Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008396.1 Hibiscus syriacus cultivar Beakdansim tig00111164_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 416257
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
File 1 of 2
Found at i:3866 original size:15 final size:15
Alignment explanation
Indices: 3848--3877 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3838 CCACGGTGCT
3848 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
3863 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
3878 GATTGTGATA
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:0.13, C:0.47, G:0.27, T:0.13
Consensus pattern (15 bp):
CCCGGAATCCTGCGC
Found at i:4339 original size:36 final size:36
Alignment explanation
Indices: 4297--4372 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
4287 TTATAGCTAA
*
4297 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
4333 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
4369 AAAA
1 AAAA
4373 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:12113 original size:163 final size:164
Alignment explanation
Indices: 11787--12117 Score: 497
Period size: 164 Copynumber: 2.0 Consensus size: 164
11777 CCTGAAGGTG
** * *
11787 AAAATATTTGTGAGCATGGAGAAAAGAAATAGAAAATTTGCATAAAAAAGAGATCCATCTATCAG
1 AAAATATTTGTGAGCATGGAGAAAAGAAATAGAAAAAATCCATAAAAAAGAGATCCATATATCAG
* * * * * *
11852 AAAATTCCATTTCATTCAAGTGATCGATGGGCTAAGACAGTTAGCCACAACCTCTACAACATTAA
66 AAAATTCCAGTTCATTCAAGAGATCAATGGGCTAAGACAGTCAACCACAACCTCTACAACACTAA
*
11917 AAAGAAGCCAGATATTTATCAAGGTAAGGTGAAC
131 AAAGAAGCCAGATATTTATCAAGATAAGGTGAAC
* **
11951 AAAATATTTGT-ATGTATGGAGAAAAGAAA-AGAAAAAAATCCATAAAAAAGAGATCTGTATATC
1 AAAATATTTGTGA-GCATGGAGAAAAGAAATAG-AAAAAATCCATAAAAAAGAGATCCATATATC
12014 AGAAAATTCCAGTTCATTCAAGAGATCAAT-GGCTAAGACAGTCAACCACAACCTCTACAACACT
64 AGAAAATTCCAGTTCATTCAAGAGATCAATGGGCTAAGACAGTCAACCACAACCTCTACAACACT
12078 AAAAAGAAGCCAGATATTTATCAAGATAAGGTGAAC
129 AAAAAGAAGCCAGATATTTATCAAGATAAGGTGAAC
12114 AAAA
1 AAAA
12118 GAGTGGATTG
Statistics
Matches: 151, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
163 73 0.48
164 78 0.52
ACGTcount: A:0.46, C:0.15, G:0.16, T:0.22
Consensus pattern (164 bp):
AAAATATTTGTGAGCATGGAGAAAAGAAATAGAAAAAATCCATAAAAAAGAGATCCATATATCAG
AAAATTCCAGTTCATTCAAGAGATCAATGGGCTAAGACAGTCAACCACAACCTCTACAACACTAA
AAAGAAGCCAGATATTTATCAAGATAAGGTGAAC
Found at i:20347 original size:16 final size:16
Alignment explanation
Indices: 20326--20359 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
20316 TGGGTCACTT
20326 TTTGGAAGCATTTAAG
1 TTTGGAAGCATTTAAG
20342 TTTGGAAGCATTTAAG
1 TTTGGAAGCATTTAAG
20358 TT
1 TT
20360 GCCCATGCCA
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:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (16 bp):
TTTGGAAGCATTTAAG
Found at i:31942 original size:6 final size:6
Alignment explanation
Indices: 31933--32044 Score: 125
Period size: 6 Copynumber: 18.7 Consensus size: 6
31923 TGTTGGTGTT
* * * * *
31933 GTGCCC GTGCCA GTGCCC GTGCCC GTGCCA GTGCCT GTGCCT GTGCCT
1 GTGCCC GTGCCC GTGCCC GTGCCC GTGCCC GTGCCC GTGCCC GTGCCC
* * * * * *
31981 GTGCCA GTGCCC GTGCCA GTGCCT GTGCCT GTGCCA GTGCCC GTGCCA
1 GTGCCC GTGCCC GTGCCC GTGCCC GTGCCC GTGCCC GTGCCC GTGCCC
32029 GTGCCC GTGCCC GTGC
1 GTGCCC GTGCCC GTGC
32045 TACTGATCCG
Statistics
Matches: 94, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 94 1.00
ACGTcount: A:0.05, C:0.39, G:0.34, T:0.21
Consensus pattern (6 bp):
GTGCCC
Found at i:31956 original size:18 final size:18
Alignment explanation
Indices: 31933--32044 Score: 152
Period size: 18 Copynumber: 6.2 Consensus size: 18
31923 TGTTGGTGTT
31933 GTGCCCGTGCCAGTGCCC
1 GTGCCCGTGCCAGTGCCC
*
31951 GTGCCCGTGCCAGTGCCT
1 GTGCCCGTGCCAGTGCCC
* * *
31969 GTGCCTGTGCCTGTGCCA
1 GTGCCCGTGCCAGTGCCC
*
31987 GTGCCCGTGCCAGTGCCT
1 GTGCCCGTGCCAGTGCCC
*
32005 GTGCCTGTGCCAGTGCCC
1 GTGCCCGTGCCAGTGCCC
* *
32023 GTGCCAGTGCCCGTGCCC
1 GTGCCCGTGCCAGTGCCC
32041 GTGC
1 GTGC
32045 TACTGATCCG
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 83 1.00
ACGTcount: A:0.05, C:0.39, G:0.34, T:0.21
Consensus pattern (18 bp):
GTGCCCGTGCCAGTGCCC
Found at i:33255 original size:37 final size:41
Alignment explanation
Indices: 33208--33295 Score: 139
Period size: 41 Copynumber: 2.2 Consensus size: 41
33198 GTAGCCACCT
*
33208 AAATAAGCTTC-T-TT-TAGGAGGG-AAGCTCAAAACACTA
1 AAATAAGCTTCTTCTTCTAGGAGGGAAACCTCAAAACACTA
33245 AAATAAGCTTCTTCTTCTAGGAGGGAAACCTCAAAACACTA
1 AAATAAGCTTCTTCTTCTAGGAGGGAAACCTCAAAACACTA
33286 AAATAAGCTT
1 AAATAAGCTT
33296 ATTTATTTGG
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
37 11 0.24
38 1 0.02
39 2 0.04
40 8 0.17
41 24 0.52
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (41 bp):
AAATAAGCTTCTTCTTCTAGGAGGGAAACCTCAAAACACTA
Found at i:34519 original size:32 final size:33
Alignment explanation
Indices: 34458--34520 Score: 78
Period size: 32 Copynumber: 1.9 Consensus size: 33
34448 TAATTTTCAA
*
34458 TATTTGTATAAATATTTAATATATTATATTTTT
1 TATTTGTATAAATATTTAACATATTATATTTTT
34491 TATTT-TA-AAATATTTTAACAT-TTAATATTT
1 TATTTGTATAAATA-TTTAACATATT-ATATTT
34521 AATATTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
31 7 0.26
32 15 0.56
33 5 0.19
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (33 bp):
TATTTGTATAAATATTTAACATATTATATTTTT
Found at i:35007 original size:26 final size:26
Alignment explanation
Indices: 34967--35028 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 26
34957 GTATTATTGA
*
34967 TATTATTTTATTTAT-ATCATAATATTT
1 TATT-TTTTAATTATAAT-ATAATATTT
34994 TATTTTTTAATTATAATATAATATTT
1 TATTTTTTAATTATAATATAATATTT
35020 TATTTTTTA
1 TATTTTTTA
35029 TACATTTAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 27 0.82
27 6 0.18
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (26 bp):
TATTTTTTAATTATAATATAATATTT
Found at i:39328 original size:21 final size:20
Alignment explanation
Indices: 39282--39334 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
39272 CATAATTATT
*
39282 TAAAAAATTAAATAAAAAAA
1 TAAAAAATTTAATAAAAAAA
* *
39302 TCAAAATATTTAATAAAAAAC
1 T-AAAAAATTTAATAAAAAAA
39323 TAAAAACATTTA
1 TAAAAA-ATTTA
39335 GGTAGAACCG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 5 0.19
21 22 0.81
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (20 bp):
TAAAAAATTTAATAAAAAAA
Found at i:42339 original size:77 final size:78
Alignment explanation
Indices: 42243--42392 Score: 239
Period size: 78 Copynumber: 1.9 Consensus size: 78
42233 ATTAGGTGTT
* * *
42243 TCTTTCATCTCTTTTTTCC-TTCCCACTTGCTTTTTACCTCATGAAAAATATCTTGATAGAGGAG
1 TCTTTCATCTCTCTTTTCCTTTCCCACTTACTTTTTACCTCATGAAAAATATCTTGAGAGAGGAG
42307 GCGTTGAAATGCG
66 GCGTTGAAATGCG
* * *
42320 TCTTTCATCTCTCTTTTCCTTTCTCGCTTACTTTTTACCTCATGAAAAGTATCTTGAGAGAGGAG
1 TCTTTCATCTCTCTTTTCCTTTCCCACTTACTTTTTACCTCATGAAAAATATCTTGAGAGAGGAG
42385 GCGTTGAA
66 GCGTTGAA
42393 TGATGTCGGT
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
77 18 0.27
78 48 0.73
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.41
Consensus pattern (78 bp):
TCTTTCATCTCTCTTTTCCTTTCCCACTTACTTTTTACCTCATGAAAAATATCTTGAGAGAGGAG
GCGTTGAAATGCG
Found at i:44077 original size:23 final size:22
Alignment explanation
Indices: 44030--44078 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 22
44020 TATATCATTG
*
44030 TTTTATTTAAGTGATAAAATTTA
1 TTTTATTAAAGTGATAAAA-TTA
44053 TTTTAGTTAAAGTGATTAAAA-TA
1 TTTTA-TTAAAGTGA-TAAAATTA
44076 TTT
1 TTT
44079 CATATTTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 10 0.43
24 8 0.35
25 5 0.22
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (22 bp):
TTTTATTAAAGTGATAAAATTA
Found at i:64425 original size:28 final size:28
Alignment explanation
Indices: 64389--64449 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
64379 CACACACTTG
*
64389 GAATGCGTTTGCCCCGTCATCACGCCAC
1 GAATCCGTTTGCCCCGTCATCACGCCAC
64417 GAATCCGTTTGCCCCGTCATCACGCCAC
1 GAATCCGTTTGCCCCGTCATCACGCCAC
64445 GAATC
1 GAATC
64450 GCCTCCATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.20, C:0.39, G:0.20, T:0.21
Consensus pattern (28 bp):
GAATCCGTTTGCCCCGTCATCACGCCAC
Found at i:64698 original size:4 final size:4
Alignment explanation
Indices: 64680--64725 Score: 67
Period size: 4 Copynumber: 11.5 Consensus size: 4
64670 TATTTTTATT
*
64680 TTTA TTGTA -TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA ATTA TT
1 TTTA TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
64726 ATTATTATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
3 2 0.05
4 34 0.89
5 2 0.05
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:64742 original size:9 final size:8
Alignment explanation
Indices: 64665--64748 Score: 55
Period size: 8 Copynumber: 10.5 Consensus size: 8
64655 TTTGACCGGG
*
64665 TTTTATAT
1 TTTTATTT
64673 TTTTA--T
1 TTTTATTT
*
64679 TTTTATTG
1 TTTTATTT
*
64687 TATTATTT
1 TTTTATTT
*
64695 ATTTATTT
1 TTTTATTT
*
64703 ATTTATTT
1 TTTTATTT
*
64711 ATTTATTT
1 TTTTATTT
**
64719 AATTATTAT
1 TTTTATT-T
*
64728 TATTATTT
1 TTTTATTT
64736 CTTTTATTT
1 -TTTTATTT
64745 TTTT
1 TTTT
64749 TGCAGGGCCC
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
6 6 0.09
8 44 0.69
9 14 0.22
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.75
Consensus pattern (8 bp):
TTTTATTT
Found at i:70656 original size:212 final size:211
Alignment explanation
Indices: 70204--72244 Score: 2685
Period size: 212 Copynumber: 9.8 Consensus size: 211
70194 AAAAGTTGTC
* * * * * *
70204 TGTCAACAAACAACTTT-CCAATTTCATTCAGAGTCTATTTCAACTTCGCAGTGAAGAAAATTGG
1 TGTCAACAAACAA-TTTCCCAA--T--TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
70268 ACTCCAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAATTTTCC
61 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAA-TTTCC
* * * *
70333 -ACTTCTAGAGCCAATTTCAACTTCACAGCGAAGGAAAGTGGACTCCAGACAACGTAAGTTCAAC
125 AATTTC-AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
70397 TTCACGACGAAGGGACCGCTGGT
189 TTCACGACGAAGGGACCGCTGGT
* * * * *
70420 TGACAACAAACAATTTCCCAATTTCGGAGCCAATTTAAACTTCACAGCGAAGGATATTAGACTCG
1 TGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* *
70485 AGACAATGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAATAATTTTCCAATTT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAA-TTTCCAATTT
*
70550 CGGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
130 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
70615 ATGAAGGGACCGCTGGT
195 ACGAAGGGACCGCTGGT
* * * * * * *
70632 TATCAACAAATAACTTCTCAATTTCAGAGCCCATTTCAACTTCACAACGAAGGATATTGGACTCG
1 TGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
70697 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCCGATTT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTT-CCAATTT
* * * *
70762 CGGGGCCAATTTCAACTTCACAGCCAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCACG
130 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
70827 ACGAAAGGACCGCTGGT
195 ACGAAGGGACCGCTGGT
* **
70844 TGTCAACAAAC-ATTTCTCAATTTCAGAGCCAATTTCAACTTCACAATGAAGGATATTGGACTCC
1 TGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * *
70908 AGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA-CATTTCCCAATTT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTT-CCAATTT
* *
70972 CAGAGCCAATTTCAACTTCACAACGAAGGGTATTGGACTCCAGACAACGCAAGTTCAACTTCACG
130 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
71037 ACGAAGGGACCGCTGGT
195 ACGAAGGGACCGCTGGT
* * ***
71054 TGTCAATAAAC-ATTTCTCAATTTCAGAGCCAATTTCAACTTCACAATAAAGGATATTGGACTCC
1 TGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* *
71118 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA-CATTTCTCAATTT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTC-CAATTT
*
71182 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
130 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
71247 ACGAAGGGACTGCTGGT
195 ACGAAGGGACCGCTGGT
* * * * * *
71264 TGTCAATAAA-TATTTCTCAATTTTAGAGCCAATTTCAACTTCACAACGAATGATATTGGACTCC
1 TGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
71328 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAT-ATTTCTCAATTT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTC-CAATTT
*
71392 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
130 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
71457 ACGAAGGGACCGCTGGT
195 ACGAAGGGACCGCTGGT
* * *
71474 TGTCAACAAACAATTTCCCGATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCT
1 TGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* *
71539 AGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAACTTCTCAATTT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTC-CAATTT
* * * * *
71604 CAGAGCCAATTTCAACTTCACAACAAAGGATATTGGACTCCAGACAACACAAGTTCAACTTTATG
130 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
71669 ACGAAGGGACCGCTGGT
195 ACGAAGGGACCGCTGGT
* * *
71686 TGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAAGATATTGGACTCA
1 TGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
71751 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT---C-AATAA---ACAATTT-
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCAATTTC
*
71808 ----CC-----CAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGA
131 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
71864 CGAAGGGACCGCTGGT
196 CGAAGGGACCGCTGGT
* * * *
71880 TGTTAATAAACAA-----C---TTC----CCAATTTCAACTTCTCAGCGAAGGATCTTGGAC-CC
1 TGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * * * * **
71932 AAGACAACACAAGCTCAACTTCACGACGAAGGGGCGGCTGATTGTC-AGTAA-AATTT-C-A-TT
66 -AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCAATTT
* * * * * *
71992 CAGAGTCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAGCACAAGTTCAACTTCAAA
130 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC-AC
* *
72057 AACGAAGGGACGGCTGGT
194 GACGAAGGGACCGCTGGT
* *
72075 TGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCG
1 TGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * * * ** *
72140 AGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGGTTC
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTT-CCAATTT
*
72205 CAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGGACTC
130 CAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGGACTC
72245 GGAACAATGC
Statistics
Matches: 1648, Mismatches: 131, Indels: 95
0.88 0.07 0.05
Matches are distributed among these distances:
181 1 0.00
182 69 0.04
184 4 0.00
185 3 0.00
186 4 0.00
189 2 0.00
194 122 0.07
195 28 0.02
199 2 0.00
200 1 0.00
203 3 0.00
204 6 0.00
207 72 0.04
208 9 0.01
209 7 0.00
210 501 0.30
211 198 0.12
212 556 0.34
213 40 0.02
214 1 0.00
215 3 0.00
216 16 0.01
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.24
Consensus pattern (211 bp):
TGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCAATTTC
AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
CGAAGGGACCGCTGGT
Found at i:71808 original size:106 final size:106
Alignment explanation
Indices: 70230--71817 Score: 2407
Period size: 106 Copynumber: 15.0 Consensus size: 106
70220 TCCAATTTCA
* * * ** * *
70230 TTCAGAGTCTATTTCAACTTCGCAGTGAAGAAAATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * *
70295 TGACGAAGGGACCGCTGGTTGTCAATAAACAATTTTCC-AC
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAAT
* * * *
70335 TTCTAGAGCCAATTTCAACTTCACAGCGAAGGAAAGTGGACTCCAGACAACGTAAGTTCAACTTC
1 TTC-AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* *
70400 ACGACGAAGGGACCGCTGGTTGACAACAAACAATTTCCCAAT
65 ACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAAT
* * * * * *
70442 TTCGGAGCCAATTTAAACTTCACAGCGAAGGATATTAGACTCGAGACAATGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * * *
70507 CGATGAAGGGACCGCTGGTTGTCAACAAATAATTTTCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAAT
* *
70548 TTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * * * * *
70613 CGATGAAGGGACCGCTGGTTATCAACAAATAACTTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAAT
* *
70654 TTCAGAGCCCATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * *
70719 CGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCCGAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAAT
* * * * *
70760 TTCGGGGCCAATTTCAACTTCACAGCCAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * *
70825 CGACGAAAGGACCGCTGGTTGTCAACAAAC-ATTTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAAT
* *
70865 TTCAGAGCCAATTTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
70930 CGACGAAGGGACCGCTGGTTGTCAATAAAC-ATTTCCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAAT
*
70970 TTCAGAGCCAATTTCAACTTCACAACGAAGGGTATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
*
71035 CGACGAAGGGACCGCTGGTTGTCAATAAAC-ATTTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAAT
**
71075 TTCAGAGCCAATTTCAACTTCACAATAAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
*
71140 CGACGAAGGGACCGCTGGTTGTCAATAAAC-ATTTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAAT
71180 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * *
71245 CGACGAAGGGACTGCTGGTTGTCAATAAA-TATTTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAAT
* *
71285 TTTAGAGCCAATTTCAACTTCACAACGAATGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* *
71350 CGACGAAGGGACCGCTGGTTGTCAATAAA-TATTTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAAT
71390 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* *
71455 CGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCGAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAAT
** * *
71496 TTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCTAGACAACACAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * * *
71561 CGACGAAGGGACCGCTGGTTGTCAACAAATAACTTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAAT
* * *
71602 TTCAGAGCCAATTTCAACTTCACAACAAAGGATATTGGACTCCAGACAACACAAGTTCAACTTTA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
*
71667 TGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAAT
* * *
71708 TTCAGAGCCAATTTCAACTTCACAGCGAAAGATATTGGACTCAAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
*
71773 CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAAC
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAAT
71814 TTCA
1 TTCA
71818 CAGCGAAGGA
Statistics
Matches: 1373, Mismatches: 106, Indels: 7
0.92 0.07 0.00
Matches are distributed among these distances:
105 603 0.44
106 766 0.56
107 4 0.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (106 bp):
TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAAT
Found at i:71845 original size:194 final size:193
Alignment explanation
Indices: 71616--72199 Score: 681
Period size: 194 Copynumber: 3.0 Consensus size: 193
71606 GAGCCAATTT
* * * * *
71616 CAACTTCACAACAAAGGATATTGGACTCCAGACAACACAAGTTCAACTTTATGACGAAGGGACCG
1 CAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTAAAGACGAAGGGACCG
*
71681 CTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAAGATATTGG
66 CTGGTTGTCAATAAACAA-TTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
71746 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCC
130 ACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAATAAACAATTTCC
* * *
71810 CAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
1 CAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTAAAGACGAAGGGACCG
* * *
71875 CTGGTTGTTAATAAACAA----C---TTC----CCAATTTCAACTTCTCAGCGAAGGATCTTGGA
66 CTGGTTGTCAATAAACAATTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* * * *
71929 CCCAAGACAACACAAGCTCAACTTCACGACGAAGGGGCGGCTGATTGTCAGTAAAATTTCATTCA
131 CTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTC-----AA--T-A---A
71994 GAGTCAATTT--
185 -A--CAATTTCC
* * * * *
72004 CAACTTCACAGCGAAGGATATTAGACTCGAGACAGCACAAGTTCAACTTCAAAAACGAAGGGACG
1 CAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTT-AAAGACGAAGGGACC
*
72069 GCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTG
65 GCTGGTTGTCAATAAACAA-TTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTG
* * *
72134 GACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCC
129 GACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAATAAACAATTTCC
72199 C
1 C
72200 GGTTCCAGAG
Statistics
Matches: 326, Mismatches: 35, Indels: 57
0.78 0.08 0.14
Matches are distributed among these distances:
182 72 0.22
186 3 0.01
187 2 0.01
189 2 0.01
190 1 0.00
193 7 0.02
194 122 0.37
195 30 0.09
196 7 0.02
199 1 0.00
200 1 0.00
202 2 0.01
203 3 0.01
207 73 0.22
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (193 bp):
CAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTAAAGACGAAGGGACCG
CTGGTTGTCAATAAACAATTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
CTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAATAAACAATTTCC
Found at i:71868 original size:43 final size:43
Alignment explanation
Indices: 71720--71869 Score: 130
Period size: 43 Copynumber: 3.4 Consensus size: 43
71710 CAGAGCCAAT
*
71720 TTCAACTTCACAGCGAAAGATATTGGACTCAAGACAACGCAAG
1 TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAG
*** ** * *
71763 TTCAACTTCAC-GACGAAGGGACCGCTGGTTGTCAATA-AA--CAAT
1 TTCAACTTCACAG-CGAA-GGA-TATTGG-ACTCAAGACAACGCAAG
71806 TTCCCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAG
1 TT--CAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAG
71851 TTCAACTTCAC-GACGAAGG
1 TTCAACTTCACAG-CGAAGG
71870 GACCGCTGGT
Statistics
Matches: 81, Mismatches: 15, Indels: 22
0.69 0.13 0.19
Matches are distributed among these distances:
42 7 0.09
43 40 0.49
44 5 0.06
45 23 0.28
46 6 0.07
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (43 bp):
TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAG
Found at i:71871 original size:88 final size:90
Alignment explanation
Indices: 71721--72093 Score: 383
Period size: 88 Copynumber: 4.0 Consensus size: 90
71711 AGAGCCAATT
*
71721 TCAACTTCACAGCGAAAGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACC
1 TCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACC
*
71786 GCTGGTTGTCAATAAACAA-TTTCC
66 GCTGGTTGTCAATAAACAACTTCCC
71810 -CAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACC
1 TCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACC
*
71874 GCTGGTTGTTAATAAACAACTTCCC
66 GCTGGTTGTCAATAAACAACTTCCC
* * * * *
71899 AATTTCAACTTCTCAGCGAAGGATCTTGGACCCAAGACAACACAAGCTCAACTTCACGACGAAGG
1 ----TCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGG
* * * * * *
71964 GGCGGCTGATTGTCAGTAAA-ATTTCATTCAGAGTCAATT
62 GACCGCTGGTTGTCAATAAACA--AC-TTC-----C---C
* * * * **
72003 TCAACTTCACAGCGAAGGATATTAGACTCGAGACAGCACAAGTTCAACTTCAAAAACGAAGGGAC
1 TCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTC-ACGACGAAGGGAC
* *
72068 GGCTGGTTGTCAACAAACAACTTCCC
65 CGCTGGTTGTCAATAAACAACTTCCC
72094 AATTTCAGAG
Statistics
Matches: 235, Mismatches: 30, Indels: 36
0.78 0.10 0.12
Matches are distributed among these distances:
88 81 0.34
89 4 0.02
93 1 0.00
94 71 0.30
95 1 0.00
96 3 0.01
99 3 0.01
100 45 0.19
101 25 0.11
102 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (90 bp):
TCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACC
GCTGGTTGTCAATAAACAACTTCCC
Found at i:72223 original size:106 final size:104
Alignment explanation
Indices: 71897--72245 Score: 456
Period size: 106 Copynumber: 3.3 Consensus size: 104
71887 AAACAACTTC
* * * * * *
71897 CCAATTTCAACTTCTCAGCGAAGGATCTTGGACCCAAGACAACACAAGCTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAA
* * **
71962 GGGGCGGCTGATTGTC-AGTAA-AATTT--CATTCAGAG
66 GGGACGGCTGGTTGTCAACAAACAATTTCCCATTCAGAG
* * * *
71997 TCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAGCACAAGTTCAACTTCAAAAACGA
1 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTC-ACAACGA
*
72062 AGGGACGGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAG
65 AGGGACGGCTGGTTGTCAACAAACAATTTCCC-A-TTCAGAG
72104 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAA
*
72169 GGGACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAG
66 GGGACGGCTGGTTGTCAACAAACAATTTCCC-ATT-CAGAG
*
72210 CCAATTTCAACTTCAC-GACGGAGGATATTGGACTCG
1 CCAATTTCAACTTCACAG-CGAAGGATATTGGACTCG
72246 GAACAATGCT
Statistics
Matches: 217, Mismatches: 23, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
100 49 0.23
101 20 0.09
102 3 0.01
103 4 0.02
105 4 0.02
106 76 0.35
107 61 0.28
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (104 bp):
CCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAA
GGGACGGCTGGTTGTCAACAAACAATTTCCCATTCAGAG
Found at i:72931 original size:12 final size:13
Alignment explanation
Indices: 72911--72981 Score: 51
Period size: 12 Copynumber: 5.4 Consensus size: 13
72901 TTTGACCGGG
72911 TTTTATATTT-TTA
1 TTTT-TATTTATTA
72924 TTTTTATTGTATTA
1 TTTTTATT-TATTA
72938 TTTATTTATTTAATTA
1 -TT-TTTATTT-ATTA
*
72954 TTATTA-TTATTA
1 TTTTTATTTATTA
*
72966 TTTCT-TTTATT-
1 TTTTTATTTATTA
72977 TTTTT
1 TTTTT
72982 GCAGGGCCCA
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
11 4 0.08
12 16 0.33
13 7 0.15
14 6 0.12
15 5 0.10
16 10 0.21
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.75
Consensus pattern (13 bp):
TTTTTATTTATTA
Found at i:83941 original size:3 final size:3
Alignment explanation
Indices: 83928--83974 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
83918 TTTTTTATCG
83928 TTA TT- TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
83972 TTA
1 TTA
83975 ATATCAAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.10
3 34 0.83
4 3 0.07
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:84089 original size:25 final size:25
Alignment explanation
Indices: 84056--84132 Score: 136
Period size: 25 Copynumber: 3.1 Consensus size: 25
84046 CAATCAACCC
*
84056 ATCATATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
84081 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
*
84106 AACAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
84131 AT
1 AT
84133 GTTCCAGCCG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (25 bp):
ATCAGATTAGGGTTTCAAACCCTAA
Found at i:87650 original size:31 final size:32
Alignment explanation
Indices: 87614--87675 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
87604 ATTTTACATG
87614 TACTAACTTATTT-TTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
87645 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
87676 CATTTTGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.61
Consensus pattern (32 bp):
TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
Found at i:88220 original size:210 final size:209
Alignment explanation
Indices: 87852--88266 Score: 562
Period size: 210 Copynumber: 2.0 Consensus size: 209
87842 ATGAGATTTT
* *
87852 CTCGAAGATCGTGCATCATTCGAGACTGATATGATAATCCACTGATCTAAGGAGTAATCCAGCAG
1 CTCGAAGATCGTGCATCATTCGAGACTGATATGATAATCCACTGATCGAAGGAGTAATCCAACAG
* * * *
87917 TAGATTCTCATCCACAATTATTCCATCGTTAACCATCAGGGAGTGAAGCACAAACTTCAGCATAG
66 TAGATTCTCATCCACAATTATTCCATCGCTAACCATCAAGGAGCGAAGCACAAACTTCAGCACAG
* * * * *
87982 CCGAGGTATTAATGGAGTTAGTTTACAGAGCATAGAGGGGCATCGGTTCCAAGTACAAAGATCCG
131 CCGAGGCATTAATGGAGTCAGATTACAGAGCATAGAGGGGCAT-GATTCCAAGGACAAAGATCCG
88047 AGACGAAGCAGTGAG
195 AGACGAAGCAGTGAG
*
88062 CTCGAAGATCGTGCATCATTCGAGACTGATATGATAATCCATTGATCCGAA-GAGTAATCCAACA
1 CTCGAAGATCGTGCATCATTCGAGACTGATATGATAATCCACTGAT-CGAAGGAGTAATCCAACA
* * * * ** *
88126 GTAGATTCTCATCTACAATTATTTCATCGCTATCCATCAAGGAGCGACGCACTGACTTCAGCACC
65 GTAGATTCTCATCCACAATTATTCCATCGCTAACCATCAAGGAGCGAAGCACAAACTTCAGCACA
* * * * * * * *
88191 GCCGGGGCATTAATGGTGTCAGATTACAGATCATTGAGGGGCATTATTTCAAGGACGAAGATCTG
130 GCCGAGGCATTAATGGAGTCAGATTACAGAGCATAGAGGGGCATGATTCCAAGGACAAAGATCCG
88256 AGACGAAGCAG
195 AGACGAAGCAG
88267 CGATCTATTT
Statistics
Matches: 177, Mismatches: 27, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
209 26 0.15
210 148 0.84
211 3 0.02
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (209 bp):
CTCGAAGATCGTGCATCATTCGAGACTGATATGATAATCCACTGATCGAAGGAGTAATCCAACAG
TAGATTCTCATCCACAATTATTCCATCGCTAACCATCAAGGAGCGAAGCACAAACTTCAGCACAG
CCGAGGCATTAATGGAGTCAGATTACAGAGCATAGAGGGGCATGATTCCAAGGACAAAGATCCGA
GACGAAGCAGTGAG
Found at i:90135 original size:26 final size:25
Alignment explanation
Indices: 90106--90183 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 25
90096 CAATTTTGAC
90106 ATTCTATCTCTTTGAGACCTTGAAAT
1 ATTCT-TCTCTTTGAGACCTTGAAAT
* *
90132 A---TTCT-TTT-CGACCTTGAAAC
1 ATTCTTCTCTTTGAGACCTTGAAAT
*
90152 ATTCCCTCTCTTTGAGACCTTGAAAT
1 ATT-CTTCTCTTTGAGACCTTGAAAT
90178 ATTCTT
1 ATTCTT
90184 TCCACCTTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 13
0.68 0.10 0.22
Matches are distributed among these distances:
20 11 0.28
21 3 0.08
22 3 0.08
23 1 0.03
24 3 0.08
25 5 0.12
26 14 0.35
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.42
Consensus pattern (25 bp):
ATTCTTCTCTTTGAGACCTTGAAAT
Found at i:90144 original size:20 final size:20
Alignment explanation
Indices: 90121--90195 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 20
90111 ATCTCTTTGA
90121 GACCTTGAAATATTCTTTTC
1 GACCTTGAAATATTCTTTTC
* *
90141 GACCTTGAAACATTCCCTCTCTTTGA
1 GACCTTGAAATA-T---TCT-TTT-C
90167 GACCTTGAAATATTC-TTTC
1 GACCTTGAAATATTCTTTTC
*
90186 CACCTTGAAA
1 GACCTTGAAA
90196 CACTGTATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
19 9 0.20
20 14 0.32
21 1 0.02
22 2 0.05
24 3 0.07
25 4 0.09
26 11 0.25
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (20 bp):
GACCTTGAAATATTCTTTTC
Found at i:92746 original size:36 final size:36
Alignment explanation
Indices: 92701--92785 Score: 109
Period size: 36 Copynumber: 2.4 Consensus size: 36
92691 ACAAAGTTGA
**
92701 TCTCACTTGAGATCGTTTTCTC-AAAAACAAACTTTG
1 TCTCACTTGAGA-CAATTTCTCTAAAAACAAACTTTG
* *
92737 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
*
92773 TCTCATTTGAGAC
1 TCTCACTTGAGAC
92786 TATATCTTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
35 7 0.17
36 35 0.83
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (36 bp):
TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
Found at i:92817 original size:34 final size:36
Alignment explanation
Indices: 92719--92820 Score: 95
Period size: 36 Copynumber: 2.9 Consensus size: 36
92709 GAGATCGTTT
* *
92719 TCTC-AAAAACAAACTTT-GTCTCGCTTGAGACAATT
1 TCTCTAAAAACAAA-TTTCATCTCGCTTGAGACAATA
** ** *
92754 TCTCTAAAAACAAATTTTGTCTCATTTGAGACTATA
1 TCTCTAAAAACAAATTTCATCTCGCTTGAGACAATA
*
92790 TCT-T-AAAGCAAATTTCATCTCGCTTGAGACA
1 TCTCTAAAAACAAATTTCATCTCGCTTGAGACA
92821 TCATTTTCTC
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
34 21 0.38
35 8 0.15
36 26 0.47
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (36 bp):
TCTCTAAAAACAAATTTCATCTCGCTTGAGACAATA
Found at i:93098 original size:29 final size:29
Alignment explanation
Indices: 93066--93159 Score: 127
Period size: 29 Copynumber: 3.3 Consensus size: 29
93056 ACAGTTTCTC
93066 TTGAAAAAAAATCTTTGAGTTTGTTCCTT
1 TTGAAAAAAAATCTTTGAGTTTGTTCCTT
* *
93095 TTGAATAAAAATCTTGGAGTTTGTTCCTT
1 TTGAAAAAAAATCTTTGAGTTTGTTCCTT
* * * *
93124 TTGAATAAATATCTTTGAG-TCGTTTCTT
1 TTGAAAAAAAATCTTTGAGTTTGTTCCTT
93152 TTGAAAAA
1 TTGAAAAA
93160 TCTTTGAGTC
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 14 0.24
29 44 0.76
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.45
Consensus pattern (29 bp):
TTGAAAAAAAATCTTTGAGTTTGTTCCTT
Found at i:93272 original size:52 final size:52
Alignment explanation
Indices: 93179--93281 Score: 156
Period size: 50 Copynumber: 2.0 Consensus size: 52
93169 CTATTTATTT
93179 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTG-AAAAATCTTTGAGTC
1 TGAAACAAAGTTTTG-CTCTCTTGAGACAATTTCGTGAAAAAATCTTTGAGTC
*
93231 TGAAACAAAGTTTTG-TCTCTTGAGACAATTTTGTGAAAAAAAATCTTTGAG
1 TGAAACAAAGTTTTGCTCTCTTGAGACAATTTCGTG--AAAAAATCTTTGAG
93282 ATTGTTTCTT
Statistics
Matches: 47, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
50 19 0.40
52 15 0.32
53 13 0.28
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (52 bp):
TGAAACAAAGTTTTGCTCTCTTGAGACAATTTCGTGAAAAAATCTTTGAGTC
Found at i:93306 original size:28 final size:28
Alignment explanation
Indices: 93267--93401 Score: 119
Period size: 28 Copynumber: 4.5 Consensus size: 28
93257 AATTTTGTGA
93267 AAAAAAATCTTTGAGATTGTTTCTTTTG
1 AAAAAAATCTTTGAGATTGTTTCTTTTG
* *
93295 AAAAAAATCTTTGAGTTTGTTTCTTTGG
1 AAAAAAATCTTTGAGATTGTTTCTTTTG
* *
93323 AAACAAAATTTTTTCTCTCTTAAGATAGTTTCTTTTG
1 AAA-AAAA-------TCT-TTGAGATTGTTTCTTTTG
*
93360 AACAAAAATCTTTGAGTTTGTTTCTTTTG
1 AA-AAAAATCTTTGAGATTGTTTCTTTTG
93389 AAACAAAAT-TTTG
1 AAA-AAAATCTTTG
93402 TCTCTCTTAA
Statistics
Matches: 87, Mismatches: 9, Indels: 22
0.74 0.08 0.19
Matches are distributed among these distances:
28 34 0.39
29 26 0.30
30 3 0.03
36 3 0.03
37 20 0.23
38 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.46
Consensus pattern (28 bp):
AAAAAAATCTTTGAGATTGTTTCTTTTG
Found at i:93368 original size:37 final size:36
Alignment explanation
Indices: 93313--93434 Score: 123
Period size: 37 Copynumber: 3.5 Consensus size: 36
93303 CTTTGAGTTT
*
93313 GTTTCTTTGGAAACAAAATTTTTTCTCTCTTAAGATA
1 GTTTCTTTTGAAACAAAA-TTTTTCTCTCTTAAGATA
* * * *
93350 GTTTCTTTTG-AACAAAA-----ATCT-TTGAGTTT
1 GTTTCTTTTGAAACAAAATTTTTCTCTCTTAAGATA
93379 GTTTCTTTTGAAACAAAATTTTGTCTCTCTTAAGATA
1 GTTTCTTTTGAAACAAAATTTT-TCTCTCTTAAGATA
*
93416 ATTTCTTTTGAAACAAAAT
1 GTTTCTTTTGAAACAAAAT
93435 CTTTGAATCT
Statistics
Matches: 67, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
29 15 0.22
30 10 0.15
36 10 0.15
37 32 0.48
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (36 bp):
GTTTCTTTTGAAACAAAATTTTTCTCTCTTAAGATA
Found at i:93374 original size:66 final size:65
Alignment explanation
Indices: 93280--93504 Score: 276
Period size: 66 Copynumber: 3.4 Consensus size: 65
93270 AAAATCTTTG
* *
93280 AGATTGTTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTTTCTCTCTTA
1 AGATAGTTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTA
*
93345 AGATAGTTTCTTTTGAACAAAAATCTTTGAGTTTGTTTCTTTTGAAACAAAATTTTGTCTCTCTT
1 AGATAGTTTCTTTTGAA-AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTT
93410 A
65 A
* * * * *
93411 AGATAATTTCTTTTGAAACAAAATCTTTGAATCTGTTTCTCTT--AAA-ATGAATTTTGTATCTC
1 AGATAGTTTCTTTTGAAA-AAAATCTTTGAGTTTGTTTCT-TTGGAAACA-AAATTTTGTCTCTC
*
93473 TTG
63 TTA
** **
93476 AGACCGTTTCTTTTGAAGCAAATCTTTGA
1 AGATAGTTTCTTTTGAAAAAAATCTTTGA
93505 ATATGTTCAT
Statistics
Matches: 142, Mismatches: 14, Indels: 9
0.86 0.08 0.05
Matches are distributed among these distances:
64 11 0.08
65 48 0.34
66 81 0.57
67 2 0.01
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.46
Consensus pattern (65 bp):
AGATAGTTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTA
Found at i:93473 original size:131 final size:129
Alignment explanation
Indices: 93286--93521 Score: 291
Period size: 131 Copynumber: 1.8 Consensus size: 129
93276 TTTGAGATTG
* * * * *
93286 TTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTTTCTCTCTTAAGATAG
1 TTTCTTTTGAAAAAAATCTTTGAATCTGTTTCTTT-GAAACAAAATTTTGTATCTCTTAAGACAG
* *
93351 TTTCTTTTGAA-CAAAAATCTTTGAGTTTGTTTC-TTTTGAAACAAAATTTTGTCTCTCTTAAGA
65 TTTCTTTTGAAGC--AAATCTTTGAATATG-TTCATTTTGAAACAAAATTTTGTCTCTCTTAAGA
93414 TAA
127 TAA
* *
93417 TTTCTTTTGAAACAAAATCTTTGAATCTGTTTCTCTT-AAA-ATGAATTTTGTATCTCTTGAGAC
1 TTTCTTTTGAAA-AAAATCTTTGAATCTGTTTCT-TTGAAACA-AAATTTTGTATCTCTTAAGAC
*
93480 CGTTTCTTTTGAAGCAAATCTTTGAATATGTTCATTTTGAAA
63 AGTTTCTTTTGAAGCAAATCTTTGAATATGTTCATTTTGAAA
93522 ATCTTTGAGT
Statistics
Matches: 90, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
129 3 0.03
130 22 0.24
131 43 0.48
132 20 0.22
133 2 0.02
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (129 bp):
TTTCTTTTGAAAAAAATCTTTGAATCTGTTTCTTTGAAACAAAATTTTGTATCTCTTAAGACAGT
TTCTTTTGAAGCAAATCTTTGAATATGTTCATTTTGAAACAAAATTTTGTCTCTCTTAAGATAA
Found at i:93824 original size:28 final size:28
Alignment explanation
Indices: 93792--93858 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
93782 GACAATTTTG
* *
93792 TGAAAAAAATCTTTAAGATTGTTTCTTT
1 TGAAAAAAATCTTTAAGATTGCTTCCTT
* *
93820 TGAAAAAAATCTTTGAGTTTGCTTCCTT
1 TGAAAAAAATCTTTAAGATTGCTTCCTT
93848 TGAAACAAAAT
1 TGAAA-AAAAT
93859 TGTGTCTCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 29 0.85
29 5 0.15
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.40
Consensus pattern (28 bp):
TGAAAAAAATCTTTAAGATTGCTTCCTT
Found at i:93975 original size:35 final size:36
Alignment explanation
Indices: 93909--93983 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 36
93899 TATTTCTTTG
* *
93909 GAAACAAAATTTACCATCTTTGAATCTGTTTCCCTT
1 GAAACAAAATTAAACATCTTTGAATCTGTTTCCCTT
*
93945 GAAACAAAA-TAAACATCTTTGAGATC-GTTTCTCTT
1 GAAACAAAATTAAACATCTTTGA-ATCTGTTTCCCTT
93980 GAAA
1 GAAA
93984 TGAATTTTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
35 23 0.66
36 12 0.34
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (36 bp):
GAAACAAAATTAAACATCTTTGAATCTGTTTCCCTT
Found at i:94471 original size:43 final size:43
Alignment explanation
Indices: 94411--94662 Score: 172
Period size: 43 Copynumber: 5.8 Consensus size: 43
94401 TCATTCCCCG
* *
94411 ACCAGATCTCTTCATCACGTAGGAGCCGTGTCAACCATAGATA
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATA
* * * * *
94454 ACCAG-CCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAGATG
1 ACCAGACC-TCCTCATCACGTAGGAGCCGTGTCA--ACC-ATAGATA
* * * * * **
94500 GCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAG---
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATA
*
94540 ACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATA
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATA
* * * * * *
94583 AACAG-CCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATG
1 ACCAGACC-TCCTCATCACGTAGGAGCCGTGTCA--ACC-ATAGATA
* * *
94629 GCCAAGAACTCTTCATCACGTAGGAGCCGTGTCA
1 ACC-AGACCTCCTCATCACGTAGGAGCCGTGTCA
94663 CCTTTAGACG
Statistics
Matches: 157, Mismatches: 38, Indels: 24
0.72 0.17 0.11
Matches are distributed among these distances:
40 33 0.21
42 2 0.01
43 54 0.34
44 2 0.01
45 6 0.04
46 35 0.22
47 24 0.15
48 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (43 bp):
ACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATA
Found at i:94555 original size:129 final size:129
Alignment explanation
Indices: 94320--94662 Score: 607
Period size: 129 Copynumber: 2.7 Consensus size: 129
94310 ATTATCCTAG
*
94320 AGATAACCAGCCGTCCTCGTCATGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
*
94385 TCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCTTCATCACGTAGGAGCCGTGTCAACCAT
66 TCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
* *
94449 AGATAACCAGCCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
94514 TCACGTATGAGCCGTGTCA-TCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
66 TCACGTATGAGCCGTGTCATTCCCC-GACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
*
94578 AGATAAACAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAAGAACTCTTC
1 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCC-AGAACTCTTC
*
94643 ATCACGTAGGAGCCGTGTCA
65 ATCACGTATGAGCCGTGTCA
94663 CCTTTAGACG
Statistics
Matches: 204, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
128 5 0.02
129 170 0.83
130 29 0.14
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (129 bp):
AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
TCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
Found at i:94556 original size:40 final size:40
Alignment explanation
Indices: 94372--94572 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 40
94362 CTTTAGATGG
*
94372 CCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCC-GA
1 CCAGAACTCTTCATCACGTAGGAGCCGTGTCA-TCCCCAGA
* * **
94412 CCAGATCTCTTCATCACGTAGGAGCCGTGTCAACCATAGATAA
1 CCAGAACTCTTCATCACGTAGGAGCCGTGTCATCCCCAG---A
* * * * * *
94455 CCAG-CCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAGA
1 CCAGAAC-TCTTCATCACGTAGGAGCCGTGTCATC-CC--CAGA
*
94498 TGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAGA
1 ---CCAGAACTCTTCATCACGTAGGAGCCGTGTCATCCCCAGA
* *
94541 CCAGATCTCCTCATCACGTAGGAGCCGTGTCA
1 CCAGAACTCTTCATCACGTAGGAGCCGTGTCA
94573 ACCATAGATA
Statistics
Matches: 127, Mismatches: 22, Indels: 24
0.73 0.13 0.14
Matches are distributed among these distances:
39 2 0.02
40 60 0.47
42 1 0.01
43 31 0.24
44 1 0.01
45 2 0.02
46 29 0.23
47 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (40 bp):
CCAGAACTCTTCATCACGTAGGAGCCGTGTCATCCCCAGA
Found at i:94693 original size:43 final size:44
Alignment explanation
Indices: 94358--94704 Score: 163
Period size: 43 Copynumber: 8.0 Consensus size: 44
94348 AACCGTGTTA
* * *
94358 TCACCTTTAGATGGCC-AGAACTCTTCATCACGTATGAGCCGTG
1 TCACCTTTAGACGACCAAGAACTCTTCATCACGTAGGAGCCGTG
*** *
94401 TCA---TTCCCCGACC-AGATCTCTTCATCACGTAGGAGCCGTG
1 TCACCTTTAGACGACCAAGAACTCTTCATCACGTAGGAGCCGTG
* ** * * * *
94441 TCAACC-ATAGATAACC-AG-CCGTCCTCATCACGTAGGAACCATGTTA
1 TC-ACCTTTAGACGACCAAGAAC-TCTTCATCACGTAGGAGCC--G-TG
* * *
94487 TCACCTTTAGATGGCC-AGAACTCTTCATCACGTATGAGCCGTG
1 TCACCTTTAGACGACCAAGAACTCTTCATCACGTAGGAGCCGTG
** * *
94530 TCATCC---CCA-GACC-AGATCTCCTCATCACGTAGGAGCCGTG
1 TCA-CCTTTAGACGACCAAGAACTCTTCATCACGTAGGAGCCGTG
* ** * * * * *
94570 TCAACC-ATAGATAAAC-AG-CCGTCCTCGTCACGTAGGAACCGTG
1 TC-ACCTTTAGACGACCAAGAAC-TCTTCATCACGTAGGAGCCGTG
* *
94613 TTATCACCTTTAGATGGCCAAGAACTCTTCATCACGTAGGAGCCGTG
1 ---TCACCTTTAGACGACCAAGAACTCTTCATCACGTAGGAGCCGTG
* * *
94660 TCACCTTTAGACGACCCA-AACTCTTCATCACGTATGAGCAGTG
1 TCACCTTTAGACGACCAAGAACTCTTCATCACGTAGGAGCCGTG
94703 TC
1 TC
94705 GTCCCCAACA
Statistics
Matches: 232, Mismatches: 51, Indels: 42
0.71 0.16 0.13
Matches are distributed among these distances:
40 63 0.27
41 3 0.01
42 3 0.01
43 79 0.34
44 18 0.08
45 7 0.03
46 36 0.16
47 22 0.09
48 1 0.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (44 bp):
TCACCTTTAGACGACCAAGAACTCTTCATCACGTAGGAGCCGTG
Found at i:94874 original size:3 final size:3
Alignment explanation
Indices: 94861--94900 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
94851 TTTTTTATCG
94861 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
94901 ATATCAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 4 0.11
3 31 0.89
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:94904 original size:9 final size:9
Alignment explanation
Indices: 94867--94904 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
94857 ATCGTTATTT
*
94867 TATTATTAT
1 TATTATTAA
*
94876 TATTATTAT
1 TATTATTAA
94885 TATTATT-A
1 TATTATTAA
94893 TATTATTAA
1 TATTATTAA
94902 TAT
1 TAT
94905 CAAATATTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 7 0.26
9 20 0.74
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTATTAA
Found at i:95015 original size:25 final size:25
Alignment explanation
Indices: 94982--95058 Score: 136
Period size: 25 Copynumber: 3.1 Consensus size: 25
94972 CAATCAACCC
*
94982 ATCATATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
95007 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
*
95032 AACAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
95057 AT
1 AT
95059 GTTCCAGCCG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (25 bp):
ATCAGATTAGGGTTTCAAACCCTAA
Found at i:99298 original size:23 final size:25
Alignment explanation
Indices: 99266--99319 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 25
99256 GCAAAAAGTA
* *
99266 AAAATAAACAAAGAAAGGTG-C-ATG
1 AAAA-AAACAAACAAAAGTGACAATG
99290 AAAAAAACAAACAAAAGTGACAATG
1 AAAAAAACAAACAAAAGTGACAATG
99315 AAAAA
1 AAAAA
99320 GTACATATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 13 0.50
24 5 0.19
25 8 0.31
ACGTcount: A:0.67, C:0.09, G:0.15, T:0.09
Consensus pattern (25 bp):
AAAAAAACAAACAAAAGTGACAATG
Found at i:132947 original size:30 final size:30
Alignment explanation
Indices: 132903--132964 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
132893 CTGGTATGCC
* * *
132903 TTCCCAAATTATTTTATTAAATTATGAGCA
1 TTCCCAAATCATTTTATCAAATAATGAGCA
*
132933 TTCCTAAATCATTTTATCAAATAATGAGCA
1 TTCCCAAATCATTTTATCAAATAATGAGCA
132963 TT
1 TT
132965 GCTAGTCGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.37, C:0.15, G:0.06, T:0.42
Consensus pattern (30 bp):
TTCCCAAATCATTTTATCAAATAATGAGCA
Found at i:134042 original size:14 final size:14
Alignment explanation
Indices: 134023--134050 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
134013 GTTGGTCTCC
134023 CTTCATCTTTTTCG
1 CTTCATCTTTTTCG
134037 CTTCATCTTTTTCG
1 CTTCATCTTTTTCG
134051 TTTAGTTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.29, G:0.07, T:0.57
Consensus pattern (14 bp):
CTTCATCTTTTTCG
Found at i:160535 original size:2 final size:2
Alignment explanation
Indices: 160528--160554 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
160518 ACAATTCATG
160528 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
160555 GATTTTCACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:175920 original size:2 final size:2
Alignment explanation
Indices: 175913--175937 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
175903 TCGTTTGCAT
175913 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
175938 GTTCAATTAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:176958 original size:20 final size:21
Alignment explanation
Indices: 176933--177025 Score: 109
Period size: 21 Copynumber: 4.5 Consensus size: 21
176923 CAATTCGCAT
*
176933 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
176953 TCGCAATGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
176974 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
176994 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
177015 TCGCAATGCGA
1 TCGCAATGCGA
177026 TACTGACTAT
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.47
21 32 0.53
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:176976 original size:21 final size:20
Alignment explanation
Indices: 176933--177061 Score: 109
Period size: 20 Copynumber: 6.3 Consensus size: 20
176923 CAATTCGCAT
*
176933 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGAAAA
**
176953 TCGCAATGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGAAAA
*
176974 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGAAAA
* **
176994 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGAAAA
* **
177015 TCGCAATGCG-ATACTGACTA
1 TCGCAATGCGAATA-AGAAAA
177035 TCGCAATGCGATAATAA-AAAA
1 TCGCAATGCG--AATAAGAAAA
177056 TCGCAA
1 TCGCAA
177062 CGAGATACTT
Statistics
Matches: 85, Mismatches: 18, Indels: 11
0.75 0.16 0.10
Matches are distributed among these distances:
19 1 0.01
20 42 0.49
21 39 0.46
23 3 0.04
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATAAGAAAA
Found at i:176990 original size:41 final size:41
Alignment explanation
Indices: 176933--177025 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
176923 CAATTCGCAT
*
176933 TCGCAATGCGAATAAGTAAATCGCAATGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
176974 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
177015 TCGCAATGCGA
1 TCGCAATGCGA
177026 TACTGACTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:177038 original size:41 final size:41
Alignment explanation
Indices: 176952--177086 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 41
176942 GAATAAGTAA
* * *
176952 ATCGCAATGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
176993 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
177034 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
177075 TTCGCAACGCGA
1 ATCGCAACGCGA
177087 TACTGACTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
40 4 0.05
41 73 0.92
42 2 0.03
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:177039 original size:20 final size:20
Alignment explanation
Indices: 177014--177108 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
177004 AATTGGGAAA
*
177014 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
177034 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
177055 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
177075 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
177095 TTCGCAACGCGATA
1 ATCGCAACGCGATA
177109 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:177324 original size:22 final size:22
Alignment explanation
Indices: 177296--177339 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
177286 CACTCTCTCA
*
177296 CCCATCTCCGACGAAATTCGTC
1 CCCATCTCCGACGAAATCCGTC
*
177318 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
177340 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.43, G:0.16, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:177628 original size:20 final size:20
Alignment explanation
Indices: 177603--177640 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
177593 CAATTCTCTC
177603 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
177623 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
177641 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:178978 original size:18 final size:18
Alignment explanation
Indices: 178957--179001 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
178947 TCCACTTCGG
*
178957 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
178975 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
178993 GAGCCATCA
1 GAGCCATCA
179002 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:179537 original size:19 final size:20
Alignment explanation
Indices: 179483--179549 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
179473 TAGTTTACTT
* *
179483 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
179503 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
179523 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
179542 TCGCAACG
1 TCGCAACG
179550 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:179579 original size:19 final size:19
Alignment explanation
Indices: 179483--179585 Score: 81
Period size: 19 Copynumber: 5.6 Consensus size: 19
179473 TAGTTTACTT
* *
179483 TCGCAACACGAAAATGACTA
1 TCGCAACGCG-AAATGAATA
**
179503 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAATA
* *
179523 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAATA
*
179542 TCGCAA--CGACA--AA-A
1 TCGCAACGCGAAATGAATA
179556 TCGCAACGCGAAATGAATA
1 TCGCAACGCGAAATGAATA
*
179575 TCGCAATGCGA
1 TCGCAACGCGA
179586 TTTGTGTTTC
Statistics
Matches: 68, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
14 7 0.10
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 24 0.35
20 24 0.35
21 1 0.01
ACGTcount: A:0.41, C:0.23, G:0.21, T:0.15
Consensus pattern (19 bp):
TCGCAACGCGAAATGAATA
Found at i:179675 original size:20 final size:19
Alignment explanation
Indices: 179611--179692 Score: 94
Period size: 19 Copynumber: 4.3 Consensus size: 19
179601 GCGATTTTGT
*
179611 CGTTGCGAT-TTCATTTCG
1 CGTTGCGATAGTCATTTCG
**
179629 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
179648 CATTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTT-CG
*
179668 CGTTGCGATAGTCATTTTG
1 CGTTGCGATAGTCATTTCG
179687 CGTTGC
1 CGTTGC
179693 AATTTTAAGT
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
18 9 0.16
19 29 0.53
20 17 0.31
ACGTcount: A:0.13, C:0.23, G:0.23, T:0.40
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:181553 original size:14 final size:14
Alignment explanation
Indices: 181534--181569 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
181524 ATTGTTTAAT
181534 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
181548 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
181562 TGATTTGT
1 TGATTTGT
181570 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:181695 original size:14 final size:14
Alignment explanation
Indices: 181676--181729 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
181666 CGAAATGGCT
181676 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
181690 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
181709 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
181723 ATCGCAA
1 ATCGCAA
181730 TGCGATTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 11 0.31
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:181747 original size:33 final size:33
Alignment explanation
Indices: 181657--181734 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 33
181647 AAAACAGACT
* ***
181657 ATCGCAACGCGAAATGGCTATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
181690 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
181723 ATCGCAATGCGA
1 ATCGCAATGCGA
181735 TTTTCATTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.42, C:0.22, G:0.23, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
Found at i:181810 original size:20 final size:20
Alignment explanation
Indices: 181753--181810 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
181743 TCGCATTGCG
* *
181753 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
*
181773 ATTTTCGCGTTGCGATAGCT
1 ATTTTCGCGTTGCGATAGCC
181793 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
181811 TCAAATGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.17, C:0.21, G:0.22, T:0.40
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:182897 original size:24 final size:24
Alignment explanation
Indices: 182870--182923 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
182860 GTATTCGAAA
* *
182870 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
182894 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
182918 TTTGAT
1 TTTGAT
182924 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:183115 original size:12 final size:12
Alignment explanation
Indices: 183098--183122 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
183088 ATATAATCCT
183098 GAAGAAGAAAAA
1 GAAGAAGAAAAA
183110 GAAGAAGAAAAA
1 GAAGAAGAAAAA
183122 G
1 G
183123 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:185437 original size:19 final size:19
Alignment explanation
Indices: 185395--185545 Score: 89
Period size: 19 Copynumber: 8.7 Consensus size: 19
185385 CTTAATGTCC
* **
185395 ATCGCAATGCGGAAATTACT
1 ATCGCAATGC-GAAATGAAA
185415 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
185434 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
185448 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
185467 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
185481 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
185500 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
*
185514 ATCGCAATGCGAAATAAAA
1 ATCGCAATGCGAAATGAAA
*
185533 ATCGCAACGCGAA
1 ATCGCAATGCGAA
185546 TTTAATTTCG
Statistics
Matches: 99, Mismatches: 17, Indels: 31
0.67 0.12 0.21
Matches are distributed among these distances:
14 27 0.27
15 3 0.03
16 6 0.06
17 6 0.06
18 3 0.03
19 44 0.44
20 10 0.10
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:185457 original size:33 final size:33
Alignment explanation
Indices: 185415--185541 Score: 193
Period size: 33 Copynumber: 3.8 Consensus size: 33
185405 GGAAATTACT
185415 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
185448 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
185480 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
185514 ATCGCAATGCGAAATAAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
185542 CGAATTTAAT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
32 1 0.01
33 82 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:185522 original size:66 final size:66
Alignment explanation
Indices: 185416--185548 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
185406 GAAATTACTA
* *
185416 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATAAAAATCGCAACGCGAAT
185481 T
66 T
*
185482 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATAAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATAAAAATCGCAACGCGAAT
185547 T
66 T
185548 T
1 T
185549 AATTTCGCGT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATAAAAATCGCAACGCGAAT
T
Found at i:185723 original size:14 final size:14
Alignment explanation
Indices: 185704--185740 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
185694 CATCAATTAA
185704 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
185718 ACAAATCACCTTTT
1 ACAAATCAACTTTT
185732 ACAAATCAA
1 ACAAATCAA
185741 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:187164 original size:21 final size:21
Alignment explanation
Indices: 187098--187164 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
187088 GTGAATCGGG
*
187098 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
187118 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
187140 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
187161 CTCT
1 CTCT
187165 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:187183 original size:42 final size:41
Alignment explanation
Indices: 187098--187220 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
187088 GTGAATCGGG
* * * * *
187098 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
187140 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
187182 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
187221 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:189254 original size:20 final size:20
Alignment explanation
Indices: 189229--189281 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
189219 TTGAAATAAA
* *
189229 AATCGCAACGAGATAATGAG
1 AATCGCAACGAGAAAATGAC
*
189249 AATCGCAACGCGAAAATGAC
1 AATCGCAACGAGAAAATGAC
*
189269 TATCGCAACGAGA
1 AATCGCAACGAGA
189282 GAATCGCAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.13
Consensus pattern (20 bp):
AATCGCAACGAGAAAATGAC
Found at i:189304 original size:33 final size:32
Alignment explanation
Indices: 189246--189343 Score: 133
Period size: 33 Copynumber: 3.0 Consensus size: 32
189236 ACGAGATAAT
189246 GAGAATCGCAACGCGAAAATGACTATCGCAACGA
1 GAGAATCGCAACGCG-AAATGACTATCGCAAC-A
*
189280 GAGAATCGCAACGCGAAATGACTATCGCGATCA
1 GAGAATCGCAACGCGAAATGACTATCGC-AACA
* **
189313 GACAATCGCAACGCGAAATGAAAATCGCAAC
1 GAGAATCGCAACGCGAAATGACTATCGCAAC
189344 CGCGAAATAA
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
32 2 0.03
33 39 0.67
34 17 0.29
ACGTcount: A:0.41, C:0.24, G:0.22, T:0.12
Consensus pattern (32 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACA
Found at i:189338 original size:19 final size:19
Alignment explanation
Indices: 189316--189405 Score: 153
Period size: 19 Copynumber: 4.7 Consensus size: 19
189306 GCGATCAGAC
189316 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
189335 AATCGCAACCGCGAAATAAA
1 AATCGCAA-CGCGAAATGAA
189355 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
189374 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
189393 AATCGCAATGCGA
1 AATCGCAACGCGA
189406 TTTTGGTTTC
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
19 49 0.73
20 18 0.27
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:189359 original size:39 final size:38
Alignment explanation
Indices: 189316--189405 Score: 153
Period size: 39 Copynumber: 2.3 Consensus size: 38
189306 GCGATCAGAC
189316 AATCGCAACGCGAAATGAAAATCGCAACCGCGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAA-CGCGAAATAAA
*
189355 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
*
189393 AATCGCAATGCGA
1 AATCGCAACGCGA
189406 TTTTGGTTTC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 22 0.45
39 27 0.55
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (38 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
Found at i:190000 original size:20 final size:20
Alignment explanation
Indices: 189975--190027 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
189965 GCGCTATGTA
189975 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
189995 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
190015 TATCTCGTTGCGA
1 AATCGCGTTGCGA
190028 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:190061 original size:20 final size:20
Alignment explanation
Indices: 190036--190089 Score: 92
Period size: 20 Copynumber: 2.7 Consensus size: 20
190026 GATTTTGTAT
190036 TATCGCATTGCGATAGT-AA
1 TATCGCATTGCGATAGTCAA
190055 GTATCGCATTGCGATAGTCAA
1 -TATCGCATTGCGATAGTCAA
190076 TATCGCATTGCGAT
1 TATCGCATTGCGAT
190090 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 31 0.94
21 2 0.06
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTCAA
Found at i:190074 original size:61 final size:61
Alignment explanation
Indices: 189976--190092 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
189966 CGCTATGTAA
* * * * * *
189976 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAATATCGCATTGCGATTTTGTATT
* * *
190037 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAATATCGCATTGCGATTTT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAATATCGCATTGCGATTTT
190093 CCCAATTCGC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAATATCGCATTGCGATTTTGTATT
Found at i:190108 original size:61 final size:61
Alignment explanation
Indices: 189976--190110 Score: 146
Period size: 61 Copynumber: 2.2 Consensus size: 61
189966 CGCTATGTAA
* * * * * * ** *
189976 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAATATCGCATTGCGATTTTCCAAT
* * *
190037 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAATATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAATATCGCATTGCGATTTT-CCAAT
190099 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
190111 TTACTTATTC
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
61 58 0.97
62 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAATATCGCATTGCGATTTTCCAAT
Found at i:190200 original size:21 final size:21
Alignment explanation
Indices: 190160--190200 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
190150 ATTGTATACC
**
190160 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
190181 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
190201 GCGAATTTGC
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:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:193979 original size:2 final size:2
Alignment explanation
Indices: 193972--194005 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
193962 TCATCCCTAC
193972 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
194006 TAAAATCTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:200895 original size:3 final size:3
Alignment explanation
Indices: 200887--200925 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
200877 AGAGAAAACC
200887 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
200926 CATGTTAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:201871 original size:21 final size:21
Alignment explanation
Indices: 201847--201887 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
201837 ATGTAAATCG
*
201847 CGTTGCGATTTTCCAAATTCA
1 CGTTGCGATATTCCAAATTCA
201868 CGTTGCGATATTCCAAATTC
1 CGTTGCGATATTCCAAATTC
201888 GCAACGCGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (21 bp):
CGTTGCGATATTCCAAATTCA
Found at i:201944 original size:19 final size:20
Alignment explanation
Indices: 201760--202008 Score: 149
Period size: 19 Copynumber: 12.6 Consensus size: 20
201750 AAATGACCAA
*
201760 CAAATTCGCAACGC-AATCT
1 CAAATTCGCAACGCGAATTT
201779 CAAATTCGCAACGCGAA-TT
1 CAAATTCGCAACGCGAATTT
* * *
201798 CTAATTTCGCAAC-CCAGTTT
1 C-AAATTCGCAACGCGAATTT
* * *
201818 CCAATTTCGCAACACAAATATGT
1 -CAAATTCGCAACGCGAAT-T-T
*** *
201841 -AAA-TCGCGTTGCGATTTT
1 CAAATTCGCAACGCGAATTT
* *** *
201859 CCAAATTCACGTTGCGATATTC
1 -CAAATTCGCAACGCGA-ATTT
*
201881 CAAATTCGCAACGCG-ATAGT
1 CAAATTCGCAACGCGAAT-TT
* **
201901 CAAATTCTCAACGCGAAAGT
1 CAAATTCGCAACGCGAATTT
*
201921 CAAATTCGCAAC-TGAATTT
1 CAAATTCGCAACGCGAATTT
*
201940 CAAATTCGCAAC-TGAATTT
1 CAAATTCGCAACGCGAATTT
201959 CAAATTCGCAACGCGAATTT
1 CAAATTCGCAACGCGAATTT
*
201979 -AATTTCGCAACGCGAATTT
1 CAAATTCGCAACGCGAATTT
*
201998 -AATTTCGCAAC
1 CAAATTCGCAAC
202009 AAGTTTTAGT
Statistics
Matches: 186, Mismatches: 30, Indels: 28
0.76 0.12 0.11
Matches are distributed among these distances:
18 1 0.01
19 85 0.46
20 68 0.37
21 28 0.15
22 3 0.02
23 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.28
Consensus pattern (20 bp):
CAAATTCGCAACGCGAATTT
Found at i:202151 original size:22 final size:22
Alignment explanation
Indices: 202126--202173 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
202116 CTCTCCGGCT
202126 ACATCCGTTCCTATATCAAACG
1 ACATCCGTTCCTATATCAAACG
*
202148 ACATCCGTTCCTATATCCAACG
1 ACATCCGTTCCTATATCAAACG
202170 ACAT
1 ACAT
202174 TCTTCCCCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.31, C:0.33, G:0.08, T:0.27
Consensus pattern (22 bp):
ACATCCGTTCCTATATCAAACG
Found at i:205252 original size:18 final size:18
Alignment explanation
Indices: 205218--205253 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
205208 AAGCAAAAGG
**
205218 AAATCAAAATCGTAATCA
1 AAATCAAAATCCCAATCA
205236 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
205254 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.22, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:205696 original size:25 final size:25
Alignment explanation
Indices: 205668--205717 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
205658 AAATCAATTA
*
205668 AACATTGTTGTGGGTACATCATTTG
1 AACATTGTTATGGGTACATCATTTG
*
205693 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATCATTTG
205718 GAAAAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.42
Consensus pattern (25 bp):
AACATTGTTATGGGTACATCATTTG
Found at i:205712 original size:22 final size:24
Alignment explanation
Indices: 205659--205717 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
205649 TTAAACAACA
* * *
205659 AATCAATTAAACATTGTTGTGGGT
1 AATCATTTGAACATTGTTATGGGT
205683 ACATCATTTGAACATTGTTATGGGT
1 A-ATCATTTGAACATTGTTATGGGT
*
205708 ACATTATTTG
1 A-ATCATTTG
205718 GAAAAATAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 1 0.03
25 29 0.97
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.41
Consensus pattern (24 bp):
AATCATTTGAACATTGTTATGGGT
Found at i:206145 original size:24 final size:24
Alignment explanation
Indices: 206094--206146 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
206084 TTTCATATGT
* * *
206094 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
206118 AATTTGAGTTTGAATTTAAATATA
1 AATTTGAGTTTGAATTTAAATATA
206142 AATTT
1 AATTT
206147 CGGATCCACT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:206494 original size:39 final size:39
Alignment explanation
Indices: 206407--206495 Score: 142
Period size: 39 Copynumber: 2.3 Consensus size: 39
206397 TCCGATGCTC
*
206407 ATCAAAATCCAAAGCTCATATGGTGCCAAACAAAAGGAA
1 ATCAAAATCTAAAGCTCATATGGTGCCAAACAAAAGGAA
* * *
206446 ATCAAAATCTAAATCTCATATGGTGCCAAGCAAAGGGAA
1 ATCAAAATCTAAAGCTCATATGGTGCCAAACAAAAGGAA
206485 ATCAAAATCTA
1 ATCAAAATCTA
206496 CAACTTGAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.47, C:0.19, G:0.15, T:0.19
Consensus pattern (39 bp):
ATCAAAATCTAAAGCTCATATGGTGCCAAACAAAAGGAA
Found at i:206964 original size:61 final size:63
Alignment explanation
Indices: 206836--206973 Score: 165
Period size: 61 Copynumber: 2.2 Consensus size: 63
206826 TAGAAACAGT
*
206836 AAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACAAATCAAATTAAA
1 AAATCAACTTTTACAAATCAATT--A-AAGCAAAAAAATAAATCTTATTTACAAATCAAATTAAA
206901 C
63 C
* * ** *
206902 AAATCAACTTTTACAAATCAATT-AATC-AAAAAATAAATCTTATTTCCTCATC-AATTGTAAC
1 AAATCAACTTTTACAAATCAATTAAAGCAAAAAAATAAATCTTATTTACAAATCAAATT-AAAC
206963 AAATCAACTTT
1 AAATCAACTTT
206974 CAATGTAAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
60 4 0.06
61 35 0.54
62 3 0.05
66 23 0.35
ACGTcount: A:0.50, C:0.17, G:0.01, T:0.32
Consensus pattern (63 bp):
AAATCAACTTTTACAAATCAATTAAAGCAAAAAAATAAATCTTATTTACAAATCAAATTAAAC
Found at i:208355 original size:21 final size:21
Alignment explanation
Indices: 208331--208426 Score: 79
Period size: 21 Copynumber: 4.6 Consensus size: 21
208321 GGCGAGACCA
*
208331 CTTGAACGATGACAGTGGCCT
1 CTTGAACGATGACAGGGGCCT
* * *
208352 CTTGAACGGTGAGAGGGGCTT
1 CTTGAACGATGACAGGGGCCT
* *
208373 CTTCG-ATGATGATAGGGGCCT
1 CTT-GAACGATGACAGGGGCCT
* *
208394 CTTGAACGAT-ATGAGGCGCCT
1 CTTGAACGATGA-CAGGGGCCT
*
208415 CTTGAATGATGA
1 CTTGAACGATGA
208427 TAGGTGCATC
Statistics
Matches: 59, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
20 2 0.03
21 55 0.93
22 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (21 bp):
CTTGAACGATGACAGGGGCCT
Found at i:208424 original size:42 final size:42
Alignment explanation
Indices: 208331--208430 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
208321 GGCGAGACCA
* * * * * *
208331 CTTGAACGATGACAGTGGCCTCTTGAACGGTGAGAGGGGCTT
1 CTTGAATGATGATAGGGGCCTCTTGAACGATGAGAGGCGCCT
208373 CTTCG-ATGATGATAGGGGCCTCTTGAACGAT-ATGAGGCGCCT
1 CTT-GAATGATGATAGGGGCCTCTTGAACGATGA-GAGGCGCCT
208415 CTTGAATGATGATAGG
1 CTTGAATGATGATAGG
208431 TGCATCGGGC
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
41 2 0.04
42 46 0.94
43 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.26
Consensus pattern (42 bp):
CTTGAATGATGATAGGGGCCTCTTGAACGATGAGAGGCGCCT
Found at i:210916 original size:22 final size:22
Alignment explanation
Indices: 210888--211005 Score: 155
Period size: 22 Copynumber: 5.4 Consensus size: 22
210878 AGATGGAGAT
* *
210888 AGACGGATTTCGTCGAAAATGG
1 AGACGGATTTCGTCGGAGATGG
* *
210910 AGACGGAATTCATCGGAGATGG
1 AGACGGATTTCGTCGGAGATGG
* *
210932 AGACGGATTTCGTCGAAAATGG
1 AGACGGATTTCGTCGGAGATGG
* *
210954 AGACGGAATTCATCGGAGATGG
1 AGACGGATTTCGTCGGAGATGG
210976 AGACGGATTTCGTCGGAGATGG
1 AGACGGATTTCGTCGGAGATGG
*
210998 GGACGGAT
1 AGACGGAT
211006 GTCGCCGTAG
Statistics
Matches: 81, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 81 1.00
ACGTcount: A:0.30, C:0.14, G:0.36, T:0.20
Consensus pattern (22 bp):
AGACGGATTTCGTCGGAGATGG
Found at i:210943 original size:44 final size:44
Alignment explanation
Indices: 210888--211004 Score: 207
Period size: 44 Copynumber: 2.7 Consensus size: 44
210878 AGATGGAGAT
210888 AGACGGATTTCGTCGAAAATGGAGACGGAATTCATCGGAGATGG
1 AGACGGATTTCGTCGAAAATGGAGACGGAATTCATCGGAGATGG
210932 AGACGGATTTCGTCGAAAATGGAGACGGAATTCATCGGAGATGG
1 AGACGGATTTCGTCGAAAATGGAGACGGAATTCATCGGAGATGG
* * *
210976 AGACGGATTTCGTCGGAGATGGGGACGGA
1 AGACGGATTTCGTCGAAAATGGAGACGGA
211005 TGTCGCCGTA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 70 1.00
ACGTcount: A:0.30, C:0.14, G:0.37, T:0.20
Consensus pattern (44 bp):
AGACGGATTTCGTCGAAAATGGAGACGGAATTCATCGGAGATGG
Found at i:211158 original size:20 final size:20
Alignment explanation
Indices: 211133--211198 Score: 114
Period size: 20 Copynumber: 3.2 Consensus size: 20
211123 GCGTAAAAAT
211133 ATTTGACTATCGCGTTGCGA
1 ATTTGACTATCGCGTTGCGA
211153 ATTTGACTATCGCGTTGCGA
1 ATTTGACTATCGCGTTGCGA
*
211173 ATTTGGAATATCGCGTTGCGA
1 ATTT-GACTATCGCGTTGCGA
211194 ATTTG
1 ATTTG
211199 GAAAATCGCA
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
20 25 0.57
21 19 0.43
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (20 bp):
ATTTGACTATCGCGTTGCGA
Found at i:211166 original size:41 final size:41
Alignment explanation
Indices: 211121--211198 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 41
211111 ATATTGTGTT
* *
211121 TCGCG-TAAAAATATTTGACTATCGCGTTGCGAATTTGACTA
1 TCGCGTTAAAAAT-TTGGAATATCGCGTTGCGAATTTGACTA
***
211162 TCGCGTTGCGAATTTGGAATATCGCGTTGCGAATTTG
1 TCGCGTTAAAAATTTGGAATATCGCGTTGCGAATTTG
211199 GAAAATCGCA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
41 27 0.87
42 4 0.13
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (41 bp):
TCGCGTTAAAAATTTGGAATATCGCGTTGCGAATTTGACTA
Found at i:211186 original size:21 final size:21
Alignment explanation
Indices: 211140--211207 Score: 111
Period size: 21 Copynumber: 3.3 Consensus size: 21
211130 AATATTTGAC
*
211140 TATCGCGTTGCGAATTT-GAC
1 TATCGCGTTGCGAATTTGGAA
211160 TATCGCGTTGCGAATTTGGAA
1 TATCGCGTTGCGAATTTGGAA
211181 TATCGCGTTGCGAATTTGGAA
1 TATCGCGTTGCGAATTTGGAA
*
211202 AATCGC
1 TATCGC
211208 AACGCGAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
20 17 0.38
21 28 0.62
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (21 bp):
TATCGCGTTGCGAATTTGGAA
Found at i:211214 original size:21 final size:21
Alignment explanation
Indices: 211168--211235 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
211158 ACTATCGCGT
* **
211168 TGCGAATTTGGAATATCGCGT
1 TGCGAATTTGGAAAATCGCAA
211189 TGCGAATTTGGAAAATCGCAA
1 TGCGAATTTGGAAAATCGCAA
* * *
211210 CGCGAATTTGAAAAATCACAA
1 TGCGAATTTGGAAAATCGCAA
211231 TGCGA
1 TGCGA
211236 TTTACATATT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (21 bp):
TGCGAATTTGGAAAATCGCAA
Found at i:212023 original size:21 final size:19
Alignment explanation
Indices: 211999--212045 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
211989 AAACATGTAC
211999 TAAAAAGTTATATATA-ATAAA
1 TAAAAAGTTAT-T-TAGA-AAA
*
212020 TAAAATGTTATTTAGAAAA
1 TAAAAAGTTATTTAGAAAA
212039 TAAAAAG
1 TAAAAAG
212046 AATAATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 11 0.48
20 2 0.09
21 10 0.43
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.32
Consensus pattern (19 bp):
TAAAAAGTTATTTAGAAAA
Found at i:212273 original size:19 final size:20
Alignment explanation
Indices: 212233--212278 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
212223 TAGTTGTTTT
212233 TTTAATTATTAAAACGGTTA
1 TTTAATTATTAAAACGGTTA
*
212253 TTTAATTATTAAAA-TGTTA
1 TTTAATTATTAAAACGGTTA
212272 -TTAATTA
1 TTTAATTA
212279 AATCATTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.28
19 4 0.16
20 14 0.56
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (20 bp):
TTTAATTATTAAAACGGTTA
Found at i:229485 original size:2 final size:2
Alignment explanation
Indices: 229480--229546 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
229470 ATTTGAAAAG
229480 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
229522 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
229547 CTCACGGAGC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:231632 original size:70 final size:72
Alignment explanation
Indices: 231541--231710 Score: 184
Period size: 74 Copynumber: 2.4 Consensus size: 72
231531 TTATTTGGTT
* * * *
231541 AAATAAATTTCAGTTCAATTAATGGTTACA-GAAAAA-AAATTCGGTTAATTCG-ATTCGGTTAA
1 AAATAAATTTCGGTTCGATTAATGGTTA-AGGAAAAATAAATTAGGTTAATTAGTATTCGGTTAA
231603 TAATTTTC
65 TAATTTTC
* * * * ** *
231611 AAATAAATTTTGGTTCGATTAACGATTAAGGAAAAATAATTTATTTTATTTAGTTAATTCGGTTA
1 AAATAAATTTCGGTTCGATTAATGGTTAAGGAAAAATAAATTAGGTTAATTAG-T-ATTCGGTTA
231676 ATAATTTTC
64 ATAATTTTC
*
231685 AAATAAATTTCGATTCGATTAATGGT
1 AAATAAATTTCGGTTCGATTAATGGT
231711 CAAATAATTT
Statistics
Matches: 80, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
69 1 0.01
70 29 0.36
71 10 0.12
74 40 0.50
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.41
Consensus pattern (72 bp):
AAATAAATTTCGGTTCGATTAATGGTTAAGGAAAAATAAATTAGGTTAATTAGTATTCGGTTAAT
AATTTTC
Found at i:231731 original size:26 final size:27
Alignment explanation
Indices: 231683--231733 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
231673 TTAATAATTT
*
231683 TCAAATAAATTTCGATTCGATTAATGG
1 TCAAATAAATTTCGATTCAATTAATGG
231710 TCAAAT-AATTTC-AGTTCAATTAAT
1 TCAAATAAATTTCGA-TTCAATTAAT
231734 AGTTAAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 1 0.05
26 15 0.68
27 6 0.27
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (27 bp):
TCAAATAAATTTCGATTCAATTAATGG
Found at i:231800 original size:68 final size:66
Alignment explanation
Indices: 231710--231867 Score: 185
Period size: 66 Copynumber: 2.4 Consensus size: 66
231700 CGATTAATGG
** * * * *
231710 TCAAAT-AATTTCAGTTCAATTAATAGTTAAAGAAAATAATCAGTTGATTTGGTTCGGTTAATAA
1 TCAAATAAATTTTGGTTCGATTAACAGTTAAAGAAAA-AAT-AATTGATTTGATTCGGTTAATAA
231774 TTT
64 TTT
* * * *
231777 TCAAATAAATTTTGGTTCGATTAACGGTTAAGGAAAAAATAATTTATTTTATTCGGTTAATAATT
1 TCAAATAAATTTTGGTTCGATTAACAGTTAAAGAAAAAATAATTGATTTGATTCGGTTAATAATT
231842 T
66 T
231843 TCAAATAAA-TTTGAGTTCGATTAAC
1 TCAAATAAATTTTG-GTTCGATTAAC
231868 GGTCAAATAA
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
65 4 0.05
66 42 0.53
67 9 0.11
68 24 0.30
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.41
Consensus pattern (66 bp):
TCAAATAAATTTTGGTTCGATTAACAGTTAAAGAAAAAATAATTGATTTGATTCGGTTAATAATT
T
Found at i:231901 original size:160 final size:167
Alignment explanation
Indices: 231541--231908 Score: 527
Period size: 160 Copynumber: 2.2 Consensus size: 167
231531 TTATTTGGTT
* *
231541 AAATAAATTTCAGTTCAATTAATGGTTACAGAAAAAAAATTCGGTTAATTCGATTCGGTTAATAA
1 AAAT-AATTTCAGTTCAATTAATGGTTAAAG-AAAAAAATTCAGTTAATTCGATTCGGTTAATAA
*
231606 TTTTCAAATAAATTTTGGTTCGATTAACGATTAAGGAAAAATAATTTATTTTATTTAGTTAATTC
64 TTTTCAAATAAATTTTGGTTCGATTAACGATTAAGGAAAAATAA-TTAATTTATTTA-TTAATTC
*
231671 GGTTAATAATTTTCAAATAAATTTCGATTCGATTAATGGTC
127 GGTTAATAATTTTCAAATAAATTTCGATTCGATTAACGGTC
* * * * *
231712 AAATAATTTCAGTTCAATTAATAGTTAAAGAAAATAA-TCAGTTGATTTGGTTCGGTTAATAATT
1 AAATAATTTCAGTTCAATTAATGGTTAAAGAAAAAAATTCAGTTAATTCGATTCGGTTAATAATT
*
231776 TTCAAATAAATTTTGGTTCGATTAACGGTTAAGG-AAAA-AA-TAATTTA-TT-TT-ATTCGGTT
66 TTCAAATAAATTTTGGTTCGATTAACGATTAAGGAAAAATAATTAATTTATTTATTAATTCGGTT
231835 AATAATTTTCAAATAAATTT-GAGTTCGATTAACGGTC
131 AATAATTTTCAAATAAATTTCGA-TTCGATTAACGGTC
* *
231872 AAATAATTTCGGTTCGATTAATGGTTAAAGAAAAAAA
1 AAATAATTTCAGTTCAATTAATGGTTAAAGAAAAAAA
231909 AATCGGTTAC
Statistics
Matches: 182, Mismatches: 14, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
159 2 0.01
160 74 0.41
161 2 0.01
163 2 0.01
164 6 0.03
166 2 0.01
167 4 0.02
168 56 0.31
169 6 0.03
170 24 0.13
171 4 0.02
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (167 bp):
AAATAATTTCAGTTCAATTAATGGTTAAAGAAAAAAATTCAGTTAATTCGATTCGGTTAATAATT
TTCAAATAAATTTTGGTTCGATTAACGATTAAGGAAAAATAATTAATTTATTTATTAATTCGGTT
AATAATTTTCAAATAAATTTCGATTCGATTAACGGTC
Found at i:231926 original size:82 final size:80
Alignment explanation
Indices: 231829--231999 Score: 279
Period size: 82 Copynumber: 2.1 Consensus size: 80
231819 TTTATTTTAT
* **
231829 TCGGTTAATAATTTTCAAATAAATTTGAGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAAT
1 TCGGTTAATAATTTTCAAATAAATTTCAGTTCGATTAACGGTC-AATAATTTCGGTTAAATTAAT
231894 GGTTAAAGAAAAAAAAA
65 -GTTAAAGAAAAAAAAA
*
231911 TCGGTTACTAATTTTCAAATAAATTTCAGTTCGATTAACGGTCAATAATTTCGGTTAAATTAATG
1 TCGGTTAATAATTTTCAAATAAATTTCAGTTCGATTAACGGTCAATAATTTCGGTTAAATTAATG
*
231976 TTAAAGAAAAAAAAT
66 TTAAAGAAAAAAAAA
231991 TCGGTTAAT
1 TCGGTTAAT
232000 TTGGTTCGGT
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
80 23 0.28
81 19 0.23
82 41 0.49
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (80 bp):
TCGGTTAATAATTTTCAAATAAATTTCAGTTCGATTAACGGTCAATAATTTCGGTTAAATTAATG
TTAAAGAAAAAAAAA
Found at i:236996 original size:29 final size:29
Alignment explanation
Indices: 236964--237020 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
236954 ATTTCAAAAT
236964 TATAATTATGAAA-AAAATATTAATTTATA
1 TATAATTAT-AAATAAAATATTAATTTATA
* *
236993 TATATTTATAAATAAAATATTTATTTAT
1 TATAATTATAAATAAAATATTAATTTAT
237021 TTAGAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 22 0.88
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (29 bp):
TATAATTATAAATAAAATATTAATTTATA
Found at i:237403 original size:2 final size:2
Alignment explanation
Indices: 237396--237434 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
237386 ATTTAAACAA
237396 AT AT AT AT AT AT AT AT AT AT 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 A
237435 AGACTAAGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:237472 original size:12 final size:12
Alignment explanation
Indices: 237447--237555 Score: 88
Period size: 11 Copynumber: 9.3 Consensus size: 12
237437 ACTAAGATAA
237447 AAAATAATAA-T
1 AAAATAATAATT
237458 AAAATAATAATT
1 AAAATAATAATT
*
237470 AAAGTAATAATT
1 AAAATAATAATT
237482 AAAAT-AT-ATT
1 AAAATAATAATT
*
237492 AAAAATACTAA-T
1 -AAAATAATAATT
237504 AAAATAAT-ATT
1 AAAATAATAATT
*
237515 ACAAATAAATAATG
1 A-AAAT-AATAATT
* *
237529 AAATAAAATAACT
1 AAA-ATAATAATT
237542 -AAATAA-AATT
1 AAAATAATAATT
237552 AAAA
1 AAAA
237556 CTACAATATA
Statistics
Matches: 78, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
10 7 0.09
11 32 0.41
12 24 0.31
13 11 0.14
14 4 0.05
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (12 bp):
AAAATAATAATT
Found at i:237477 original size:23 final size:22
Alignment explanation
Indices: 237447--237534 Score: 97
Period size: 23 Copynumber: 3.8 Consensus size: 22
237437 ACTAAGATAA
237447 AAAATAATAATAAAATAATAATT
1 AAAATAATAATAAAATAAT-ATT
*
237470 AAAGTAATAATTAAAAT-ATATT
1 AAAATAATAA-TAAAATAATATT
*
237492 AAAAATACTAATAAAATAATATT
1 -AAAATAATAATAAAATAATATT
*
237515 ACAAATAAATAATGAAATAA
1 A-AAAT-AATAATAAAATAA
237535 AATAACTAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
22 10 0.18
23 28 0.51
24 17 0.31
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (22 bp):
AAAATAATAATAAAATAATATT
Found at i:237680 original size:97 final size:98
Alignment explanation
Indices: 237564--237761 Score: 355
Period size: 97 Copynumber: 2.0 Consensus size: 98
237554 AACTACAATA
*
237564 TAAATACACTTAACGTTATATTAATAATAAAATACCATGGATAAGTATAA-ATAAAGTAAACGAA
1 TAAACACACTTAACGTTATATTAATAATAAAATACCATGGATAAGTATAATA-AAAGTAAACGAA
237628 TTAATAAAATAAATAAAAGAGATTTATA-TTAAT
65 TTAATAAAATAAATAAAAGAGATTTATATTTAAT
*
237661 TAAACACACTTAACGTTATATTAATAATAAAATACCATGTATAAGTATAATAAAAGTAAACGAAT
1 TAAACACACTTAACGTTATATTAATAATAAAATACCATGGATAAGTATAATAAAAGTAAACGAAT
237726 TAATAAAATAAATAAAAGAGATTTATATTTAAT
66 TAATAAAATAAATAAAAGAGATTTATATTTAAT
237759 TAA
1 TAA
237762 TATCTATATA
Statistics
Matches: 97, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
97 88 0.91
98 9 0.09
ACGTcount: A:0.55, C:0.07, G:0.08, T:0.31
Consensus pattern (98 bp):
TAAACACACTTAACGTTATATTAATAATAAAATACCATGGATAAGTATAATAAAAGTAAACGAAT
TAATAAAATAAATAAAAGAGATTTATATTTAAT
Found at i:239454 original size:103 final size:101
Alignment explanation
Indices: 239340--239641 Score: 342
Period size: 102 Copynumber: 2.9 Consensus size: 101
239330 CGAACTTCTT
* *
239340 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGCAAAGTTGATGTTGATCTACCTTAT
1 CTTCTTCAGATGAGTTCTTCTTATTATGAACTTTTTCTGG-AAAGTTGAT-TTGATCTACCTTCT
239405 GTGATAGAATCAAGCAAAAGGTTGAACAAGTTCTCCTC
64 GTGATAGAATCAAGCAAAAGGTTGAACAAGTTCTCCTC
* * *** *
239443 CTTCTTCAGATGAGTTCTTCTTATTATGAACTTTTTCGCTGGGGATGACAATTT-ATCT-TCTTC
1 CTTCTTCAGATGAGTTCTTCTTATTATGAACTTTTT--CT-GGAAAGTTGATTTGATCTACCTTC
* * * *
239506 TGTGAT-GTAATCTAGCAAAAAGTTGAACAAATTCTCTTC
63 TGTGATAG-AATCAAGCAAAAGGTTGAACAAGTTCTCCTC
* *
239545 CTTCTTCAGATGAGTTCTTCTTATTATGAACTTTTTATGGAAATGTTGATACTGATCTATCTCAT
1 CTTCTTCAGATGAGTTCTTCTTATTATGAACTTTTTCTGGAAA-GTTGAT-TTGATCTA-C-C-T
*
239610 TCTGTGATAGAATCAAAC-AAAGGTTGAACAAG
61 TCTGTGATAGAATCAAGCAAAAGGTTGAACAAG
239642 CTCTTCTCAT
Statistics
Matches: 163, Mismatches: 24, Indels: 22
0.78 0.11 0.11
Matches are distributed among these distances:
99 3 0.02
100 4 0.02
101 2 0.01
102 76 0.47
103 39 0.24
104 2 0.01
105 19 0.12
106 17 0.10
107 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (101 bp):
CTTCTTCAGATGAGTTCTTCTTATTATGAACTTTTTCTGGAAAGTTGATTTGATCTACCTTCTGT
GATAGAATCAAGCAAAAGGTTGAACAAGTTCTCCTC
Found at i:239689 original size:40 final size:40
Alignment explanation
Indices: 239643--239740 Score: 196
Period size: 40 Copynumber: 2.5 Consensus size: 40
239633 TTGAACAAGC
239643 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
239683 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
239723 TCTTCTCATTATGAACTT
1 TCTTCTCATTATGAACTT
239741 TCTCTGGCAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.18, C:0.24, G:0.09, T:0.48
Consensus pattern (40 bp):
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
Found at i:240094 original size:113 final size:113
Alignment explanation
Indices: 239682--240111 Score: 588
Period size: 113 Copynumber: 3.8 Consensus size: 113
239672 TTCAGATGAG
*
239682 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTACTCTG
* **
239747 GCAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
66 GCAATGCTGATCCATCAAGTGATGGATTCAAGCAAAAGGTTGAACAAA
* ** *
239795 TTCTTATCATTATGAA-TTCTTCTT-CTTC-AGATGACGAGTTCTTCTCATTATGAACTCTAC-C
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA-GATGAGTTCTTCTCATTATGAACT-TACTC
* * * *
239856 TGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAACAAA
64 TGGCAATGCTGATCCATCAAGTGATGGATTCAAGCAAAAGGTTGAACAAA
*
239906 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTACTCTG
* *
239971 GAAAAT-CTGATCCATCAAGTGATGGATTCAAGCGAAAA-GTTGAACAAG
66 G-CAATGCTGATCCATCAAGTGATGGATTCAAGC-AAAAGGTTGAACAAA
* *
240019 TTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC-CT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT-TACTCT
*
240083 GGCAATGCTGATCCATTGAA-TGATGGATT
65 GGCAATGCTGATCCA-TCAAGTGATGGATT
240112 TAAATCTTTG
Statistics
Matches: 278, Mismatches: 28, Indels: 22
0.85 0.09 0.07
Matches are distributed among these distances:
110 1 0.00
111 86 0.31
112 23 0.08
113 156 0.56
114 12 0.04
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTACTCTG
GCAATGCTGATCCATCAAGTGATGGATTCAAGCAAAAGGTTGAACAAA
Found at i:240593 original size:22 final size:22
Alignment explanation
Indices: 240515--240591 Score: 118
Period size: 22 Copynumber: 3.5 Consensus size: 22
240505 GATAAAGCTT
240515 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTG
* * *
240537 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTG
*
240559 TCATCTTTGAAGAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTG
240581 TCATCTTTGAA
1 TCATCTTTGAA
240592 GAATGTAGAT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTG
Found at i:241033 original size:54 final size:54
Alignment explanation
Indices: 240951--241116 Score: 269
Period size: 54 Copynumber: 3.1 Consensus size: 54
240941 AGAATAGCAG
* ** * *
240951 GTTCGTAAAACATTTGTCGGCGCATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGCTCAGAT
*
241005 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTAGTTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGCTCAGAT
*
241059 GTTCGTAAAACATTTGACAACACATTCATCTTTTCCTGTGGTTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGCTCAGAT
241113 GTTC
1 GTTC
241117 TCAATCATTG
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 104 1.00
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGCTCAGAT
Found at i:243380 original size:114 final size:114
Alignment explanation
Indices: 243180--243405 Score: 380
Period size: 114 Copynumber: 2.0 Consensus size: 114
243170 GATTATGCAG
* * * *
243180 TTCATCTTTTAATTCCAATGATTGGTTTTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* *
243245 ACACTTCCAGGAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGATATTGGGTCTCCTTATTTCTACTATGAGCAAA
*
243294 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
243359 ACACTTCCAGAAGATGATATTGGGTCTTCTTATTTCTACTATGAGCA
66 ACACTTCCAGAAGATGATATTGGGTCTCCTTATTTCTACTATGAGCA
243406 CATGGCACTT
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 104 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGATATTGGGTCTCCTTATTTCTACTATGAGCAAA
Done.