Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007790.1 Hibiscus syriacus cultivar Beakdansim tig00110076_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: 2956777
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 11
Found at i:13991 original size:33 final size:34
Alignment explanation
Indices: 13952--14027 Score: 136
Period size: 33 Copynumber: 2.2 Consensus size: 34
13942 GTTACTATTA
13952 TTTTATTAGGAATTAGAGTTAAGATATGTTTA-T
1 TTTTATTAGGAATTAGAGTTAAGATATGTTTAGT
13985 TTTTATTAGGAATTAGAGTTAAGATATGTTTAGT
1 TTTTATTAGGAATTAGAGTTAAGATATGTTTAGT
14019 TTATTATTA
1 TT-TTATTA
14028 TTTTATTCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 32 0.78
34 3 0.07
35 6 0.15
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (34 bp):
TTTTATTAGGAATTAGAGTTAAGATATGTTTAGT
Found at i:23075 original size:30 final size:30
Alignment explanation
Indices: 23002--23076 Score: 91
Period size: 29 Copynumber: 2.5 Consensus size: 30
22992 CTTTCCTTGG
*
23002 CTTTTCTTTCTTTT-TGAAATTCTTCTTTTT
1 CTTTT-TTTCTTTTCTGAAATTCTTCTTCTT
* *
23032 CTTTTCTTCTTTTCT-AAATTTTTCTTCTT
1 CTTTTTTTCTTTTCTGAAATTCTTCTTCTT
23061 CTTTTTTGTCTTTTCT
1 CTTTTTT-TCTTTTCT
23077 TTCTTTTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 25 0.64
30 14 0.36
ACGTcount: A:0.08, C:0.19, G:0.03, T:0.71
Consensus pattern (30 bp):
CTTTTTTTCTTTTCTGAAATTCTTCTTCTT
Found at i:23334 original size:5 final size:5
Alignment explanation
Indices: 23324--23368 Score: 56
Period size: 5 Copynumber: 8.8 Consensus size: 5
23314 AAGGAAGATT
*
23324 AAATG AAATG ATAAAG ATAA-G AAATG AAATG AAATG AAATG AAAT
1 AAATG AAATG A-AATG A-AATG AAATG AAATG AAATG AAATG AAAT
23369 AAGGATGGGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
4 2 0.05
5 28 0.76
6 7 0.19
ACGTcount: A:0.62, C:0.00, G:0.18, T:0.20
Consensus pattern (5 bp):
AAATG
Found at i:23838 original size:19 final size:21
Alignment explanation
Indices: 23795--23846 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
23785 GAAACCCCTT
23795 TGAAAATACATGATTTTTAAA
1 TGAAAATACATGATTTTTAAA
23816 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGATTTTTAAA
*
23835 TGAAGATACATG
1 TGAAAATACATG
23847 CTCTTGGCTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (21 bp):
TGAAAATACATGATTTTTAAA
Found at i:34916 original size:24 final size:25
Alignment explanation
Indices: 34870--34924 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
34860 ACAGTTATGC
*
34870 CACTTGAAGTTCAAAAAGATGTG-T
1 CACTTGAAGTGCAAAAAGATGTGAT
* * *
34894 CACTTGAAGTGCCACAAGTTGTGAT
1 CACTTGAAGTGCAAAAAGATGTGAT
34919 CA-TTGA
1 CACTTGA
34925 GGCTCCAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (25 bp):
CACTTGAAGTGCAAAAAGATGTGAT
Found at i:43129 original size:1 final size:1
Alignment explanation
Indices: 43125--43190 Score: 51
Period size: 1 Copynumber: 66.0 Consensus size: 1
43115 GAAATTTTGG
* * *** *** *
43125 TTTTTTTGTTTTTTTTTTGTTTTTTTGGATTTTTTTTGGCTTTTTTTTTTTTTTTTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
43190 T
1 T
43191 GAAAAAAAAA
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.86
Consensus pattern (1 bp):
T
Found at i:43141 original size:11 final size:11
Alignment explanation
Indices: 43125--43190 Score: 68
Period size: 11 Copynumber: 6.4 Consensus size: 11
43115 GAAATTTTGG
43125 TTTTTTTGTTT
1 TTTTTTTGTTT
43136 TTTTTTTG---
1 TTTTTTTGTTT
**
43144 TTTTTTTGGAT
1 TTTTTTTGTTT
**
43155 TTTTTTTGGCT
1 TTTTTTTGTTT
43166 TTTTTTT-TTT
1 TTTTTTTGTTT
43176 TTTTTTTGTTT
1 TTTTTTTGTTT
43187 TTTT
1 TTTT
43191 GAAAAAAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
8 8 0.17
10 8 0.17
11 32 0.67
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.86
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:50233 original size:31 final size:31
Alignment explanation
Indices: 50198--50283 Score: 84
Period size: 36 Copynumber: 2.6 Consensus size: 31
50188 TTTTGTTCAA
*
50198 CTTCAAAAAGCTCTTCTTTATTTGAATTTTC
1 CTTCAAAAAGCTCTTCTTCATTTGAATTTTC
*
50229 CTTCAAACGTTGAAGCTTTTCTTCATTTGAATTTTC
1 CTTCAAA-----AAGCTCTTCTTCATTTGAATTTTC
* *
50265 C-TCAAAAAGTTCTCCTTCA
1 CTTCAAAAAGCTCTTCTTCA
50284 GTTGCATTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
30 10 0.22
31 7 0.16
35 5 0.11
36 23 0.51
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.44
Consensus pattern (31 bp):
CTTCAAAAAGCTCTTCTTCATTTGAATTTTC
Found at i:54343 original size:24 final size:21
Alignment explanation
Indices: 54313--54360 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 21
54303 GTGCTATAAC
* *
54313 AAAAAAAGCAACAAGAAAGAAGA
1 AAAAAAAACAAAAAG-AA-AAGA
54336 AAAAAAAACAAAAAGAAAAGA
1 AAAAAAAACAAAAAGAAAAGA
54357 AAAA
1 AAAA
54361 GACTCCTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 8 0.35
22 2 0.09
23 13 0.57
ACGTcount: A:0.81, C:0.06, G:0.12, T:0.00
Consensus pattern (21 bp):
AAAAAAAACAAAAAGAAAAGA
Found at i:54359 original size:20 final size:20
Alignment explanation
Indices: 54322--54360 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
54312 CAAAAAAAGC
*
54322 AACAAGAAAGAAGAAAAAAA
1 AACAAGAAAGAAAAAAAAAA
54342 AACAA-AAAGAAAAGAAAAA
1 AACAAGAAAGAAAA-AAAAA
54361 GACTCCTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.82, C:0.05, G:0.13, T:0.00
Consensus pattern (20 bp):
AACAAGAAAGAAAAAAAAAA
Found at i:58142 original size:19 final size:19
Alignment explanation
Indices: 58118--58167 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
58108 CGGCCAAGAA
* **
58118 CATGTATCTTCATTTAAAT
1 CATGTATTTTCATCAAAAT
*
58137 CATGTATTTTTATCAAAAT
1 CATGTATTTTCATCAAAAT
58156 CATGTATTTTCA
1 CATGTATTTTCA
58168 AAGGGGTTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.32, C:0.14, G:0.06, T:0.48
Consensus pattern (19 bp):
CATGTATTTTCATCAAAAT
Found at i:64793 original size:199 final size:202
Alignment explanation
Indices: 64431--64826 Score: 656
Period size: 199 Copynumber: 2.0 Consensus size: 202
64421 TATAACGTTC
*
64431 AAACATCCTATTCCGTATGTTTTACAAGAACTAAATGAAGATGAAAAGTTAGAAGAAATAGAGAA
1 AAACATCCTAGTCCGTATGTTTTACAAGAACTAAATGAAGATGAAAAGTTAGAAGAAATAGAGAA
64496 AGTACTTGTGACATTTTCAATTGGGAGATATGAAGATGAGGTCTTGTGTGATGTTGTTTCCATGA
66 AGTACTTGTGACATTTTCAATTGGGAGATATGAAGATGAGGTCTTGTGTGATGTTGTTTCCATGA
* *
64561 ATTCAAGTCATCTTCTACTCGTACGTCCGTGGCAGTTTTATAAACGAGCATTGTATGATGGGTTC
131 ATTCAAGCCATCTTCTACTCGTACGTCCGTGGCAGTTTGATAAACGAGCATTGTATGATGGGTTC
64626 TCTAATT
196 TCTAATT
* * * ** *
64633 AAACATCCTAGTCTGTATGTTTTACAAGGACTAAATGAAGATGAGAAGTTAGAAGTCATAGAGCA
1 AAACATCCTAGTCCGTATGTTTTACAAGAACTAAATGAAGATGAAAAGTTAGAAGAAATAGAGAA
*
64698 AGTACTTGTGTCATTGTT-AATT-GG-GA-ATGAAGATGAGGTCTTGTGTGATGTTGTTTCCATG
66 AGTACTTGTGACATT-TTCAATTGGGAGATATGAAGATGAGGTCTTGTGTGATGTTGTTTCCATG
*
64759 AATTCAAGCCATCTTCTCCTCGTACGTCCGTGGCAGTTTGATAAACGAGCATTGTATGATGGGTT
130 AATTCAAGCCATCTTCTACTCGTACGTCCGTGGCAGTTTGATAAACGAGCATTGTATGATGGGTT
64824 CTC
195 CTC
64827 CAACAAATAT
Statistics
Matches: 182, Mismatches: 11, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
199 100 0.55
200 2 0.01
201 2 0.01
202 76 0.42
203 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (202 bp):
AAACATCCTAGTCCGTATGTTTTACAAGAACTAAATGAAGATGAAAAGTTAGAAGAAATAGAGAA
AGTACTTGTGACATTTTCAATTGGGAGATATGAAGATGAGGTCTTGTGTGATGTTGTTTCCATGA
ATTCAAGCCATCTTCTACTCGTACGTCCGTGGCAGTTTGATAAACGAGCATTGTATGATGGGTTC
TCTAATT
Found at i:68744 original size:84 final size:83
Alignment explanation
Indices: 68628--69657 Score: 888
Period size: 84 Copynumber: 12.5 Consensus size: 83
68618 AGTTTTATTG
* * * ** ** *
68628 ACAGATAGCCCTTCTTGCCTTGGGCTATGCTATAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
1 ACAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGA
68693 ACTCGAAGGTCTTTTGGTT
66 ACTCGAAGGTC-TTTGGTT
* * * ** **
68712 ACAGATAACTCTTCTAGCCTTGAGCTATGCTATAAATGATATGCCTTATAGCTGAGCGTAGTCGA
1 ACAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGA
**
68777 ACTCGAAGGTCCTTTGGAG
66 ACTCGAAGGT-CTTTGGTT
* * ** * * * * * * *
68796 ACA-ATAACCCTTCTAGCCTTAAGTTATATTGTAAATGATGTACCCTCGAAGCTGAGTGTAATCG
1 ACAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATAT-GCCTTGGAGCTGAGCGTAGTCG
* **
68860 AAATCGGGGGTCTTTGG--
65 AACTCGAAGGTCTTTGGTT
* * * * *
68877 -CAGCTAACCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTTGA
1 ACAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGA
*
68941 ACTC-AAGGTCTTTTGTT
66 ACTCGAAGGTCTTTGGTT
* * * * * * * * * ** * *
68958 GGCAAATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATATGCCCTGAAGCTGAATGTAATCA
1 -ACAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCG
**
69023 AACTCGGGGGTCTTTGG--
65 AACTCGAAGGTCTTTGGTT
* * * ** *
69040 -CATATAGCCCTTCTTGACTTAAGCTATGCTGCAAATGACGTGACATT-GAGCTGAGCGTAGTCG
1 ACAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCG
* *
69103 AACTCAAAGGTCTTTTGTT
65 AACTCGAAGGTCTTTGGTT
* * * * *
69122 GGCAGACAACCCTTCTAGACTTAAGTTGTACTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCG
1 -ACAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCG
*
69187 AACTCGAAGGTCTTTGGTG
65 AACTCGAAGGTCTTTGGTT
* * * * * * * *
69206 ACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCACTCGAAGCTGAGTGTAATCG
1 ACAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGC-CTTGGAGCTGAGCGTAGTCG
**
69271 AACTCGGGGGGTCTTTGG--
65 AACTC-GAAGGTCTTTGGTT
* * * * *
69289 -CAGATAGCCCTTCTCGACTTAAGCTATGTTGCAAATGATGTGCCGTT-GAGCTGAGCGTAGTTG
1 ACAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCC-TTGGAGCTGAGCGTAGTCG
* *
69352 AACTCAAAGGTCTTTTGTT
65 AACTCGAAGGTCTTTGGTT
* * * * * *
69371 GGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATACCTTGGAGCTAAGCGTAGTCG
1 -ACAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCG
*
69436 AACTCGAAGGTCTTTGGTG
65 AACTCGAAGGTCTTTGGTT
* * * * * *
69455 ACAGATAACCCTTCTAGCCTTGAGCTATGCTGTAAATGATATGCCTTCGAAGCTGAGTGTAATCG
1 ACAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTT-GGAGCTGAGCGTAGTCG
*
69520 AACTCGAGGGTCTTTGG--
65 AACTCGAAGGTCTTTGGTT
* * *
69537 -CAGATAGCCCTTCTCA-ACTTAAGCTATGTTGCAAATGATACGCCTTGGAGCTGAGCGTAGTCG
1 ACAGATAACCCTTCT-AGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCG
69600 AACTCGAAGGTCTTTGGTT
65 AACTCGAAGGTCTTTGGTT
* * * *
69619 GGCAGATAACCCTTCTCGATTTAAGTTATGCTGCAAATG
1 -ACAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATG
69658 TTGTCTTAAA
Statistics
Matches: 756, Mismatches: 161, Indels: 58
0.78 0.17 0.06
Matches are distributed among these distances:
79 8 0.01
80 120 0.16
81 90 0.12
82 37 0.05
83 170 0.22
84 320 0.42
85 11 0.01
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (83 bp):
ACAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGA
ACTCGAAGGTCTTTGGTT
Found at i:68934 original size:164 final size:164
Alignment explanation
Indices: 68677--69657 Score: 915
Period size: 164 Copynumber: 5.9 Consensus size: 164
68667 TGTGCCTTGG
* * * * * *
68677 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTTACAGATAACTCTTCTAGCCTTGAGCTATGC
1 AGCTGAGTGTAATCGAACTCGAGGGTC-TTTGG---CAGATAACCCTTCTAGACTTAAGCTATGC
** ** * *
68742 TATAAATGATATGCCTTATAGCTGAGCGTAGTCGAACTCGAAGGTCCTTTGGAGACA-ATAACCC
62 TGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT-CTTTGGTGGCAGATAACCC
* * * * *
68806 TTCTAGCCTTAAGTTATATTGTAAATGATGTACCCTCGA
126 TTCTAGCCTTAAGCTATGTTGCAAATGATATGCCCTCGA
* * * * *
68845 AGCTGAGTGTAATCGAAATCGGGGGTCTTTGGCAGCTAACCCTTCTCGACTTAAGCTATACTGCA
1 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCA
* * * * *
68910 AATGATGTGCCTTGGAGCTGAGCGTAGTTGAACTC-AAGGTCTTTTGTTGGCAAATAGCCCTTCT
66 AATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGGCAGATAACCCTTCT
* *
68974 TGCCTTGAGCTATGTTGCAAATGATATGCCCT-GA
130 AGCCTTAAGCTATGTTGCAAATGATATGCCCTCGA
* * * * * *
69008 AGCTGAATGTAATCAAACTCGGGGGTCTTTGGCATATAGCCCTTCTTGACTTAAGCTATGCTGCA
1 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCA
** * * * *
69073 AATGACGTGACATT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTC
66 AATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGGCAGATAACCCTTC
* * *
69137 TAGACTTAAG-T-TGTACTGCAAATGATATG-CCTTGG
129 TAGCCTTAAGCTATGT--TGCAAATGATATGCCCTCGA
* * * * * *
69172 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCT
1 AGCTGAGTGTAATCGAACTCGAGGGTCTTT-G-G-CAGATAACCCTTCTAGACTTAAGCTATGCT
* * * * * ** *
69237 GTAAATGATATGCACTCGAAGCTGAGTGTAATCGAACTCGGGGGGTC-TT--TGGCAGATAGCCC
63 GCAAATGATATGC-CTTGGAGCTGAGCGTAGTCGAACTC-GAAGGTCTTTGGTGGCAGATAACCC
* * * * *
69299 TTCTCGACTTAAGCTATGTTGCAAATGATGTGCCGTTG-
126 TTCTAGCCTTAAGCTATGTTGCAAATGATATGCCCTCGA
* * * * * * * *
69337 AGCTGAGCGTAGTTGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGC
1 AGCTGAGTGTAATCGAACTCGAGGGTC---T-TTGGCAGATAACCCTTCTAGACTTAAGCTATGC
* * *
69402 TGCAAATGATATACCTTGGAGCTAAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCT
62 TGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAACCCT
* * * *
69467 TCTAGCCTTGAGCTATGCTGTAAATGATATGCCTTCGA
127 TCTAGCCTTAAGCTATGTTGCAAATGATATGCCCTCGA
* *
69505 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCA-ACTTAAGCTATGTTGC
1 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCT-AGACTTAAGCTATGCTGC
*
69569 AAATGATACGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTC
65 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGGCAGATAACCCTTC
* ** * *
69634 TCGATTTAAGTTATGCTGCAAATG
129 TAGCCTTAAGCTATGTTGCAAATG
69658 TTGTCTTAAA
Statistics
Matches: 668, Mismatches: 119, Indels: 55
0.79 0.14 0.07
Matches are distributed among these distances:
162 4 0.01
163 103 0.15
164 243 0.36
165 118 0.18
166 44 0.07
167 86 0.13
168 64 0.10
169 6 0.01
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (164 bp):
AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCA
AATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAACCCTTCTA
GCCTTAAGCTATGTTGCAAATGATATGCCCTCGA
Found at i:69371 original size:249 final size:246
Alignment explanation
Indices: 68661--69657 Score: 1256
Period size: 249 Copynumber: 4.0 Consensus size: 246
68651 GCTATGCTAT
* * *
68661 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTTACAGATAACTCTTC
1 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTC
* * * * *
68726 TAGCCTTGAGCTATGCTATAAATGATATGCCTTATAGCTGAGCGTAGTCGAACTCGAAGGTCCTT
66 TAGCCTTGAGCTATGCTGTAAATGATATGCCTGA-AGCTGAGTGTAATCGAACTCGAGGGT-CTT
* * * * * * * * *
68791 TGG-AGACAATAACCCTTCTAGCCTTAAGTTATATTGTAAATGATGTACCCTCGAAGCTGAGTGT
129 TGGCAG---ATAGCCCTTCTCGACTTAAGCTATGTTGCAAATGATGT-GCCTTG-AGCTGAGCGT
* * *** * *
68855 AATCGAAATCGGGGGTC---T-TTGGCAG-CTAACCCTTCTCGACTTAAGCTATACTGC
189 AGTCGAACTCAAAGGTCTTTTGTTGGCAGAC-AACCCTTCTAGACTTAAGTTATACTGC
* * * * * *
68909 AAATGATGTGCCTTGGAGCTGAGCGTAGTTGAACTC-AAGGTCTTTTGTTGGCAAATAGCCCTTC
1 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTC
* * * * * *
68973 TTGCCTTGAGCTATGTTGCAAATGATATGCCCTGAAGCTGAATGTAATCAAACTCGGGGGTCTTT
66 TAGCCTTGAGCTATGCTGTAAATGATATG-CCTGAAGCTGAGTGTAATCGAACTCGAGGGTCTTT
* * * * *
69038 GGCATATAGCCCTTCTTGACTTAAGCTATGCTGCAAATGACGTGACATTGAGCTGAGCGTAGTCG
130 GGCAGATAGCCCTTCTCGACTTAAGCTATGTTGCAAATGATGTG-CCTTGAGCTGAGCGTAGTCG
*
69103 AACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTACTGC
194 AACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTATACTGC
69156 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGACAGATAACCCTTC
1 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTC
* *
69220 TAGCCTTGAGTTATGCTGTAAATGATATGCACTCGAAGCTGAGTGTAATCGAACTCGGGGGGTCT
66 TAGCCTTGAGCTATGCTGTAAATGATATGC-CT-GAAGCTGAGTGTAATCGAACTC-GAGGGTCT
69285 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGTTGCAAATGATGTGCCGTTGAGCTGAGCGTAGT
128 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGTTGCAAATGATGTGCC-TTGAGCTGAGCGTAGT
* * *
69350 TGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGC
192 CGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTATACTGC
* *
69405 AAATGATATACCTTGGAGCTAAGCGTAGTCGAACTCGAAGGTC-TTTGGTGACAGATAACCCTTC
1 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTC
69469 TAGCCTTGAGCTATGCTGTAAATGATATGCCTTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTT
66 TAGCCTTGAGCTATGCTGTAAATGATATGCC-T-GAAGCTGAGTGTAATCGAACTCGAGGGTCTT
* **
69534 TGGCAGATAGCCCTTCTCAACTTAAGCTATGTTGCAAATGATACGCCTTGGAGCTGAGCGTAGTC
129 TGGCAGATAGCCCTTCTCGACTTAAGCTATGTTGCAAATGATGTGCCTT-GAGCTGAGCGTAGTC
* * * * * *
69599 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGATTTAAGTTATGCTGC
193 GAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTATACTGC
69653 AAATG
1 AAATG
69658 TTGTCTTAAA
Statistics
Matches: 662, Mismatches: 72, Indels: 30
0.87 0.09 0.04
Matches are distributed among these distances:
243 21 0.03
244 33 0.05
246 8 0.01
247 179 0.27
248 187 0.28
249 234 0.35
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (246 bp):
AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTC
TAGCCTTGAGCTATGCTGTAAATGATATGCCTGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTG
GCAGATAGCCCTTCTCGACTTAAGCTATGTTGCAAATGATGTGCCTTGAGCTGAGCGTAGTCGAA
CTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTATACTGC
Found at i:74714 original size:5 final size:5
Alignment explanation
Indices: 74704--74735 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
74694 ATGTTAGATG
74704 AAATA AAATA AAAT- AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAA
74736 AAGAATATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:74723 original size:14 final size:14
Alignment explanation
Indices: 74704--74734 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
74694 ATGTTAGATG
74704 AAATAAAATAAAAT
1 AAATAAAATAAAAT
74718 AAATAAAATAAAAT
1 AAATAAAATAAAAT
74732 AAA
1 AAA
74735 AAAGAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:77216 original size:36 final size:36
Alignment explanation
Indices: 77123--77234 Score: 147
Period size: 35 Copynumber: 3.2 Consensus size: 36
77113 TTGGTGGTTA
* * * *
77123 TATAGGCGTGAAAA-GATGATAGAAGATGGTAATGA
1 TATAGGCGTGAAAATGGTGATGGAAGATGGTGATGT
* *
77158 TATAGGCGTG-CAATGGTAATGGAAGATGGTGATGT
1 TATAGGCGTGAAAATGGTGATGGAAGATGGTGATGT
*
77193 TATAGGCGTGAAAATGGTGATGGAAGTTGGTGATGT
1 TATAGGCGTGAAAATGGTGATGGAAGATGGTGATGT
77229 TATAGG
1 TATAGG
77235 TAGTATCTTA
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
34 2 0.03
35 36 0.55
36 28 0.42
ACGTcount: A:0.33, C:0.04, G:0.36, T:0.28
Consensus pattern (36 bp):
TATAGGCGTGAAAATGGTGATGGAAGATGGTGATGT
Found at i:80520 original size:17 final size:17
Alignment explanation
Indices: 80498--80531 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
80488 CGGCTTTAAA
80498 AAATGGTTAGGGTATAG
1 AAATGGTTAGGGTATAG
*
80515 AAATGGTTATGGTATAG
1 AAATGGTTAGGGTATAG
80532 GGGTAGGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (17 bp):
AAATGGTTAGGGTATAG
Found at i:81284 original size:36 final size:35
Alignment explanation
Indices: 81191--81302 Score: 170
Period size: 35 Copynumber: 3.2 Consensus size: 35
81181 TTGGTGGTTA
* * *
81191 TATAGGCGTGAAATGGTGATAGAAGATGGTAATGA
1 TATAGGCGTGAAATGGTGATGGAAGATGGTGATGT
*
81226 TATAGGCGTGAAATGGTAATGGAAGATGGTGATGT
1 TATAGGCGTGAAATGGTGATGGAAGATGGTGATGT
*
81261 TATAGGCGTGAAAATGGTGATGGAAGTTGGTGATGT
1 TATAGGCGTG-AAATGGTGATGGAAGATGGTGATGT
81297 TATAGG
1 TATAGG
81303 TAGTATCTTA
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
35 41 0.59
36 29 0.41
ACGTcount: A:0.32, C:0.03, G:0.37, T:0.29
Consensus pattern (35 bp):
TATAGGCGTGAAATGGTGATGGAAGATGGTGATGT
Found at i:113838 original size:17 final size:17
Alignment explanation
Indices: 113816--113849 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
113806 CGGCTTAAAA
113816 AAATGGTTAGGGTATAG
1 AAATGGTTAGGGTATAG
*
113833 AAATGGTTATGGTATAG
1 AAATGGTTAGGGTATAG
113850 GGGTAGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (17 bp):
AAATGGTTAGGGTATAG
Found at i:114474 original size:11 final size:11
Alignment explanation
Indices: 114458--114495 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
114448 ATGCCTTGAT
114458 GATGATTGAAG
1 GATGATTGAAG
114469 GATGATTGAAG
1 GATGATTGAAG
* *
114480 GATTATTGAAT
1 GATGATTGAAG
114491 GATGA
1 GATGA
114496 ATAGAAGGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.32, T:0.32
Consensus pattern (11 bp):
GATGATTGAAG
Found at i:114614 original size:36 final size:35
Alignment explanation
Indices: 114521--114632 Score: 143
Period size: 35 Copynumber: 3.2 Consensus size: 35
114511 TTGGTGGTTA
* * * *
114521 TATAGGCGTGAAATTGTGATAGAAGATGGTAATGA
1 TATAGGCGTGAAATGGTGATGGAAGATGGTGATGT
* * *
114556 TATAGGCGTGCAATGGTAATGGAAGATGGCGATGT
1 TATAGGCGTGAAATGGTGATGGAAGATGGTGATGT
*
114591 TATAGGCGTGAAAATGGTGATGGAAGTTGGTGATGT
1 TATAGGCGTG-AAATGGTGATGGAAGATGGTGATGT
114627 TATAGG
1 TATAGG
114633 TAGTATCTTA
Statistics
Matches: 65, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
35 38 0.58
36 27 0.42
ACGTcount: A:0.31, C:0.04, G:0.36, T:0.29
Consensus pattern (35 bp):
TATAGGCGTGAAATGGTGATGGAAGATGGTGATGT
Found at i:125692 original size:22 final size:23
Alignment explanation
Indices: 125646--125692 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
125636 TATCACGCCT
125646 ATATCATCACTATATTCCATCACC
1 ATATCATCACTATATT-CATCACC
125670 ATATCATGC-CTATATT-ATCACC
1 ATATCAT-CACTATATTCATCACC
125692 A
1 A
125693 ACTTCTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 7 0.32
24 14 0.64
25 1 0.05
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.34
Consensus pattern (23 bp):
ATATCATCACTATATTCATCACC
Found at i:127853 original size:24 final size:24
Alignment explanation
Indices: 127836--127896 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
127826 TTTTCATGAT
* *
127836 CCAATGGACATGACTTTTGGGATG
1 CCAAGGGACATGACTTTTAGGATG
*
127860 CCAAGGGACATGACTTTTGGGATG
1 CCAAGGGACATGACTTTTAGGATG
127884 CCAAGGGACATGA
1 CCAAGGGACATGA
127897 TCATTTTAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (24 bp):
CCAAGGGACATGACTTTTAGGATG
Found at i:129733 original size:11 final size:12
Alignment explanation
Indices: 129710--129774 Score: 50
Period size: 11 Copynumber: 5.6 Consensus size: 12
129700 ACAATCTGTC
129710 CATCACC-ATTAT
1 CATCACCTA-TAT
129722 CA-CACCTATAT
1 CATCACCTATAT
129733 CATCA-CTATATT
1 CATCACCTATA-T
129745 CCATCACC-ATAT
1 -CATCACCTATAT
*
129757 CA-CGCCTATAT
1 CATCACCTATAT
*
129768 TATCACC
1 CATCACC
129775 AACTTCTAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
10 3 0.07
11 21 0.49
12 10 0.23
13 8 0.19
14 1 0.02
ACGTcount: A:0.32, C:0.35, G:0.02, T:0.31
Consensus pattern (12 bp):
CATCACCTATAT
Found at i:140252 original size:15 final size:15
Alignment explanation
Indices: 140217--140258 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
140207 GAAATATGAA
*
140217 ATAAGAAATGGAA-G
1 ATAAGAAATGAAATG
140231 A-AAGAAATGAAATG
1 ATAAGAAATGAAATG
*
140245 ATAAGAAAGGAAAT
1 ATAAGAAATGAAAT
140259 AGAAATGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 10 0.42
14 3 0.12
15 11 0.46
ACGTcount: A:0.62, C:0.00, G:0.24, T:0.14
Consensus pattern (15 bp):
ATAAGAAATGAAATG
Found at i:140265 original size:21 final size:20
Alignment explanation
Indices: 140214--140266 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
140204 ATGGAAATAT
140214 GAAATAAGAAATG-GAAGAAA
1 GAAAT-AGAAATGAGAAGAAA
*
140234 GAAAT-GAAATGATAAGAAA
1 GAAATAGAAATGAGAAGAAA
140253 GGAAATAGAAATGA
1 -GAAATAGAAATGA
140267 AAGGAATTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 6 0.21
19 6 0.21
20 10 0.34
21 7 0.24
ACGTcount: A:0.62, C:0.00, G:0.25, T:0.13
Consensus pattern (20 bp):
GAAATAGAAATGAGAAGAAA
Found at i:144310 original size:23 final size:23
Alignment explanation
Indices: 144280--144324 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
144270 TCAACTTCCT
144280 ATAAATAGGAAAGAATATTTCAA
1 ATAAATAGGAAAGAATATTTCAA
144303 ATAAATAGGAAAGAATATTTCA
1 ATAAATAGGAAAGAATATTTCA
144325 TTTGCAAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.56, C:0.04, G:0.13, T:0.27
Consensus pattern (23 bp):
ATAAATAGGAAAGAATATTTCAA
Found at i:146533 original size:13 final size:14
Alignment explanation
Indices: 146509--146535 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
146499 TTTTTTGAAA
146509 TTTTGCCTTTTTTT
1 TTTTGCCTTTTTTT
146523 TTTTGCCTTTTTT
1 TTTTGCCTTTTTT
146536 AGTTTTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.15, G:0.07, T:0.78
Consensus pattern (14 bp):
TTTTGCCTTTTTTT
Found at i:157478 original size:14 final size:14
Alignment explanation
Indices: 157459--157488 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
157449 GGGCAATTTG
157459 GTTCGTTTGTTTTT
1 GTTCGTTTGTTTTT
157473 GTTCGTTTGTTTTT
1 GTTCGTTTGTTTTT
157487 GT
1 GT
157489 GGCTCGGTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.23, T:0.70
Consensus pattern (14 bp):
GTTCGTTTGTTTTT
Found at i:169371 original size:21 final size:21
Alignment explanation
Indices: 169346--169398 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
169336 TTTAAAGGAT
169346 TACCTTGGTAAGAGGATAAAG
1 TACCTTGGTAAGAGGATAAAG
*
169367 TACCTTGGTAAGAGGATGAAG
1 TACCTTGGTAAGAGGATAAAG
**
169388 TAGATTGGTAA
1 TACCTTGGTAA
169399 TGTTCACTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.36, C:0.08, G:0.30, T:0.26
Consensus pattern (21 bp):
TACCTTGGTAAGAGGATAAAG
Found at i:172655 original size:19 final size:20
Alignment explanation
Indices: 172612--172658 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
172602 GACTATGCTG
* *
172612 GAAATTAATGTTAGAGTGTT
1 GAAATTGATGTTAGAATGTT
172632 GAAATTGATGTTAGAATG-T
1 GAAATTGATGTTAGAATGTT
172651 GAAATTGA
1 GAAATTGA
172659 GCCATTTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.36
Consensus pattern (20 bp):
GAAATTGATGTTAGAATGTT
Found at i:178237 original size:20 final size:20
Alignment explanation
Indices: 178205--178243 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
178195 TAAGTTGAAA
*
178205 TTGATTATGATATGTATATG
1 TTGATTATGATATGAATATG
178225 TTGATTAAT-ATATGAATAT
1 TTGATT-ATGATATGAATAT
178244 AATATGATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
TTGATTATGATATGAATATG
Found at i:181286 original size:38 final size:38
Alignment explanation
Indices: 181235--181309 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
181225 CTTAAAGAAT
181235 GATGATGTGCTTGTTGACTACCAACAGGAAAGGCTAAC
1 GATGATGTGCTTGTTGACTACCAACAGGAAAGGCTAAC
*
181273 GATGATGTGCTTGTTGACTACCACCAGGAAAGGCTAA
1 GATGATGTGCTTGTTGACTACCAACAGGAAAGGCTAA
181310 TGTGGTGTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
GATGATGTGCTTGTTGACTACCAACAGGAAAGGCTAAC
Found at i:181891 original size:13 final size:13
Alignment explanation
Indices: 181873--181898 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
181863 ATTAAGGGGG
181873 GAGAATTGTAATA
1 GAGAATTGTAATA
181886 GAGAATTGTAATA
1 GAGAATTGTAATA
181899 CCCTAAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (13 bp):
GAGAATTGTAATA
Found at i:182321 original size:134 final size:134
Alignment explanation
Indices: 182081--182336 Score: 476
Period size: 134 Copynumber: 1.9 Consensus size: 134
182071 CAAGATTTGT
* **
182081 ATTAAAAGCTACAAGGTAATAAAGTTTGGTATAGAATTGGATAATCAGTTCGAATCGGAATTTCA
1 ATTAAAAGCTACAAGGTAATAAAGTTTGGTATAGAATTGAATAATCAGTTCGAATCAAAATTTCA
182146 TGAAAATTTGAAGGATGATAGATAAAGGTTGGAAATATTATTTTCAAATTTAAGAACTGTGAAAT
66 TGAAAATTTGAAGGATGATAGATAAAGGTTGGAAATATTATTTTCAAATTTAAGAACTGTGAAAT
182211 TAAA
131 TAAA
*
182215 ATTAAAAGCTACAAGGTAATAAAGTTTGGTATAGAATTGAATAATCAGTTCTAATCAAAATTTCA
1 ATTAAAAGCTACAAGGTAATAAAGTTTGGTATAGAATTGAATAATCAGTTCGAATCAAAATTTCA
182280 TGAAAATTTGAAGGATGATAGATAAAGGTTGGAAATATTATTTTCAAATTTAAGAAC
66 TGAAAATTTGAAGGATGATAGATAAAGGTTGGAAATATTATTTTCAAATTTAAGAAC
182337 AGATAAATTT
Statistics
Matches: 118, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
134 118 1.00
ACGTcount: A:0.43, C:0.06, G:0.18, T:0.32
Consensus pattern (134 bp):
ATTAAAAGCTACAAGGTAATAAAGTTTGGTATAGAATTGAATAATCAGTTCGAATCAAAATTTCA
TGAAAATTTGAAGGATGATAGATAAAGGTTGGAAATATTATTTTCAAATTTAAGAACTGTGAAAT
TAAA
Found at i:184587 original size:14 final size:14
Alignment explanation
Indices: 184568--184594 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
184558 TCAAATTATT
184568 ATTTTAAGTATGAA
1 ATTTTAAGTATGAA
184582 ATTTTAAGTATGA
1 ATTTTAAGTATGA
184595 TTTAATTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (14 bp):
ATTTTAAGTATGAA
Found at i:188861 original size:34 final size:34
Alignment explanation
Indices: 188818--188886 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
188808 TTAAGAATGA
188818 AATAAGGAATTCCAAAGTAGAAATATACAATTCT
1 AATAAGGAATTCCAAAGTAGAAATATACAATTCT
188852 AATAAGGAATTCCAAAGTAGAAATATACAATTCT
1 AATAAGGAATTCCAAAGTAGAAATATACAATTCT
188886 A
1 A
188887 CTTGATATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.26
Consensus pattern (34 bp):
AATAAGGAATTCCAAAGTAGAAATATACAATTCT
Found at i:194002 original size:47 final size:45
Alignment explanation
Indices: 193906--194030 Score: 155
Period size: 47 Copynumber: 2.8 Consensus size: 45
193896 GGTAAGTATG
* * *
193906 AAAATAAGCTTACAAGCTTA-CGAAT-AATGGCAAGTATATTGAT
1 AAAATAAGCTTACAAGCTTATGGAATAAATGGTAAATATATTGAT
* *
193949 AAAATAAGCTTACAAGCTTATGGAATATAAATGGTAAATATTTTGGT
1 AAAATAAGCTTACAAGCTTATGG-A-ATAAATGGTAAATATATTGAT
* *
193996 AAAATAAGCTTACGAGCTTATGGGATAAATGGTAA
1 AAAATAAGCTTACAAGCTTATGGAATAAATGGTAA
194031 GAGATTTTAT
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
43 20 0.28
44 1 0.01
45 12 0.17
46 2 0.03
47 36 0.51
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (45 bp):
AAAATAAGCTTACAAGCTTATGGAATAAATGGTAAATATATTGAT
Found at i:198941 original size:28 final size:28
Alignment explanation
Indices: 198904--198969 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
198894 TAATTTCAGT
* *
198904 ACTTTTTTTTACCTT-TCTATTTTTAGC
1 ACTTTATTTTACCTTATCTATATTTAGC
* * *
198931 ATCTTTATTTTTCTTTATTTATATTTAGC
1 A-CTTTATTTTACCTTATCTATATTTAGC
198960 ACTTTATTTT
1 ACTTTATTTT
198970 TCTTGTTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
27 1 0.03
28 20 0.62
29 11 0.34
ACGTcount: A:0.18, C:0.14, G:0.03, T:0.65
Consensus pattern (28 bp):
ACTTTATTTTACCTTATCTATATTTAGC
Found at i:198971 original size:28 final size:29
Alignment explanation
Indices: 198925--198984 Score: 97
Period size: 28 Copynumber: 2.1 Consensus size: 29
198915 CCTTTCTATT
198925 TTTAGCATCTTTATTTTTCTT-TATTTATA
1 TTTAGCATCTTTATTTTTCTTGT-TTTATA
198954 TTTAGCA-CTTTATTTTTCTTGTTTTATA
1 TTTAGCATCTTTATTTTTCTTGTTTTATA
198982 TTT
1 TTT
198985 CAAAACTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
28 22 0.73
29 8 0.27
ACGTcount: A:0.18, C:0.10, G:0.05, T:0.67
Consensus pattern (29 bp):
TTTAGCATCTTTATTTTTCTTGTTTTATA
Found at i:200522 original size:21 final size:21
Alignment explanation
Indices: 200480--200522 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
200470 AATTGATCTT
*
200480 TAAATTTTAAAATATTCTATA
1 TAAATTTTAAAATATTCAATA
*
200501 TAAATCTTTAAACTATT-AATA
1 TAAAT-TTTAAAATATTCAATA
200522 T
1 T
200523 CATTTTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (21 bp):
TAAATTTTAAAATATTCAATA
Found at i:200661 original size:13 final size:13
Alignment explanation
Indices: 200643--200669 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
200633 CAAAATATAT
200643 TAATTTTTTAGAA
1 TAATTTTTTAGAA
200656 TAATTTTTTAGAA
1 TAATTTTTTAGAA
200669 T
1 T
200670 GTCATAGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TAATTTTTTAGAA
Found at i:203909 original size:17 final size:17
Alignment explanation
Indices: 203884--203923 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
203874 GTATGTTGTT
*
203884 CATTAAAGCATGCATTG
1 CATTTAAGCATGCATTG
* *
203901 CATTTAAGCATGTATTT
1 CATTTAAGCATGCATTG
203918 CATTTA
1 CATTTA
203924 GGGAAGTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (17 bp):
CATTTAAGCATGCATTG
Found at i:204002 original size:18 final size:18
Alignment explanation
Indices: 203979--204023 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
203969 ATTCATGCAT
203979 TTAGTTCATTGAATAAAG
1 TTAGTTCATTGAATAAAG
*
203997 TTAGTTCATTGAATAATG
1 TTAGTTCATTGAATAAAG
*
204015 TTATTTCAT
1 TTAGTTCAT
204024 AATCAAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (18 bp):
TTAGTTCATTGAATAAAG
Found at i:217645 original size:24 final size:24
Alignment explanation
Indices: 217613--217665 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
217603 ATGCACATGT
*
217613 TATGATAATTCAAGTATTGTCTAA
1 TATGATAATTCAAGTATAGTCTAA
217637 TATGATAATTCAAGTATAGTCTAA
1 TATGATAATTCAAGTATAGTCTAA
217661 TATGA
1 TATGA
217666 AAATGTATGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.40
Consensus pattern (24 bp):
TATGATAATTCAAGTATAGTCTAA
Found at i:218136 original size:42 final size:42
Alignment explanation
Indices: 218077--218173 Score: 185
Period size: 42 Copynumber: 2.3 Consensus size: 42
218067 TATGTCTTTT
*
218077 AAAGACATATTGTCTTGAGTGATCATATCTCTTTGTTCCCCA
1 AAAGACATATTGTCTTGAGTGATCATATCTCTTGGTTCCCCA
218119 AAAGACATATTGTCTTGAGTGATCATATCTCTTGGTTCCCCA
1 AAAGACATATTGTCTTGAGTGATCATATCTCTTGGTTCCCCA
218161 AAAGACATATTGT
1 AAAGACATATTGT
218174 TTGGTTCAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (42 bp):
AAAGACATATTGTCTTGAGTGATCATATCTCTTGGTTCCCCA
Found at i:221098 original size:9 final size:9
Alignment explanation
Indices: 221084--221112 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
221074 GTGCAAAGTC
221084 AAAGAAAAA
1 AAAGAAAAA
221093 AAAGAAAAA
1 AAAGAAAAA
221102 AAA-AAAAA
1 AAAGAAAAA
221110 AAA
1 AAA
221113 TCAGCAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:225995 original size:26 final size:27
Alignment explanation
Indices: 225941--225995 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
225931 TTTCCTTGGC
*
225941 TTTTCCTTTCTTTTTGTTTGAAATTCT
1 TTTTCCTTTCTTTTTGTTTGAAATCCT
* * *
225968 TTTTCTTTTGTTTTT-TTTGAACTCCT
1 TTTTCCTTTCTTTTTGTTTGAAATCCT
225994 TT
1 TT
225996 GTTTATTGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.09, C:0.15, G:0.07, T:0.69
Consensus pattern (27 bp):
TTTTCCTTTCTTTTTGTTTGAAATCCT
Found at i:232961 original size:26 final size:26
Alignment explanation
Indices: 232932--232985 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
232922 CGTGCATCTA
232932 AATGAAAAGGAATCTTCATGGACAAC
1 AATGAAAAGGAATCTTCATGGACAAC
* *
232958 AATGAAATGGAATCTTCATGGATAAC
1 AATGAAAAGGAATCTTCATGGACAAC
232984 AA
1 AA
232986 CATTCACGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.13, G:0.19, T:0.22
Consensus pattern (26 bp):
AATGAAAAGGAATCTTCATGGACAAC
Found at i:235123 original size:154 final size:154
Alignment explanation
Indices: 234821--235149 Score: 407
Period size: 154 Copynumber: 2.1 Consensus size: 154
234811 TGTTGTATAT
* * * *
234821 GAGCACGTGGTTCGAATTTGGTAAAAAAAGGCTTAAAAAAATACAAATTGAAGGAATAAGGAGAT
1 GAGCACGTGGTTCAAATTTGATAAAAAAAGACTTAAAAAAATACAAATTGAAGAAATAAGGAGAT
*
234886 TAATAAAATTTGAAGGACTAAATTGAAAAATAAAAAATTTGTTATCAAAAAGAGAAATTGAAAGT
66 TAATAAAAGTTGAAGGACTAAATTGAAAAATAAAAAA-TTGTTATCAAAAAGAGAAATTGAAAGT
*
234951 ACATATGTATTATACTATGGTTTAG
130 ACACATGTATTATACTATGGTTTAG
* * * * *
234976 GAGGATGT-GTCTCAAATTTGATAAAAAATAGACTTAAAATAAGTGACGAATTGAAGAAATATGG
1 GAGCACGTGGT-TCAAATTTGATAAAAAA-AGACTTAAAA-AAAT-ACAAATTGAAGAAATAAGG
* * * * *
235040 AGATT-ATGAAAAGTTGAAGGACTAAATTG-AAAA-CACAAA-TGTTATCAAAAATAGGATTTGA
62 AGATTAAT-AAAAGTTGAAGGACTAAATTGAAAAATAAAAAATTGTTATCAAAAAGAGAAATTGA
* *
235101 AAGTACACATGTGTTTTACTATGGTTTAG
126 AAGTACACATGTATTATACTATGGTTTAG
235130 GAGCACGTGGTTCAAATTTG
1 GAGCACGTGGTTCAAATTTG
235150 GTTAAACTGG
Statistics
Matches: 148, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
154 62 0.42
155 23 0.16
156 13 0.09
157 9 0.06
158 41 0.28
ACGTcount: A:0.44, C:0.07, G:0.20, T:0.29
Consensus pattern (154 bp):
GAGCACGTGGTTCAAATTTGATAAAAAAAGACTTAAAAAAATACAAATTGAAGAAATAAGGAGAT
TAATAAAAGTTGAAGGACTAAATTGAAAAATAAAAAATTGTTATCAAAAAGAGAAATTGAAAGTA
CACATGTATTATACTATGGTTTAG
Found at i:242727 original size:597 final size:598
Alignment explanation
Indices: 241587--243969 Score: 4086
Period size: 598 Copynumber: 4.0 Consensus size: 598
241577 CTCCCTAGCA
* * *
241587 TTTAGCTACTTTCAGCTGCACTTGAGATCACTTTTAGCAACATGGCTTCGAATGGTTCATTTAGC
1 TTTAACTACTTTCAACTGCACTTGACATCACTTTTAGCAACATGGCTTCGAATGGTTCATTTAGC
* *
241652 AAGATTCATCTACATGCTAGCTCCTCCAACTGAGTTGAGCTTTCTATAAGTCTCCATGACATGCT
66 AAGATTCATCTACATGCTAGCTCCTCCAGCTGAGTTGAGCTTTCTATAAGTCTCCATGACCTGCT
* * *
241717 TGAATCTTTTTGAGCTAATTATGAGGTGTATATTGAGGACAAATAATCCACCAAGCTACCATAAT
131 TGAATCCTTTTGAGCTAATTATGAGGTGCATATTGAGGCCAAATAAT-CACCAAGCTACCATAAT
* *
241782 GTGTGCCACCCATTGATGTACCTACATGAATAAATAAGCTAAGGTAAATCAAAGGAAATGAGTTG
195 GTGTGCCACCCATTGATGTACCTACATGAATAAAGAAGCTAAGGTAAATCAAAGGAAATGAGCTG
* *
241847 GGATGAATGCAAATGCAAA-TTGCCATGAATGTACTTGTGAGCTAAGAATGCATGTCATCAACTA
260 GGATGAATGCAAATGCAAACTT-CCATGCATGTACTTGTGAGCTAAGAATGCATGTCATCAGCTA
* *
241911 AAGATGAGATGGTATTGTATTAATGAGCTAATATATGTGACTTGTGAGCTAAATTGAATTGTAAT
324 AAGATGAGATGGTATTGTATTAATGAGCTAATACATGTGACTTGTGAACTAAATTGAATTGTAAT
* *
241976 GAGCTAGAAAATAAATGATTAACATGTTGTCAACATTTGAATCAAATGAAATCAATCTAAATGAA
389 GAGCTAGGAAATAAATGATTAACATGTTGCCAACATTTGAATCAAATGAAATCAATCTAAATGAA
*
242041 TGCAAAATTAATATAATTCAATAATAACTAAGTGAATATGTGAATTAACATCATGCAATAAGTAA
454 TGCAAAATTAATATAATTCAATAATAACTAAGTGAATATGTGAAGTAACATCATGCAATAAGTAA
*
242106 TATAAAGATGTGAGCATTTGAAGTTAGTTTACAACTAGCAAAACATTATATAACTTATCATTAAG
519 TATAAAGATGTGAGCATTTGAAGTTAGTTTACAGCTAGCAAAACATTATATAACTTATCATTAAG
242171 TAATGCCACATTTCC
584 TAATGCCACATTTCC
242186 TTTAACTACTTTCAACTGCACTTGACATCACTTTTAGCAACATGGCTTCGAATGGTTCATTTAGC
1 TTTAACTACTTTCAACTGCACTTGACATCACTTTTAGCAACATGGCTTCGAATGGTTCATTTAGC
* * *
242251 AAGATTCATCTACATGCTTGCTCCTCGAGCTGAGTTGAGCTTTCTATAAGTCTCCATGACCTACT
66 AAGATTCATCTACATGCTAGCTCCTCCAGCTGAGTTGAGCTTTCTATAAGTCTCCATGACCTGCT
* *
242316 TGAATCCTTTTGAGCTAATTGTGAGGTGCATATCGAGGCCAAATAAT-ACCAAGCTACCATAATG
131 TGAATCCTTTTGAGCTAATTATGAGGTGCATATTGAGGCCAAATAATCACCAAGCTACCATAATG
242380 TGTGCCACCCATTGATGTACCTACATGAATAAAGAAGCTAAGGTAAATCAAAGGAAATGAGCTGG
196 TGTGCCACCCATTGATGTACCTACATGAATAAAGAAGCTAAGGTAAATCAAAGGAAATGAGCTGG
*
242445 GATGAATGCAAATGTAAACTTCCATGCATGTACTTGTGAGCTAAGAATGCATGTCATCAGCTAAA
261 GATGAATGCAAATGCAAACTTCCATGCATGTACTTGTGAGCTAAGAATGCATGTCATCAGCTAAA
* *
242510 GATGAGATGGTATTCTATTAATGAGCTAATACATGTGACTTGTGAACTGAATTGAATTGTAATGA
326 GATGAGATGGTATTGTATTAATGAGCTAATACATGTGACTTGTGAACTAAATTGAATTGTAATGA
*
242575 GTTAGGAAATAAATGATTAACATGTTGCCAACATTTGAATCAAATGAAATCAATCTAAATGAATG
391 GCTAGGAAATAAATGATTAACATGTTGCCAACATTTGAATCAAATGAAATCAATCTAAATGAATG
242640 CAAAATTAATATAATTCAATAATAACTAAGTGAATATGTGAAGTAACATCATGCAATAAGTAATA
456 CAAAATTAATATAATTCAATAATAACTAAGTGAATATGTGAAGTAACATCATGCAATAAGTAATA
* *
242705 TAAAGACGTGAGCATTTGAAGTTAGTTTACAGCTAGCAAAACATTATATAATTTATCATTAAGTA
521 TAAAGATGTGAGCATTTGAAGTTAGTTTACAGCTAGCAAAACATTATATAACTTATCATTAAGTA
242770 ATGCCACATTTCC
586 ATGCCACATTTCC
242783 TTTAACTACTTTCAACTGCACTTGACATCACTTTTAGCAACATGGCTTCGAATGGTTCATTTAGC
1 TTTAACTACTTTCAACTGCACTTGACATCACTTTTAGCAACATGGCTTCGAATGGTTCATTTAGC
* *
242848 AAGATTCATCTACATGCTAGCTCATCCAGCTGAGTTGATCTTTCTATAAGTCTCCATGACCTGCT
66 AAGATTCATCTACATGCTAGCTCCTCCAGCTGAGTTGAGCTTTCTATAAGTCTCCATGACCTGCT
* *
242913 TGAATCCGTTTGAGCTAATTATGAGGTGCATATTGAGGCCAAATAATCACCAACCTACCATAATG
131 TGAATCCTTTTGAGCTAATTATGAGGTGCATATTGAGGCCAAATAATCACCAAGCTACCATAATG
* * * * * *
242978 TGTGTCACCCATTAATGTACCTACATGAATAAATAAGCTAAGGTAAATAAAAGGAAATGGGTTGG
196 TGTGCCACCCATTGATGTACCTACATGAATAAAGAAGCTAAGGTAAATCAAAGGAAATGAGCTGG
* * *
243043 GATGAATGCAAATGCAAAGTACCATGCATGTACTTGTGAGCTAAGAATGCATGTCATTAGCTAAA
261 GATGAATGCAAATGCAAACTTCCATGCATGTACTTGTGAGCTAAGAATGCATGTCATCAGCTAAA
* * *
243108 GATGAGATGGTATTTTATTAATGAGCTAATATATGTGACTTGTGAGCTAAATTGAATTGTAATGA
326 GATGAGATGGTATTGTATTAATGAGCTAATACATGTGACTTGTGAACTAAATTGAATTGTAATGA
*
243173 GCTAGGAAATAAATGATTAACATGTTACCAACATTTGAATCAAATGAAATCAATCTAAATGAATG
391 GCTAGGAAATAAATGATTAACATGTTGCCAACATTTGAATCAAATGAAATCAATCTAAATGAATG
* *
243238 AAAAATTAATATAATTCAATAATAACTAAGTGAATATGTGAAGTAACATCATCCAATAAGTAATA
456 CAAAATTAATATAATTCAATAATAACTAAGTGAATATGTGAAGTAACATCATGCAATAAGTAATA
*
243303 GAAAGATGTGAGCATTTGAAGTTAGTTTACAGCTAGCAAAACATTATATAACTTATCATTAAGTA
521 TAAAGATGTGAGCATTTGAAGTTAGTTTACAGCTAGCAAAACATTATATAACTTATCATTAAGTA
243368 ATGCCACATTTCC
586 ATGCCACATTTCC
243381 TTTAACTACTTTCAACTGCACTTGACATCACTTTTAGCAACATGGCTTCGAATGGTTCATTTAGC
1 TTTAACTACTTTCAACTGCACTTGACATCACTTTTAGCAACATGGCTTCGAATGGTTCATTTAGC
*
243446 AAGATTCATCTACATGCTAGCTCCTCCAGTTGAGTTGAGCTTTCTATAAGTCTCCATGACCTGCT
66 AAGATTCATCTACATGCTAGCTCCTCCAGCTGAGTTGAGCTTTCTATAAGTCTCCATGACCTGCT
* * *
243511 TGAATCCTTTTGAGCTAATTGTGAGGTACATATTGAGGCCAAATAATCCACCAAGTTACCATAAT
131 TGAATCCTTTTGAGCTAATTATGAGGTGCATATTGAGGCCAAATAAT-CACCAAGCTACCATAAT
* * *
243576 GTGTGCCACCCGTTGATGTACGTACATGAATAAGGAAGCTAAGGTAAATCAAAGGAAATGAGCTG
195 GTGTGCCACCCATTGATGTACCTACATGAATAAAGAAGCTAAGGTAAATCAAAGGAAATGAGCTG
* *
243641 GGATGAATGCAAATGCAAACTGCCATACATGTACTTGTGAGCTAAGAATGCATGTCATCAGCTAA
260 GGATGAATGCAAATGCAAACTTCCATGCATGTACTTGTGAGCTAAGAATGCATGTCATCAGCTAA
* * * * *
243706 AGATGAGATGGTATTGTATTAATGAGCTGATACTTGTGGCTTATGAACTGAATTGAATTGTAATG
325 AGATGAGATGGTATTGTATTAATGAGCTAATACATGTGACTTGTGAACTAAATTGAATTGTAATG
* * * * *
243771 AGTTAGGAAATAAATGAATAACATGCTGCCAACATTTAAATTAAATGAAATCAATCTAAATGAAT
390 AGCTAGGAAATAAATGATTAACATGTTGCCAACATTTGAATCAAATGAAATCAATCTAAATGAAT
*
243836 GCAAAATTAATATAATTCAATAATAACTAAGTGAATATGTGAAGTAACATCATGGAATAAGTAAT
455 GCAAAATTAATATAATTCAATAATAACTAAGTGAATATGTGAAGTAACATCATGCAATAAGTAAT
* *
243901 ATAAAAATGTGAGCATTTGAAGTTAGTTTACACCTAGCAAAACATTATATAACTTATCATTAAGT
520 ATAAAGATGTGAGCATTTGAAGTTAGTTTACAGCTAGCAAAACATTATATAACTTATCATTAAGT
243966 AATG
585 AATG
243970 ATAACTTGTC
Statistics
Matches: 1681, Mismatches: 100, Indels: 6
0.94 0.06 0.00
Matches are distributed among these distances:
597 570 0.34
598 571 0.34
599 540 0.32
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.31
Consensus pattern (598 bp):
TTTAACTACTTTCAACTGCACTTGACATCACTTTTAGCAACATGGCTTCGAATGGTTCATTTAGC
AAGATTCATCTACATGCTAGCTCCTCCAGCTGAGTTGAGCTTTCTATAAGTCTCCATGACCTGCT
TGAATCCTTTTGAGCTAATTATGAGGTGCATATTGAGGCCAAATAATCACCAAGCTACCATAATG
TGTGCCACCCATTGATGTACCTACATGAATAAAGAAGCTAAGGTAAATCAAAGGAAATGAGCTGG
GATGAATGCAAATGCAAACTTCCATGCATGTACTTGTGAGCTAAGAATGCATGTCATCAGCTAAA
GATGAGATGGTATTGTATTAATGAGCTAATACATGTGACTTGTGAACTAAATTGAATTGTAATGA
GCTAGGAAATAAATGATTAACATGTTGCCAACATTTGAATCAAATGAAATCAATCTAAATGAATG
CAAAATTAATATAATTCAATAATAACTAAGTGAATATGTGAAGTAACATCATGCAATAAGTAATA
TAAAGATGTGAGCATTTGAAGTTAGTTTACAGCTAGCAAAACATTATATAACTTATCATTAAGTA
ATGCCACATTTCC
Found at i:243278 original size:598 final size:599
Alignment explanation
Indices: 241587--243969 Score: 4099
Period size: 597 Copynumber: 4.0 Consensus size: 599
241577 CTCCCTAGCA
* * *
241587 TTTAGCTACTTTCAGCTGCACTTGAGATCACTTTTAGCAACATGGCTTCGAATGGTTCATTTAGC
1 TTTAACTACTTTCAACTGCACTTGACATCACTTTTAGCAACATGGCTTCGAATGGTTCATTTAGC
* *
241652 AAGATTCATCTACATGCTAGCTCCTCCAACTGAGTTGAGCTTTCTATAAGTCTCCATGACATGCT
66 AAGATTCATCTACATGCTAGCTCCTCCAGCTGAGTTGAGCTTTCTATAAGTCTCCATGACCTGCT
* * *
241717 TGAATCTTTTTGAGCTAATTATGAGGTGTATATTGAGGACAAATAATCCACCAAGCTACCATAAT
131 TGAATCCTTTTGAGCTAATTATGAGGTGCATATTGAGGCCAAATAATCCACCAAGCTACCATAAT
* *
241782 GTGTGCCACCCATTGATGTACCTACATGAATAAATAAGCTAAGGTAAATCAAAGGAAATGAGTTG
196 GTGTGCCACCCATTGATGTACCTACATGAATAAAGAAGCTAAGGTAAATCAAAGGAAATGAGCTG
* * *
241847 GGATGAATGCAAATGCAAATTGCCATGAATGTACTTGTGAGCTAAGAATGCATGTCATCAACTAA
261 GGATGAATGCAAATGCAAACTGCCATGCATGTACTTGTGAGCTAAGAATGCATGTCATCAGCTAA
*
241912 AGATGAGATGGTATTGTATTAATGAGCTAATATATGTGACTTGTGAGCTAAATTGAATTGTAATG
326 AGATGAGATGGTATTGTATTAATGAGCTAATATATGTGACTTGTGAACTAAATTGAATTGTAATG
* *
241977 AGCTAGAAAATAAATGATTAACATGTTGTCAACATTTGAATCAAATGAAATCAATCTAAATGAAT
391 AGCTAGGAAATAAATGATTAACATGTTGCCAACATTTGAATCAAATGAAATCAATCTAAATGAAT
*
242042 GCAAAATTAATATAATTCAATAATAACTAAGTGAATATGTGAATTAACATCATGCAATAAGTAAT
456 GCAAAATTAATATAATTCAATAATAACTAAGTGAATATGTGAAGTAACATCATGCAATAAGTAAT
*
242107 ATAAAGATGTGAGCATTTGAAGTTAGTTTACAACTAGCAAAACATTATATAACTTATCATTAAGT
521 ATAAAGATGTGAGCATTTGAAGTTAGTTTACAGCTAGCAAAACATTATATAACTTATCATTAAGT
242172 AATGCCACATTTCC
586 AATGCCACATTTCC
242186 TTTAACTACTTTCAACTGCACTTGACATCACTTTTAGCAACATGGCTTCGAATGGTTCATTTAGC
1 TTTAACTACTTTCAACTGCACTTGACATCACTTTTAGCAACATGGCTTCGAATGGTTCATTTAGC
* * *
242251 AAGATTCATCTACATGCTTGCTCCTCGAGCTGAGTTGAGCTTTCTATAAGTCTCCATGACCTACT
66 AAGATTCATCTACATGCTAGCTCCTCCAGCTGAGTTGAGCTTTCTATAAGTCTCCATGACCTGCT
* *
242316 TGAATCCTTTTGAGCTAATTGTGAGGTGCATATCGAGGCCAAATAAT--ACCAAGCTACCATAAT
131 TGAATCCTTTTGAGCTAATTATGAGGTGCATATTGAGGCCAAATAATCCACCAAGCTACCATAAT
242379 GTGTGCCACCCATTGATGTACCTACATGAATAAAGAAGCTAAGGTAAATCAAAGGAAATGAGCTG
196 GTGTGCCACCCATTGATGTACCTACATGAATAAAGAAGCTAAGGTAAATCAAAGGAAATGAGCTG
* *
242444 GGATGAATGCAAATGTAAACTTCCATGCATGTACTTGTGAGCTAAGAATGCATGTCATCAGCTAA
261 GGATGAATGCAAATGCAAACTGCCATGCATGTACTTGTGAGCTAAGAATGCATGTCATCAGCTAA
* * *
242509 AGATGAGATGGTATTCTATTAATGAGCTAATACATGTGACTTGTGAACTGAATTGAATTGTAATG
326 AGATGAGATGGTATTGTATTAATGAGCTAATATATGTGACTTGTGAACTAAATTGAATTGTAATG
*
242574 AGTTAGGAAATAAATGATTAACATGTTGCCAACATTTGAATCAAATGAAATCAATCTAAATGAAT
391 AGCTAGGAAATAAATGATTAACATGTTGCCAACATTTGAATCAAATGAAATCAATCTAAATGAAT
242639 GCAAAATTAATATAATTCAATAATAACTAAGTGAATATGTGAAGTAACATCATGCAATAAGTAAT
456 GCAAAATTAATATAATTCAATAATAACTAAGTGAATATGTGAAGTAACATCATGCAATAAGTAAT
* *
242704 ATAAAGACGTGAGCATTTGAAGTTAGTTTACAGCTAGCAAAACATTATATAATTTATCATTAAGT
521 ATAAAGATGTGAGCATTTGAAGTTAGTTTACAGCTAGCAAAACATTATATAACTTATCATTAAGT
242769 AATGCCACATTTCC
586 AATGCCACATTTCC
242783 TTTAACTACTTTCAACTGCACTTGACATCACTTTTAGCAACATGGCTTCGAATGGTTCATTTAGC
1 TTTAACTACTTTCAACTGCACTTGACATCACTTTTAGCAACATGGCTTCGAATGGTTCATTTAGC
* *
242848 AAGATTCATCTACATGCTAGCTCATCCAGCTGAGTTGATCTTTCTATAAGTCTCCATGACCTGCT
66 AAGATTCATCTACATGCTAGCTCCTCCAGCTGAGTTGAGCTTTCTATAAGTCTCCATGACCTGCT
* *
242913 TGAATCCGTTTGAGCTAATTATGAGGTGCATATTGAGGCCAAATAAT-CACCAACCTACCATAAT
131 TGAATCCTTTTGAGCTAATTATGAGGTGCATATTGAGGCCAAATAATCCACCAAGCTACCATAAT
* * * * * *
242977 GTGTGTCACCCATTAATGTACCTACATGAATAAATAAGCTAAGGTAAATAAAAGGAAATGGGTTG
196 GTGTGCCACCCATTGATGTACCTACATGAATAAAGAAGCTAAGGTAAATCAAAGGAAATGAGCTG
* * *
243042 GGATGAATGCAAATGCAAAGTACCATGCATGTACTTGTGAGCTAAGAATGCATGTCATTAGCTAA
261 GGATGAATGCAAATGCAAACTGCCATGCATGTACTTGTGAGCTAAGAATGCATGTCATCAGCTAA
* *
243107 AGATGAGATGGTATTTTATTAATGAGCTAATATATGTGACTTGTGAGCTAAATTGAATTGTAATG
326 AGATGAGATGGTATTGTATTAATGAGCTAATATATGTGACTTGTGAACTAAATTGAATTGTAATG
*
243172 AGCTAGGAAATAAATGATTAACATGTTACCAACATTTGAATCAAATGAAATCAATCTAAATGAAT
391 AGCTAGGAAATAAATGATTAACATGTTGCCAACATTTGAATCAAATGAAATCAATCTAAATGAAT
* *
243237 GAAAAATTAATATAATTCAATAATAACTAAGTGAATATGTGAAGTAACATCATCCAATAAGTAAT
456 GCAAAATTAATATAATTCAATAATAACTAAGTGAATATGTGAAGTAACATCATGCAATAAGTAAT
*
243302 AGAAAGATGTGAGCATTTGAAGTTAGTTTACAGCTAGCAAAACATTATATAACTTATCATTAAGT
521 ATAAAGATGTGAGCATTTGAAGTTAGTTTACAGCTAGCAAAACATTATATAACTTATCATTAAGT
243367 AATGCCACATTTCC
586 AATGCCACATTTCC
243381 TTTAACTACTTTCAACTGCACTTGACATCACTTTTAGCAACATGGCTTCGAATGGTTCATTTAGC
1 TTTAACTACTTTCAACTGCACTTGACATCACTTTTAGCAACATGGCTTCGAATGGTTCATTTAGC
*
243446 AAGATTCATCTACATGCTAGCTCCTCCAGTTGAGTTGAGCTTTCTATAAGTCTCCATGACCTGCT
66 AAGATTCATCTACATGCTAGCTCCTCCAGCTGAGTTGAGCTTTCTATAAGTCTCCATGACCTGCT
* * *
243511 TGAATCCTTTTGAGCTAATTGTGAGGTACATATTGAGGCCAAATAATCCACCAAGTTACCATAAT
131 TGAATCCTTTTGAGCTAATTATGAGGTGCATATTGAGGCCAAATAATCCACCAAGCTACCATAAT
* * *
243576 GTGTGCCACCCGTTGATGTACGTACATGAATAAGGAAGCTAAGGTAAATCAAAGGAAATGAGCTG
196 GTGTGCCACCCATTGATGTACCTACATGAATAAAGAAGCTAAGGTAAATCAAAGGAAATGAGCTG
*
243641 GGATGAATGCAAATGCAAACTGCCATACATGTACTTGTGAGCTAAGAATGCATGTCATCAGCTAA
261 GGATGAATGCAAATGCAAACTGCCATGCATGTACTTGTGAGCTAAGAATGCATGTCATCAGCTAA
* * * *
243706 AGATGAGATGGTATTGTATTAATGAGCTGATACT-TGTGGCTTATGAACTGAATTGAATTGTAAT
326 AGATGAGATGGTATTGTATTAATGAGCTAATA-TATGTGACTTGTGAACTAAATTGAATTGTAAT
* * * * *
243770 GAGTTAGGAAATAAATGAATAACATGCTGCCAACATTTAAATTAAATGAAATCAATCTAAATGAA
390 GAGCTAGGAAATAAATGATTAACATGTTGCCAACATTTGAATCAAATGAAATCAATCTAAATGAA
*
243835 TGCAAAATTAATATAATTCAATAATAACTAAGTGAATATGTGAAGTAACATCATGGAATAAGTAA
455 TGCAAAATTAATATAATTCAATAATAACTAAGTGAATATGTGAAGTAACATCATGCAATAAGTAA
* *
243900 TATAAAAATGTGAGCATTTGAAGTTAGTTTACACCTAGCAAAACATTATATAACTTATCATTAAG
520 TATAAAGATGTGAGCATTTGAAGTTAGTTTACAGCTAGCAAAACATTATATAACTTATCATTAAG
243965 TAATG
585 TAATG
243970 ATAACTTGTC
Statistics
Matches: 1681, Mismatches: 100, Indels: 6
0.94 0.06 0.00
Matches are distributed among these distances:
597 571 0.34
598 569 0.34
599 540 0.32
600 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.31
Consensus pattern (599 bp):
TTTAACTACTTTCAACTGCACTTGACATCACTTTTAGCAACATGGCTTCGAATGGTTCATTTAGC
AAGATTCATCTACATGCTAGCTCCTCCAGCTGAGTTGAGCTTTCTATAAGTCTCCATGACCTGCT
TGAATCCTTTTGAGCTAATTATGAGGTGCATATTGAGGCCAAATAATCCACCAAGCTACCATAAT
GTGTGCCACCCATTGATGTACCTACATGAATAAAGAAGCTAAGGTAAATCAAAGGAAATGAGCTG
GGATGAATGCAAATGCAAACTGCCATGCATGTACTTGTGAGCTAAGAATGCATGTCATCAGCTAA
AGATGAGATGGTATTGTATTAATGAGCTAATATATGTGACTTGTGAACTAAATTGAATTGTAATG
AGCTAGGAAATAAATGATTAACATGTTGCCAACATTTGAATCAAATGAAATCAATCTAAATGAAT
GCAAAATTAATATAATTCAATAATAACTAAGTGAATATGTGAAGTAACATCATGCAATAAGTAAT
ATAAAGATGTGAGCATTTGAAGTTAGTTTACAGCTAGCAAAACATTATATAACTTATCATTAAGT
AATGCCACATTTCC
Found at i:246762 original size:8 final size:7
Alignment explanation
Indices: 246736--246760 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
246726 CTTTGTTGAA
246736 TTTTATT
1 TTTTATT
246743 TTTTATT
1 TTTTATT
246750 TTTTATT
1 TTTTATT
246757 TTTT
1 TTTT
246761 TACTTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:253417 original size:6 final size:6
Alignment explanation
Indices: 253378--253427 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
253368 GTGCTGCAAC
* *
253378 AAAAGA AACAA-A AAGAGA AAAAGA AAGAAGA AAAATA AAAAG- AAAAGA
1 AAAAGA AA-AAGA AAAAGA AAAAGA AA-AAGA AAAAGA AAAAGA AAAAGA
253426 AA
1 AA
253428 CATACTCTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
5 6 0.17
6 22 0.61
7 8 0.22
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (6 bp):
AAAAGA
Found at i:260045 original size:12 final size:12
Alignment explanation
Indices: 260017--260051 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
260007 TATATTTTGT
260017 TTATCTTG-TTC
1 TTATCTTGTTTC
*
260028 TAATCTTGTTTC
1 TTATCTTGTTTC
260040 TTATCTTGTTTC
1 TTATCTTGTTTC
260052 CAACACTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.11, C:0.17, G:0.09, T:0.63
Consensus pattern (12 bp):
TTATCTTGTTTC
Found at i:264946 original size:13 final size:13
Alignment explanation
Indices: 264924--264953 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
264914 ACTAAACACC
264924 TTTC-ACATACCT
1 TTTCAACATACCT
264936 TTTCAACATACCT
1 TTTCAACATACCT
264949 TTTCA
1 TTTCA
264954 TCTTTGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTCAACATACCT
Found at i:267750 original size:23 final size:24
Alignment explanation
Indices: 267699--267759 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
267689 CAACTTTTCT
267699 TTCTTTC-TTTTCTTCTTTTCAAG
1 TTCTTTCATTTTCTTCTTTTCAAG
* * *
267722 TGCTTTCAATTTCTTCTTTT-GAG
1 TTCTTTCATTTTCTTCTTTTCAAG
*
267745 TTCTTTTATTTTCTT
1 TTCTTTCATTTTCTT
267760 TGCTGATTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
23 20 0.65
24 11 0.35
ACGTcount: A:0.10, C:0.18, G:0.07, T:0.66
Consensus pattern (24 bp):
TTCTTTCATTTTCTTCTTTTCAAG
Found at i:281525 original size:20 final size:20
Alignment explanation
Indices: 281502--281543 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
281492 TTAGGAAGTG
281502 ACTTAGGTAGCTAGCTAGGT
1 ACTTAGGTAGCTAGCTAGGT
281522 ACTTAGGTAGCTAGCTAGGT
1 ACTTAGGTAGCTAGCTAGGT
281542 AC
1 AC
281544 CTAGTGTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (20 bp):
ACTTAGGTAGCTAGCTAGGT
Found at i:286865 original size:13 final size:14
Alignment explanation
Indices: 286845--286883 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
286835 CAACCATCTC
286845 TATCATTTCTTTAT
1 TATCATTTCTTTAT
*
286859 T-TCATTTCATTAT
1 TATCATTTCTTTAT
*
286872 TATTATTTCTTT
1 TATCATTTCTTT
286884 TCATTACTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.21, C:0.13, G:0.00, T:0.67
Consensus pattern (14 bp):
TATCATTTCTTTAT
Found at i:291452 original size:19 final size:20
Alignment explanation
Indices: 291428--291467 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
291418 TATCATTTCT
291428 TTATTTCATTTCATT-CTTA
1 TTATTTCATTTCATTACTTA
*
291447 TTATTTCTTTTCATTACTTA
1 TTATTTCATTTCATTACTTA
291467 T
1 T
291468 ATTATTATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.20, C:0.15, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATTTCATTTCATTACTTA
Found at i:291470 original size:19 final size:18
Alignment explanation
Indices: 291414--291470 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 18
291404 TCCGCAACCA
291414 TCTTTATCATTTCTT-TATT
1 TCTTT-TCA-TTCTTATATT
*
291433 TCATTTCATTCTTATTATT
1 TCTTTTCATTCTTA-TATT
291452 TCTTTTCATTACTTATATT
1 TCTTTTCATT-CTTATATT
291471 ATTATTCCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 5 0.15
18 3 0.09
19 21 0.64
20 4 0.12
ACGTcount: A:0.19, C:0.16, G:0.00, T:0.65
Consensus pattern (18 bp):
TCTTTTCATTCTTATATT
Found at i:304145 original size:20 final size:20
Alignment explanation
Indices: 304120--304160 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
304110 GCAACATTTG
304120 AATGAAATG-AAATCAATATA
1 AATG-AATGCAAATCAATATA
*
304140 AATGAATGCAAATTAATATA
1 AATGAATGCAAATCAATATA
304160 A
1 A
304161 TTCAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.59, C:0.05, G:0.10, T:0.27
Consensus pattern (20 bp):
AATGAATGCAAATCAATATA
Found at i:305953 original size:22 final size:22
Alignment explanation
Indices: 305911--305953 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
305901 CTTTTGGATG
* *
305911 AAATGAAGGCTACATTTATCCT
1 AAATGAAGGCTAAATTCATCCT
*
305933 AAATGAAGTCTAAATTCATCC
1 AAATGAAGGCTAAATTCATCC
305954 CAAGAACACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.30
Consensus pattern (22 bp):
AAATGAAGGCTAAATTCATCCT
Found at i:309277 original size:17 final size:16
Alignment explanation
Indices: 309257--309309 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 16
309247 ATTAAAGAGT
309257 TAGTTAGATTAATGAAC
1 TAGTTA-ATTAATGAAC
* *
309274 TAGTTAAATAGATAAAC
1 TAGTTAATTA-ATGAAC
309291 TAGTTTAATTAATGAAC
1 TAG-TTAATTAATGAAC
309308 TA
1 TA
309310 ACTTTATTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
16 3 0.10
17 21 0.70
18 6 0.20
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.36
Consensus pattern (16 bp):
TAGTTAATTAATGAAC
Found at i:311243 original size:45 final size:44
Alignment explanation
Indices: 311173--311271 Score: 128
Period size: 45 Copynumber: 2.2 Consensus size: 44
311163 ACAAGAATGG
* *
311173 TTTGGAATTATCAGGGCATTGCCTTTACTGGTTTTGGCAATTTC
1 TTTGGAATTATCAGGGCATTCCCTTTACTAGTTTTGGCAATTTC
* * **
311217 TTTGTGAATTATCGGGGCATTCCCTTTGCTAGTTTTGGCAATGGC
1 TTTG-GAATTATCAGGGCATTCCCTTTACTAGTTTTGGCAATTTC
311262 TTT-GAATTAT
1 TTTGGAATTAT
311272 TTCTTGGGTG
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
43 7 0.15
44 4 0.08
45 37 0.77
ACGTcount: A:0.18, C:0.15, G:0.23, T:0.43
Consensus pattern (44 bp):
TTTGGAATTATCAGGGCATTCCCTTTACTAGTTTTGGCAATTTC
Found at i:315166 original size:172 final size:172
Alignment explanation
Indices: 314880--315223 Score: 661
Period size: 172 Copynumber: 2.0 Consensus size: 172
314870 ACCTTTTCTT
*
314880 TATCGACATCGAAGAAAACTTCAATTTTTTTAACCTGCATAAAAGATAACAAGTATGTTATAATA
1 TATCGACATCGAAGAAAACTTCAATTTTTTTAACCTGCATAAAAGATAACAAGTATGTTAGAATA
314945 TCATTAAAATGAGTAACAACATACTTACCTTTGGATTCTTGAACATTGTGTTCTATCACTGAGAT
66 TCATTAAAATGAGTAACAACATACTTACCTTTGGATTCTTGAACATTGTGTTCTATCACTGAGAT
*
315010 GACAAAATGACTGAGGCTTTCATGGATATAGCCTTTTTTTTA
131 GACAAAATGACCGAGGCTTTCATGGATATAGCCTTTTTTTTA
315052 TATCGACATCGAAGAAAACTTCAATTTTTTTAACCTGCATAAAAGATAACAAGTATGTTAGAATA
1 TATCGACATCGAAGAAAACTTCAATTTTTTTAACCTGCATAAAAGATAACAAGTATGTTAGAATA
315117 TCATTAAAATGAGTAACAACATACTTACCTTTGGATTCTTGAACATTGTGTTCTATCACTGAGAT
66 TCATTAAAATGAGTAACAACATACTTACCTTTGGATTCTTGAACATTGTGTTCTATCACTGAGAT
*
315182 GACAGAATGACCGAGGCTTTCATGGATATAGCCTTTTTTTTA
131 GACAAAATGACCGAGGCTTTCATGGATATAGCCTTTTTTTTA
315224 GTGAATCTAA
Statistics
Matches: 169, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
172 169 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (172 bp):
TATCGACATCGAAGAAAACTTCAATTTTTTTAACCTGCATAAAAGATAACAAGTATGTTAGAATA
TCATTAAAATGAGTAACAACATACTTACCTTTGGATTCTTGAACATTGTGTTCTATCACTGAGAT
GACAAAATGACCGAGGCTTTCATGGATATAGCCTTTTTTTTA
Found at i:319804 original size:2 final size:2
Alignment explanation
Indices: 319797--319829 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
319787 ATGGATTGCT
319797 TA TA TA TA -A TA TGA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA T
319830 TATTTAGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 26 0.90
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:320067 original size:13 final size:12
Alignment explanation
Indices: 320051--320084 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
320041 CTCAATGCGC
320051 GTCATAAATGAGT
1 GTCATAAATG-GT
320064 GTCATAAAT-GT
1 GTCATAAATGGT
320075 GTCATAAATG
1 GTCATAAATG
320085 CGCGTCATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 11 0.55
13 9 0.45
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (12 bp):
GTCATAAATGGT
Found at i:320091 original size:13 final size:13
Alignment explanation
Indices: 320044--320093 Score: 59
Period size: 13 Copynumber: 4.0 Consensus size: 13
320034 AATGATGCTC
320044 AATGCGCGTCATA
1 AATGCGCGTCATA
* *
320057 AATGAGTGTCATA
1 AATGCGCGTCATA
*
320070 AAT--GTGTCATA
1 AATGCGCGTCATA
320081 AATGCGCGTCATA
1 AATGCGCGTCATA
320094 TATTTATGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 11 0.34
13 21 0.66
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (13 bp):
AATGCGCGTCATA
Found at i:320580 original size:18 final size:18
Alignment explanation
Indices: 320557--320591 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
320547 GAAGTATGAA
*
320557 TGGTGTTGTCGTGGCAAT
1 TGGTGTTGCCGTGGCAAT
320575 TGGTGTTGCCGTGGCAA
1 TGGTGTTGCCGTGGCAA
320592 GTGTTGTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.14, G:0.40, T:0.34
Consensus pattern (18 bp):
TGGTGTTGCCGTGGCAAT
Found at i:346357 original size:78 final size:82
Alignment explanation
Indices: 346270--346424 Score: 196
Period size: 81 Copynumber: 1.9 Consensus size: 82
346260 AAATAAAATA
*
346270 TTATTTAATTAATTC-AACTTAAATATA-C-ATT-AAAGACTTATAATC-AGAATTACAATC-TT
1 TTATTTAATT-ATTCTAAATTAAATATATCAATTAAAAGACTTATAATCTA-AATTACAATCTTT
*
346329 TAATGTTTACTTAAAAAAC
64 TAATGCTTACTTAAAAAAC
* * * *
346348 TTATTTAATTATTCTAAATTATATATATCAATTAAAAGAGTTGTAATCTAAATTACATTCTTTTA
1 TTATTTAATTATTCTAAATTAAATATATCAATTAAAAGACTTATAATCTAAATTACAATCTTTTA
346413 ATGCTTACTTAA
66 ATGCTTACTTAA
346425 TATATCCGGG
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
77 4 0.06
78 20 0.31
79 1 0.02
80 3 0.05
81 21 0.32
82 16 0.25
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.43
Consensus pattern (82 bp):
TTATTTAATTATTCTAAATTAAATATATCAATTAAAAGACTTATAATCTAAATTACAATCTTTTA
ATGCTTACTTAAAAAAC
Found at i:358680 original size:65 final size:65
Alignment explanation
Indices: 358562--358718 Score: 158
Period size: 65 Copynumber: 2.4 Consensus size: 65
358552 GTATACTAGG
** * * * *
358562 GTGCATCAATACACTAATTACATTCGATGTTTCAAATGAGCATGGAGTACATCGATGCATGG-TC
1 GTGCATCGGTACACAAAATACATTCGATGTTTCAAATGAGCATAGAGTACATCGAAGCATGGCT-
358626 T
65 T
* *
358627 GTGCATCGGTACACAAAATACATTCGATGTTTCAAAAT-ATTCA-AGAGTGCATCGAAGCATGGC
1 GTGCATCGGTACACAAAATACATTCGATGTTTC-AAATGA-GCATAGAGTACATCGAAGCATGGC
358690 TT
64 TT
* ** *
358692 GTGCATTGGTATGCAAAATGCATTCGA
1 GTGCATCGGTACACAAAATACATTCGA
358719 AATGGGTGTG
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
65 70 0.91
66 7 0.09
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (65 bp):
GTGCATCGGTACACAAAATACATTCGATGTTTCAAATGAGCATAGAGTACATCGAAGCATGGCTT
Found at i:359423 original size:16 final size:17
Alignment explanation
Indices: 359404--359443 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
359394 CATCAAATTC
359404 AAACATCA-CAATCCAA
1 AAACATCATCAATCCAA
359420 AAACAT-ATCAATCCAA
1 AAACATCATCAATCCAA
*
359436 CAACATCA
1 AAACATCA
359444 AATTGTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 19 0.90
17 1 0.05
ACGTcount: A:0.55, C:0.30, G:0.00, T:0.15
Consensus pattern (17 bp):
AAACATCATCAATCCAA
Found at i:365239 original size:22 final size:21
Alignment explanation
Indices: 365197--365236 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
365187 GAGATTATTT
365197 TCATTTTTCAATTTTAAAATA
1 TCATTTTTCAATTTTAAAATA
**
365218 TCATTTTTGTATTTTAAAA
1 TCATTTTTCAATTTTAAAA
365237 ATAATTTCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATA
Found at i:376145 original size:20 final size:20
Alignment explanation
Indices: 376120--376159 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
376110 AAGGATGAGT
376120 CCTTTAACTGAAAGACATGA
1 CCTTTAACTGAAAGACATGA
376140 CCTTTAACTGAAAGACATGA
1 CCTTTAACTGAAAGACATGA
376160 TGAACCAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (20 bp):
CCTTTAACTGAAAGACATGA
Found at i:376273 original size:21 final size:24
Alignment explanation
Indices: 376228--376274 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
376218 GTTGGGTTTG
*
376228 TTTTCTTTATCTTCTTAAGTCTGA
1 TTTTCTTTATCTACTTAAGTCTGA
376252 TTTTCTTT-TCTAC-TAA-TCTGA
1 TTTTCTTTATCTACTTAAGTCTGA
376273 TT
1 TT
376275 ATAATTATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 3 0.14
23 4 0.18
24 8 0.36
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (24 bp):
TTTTCTTTATCTACTTAAGTCTGA
Found at i:380233 original size:23 final size:22
Alignment explanation
Indices: 380182--380233 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
380172 ACTAGCTCAT
*
380182 TACAATTTATTTCAGCTCACAA
1 TACAATATATTTCAGCTCACAA
*
380204 TTC-ATATATATT-AGCTCACTAA
1 TACAATATAT-TTCAGCTCAC-AA
380226 TACAATAT
1 TACAATAT
380234 TATCTCATCC
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
21 12 0.50
22 8 0.33
23 4 0.17
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.38
Consensus pattern (22 bp):
TACAATATATTTCAGCTCACAA
Found at i:382954 original size:24 final size:24
Alignment explanation
Indices: 382927--382981 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
382917 ATCCTTTAAT
*
382927 GTTCCAACA-ATTATGCCACTTGAA
1 GTTCCAAAAGATT-TGCCACTTGAA
* *
382951 GTTCAAAAAGATTTGTCACTTGAA
1 GTTCCAAAAGATTTGCCACTTGAA
*
382975 GTGCCAA
1 GTTCCAA
382982 GATTTGTGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (24 bp):
GTTCCAAAAGATTTGCCACTTGAA
Found at i:392003 original size:59 final size:59
Alignment explanation
Indices: 391907--392304 Score: 548
Period size: 59 Copynumber: 6.8 Consensus size: 59
391897 TTTCCCATAT
* * *
391907 GGAAATTCATACATTTAGTAT-AATTTCTTATCATTTTAGCACAC-AAGGTGCCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAA-GTGCCCTATAC
* * *
391965 GGAAATTCATAAACTTAGTATGAATTTCCTAACATTTTAGCACACGAAGTGCCTTATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATAC
** * *
392024 TAAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGTCCTATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATAC
* * * *
392083 TGAAATTCATACTCTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCTATAT
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATAC
** *
392142 GGAAATTCATACACTTAGTATGCTTTTTTTAACATTTTAGCACACGAAGTGCCCTATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATAC
* * * **
392201 AGAAATTCATACATTTATTATGAATTTCTTAACATTTTAAAACACGAAGTGCCCTATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATAC
* * *
392260 AGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGAACAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACAC
392305 TTAGTTCCAT
Statistics
Matches: 302, Mismatches: 36, Indels: 3
0.89 0.11 0.01
Matches are distributed among these distances:
58 19 0.06
59 281 0.93
60 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.35
Consensus pattern (59 bp):
GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATAC
Found at i:392686 original size:22 final size:20
Alignment explanation
Indices: 392635--392687 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
392625 ATGGTTCTTC
392635 AGTATTGATACTACTACCAT
1 AGTATTGATACTACTACCAT
* *
392655 GGTATTGATACTACCTGACTAT
1 AGTATTGATACTA-CT-ACCAT
*
392677 AGTATCGATAC
1 AGTATTGATAC
392688 CCCCTTCCGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 12 0.44
21 2 0.07
22 13 0.48
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (20 bp):
AGTATTGATACTACTACCAT
Found at i:392808 original size:94 final size:94
Alignment explanation
Indices: 392649--392857 Score: 280
Period size: 94 Copynumber: 2.2 Consensus size: 94
392639 TTGATACTAC
392649 TACCATGGTATTGATACTACCTGACTATAGTATCGATACCCCCTTCCGGTATCGATACCAAAATT
1 TACCATGGTATTGATACTA-CTGACTATAGTATCGATACCCCCTTCCGGTATCGATACCAAAATT
* *
392714 AGATTCGATGTGGCCTGGTATCGATACCCT
65 AGATTCGATATGACCTGGTATCGATACCCT
* * *
392744 TACCATGGTATTGATACTACTATACTA-AGGTA-CTGAT-CTCCCTTCTGGTATCGATACCAAAA
1 TACCATGGTATTGATACTACT-GACTATA-GTATC-GATACCCCCTTCCGGTATCGATACCAAAA
* *
392806 TTAGGTTCGATATTACCTGGTATCGATACCCT
63 TTAGATTCGATATGACCTGGTATCGATACCCT
* *
392838 TACCATGGTATCGACACTAC
1 TACCATGGTATTGATACTAC
392858 CTAGTTGGTA
Statistics
Matches: 102, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
94 73 0.72
95 29 0.28
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (94 bp):
TACCATGGTATTGATACTACTGACTATAGTATCGATACCCCCTTCCGGTATCGATACCAAAATTA
GATTCGATATGACCTGGTATCGATACCCT
Found at i:398075 original size:177 final size:178
Alignment explanation
Indices: 397778--398110 Score: 551
Period size: 177 Copynumber: 1.9 Consensus size: 178
397768 TTTCCCCAAA
* * **
397778 GGAAATTCATACACTTAGTATGAATTTCCTAACATTTTAGCACACGAAGTGCCCTATATTGAAAT
1 GGAAATTCATACACCTAGTATGAACTTCCTAACATTTTAGCACACGAAGTGCCCTATACGGAAAT
*
397843 TCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATACAGAAATGCATAC
66 TCATACAATTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATACAGAAATGCATAC
*
397908 ACATAGTATGAATTTCTTAACATTTTTTACACACAAAGTTCTCTGTAC
131 ACATAGTATAAATTTCTTAACATTTTTTACACACAAAGTTCTCTGTAC
*
397956 GGAAATTCATACACCTAGTATGAACTTCTTAACATTTTAGCACACGAAGTG-CCTATACGGAAAT
1 GGAAATTCATACACCTAGTATGAACTTCCTAACATTTTAGCACACGAAGTGCCCTATACGGAAAT
* * *
398020 TCATACAATTTGTATGAATTTCTTATCATTTTAGCACACGAAGTGCCCTATACAGAAATTCATAC
66 TCATACAATTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATACAGAAATGCATAC
* *
398085 ACTTAGTATAAATTTCTTATCATTTT
131 ACATAGTATAAATTTCTTAACATTTT
398111 AGCATAATTA
Statistics
Matches: 143, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
177 95 0.66
178 48 0.34
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (178 bp):
GGAAATTCATACACCTAGTATGAACTTCCTAACATTTTAGCACACGAAGTGCCCTATACGGAAAT
TCATACAATTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATACAGAAATGCATAC
ACATAGTATAAATTTCTTAACATTTTTTACACACAAAGTTCTCTGTAC
Found at i:398125 original size:59 final size:59
Alignment explanation
Indices: 397779--398114 Score: 478
Period size: 59 Copynumber: 5.7 Consensus size: 59
397769 TTCCCCAAAG
* **
397779 GAAATTCATACACTTAGTATGAATTTCCTAACATTTTAGCACACGAAGTGCCCTATATT
1 GAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATACA
397838 GAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATACA
1 GAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATACA
* * * * * * *
397897 GAAATGCATACACATAGTATGAATTTCTTAACATTTTTTA-CACACAAAGTTCTCTGTACG
1 GAAATTCATACACTTAGTATGAATTTCTTAACA--TTTTAGCACACGAAGTGCCCTATACA
* * *
397957 GAAATTCATACACCTAGTATGAACTTCTTAACATTTTAGCACACGAAGTG-CCTATACG
1 GAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATACA
* * *
398015 GAAATTCATACAATTTGTATGAATTTCTTATCATTTTAGCACACGAAGTGCCCTATACA
1 GAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATACA
* *
398074 GAAATTCATACACTTAGTATAAATTTCTTATCATTTTAGCA
1 GAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCA
398115 TAATTAGTGC
Statistics
Matches: 247, Mismatches: 26, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
58 56 0.23
59 141 0.57
60 45 0.18
61 5 0.02
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (59 bp):
GAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATACA
Found at i:398646 original size:95 final size:94
Alignment explanation
Indices: 398448--398651 Score: 252
Period size: 94 Copynumber: 2.2 Consensus size: 94
398438 ATGGTTTTCA
* * *
398448 GTATCGATACTGC-TACCATGGTATCGATACCACCCTACTATGGTTTCAATACCCCTTCCAGTAT
1 GTATCGATAC-CCTTACCATGGTATCGATACCACCATACTATGGTCTCAATACCCCTTCCAGTAT
*
398512 CGATACCAAAATTAGATTTGATGTGGTCTG
65 CGATACCAAAATTAGATTTGATGTAGTCTG
* * * * *
398542 GTATCGATACCCTTACCATGGTATCGATACTACTATACTATGGTACT-GATACCCCTTTCTGATA
1 GTATCGATACCCTTACCATGGTATCGATACCACCATACTATGGT-CTCAATACCCCTTCCAG-TA
*
398606 TCGATACCAAAATTAGGTTTGATGTTAGT-TG
64 TCGATACCAAAATTAGATTTGATG-TAGTCTG
*
398637 GTATTGATACCCTTA
1 GTATCGATACCCTTA
398652 TCGATACTAC
Statistics
Matches: 95, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
93 1 0.01
94 49 0.52
95 42 0.44
96 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (94 bp):
GTATCGATACCCTTACCATGGTATCGATACCACCATACTATGGTCTCAATACCCCTTCCAGTATC
GATACCAAAATTAGATTTGATGTAGTCTG
Found at i:404800 original size:28 final size:28
Alignment explanation
Indices: 404760--404813 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
404750 TTGACCCACT
404760 AGTGTACATGCTTGAATGATGCACATGG
1 AGTGTACATGCTTGAATGATGCACATGG
404788 AGTGTACATGCTTGAATGATGCACAT
1 AGTGTACATGCTTGAATGATGCACAT
404814 AGAAGCCTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (28 bp):
AGTGTACATGCTTGAATGATGCACATGG
Found at i:409122 original size:24 final size:24
Alignment explanation
Indices: 409086--409171 Score: 66
Period size: 24 Copynumber: 3.6 Consensus size: 24
409076 TTGTAATGCA
* *
409086 CTTGGAGCCTCAA-TGATCACAACT
1 CTTGGAACTTCAAGTGA-CACAACT
*
409110 CTTGGAACTTCAAGTGACACATCT
1 CTTGGAACTTCAAGTGACACAACT
* * * * *
409134 TTTTGAACTTCAAATGCCATAACT
1 CTTGGAACTTCAAGTGACACAACT
* *
409158 CTTGTAACATCAAG
1 CTTGGAACTTCAAG
409172 GGAATTATCT
Statistics
Matches: 47, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
24 44 0.94
25 3 0.06
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (24 bp):
CTTGGAACTTCAAGTGACACAACT
Found at i:410357 original size:136 final size:136
Alignment explanation
Indices: 410113--410390 Score: 511
Period size: 136 Copynumber: 2.0 Consensus size: 136
410103 CTCACATTTG
*
410113 TGTTTGCACTCAGGGATATATGTCTTGGATTTTTCAAATGCCCATTATGTTCTCACCCTCTCTGT
1 TGTTTGCACTCAGGGATATATGTCTTGGATTTTTCAAATGCCCATTATGTTCTCAACCTCTCTGT
410178 TACCTTTTCCTCTCAATTATCTGTTGTTGAGCCCTTTAGAGAACTAACTCAAGATTGAGCAAGTT
66 TACCTTTTCCTCTCAATTATCTGTTGTTGAGCCCTTTAGAGAACTAACTCAAGATTGAGCAAGTT
410243 TTCTTT
131 TTCTTT
*
410249 TGTTTGCACTCAGGGATATATGTCTTGGCTTTTTCAAATGCCCATTATGTTCTCAACCTCTCTGT
1 TGTTTGCACTCAGGGATATATGTCTTGGATTTTTCAAATGCCCATTATGTTCTCAACCTCTCTGT
** *
410314 TTTCTTTTCCTCTCAATTATCTGTTGTTGAGCTCTTTAGAGAACTAACTCAAGATTGAGCAAGTT
66 TACCTTTTCCTCTCAATTATCTGTTGTTGAGCCCTTTAGAGAACTAACTCAAGATTGAGCAAGTT
410379 TTCTTT
131 TTCTTT
410385 TGTTTG
1 TGTTTG
410391 GTGTGTCGAC
Statistics
Matches: 137, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
136 137 1.00
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.43
Consensus pattern (136 bp):
TGTTTGCACTCAGGGATATATGTCTTGGATTTTTCAAATGCCCATTATGTTCTCAACCTCTCTGT
TACCTTTTCCTCTCAATTATCTGTTGTTGAGCCCTTTAGAGAACTAACTCAAGATTGAGCAAGTT
TTCTTT
Found at i:412949 original size:33 final size:33
Alignment explanation
Indices: 412905--412970 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
412895 CCCGAATACG
* *
412905 AGTCAATGATGTCGCACTACATTTACAATCATT
1 AGTCAAAGATGTCACACTACATTTACAATCATT
412938 AGTCAAAGATGTCACACTACATTTACAATCATT
1 AGTCAAAGATGTCACACTACATTTACAATCATT
412971 CTATAGTAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (33 bp):
AGTCAAAGATGTCACACTACATTTACAATCATT
Found at i:417478 original size:2 final size:2
Alignment explanation
Indices: 417471--417506 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
417461 GATATGCATA
* *
417471 AT AT AT AT AT AC AT AT AT AT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
417507 TATTATGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:421282 original size:2 final size:2
Alignment explanation
Indices: 421275--421304 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
421265 GATATGCATA
421275 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
421305 TATGTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:431373 original size:85 final size:86
Alignment explanation
Indices: 431260--431452 Score: 264
Period size: 85 Copynumber: 2.3 Consensus size: 86
431250 ATGCAATCAC
* * *
431260 GACACACGAATGTATGTCGT-TTTCATTTATGACAGGGGCTTCAATGACACGCAATGTAAGTCAT
1 GACACACAAATGTGTGTCATCTTTCATTTATGACAGGGGCTTCAATGACACGCAATGTAAGTCAT
*
431324 AAATGCATGTCATAAATTTAT
66 AAATGCACGTCATAAATTTAT
* * *
431345 GACACACAAATGTGTGTCATCTTT-ATTTATGACGGGGGCTTCAATGACGCGCAATGTTAGTCAT
1 GACACACAAATGTGTGTCATCTTTCATTTATGACAGGGGCTTCAATGACACGCAATGTAAGTCAT
*
431409 AAATGCGCGTCATAAATTTAT
66 AAATGCACGTCATAAATTTAT
* ** *
431430 GACGCACAGTTGCGTGTCATCTT
1 GACACACAAATGTGTGTCATCTT
431453 AAATTCATGT
Statistics
Matches: 95, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
85 92 0.97
86 3 0.03
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.32
Consensus pattern (86 bp):
GACACACAAATGTGTGTCATCTTTCATTTATGACAGGGGCTTCAATGACACGCAATGTAAGTCAT
AAATGCACGTCATAAATTTAT
Found at i:434030 original size:34 final size:30
Alignment explanation
Indices: 433992--434060 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
433982 TTGATATAAC
433992 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
434026 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
434055 AATTTA
1 AATTTA
434061 TTCAAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 10 0.29
30 12 0.35
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:434071 original size:29 final size:30
Alignment explanation
Indices: 434001--434060 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
433991 CAATTTAAGG
434001 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
434032 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
434061 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:434175 original size:13 final size:13
Alignment explanation
Indices: 434159--434188 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
434149 CATGCACCCC
434159 TGCAGTGCATCCA
1 TGCAGTGCATCCA
434172 TGCAGTGCATCCA
1 TGCAGTGCATCCA
434185 TGCA
1 TGCA
434189 CCTACACTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.23
Consensus pattern (13 bp):
TGCAGTGCATCCA
Found at i:434200 original size:22 final size:20
Alignment explanation
Indices: 434174--434231 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 20
434164 TGCATCCATG
434174 CAGTGCATCCATGCACCTACA
1 CAGTGCATCCATGCACC-ACA
* * **
434195 CTAGTGCATCGATGCATCATG
1 C-AGTGCATCCATGCACCACA
434216 CAGTGCATCCATGCAC
1 CAGTGCATCCATGCAC
434232 TCAAACACCA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 13 0.43
21 3 0.10
22 14 0.47
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.22
Consensus pattern (20 bp):
CAGTGCATCCATGCACCACA
Found at i:434277 original size:20 final size:20
Alignment explanation
Indices: 434252--434325 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 20
434242 AATGCAATTA
*
434252 GTGCATCGATGCATCCTTCT
1 GTGCATCGATGCATCCTACT
*
434272 GTGCATCGATGCAT-CAAGGCT
1 GTGCATCGATGCATCCTA--CT
*
434293 GTGCATGGATGCATCCTACT
1 GTGCATCGATGCATCCTACT
*
434313 GTGCATCCATGCA
1 GTGCATCGATGCA
434326 CGAAGGCTGC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 1 0.02
20 27 0.60
21 15 0.33
22 2 0.04
ACGTcount: A:0.20, C:0.27, G:0.24, T:0.28
Consensus pattern (20 bp):
GTGCATCGATGCATCCTACT
Found at i:434296 original size:21 final size:20
Alignment explanation
Indices: 434252--434307 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 20
434242 AATGCAATTA
***
434252 GTGCATCGATGCATCCTTCT
1 GTGCATCGATGCATCAGGCT
434272 GTGCATCGATGCATCAAGGCT
1 GTGCATCGATGCATC-AGGCT
*
434293 GTGCATGGATGCATC
1 GTGCATCGATGCATC
434308 CTACTGTGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.20, C:0.25, G:0.27, T:0.29
Consensus pattern (20 bp):
GTGCATCGATGCATCAGGCT
Found at i:434304 original size:41 final size:41
Alignment explanation
Indices: 434252--434334 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 41
434242 AATGCAATTA
* *
434252 GTGCATCGATGCATCCTTCTGTGCATCGATGCATC-AAGGCT
1 GTGCATCGATGCATCCTACTGTGCATCCATGCA-CGAAGGCT
*
434293 GTGCATGGATGCATCCTACTGTGCATCCATGCACGAAGGCT
1 GTGCATCGATGCATCCTACTGTGCATCCATGCACGAAGGCT
434334 G
1 G
434335 CAACGGCTAG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 1 0.03
41 37 0.97
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (41 bp):
GTGCATCGATGCATCCTACTGTGCATCCATGCACGAAGGCT
Found at i:434468 original size:20 final size:22
Alignment explanation
Indices: 434430--434469 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
434420 TTTGAGTAGA
434430 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
434452 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
434470 ATATACAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:437610 original size:29 final size:31
Alignment explanation
Indices: 437551--437610 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
437541 CAATTTAAGG
* *
437551 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGCTTTTGGACTTGAATTAAATTTA
437582 CAAAAT-GCTTTTGGACTT-AATTAAATTTA
1 CAAAATGGCTTTTGGACTTGAATTAAATTTA
437611 TTCAAAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 10 0.37
30 11 0.41
31 6 0.22
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (31 bp):
CAAAATGGCTTTTGGACTTGAATTAAATTTA
Found at i:437813 original size:20 final size:20
Alignment explanation
Indices: 437788--437862 Score: 71
Period size: 20 Copynumber: 3.7 Consensus size: 20
437778 AGTACAATTA
437788 GTGCATCGATGCATCCTTCT
1 GTGCATCGATGCATCCTTCT
**
437808 GTGCATCGATGCATCAAGGT-T
1 GTGCATCGATGCATC--CTTCT
* *
437829 GTGCATTGATGCATCCTGCT
1 GTGCATCGATGCATCCTTCT
* *
437849 GAGCATCCATGCAT
1 GTGCATCGATGCAT
437863 AAACACTGCA
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
20 27 0.63
21 15 0.35
22 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.24, T:0.31
Consensus pattern (20 bp):
GTGCATCGATGCATCCTTCT
Found at i:444279 original size:33 final size:33
Alignment explanation
Indices: 444239--444318 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
444229 ATGTTACATT
444239 CATTTACAATCATTAGTAAAAAATGTCACACTA
1 CATTTACAATCATTAGTAAAAAATGTCACACTA
* *
444272 CATTTACAATCATTAGTCAAAGATGTCACACTA
1 CATTTACAATCATTAGTAAAAAATGTCACACTA
444305 CATTTACAATCATT
1 CATTTACAATCATT
444319 CTACAGTAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.33
Consensus pattern (33 bp):
CATTTACAATCATTAGTAAAAAATGTCACACTA
Found at i:452986 original size:46 final size:46
Alignment explanation
Indices: 452927--453263 Score: 431
Period size: 46 Copynumber: 7.3 Consensus size: 46
452917 TTAATATATT
* * *
452927 GTTATGTATTTTCATTTGTGGCATCCTTTCATGCCAATTATGCACC
1 GTTATGCATTTTCATTTATGGCATCCTTTCATGCCAATAATGCACC
* * ** * *
452973 ATTATGCAGTTTCATTTATGAAATCCTTTCATGCCAATTATGCACT
1 GTTATGCATTTTCATTTATGGCATCCTTTCATGCCAATAATGCACC
* **
453019 GTTATGCATTTTCATTAATGGCATCCTTTCATGCTGATAATGCACC
1 GTTATGCATTTTCATTTATGGCATCCTTTCATGCCAATAATGCACC
* * * * * *
453065 GTTATGTATTTTTATTTATGGCATCCTTTCATGTCGATAATTCATC
1 GTTATGCATTTTCATTTATGGCATCCTTTCATGCCAATAATGCACC
* *
453111 GTTATGCATTTTCATTTATGGCATCCTTTCATGACGATAATGCACC
1 GTTATGCATTTTCATTTATGGCATCCTTTCATGCCAATAATGCACC
* * *
453157 GTTATGCATATTCATTTATGGCATTCTTTCATGCCAATTATGCACC
1 GTTATGCATTTTCATTTATGGCATCCTTTCATGCCAATAATGCACC
* * * *
453203 GTTATACAATTTCATTTACGGCATCCTTTCATGCCTATAATGCACC
1 GTTATGCATTTTCATTTATGGCATCCTTTCATGCCAATAATGCACC
453249 GTTATGCATTTTCAT
1 GTTATGCATTTTCAT
453264 ATTTATTCAT
Statistics
Matches: 249, Mismatches: 42, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 249 1.00
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (46 bp):
GTTATGCATTTTCATTTATGGCATCCTTTCATGCCAATAATGCACC
Found at i:458907 original size:46 final size:46
Alignment explanation
Indices: 458827--459120 Score: 340
Period size: 46 Copynumber: 6.4 Consensus size: 46
458817 TAATATATCA
* * * * * * *
458827 TTATGTATTTTCATTTTTGGCATCTTTTCTTGCCAATTATGGACTG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCAATAATGCACCG
* * * *
458873 TTATGTATTTTCATTTATGACATCCTTTCATGCCAATTATGCATCG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCAATAATGCACCG
* * * * *
458919 TTATGCATTTTCATTTATGGCATTCTTTCATACCGATAATGCATCT
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCAATAATGCACCG
* *
458965 TTATGCATTTTCATTTATGGTATCCTTTCATGCCGATAATGCACCG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCAATAATGCACCG
* * * *
459011 TTATACATTTTCATTTATGGCATTCTTTAATGCCAATTATGCACCG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCAATAATGCACCG
* *
459057 TTATGCAATTTT-ATTTATGGCAT-CTTATCATGTCGATAATGCACCG
1 TTATGC-ATTTTCATTTATGGCATCCTT-TCATGCCAATAATGCACCG
459103 TTATGCATTTTCATTTAT
1 TTATGCATTTTCATTTAT
459121 TCATTTATTT
Statistics
Matches: 215, Mismatches: 30, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
45 8 0.04
46 202 0.94
47 5 0.02
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (46 bp):
TTATGCATTTTCATTTATGGCATCCTTTCATGCCAATAATGCACCG
Found at i:459075 original size:138 final size:138
Alignment explanation
Indices: 458827--459120 Score: 385
Period size: 138 Copynumber: 2.1 Consensus size: 138
458817 TAATATATCA
* * * * * * * **
458827 TTATGTATTTTCATTTTTGGCATCTTTTCTTGCCAATTATGGACTGTTATGTATTTTCATTTATG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCAATAATGCACCGTTATACATTTTCATTTATG
* *
458892 ACATCCTTTCATGCCAATTATGCATCGTTATGCATTTTCATTTATGGCATTCTT-TCATACCGAT
66 ACATCCTTTAATGCCAATTATGCACCGTTATGCATTTTCATTTATGGCA-TCTTATCATACCGAT
* *
458956 AATGCATCT
130 AATGCACCG
* *
458965 TTATGCATTTTCATTTATGGTATCCTTTCATGCCGATAATGCACCGTTATACATTTTCATTTATG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCAATAATGCACCGTTATACATTTTCATTTATG
* * **
459030 GCATTCTTTAATGCCAATTATGCACCGTTATGCAATTTT-ATTTATGGCATCTTATCATGTCGAT
66 ACATCCTTTAATGCCAATTATGCACCGTTATGC-ATTTTCATTTATGGCATCTTATCATACCGAT
459094 AATGCACCG
130 AATGCACCG
459103 TTATGCATTTTCATTTAT
1 TTATGCATTTTCATTTAT
459121 TCATTTATTT
Statistics
Matches: 135, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
137 4 0.03
138 126 0.93
139 5 0.04
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (138 bp):
TTATGCATTTTCATTTATGGCATCCTTTCATGCCAATAATGCACCGTTATACATTTTCATTTATG
ACATCCTTTAATGCCAATTATGCACCGTTATGCATTTTCATTTATGGCATCTTATCATACCGATA
ATGCACCG
Found at i:469892 original size:21 final size:21
Alignment explanation
Indices: 469866--469932 Score: 116
Period size: 21 Copynumber: 3.2 Consensus size: 21
469856 AGAAAAACAA
469866 AAAGGAAAAACAAAAGAACCT
1 AAAGGAAAAACAAAAGAACCT
*
469887 AAAGGATAAACAAAAGAACCT
1 AAAGGAAAAACAAAAGAACCT
*
469908 AATGGAAAAACAAAAGAACCT
1 AAAGGAAAAACAAAAGAACCT
469929 AAAG
1 AAAG
469933 CACTAAGAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.64, C:0.13, G:0.15, T:0.07
Consensus pattern (21 bp):
AAAGGAAAAACAAAAGAACCT
Found at i:470476 original size:29 final size:29
Alignment explanation
Indices: 470444--470499 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
470434 TGTTTGCTAT
470444 TTTTTTGAAATTTTGGTTTTTTTTTTGCC
1 TTTTTTGAAATTTTGGTTTTTTTTTTGCC
***
470473 TTTTTTGGTTTTTTGGTTTTTTTTTTG
1 TTTTTTGAAATTTTGGTTTTTTTTTTG
470500 AAAATACAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.05, C:0.04, G:0.16, T:0.75
Consensus pattern (29 bp):
TTTTTTGAAATTTTGGTTTTTTTTTTGCC
Found at i:478577 original size:24 final size:24
Alignment explanation
Indices: 478543--478601 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
478533 GTCCAGACCG
*
478543 GTCGAGTCGAGCCATGAGCCATGA
1 GTCGAGCCGAGCCATGAGCCATGA
* *
478567 GTCGAGCCGAGCTATGAGGCATGA
1 GTCGAGCCGAGCCATGAGCCATGA
*
478591 CTCGAGCCGAG
1 GTCGAGCCGAG
478602 ACTTAAGTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.24, C:0.25, G:0.36, T:0.15
Consensus pattern (24 bp):
GTCGAGCCGAGCCATGAGCCATGA
Found at i:485061 original size:12 final size:12
Alignment explanation
Indices: 485040--485069 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
485030 TAACCACATC
485040 TATAAA-AATAA
1 TATAAATAATAA
485051 TATAAATAATAA
1 TATAAATAATAA
485063 TATAAAT
1 TATAAAT
485070 CCAAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.33
12 12 0.67
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TATAAATAATAA
Found at i:485357 original size:55 final size:55
Alignment explanation
Indices: 485271--485750 Score: 629
Period size: 55 Copynumber: 8.7 Consensus size: 55
485261 AAACATTTCC
* * *
485271 CTCCCTATTCTTTCAGGGAGCATAGGACTCGAACAATCTTCGGCAAACGAGTCTG
1 CTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGCAAACGTGTCTG
* ** * * * * *
485326 CTGCCTATTCTTTCAAAGAGTATATGTCTCGAACAATCTTCAACAAACTTGTATG
1 CTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGCAAACGTGTCTG
* *
485381 CTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAACAAACGTGTATG
1 CTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGCAAACGTGTCTG
* * *
485436 CTCCCTATTCTTTCAAGGAGTATAGGACTCGAACAATCTTCAACAAATGTGTCTG
1 CTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGCAAACGTGTCTG
* * *
485491 CTCCCTATTCTTCCAGGGAGTATAGGACTCGAACAATCTTCAGCAAATGTGT-TCA
1 CTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGCAAACGTGTCT-G
* * * * *
485546 CTCCCTTTTCTTTCAGAGAATATATGACTCGAACAATCTTCAGTAAACGTGTCTG
1 CTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGCAAACGTGTCTG
* * *
485601 CTCCCTATTCTTTCAGAGAGTATAGTACTCGAACAATCTTCATCAAACGTGTCTG
1 CTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGCAAACGTGTCTG
* * * * *
485656 CTCCCTATTCTTTTAGAGATTATAGGACTCAAACAATCTTCAGCAAACGGGTCTG
1 CTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGCAAACGTGTCTG
* * *
485711 CTCCCTATTATTTCAGGGAGTATAGGACTCAAACCATCTT
1 CTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTT
485751 AATAAAATGA
Statistics
Matches: 374, Mismatches: 49, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
54 1 0.00
55 372 0.99
56 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.31
Consensus pattern (55 bp):
CTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGCAAACGTGTCTG
Found at i:487189 original size:20 final size:19
Alignment explanation
Indices: 487166--487273 Score: 62
Period size: 15 Copynumber: 6.2 Consensus size: 19
487156 TTCTCTCCTC
487166 TCTTTTTTTACATTTTTTCT
1 TCTTTTTTT-CATTTTTTCT
487186 TCTTTTTCTTC--TTTTT-T
1 TCTTTTT-TTCATTTTTTCT
*
487203 TC-TTTTTT--TTATTT-T
1 TCTTTTTTTCATTTTTTCT
*
487218 T-TTATTTTCATTTTTTC-
1 TCTTTTTTTCATTTTTTCT
*
487235 TC-ATTTTT-A-TTTTT-T
1 TCTTTTTTTCATTTTTTCT
*
487250 TCATTTTTTCATTTTTTTCT
1 TCTTTTTTTCA-TTTTTTCT
487270 TCTT
1 TCTT
487274 CTTTCCTTAT
Statistics
Matches: 68, Mismatches: 7, Indels: 26
0.67 0.07 0.26
Matches are distributed among these distances:
15 20 0.29
16 10 0.15
17 14 0.21
18 5 0.07
19 5 0.07
20 12 0.18
21 2 0.03
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (19 bp):
TCTTTTTTTCATTTTTTCT
Found at i:487209 original size:8 final size:8
Alignment explanation
Indices: 487179--487270 Score: 80
Period size: 8 Copynumber: 11.2 Consensus size: 8
487169 TTTTTTACAT
487179 TTTTTCTTC
1 TTTTT-TTC
487188 TTTTTCTTC
1 TTTTT-TTC
487197 TTTTTTTC
1 TTTTTTTC
487205 TTTTTTT-
1 TTTTTTTC
*
487212 TATTTTT-
1 TTTTTTTC
*
487219 TTATTTTC
1 TTTTTTTC
*
487227 ATTTTTTC
1 TTTTTTTC
* *
487235 TCATTTTTA
1 T-TTTTTTC
487244 TTTTTTTC
1 TTTTTTTC
*
487252 ATTTTTTC
1 TTTTTTTC
487260 ATTTTTTTC
1 -TTTTTTTC
487269 TT
1 TT
487271 CTTCTTTCCT
Statistics
Matches: 68, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
7 11 0.16
8 30 0.44
9 27 0.40
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTTTC
Found at i:487267 original size:17 final size:17
Alignment explanation
Indices: 487169--487268 Score: 86
Period size: 17 Copynumber: 5.9 Consensus size: 17
487159 TCTCCTCTCT
*
487169 TTTTTTACATTTTTTCTTCT
1 TTTTTT-CA-TTTTT-TTCA
*
487189 TTTTCTTC-TTTTTTTCT
1 TTTT-TTCATTTTTTTCA
*
487206 TTTTTTTATTTTTTT-A
1 TTTTTTCATTTTTTTCA
487222 --TTTTCATTTTTTCTCA
1 TTTTTTCATTTTTT-TCA
487238 -TTTTT-ATTTTTTTCA
1 TTTTTTCATTTTTTTCA
487253 TTTTTTCATTTTTTTC
1 TTTTTTCATTTTTTTC
487269 TTCTTCTTTC
Statistics
Matches: 70, Mismatches: 3, Indels: 17
0.78 0.03 0.19
Matches are distributed among these distances:
14 11 0.16
15 4 0.06
16 15 0.21
17 28 0.40
18 5 0.07
20 5 0.07
21 2 0.03
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTCATTTTTTTCA
Found at i:490306 original size:3 final size:3
Alignment explanation
Indices: 490288--490328 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
490278 AGGTTATAAA
490288 TAT TA- TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
490329 CAAATTACAT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:491291 original size:23 final size:23
Alignment explanation
Indices: 491252--491295 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
491242 TTCTTATTTA
*
491252 TAAATTTAATTTTACATTTAGCT
1 TAAATTTAATTTCACATTTAGCT
491275 TAAA-TTAATTATCACATTTAG
1 TAAATTTAATT-TCACATTTAG
491296 GTTTCTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.48
Consensus pattern (23 bp):
TAAATTTAATTTCACATTTAGCT
Found at i:497766 original size:37 final size:36
Alignment explanation
Indices: 497716--497834 Score: 166
Period size: 37 Copynumber: 3.2 Consensus size: 36
497706 TGAAGAAGTG
497716 AATCCATCTTAAGCCTTCATCGAAGAGTAGTGAAGCA
1 AATCCATCTTAAGCCTTCA-CGAAGAGTAGTGAAGCA
* * * *
497753 AATCCACCCTAAGCCTTCACCAAAGAGTAGTGAACCA
1 AATCCATCTTAAGCCTTCA-CGAAGAGTAGTGAAGCA
*
497790 AGTCCATCTTAAGCCTTCACGGAAGAGTAGTGAAGCA
1 AATCCATCTTAAGCCTTCAC-GAAGAGTAGTGAAGCA
497827 AATCCATC
1 AATCCATC
497835 AGTAAGTCTT
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
36 1 0.01
37 69 0.99
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (36 bp):
AATCCATCTTAAGCCTTCACGAAGAGTAGTGAAGCA
Found at i:497891 original size:13 final size:13
Alignment explanation
Indices: 497873--497897 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
497863 ATCATTCGGT
497873 CCATCAGTAAGTG
1 CCATCAGTAAGTG
497886 CCATCAGTAAGT
1 CCATCAGTAAGT
497898 CTTTCGTGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (13 bp):
CCATCAGTAAGTG
Found at i:497944 original size:42 final size:42
Alignment explanation
Indices: 497885--497969 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
497875 ATCAGTAAGT
*
497885 GCCATCAGTAAGTCTTTCGTGCATGATGATGAAATCCTTCGG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGG
** *
497927 GCCATCAGTAAGTCTTTCGAGTGTGATGATTAAATCCTTCGG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGG
497969 G
1 G
497970 TAATTTATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.32
Consensus pattern (42 bp):
GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGG
Done.