAGTA
* *
36635851 AATTTCTCTTTTATTACATGAAATAATATAGAAG
1 AATTTCTATTTTATTACATGAAATAATATAAAAG
*
36635885 AATTTCTATTTTATTACATCAAATAATATCAAAA
1 AATTTCTATTTTATTACATGAAATAATAT-AAAA
36635919 TATTCAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 27 0.90
35 3 0.10
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.41
Consensus pattern (34 bp):
AATTTCTATTTTATTACATGAAATAATATAAAAG
Found at i:36636051 original size:21 final size:21
Alignment explanation
Indices: 36636027--36636067 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
36636017 AGCTTCTGGT
* *
36636027 GGGGGTTGTGGTTGCTCCGGC
1 GGGGATTGTGGTTCCTCCGGC
*
36636048 GGGGATTTTGGTTCCTCCGG
1 GGGGATTGTGGTTCCTCCGG
36636068 TAGGGGATCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.02, C:0.20, G:0.46, T:0.32
Consensus pattern (21 bp):
GGGGATTGTGGTTCCTCCGGC
Found at i:36636469 original size:29 final size:30
Alignment explanation
Indices: 36636423--36636491 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 30
36636413 GTGTCAGTGC
*
36636423 TGTTGCTGGGCCTGGTGATTGTATGGGC-A
1 TGTTGATGGGCCTGGTGATTGTATGGGCGA
* *
36636452 TGTTGATGGGCC-GAGTGATTGTGTGGGCGT
1 TGTTGATGGGCCTG-GTGATTGTATGGGCGA
36636482 TGTTGATGGG
1 TGTTGATGGG
36636492 TCTGCGTCGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
28 1 0.03
29 24 0.69
30 10 0.29
ACGTcount: A:0.10, C:0.10, G:0.45, T:0.35
Consensus pattern (30 bp):
TGTTGATGGGCCTGGTGATTGTATGGGCGA
Found at i:36638159 original size:20 final size:21
Alignment explanation
Indices: 36638134--36638173 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
36638124 TCAAAAAAAT
36638134 AAAATT-AAGCTTTTTTTAAA
1 AAAATTAAAGCTTTTTTTAAA
36638154 AAAATTAAAGCTTTTTTTAA
1 AAAATTAAAGCTTTTTTTAA
36638174 GAGGAATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (21 bp):
AAAATTAAAGCTTTTTTTAAA
Found at i:36639538 original size:17 final size:17
Alignment explanation
Indices: 36639516--36639552 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
36639506 ATTCTCTTGA
36639516 CTTCCACTATTCATAAC
1 CTTCCACTATTCATAAC
36639533 CTTCCACTATTCATAAC
1 CTTCCACTATTCATAAC
36639550 CTT
1 CTT
36639553 TGACTCTCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.27, C:0.35, G:0.00, T:0.38
Consensus pattern (17 bp):
CTTCCACTATTCATAAC
Found at i:36643301 original size:3 final size:3
Alignment explanation
Indices: 36643293--36643345 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
36643283 ACCAACAAAC
36643293 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
36643341 ATA AT
1 ATA AT
36643346 CTGACATTAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:36643680 original size:21 final size:21
Alignment explanation
Indices: 36643641--36643681 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
36643631 TTAAAATATT
*
36643641 AATAAATTTTCATATATTTTC
1 AATAAATTTTCATAGATTTTC
36643662 AATAAATTGTTC-TAGATTTT
1 AATAAATT-TTCATAGATTTT
36643682 TCATTGCTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (21 bp):
AATAAATTTTCATAGATTTTC
Found at i:36645518 original size:25 final size:25
Alignment explanation
Indices: 36645453--36645537 Score: 111
Period size: 25 Copynumber: 3.5 Consensus size: 25
36645443 ATTATATATT
*
36645453 AAATATAT-TTTTTTAATTTTAATC
1 AAATATATATTTTTTATTTTTAATC
36645477 AAATATATATTTTTTATTTTTAATC
1 AAATATATATTTTTTATTTTTAATC
* * * *
36645502 AAATATATATATTTTATATAT-ATT
1 AAATATATATTTTTTATTTTTAATC
36645526 AAATATATATTT
1 AAATATATATTT
36645538 AATATGGGCC
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
24 21 0.39
25 33 0.61
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (25 bp):
AAATATATATTTTTTATTTTTAATC
Found at i:36645521 original size:11 final size:11
Alignment explanation
Indices: 36645506--36645542 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
36645496 TTAATCAAAT
*
36645506 ATATATATTTT
1 ATATATATTTA
*
36645517 ATATATATTAA
1 ATATATATTTA
36645528 ATATATATTTA
1 ATATATATTTA
36645539 ATAT
1 ATAT
36645543 GGGCCCAGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
ATATATATTTA
Found at i:36664446 original size:132 final size:132
Alignment explanation
Indices: 36664209--36664900 Score: 1197
Period size: 132 Copynumber: 5.2 Consensus size: 132
36664199 GGTAACCAGT
36664209 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
*
36664274 TGGGAAACAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTG
66 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTG
36664339 TA
131 TA
* * *
36664341 GATCTTATTTCCCTAAGCAGTAGTGGAGCAGATCGAAGGCGGTGAATCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
* * * *
36664406 TGGGAAGCAGATTTGAGCCACCAAGCCTTGTTTTCCTGAGCAGTAGTGGAGAAGGTTGAAGATTG
66 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTG
36664471 TA
131 TA
36664473 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
*
36664538 TGGGAAGTAGATTTGAA-CCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATT
66 TGGGAAGCAGATTT-AAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATT
36664602 GTA
130 GTA
* *
36664605 GATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACGGTGAATCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
36664670 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTG
66 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTG
36664735 TA
131 TA
36664737 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
*
36664802 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCTTGAGCAGCAGTGGAGAAGGTTGAAGATTG
66 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTG
36664867 TA
131 TA
* **
36664869 TCTAGTCTTATCTCCCTGAAGTGGTAGTGGAG
1 --GA-TCTTATCTCCCT-AAGCAGTAGTGGAG
36664901 TGGATTAAAA
Statistics
Matches: 529, Mismatches: 25, Indels: 8
0.94 0.04 0.01
Matches are distributed among these distances:
131 2 0.00
132 501 0.95
133 1 0.00
134 1 0.00
135 12 0.02
136 12 0.02
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (132 bp):
GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTG
TA
Found at i:36665134 original size:45 final size:43
Alignment explanation
Indices: 36665059--36665175 Score: 121
Period size: 44 Copynumber: 2.6 Consensus size: 43
36665049 AAGCCAGAAG
* *
36665059 TCTTATCCTCCTGAAGTCGCAGT-GAGGCAGACTGAAGAT-GGCAAA
1 TCTTAT-CTCCTGAAGTTGCAGTGGA-GCAGACTAAAG-TCGG-AAA
* *
36665104 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGTCGGTAA
1 TCTTATCTCC-TGAAGTTGCAGTGGAGCAGACTAAAGTCGGAAA
*
36665148 TCCTATCTCCCTGAAGTTGCAGTGGAGC
1 TCTTATCT-CCTGAAGTTGCAGTGGAGC
36665176 GGATTAAAAC
Statistics
Matches: 63, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
44 31 0.49
45 30 0.48
46 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (43 bp):
TCTTATCTCCTGAAGTTGCAGTGGAGCAGACTAAAGTCGGAAA
Found at i:36665199 original size:44 final size:43
Alignment explanation
Indices: 36665102--36665264 Score: 129
Period size: 44 Copynumber: 3.8 Consensus size: 43
36665092 GAAGATGGCA
* *
36665102 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGTCGG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAACTCGG
* * *
36665145 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGG
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAA-CTCGG
* * * * *** *
36665191 -ATCTTATCTCTCTGAAGTTACAG-AGAGTAGATCGCA-TC-T
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAACTCGG
*
36665230 ATTCTTATCTCCCTG-AGATTGCAGTGGAGCAGATT
1 AATCTTATCTCCCTGAAG-TTGCAGTGGAGCAGATT
36665265 GGGCAAGTAT
Statistics
Matches: 92, Mismatches: 22, Indels: 13
0.72 0.17 0.10
Matches are distributed among these distances:
39 2 0.02
40 18 0.20
41 7 0.08
42 1 0.01
43 6 0.07
44 52 0.57
45 3 0.03
46 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAACTCGG
Found at i:36682655 original size:14 final size:14
Alignment explanation
Indices: 36682633--36682663 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
36682623 TTAATGTCTG
36682633 TTTGGTTGATTGAA
1 TTTGGTTGATTGAA
*
36682647 TTTGTTTGATTGAA
1 TTTGGTTGATTGAA
36682661 TTT
1 TTT
36682664 ATTAAATGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.23, T:0.58
Consensus pattern (14 bp):
TTTGGTTGATTGAA
Found at i:36684529 original size:26 final size:26
Alignment explanation
Indices: 36684500--36684559 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
36684490 CCATATTTTC
* *
36684500 TCAAAATTTTACTAGGGGCAAAATCG
1 TCAAAATTTTACCAAGGGCAAAATCG
*
36684526 TCAAAATTTTACCAAGGGTAAAATCG
1 TCAAAATTTTACCAAGGGCAAAATCG
36684552 TCAAAATT
1 TCAAAATT
36684560 AAGCTGGGGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (26 bp):
TCAAAATTTTACCAAGGGCAAAATCG
Found at i:36689780 original size:17 final size:17
Alignment explanation
Indices: 36689758--36689791 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
36689748 ATACTTATGT
36689758 TATTCAATTTAACCCAA
1 TATTCAATTTAACCCAA
36689775 TATTCAATTTAACCCAA
1 TATTCAATTTAACCCAA
36689792 ACTCATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.35
Consensus pattern (17 bp):
TATTCAATTTAACCCAA
Found at i:36689801 original size:17 final size:17
Alignment explanation
Indices: 36689761--36689801 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
36689751 CTTATGTTAT
*
36689761 TCAATTTAACCCAATAT
1 TCAATTTAACCCAATAC
36689778 TCAATTTAACCCAA-AC
1 TCAATTTAACCCAATAC
36689794 TCATATTT
1 TCA-ATTT
36689802 TATCAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (17 bp):
TCAATTTAACCCAATAC
Found at i:36692495 original size:3 final size:3
Alignment explanation
Indices: 36692487--36692557 Score: 142
Period size: 3 Copynumber: 23.7 Consensus size: 3
36692477 TATGGGTAGC
36692487 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
36692535 TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TC
36692558 CCTTCATGGT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:36698575 original size:19 final size:19
Alignment explanation
Indices: 36698551--36698587 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
36698541 TCAACTTTTA
36698551 AAAATTTATTAAAAAATAT
1 AAAATTTATTAAAAAATAT
36698570 AAAATTTATTAAAAAATA
1 AAAATTTATTAAAAAATA
36698588 ATTTTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAATTTATTAAAAAATAT
Found at i:36699791 original size:2 final size:2
Alignment explanation
Indices: 36699786--36699826 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
36699776 AGAAAAAAGA
* *
36699786 AT AT AT AT AT AT AC AT AT AT AC AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
36699827 AATGGCTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:36707667 original size:18 final size:18
Alignment explanation
Indices: 36707646--36707688 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
36707636 ACAATTTAAA
36707646 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
36707664 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
36707682 ATGTAAA
1 ATATAAA
36707689 AACAACTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:36708079 original size:4 final size:4
Alignment explanation
Indices: 36708070--36708094 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
36708060 ATATCAAGGT
36708070 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
36708095 CAAAATGAAA
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:36709506 original size:25 final size:25
Alignment explanation
Indices: 36709472--36709581 Score: 139
Period size: 25 Copynumber: 4.4 Consensus size: 25
36709462 GAATAATTCA
* * *
36709472 CCACAAAGGCTTTTTAGAGAGTTTG
1 CCACAAAAGCTTTTCAGAGAATTTG
* * *
36709497 TCACAAAGGCTTTTCAGAGAATTCG
1 CCACAAAAGCTTTTCAGAGAATTTG
*
36709522 CCACAAAAGCTTTTCAAAGAATTTG
1 CCACAAAAGCTTTTCAGAGAATTTG
* *
36709547 CCACAAAAGTTTTTCAGAGAATTTA
1 CCACAAAAGCTTTTCAGAGAATTTG
36709572 CCACAAAAGC
1 CCACAAAAGC
36709582 ACCACATAAA
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 73 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (25 bp):
CCACAAAAGCTTTTCAGAGAATTTG
Found at i:36711963 original size:116 final size:118
Alignment explanation
Indices: 36711808--36712043 Score: 341
Period size: 116 Copynumber: 2.0 Consensus size: 118
36711798 CGCTTTTTGG
* * *
36711808 AAAATGCCACAAAAAAGTTGAGCAAAACGACGTCGTTTGTTGTTGAGCTTTAGTGACATTAGCGG
1 AAAATACCACAAAAAAGTTGAGCAAAACGACGTCGTTTGTTGTTGAGCTTTAGTGACATTAACAG
* * **
36711873 C-GTTTTTTAAAAAGCGCCGCAATAGATTGAGAATTAGCGGCGCTT-TTCAAA
66 CACTTTTTAAAAAAAAGCCGCAATAGATTGAGAATTAGCGGCGCTTGTTCAAA
* * *
36711924 AAAATACCGCAAAAAAGTTGAGCAAAACGACGTCTTTTGTTGTTGAGCTTTAGTGGCATTAACAG
1 AAAATACCACAAAAAAGTTGAGCAAAACGACGTCGTTTGTTGTTGAGCTTTAGTGACATTAACAG
* * *
36711989 CACTTTTTAAAAAAAAGCCGTAATAGATTGAGAATTAGTGGCGCTTGTTGAAA
66 CACTTTTTAAAAAAAAGCCGCAATAGATTGAGAATTAGCGGCGCTTGTTCAAA
36712042 AA
1 AA
36712044 CGCCGCTATA
Statistics
Matches: 105, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
116 60 0.57
117 38 0.36
118 7 0.07
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (118 bp):
AAAATACCACAAAAAAGTTGAGCAAAACGACGTCGTTTGTTGTTGAGCTTTAGTGACATTAACAG
CACTTTTTAAAAAAAAGCCGCAATAGATTGAGAATTAGCGGCGCTTGTTCAAA
Found at i:36712158 original size:155 final size:158
Alignment explanation
Indices: 36711881--36712166 Score: 402
Period size: 155 Copynumber: 1.8 Consensus size: 158
36711871 GGCGTTTTTT
** *
36711881 AAAAAGCGCCGCAATAGATTGAGAATTAGCGGCGCTTTTCAAAAAAATACCGCAAAAAAGTTGAG
1 AAAAAGCGCCGCAATAGATAAAGAATTAGCAGCGCTTTTCAAAAAAATACCGCAAAAAAGTTGAG
*
36711946 CAAAACGACGTCTTTTGTTGTTGAGCTTTAGTGGCATTAACAGCACTTTTTAAAAAAA-AGCCGT
66 CAAAACGACGTCGTTTGTTGTTGAGCTTTAGTGGCATTAACAGCACTTTTTAAAAAAATA-CCGT
36712010 AATAGATTGAGAATTAGTGGCGCTTGTTG
130 AATAGATTGAGAATTAGTGGCGCTTGTTG
* * ** **
36712039 AAAAA-CGCCGCTATAGATAAAGCATTAGCAGCGCTTTTC-GTAAAATGTCGCAAAAAAGTTGAG
1 AAAAAGCGCCGCAATAGATAAAGAATTAGCAGCGCTTTTCAAAAAAATACCGCAAAAAAGTTGAG
* * *
36712102 -AAAACGACGTCGTTTGTTGTTGAGCTTTAGTGGCATTAACGGC-GTTTTTGATAAAAATACCGT
66 CAAAACGACGTCGTTTGTTGTTGAGCTTTAGTGGCATTAACAGCACTTTTT-AAAAAAATACCGT
36712165 AA
130 AA
36712167 AAAATTATTT
Statistics
Matches: 113, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
154 5 0.04
155 53 0.47
156 21 0.19
157 29 0.26
158 5 0.04
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (158 bp):
AAAAAGCGCCGCAATAGATAAAGAATTAGCAGCGCTTTTCAAAAAAATACCGCAAAAAAGTTGAG
CAAAACGACGTCGTTTGTTGTTGAGCTTTAGTGGCATTAACAGCACTTTTTAAAAAAATACCGTA
ATAGATTGAGAATTAGTGGCGCTTGTTG
Found at i:36712204 original size:14 final size:14
Alignment explanation
Indices: 36712187--36712226 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
36712177 TATTTTAGGG
*
36712187 TTTAGGGTTTAATA
1 TTTAAGGTTTAATA
*
36712201 TTTAAGGTTTAATG
1 TTTAAGGTTTAATA
*
36712215 TTTATGGTTTAA
1 TTTAAGGTTTAA
36712227 GGGTTTAGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.28, C:0.00, G:0.20, T:0.53
Consensus pattern (14 bp):
TTTAAGGTTTAATA
Found at i:36712493 original size:7 final size:7
Alignment explanation
Indices: 36712481--36712697 Score: 134
Period size: 7 Copynumber: 31.1 Consensus size: 7
36712471 GTAATATATA
36712481 TTTAGGG
1 TTTAGGG
36712488 TTTAGGG
1 TTTAGGG
*
36712495 TGTA-GG
1 TTTAGGG
*
36712501 TTTAAGG
1 TTTAGGG
*
36712508 TTTGGGG
1 TTTAGGG
* *
36712515 TTTATGA
1 TTTAGGG
*
36712522 TTTAGTG
1 TTTAGGG
* *
36712529 TTAAGAG
1 TTTAGGG
*
36712536 TTTAGTG
1 TTTAGGG
*
36712543 TTTATGG
1 TTTAGGG
36712550 TTTAGGG
1 TTTAGGG
*
36712557 TGTA-GG
1 TTTAGGG
*
36712563 TTTATGG
1 TTTAGGG
*
36712570 TTTAGTG
1 TTTAGGG
*
36712577 TTTAGTG
1 TTTAGGG
*
36712584 TTTAGTG
1 TTTAGGG
*
36712591 TTTAGTG
1 TTTAGGG
36712598 TTTAAGGG
1 TTT-AGGG
36712606 -TTAGGG
1 TTTAGGG
*
36712612 TTTATGG
1 TTTAGGG
36712619 TTTAGGG
1 TTTAGGG
* *
36712626 CTTAGTG
1 TTTAGGG
**
36712633 TTTAAAG
1 TTTAGGG
**
36712640 TTTAAAG
1 TTTAGGG
*
36712647 TTTATGG
1 TTTAGGG
*
36712654 TTTATGG
1 TTTAGGG
36712661 TTTAGGGG
1 TTTA-GGG
*
36712669 CTTAGGG
1 TTTAGGG
*
36712676 TTTATGG
1 TTTAGGG
**
36712683 TTTAATG
1 TTTAGGG
36712690 TTTAGGG
1 TTTAGGG
36712697 T
1 T
36712698 CTAATTTTAA
Statistics
Matches: 166, Mismatches: 39, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
6 14 0.08
7 144 0.87
8 8 0.05
ACGTcount: A:0.18, C:0.01, G:0.33, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:36712588 original size:62 final size:62
Alignment explanation
Indices: 36712481--36712624 Score: 175
Period size: 62 Copynumber: 2.3 Consensus size: 62
36712471 GTAATATATA
*
36712481 TTTAGGGTTTAGGGTGTAGGTTTAAGGTTTGGGGTTTATGATTTAGTGTTAAGAGTTTAGTG
1 TTTAGGGTTTAGGGTGTAGGTTTAAGGTTTAGGGTTTATGATTTAGTGTTAAGAGTTTAGTG
* * * * *
36712543 TTTATGGTTTAGGGTGTAGGTTTATGGTTTAGTGTTTAGTG-TTTAGTGTTTAGTGTTTAAG-G
1 TTTAGGGTTTAGGGTGTAGGTTTAAGGTTTAGGGTTTA-TGATTTAGTGTTAAGAGTTT-AGTG
* * *
36712605 GTTAGGGTTTATGGTTTAGG
1 TTTAGGGTTTAGGGTGTAGG
36712625 GCTTAGTGTT
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
62 66 0.94
63 4 0.06
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.48
Consensus pattern (62 bp):
TTTAGGGTTTAGGGTGTAGGTTTAAGGTTTAGGGTTTATGATTTAGTGTTAAGAGTTTAGTG
Found at i:36713178 original size:20 final size:20
Alignment explanation
Indices: 36713150--36713197 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
36713140 TTCTTACATA
36713150 AAAAATTATATAAAAATTTT
1 AAAAATTATATAAAAATTTT
* * **
36713170 AAAATTTATCTAATTATTTT
1 AAAAATTATATAAAAATTTT
*
36713190 AAATATTA
1 AAAAATTA
36713198 CTCAAATTTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
AAAAATTATATAAAAATTTT
Found at i:36717300 original size:43 final size:42
Alignment explanation
Indices: 36717225--36717412 Score: 146
Period size: 43 Copynumber: 4.4 Consensus size: 42
36717215 GAATGGTACT
* * ** *
36717225 TTTAGCGGTGTTTGTGAAAAAAAAGCCGCTAAAAGTCATCATC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCACTAAAAGTCATC-TC
* * *
36717268 TATAGCGGCGTTTGTGATAAAAGCGCCACTAAAGGTTATTCTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCACTAAAAGTCA-TCTC
** * * * *
36717311 TTTAATGGCATTTGTGATAAAAGCACCACTAAATGTCATGTCC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCACTAAAAGTCATCT-C
* * **
36717354 TTTAGCAGTGTTTGTGATAAAAGCGCTGCT-AAAGATCA-CGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCACTAAAAG-TCATC--TC
36717397 TTTAGCGGCGTTTGTG
1 TTTAGCGGCGTTTGTG
36717413 GGTAAAACGT
Statistics
Matches: 112, Mismatches: 28, Indels: 10
0.75 0.19 0.07
Matches are distributed among these distances:
42 5 0.04
43 104 0.93
44 3 0.03
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGATAAAAGCGCCACTAAAAGTCATCTC
Found at i:36721372 original size:7 final size:7
Alignment explanation
Indices: 36721360--36721406 Score: 94
Period size: 7 Copynumber: 6.7 Consensus size: 7
36721350 AAGCTGCAAA
36721360 AGCATAC
1 AGCATAC
36721367 AGCATAC
1 AGCATAC
36721374 AGCATAC
1 AGCATAC
36721381 AGCATAC
1 AGCATAC
36721388 AGCATAC
1 AGCATAC
36721395 AGCATAC
1 AGCATAC
36721402 AGCAT
1 AGCAT
36721407 CCATTTTAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.43, C:0.28, G:0.15, T:0.15
Consensus pattern (7 bp):
AGCATAC
Found at i:36734015 original size:10 final size:10
Alignment explanation
Indices: 36734002--36734035 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
36733992 GAAAACTAAG
36734002 AAAAAATTTC
1 AAAAAATTTC
*
36734012 AAAAAATATTA
1 AAAAAAT-TTC
36734023 AAAAAATTTC
1 AAAAAATTTC
36734033 AAA
1 AAA
36734036 GCTGCAGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (10 bp):
AAAAAATTTC
Found at i:36734256 original size:13 final size:13
Alignment explanation
Indices: 36734238--36734265 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
36734228 TTGGTACTGC
36734238 AATTATATTATCA
1 AATTATATTATCA
36734251 AATTATATTATCA
1 AATTATATTATCA
36734264 AA
1 AA
36734266 ACATCATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (13 bp):
AATTATATTATCA
Found at i:36739777 original size:42 final size:42
Alignment explanation
Indices: 36739687--36739834 Score: 165
Period size: 42 Copynumber: 3.5 Consensus size: 42
36739677 TGTCAACGTT
* * * *
36739687 CCAGACGTGGTCTTACATGTAATCAAATAACGATGCCATTGTC
1 CCAGACGTGGTCTTACACGTAATCATAT-ATGATGCCAATGTC
36739730 CCAGACAG-GGTCTTACACGTAATCATATATGATGCCAATGTC
1 CCAGAC-GTGGTCTTACACGTAATCATATATGATGCCAATGTC
* * **
36739772 CCAGACATGGTCTTACACGTAAATC-TCAAATCGATGCCAACATC
1 CCAGACGTGGTCTTACACGT-AATCAT-ATAT-GATGCCAATGTC
36739816 CCAGACGTGGTCTTACACG
1 CCAGACGTGGTCTTACACG
36739835 ATATCACATT
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
42 31 0.34
43 31 0.34
44 29 0.32
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
CCAGACGTGGTCTTACACGTAATCATATATGATGCCAATGTC
Found at i:36742132 original size:12 final size:12
Alignment explanation
Indices: 36742117--36742171 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
36742107 AAGAGAATTT
36742117 TTTAAAATTTAA
1 TTTAAAATTTAA
36742129 TTTAAAATTTAA
1 TTTAAAATTTAA
36742141 -TT--AATGTTAA
1 TTTAAAAT-TTAA
*
36742151 TTTAAATATTTTA
1 TTTAAA-ATTTAA
36742164 -TTAAAATT
1 TTTAAAATT
36742172 AAAATACCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
9 3 0.08
10 4 0.11
11 7 0.19
12 17 0.46
13 4 0.11
14 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (12 bp):
TTTAAAATTTAA
Found at i:36742150 original size:22 final size:23
Alignment explanation
Indices: 36742125--36742167 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
36742115 TTTTTAAAAT
36742125 TTAATTTAAA-ATTTAATTAATG
1 TTAATTTAAATATTTAATTAATG
*
36742147 TTAATTTAAATATTTTATTAA
1 TTAATTTAAATATTTAATTAA
36742168 AATTAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TTAATTTAAATATTTAATTAATG
Found at i:36742173 original size:23 final size:22
Alignment explanation
Indices: 36742112--36742173 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 22
36742102 GGAAAAAGAG
36742112 AATTTT-TTAAAATTTAATTTAA
1 AATTTTATTAAAA-TTAATTTAA
* **
36742134 AATTTAATTAATGTTAATTTAA
1 AATTTTATTAAAATTAATTTAA
36742156 ATATTTTATTAAAATTAA
1 A-ATTTTATTAAAATTAA
36742174 AATACCATGA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
22 15 0.47
23 17 0.53
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
AATTTTATTAAAATTAATTTAA
Done.