Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000800.1 Hibiscus syriacus cultivar Beakdansim tig00001555_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: 52359
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:4299 original size:20 final size:20
Alignment explanation
Indices: 4276--4332 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
4266 ACAAAGTGGG
4276 TAGTATTGATACTCTAGCTA
1 TAGTATTGATACTCTAGCTA
4296 TAGTATTGATACTCTAGCTA
1 TAGTATTGATACTCTAGCTA
* *
4316 TAGTATTAATACCCTAG
1 TAGTATTGATACTCTAG
4333 GGTCATATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (20 bp):
TAGTATTGATACTCTAGCTA
Found at i:5925 original size:3 final size:3
Alignment explanation
Indices: 5917--5957 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
5907 TTATTTTAAA
5917 ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT -TT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
5958 ATTAATAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 4 0.11
3 32 0.89
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:7342 original size:18 final size:19
Alignment explanation
Indices: 7321--7393 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 19
7311 ATATGTTCAA
7321 ATTATTAAATATTAT-TTT
1 ATTATTAAATATTATATTT
7339 ATTAATATAAATATATATATTT
1 ATT-AT-TAAATAT-TATATTT
*
7361 GATTA-AATAATATT-TATTT
1 -ATTATTA-AATATTATATTT
*
7380 ATTTTTAAATATTA
1 ATTATTAAATATTA
7394 AGAAATGGCA
Statistics
Matches: 44, Mismatches: 3, Indels: 15
0.71 0.05 0.24
Matches are distributed among these distances:
18 12 0.27
19 8 0.18
20 9 0.20
21 8 0.18
22 4 0.09
23 3 0.07
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (19 bp):
ATTATTAAATATTATATTT
Found at i:7378 original size:19 final size:19
Alignment explanation
Indices: 7324--7380 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
7314 TGTTCAAATT
*
7324 ATTAAATATTATTT-TATTA
1 ATTAAATAATATTTAT-TTA
* *
7343 ATATAAAT-ATATATATTTG
1 AT-TAAATAATATTTATTTA
7362 ATTAAATAATATTTATTTA
1 ATTAAATAATATTTATTTA
7381 TTTTTAAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
18 5 0.17
19 19 0.63
20 6 0.20
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
ATTAAATAATATTTATTTA
Found at i:7382 original size:23 final size:21
Alignment explanation
Indices: 7336--7390 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 21
7326 TAAATATTAT
*
7336 TTTATTAATATAAATATATATA
1 TTTATTAA-ATAAATATATTTA
*
7358 TTTGATTAAATAATATTTATTTA
1 TTT-ATTAAATAA-ATATATTTA
7381 TTT-TTAAATA
1 TTTATTAAATA
7391 TTAAGAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 7 0.24
22 7 0.24
23 15 0.52
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
TTTATTAAATAAATATATTTA
Found at i:7620 original size:146 final size:149
Alignment explanation
Indices: 7368--7768 Score: 426
Period size: 146 Copynumber: 2.7 Consensus size: 149
7358 TTTGATTAAA
* * * * ** * *
7368 TAATATTTATTTATTTTTAAATATTAAGAAATGGCAGTCTTAAAATAACTAGATACCCTATTCTG
1 TAATATTTATTTATTTTTTAATATTAAGAAAGGGGAGTCTTAAAATAAATAGATGTCATTTTCTG
* * * *
7433 GTA-TTTTAAAAATAATAAATATCATGTTTATAAAAAATATA-T-ATTTGTTTTAATTTTATATA
66 ATATTTTTAAATA-AATAAATATCATCTTTATAAAAAATATATTAATTTATTTT-ATTTT-T-T-
**
7495 AATTA-TTTTA-A-TCATATTT-T
126 AATTATTTTTAGAGAAATATTTAT
*
7515 TAATATTTATTTATTTTTTAACATTAAGAAA-GGGAGTCTTAAAATAAATAGATGTCATTTTCTG
1 TAATATTTATTTATTTTTTAATATTAAGAAAGGGGAGTCTTAAAATAAATAGATGTCATTTTCTG
* *
7579 ATATTTTTAAATAAATAAATATCATACTTT-TATAAATTATATTAATTTATTTTATTTTTTAATT
66 ATATTTTTAAATAAATAAATATCAT-CTTTATAAAAAATATATTAATTTATTTTATTTTTTAATT
7643 ATTTTTAGAGAAATATTTAT
130 ATTTTTAGAGAAATATTTAT
* * * * *
7663 TAATATTTATTTATTTTTTAATATTAAGAAAGGGGCTGTCTTAAAGTAATTAGAAGTTATTTTCT
1 TAATATTTATTTATTTTTTAATATTAAGAAAGGGG-AGTCTTAAAATAAATAGATGTCATTTTCT
* * * * *
7728 TATATTTCTAAGTAAATAAATATCTTATTTAT-AAAAATATA
65 GATATTTTTAAATAAATAAATATCATCTTTATAAAAAATATA
7769 AGAAATATAT
Statistics
Matches: 214, Mismatches: 29, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
144 5 0.02
145 6 0.03
146 52 0.24
147 52 0.24
148 39 0.18
149 13 0.06
150 47 0.22
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (149 bp):
TAATATTTATTTATTTTTTAATATTAAGAAAGGGGAGTCTTAAAATAAATAGATGTCATTTTCTG
ATATTTTTAAATAAATAAATATCATCTTTATAAAAAATATATTAATTTATTTTATTTTTTAATTA
TTTTTAGAGAAATATTTAT
Found at i:7817 original size:150 final size:148
Alignment explanation
Indices: 7515--7799 Score: 331
Period size: 150 Copynumber: 1.9 Consensus size: 148
7505 ATCATATTTT
*
7515 TAATATTTATTTATTTTTTAACATTAAGAAAGGGAGTCTTAAAATAAATAGATGTCATTTTCTGA
1 TAATATTTATTTATTTTTTAACATTAAGAAAGGGAGTCTTAAAATAAATAGAAGTCATTTTCTGA
* * ** * ***
7580 TATTTTTAAATAAATAAATATCATACTTTTATAAATTATATTAATTTATTTTATTTTTTAATTAT
66 TATTTCTAAATAAATAAATATCATACTTTTAAAAATTATAGAAATATATTTTATAAATTAATTAT
* *
7645 TTTTAGAGAAATATTTAT
131 TTTTAGAGAAATATATAC
* * * * *
7663 TAATATTTATTTATTTTTTAATATTAAGAAAGGGGCTGTCTTAAAGTAATTAGAAGTTATTTTCT
1 TAATATTTATTTATTTTTTAACATTAAGAAA-GGG-AGTCTTAAAATAAATAGAAGTCATTTTCT
* * *
7728 TATATTTCTAAGTAAATAAATATCTTA-TTTATAAAAA-TATAAGAAATATATTTTATAAAATTA
64 GATATTTCTAAATAAATAAATATCATACTTT-TAAAAATTAT-AGAAATATATTTTAT-AAATTA
7791 ATATATTTT
126 AT-TATTTT
7800 CTTGGAATTA
Statistics
Matches: 114, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
148 30 0.26
149 9 0.08
150 64 0.56
151 5 0.04
152 6 0.05
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.48
Consensus pattern (148 bp):
TAATATTTATTTATTTTTTAACATTAAGAAAGGGAGTCTTAAAATAAATAGAAGTCATTTTCTGA
TATTTCTAAATAAATAAATATCATACTTTTAAAAATTATAGAAATATATTTTATAAATTAATTAT
TTTTAGAGAAATATATAC
Found at i:10703 original size:20 final size:19
Alignment explanation
Indices: 10680--10745 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 19
10670 TTTTCATTAC
10680 ATTTGCATTTTTTATTTTGT
1 ATTTGCATTTTTTATTTT-T
*
10700 ATTTGCATTTTTATATTTTC
1 ATTTGCATTTTT-TATTTTT
* *
10720 ATTTACA-TTTTCATTTTAT
1 ATTTGCATTTTTTATTTT-T
10739 ATTTGCA
1 ATTTGCA
10746 CCTTTGCATT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
18 5 0.13
19 10 0.26
20 18 0.46
21 6 0.15
ACGTcount: A:0.21, C:0.09, G:0.06, T:0.64
Consensus pattern (19 bp):
ATTTGCATTTTTTATTTTT
Found at i:11758 original size:19 final size:18
Alignment explanation
Indices: 11734--11769 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
11724 AAGGAATTCG
*
11734 AGAATTTATTGATAAATGA
1 AGAATTAATTGA-AAATGA
11753 AGAATTAATTGAAAATG
1 AGAATTAATTGAAAATG
11770 TGATCAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (18 bp):
AGAATTAATTGAAAATGA
Found at i:13002 original size:72 final size:72
Alignment explanation
Indices: 12864--13003 Score: 199
Period size: 72 Copynumber: 1.9 Consensus size: 72
12854 AATAAAGCTT
* * * * **
12864 GAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCGGCTTTATGGATAATATTCAGCTAGTTTGT
1 GAGTTATCCCCCTAAAGAAATTAGTTAATAGCCACGGCTTTATGGATAATATTCAACTAGCATGT
12929 TATGCTC
66 TATGCTC
* * *
12936 GAGTTGTCCCTCTAAAGAAATTAGTTAATCGCCACGGCTTTATGGATAATATTCAACTAGCATGT
1 GAGTTATCCCCCTAAAGAAATTAGTTAATAGCCACGGCTTTATGGATAATATTCAACTAGCATGT
13001 TAT
66 TAT
13004 ACTATTATAT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 59 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (72 bp):
GAGTTATCCCCCTAAAGAAATTAGTTAATAGCCACGGCTTTATGGATAATATTCAACTAGCATGT
TATGCTC
Found at i:15905 original size:20 final size:20
Alignment explanation
Indices: 15880--15954 Score: 123
Period size: 20 Copynumber: 3.6 Consensus size: 20
15870 ACATCTACAT
*
15880 TCTTCAAAGATGATAGATTA
1 TCTTCAAAGATGATAGATTC
15900 TCTTCAAAGATGATAGATTC
1 TCTTCAAAGATGATAGATTC
15920 TCTTCAAAGATGATAGATTC
1 TCTTCAAAGATGATAGATTC
15940 TCTTTTCAAAGATGA
1 TC--TTCAAAGATGA
15955 AAGTTTTATT
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
20 41 0.79
22 11 0.21
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (20 bp):
TCTTCAAAGATGATAGATTC
Found at i:16704 original size:76 final size:76
Alignment explanation
Indices: 16576--16939 Score: 557
Period size: 76 Copynumber: 4.8 Consensus size: 76
16566 CTTCAGTGCA
** *
16576 TGATGTTTTCAAAGCCTTCGGGTCATCCATAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTT
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
*
16641 CGGGAGTTTTT
66 CGGGAGCTTTT
* * * * * *
16652 TTATGTTTTCAAAACCTTCGGGTCATCCGTAAGACTTACAGTGCATGATGTTTTCAAAATGCCTT
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
*
16717 CAGGAGCTTTT
66 CGGGAGCTTTT
* *
16728 TGATGTTTTCAAACCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGCTTTCAAAAAGCCTT
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
*
16793 TGGGAGCTTTT
66 CGGGAGCTTTT
* *
16804 TGATGTTTTCAAAGCCTTCGGGTCATCTATAAGACCTACAGTGAAGGATGTTTTCAAAAAGCCTT
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
*
16869 CGAGAGCTTTTT
66 CGGGAGC-TTTT
*
16881 TGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAA
16940 CCTTTGGGTC
Statistics
Matches: 262, Mismatches: 25, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
76 202 0.77
77 60 0.23
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (76 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
CGGGAGCTTTT
Found at i:16949 original size:45 final size:45
Alignment explanation
Indices: 16882--16984 Score: 134
Period size: 45 Copynumber: 2.3 Consensus size: 45
16872 GAGCTTTTTT
* * ** *
16882 GATGTTTTTAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAG
1 GATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTACAG
* *
16927 GATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTACAGTACAT
1 GATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTACAG
*
16972 GATGCTTTCAAAA
1 GATGTTTTCAAAA
16985 AGCCTTCAGG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.31
Consensus pattern (45 bp):
GATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTACAG
Found at i:16961 original size:198 final size:197
Alignment explanation
Indices: 16729--17136 Score: 654
Period size: 198 Copynumber: 2.1 Consensus size: 197
16719 GGAGCTTTTT
* ** * *
16729 GATGTTTTCAAACCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGCTTTCAAAAAGCCTTT
1 GATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTACAGGATGCTTTCAAAAAGCCTTC
* * * *
16794 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGACCTACAGTGAAGGATGTTTTC
66 AGGAGCTTTTTGATATTTTCAAACCCTTCGGGTCATCTATAAGACCTACAGTGAAGGATGCTTTC
* *
16859 AAAAAGCCTTCGAGAGCTTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGACCTACAGTG
131 AAAAAGCCTTCGAGAGC-TTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGACCTACAGTG
16924 CAG
195 CAG
* *
16927 GATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTACAGTACATGATGCTTTCAAAAAGCCTTC
1 GATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTACAGGATGCTTTCAAAAAGCCTTC
* *
16992 AGGAGCTTTTTGATATTTTCAAACCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGCTTTC
66 AGGAGCTTTTTGATATTTTCAAACCCTTCGGGTCATCTATAAGACCTACAGTGAAGGATGCTTTC
* *
17057 AAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGACCTACAGTGC
131 AAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGACCTACAGTGC
17122 AG
196 AG
17124 GATGTTTTCAAAA
1 GATGTTTTCAAAA
17137 AGCCTTCGAG
Statistics
Matches: 193, Mismatches: 17, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
197 61 0.32
198 132 0.68
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (197 bp):
GATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTACAGGATGCTTTCAAAAAGCCTTC
AGGAGCTTTTTGATATTTTCAAACCCTTCGGGTCATCTATAAGACCTACAGTGAAGGATGCTTTC
AAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGACCTACAGTGC
AG
Found at i:17060 original size:121 final size:122
Alignment explanation
Indices: 16805--17070 Score: 394
Period size: 122 Copynumber: 2.2 Consensus size: 122
16795 GGAGCTTTTT
* * * *
16805 GATGTTTTCAAAGCCTTCGGGTCATCTATAAGACCTACAGTGAAGGATGTTTTCAAAAAGCCTTC
1 GATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTACAGTGAAGGATGCTTTCAAAAAGCCTTC
* * *
16870 GAGAGCTTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAG
66 GAGAGCTTTTTTGATATTTTCAAACCCTTCGGGTCATCTGTAAGACCTACAGTGCAG
*
16927 GATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTACAGT-ACATGATGCTTTCAAAAAGCCTT
1 GATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTACAGTGA-AGGATGCTTTCAAAAAGCCTT
16991 C-AGGAGC-TTTTTGATATTTTCAAACCCTTCGGGTCATCTGTAAGACCTACAGTGCAG
65 CGA-GAGCTTTTTTGATATTTTCAAACCCTTCGGGTCATCTGTAAGACCTACAGTGCAG
*
17048 GATGCTTTCAAAAAGCCTTTGGG
1 GATGTTTTC-AAAA-CCTTTGGG
17071 AGCTTTTTGA
Statistics
Matches: 131, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
121 57 0.44
122 66 0.50
123 8 0.06
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (122 bp):
GATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTACAGTGAAGGATGCTTTCAAAAAGCCTTC
GAGAGCTTTTTTGATATTTTCAAACCCTTCGGGTCATCTGTAAGACCTACAGTGCAG
Found at i:17143 original size:274 final size:274
Alignment explanation
Indices: 16654--17592 Score: 1569
Period size: 274 Copynumber: 3.4 Consensus size: 274
16644 GAGTTTTTTT
* * * * *
16654 ATGTTTTCAAAACCTTCGGGTCATCCGTAAGACTTACAGTGCATGATGTTTTCAAAATGCCTTCA
1 ATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTACAGTACATGATGTTTTCAAAAAGCCTTCA
*
16719 GGAGCTTTTTGATGTTTTCAAACCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGCTTTCA
66 GGAGCTTTTTGATATTTTCAAACCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGCTTTCA
*
16784 AAAAGCCTTTGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGACCTACAGTGAA
131 AAAAGCCTTTGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGACCTACAGTGCA
16849 GGATGTTTTCAAAAAGCCTTCGAGAGCTTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAG
196 GGATGTTTTCAAAAAGCCTTCGAGAGCTTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAG
16914 ACCTACAGTGCAGG
261 ACCTACAGTGCAGG
*
16928 ATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTACAGTACATGATGCTTTCAAAAAGCCTTCA
1 ATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTACAGTACATGATGTTTTCAAAAAGCCTTCA
16993 GGAGCTTTTTGATATTTTCAAACCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGCTTTCA
66 GGAGCTTTTTGATATTTTCAAACCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGCTTTCA
17058 AAAAGCCTTTGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGACCTACAGTGCA
131 AAAAGCCTTTGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGACCTACAGTGCA
*
17123 GGATGTTTTCAAAAAGCCTTCGAGAGCTTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAG
196 GGATGTTTTCAAAAAGCCTTCGAGAGCTTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAG
17188 ACCTACAGTGCAGG
261 ACCTACAGTGCAGG
* *
17202 ATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTACAATACATGATGTTTTCAAAAAGCCTTCG
1 ATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTACAGTACATGATGTTTTCAAAAAGCCTTCA
* ** *
17267 GGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCA
66 GGAGCTTTTTGATATTTTCAAACCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGCTTTCA
* * * *
17332 AAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
131 AAAAGCCTTTGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGACCTACAGTGCA
* * * **
17397 GGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTTTAT-TTTTTCGAAGCCTTCGGGTCATCCATAA
196 GGATGTTTTCAAAAAGCCTTCGAGAGCTTTTTTGATGTTTTT-AAAGCCTTCGGGTCATCTGTAA
17461 GACCTACAGTGCAGG
260 GACCTACAGTGCAGG
* * * * *
17476 ATGTTTTCAAAACCTTTGGGTCATCCATAAGACTTTCAGTGCAGGATGTTTTCAAAAAGCCTTCG
1 ATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTACAGTACATGATGTTTTCAAAAAGCCTTCA
* *
17541 GGAGCTTTTTGATA-TTT-AAATCCTCCGGGTCATCTGTAAGACCTACAGTGCA
66 GGAGCTTTTTGATATTTTCAAACCCTTCGGGTCATCTGTAAGACCTACAGTGCA
17593 AGATAATAAG
Statistics
Matches: 629, Mismatches: 35, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
272 31 0.05
273 7 0.01
274 591 0.94
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (274 bp):
ATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTACAGTACATGATGTTTTCAAAAAGCCTTCA
GGAGCTTTTTGATATTTTCAAACCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGCTTTCA
AAAAGCCTTTGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGACCTACAGTGCA
GGATGTTTTCAAAAAGCCTTCGAGAGCTTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAG
ACCTACAGTGCAGG
Found at i:17195 original size:77 final size:76
Alignment explanation
Indices: 16927--17213 Score: 432
Period size: 76 Copynumber: 3.8 Consensus size: 76
16917 TACAGTGCAG
* * * * *
16927 GATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTACAGTACATGATGCTTTCAAAAAGCCTTC
1 GATGTTTTCAAAGCCTTCGGGTCATCTATAAGACCTACAGTGCAGGATGCTTTCAAAAAGCCTTC
16992 -AGGAGCTTTTT
66 GA-GAGCTTTTT
* * * *
17003 GATATTTTCAAACCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGCTTTCAAAAAGCCTTT
1 GATGTTTTCAAAGCCTTCGGGTCATCTATAAGACCTACAGTGCAGGATGCTTTCAAAAAGCCTTC
*
17068 GGGAGCTTTTT
66 GAGAGCTTTTT
*
17079 GATGTTTTCAAAGCCTTCGGGTCATCTATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTC
1 GATGTTTTCAAAGCCTTCGGGTCATCTATAAGACCTACAGTGCAGGATGCTTTCAAAAAGCCTTC
17144 GAGAGCTTTTTT
66 GAGAGC-TTTTT
* *
17156 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAA
1 GATGTTTTCAAAGCCTTCGGGTCATCTATAAGACCTACAGTGCAGGATGCTTTCAAAA
17214 CCTTTGGGTC
Statistics
Matches: 193, Mismatches: 16, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
76 131 0.68
77 62 0.32
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (76 bp):
GATGTTTTCAAAGCCTTCGGGTCATCTATAAGACCTACAGTGCAGGATGCTTTCAAAAAGCCTTC
GAGAGCTTTTT
Found at i:17211 original size:198 final size:197
Alignment explanation
Indices: 17007--17420 Score: 648
Period size: 198 Copynumber: 2.1 Consensus size: 197
16997 CTTTTTGATA
* ** * * *
17007 TTTTCAAACCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGCTTTCAAAAAGCCTTTGGGA
1 TTTTCAAAACCTTCGGGTCATCCATAAGACCTACAATACAGGATGCTTTCAAAAAGCCTTCGGGA
* * *
17072 GCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGACCTACAGTGCAGGATGTTTTCAAAA
66 GCTTTTTGATATTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAA
* * **
17137 AGCCTTCGAGAGCTTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGG
131 AGCCTTCGAGAGC-TTTTTGATATTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGG
17202 ATG
195 ATG
* * *
17205 TTTTCAAAACCTTTGGGTCATCCATAAGACCTACAATACATGATGTTTTCAAAAAGCCTTCGGGA
1 TTTTCAAAACCTTCGGGTCATCCATAAGACCTACAATACAGGATGCTTTCAAAAAGCCTTCGGGA
17270 GCTTTTTGATATTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAA
66 GCTTTTTGATATTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAA
*
17335 AGCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGA
131 AGCCTTCGAGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGA
17400 TG
196 TG
17402 TTTTCAAAAAGCCTTCGGG
1 TTTTC-AAAA-CCTTCGGG
17421 AGCTTTTTTT
Statistics
Matches: 196, Mismatches: 18, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
197 55 0.28
198 134 0.68
199 7 0.04
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (197 bp):
TTTTCAAAACCTTCGGGTCATCCATAAGACCTACAATACAGGATGCTTTCAAAAAGCCTTCGGGA
GCTTTTTGATATTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAA
AGCCTTCGAGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGA
TG
Found at i:17223 original size:45 final size:45
Alignment explanation
Indices: 17156--17268 Score: 145
Period size: 45 Copynumber: 2.5 Consensus size: 45
17146 GAGCTTTTTT
* ** * *
17156 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAG
1 GATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAATACAG
* *
17201 GATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTACAATACAT
1 GATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAATACAG
17246 GATGTTTTCAAAAAGCCTTCGGG
1 GATGTTTTC-AAAA-CCTTCGGG
17269 AGCTTTTTGA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 47 0.81
46 4 0.07
47 7 0.12
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (45 bp):
GATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAATACAG
Found at i:17287 original size:350 final size:350
Alignment explanation
Indices: 16569--17487 Score: 1224
Period size: 350 Copynumber: 2.6 Consensus size: 350
16559 GTAAGCCCTT
*
16569 CAGTGCATGATGTTTTCAAAGCCTTCGGGTCATCCATAAGACCTACAGTGCATGATGTTTTCAAA
1 CAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCATGATGTTTTCAAA
* * * * *
16634 AAGCCTTCGGGAGTTTTTTTATGTTTTCAAAACCTTCGGGTCATCCGTAAGACTTACAGTGCATG
66 AAGCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCCGTAAGACCTACAGTGCAGG
* * * *
16699 ATGTTTTCAAAATGCCTTCAGGAGCTTTTTGATGTTTTCAAACCCTTCGGGTCATCTGTAAGACC
131 ATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGACC
* * *
16764 TACAGTGCAGGATGCTTTCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCA
196 TACAGTGCAGGATGTTTTCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCA
* *** * ***
16829 TCTATAAGACCTACAGTGAAGGATGTTTTCAAAAAGCCTTCGAGAGCTTTTTTGATGTTTTTAAA
261 TCTATAAGACCTACAGTGAAGGATGTTTTCAAAAAGCCTTCGAGAGCATCCATGAAGTACCTAAA
* * ***
16894 GCCTTCGGGTCATCTGTAAGACCTA
326 GACATCGGGTCATCAAAAAGACCTA
* * * *
16919 CAGTGCAGGATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTACAGTACATGATGCTTTCAAA
1 CAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCATGATGTTTTCAAA
* * *
16984 AAGCCTTCAGGAGCTTTTTGATATTTTCAAACCCTTCGGGTCATCTGTAAGACCTACAGTGCAGG
66 AAGCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCCGTAAGACCTACAGTGCAGG
* *
17049 ATGCTTTCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGACC
131 ATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGACC
17114 TACAGTGCAGGATGTTTTCAAAAAGCCTTCGAGAGCTTTTTTGATGTTTTCAAAGCCTTCGGGTC
196 TACAGTGCAGGATGTTTTCAAAAAGCCTTCGAGAGC-TTTTTGATGTTTTCAAAGCCTTCGGGTC
* * *
17179 ATCTGTAAGACCTACAGTGCAGGATGTTTTC-AAAA-CCTTTG-G-GTCATCCAT-AAG-ACCTA
260 ATCTATAAGACCTACAGTGAAGGATGTTTTCAAAAAGCCTTCGAGAG-CATCCATGAAGTACCTA
* * ** *
17238 CAATACAT-GATGTTTTCAAAAAG-CCTT
324 -AAGACATCG-GGTCATCAAAAAGACCTA
*** * *
17265 CGGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTT
1 C---AG-TGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCATGATGTTTT
*
17330 CAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTG
62 CAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCCGTAAGACCTACAGTG
* * * *
17395 CAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTTTATTTTTTCGAAGCCTTCGGGTCATCCATA
127 CAGGATGTTTTCAAAAAGCCTTCGGGAGC-TTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATA
17460 AGACCTACAGTGCAGGATGTTTTCAAAA
191 AGACCTACAGTGCAGGATGTTTTCAAAA
17488 CCTTTGGGTC
Statistics
Matches: 498, Mismatches: 62, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
346 7 0.01
347 14 0.03
348 4 0.01
349 7 0.01
350 350 0.70
351 116 0.23
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (350 bp):
CAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCATGATGTTTTCAAA
AAGCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCCGTAAGACCTACAGTGCAGG
ATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGACC
TACAGTGCAGGATGTTTTCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCA
TCTATAAGACCTACAGTGAAGGATGTTTTCAAAAAGCCTTCGAGAGCATCCATGAAGTACCTAAA
GACATCGGGTCATCAAAAAGACCTA
Found at i:17334 original size:121 final size:122
Alignment explanation
Indices: 17079--17344 Score: 408
Period size: 122 Copynumber: 2.2 Consensus size: 122
17069 GGAGCTTTTT
* * * *
17079 GATGTTTTCAAAGCCTTCGGGTCATCTATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTC
1 GATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAATACAGGATGTTTTCAAAAAGCCTTC
* * **
17144 GAGAGCTTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAG
66 GAGAGCTTTTTTGATATTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAG
* *
17201 GATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTACAATACATGATGTTTTCAAAAAGCCTTC
1 GATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAATACAGGATGTTTTCAAAAAGCCTTC
*
17266 GGGAGC-TTTTTGATATTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAG
66 GAGAGCTTTTTTGATATTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAG
17322 GATGTTTTCAAAAAGCCTTCGGG
1 GATGTTTTC-AAAA-CCTTCGGG
17345 AGCTTTTTGA
Statistics
Matches: 130, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
121 55 0.42
122 68 0.52
123 7 0.05
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (122 bp):
GATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAATACAGGATGTTTTCAAAAAGCCTTC
GAGAGCTTTTTTGATATTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAG
Found at i:17475 original size:77 final size:76
Alignment explanation
Indices: 17205--17487 Score: 485
Period size: 76 Copynumber: 3.7 Consensus size: 76
17195 GTGCAGGATG
* * * *
17205 TTTTCAAAACCTTTGGGTCATCCATAAGACCTACAATACATGATGTTTTCAAAAAGCCTTCGGGA
1 TTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGA
17270 GCTTTTTGATA
66 GCTTTTTGATA
17281 TTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGA
1 TTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGA
17346 GCTTTTTGATA
66 GCTTTTTGATA
17357 TTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGA
1 TTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGA
* *
17422 GCTTTTTTTATT
66 GC-TTTTTGATA
* *
17434 TTTTCGAAGCCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAA
1 TTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAA
17488 CCTTTGGGTC
Statistics
Matches: 198, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
76 139 0.70
77 59 0.30
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (76 bp):
TTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGA
GCTTTTTGATA
Found at i:17485 original size:198 final size:195
Alignment explanation
Indices: 17079--17592 Score: 570
Period size: 198 Copynumber: 2.6 Consensus size: 195
17069 GGAGCTTTTT
* *
17079 GATGTTTTCAAAGCCTTCGGGTCATCTATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTC
1 GATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTC
* * *
17144 GAGAGCTTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTT
66 GGGAGC-TTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTT
* * * * ** * *
17209 CAAAACCTTTGGGTCATCCATAAGACCTACAATACATGATGTTTTCAAAAAGCCTTCGGGAGCTT
130 CAAAACCTTCGGGGCATCCATAAGACCTACAAGACATGAGGTCATCAAAAAGCCTAC--GAGCTG
***
17274 TTT
193 CAG
*
17277 GATATTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTC
1 GATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTC
**
17342 GGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTC
66 GGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTC
* *** * **** * * * * *
17407 AAAAAGCCTTCGGGAGCTTTTTTTATTTTTTCGAAGCCTTCG-GGTCATCCATAAGACCTAC-AG
131 -AAAA-CCTTCGGG-GCATCCATAAGACCTAC-AAGACAT-GAGGTCATCAAAAAG-CCTACGAG
17470 -TGCAG
190 CTGCAG
* * *
17475 GATGTTTTCAAAACCTTTGGGTCATCCATAAGACTTTCAGTGCAGGATGTTTTCAAAAAGCCTTC
1 GATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTC
* *
17540 GGGAGCTTTTTGATA-TTT-AAATCCTCCGGGTCATCTGTAAGACCTACAGTGCA
66 GGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
17593 AGATAATAAG
Statistics
Matches: 269, Mismatches: 41, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
196 31 0.12
197 58 0.22
198 148 0.55
199 9 0.03
200 6 0.02
201 12 0.04
202 5 0.02
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (195 bp):
GATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTC
GGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTC
AAAACCTTCGGGGCATCCATAAGACCTACAAGACATGAGGTCATCAAAAAGCCTACGAGCTGCAG
Found at i:17499 original size:45 final size:45
Alignment explanation
Indices: 17434--17542 Score: 155
Period size: 45 Copynumber: 2.4 Consensus size: 45
17424 TTTTTTTATT
* *
17434 TTTTCGAAGCCTTCGGGTCATCCATAAGACCTACAGTGCAGGATG
1 TTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATG
* * *
17479 TTTTCAAAACCTTTGGGTCATCCATAAGACTTTCAGTGCAGGATG
1 TTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATG
17524 TTTTCAAAAAGCCTTCGGG
1 TTTTC-AAAA-CCTTCGGG
17543 AGCTTTTTGA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 45 0.80
46 4 0.07
47 7 0.12
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (45 bp):
TTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATG
Found at i:17787 original size:3 final size:3
Alignment explanation
Indices: 17779--17813 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
17769 TATTTTTAAA
17779 ATT ATT ATT ATT ATT ATT A-T ATT A-T ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
17814 ATAAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.13
3 26 0.87
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:19212 original size:22 final size:20
Alignment explanation
Indices: 19168--19212 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 20
19158 TTCAAATTAT
19168 TAAATATTATTTTATTCATA
1 TAAATATTATTTTATTCATA
19188 TAAATATATATATTTGATTCA-A
1 TAAATAT-TAT-TTT-ATTCATA
19210 TAA
1 TAA
19213 TAATATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.32
21 3 0.14
22 7 0.32
23 5 0.23
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (20 bp):
TAAATATTATTTTATTCATA
Found at i:19218 original size:22 final size:21
Alignment explanation
Indices: 19169--19224 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 21
19159 TCAAATTATT
*
19169 AAATATTATTTTATTCATATA
1 AAATATTATTTGATTCATATA
19190 AATATATATATTTGATTCA-ATA
1 AA-ATAT-TATTTGATTCATATA
19212 ATAATATTTATTT
1 A-AATA-TTATTT
19225 ATTTTTAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 2 0.07
22 16 0.53
23 12 0.40
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (21 bp):
AAATATTATTTGATTCATATA
Found at i:19329 original size:22 final size:21
Alignment explanation
Indices: 19279--19330 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
19269 CATATTCTTG
19279 TATTTTAAAAATAATAAATAT
1 TATTTTAAAAATAATAAATAT
* *
19300 CATGTTTATAAAA-AATATATATT
1 TAT-TTTA-AAAATAATAAATA-T
19323 TATTTTAA
1 TATTTTAA
19331 TTTTATGTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
21 3 0.12
22 15 0.60
23 7 0.28
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (21 bp):
TATTTTAAAAATAATAAATAT
Found at i:19430 original size:147 final size:148
Alignment explanation
Indices: 19213--19621 Score: 415
Period size: 147 Copynumber: 2.7 Consensus size: 148
19203 GATTCAATAA
* * * *
19213 TAATATTTATTTATTTTTAAATATTAAGAAAGAGCAGTCCTAAAATAACTAGATGTCATATTCTT
1 TAATATTTATTTATTTTTTAATATTAAGAAAGGGCAGTCTTAAAATAACTAGATGTCAT-TTTTT
19278 G-TATTTTAAAAATAATAAATATCATGTTTATAAAAAATATATATTTATTTTA-ATTTT-ATGTT
65 GATATTTTAAAAATAATAAATATCAT-TTTATAAAAAATATATATTTATTTTATATTTTAAT-TT
*
19340 AATTATTTT-A-ATCAT-ATTT-T
128 -ATT-TTTTGAGA-AATGATTTAT
* *
19360 TAATATTTATTTATTTTTTAATATTAAGAAAGGGCAGTCTTAAAATAACTAGATTTCCTTTTTTG
1 TAATATTTATTTATTTTTTAATATTAAGAAAGGGCAGTCTTAAAATAACTAGATGTCATTTTTTG
** *
19425 ATATTTT-AAAATAAATAAATATCCTACTTTTATAAATTATATATTAATTTATTTTATTTTTTAA
66 ATATTTTAAAAAT-AATAAATAT-C-A-TTTTATAAAAAATATA-T-ATTTATTTTATATTTTAA
*
19489 TTTATTTTTTGAGAAATGTTTTAT
125 TTTATTTTTTGAGAAATGATTTAT
* ** ** * *
19513 TAATATTTATTTATTTTTTTAATATTAAAAAATGGGTTGTCTTAAAGCAACTAGAAGTCATTTTC
1 TAATATTTATTTA-TTTTTTAATATTAAGAAA-GGGCAGTCTTAAAATAACTAGATGTCATTTTT
** *
19578 TGATATTTCTAAGTA-AATAAATATCTTATTTATAAAAAA-ATATA
64 TGATATTT-TAAAAATAATAAATATCAT-TTTATAAAAAATATATA
19622 AAAAAAATAT
Statistics
Matches: 219, Mismatches: 25, Indels: 33
0.79 0.09 0.12
Matches are distributed among these distances:
146 10 0.05
147 69 0.32
148 1 0.00
149 14 0.06
150 7 0.03
151 17 0.08
152 14 0.06
153 25 0.11
154 18 0.08
155 41 0.19
156 1 0.00
157 2 0.01
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.48
Consensus pattern (148 bp):
TAATATTTATTTATTTTTTAATATTAAGAAAGGGCAGTCTTAAAATAACTAGATGTCATTTTTTG
ATATTTTAAAAATAATAAATATCATTTTATAAAAAATATATATTTATTTTATATTTTAATTTATT
TTTTGAGAAATGATTTAT
Found at i:19640 original size:17 final size:18
Alignment explanation
Indices: 19618--19653 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
19608 TATAAAAAAA
19618 TATAAAAA-AAATATATT
1 TATAAAAATAAATATATT
*
19635 TATAAAAATTAATATATT
1 TATAAAAATAAATATATT
19653 T
1 T
19654 TCTTGGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TATAAAAATAAATATATT
Found at i:20593 original size:20 final size:20
Alignment explanation
Indices: 20568--20615 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
20558 GCGATCTCTA
20568 GTTGCGATTTTCCATTTCGC
1 GTTGCGATTTTCCATTTCGC
*
20588 GTTGCGATTTTCCGTTTCGC
1 GTTGCGATTTTCCATTTCGC
20608 GTTGCGAT
1 GTTGCGAT
20616 AGTCTACAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (20 bp):
GTTGCGATTTTCCATTTCGC
Found at i:20635 original size:22 final size:21
Alignment explanation
Indices: 20607--20678 Score: 76
Period size: 22 Copynumber: 3.4 Consensus size: 21
20597 TTCCGTTTCG
20607 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATA-TCTACAGTTGT
* * **
20629 CGTTGCGAT-TTTCCAAAT-T
1 CGTTGCGATATCTACAGTTGT
20648 CGTTGCGATAATCTACAGTTGT
1 CGTTGCGAT-ATCTACAGTTGT
20670 CGTTGCGAT
1 CGTTGCGAT
20679 TTTCCAAATT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 10 0.26
20 5 0.13
21 5 0.13
22 19 0.49
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (21 bp):
CGTTGCGATATCTACAGTTGT
Found at i:20652 original size:19 final size:19
Alignment explanation
Indices: 20628--20692 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
20618 TCTACAGTTG
20628 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
* * **
20647 TCGTTGCGATAATCTACAGTT
1 TCGTTGCGAT--TTTCCAAAT
20668 GTCGTTGCGATTTTCCAAAT
1 -TCGTTGCGATTTTCCAAAT
20688 TCGTT
1 TCGTT
20693 AGTTAAAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
19 15 0.43
20 5 0.14
21 5 0.14
22 10 0.29
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.42
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:20663 original size:41 final size:41
Alignment explanation
Indices: 20607--20692 Score: 163
Period size: 41 Copynumber: 2.1 Consensus size: 41
20597 TTCCGTTTCG
*
20607 CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
1 CGTTGCGATAATCTACAGTTGTCGTTGCGATTTTCCAAATT
20648 CGTTGCGATAATCTACAGTTGTCGTTGCGATTTTCCAAATT
1 CGTTGCGATAATCTACAGTTGTCGTTGCGATTTTCCAAATT
20689 CGTT
1 CGTT
20693 AGTTAAAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.40
Consensus pattern (41 bp):
CGTTGCGATAATCTACAGTTGTCGTTGCGATTTTCCAAATT
Found at i:20782 original size:6 final size:6
Alignment explanation
Indices: 20771--20857 Score: 174
Period size: 6 Copynumber: 14.5 Consensus size: 6
20761 GACACGTATT
20771 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
20819 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
20858 CGAGACGAGA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 81 1.00
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:20868 original size:5 final size:5
Alignment explanation
Indices: 20858--20904 Score: 87
Period size: 5 Copynumber: 9.6 Consensus size: 5
20848 GACCACGACC
20858 CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CG-GA CGA
1 CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CGA
20905 CGGCGGCGGC
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.10
5 37 0.90
ACGTcount: A:0.38, C:0.21, G:0.40, T:0.00
Consensus pattern (5 bp):
CGAGA
Found at i:21386 original size:6 final size:6
Alignment explanation
Indices: 21377--21437 Score: 122
Period size: 6 Copynumber: 10.2 Consensus size: 6
21367 GCCGTCCGTC
21377 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
21425 TCGTGG TCGTGG T
1 TCGTGG TCGTGG T
21438 AATACGTGTC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.00, C:0.16, G:0.49, T:0.34
Consensus pattern (6 bp):
TCGTGG
Found at i:21582 original size:19 final size:19
Alignment explanation
Indices: 21521--21585 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
21511 TTAACTATCA
*
21521 CAACGAATTTGGAAAATCA
1 CAACGAATTTGGAAAATCG
* * **
21540 CAACGACAACTGTAGACTATCG
1 CAACG--AA-TTTGGAAAATCG
21562 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
21581 CAACG
1 CAACG
21586 CGACTGTAGA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
19 18 0.53
20 2 0.06
21 2 0.06
22 12 0.35
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (19 bp):
CAACGAATTTGGAAAATCG
Found at i:21603 original size:40 final size:41
Alignment explanation
Indices: 21514--21606 Score: 152
Period size: 41 Copynumber: 2.3 Consensus size: 41
21504 CTTTTTTTTA
*
21514 ACTATCACAACGAATTTGGAAAATCACAACGACAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCACAACGACAACTGTAG
* *
21555 ACTATCGCAACGAATTTGGAAAATCGCAACG-CGACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCACAACGACAACTGTAG
21595 ACTATCGCAACG
1 ACTATCGCAACG
21607 CGCAACGCGA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
40 20 0.41
41 29 0.59
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.19
Consensus pattern (41 bp):
ACTATCGCAACGAATTTGGAAAATCACAACGACAACTGTAG
Found at i:21651 original size:20 final size:20
Alignment explanation
Indices: 21626--21780 Score: 152
Period size: 20 Copynumber: 7.6 Consensus size: 20
21616 ATTTTCAACT
21626 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
21646 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
21667 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* **
21687 ATCGCAACGCG-ACTGTAGACT
1 ATCGCAACGCGAAATG--GAAA
21708 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* **
21728 ATCGCAACGCG-ACTGTAGACT
1 ATCGCAACGCGAAATG--GAAA
21749 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
21769 ATCGCAACGCGA
1 ATCGCAACGCGA
21781 TTTTCAACTA
Statistics
Matches: 106, Mismatches: 22, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
19 6 0.06
20 53 0.50
21 41 0.39
22 6 0.06
ACGTcount: A:0.37, C:0.25, G:0.23, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:21822 original size:41 final size:41
Alignment explanation
Indices: 21607--21805 Score: 330
Period size: 41 Copynumber: 4.9 Consensus size: 41
21597 TATCGCAACG
21607 CGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAAT
1 CGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAAT
21648 CGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAAT
1 CGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAAT
* *
21689 CGCAACGCGACTGT-AGACTATCGCAACGCGAAATGGAAAAT
1 CGCAACGCGATTTTCA-ACTATCGCAACGCGAAATGGAAAAT
* *
21730 CGCAACGCGACTGT-AGACTATCGCAACGCGAAATGGAAAAT
1 CGCAACGCGATTTTCA-ACTATCGCAACGCGAAATGGAAAAT
21771 CGCAACGCGATTTTCAACTATCGCAACGCGAAATG
1 CGCAACGCGATTTTCAACTATCGCAACGCGAAATG
21806 CAACACGAAT
Statistics
Matches: 152, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
40 1 0.01
41 150 0.99
42 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.18
Consensus pattern (41 bp):
CGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAAT
Found at i:21876 original size:142 final size:141
Alignment explanation
Indices: 21713--21976 Score: 415
Period size: 142 Copynumber: 1.9 Consensus size: 141
21703 AGACTATCGC
* * *
21713 AACGCGAAATGGAAAATCGCAACGCGACTGT-AGACTATCGCAACGCGAAATGGAAAATCGCAAC
1 AACGCGAAATGGAAAATCGCAACGCGA-TATCA-ACTATAGCAACGCGAAATGGAAAAACGCAAC
21777 GCGATTTTCAACTATCGCAACGCGAAATGCAACACGAATTTGCGAT-GATGGAGATCGCGTTGCG
64 GCGATTTTCAACTATCGCAACGCGAAATGCAACACGAATTTGCGATAG-TGGAGATCGCGTTGCG
21841 ATTTCAACTATTGT
128 ATTTCAACTATTGT
21855 AACGCGAAATGGAAAATCGCAACGCGATATCCAACTATAGCAACGCGAAATGGAAAAACGCAACG
1 AACGCGAAATGGAAAATCGCAACGCGATAT-CAACTATAGCAACGCGAAATGGAAAAACGCAACG
* ***
21920 CGATTTTCAACTATCGCAATGCGAAATGCAATGTGAATTTGCGATAGTGGAGATCGC
65 CGATTTTCAACTATCGCAACGCGAAATGCAACACGAATTTGCGATAGTGGAGATCGC
21977 AATGCGAATT
Statistics
Matches: 112, Mismatches: 7, Indels: 6
0.90 0.06 0.05
Matches are distributed among these distances:
141 2 0.02
142 108 0.96
143 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (141 bp):
AACGCGAAATGGAAAATCGCAACGCGATATCAACTATAGCAACGCGAAATGGAAAAACGCAACGC
GATTTTCAACTATCGCAACGCGAAATGCAACACGAATTTGCGATAGTGGAGATCGCGTTGCGATT
TCAACTATTGT
Found at i:21878 original size:20 final size:20
Alignment explanation
Indices: 21855--21922 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
21845 CAACTATTGT
21855 AACGCGAAATGGAAAATCGC
1 AACGCGAAATGGAAAATCGC
* ** * *
21875 AACGCGATATCCAACTATAGC
1 AACGCGAAATGGAA-AATCGC
*
21896 AACGCGAAATGGAAAAACGC
1 AACGCGAAATGGAAAATCGC
21916 AACGCGA
1 AACGCGA
21923 TTTTCAACTA
Statistics
Matches: 36, Mismatches: 11, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
20 21 0.58
21 15 0.42
ACGTcount: A:0.44, C:0.24, G:0.22, T:0.10
Consensus pattern (20 bp):
AACGCGAAATGGAAAATCGC
Found at i:21900 original size:41 final size:41
Alignment explanation
Indices: 21845--21947 Score: 143
Period size: 41 Copynumber: 2.5 Consensus size: 41
21835 GTTGCGATTT
* * *
21845 CAACTATTGTAACGCGAAATGGAAAATCGCAACGCGATATC
1 CAACTATAGCAACGCGAAATGGAAAAACGCAACGCGATATC
* *
21886 CAACTATAGCAACGCGAAATGGAAAAACGCAACGCGATTTT
1 CAACTATAGCAACGCGAAATGGAAAAACGCAACGCGATATC
* *
21927 CAACTATCGCAATGCGAAATG
1 CAACTATAGCAACGCGAAATG
21948 CAATGTGAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.18
Consensus pattern (41 bp):
CAACTATAGCAACGCGAAATGGAAAAACGCAACGCGATATC
Found at i:21982 original size:20 final size:20
Alignment explanation
Indices: 21959--22003 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
21949 AATGTGAATT
*
21959 TGCGATAGTGGAGATCGCAA
1 TGCGATAGTAGAGATCGCAA
* *
21979 TGCGA-ATTAGAGATCGCAC
1 TGCGATAGTAGAGATCGCAA
21998 TGCGAT
1 TGCGAT
22004 TTTGTTGGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.22
Consensus pattern (20 bp):
TGCGATAGTAGAGATCGCAA
Found at i:24223 original size:15 final size:14
Alignment explanation
Indices: 24191--24224 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
24181 AAGACCTTTA
24191 GGGGGAGTTTGGAT
1 GGGGGAGTTTGGAT
24205 GGGGGAGTTTGGAT
1 GGGGGAGTTTGGAT
24219 GGGGGA
1 GGGGGA
24225 ATGTGGGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.62, T:0.24
Consensus pattern (14 bp):
GGGGGAGTTTGGAT
Found at i:24815 original size:18 final size:19
Alignment explanation
Indices: 24792--24833 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
24782 CAGTAATCCT
*
24792 ATTCT-CTGGTAGTCTTAC
1 ATTCTACTGGTAATCTTAC
24810 ATTCTCACTGGTAATCTTAC
1 ATTCT-ACTGGTAATCTTAC
24830 ATTC
1 ATTC
24834 CGTGAACCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
20 16 0.76
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.43
Consensus pattern (19 bp):
ATTCTACTGGTAATCTTAC
Found at i:25051 original size:46 final size:45
Alignment explanation
Indices: 24946--25051 Score: 126
Period size: 45 Copynumber: 2.3 Consensus size: 45
24936 GAAATTAATT
* *
24946 TTGTCTCTCTCGAAACAGTTTCTATTAAAACATAAACATGTGAGA
1 TTGTCTCTCTTGAAACAGTTTCTATTAAAACATAAACATGTCAGA
* *
24991 TTGTCTCTCTTGAAACAGTTTCTCTTGAAAA-ATAAA-ATCTTTCAGA
1 TTGTCTCTCTTGAAACAGTTTCTATT-AAAACATAAACA--TGTCAGA
*
25037 TTGTTTCTCTTGAAA
1 TTGTCTCTCTTGAAA
25052 TAAATTGCCT
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
44 1 0.02
45 29 0.55
46 23 0.43
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (45 bp):
TTGTCTCTCTTGAAACAGTTTCTATTAAAACATAAACATGTCAGA
Found at i:25110 original size:110 final size:112
Alignment explanation
Indices: 24879--25118 Score: 304
Period size: 110 Copynumber: 2.2 Consensus size: 112
24869 GAAACCAGTT
* * * * *
24879 TTGTCTCTTTTGAGACAATTTCTCTTGAAATATAAAACCTTTGAGAATATTTTTCTTGAAATTAA
1 TTGTCTCTCTTGAAACAATTTCTCTTGAAAAATAAAACCTTTCAGAATATTTCTCTTGAAATTAA
* *
24944 TTTTGTCTCTCTCGAAACAGTTTCTATTAAAACATAAACATGTGAGA
66 TATTGCCTCTCTCGAAACAGTTTCTATTAAAACATAAACATGTGAGA
* * * *
24991 TTGTCTCTCTTGAAACAGTTTCTCTTGAAAAATAAAATCTTTCAGATTGTTTCTCTTGAAA-TAA
1 TTGTCTCTCTTGAAACAATTTCTCTTGAAAAATAAAACCTTTCAGAATATTTCTCTTGAAATTAA
* * * * * *
25055 -ATTGCCTCTTTTGAGATAGTTTCTCTTGAAACATAAACATGTGAGA
66 TATTGCCTCTCTCGAAACAGTTTCTATTAAAACATAAACATGTGAGA
*
25101 TTGTTTCTCTTGAAACAA
1 TTGTCTCTCTTGAAACAA
25119 ATTTTGTCTC
Statistics
Matches: 109, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
110 54 0.50
111 3 0.03
112 52 0.48
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (112 bp):
TTGTCTCTCTTGAAACAATTTCTCTTGAAAAATAAAACCTTTCAGAATATTTCTCTTGAAATTAA
TATTGCCTCTCTCGAAACAGTTTCTATTAAAACATAAACATGTGAGA
Found at i:25130 original size:21 final size:22
Alignment explanation
Indices: 25101--25146 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
25091 ACATGTGAGA
* *
25101 TTGTTTCTCTTGAAACAAAT-T
1 TTGTCTCTCTTGAAAAAAATAT
25122 TTGTCTCTCTTGAAAAAAATAT
1 TTGTCTCTCTTGAAAAAAATAT
25144 TTG
1 TTG
25147 AGATTGTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (22 bp):
TTGTCTCTCTTGAAAAAAATAT
Found at i:25371 original size:45 final size:45
Alignment explanation
Indices: 25307--25412 Score: 135
Period size: 46 Copynumber: 2.3 Consensus size: 45
25297 GAAACTAATT
*
25307 TTGTCTCTCTCGAAACAGTTTCTATT-AAAACAT-AAACATGTGAGA
1 TTGTCTCTCTTGAAACAGTTTCTATTGAAAA-ATAAAAC-TGTGAGA
* *
25352 TTGTCTCTCTTGAAACAGTTTCTCTTGAAAAATAAAATCTTTGAGA
1 TTGTCTCTCTTGAAACAGTTTCTATTGAAAAATAAAA-CTGTGAGA
*
25398 TTGTTTCTCTTGAAA
1 TTGTCTCTCTTGAAA
25413 TAAATTGTCT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
45 26 0.48
46 27 0.50
47 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (45 bp):
TTGTCTCTCTTGAAACAGTTTCTATTGAAAAATAAAACTGTGAGA
Found at i:25410 original size:46 final size:45
Alignment explanation
Indices: 25307--25412 Score: 135
Period size: 45 Copynumber: 2.3 Consensus size: 45
25297 GAAACTAATT
*
25307 TTGTCTCTCTCGAAACAGTTTCTATTAAAACATAAACATGTGAGA
1 TTGTCTCTCTTGAAACAGTTTCTATTAAAACATAAACATGTGAGA
* *
25352 TTGTCTCTCTTGAAACAGTTTCTCTTGAAAA-ATAAA-ATCTTTGAGA
1 TTGTCTCTCTTGAAACAGTTTCTATT-AAAACATAAACA--TGTGAGA
*
25398 TTGTTTCTCTTGAAA
1 TTGTCTCTCTTGAAA
25413 TAAATTGTCT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
44 1 0.02
45 29 0.54
46 24 0.44
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (45 bp):
TTGTCTCTCTTGAAACAGTTTCTATTAAAACATAAACATGTGAGA
Found at i:25424 original size:65 final size:64
Alignment explanation
Indices: 25351--25497 Score: 197
Period size: 65 Copynumber: 2.2 Consensus size: 64
25341 AACATGTGAG
* *
25351 ATTGTCTCTCTTGAAACAGTTTCTCTTGAAAAATAAA-ATCTTTGAGATTGTTTCTCTTGAAATA
1 ATTGTCTCTCTTGAAACAGTTTCTCTTGAAAAATAAACA--TGTGAGATTGTTTCTCTTGAAACA
25415 A
64 A
* * * *
25416 ATTGTCTCTTTTGAGATAGTTTCTCTTGAAACATAAACATGTGAGATTGTTTCTCTTGAAACAA
1 ATTGTCTCTCTTGAAACAGTTTCTCTTGAAAAATAAACATGTGAGATTGTTTCTCTTGAAACAA
25480 ATTTTGTCTCTCTTGAAA
1 A--TTGTCTCTCTTGAAA
25498 AAAATCTTTG
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
64 24 0.34
65 33 0.46
66 14 0.20
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (64 bp):
ATTGTCTCTCTTGAAACAGTTTCTCTTGAAAAATAAACATGTGAGATTGTTTCTCTTGAAACAA
Found at i:25457 original size:361 final size:361
Alignment explanation
Indices: 24793--25517 Score: 1369
Period size: 361 Copynumber: 2.0 Consensus size: 361
24783 AGTAATCCTA
* *
24793 TTCTCTGGTAGTCTTACATTCTCACTGGTAATCTTACATTCCGTGAACCAAACGCACCCTTAAGA
1 TTCTCTGGTAGTCTTACATTCCCACTGATAATCTTACATTCCGTGAACCAAACGCACCCTTAAGA
* *
24858 TTGTTTCTCTTGAAACCAGTTTTGTCTCTTTTGAGACAATTTCTCTTGAAATATAAAACCTTTGA
66 TTATTTCTCTTGAAACCAGCTTTGTCTCTTTTGAGACAATTTCTCTTGAAATATAAAACCTTTGA
*
24923 GAATATTTTTCTTGAAATTAATTTTGTCTCTCTCGAAACAGTTTCTATTAAAACATAAACATGTG
131 GAATATTTTTCTTGAAACTAATTTTGTCTCTCTCGAAACAGTTTCTATTAAAACATAAACATGTG
24988 AGATTGTCTCTCTTGAAACAGTTTCTCTTGAAAAATAAAATCTTTCAGATTGTTTCTCTTGAAAT
196 AGATTGTCTCTCTTGAAACAGTTTCTCTTGAAAAATAAAATCTTTCAGATTGTTTCTCTTGAAAT
25053 AAATTGCCTCTTTTGAGATAGTTTCTCTTGAAACATAAACATGTGAGATTGTTTCTCTTGAAACA
261 AAATTGCCTCTTTTGAGATAGTTTCTCTTGAAACATAAACATGTGAGATTGTTTCTCTTGAAACA
25118 AATTTTGTCTCTCTTGAAAAAAATATTTGAGATTGT
326 AATTTTGTCTCTCTTGAAAAAAATATTTGAGATTGT
25154 TTCTCTGGTAGTCTTACATTCCCACTGATAATCTTACATTCCGTGAACCAAACGCACCCTTAAGA
1 TTCTCTGGTAGTCTTACATTCCCACTGATAATCTTACATTCCGTGAACCAAACGCACCCTTAAGA
25219 TTATTTCTCTTGAAACCAGCTTTGTCTCTTTTGAGACAATTTCTCTTGAAATATAAAACCTTTGA
66 TTATTTCTCTTGAAACCAGCTTTGTCTCTTTTGAGACAATTTCTCTTGAAATATAAAACCTTTGA
*
25284 GAATGTTTTTCTTGAAACTAATTTTGTCTCTCTCGAAACAGTTTCTATTAAAACATAAACATGTG
131 GAATATTTTTCTTGAAACTAATTTTGTCTCTCTCGAAACAGTTTCTATTAAAACATAAACATGTG
*
25349 AGATTGTCTCTCTTGAAACAGTTTCTCTTGAAAAATAAAATCTTTGAGATTGTTTCTCTTGAAAT
196 AGATTGTCTCTCTTGAAACAGTTTCTCTTGAAAAATAAAATCTTTCAGATTGTTTCTCTTGAAAT
*
25414 AAATTGTCTCTTTTGAGATAGTTTCTCTTGAAACATAAACATGTGAGATTGTTTCTCTTGAAACA
261 AAATTGCCTCTTTTGAGATAGTTTCTCTTGAAACATAAACATGTGAGATTGTTTCTCTTGAAACA
*
25479 AATTTTGTCTCTCTTGAAAAAAATCTTTGAGATTGT
326 AATTTTGTCTCTCTTGAAAAAAATATTTGAGATTGT
25515 TTC
1 TTC
25518 CCTCGAAACA
Statistics
Matches: 355, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
361 355 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (361 bp):
TTCTCTGGTAGTCTTACATTCCCACTGATAATCTTACATTCCGTGAACCAAACGCACCCTTAAGA
TTATTTCTCTTGAAACCAGCTTTGTCTCTTTTGAGACAATTTCTCTTGAAATATAAAACCTTTGA
GAATATTTTTCTTGAAACTAATTTTGTCTCTCTCGAAACAGTTTCTATTAAAACATAAACATGTG
AGATTGTCTCTCTTGAAACAGTTTCTCTTGAAAAATAAAATCTTTCAGATTGTTTCTCTTGAAAT
AAATTGCCTCTTTTGAGATAGTTTCTCTTGAAACATAAACATGTGAGATTGTTTCTCTTGAAACA
AATTTTGTCTCTCTTGAAAAAAATATTTGAGATTGT
Found at i:25471 original size:110 final size:112
Alignment explanation
Indices: 25240--25548 Score: 331
Period size: 110 Copynumber: 2.8 Consensus size: 112
25230 GAAACCAGCT
* * * *
25240 TTGTCTCTTTTGAGACAATTTCTCTTGAAATATAAAACCTTTGAGAATGTTTTTCTTGAAACTAA
1 TTGTCTCTCTTGAAACAATTTCTCTTGAAAAATAAAACCTTTGAGAATGTTTCTCTTGAAACTAA
*
25305 TTTTGTCTCTCTCGAAACAGTTTCTATTAAAACATAAACATGTGAGA
66 TATTGTCTCTCTCGAAACAGTTTCTATTAAAACATAAACATGTGAGA
* * *
25352 TTGTCTCTCTTGAAACAGTTTCTCTTGAAAAATAAAATCTTTGAGATTGTTTCTCTTGAAA-TAA
1 TTGTCTCTCTTGAAACAATTTCTCTTGAAAAATAAAACCTTTGAGAATGTTTCTCTTGAAACTAA
* * * * * *
25416 -ATTGTCTCTTTTGAGATAGTTTCTCTTGAAACATAAACATGTGAGA
66 TATTGTCTCTCTCGAAACAGTTTCTATTAAAACATAAACATGTGAGA
* * * * *
25462 TTGTTTCTCTTGAAACAAATTTTGTCTCTCTTG--AAA-AAAATCTTTGAGATTGTTTCCCTCGA
1 TTGTCTCTCTTGAAAC-AA---T-T-TCTCTTGAAAAATAAAACCTTTGAGAATGTTTCTCTTGA
* * *
25524 AACAAATTTTGTCTCTCTTGAAACA
60 AACTAATATTGTCTCTCTCGAAACA
25549 TTATCCCTAA
Statistics
Matches: 166, Mismatches: 23, Indels: 13
0.82 0.11 0.06
Matches are distributed among these distances:
110 54 0.33
111 4 0.02
112 54 0.33
113 26 0.16
114 6 0.04
115 15 0.09
116 7 0.04
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.41
Consensus pattern (112 bp):
TTGTCTCTCTTGAAACAATTTCTCTTGAAAAATAAAACCTTTGAGAATGTTTCTCTTGAAACTAA
TATTGTCTCTCTCGAAACAGTTTCTATTAAAACATAAACATGTGAGA
Found at i:25491 original size:21 final size:21
Alignment explanation
Indices: 25462--25548 Score: 66
Period size: 21 Copynumber: 3.8 Consensus size: 21
25452 ACATGTGAGA
*
25462 TTGTTTCTCTTGAAACAAATT
1 TTGTCTCTCTTGAAACAAATT
*
25483 TTGTCTCTCTTGAAAAAAATCTTT
1 TTGTCTCTCTTGAAACAAA---TT
* * *
25507 GAGATTGTTTCCCTCGAAACAAATT
1 ----TTGTCTCTCTTGAAACAAATT
25532 TTGTCTCTCTTGAAACA
1 TTGTCTCTCTTGAAACA
25549 TTATCCCTAA
Statistics
Matches: 50, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
21 31 0.62
24 2 0.04
25 2 0.04
28 15 0.30
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.41
Consensus pattern (21 bp):
TTGTCTCTCTTGAAACAAATT
Found at i:25796 original size:134 final size:134
Alignment explanation
Indices: 25582--26080 Score: 583
Period size: 134 Copynumber: 3.7 Consensus size: 134
25572 TCCTCATCGT
* * *
25582 GTAGGAACCGTGTCATCCACTGACTAGATCTCCTCATCACGTAGGAGCCGTGTCAACCTTAGATA
1 GTAGGAACCGTGTCATCCACCGACCAGATCTCCTCATCACGTAGGAGCCGCGTCAACCTTAGATA
* * * *
25647 ACCA-ACTGTCTTCATCACGTAGGAACTGTGCTATCATCATCCCTAAAGATGTCCACCCGTTCTC
66 ACCAGACT-TCCTCATCACGTAGGAACCGTGCTATCATCATCCCTAAAGATGGCCAACCGTTCTC
25711 ATCAC
130 ATCAC
* * *
25716 GTAGGAATCGTGTCATCCGCCGACCAGATCTCCTCATCACGTAGGAGCCACGTCAACCTTAGATA
1 GTAGGAACCGTGTCATCCACCGACCAGATCTCCTCATCACGTAGGAGCCGCGTCAACCTTAGATA
* *
25781 ACCAG-CTGTCCTCATCACGTAGGAACCGTGTTATCATCATCCCTAAAGATGGCCAGCCG-TCAT
66 ACCAGACT-TCCTCATCACGTAGGAACCGTGCTATCATCATCCCTAAAGATGGCCAACCGTTC-T
25844 CATCAC
129 CATCAC
** * * * * *
25850 GTACAAAATCGTGTCATCCACCGTCCAGATCTCCTCATCACGTAGGAGCCGCATCATCCTTATAT
1 GTA-GGAACCGTGTCATCCACCGACCAGATCTCCTCATCACGTAGGAGCCGCGTCAACCTTAGAT
* ** * * *
25915 AACCAGACTTCCTCGTCGTGTAAGAACCATGCTATC-TCCATTTGTCCCTAAAGATGGCCAACAG
65 AACCAGACTTCCTCATCACGTAGGAACCGTGCTATCAT-CA----TCCCTAAAGATGGCCAACCG
*
25979 TACTCATCAC
125 TTCTCATCAC
* * * *
25989 GTTGGAACCGTGTCATCCACCGACCACATCTCTTCATCACGTAGGAGCCGCGTCATCCTTAGATA
1 GTAGGAACCGTGTCATCCACCGACCAGATCTCCTCATCACGTAGGAGCCGCGTCAACCTTAGATA
* * * *
26054 GCCAGACTTCCTTATCGCGTAGAAACC
66 ACCAGACTTCCTCATCACGTAGGAACC
26081 ATGTTATCTC
Statistics
Matches: 312, Mismatches: 43, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
133 2 0.01
134 123 0.39
135 82 0.26
136 2 0.01
138 75 0.24
139 27 0.09
140 1 0.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.25
Consensus pattern (134 bp):
GTAGGAACCGTGTCATCCACCGACCAGATCTCCTCATCACGTAGGAGCCGCGTCAACCTTAGATA
ACCAGACTTCCTCATCACGTAGGAACCGTGCTATCATCATCCCTAAAGATGGCCAACCGTTCTCA
TCAC
Found at i:26088 original size:273 final size:269
Alignment explanation
Indices: 25590--26088 Score: 644
Period size: 273 Copynumber: 1.8 Consensus size: 269
25580 GTGTAGGAAC
* * **
25590 CGTGTCATCCACTGACTAGATCTCCTCATCACGTAGGAGCCGTGTCAACCTTAGATAACCAACTG
1 CGTGTCATCCACCGACCAGATCTCCTCATCACGTAGGAGCCGCATCAACCTTAGATAACCAACTG
* * ** * * * *
25655 TCTTCATCACGTAGGAACTGTGCTATCATCATCCCTAAAGATGTCCACCCGTTCTCATCACGTAG
66 TCCTCATCACGTAAGAACCATGCTATCATCATCCCTAAAGATGGCCAACAGTACTCATCACGTAG
* * *
25720 GAATCGTGTCATCCGCCGACCAGATCTCCTCATCACGTAGGAGCCACGTCAACCTTAGATAACCA
131 GAACCGTGTCATCCACCGACCACATCTCCTCATCACGTAGGAGCCACGTCAACCTTAGATAACCA
* *
25785 GCTGTCCTCATCACGTAGGAACCGTGTTATCATCATCCCTAAAGATGGCCAGCCGTCATCATCAC
196 GCTGTCCTCATCACGTAGAAACCATGTTATCATCATCCCTAAAGATGGCCAGCCGTCATCATCAC
25850 GTACAAAAT
261 GTACAAAAT
* * *
25859 CGTGTCATCCACCGTCCAGATCTCCTCATCACGTAGGAGCCGCATCATCCTTATATAACCAGACT
1 CGTGTCATCCACCGACCAGATCTCCTCATCACGTAGGAGCCGCATCAACCTTAGATAACCA-ACT
* **
25924 -TCCTCGTCGTGTAAGAACCATGCTATC-TCCATTTGTCCCTAAAGATGGCCAACAGTACTCATC
65 GTCCTCATCACGTAAGAACCATGCTATCAT-CA----TCCCTAAAGATGGCCAACAGTACTCATC
* * * *
25987 ACGTTGGAACCGTGTCATCCACCGACCACATCTCTTCATCACGTAGGAGCCGCGTCATCCTTAGA
125 ACGTAGGAACCGTGTCATCCACCGACCACATCTCCTCATCACGTAGGAGCCACGTCAACCTTAGA
* * *
26052 TAGCCAGACT-TCCTTATCGCGTAGAAACCATGTTATC
190 TAACCAG-CTGTCCTCATCACGTAGAAACCATGTTATC
26089 TCCAATATCC
Statistics
Matches: 193, Mismatches: 30, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
268 1 0.01
269 76 0.39
270 3 0.02
273 111 0.58
274 2 0.01
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (269 bp):
CGTGTCATCCACCGACCAGATCTCCTCATCACGTAGGAGCCGCATCAACCTTAGATAACCAACTG
TCCTCATCACGTAAGAACCATGCTATCATCATCCCTAAAGATGGCCAACAGTACTCATCACGTAG
GAACCGTGTCATCCACCGACCACATCTCCTCATCACGTAGGAGCCACGTCAACCTTAGATAACCA
GCTGTCCTCATCACGTAGAAACCATGTTATCATCATCCCTAAAGATGGCCAGCCGTCATCATCAC
GTACAAAAT
Found at i:26290 original size:3 final size:3
Alignment explanation
Indices: 26282--26320 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
26272 CGAGTCTTTT
26282 TTA TTA TTA TTA TTTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TT
26321 CTAATTTACA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:31981 original size:24 final size:23
Alignment explanation
Indices: 31946--32028 Score: 77
Period size: 21 Copynumber: 3.7 Consensus size: 23
31936 ATTAATTTAA
*
31946 ATAATATTTAAATTTATTAATATT
1 ATAATATATAAA-TTATTAATATT
*
31970 ATAATATATAAA--ATTAATATA
1 ATAATATATAAATTATTAATATT
* *
31991 ATTAATATGTCAATT-TTAAT-TT
1 A-TAATATATAAATTATTAATATT
32013 A-AATATATAAATTATT
1 ATAATATATAAATTATT
32029 GAAATAAAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
20 10 0.21
21 11 0.23
22 11 0.23
23 5 0.10
24 11 0.23
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (23 bp):
ATAATATATAAATTATTAATATT
Found at i:31997 original size:46 final size:42
Alignment explanation
Indices: 31936--32023 Score: 104
Period size: 46 Copynumber: 2.0 Consensus size: 42
31926 ATTTAAGAAT
* *
31936 ATTAATTTAAATAATATTTAAATTTATTAATATTATAATATATAAA
1 ATTAATATAAATAATATGTAAA-TT-TTAAT-TTA-AATATATAAA
* *
31982 ATTAATATAATTAATATGTCAATTTTAATTTAAATATATAAA
1 ATTAATATAAATAATATGTAAATTTTAATTTAAATATATAAA
32024 TTATTGAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
42 10 0.26
43 3 0.08
44 5 0.13
45 2 0.05
46 18 0.47
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (42 bp):
ATTAATATAAATAATATGTAAATTTTAATTTAAATATATAAA
Found at i:32326 original size:22 final size:22
Alignment explanation
Indices: 32298--32342 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
32288 CATCAATATC
*
32298 AAACTAATTTTGAGGTGTAATT
1 AAACTAATTTTGAAGTGTAATT
32320 AAACTAATTTTGAAGTGTAATT
1 AAACTAATTTTGAAGTGTAATT
32342 A
1 A
32343 CGATAGCCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (22 bp):
AAACTAATTTTGAAGTGTAATT
Found at i:42758 original size:16 final size:16
Alignment explanation
Indices: 42737--42769 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
42727 GAGTAAACAC
42737 CTTAAGACTAATTTAT
1 CTTAAGACTAATTTAT
42753 CTTAAGACTAATTTAT
1 CTTAAGACTAATTTAT
42769 C
1 C
42770 GGAAGTAGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.42
Consensus pattern (16 bp):
CTTAAGACTAATTTAT
Found at i:43865 original size:29 final size:30
Alignment explanation
Indices: 43833--43903 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 30
43823 TATATTCGAA
*
43833 TTAAATTATTATA-T-AATTAAATGTTATAT
1 TTAAATT-TTATATTAAATTAAATATTATAT
*
43862 TT-AATTTTATATTAAATTTAATATTATAT
1 TTAAATTTTATATTAAATTAAATATTATAT
*
43891 TT-AATGTTATATT
1 TTAAATTTTATATT
43904 TTAAAATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 5 0.14
28 5 0.14
29 27 0.73
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (30 bp):
TTAAATTTTATATTAAATTAAATATTATAT
Found at i:43873 original size:12 final size:12
Alignment explanation
Indices: 43848--43906 Score: 55
Period size: 12 Copynumber: 4.9 Consensus size: 12
43838 TTATTATATA
*
43848 ATTAAATGTTAT
1 ATTAAATTTTAT
*
43860 ATTTAATTTTAT
1 ATTAAATTTTAT
*
43872 ATTAAATTTAAT
1 ATTAAATTTTAT
* *
43884 ATTATATTTAAT
1 ATTAAATTTTAT
* *
43896 GTTATATTTTA
1 ATTAAATTTTA
43907 AAATTTTAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (12 bp):
ATTAAATTTTAT
Found at i:43880 original size:17 final size:17
Alignment explanation
Indices: 43860--43906 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
43850 TAAATGTTAT
43860 ATTTAATTTTATATTAA
1 ATTTAATTTTATATTAA
* *
43877 ATTTAATATTATATTTA
1 ATTTAATTTTATATTAA
43894 ATGTTATATTTTA
1 AT-TTA-ATTTTA
43907 AAATTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 17 0.68
18 3 0.12
19 5 0.20
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
ATTTAATTTTATATTAA
Found at i:45628 original size:249 final size:244
Alignment explanation
Indices: 45302--45835 Score: 726
Period size: 249 Copynumber: 2.2 Consensus size: 244
45292 TTATTTCGGG
* *
45302 TCGGGTCGGGTGAAACTTTATTTTGGTCTGGTCGGGTCGGTTTTTTAAGTGTGATATTCGGGTCG
1 TCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGTTTTTTAAGTGTGATATTCGGGTCA
*
45367 GGTCGAGTTCAGGTTTAGGGTGAAAAATACCCGACCTGA-AAATATATATAATTTTA-CCT-TAT
66 GGTCGAGTTCAGGTTTAGGGTGAAAAATACCCGACC-GACAAA-AAATATAATTTTATCCTATAT
* *
45429 ATTTAAGAATAATTACAATAATA-CCCTCTATATATA-ATTTTTTTCAATTAAGTCACTTTTTTA
129 ATTTAAGAATAATTACAATAATACCCCTCTATATATATA-TTTTTCCAATTAAGTCACTGTTTTA
*
45492 TTGAATAAAAGTAA-TTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATAT
193 TTGAATAAAAATAATTTTTTTATTA-TT----TCGGGTCGG-TTTCTAATTCATATAT
* *
45549 TCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGTTTGGTTTTTTTTAAGTGTGATATTCGGGT
1 TCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGG--TTTTTTAAGTGTGATATTCGGGT
* *
45614 TAGGTC-AGGTTCAGGTTTAGGGTGAAAAATACCCGACCGACCCAAAAAATATAATTTTATCTTA
64 CAGGTCGA-GTTCAGGTTTAGGGTGAAAAATACCCGACCGA--CAAAAAATATAATTTTATCCTA
* * *
45678 TATATTTAGGAATAATTACAATAATACCCCTCTCTCTATATATTTTTCCAATTAAGTCACTGTTT
126 TATATTTAAGAATAATTACAATAATACCCCTCTATATATATATTTTTCCAATTAAGTCACTGTTT
45743 TATTGAATAAAAATAATTTTTTTATTATTTCGGGTCGGTTTCTAATTCATATAT
191 TATTGAATAAAAATAATTTTTTTATTATTTCGGGTCGGTTTCTAATTCATATAT
*
45797 TCGGGTGGGTGGGTGAAACTTTA--TTGGTCGGGTCGGGTC
1 TCGGGT---CGGGTGAAACTTTATTTTGGTCGGGTCGGGTC
45836 TCGGATGGAG
Statistics
Matches: 257, Mismatches: 16, Indels: 26
0.86 0.05 0.09
Matches are distributed among these distances:
247 37 0.14
248 25 0.10
249 80 0.31
250 12 0.05
251 18 0.07
252 25 0.10
253 49 0.19
254 11 0.04
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (244 bp):
TCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGTTTTTTAAGTGTGATATTCGGGTCA
GGTCGAGTTCAGGTTTAGGGTGAAAAATACCCGACCGACAAAAAATATAATTTTATCCTATATAT
TTAAGAATAATTACAATAATACCCCTCTATATATATATTTTTCCAATTAAGTCACTGTTTTATTG
AATAAAAATAATTTTTTTATTATTTCGGGTCGGTTTCTAATTCATATAT
Done.