Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007782.1 Hibiscus syriacus cultivar Beakdansim tig00110065_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: 3900615
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 19
Found at i:817492 original size:17 final size:17
Alignment explanation
Indices: 817459--817492 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
817449 TTGAATATTT
* *
817459 TGGATTGTTTGATTTTG
1 TGGATTGTTAGACTTTG
817476 TGGATTGTTAGACTTTG
1 TGGATTGTTAGACTTTG
817493 GATTTGTTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.03, G:0.29, T:0.53
Consensus pattern (17 bp):
TGGATTGTTAGACTTTG
Found at i:820125 original size:22 final size:22
Alignment explanation
Indices: 820099--820152 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
820089 CTACAAGAGA
*
820099 AATAAAAAATAAAAATATTAAT
1 AATAAAAAATAAAAATAGTAAT
** *
820121 AATAATTAATAATAATAGTAAT
1 AATAAAAAATAAAAATAGTAAT
820143 AATATAAAAA
1 AATA-AAAAA
820153 CATGACGAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (22 bp):
AATAAAAAATAAAAATAGTAAT
Found at i:825168 original size:28 final size:28
Alignment explanation
Indices: 825105--825168 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
825095 AAGCGGTAAG
825105 CAGTTTGATATCGTTTAAACAAAGTATC
1 CAGTTTGATATCGTTTAAACAAAGTATC
* **
825133 CAGCTTGATATCGTTTAAGTAAAGTATC
1 CAGTTTGATATCGTTTAAACAAAGTATC
*
825161 GAGTTTGA
1 CAGTTTGA
825169 GTCCGTGAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (28 bp):
CAGTTTGATATCGTTTAAACAAAGTATC
Found at i:826288 original size:2 final size:2
Alignment explanation
Indices: 826283--826347 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
826273 TGTATGTGTG
826283 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
826325 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
826348 GTGTGTGTGT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:827705 original size:18 final size:19
Alignment explanation
Indices: 827676--827713 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
827666 TTTTGAATAA
827676 TTGAAGATATAAAATATTT
1 TTGAAGATATAAAATATTT
827695 TTGAA-ATATAAAATATTT
1 TTGAAGATATAAAATATTT
827713 T
1 T
827714 AAAAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (19 bp):
TTGAAGATATAAAATATTT
Found at i:827723 original size:18 final size:18
Alignment explanation
Indices: 827684--827723 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
827674 AATTGAAGAT
** *
827684 ATAAAATATTTTTGAAAT
1 ATAAAATATTTTAAAAAA
827702 ATAAAATATTTTAAAAAA
1 ATAAAATATTTTAAAAAA
827720 ATAA
1 ATAA
827724 GAGGAAAACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
ATAAAATATTTTAAAAAA
Found at i:828292 original size:21 final size:20
Alignment explanation
Indices: 828265--828321 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 20
828255 ACCGCCGTCA
828265 CCTTCTTTCTTCTCTCCGCCGT
1 CCTTCTTT-TTCTCTCCGCC-T
828287 -CTTCTTTTT-TCTCC-CCT
1 CCTTCTTTTTCTCTCCGCCT
828304 CCTTCCTTTTTCTCTCCG
1 CCTT-CTTTTTCTCTCCG
828322 TCGCCTCCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
17 1 0.03
18 5 0.16
19 11 0.35
20 7 0.23
21 7 0.23
ACGTcount: A:0.00, C:0.44, G:0.05, T:0.51
Consensus pattern (20 bp):
CCTTCTTTTTCTCTCCGCCT
Found at i:828308 original size:18 final size:20
Alignment explanation
Indices: 828265--828317 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 20
828255 ACCGCCGTCA
828265 CCTTCTTTCTTCTCTCCGCCGT
1 CCTTCTTT-TT-TCTCCGCCGT
828287 -CTTCTTTTTTCTCC-CC-T
1 CCTTCTTTTTTCTCCGCCGT
*
828304 CCTTCCTTTTTCTC
1 CCTTCTTTTTTCTC
828318 TCCGTCGCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
17 1 0.03
18 14 0.48
19 5 0.17
20 2 0.07
21 7 0.24
ACGTcount: A:0.00, C:0.43, G:0.04, T:0.53
Consensus pattern (20 bp):
CCTTCTTTTTTCTCCGCCGT
Found at i:828383 original size:39 final size:39
Alignment explanation
Indices: 828334--828458 Score: 232
Period size: 39 Copynumber: 3.2 Consensus size: 39
828324 GCCTCCTTCC
828334 TTCTTCTCGCCTGCTTCCACTGCTTCTTTTGCTTTCTCT
1 TTCTTCTCGCCTGCTTCCACTGCTTCTTTTGCTTTCTCT
*
828373 TTCTTCTCGCCTGCTTCCACTGCTTCTTTTGCTGTCTCT
1 TTCTTCTCGCCTGCTTCCACTGCTTCTTTTGCTTTCTCT
*
828412 TTCTTCTCGCCGGCTTCCACTGCTTCTTTTGCTTTCTCT
1 TTCTTCTCGCCTGCTTCCACTGCTTCTTTTGCTTTCTCT
828451 TTCTTCTC
1 TTCTTCTC
828459 ACCGGCATCG
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.02, C:0.36, G:0.11, T:0.50
Consensus pattern (39 bp):
TTCTTCTCGCCTGCTTCCACTGCTTCTTTTGCTTTCTCT
Found at i:828473 original size:21 final size:21
Alignment explanation
Indices: 828448--828497 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
828438 TTTTGCTTTC
828448 TCTTTCTTCTCACCGGCATCG
1 TCTTTCTTCTCACCGGCATCG
* **
828469 TCTTTTTTCTCACCGGTGTCG
1 TCTTTCTTCTCACCGGCATCG
828490 TCTTTCTT
1 TCTTTCTT
828498 AGGAGGAACC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.06, C:0.32, G:0.14, T:0.48
Consensus pattern (21 bp):
TCTTTCTTCTCACCGGCATCG
Found at i:831261 original size:15 final size:15
Alignment explanation
Indices: 831243--831272 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
831233 TATTAAGTGG
*
831243 TAAAATATATAAATA
1 TAAAATAAATAAATA
831258 TAAAATAAATAAATA
1 TAAAATAAATAAATA
831273 AAGATAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAAATAAATAAATA
Found at i:831273 original size:19 final size:19
Alignment explanation
Indices: 831245--831281 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
831235 TTAAGTGGTA
* *
831245 AAATATATAAATATAAAAT
1 AAATAAATAAAGATAAAAT
831264 AAATAAATAAAGATAAAA
1 AAATAAATAAAGATAAAA
831282 ACGAAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (19 bp):
AAATAAATAAAGATAAAAT
Found at i:831303 original size:21 final size:21
Alignment explanation
Indices: 831264--831302 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
831254 AATATAAAAT
*
831264 AAATAAATAAAGATAAAAACG
1 AAATAAATAAAGAAAAAAACG
831285 AAATAAA-AAAGAAAAAAA
1 AAATAAATAAAGAAAAAAA
831303 AAGTTGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.79, C:0.03, G:0.08, T:0.10
Consensus pattern (21 bp):
AAATAAATAAAGAAAAAAACG
Found at i:831679 original size:37 final size:37
Alignment explanation
Indices: 831585--831712 Score: 156
Period size: 36 Copynumber: 3.5 Consensus size: 37
831575 CGTAAAATAT
* * *
831585 TTTTAAAAACTATATATTATATATATTTTC-AAAT-A
1 TTTTCAAAACTATATAATATATATATTTTCAAAATCG
*
831620 TTTTCAAAAACTATATACTATATATATTTTCAAAATCG
1 TTTTC-AAAACTATATAATATATATATTTTCAAAATCG
* *
831658 TTTTCAAAACTATATAATATATGT-TTTTCAAAAACCG
1 TTTTCAAAACTATATAATATATATATTTTC-AAAATCG
831695 TTTTC-AAACTATATAATA
1 TTTTCAAAACTATATAATA
831713 AGTATTTTTT
Statistics
Matches: 83, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
35 4 0.05
36 42 0.51
37 32 0.39
38 5 0.06
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (37 bp):
TTTTCAAAACTATATAATATATATATTTTCAAAATCG
Found at i:831721 original size:36 final size:37
Alignment explanation
Indices: 831585--831727 Score: 145
Period size: 36 Copynumber: 3.9 Consensus size: 37
831575 CGTAAAATAT
* * *
831585 TTTTAAAAACTATATATTATATATATTTTCAAATA---
1 TTTTCAAAACTATATAATATATAT-TTTTCAAAAACCG
* *
831620 TTTTCAAAAACTATATACTATATATATTTTC-AAAATCG
1 TTTTC-AAAACTATATAATATATAT-TTTTCAAAAACCG
*
831658 TTTTCAAAACTATATAATATATGTTTTTCAAAAACCG
1 TTTTCAAAACTATATAATATATATTTTTCAAAAACCG
*
831695 TTTTC-AAACTATATAATA-AGTATTTTTTAAAAA
1 TTTTCAAAACTATATAATATA-TATTTTTCAAAAA
831728 AACTGATTTT
Statistics
Matches: 94, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
35 8 0.09
36 53 0.56
37 28 0.30
38 5 0.05
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (37 bp):
TTTTCAAAACTATATAATATATATTTTTCAAAAACCG
Found at i:832408 original size:19 final size:20
Alignment explanation
Indices: 832370--832409 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
832360 TTGATTCATG
*
832370 AGGCTCGGATGGACCTAGGT
1 AGGCTCGGATAGACCTAGGT
832390 AGGCTCGGATAGA-CTAGGT
1 AGGCTCGGATAGACCTAGGT
832409 A
1 A
832410 AGGTGGGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.25, C:0.17, G:0.38, T:0.20
Consensus pattern (20 bp):
AGGCTCGGATAGACCTAGGT
Found at i:832502 original size:17 final size:18
Alignment explanation
Indices: 832480--832515 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
832470 ACTTAAAATT
832480 TTTTAAA-TTATTATATA
1 TTTTAAATTTATTATATA
*
832497 TTTTAAATTTTTTATATA
1 TTTTAAATTTATTATATA
832515 T
1 T
832516 AATTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTAAATTTATTATATA
Found at i:832645 original size:29 final size:29
Alignment explanation
Indices: 832613--832670 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
832603 GGCTGATGTT
832613 TGGACTTTTCTTGATGAATAAGGCTGCAC
1 TGGACTTTTCTTGATGAATAAGGCTGCAC
832642 TGGACTTTTCTTGATGAATAAGGCTGCAC
1 TGGACTTTTCTTGATGAATAAGGCTGCAC
832671 GACTCACATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (29 bp):
TGGACTTTTCTTGATGAATAAGGCTGCAC
Found at i:835098 original size:20 final size:21
Alignment explanation
Indices: 835041--835096 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
835031 AAACAGAGTA
*
835041 ATAGCGGCGTTTTTTAATCCT
1 ATAGCGGCGTTTTTTAATCAT
835062 ATAGCGGCGTTTTTTAATCAT
1 ATAGCGGCGTTTTTTAATCAT
*
835083 ATAGCGGAGTTTTT
1 ATAGCGGCGTTTTT
835097 AAGTGCTGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.43
Consensus pattern (21 bp):
ATAGCGGCGTTTTTTAATCAT
Found at i:835253 original size:43 final size:43
Alignment explanation
Indices: 835195--835348 Score: 195
Period size: 43 Copynumber: 3.6 Consensus size: 43
835185 AACAAAAAAT
*
835195 GCCGCAAAAGGTCGATATCTATAGCGGCATTTTCGGAACAAAC
1 GCCGCAAAAGGTCGATATCTATAGCGGCATTTTCGGAATAAAC
* * *
835238 GCCGCAAAAGTTCGATATCTA-ATGCGGCCTTTTCGAAATAAAC
1 GCCGCAAAAGGTCGATATCTATA-GCGGCATTTTCGGAATAAAC
* * * *
835281 GCCGCAAAAGGTCGACATCTATTGCGGCGTTTTCGGAATAAAT
1 GCCGCAAAAGGTCGATATCTATAGCGGCATTTTCGGAATAAAC
* *
835324 ACCGCAAAAGGTC-AGATCTATAGCG
1 GCCGCAAAAGGTCGATATCTATAGCG
835349 ACGTTTTTTA
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
42 11 0.11
43 85 0.89
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.23
Consensus pattern (43 bp):
GCCGCAAAAGGTCGATATCTATAGCGGCATTTTCGGAATAAAC
Found at i:838235 original size:41 final size:41
Alignment explanation
Indices: 838024--838545 Score: 294
Period size: 41 Copynumber: 12.6 Consensus size: 41
838014 ACAATTTCGA
* * ** **
838024 CGTTTGGTATTAAAACGCTACTAAAGTAC-GCTTCTATAGTAG
1 CGTTT-GTATAAAAACGCCACTAAAGT-CTGAGTCTATAGCGG
*
838066 CGTTTGTAAACATAAACGCCACTAAAGTAC-GAGTCTATAGCGG
1 CGTTTGTATA-A-AAACGCCACTAAAGT-CTGAGTCTATAGCGG
* * * *
838109 CATTTGGTATTAAAACCCCACTAAAGTAC-GATTCTATAGCGG
1 CGTTT-GTATAAAAACGCCACTAAAGT-CTGAGTCTATAGCGG
* * *
838151 TGTTTGTATAAAAACGCCACAAAAG-CT-TGTCTATAGCGG
1 CGTTTGTATAAAAACGCCACTAAAGTCTGAGTCTATAGCGG
* * * *
838190 CGTTTGTGTAAAAATGCCACGAAAGTCTGAGTCTATAGCGA
1 CGTTTGTATAAAAACGCCACTAAAGTCTGAGTCTATAGCGG
* * ** * *
838231 CGTTTGTTTACAATTGCCACTATAGTAC-GAGTATATAGCGG
1 CGTTTGTATAAAAACGCCACTAAAGT-CTGAGTCTATAGCGG
* *
838272 CGTTTGTATAAAAAAACGCCACTAAAATACT-AGTTTATAGCGG
1 CGTTTGTAT--AAAAACGCCACTAAAGT-CTGAGTCTATAGCGG
* *
838315 CGTTTGTATACAAACGCCACGAAAGTCTGAGTCTATAGCGG
1 CGTTTGTATAAAAACGCCACTAAAGTCTGAGTCTATAGCGG
* * ** ** * * * *
838356 CTTTTGTATACAATTGCCACTAAAGTAAGAGTGTTTTGTGG
1 CGTTTGTATAAAAACGCCACTAAAGTCTGAGTCTATAGCGG
* ** * * * **** *
838397 TGTTTGTCCAAAAACGCCGCTACA-TGT-AAAAAATTACCGG
1 CGTTTGTATAAAAACGCCACTAAAGTCTGAGTCTA-TAGCGG
* * * *
838437 CGTTTTCTATAAAAACGCCACTAAAATACT-AGTTTATAGCAG
1 CG-TTTGTATAAAAACGCCACTAAAGT-CTGAGTCTATAGCGG
* *
838479 CGTTTGTATACAAAA-GCCA-TGAAAATCTAAGTCTATAGCGG
1 CGTTTGTATA-AAAACGCCACT-AAAGTCTGAGTCTATAGCGG
* **
838520 CGTTTGTATACAATTGCCACTAAAGT
1 CGTTTGTATAAAAACGCCACTAAAGT
838546 AAGAGTGATT
Statistics
Matches: 369, Mismatches: 91, Indels: 41
0.74 0.18 0.08
Matches are distributed among these distances:
39 33 0.09
40 14 0.04
41 202 0.55
42 50 0.14
43 67 0.18
44 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (41 bp):
CGTTTGTATAAAAACGCCACTAAAGTCTGAGTCTATAGCGG
Found at i:838312 original size:84 final size:83
Alignment explanation
Indices: 838079--838365 Score: 221
Period size: 84 Copynumber: 3.5 Consensus size: 83
838069 TTGTAAACAT
* * * * * * * *
838079 AAACGCCACTAAAGTAC-GAGTCTATAGCGGCATTTGGTAT-TAAAACCCCACTAAAGTAC-GAT
1 AAACGCCACGAAAGT-CTGAGTATATAGCGGCGTTT-GTATAAAAAACGCCACGAAAAT-CTGAG
** *
838141 TCTATAGCGGTGTTTGTATAA
63 TCTATAGCGACGTTTGTATAC
* * * * * *
838162 AAACGCCACAAAAG-CT-TGTCTATAGCGGCGTTTGTGT-AAAAATGCCACGAAAGTCTGAGTCT
1 AAACGCCACGAAAGTCTGAGTATATAGCGGCGTTTGTATAAAAAACGCCACGAAAATCTGAGTCT
*
838224 ATAGCGACGTTTGTTTAC
66 ATAGCGACGTTTGTATAC
** * * *
838242 AATTGCCACTATAGTAC-GAGTATATAGCGGCGTTTGTATAAAAAAACGCCACTAAAATACT-AG
1 AAACGCCACGAAAGT-CTGAGTATATAGCGGCGTTTGTAT-AAAAAACGCCACGAAAAT-CTGAG
* *
838305 TTTATAGCGGCGTTTGTATAC
63 TCTATAGCGACGTTTGTATAC
* *
838326 AAACGCCACGAAAGTCTGAGTCTATAGCGGCTTTTGTATA
1 AAACGCCACGAAAGTCTGAGTATATAGCGGCGTTTGTATA
838366 CAATTGCCAC
Statistics
Matches: 163, Mismatches: 32, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
79 1 0.01
80 45 0.28
81 16 0.10
82 19 0.12
83 15 0.09
84 65 0.40
85 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (83 bp):
AAACGCCACGAAAGTCTGAGTATATAGCGGCGTTTGTATAAAAAACGCCACGAAAATCTGAGTCT
ATAGCGACGTTTGTATAC
Found at i:838324 original size:164 final size:164
Alignment explanation
Indices: 838079--838575 Score: 470
Period size: 164 Copynumber: 3.0 Consensus size: 164
838069 TTGTAAACAT
* * * * * *
838079 AAACGCCACTAAAGTACGAGTCTATAGCGGCATTTGGTAT-TAAAACCCCACTAAAGTACGA-TT
1 AAACGCCACTAAAGTACGAGTATATAGCGGCGTTT-GTATAAAAAACGCCACTAAAATACTAGTT
* * * * *
838142 CTATAGCGGTGTTTGTATAAAAACGCCACAAAAGCT-TGTCTATAGCGGCGTTTGTGTAAAAATG
65 -TATAGCGGCGTTTGTATAAAAACGCCACAAAAGCTAAGTCTATAGCGGCGTTTGTATACAATTG
* ** ** *
838206 CCACGAAAGTCTGAGTCTATAGCGACGTTTGTTTAC
129 CCACTAAAGTAAGAGTCTATAGCGACGTTTGTCCAA
** *
838242 AATTGCCACTATAGTACGAGTATATAGCGGCGTTTGTATAAAAAAACGCCACTAAAATACTAGTT
1 AAACGCCACTAAAGTACGAGTATATAGCGGCGTTTGTAT-AAAAAACGCCACTAAAATACTAGTT
* * * *
838307 TATAGCGGCGTTTGTATACAAACGCCACGAAAGTCTGAGTCTATAGCGGCTTTTGTATACAATTG
65 TATAGCGGCGTTTGTATAAAAACGCCACAAAAG-CTAAGTCTATAGCGGCGTTTGTATACAATTG
* * * * **
838372 CCACTAAAGTAAGAGTGTTTTGTGGTGTTTGTCCAA
129 CCACTAAAGTAAGAGTCTATAGCGACGTTTGTCCAA
* * * ** * *
838408 AAACGCCGCTACATGTA-AAAAAT-TACCGGCGTTT-TCTATAAAAACGCCACTAAAATACTAGT
1 AAACGCCACTA-AAGTACGAGTATATAGCGGCGTTTGTATA-AAAAACGCCACTAAAATACTAGT
* * *
838470 TTATAGCAGCGTTTGTATACAAAA-GCCATGAAAATCTAAGTCTATAGCGGCGTTTGTATACAAT
64 TTATAGCGGCGTTTGTATA-AAAACGCCA-CAAAAGCTAAGTCTATAGCGGCGTTTGTATACAAT
* * *
838534 TGCCACTAAAGTAAGAGT-GATTTGCGGCGTTTGTCCAA
127 TGCCACTAAAGTAAGAGTCTA-TAGCGACGTTTGTCCAA
838572 AAAC
1 AAAC
838576 TCCGCTACAT
Statistics
Matches: 274, Mismatches: 50, Indels: 19
0.80 0.15 0.06
Matches are distributed among these distances:
162 4 0.01
163 31 0.11
164 158 0.58
165 20 0.07
166 58 0.21
167 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (164 bp):
AAACGCCACTAAAGTACGAGTATATAGCGGCGTTTGTATAAAAAACGCCACTAAAATACTAGTTT
ATAGCGGCGTTTGTATAAAAACGCCACAAAAGCTAAGTCTATAGCGGCGTTTGTATACAATTGCC
ACTAAAGTAAGAGTCTATAGCGACGTTTGTCCAA
Found at i:838348 original size:125 final size:121
Alignment explanation
Indices: 838056--838387 Score: 371
Period size: 125 Copynumber: 2.7 Consensus size: 121
838046 AAAGTACGCT
** * *
838056 TCTATAGTAGCGTTTGTAAACATAAACGCCACTAAAGTAC-GAGTCTATAGCGGCATTTGGTATT
1 TCTATAGCGGCGTTTGTATAC--AAACGCCACGAAAGT-CTGAGTCTATAGCGGCATTT-GT-TT
*** * * * * *
838120 A-AAACCCCACTAAAGTACGATTCTATAGCGGTGTTTGTATAAAAACGCCACAAAAGCTTG
61 ACAATTGCCACTAAAGTACGAGTATATAGCGGCGTTTGTATAAAAACGCCACAAAAACTAG
* * * * *
838180 TCTATAGCGGCGTTTGTGTAAAAATGCCACGAAAGTCTGAGTCTATAGCGACGTTTGTTTACAAT
1 TCTATAGCGGCGTTTGTATACAAACGCCACGAAAGTCTGAGTCTATAGCGGCATTTGTTTACAAT
*
838245 TGCCACTATAGTACGAGTATATAGCGGCGTTTGTATAAAAAAACGCCACTAAAATACTAG
66 TGCCACTAAAGTACGAGTATATAGCGGCGTTTGTAT--AAAAACGCCAC-AAAA-ACTAG
* * *
838305 TTTATAGCGGCGTTTGTATACAAACGCCACGAAAGTCTGAGTCTATAGCGGCTTTTGTATACAAT
1 TCTATAGCGGCGTTTGTATACAAACGCCACGAAAGTCTGAGTCTATAGCGGCATTTGTTTACAAT
*
838370 TGCCACTAAAGTAAGAGT
66 TGCCACTAAAGTACGAGT
838388 GTTTTGTGGT
Statistics
Matches: 175, Mismatches: 27, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
120 3 0.02
121 35 0.20
122 29 0.17
123 11 0.06
124 20 0.11
125 77 0.44
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (121 bp):
TCTATAGCGGCGTTTGTATACAAACGCCACGAAAGTCTGAGTCTATAGCGGCATTTGTTTACAAT
TGCCACTAAAGTACGAGTATATAGCGGCGTTTGTATAAAAACGCCACAAAAACTAG
Found at i:838583 original size:164 final size:165
Alignment explanation
Indices: 838269--838607 Score: 545
Period size: 164 Copynumber: 2.1 Consensus size: 165
838259 GAGTATATAG
* *
838269 CGGCGTTTGTATAAAAAAACGCCACTAAAATACTAGTTTATAGCGGCGTTTGTATACAAACGCCA
1 CGGCGTTTGTATAAAAAAACGCCACTAAAATACTAGTTTATAGCAGCGTTTGTATACAAAAGCCA
* * * * * *
838334 CGAAAGTCTGAGTCTATAGCGGCTTTTGTATACAATTGCCACTAAAGTAAGAGTGTTTTGTGGTG
66 CGAAAATCTAAGTCTATAGCGGCGTTTGTATACAATTGCCACTAAAGTAAGAGTGATTTGCGGCG
838399 TTTGTCCAAAAACGCCGCTACATGTAAAAAATTAC
131 TTTGTCCAAAAACGCCGCTACATGTAAAAAATTAC
* *
838434 CGGCGTTT-TCTATAAAAACGCCACTAAAATACTAGTTTATAGCAGCGTTTGTATACAAAAGCCA
1 CGGCGTTTGTATAAAAAAACGCCACTAAAATACTAGTTTATAGCAGCGTTTGTATACAAAAGCCA
*
838498 TGAAAATCTAAGTCTATAGCGGCGTTTGTATACAATTGCCACTAAAGTAAGAGTGATTTGCGGCG
66 CGAAAATCTAAGTCTATAGCGGCGTTTGTATACAATTGCCACTAAAGTAAGAGTGATTTGCGGCG
* *
838563 TTTGTCCAAAAACTCCGCTACATGTAAAAAATTAT
131 TTTGTCCAAAAACGCCGCTACATGTAAAAAATTAC
*
838598 TGGCGTTTGT
1 CGGCGTTTGT
838608 TTTAAAATGC
Statistics
Matches: 159, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
164 150 0.94
165 9 0.06
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (165 bp):
CGGCGTTTGTATAAAAAAACGCCACTAAAATACTAGTTTATAGCAGCGTTTGTATACAAAAGCCA
CGAAAATCTAAGTCTATAGCGGCGTTTGTATACAATTGCCACTAAAGTAAGAGTGATTTGCGGCG
TTTGTCCAAAAACGCCGCTACATGTAAAAAATTAC
Found at i:839275 original size:24 final size:24
Alignment explanation
Indices: 839247--839298 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
839237 CGAGTCTGGA
*
839247 GAACATAAACGAACGAACATAAAT
1 GAACATAAACGAACAAACATAAAT
* *
839271 GAACATAAATGGACAAACATAAAT
1 GAACATAAACGAACAAACATAAAT
839295 GAAC
1 GAAC
839299 GAATTATAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.58, C:0.15, G:0.13, T:0.13
Consensus pattern (24 bp):
GAACATAAACGAACAAACATAAAT
Found at i:839587 original size:20 final size:20
Alignment explanation
Indices: 839559--839608 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
839549 AGACTGTCAA
* * *
839559 TTTTGAAACTTGTCCTAGAG
1 TTTTAAAACTTCTACTAGAG
839579 TTTTAAAAC-TCTACTAGAG
1 TTTTAAAACTTCTACTAGAG
*
839598 TTTCAAAACTT
1 TTTTAAAACTT
839609 TTATCCATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (20 bp):
TTTTAAAACTTCTACTAGAG
Found at i:848995 original size:20 final size:22
Alignment explanation
Indices: 848965--849008 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
848955 ATTTAATACA
*
848965 TTAATAATTTA-TAATTTTTAT
1 TTAATAATTTATTAATTTTAAT
848986 TTAA-AATTTATTAATTTTAAT
1 TTAATAATTTATTAATTTTAAT
849007 TT
1 TT
849009 TTTAAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTAATAATTTATTAATTTTAAT
Found at i:849013 original size:14 final size:15
Alignment explanation
Indices: 848969--849013 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 15
848959 AATACATTAA
848969 TAATTTATAA-TTTT
1 TAATTTATAATTTTT
* *
848983 T-ATTTAAAATTTAT
1 TAATTTATAATTTTT
848997 TAATTT-TAATTTTT
1 TAATTTATAATTTTT
849011 TAA
1 TAA
849014 AATAATATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 7 0.28
14 14 0.56
15 4 0.16
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TAATTTATAATTTTT
Found at i:861109 original size:245 final size:245
Alignment explanation
Indices: 860679--861168 Score: 971
Period size: 245 Copynumber: 2.0 Consensus size: 245
860669 ACCAGTGCAT
860679 TGGTCACCAATAAGATGCCTCAGAAACTCCTCAAACTCTTCATCAGGAGCCTACAAAACAGGGTG
1 TGGTCACCAATAAGATGCCTCAGAAACTCCTCAAACTCTTCATCAGGAGCCTACAAAACAGGGTG
860744 ACTTAACAAAGTTTACACAACATTTCTCACAATTAAACCATTAGGTTTCGATTGTCAAAACAAAA
66 ACTTAACAAAGTTTACACAACATTTCTCACAATTAAACCATTAGGTTTCGATTGTCAAAACAAAA
860809 TTGCAGATTTAAGGCAAAATTCAGAAACTTATGAATACATTGGTAAGCCCTATGACACAGGCTGG
131 TTGCAGATTTAAGGCAAAATTCAGAAACTTATGAATACATTGGTAAGCCCTATGACACAGGCTGG
860874 CAATATAAAAAAAATTACTTAAAATAAAACTACACACCAATCGAACCCCA
196 CAATATAAAAAAAATTACTTAAAATAAAACTACACACCAATCGAACCCCA
860924 TGGTCACCAATAAGATGCCTCAGAAACTCCTCAAACTCTTCATCAGGAGCCTACAAAACAGGGTG
1 TGGTCACCAATAAGATGCCTCAGAAACTCCTCAAACTCTTCATCAGGAGCCTACAAAACAGGGTG
*
860989 ACTTAACCAAGTTTACACAACATTTCTCACAATTAAACCATTAGGTTTCGATTGTCAAAACAAAA
66 ACTTAACAAAGTTTACACAACATTTCTCACAATTAAACCATTAGGTTTCGATTGTCAAAACAAAA
861054 TTGCAGATTTAAGGCAAAATTCAGAAACTTATGAATACATTGGTAAGCCCTATGACACAGGCTGG
131 TTGCAGATTTAAGGCAAAATTCAGAAACTTATGAATACATTGGTAAGCCCTATGACACAGGCTGG
861119 CAATATAAAAAAAATTACTTAAAATAAAACTACACACCAATCGAACCCCA
196 CAATATAAAAAAAATTACTTAAAATAAAACTACACACCAATCGAACCCCA
861169 AATGCCTTTG
Statistics
Matches: 244, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
245 244 1.00
ACGTcount: A:0.41, C:0.22, G:0.13, T:0.24
Consensus pattern (245 bp):
TGGTCACCAATAAGATGCCTCAGAAACTCCTCAAACTCTTCATCAGGAGCCTACAAAACAGGGTG
ACTTAACAAAGTTTACACAACATTTCTCACAATTAAACCATTAGGTTTCGATTGTCAAAACAAAA
TTGCAGATTTAAGGCAAAATTCAGAAACTTATGAATACATTGGTAAGCCCTATGACACAGGCTGG
CAATATAAAAAAAATTACTTAAAATAAAACTACACACCAATCGAACCCCA
Found at i:863989 original size:91 final size:91
Alignment explanation
Indices: 863877--864061 Score: 370
Period size: 91 Copynumber: 2.0 Consensus size: 91
863867 CATCTCCGCT
863877 AAATTGCATTGAAAATTAAAGCATTTCCTAATATGAATAATTCTCCCTGAAATTAACATTAAAGG
1 AAATTGCATTGAAAATTAAAGCATTTCCTAATATGAATAATTCTCCCTGAAATTAACATTAAAGG
863942 CAGTCTTATTTAGATATATTAGATTG
66 CAGTCTTATTTAGATATATTAGATTG
863968 AAATTGCATTGAAAATTAAAGCATTTCCTAATATGAATAATTCTCCCTGAAATTAACATTAAAGG
1 AAATTGCATTGAAAATTAAAGCATTTCCTAATATGAATAATTCTCCCTGAAATTAACATTAAAGG
864033 CAGTCTTATTTAGATATATTAGATTG
66 CAGTCTTATTTAGATATATTAGATTG
864059 AAA
1 AAA
864062 ATTCGCTTGC
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 94 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.36
Consensus pattern (91 bp):
AAATTGCATTGAAAATTAAAGCATTTCCTAATATGAATAATTCTCCCTGAAATTAACATTAAAGG
CAGTCTTATTTAGATATATTAGATTG
Found at i:864021 original size:49 final size:49
Alignment explanation
Indices: 863869--864021 Score: 121
Period size: 49 Copynumber: 3.3 Consensus size: 49
863859 AGTGATATCA
863869 TCTCCGCT-AAATTGCATTGAAAATTAAAGCATTTCCTAATATGAATAAT
1 TCTCC-CTGAAATTGCATTGAAAATTAAAGCATTTCCTAATATGAATAAT
* * * *
863918 TCTCCCTG-AA----ATT-AACATTAAAGGCA-GT-CTTAT-TTAGATATAT
1 TCTCCCTGAAATTGCATTGAAAATTAAA-GCATTTCCTAATATGA-ATA-AT
****
863961 T-AGATTGAAATTGCATTGAAAATTAAAGCATTTCCTAATATGAATAAT
1 TCTCCCTGAAATTGCATTGAAAATTAAAGCATTTCCTAATATGAATAAT
864009 TCTCCCTGAAATT
1 TCTCCCTGAAATT
864022 AACATTAAAG
Statistics
Matches: 74, Mismatches: 16, Indels: 28
0.63 0.14 0.24
Matches are distributed among these distances:
41 2 0.03
42 9 0.12
43 14 0.19
44 6 0.08
47 6 0.08
48 16 0.22
49 19 0.26
50 2 0.03
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (49 bp):
TCTCCCTGAAATTGCATTGAAAATTAAAGCATTTCCTAATATGAATAAT
Found at i:864064 original size:43 final size:43
Alignment explanation
Indices: 863926--864064 Score: 97
Period size: 43 Copynumber: 3.1 Consensus size: 43
863916 ATTCTCCCTG
863926 AAATTAACATTAAAGGCAGTCTTATTTAGATATATTAGATTGA
1 AAATTAACATTAAAGGCAGTCTTATTTAGATATATTAGATTGA
* * * * ****
863969 AATTGCATTGAAAATTAAA-GCATTTCCTA-ATATGA-ATAATTCTCCCTG-
1 AA----ATT-AACATTAAAGGCA-GTCTTATTTA-GATAT-ATT-AGATTGA
864017 AAATTAACATTAAAGGCAGTCTTATTTAGATATATTAGATTGA
1 AAATTAACATTAAAGGCAGTCTTATTTAGATATATTAGATTGA
864060 AAATT
1 AAATT
864065 CGCTTGCTAG
Statistics
Matches: 67, Mismatches: 16, Indels: 26
0.61 0.15 0.24
Matches are distributed among these distances:
42 2 0.03
43 24 0.36
44 10 0.15
47 10 0.15
48 19 0.28
49 2 0.03
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (43 bp):
AAATTAACATTAAAGGCAGTCTTATTTAGATATATTAGATTGA
Found at i:865082 original size:16 final size:16
Alignment explanation
Indices: 865061--865115 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
865051 GGTATTACTC
865061 GACCTGTTTTCAACCT
1 GACCTGTTTTCAACCT
* *
865077 GACCTGTTATGAACCT
1 GACCTGTTTTCAACCT
* *
865093 GACATGTTTTTAACCT
1 GACCTGTTTTCAACCT
865109 GACCTGT
1 GACCTGT
865116 AAATGATTCG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.36
Consensus pattern (16 bp):
GACCTGTTTTCAACCT
Found at i:865304 original size:21 final size:21
Alignment explanation
Indices: 865280--865342 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 21
865270 AATTTTATAA
*
865280 TAAAATATTAATTATGATCAT
1 TAAAATATTAAATATGATCAT
* *
865301 TAAATTAATAAATAT-A-C-T
1 TAAAATATTAAATATGATCAT
* * *
865319 TAATATATTAAGTATGATAAT
1 TAAAATATTAAATATGATCAT
865340 TAA
1 TAA
865343 TATACTTTAT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
18 12 0.39
19 2 0.06
20 1 0.03
21 16 0.52
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (21 bp):
TAAAATATTAAATATGATCAT
Found at i:865345 original size:30 final size:29
Alignment explanation
Indices: 865306--865387 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 29
865296 ATCATTAAAT
*
865306 TAATAAATATACTTAATATATTAAGTA-TGA
1 TAATTAATATACTTAATAT-TTAA-TACTGA
* *
865336 TAATTAATATACTTTATATTTAATACTTA
1 TAATTAATATACTTAATATTTAATACTGA
865365 TAATT-ATATACCTTAATACTTTA
1 TAATTAATATA-CTTAATA-TTTA
865388 TATTTAATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
28 7 0.16
29 17 0.38
30 21 0.47
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.46
Consensus pattern (29 bp):
TAATTAATATACTTAATATTTAATACTGA
Found at i:865373 original size:28 final size:29
Alignment explanation
Indices: 865312--865424 Score: 94
Period size: 29 Copynumber: 3.9 Consensus size: 29
865302 AAATTAATAA
*
865312 ATATACTTAATA-TATTAAGTA-TGATAATT
1 ATATACTTAATACT-TTAA-TACTTATAATT
*
865341 AATATACTTTATA-TTTAATACTTATAATT
1 -ATATACTTAATACTTTAATACTTATAATT
* *
865370 ATATACCTTAATACTTT-ATATTTAATACTT
1 ATATA-CTTAATACTTTAATACTT-ATAATT
865400 ATAT--TTATATACTTTAATACTTATA
1 ATATACTTA-ATACTTTAATACTTATA
865425 TCCAAACACT
Statistics
Matches: 71, Mismatches: 6, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
27 3 0.04
28 17 0.24
29 27 0.38
30 24 0.34
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.50
Consensus pattern (29 bp):
ATATACTTAATACTTTAATACTTATAATT
Found at i:865385 original size:36 final size:36
Alignment explanation
Indices: 865344--865425 Score: 139
Period size: 36 Copynumber: 2.3 Consensus size: 36
865334 GATAATTAAT
865344 ATACTTTATATTTAATACTTATAATTATATACCTTA
1 ATACTTTATATTTAATACTTATAATTATATACCTTA
* *
865380 ATACTTTATATTTAATACTTATATTTATATACTTTA
1 ATACTTTATATTTAATACTTATAATTATATACCTTA
865416 ATAC-TTATAT
1 ATACTTTATAT
865426 CCAAACACTT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
35 6 0.14
36 38 0.86
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (36 bp):
ATACTTTATATTTAATACTTATAATTATATACCTTA
Found at i:865397 original size:22 final size:22
Alignment explanation
Indices: 865355--865419 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
865345 TACTTTATAT
*
865355 TTAATAC-TTATAATTATATACC
1 TTAATACTTTATATTTA-ATACC
865377 TTAATACTTTATATTTAATA-C
1 TTAATACTTTATATTTAATACC
*
865398 TT-ATATTTATATACTTTAATAC
1 TTAATACTT-TATA-TTTAATAC
865420 TTATATCCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
20 5 0.14
21 7 0.19
22 17 0.46
23 8 0.22
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (22 bp):
TTAATACTTTATATTTAATACC
Found at i:865420 original size:22 final size:22
Alignment explanation
Indices: 865386--865476 Score: 89
Period size: 22 Copynumber: 4.2 Consensus size: 22
865376 CTTAATACTT
865386 TATA-TTTAATACTTATATTTA
1 TATACTTTAATACTTATATTTA
**
865407 TATACTTTAATACTTATATCCA
1 TATACTTTAATACTTATATTTA
* * *
865429 AACACTTTATTACTT-TATATTA
1 TATACTTTAATACTTATAT-TTA
*
865451 TATACTTT-ATACTATATATATA
1 TATACTTTAATACT-TATATTTA
865473 TATA
1 TATA
865477 TATATATATA
Statistics
Matches: 55, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
21 11 0.20
22 41 0.75
23 3 0.05
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (22 bp):
TATACTTTAATACTTATATTTA
Found at i:865424 original size:14 final size:13
Alignment explanation
Indices: 865344--865413 Score: 58
Period size: 13 Copynumber: 5.5 Consensus size: 13
865334 GATAATTAAT
865344 ATACTTTATATTTA
1 ATAC-TTATATTTA
*
865358 ATACTTATAATT-
1 ATACTTATATTTA
**
865370 ATA--TA-CCTTA
1 ATACTTATATTTA
865380 ATACTTTATATTTA
1 ATAC-TTATATTTA
865394 ATACTTATATTTA
1 ATACTTATATTTA
865407 TATACTT
1 -ATACTT
865414 TAATACTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
9 2 0.04
10 5 0.11
12 3 0.07
13 18 0.40
14 17 0.38
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (13 bp):
ATACTTATATTTA
Found at i:865468 original size:2 final size:2
Alignment explanation
Indices: 865444--865506 Score: 92
Period size: 2 Copynumber: 31.0 Consensus size: 2
865434 TTTATTACTT
*
865444 TA TA T- TA TA TA CTT TA TA CTA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
865487 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
865507 CACTTACTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
1 1 0.02
2 52 0.93
3 3 0.05
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:865903 original size:60 final size:64
Alignment explanation
Indices: 865839--865965 Score: 217
Period size: 60 Copynumber: 2.0 Consensus size: 64
865829 ATTTAAATCT
865839 AAATACAATAAACAACATAAAAGGATC-AATCAAAAAAATTAT-AA-AT-AGGAAAAATTGTAA
1 AAATACAATAAACAACATAAAAGGATCAAATCAAAAAAATTATAAATATGAGGAAAAATTGTAA
865899 AAATACAATAAACAACATAAAAGGATCAAATCAAAAAAATTATAAAATATGAGGAAAAATTGTAA
1 AAATACAATAAACAACATAAAAGGATCAAATCAAAAAAATTAT-AAATATGAGGAAAAATTGTAA
865964 AA
1 AA
865966 TGGACTGAAT
Statistics
Matches: 62, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
60 27 0.44
61 15 0.24
63 2 0.03
64 2 0.03
65 16 0.26
ACGTcount: A:0.64, C:0.08, G:0.09, T:0.20
Consensus pattern (64 bp):
AAATACAATAAACAACATAAAAGGATCAAATCAAAAAAATTATAAATATGAGGAAAAATTGTAA
Found at i:866099 original size:6 final size:6
Alignment explanation
Indices: 866076--866409 Score: 563
Period size: 6 Copynumber: 56.3 Consensus size: 6
866066 ATATATAATG
866076 TACATTA TACAT- TACATA TACATA TACATA TACATA TACATA TAC--A
1 TACA-TA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
866122 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
*
866170 TACATA TACATA TACATA TACATA TACATA TACATA TACTATA CACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TAC-ATA TACATA
866219 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
866267 TAC--A TACATA TAC-TA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
*
866312 TACATA TACATA TACATA TACATA TACATA TACATA TACATT TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* * *
866360 TACATA TACATA TACATA TACATA TACATA TGCATA TGCATA TGCATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
866408 TA
1 TA
866410 TAATTATACT
Statistics
Matches: 314, Mismatches: 6, Indels: 15
0.94 0.02 0.04
Matches are distributed among these distances:
4 8 0.03
5 10 0.03
6 287 0.91
7 9 0.03
ACGTcount: A:0.48, C:0.17, G:0.01, T:0.34
Consensus pattern (6 bp):
TACATA
Found at i:866949 original size:2 final size:2
Alignment explanation
Indices: 866944--867800 Score: 224
Period size: 2 Copynumber: 432.0 Consensus size: 2
866934 AGTATATAGC
* * *
866944 TA TA TA TA TA TA TA CT- TA TA TA TA AA TA TA AA CA TA TA TA T-
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
866985 TA -A TA TA -A AA GTA TA TA CA TA TA -A GTA TA TA TA TA AA GTG
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA
* *
867025 TA AA CTA TA AA CTA TA -A GTA TA T- TA TA -A GTA TA TA TA TA TA
1 TA TA -TA TA TA -TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA
* * * * *
867066 AA CTA TA AA GTA TA TA TA TA CTT TA TA T- TA -A AA CTT TA TA TA
1 TA -TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA
* *
867108 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TC TT TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
867149 TA TA -A CT- TA TA TA TA TA AA GT- TG TA GTA TA AA TT TA TA TA
1 TA TA TA -TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA
*
867189 TA TA TA TA TA TA TA TA TA TA -A T- TA TA TA -A TA TA AA GTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * * *
867229 TA -A GTA TA AA GTA TA TA TA TA TA AA GTG TG TA TA TT TA TA TA
1 TA TA -TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * * *
867271 TCA -A GTA TA TA TA AA GTG TG TA TA TA TA TA GTA -A TA TA AA GTA
1 T-A TA -TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA -TA
* * * * * * * *
867314 TA TA TA TA TA TA TA CTT TA TA TA AA GTG TG TG TG TG TG TA TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
*
867358 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
** *
867399 TA GTA TA -A GTA TA TA GG TA TA TA GTA -A TA TA AA T- TA TA TA
1 TA -TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * *
867439 -A GTA TA TA -A TA GA AA GTA TA TA AA TA T- TA -A TA TA -A GTA
1 TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA
* *
867477 TA TA T- TA TA TA TA TA TA TA TA TA GT- TT TA GTA TA AA GTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA -TA TA
* *
867518 TA CA TA TA -A TA -A TA TA AA GTA TA -A GTA TA -A GTA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA -TA TA TA TA
* * * * *
867556 TA T- TA TA TA TA TA AA AA GTA TA -A T- TA TA AA AA T- TA AA T-
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
** *
867594 TA TA TA -A GTA TA TA TA CG TA TA TA -A TA -A TA TA AA GTA TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * **
867635 -A GTA TA TA -A TA TA -A AA TA TA TA -A GTA T- TA AA TA TA -A GG
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * *
867673 TA TA TA -A GTA TA TA AA TA TA TA AA TA TA TA TA TA TA TA AA CTA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * * * * *
867716 TA AA GTG TG TA TA TA TA TA TA TA TA -A AA T- TT TA GTA TA AA GTA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA
* * *
867759 TA TA TA CA TA TA TA -A TA -A TA TA AA GTA TA AA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
867799 TA
1 TA
867801 GAGAGAGAGT
Statistics
Matches: 636, Mismatches: 114, Indels: 210
0.66 0.12 0.22
Matches are distributed among these distances:
1 56 0.09
2 533 0.84
3 47 0.07
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (2 bp):
TA
Found at i:867053 original size:11 final size:12
Alignment explanation
Indices: 867037--867905 Score: 141
Period size: 12 Copynumber: 72.3 Consensus size: 12
867027 AACTATAAAC
867037 TATAAGTATAT-
1 TATAAGTATATA
867048 TATAAGTATATA
1 TATAAGTATATA
*
867060 TAT-A-TAAACTA
1 TATAAGTATA-TA
867071 TA-AAGTATATA
1 TATAAGTATATA
* *
867082 TAT-ACTTTATA
1 TATAAGTATATA
* * *
867093 TTAAAACTTTATA
1 -TATAAGTATATA
867106 TAT-A-TATATA
1 TATAAGTATATA
867116 TAT-A-TATATA
1 TATAAGTATATA
867126 TAT-A-TATATA
1 TATAAGTATATA
** *
867136 TATATCTTTATA
1 TATAAGTATATA
*
867148 TTATAACTTATATA
1 -TATAA-GTATATA
*
867162 TATAAAGT-TGTA
1 TAT-AAGTATATA
*
867174 GTATAA--ATTTA
1 -TATAAGTATATA
867185 TAT-A-TATATA
1 TATAAGTATATA
867195 TAT-A-TATATA
1 TATAAGTATATA
*
867205 TATAATTATATAA
1 TATAAGTATAT-A
867218 TATAAAGTATATAA
1 TAT-AAGTATAT-A
867232 GTATAAAGTATATATA
1 -TAT-AAG--TATATA
* *
867248 TATAAAGTGTGTA
1 TAT-AAGTATATA
867261 TAT---T-TATA
1 TATAAGTATATA
867269 TATCAAGTATATA
1 TAT-AAGTATATA
*
867282 TA-AAGTGTGTATA
1 TATAA--GTATATA
867295 TATATAGTA-ATA
1 TATA-AGTATATA
867307 TA-AAGTATATA
1 TATAAGTATATA
867318 TATATA-TATACTTTA
1 TATA-AGTATA---TA
* * *
867333 TATAAAGTGTGTG
1 TAT-AAGTATATA
* **
867346 TGTGTGTATATA
1 TATAAGTATATA
867358 TATATA-TATATA
1 TATA-AGTATATA
867370 TATATA-TATATA
1 TATA-AGTATATA
867382 TATATA-TATATA
1 TATA-AGTATATA
*
867394 TATTTTAGTATAAGTA
1 TA--TAAGTAT-A-TA
*
867410 TATAGGTATATA
1 TATAAGTATATA
*
867422 GTA-ATA-TAAATTA
1 -TATA-AGTATA-TA
867435 TATAAGTATATA
1 TATAAGTATATA
*
867447 -AT-AG-AAAGTA
1 TATAAGTATA-TA
*
867457 TATAAATAT-TAA
1 TATAAGTATAT-A
867469 TATAAGTATATA
1 TATAAGTATATA
867481 TTATATA-TATATA
1 -TATA-AGTATATA
*
867494 TATATAGT-TTTA
1 TATA-AGTATATA
867506 GTATAAAGTATATACA
1 -TAT-AAGTATAT--A
867522 TATAA-TA-ATA
1 TATAAGTATATA
867532 TA-AAGTATA-A
1 TATAAGTATATA
867542 GTATAAGTATATTA
1 -TATAAGTATA-TA
*
867556 TATTA-TATATA
1 TATAAGTATATA
*
867567 TAAAAAGTATAATTA
1 T-ATAAGTAT-A-TA
* * *
867582 TAAAAATTAAATTA
1 T-ATAAGTATA-TA
867596 TATAAG--TATA
1 TATAAGTATATA
*
867606 TATACGTATATA
1 TATAAGTATATA
867618 -ATAA-TATAAAGTA
1 TATAAGTAT--A-TA
867631 TATAAGTATATAA
1 TATAAGTATAT-A
867644 TATAA--A-ATA
1 TATAAGTATATA
*
867653 TATAAGTATTAAA
1 TATAAGTA-TATA
867666 TATAAGGTATATA
1 TATAA-GTATATA
*
867679 -AGTATA-TAAATA
1 TA-TA-AGTATATA
*
867691 TATAAATATATA
1 TATAAGTATATA
*
867703 TAT-A-TATAAA
1 TATAAGTATATA
* *
867713 CTATAAAGTGTGTA
1 -TAT-AAGTATATA
867727 TATATA-TATATA
1 TATA-AGTATATA
* * *
867739 TAAAATTTTAGTA
1 TATAAGTATA-TA
867752 TA-AAGTATATA
1 TATAAGTATATA
*
867763 TA-CA-TATATA
1 TATAAGTATATA
*
867773 -ATAA-TATAAA
1 TATAAGTATATA
*
867783 GTATAAATATATTA
1 -TATAAGTATA-TA
* *
867797 TATAGAG-AGAGA
1 TATA-AGTATATA
867809 GTATAA-T-TATA
1 -TATAAGTATATA
* *
867820 -A-AGACTAAAGTA
1 TATA-AGTATA-TA
*
867832 TATAAGCATATAA
1 TATAAGTATAT-A
867845 TATAA--AT-TA
1 TATAAGTATATA
867854 TATAAGTATATAA
1 TATAAGTATAT-A
867867 TATAA--A-ATA
1 TATAAGTATATA
*
867876 TATAAGTATTAAA
1 TATAAGTA-TATA
867889 TATAAAGTATATA
1 TAT-AAGTATATA
867902 TATA
1 TATA
867906 TATAGACACG
Statistics
Matches: 651, Mismatches: 85, Indels: 243
0.66 0.09 0.25
Matches are distributed among these distances:
8 7 0.01
9 27 0.04
10 98 0.15
11 77 0.12
12 169 0.26
13 163 0.25
14 58 0.09
15 38 0.06
16 9 0.01
17 5 0.01
ACGTcount: A:0.49, C:0.01, G:0.08, T:0.41
Consensus pattern (12 bp):
TATAAGTATATA
Found at i:867850 original size:22 final size:22
Alignment explanation
Indices: 867418--868015 Score: 276
Period size: 22 Copynumber: 27.6 Consensus size: 22
867408 TATATAGGTA
*
867418 TATAGTAATATAAATTATATAAG
1 TATA-TAATATAAAGTATATAAG
* *
867441 TATATAATAGAAAGTATATAAA
1 TATATAATATAAAGTATATAAG
*
867463 TAT-TAATAT-AAGTATAT-AT
1 TATATAATATAAAGTATATAAG
*
867482 TATAT-ATATATA-TATAT-AG
1 TATATAATATAAAGTATATAAG
* *
867501 T-TTTAGTATAAAGTATATACA-
1 TATATAATATAAAGTATATA-AG
867522 TATAATAATATAAAGTATAAGTATAAG
1 TAT-ATAATATAAAG--T-A-TATAAG
* * *
867549 TATATTATATTATA-TATATAAA
1 TATATAATAT-AAAGTATATAAG
* *
867571 AAGTATAATTATAAA-AAT-TAA-
1 TA-TATAA-TATAAAGTATATAAG
867592 -AT-T-ATAT-AAGTATATATACG
1 TATATAATATAAAGTATATA-A-G
867612 TATATAATAATATAAAGTATATAAG
1 --TAT-ATAATATAAAGTATATAAG
*
867637 TATATAATATAAAATATATAAG
1 TATATAATATAAAGTATATAAG
*
867659 TAT-TAAATATAAGGTATATAAG
1 TATAT-AATATAAAGTATATAAG
*
867681 TATATAAATATATAAATATATATA-
1 TATAT-AATATA-AAGTATATA-AG
* *
867705 TATATAAACTATAAAGTGTGTATA-
1 TATAT-AA-TATAAAGTATATA-AG
* *
867729 TATATATATATAAA--ATTTTAG
1 TATATA-ATATAAAGTATATAAG
* *
867750 TATA-AAGTATATA-TACAT-A-
1 TATATAA-TATAAAGTATATAAG
867769 TATAATAATATAAAGTATA-AA-
1 TAT-ATAATATAAAGTATATAAG
* * *
867790 TATATTATATAGAGAGAGAGTATAAT
1 TATATAATATA-A-AG-TA-TATAAG
*
867816 TATA-AAGACTAAAGTATATAAG
1 TATATAATA-TAAAGTATATAAG
* *
867838 CATATAATATAAATTATATAAG
1 TATATAATATAAAGTATATAAG
*
867860 TATATAATATAAAATATATAAG
1 TATATAATATAAAGTATATAAG
867882 TAT-TAAATATAAAGTATAT-A-
1 TATAT-AATATAAAGTATATAAG
* *
867902 TATAT-ATAGACACG--TAT-A-
1 TATATAATATA-AAGTATATAAG
*
867920 TA-ATAATCTAAAGTATATAAG
1 TATATAATATAAAGTATATAAG
867941 TAT-TAA-ATATAAGTTATATAAG
1 TATATAATATA-AAG-TATATAAG
* *
867963 TAT-TAAATATAATGTTTATAAG
1 TATAT-AATATAAAGTATATAAG
867985 TATATAA-ATAAAG--TATAAG
1 TATATAATATAAAGTATATAAG
868004 TATAT-ATATAAA
1 TATATAATATAAA
868016 CAATAATATA
Statistics
Matches: 454, Mismatches: 57, Indels: 132
0.71 0.09 0.21
Matches are distributed among these distances:
15 2 0.00
16 5 0.01
17 7 0.02
18 14 0.03
19 48 0.11
20 45 0.10
21 41 0.09
22 150 0.33
23 52 0.11
24 40 0.09
25 13 0.03
26 19 0.04
27 18 0.04
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.38
Consensus pattern (22 bp):
TATATAATATAAAGTATATAAG
Found at i:867861 original size:103 final size:103
Alignment explanation
Indices: 867750--868013 Score: 233
Period size: 103 Copynumber: 2.5 Consensus size: 103
867740 AAAATTTTAG
* *
867750 TATA-AAGTATATATACAT-ATATA-ATAA-TA-TAAAGTATAAA-TATAT-TATATAGAGAGAG
1 TATATAAGTATATA-ACATAAAATATATAAGTATTAAA-TATAAAGTATATATATATAGAGACA-
*
867808 AGTATAATTATAAAGACTAAAGTATATAAGCA-TATAATATAAAT
63 AGTAT-ATAAT-AA-ACTAAAGTATATAAGCATTA-AATATAAAT
* * *
867852 TATATAAGTATATAATATAAAATATATAAGTATTAAATATAAAGTATATATATATATAGACACGT
1 TATATAAGTATATAACATAAAATATATAAGTATTAAATATAAAGTATATATATATAGAGACAAGT
* * *
867917 ATATAATAATCTAAAGTATATAAGTATTAAATATAAGT
66 ATATAATAAACTAAAGTATATAAGCATTAAATATAAAT
* *
867955 TATATAAGTAT-TAA-ATATAATGTTTATAAGTATATAAATAAAGTATAAGTATATATATA
1 TATATAAGTATATAACATA-AA-ATATATAAGTAT-TAAAT--A-TA-AAGTATATATATA
868014 AACAATAATA
Statistics
Matches: 136, Mismatches: 11, Indels: 24
0.80 0.06 0.14
Matches are distributed among these distances:
101 3 0.02
102 12 0.09
103 57 0.42
104 13 0.10
105 12 0.09
106 14 0.10
107 12 0.09
108 13 0.10
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.36
Consensus pattern (103 bp):
TATATAAGTATATAACATAAAATATATAAGTATTAAATATAAAGTATATATATATAGAGACAAGT
ATATAATAAACTAAAGTATATAAGCATTAAATATAAAT
Found at i:867952 original size:13 final size:13
Alignment explanation
Indices: 867934--867974 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
867924 AATCTAAAGT
867934 ATATAAGTATTAA
1 ATATAAGTATTAA
867947 ATATAAG--TT--
1 ATATAAGTATTAA
867956 ATATAAGTATTAA
1 ATATAAGTATTAA
867969 ATATAA
1 ATATAA
867975 TGTTTATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
9 7 0.29
11 4 0.17
13 13 0.54
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (13 bp):
ATATAAGTATTAA
Found at i:868021 original size:19 final size:19
Alignment explanation
Indices: 867980--868031 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
867970 TATAATGTTT
* **
867980 ATAAGTATATAAATAAAGT
1 ATAAGTATATATATAAACA
867999 ATAAGTATATATATAAACA
1 ATAAGTATATATATAAACA
868018 ATAA-TATATATATA
1 ATAAGTATATATATA
868032 CACTTTATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 10 0.33
19 20 0.67
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.35
Consensus pattern (19 bp):
ATAAGTATATATATAAACA
Found at i:868703 original size:25 final size:24
Alignment explanation
Indices: 868674--868736 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
868664 TAAATTGCAC
*
868674 CGAAGTACCGCATAGAAATTTGTCA
1 CGAAGGACCGCATAG-AATTTGTCA
** *
868699 CGAAGGACCGTGTAGAATTTGTCC
1 CGAAGGACCGCATAGAATTTGTCA
* *
868723 CGAAAGACCACATA
1 CGAAGGACCGCATA
868737 TAAATTCCTT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
24 18 0.60
25 12 0.40
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (24 bp):
CGAAGGACCGCATAGAATTTGTCA
Found at i:875157 original size:69 final size:69
Alignment explanation
Indices: 875046--875184 Score: 278
Period size: 69 Copynumber: 2.0 Consensus size: 69
875036 AGAGCATACA
875046 CAACTTAACCCTTTAGTTACATGCCAACACCCATTTACATAACAAAATAACCTACTGATTAAGTT
1 CAACTTAACCCTTTAGTTACATGCCAACACCCATTTACATAACAAAATAACCTACTGATTAAGTT
875111 ACTT
66 ACTT
875115 CAACTTAACCCTTTAGTTACATGCCAACACCCATTTACATAACAAAATAACCTACTGATTAAGTT
1 CAACTTAACCCTTTAGTTACATGCCAACACCCATTTACATAACAAAATAACCTACTGATTAAGTT
875180 ACTT
66 ACTT
875184 C
1 C
875185 TGATCTGATA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (69 bp):
CAACTTAACCCTTTAGTTACATGCCAACACCCATTTACATAACAAAATAACCTACTGATTAAGTT
ACTT
Found at i:875587 original size:24 final size:25
Alignment explanation
Indices: 875547--875595 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
875537 CCGAAGTGCT
*
875547 GCGTAGAAATTTTTCCCGAAGGACC
1 GCGTAGAAATTTATCCCGAAGGACC
875572 GCGTAG-AATTTATCCCGAAGGACC
1 GCGTAGAAATTTATCCCGAAGGACC
875596 ACATATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.22
Consensus pattern (25 bp):
GCGTAGAAATTTATCCCGAAGGACC
Found at i:876905 original size:2 final size:2
Alignment explanation
Indices: 876898--877323 Score: 205
Period size: 2 Copynumber: 213.0 Consensus size: 2
876888 GGACGTTACA
876898 AT AT AT AT A- AT AT AT AT AT AT AT AT AT A- AT AT ACT -T AT ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T
* * *
876939 TT AT AT -T AT -T AT AT AT GT AT AT AT ACT TT AT AT -T CA- AT ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT -AT AT A-T
* * * * *
876980 -T GT AT AT -T TT AT AT -T AT AT AT AT AT AT ACT TT AGT CT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT A-T AT AT AT
* *
877021 A- AT -T AT ACT TT AT AT AT AT AT A- AT AT ACT -T AT ACT TT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT
* * * *
877060 AT -T AT -T AT AT AT GA- AT AA AT ACT TT AT ACT A- AA ACT TT AT
1 AT AT AT AT AT AT AT -AT AT AT AT A-T AT AT A-T AT AT A-T AT AT
* * * *
877100 AT AT AT AT AC ACT TT AT AGT TT AT AT AT AT AT A- AT AT AT AT GT
1 AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
*
877143 AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
877185 AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT ACT TT AGT CT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT A-T AT
* * * *
877229 TT AT A- AT -T AT ACT TT AT AT AT AT AT ACT -T ACT TT AT AT TT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT A-T AT AT AT AT
* * * *
877269 TT AT AT AT GT AT AT AT ACT TT AT AT AT AT AT AT AT A- AT TT AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
*
877311 AGT TT AT AT AT AT
1 A-T AT AT AT AT AT
877324 TGTTAAGATT
Statistics
Matches: 323, Mismatches: 55, Indels: 92
0.69 0.12 0.20
Matches are distributed among these distances:
1 23 0.07
2 279 0.86
3 21 0.07
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.52
Consensus pattern (2 bp):
AT
Found at i:877033 original size:13 final size:12
Alignment explanation
Indices: 876927--877064 Score: 54
Period size: 13 Copynumber: 10.7 Consensus size: 12
876917 ATATATATAA
876927 TATACTTATACTT
1 TATA-TTATACTT
876940 TATATTATTA-TAT
1 TATATTA-TACT-T
*
876953 ATGTATATATACTT
1 -TATAT-TATACTT
876967 TATATTCAATACTT
1 TATATT--ATACTT
*
876981 GTATATTTTA-TAT
1 -TATATTATACT-T
*
876994 TATA-TATA-TA
1 TATATTATACTT
877004 TATACTT-TAGTCTT
1 TATA-TTATA--CTT
877018 TATAATTATACTT
1 TAT-ATTATACTT
*
877031 TATATATATA-TAA
1 TATAT-TATACT-T
877044 TATACTTATACTT
1 TATA-TTATACTT
877057 TATATTAT
1 TATATTAT
877065 TATATATGAA
Statistics
Matches: 97, Mismatches: 8, Indels: 41
0.66 0.05 0.28
Matches are distributed among these distances:
10 4 0.04
11 6 0.06
12 18 0.19
13 36 0.37
14 21 0.22
15 12 0.12
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.54
Consensus pattern (12 bp):
TATATTATACTT
Found at i:877287 original size:27 final size:27
Alignment explanation
Indices: 877236--877304 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
877226 TCTTTATAAT
877236 TATACTTTATATATATATACTTACTTTA
1 TATA-TTTATATATATATACTTACTTTA
* *
877264 TATTTTTATATATGTATA-TATACTTTA
1 TATATTTATATATATATACT-TACTTTA
*
877291 TATATATATATATA
1 TATATTTATATATA
877305 ATTTATAGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 1 0.03
27 31 0.89
28 3 0.09
ACGTcount: A:0.38, C:0.06, G:0.01, T:0.55
Consensus pattern (27 bp):
TATATTTATATATATATACTTACTTTA
Found at i:881455 original size:20 final size:20
Alignment explanation
Indices: 881425--881485 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
881415 AGCCGTTGGG
881425 GCCTAATGGTATCGATACTAT
1 GCCT-ATGGTATCGATACTAT
881446 GCCTATGGTATCGATACTAT
1 GCCTATGGTATCGATACTAT
*
881466 GCCTATGATATCGATACTAT
1 GCCTATGGTATCGATACTAT
881486 TATGTAGAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
20 35 0.90
21 4 0.10
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (20 bp):
GCCTATGGTATCGATACTAT
Found at i:881888 original size:27 final size:26
Alignment explanation
Indices: 881849--881909 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
881839 ATATTTAAAC
*
881849 TATATAAACTTTATAATTTATACATAG
1 TATATAAACTTTATAA-TTATACATAA
*
881876 TATATATAA-TTTATAATTATACGTAA
1 TATATA-AACTTTATAATTATACATAA
881902 TATATAAA
1 TATATAAA
881910 TATAAGTTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 2 0.06
26 14 0.45
27 13 0.42
28 2 0.06
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (26 bp):
TATATAAACTTTATAATTATACATAA
Found at i:881925 original size:19 final size:19
Alignment explanation
Indices: 881901--881953 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
881891 ATTATACGTA
*
881901 ATATATAAATATAAGTTGTAT
1 ATATATAAATATAA-TT-CAT
*
881922 ATATTTAAATATAATTCAT
1 ATATATAAATATAATTCAT
*
881941 ATATATATATATA
1 ATATATAAATATA
881954 TATATAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 13 0.46
20 2 0.07
21 13 0.46
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (19 bp):
ATATATAAATATAATTCAT
Found at i:881943 original size:21 final size:21
Alignment explanation
Indices: 881901--881955 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
881891 ATTATACGTA
*
881901 ATATATAAATATAAGTTGTAT
1 ATATATAAATATAAGTTATAT
*
881922 ATATTTAAATATAA-TTCATAT
1 ATATATAAATATAAGTT-ATAT
*
881943 ATATATATATATA
1 ATATATAAATATA
881956 TATAAAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (21 bp):
ATATATAAATATAAGTTATAT
Found at i:882042 original size:2 final size:2
Alignment explanation
Indices: 882035--882288 Score: 114
Period size: 2 Copynumber: 125.0 Consensus size: 2
882025 TTATACATGG
* *
882035 TA TA TA TA GTT TA TA CA TA -A TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
882077 GTT TA TA TA TA -A TA TA TA -A TA -A TA TA AA TA TA AA CTC TA TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * *
882118 GTT TA TA TA TA -A TA TA TA TA TA TA GTT TA TA CA TA CA CTA TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA
* * *
882160 TA GTT TA TA TA TA -A CT- TA TA TA CTT TA TA TA TA CA CTA TA TA
1 TA -TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA -TA TA TA
* * * * *
882202 GTT TA TA TA TA GTT TA TA CA TA -A TA TA TA CA TC TCA TA TA TA
1 -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA
* * * *
882244 GTA TA -A TA AA TA AA TA AA TA AA TA TA TA TA TA TA TA TA TA T-
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
882285 TA TA
1 TA TA
882289 ATTATTTCAA
Statistics
Matches: 184, Mismatches: 44, Indels: 48
0.67 0.16 0.17
Matches are distributed among these distances:
1 10 0.05
2 161 0.88
3 13 0.07
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (2 bp):
TA
Found at i:882049 original size:11 final size:11
Alignment explanation
Indices: 882035--882219 Score: 63
Period size: 11 Copynumber: 17.4 Consensus size: 11
882025 TTATACATGG
882035 TATATATAGTT
1 TATATATAGTT
* *
882046 TATACATAATAT
1 TATATATAGT-T
*
882058 ATATATATA-TA
1 -TATATATAGTT
882069 TATATATAGTT
1 TATATATAGTT
* *
882080 TATATATAATA
1 TATATATAGTT
*
882091 TATA-ATA--A
1 TATATATAGTT
* *
882099 TATAAATA-TA
1 TATATATAGTT
* *
882109 AACTCTATAGTT
1 TA-TATATAGTT
*
882121 TATATATAATAT
1 TATATATAGT-T
882133 ATATATATAGTT
1 -TATATATAGTT
*
882145 TATACATA---
1 TATATATAGTT
*
882153 CACTATATAGTT
1 TA-TATATAGTT
**
882165 TATATATA-AC
1 TATATATAGTT
*
882175 T-TATATACTT
1 TATATATAGTT
882185 TATATATA---
1 TATATATAGTT
*
882193 CACTATATAGTT
1 TA-TATATAGTT
882205 TATATATAGTT
1 TATATATAGTT
882216 TATA
1 TATA
882220 CATAATATAT
Statistics
Matches: 130, Mismatches: 25, Indels: 38
0.67 0.13 0.20
Matches are distributed among these distances:
8 7 0.05
9 20 0.15
10 15 0.12
11 64 0.49
12 8 0.06
13 16 0.12
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.46
Consensus pattern (11 bp):
TATATATAGTT
Found at i:882209 original size:20 final size:19
Alignment explanation
Indices: 881919--882212 Score: 158
Period size: 20 Copynumber: 14.9 Consensus size: 19
881909 ATATAAGTTG
* *
881919 TATATA-TTTAAATATAAT
1 TATATAGTTTATATATAAC
*
881937 TCATATA-TATATATATATA-
1 T-ATATAGTTTATATATA-AC
* *
881956 TATAAAATTTATATTAATAAAC
1 TATATAGTTTATA-T-AT-AAC
**
881978 TATATAGTTTATATATAGT
1 TATATAGTTTATATATAAC
*
881997 TCA-ATAGTTCATATATAAAC
1 T-ATATAGTTTATATAT-AAC
* * *
882017 TCTATAGTTTATACATGGTA-
1 TATATAGTTTATATAT--AAC
*
882037 TATATAGTTTATACATAA-
1 TATATAGTTTATATATAAC
*
882055 TATATA-TATATATAT-A-
1 TATATAGTTTATATATAAC
882071 TATATAGTTTATATATAA-
1 TATATAGTTTATATATAAC
* *
882089 TATATAATAATATAAATATAAAC
1 TATATAGT--T-TATATAT-AAC
* *
882112 TCTATAGTTTATATATAATATATA
1 TATATAG-TT-TATAT-ATA-A-C
*
882136 TATATAGTTTATACATACAC
1 TATATAGTTTATATATA-AC
882156 TATATAGTTTATATATAAC
1 TATATAGTTTATATATAAC
*
882175 TTATATACTTTATATATACAC
1 -TATATAGTTTATATATA-AC
882196 TATATAGTTTATATATA
1 TATATAGTTTATATATA
882213 GTTTATACAT
Statistics
Matches: 218, Mismatches: 34, Indels: 46
0.73 0.11 0.15
Matches are distributed among these distances:
16 7 0.03
17 15 0.07
18 20 0.09
19 35 0.16
20 82 0.38
21 17 0.08
22 25 0.11
23 10 0.05
24 7 0.03
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.46
Consensus pattern (19 bp):
TATATAGTTTATATATAAC
Found at i:890981 original size:20 final size:20
Alignment explanation
Indices: 890956--890995 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
890946 TTGTTGTTTT
890956 TGGTTAATTAGTAGAAAGCC
1 TGGTTAATTAGTAGAAAGCC
890976 TGGTTAATTAGTAGAAAGCC
1 TGGTTAATTAGTAGAAAGCC
890996 AAATGAGATT
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:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (20 bp):
TGGTTAATTAGTAGAAAGCC
Found at i:891777 original size:60 final size:59
Alignment explanation
Indices: 891648--891777 Score: 134
Period size: 60 Copynumber: 2.2 Consensus size: 59
891638 ACAAATAGTC
* ** * * *
891648 CCTCGACTATAGGGTGATGTTTTGATGGGTCCCTTGACTATTAAAAGTTATAAAATGGT
1 CCTCGACTATAGGGTGATGCTTTGATAAGTCCCATGACTATTAAAAATTATAAAATGAT
* * * * * *
891707 CCCCTAACTATAGGGTGTTGCTTTGTTAAGTCCCATGAGTATTAAAAATTATAAATTGAT
1 CCTC-GACTATAGGGTGATGCTTTGATAAGTCCCATGACTATTAAAAATTATAAAATGAT
891767 CACTCGACTAT
1 C-CTCGACTAT
891778 TTAGTGTGTT
Statistics
Matches: 55, Mismatches: 14, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
59 3 0.05
60 50 0.91
61 2 0.04
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.35
Consensus pattern (59 bp):
CCTCGACTATAGGGTGATGCTTTGATAAGTCCCATGACTATTAAAAATTATAAAATGAT
Found at i:895868 original size:110 final size:111
Alignment explanation
Indices: 895669--895889 Score: 435
Period size: 110 Copynumber: 2.0 Consensus size: 111
895659 TTTAATCCAG
895669 GATTCAAGCAACTGTTCAAAAAAGGGTGAAAATAGTGATGCATTATCATCTTCTACAACTTCTCA
1 GATTCAAGCAACTGTTCAAAAAAGGGTGAAAATAGTGATGCATTATCATCTTCTACAACTTCTCA
895734 GAGATATATCAACACAAATCAGAAAACTTTTCAGTATTGAATTGTC
66 GAGATATATCAACACAAATCAGAAAACTTTTCAGTATTGAATTGTC
895780 GATTC-AGCAACTGTTCAAAAAAGGGTGAAAATAGTGATGCATTATCATCTTCTACAACTTCTCA
1 GATTCAAGCAACTGTTCAAAAAAGGGTGAAAATAGTGATGCATTATCATCTTCTACAACTTCTCA
895844 GAGATATATCAACACAAATCAGAAAACTTTTCAGTATTGAATTGTC
66 GAGATATATCAACACAAATCAGAAAACTTTTCAGTATTGAATTGTC
895890 ACTTCAAATC
Statistics
Matches: 110, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
110 105 0.95
111 5 0.05
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.30
Consensus pattern (111 bp):
GATTCAAGCAACTGTTCAAAAAAGGGTGAAAATAGTGATGCATTATCATCTTCTACAACTTCTCA
GAGATATATCAACACAAATCAGAAAACTTTTCAGTATTGAATTGTC
Found at i:896032 original size:46 final size:46
Alignment explanation
Indices: 895975--896086 Score: 206
Period size: 46 Copynumber: 2.4 Consensus size: 46
895965 TAATGCATTG
895975 TTTCATCTATTTTTCAGAGGTCATTTATTGCAACAATAATGCACCA
1 TTTCATCTATTTTTCAGAGGTCATTTATTGCAACAATAATGCACCA
896021 TTTCATCTATTTTTCAGAGGTCATTTATTGCAACAATAATGCACCA
1 TTTCATCTATTTTTCAGAGGTCATTTATTGCAACAATAATGCACCA
* *
896067 TTTCAACTACTTTTCAGAGG
1 TTTCATCTATTTTTCAGAGG
896087 CAATTTGATG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 64 1.00
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (46 bp):
TTTCATCTATTTTTCAGAGGTCATTTATTGCAACAATAATGCACCA
Found at i:896994 original size:31 final size:31
Alignment explanation
Indices: 896946--897068 Score: 185
Period size: 31 Copynumber: 4.0 Consensus size: 31
896936 CCTGAAGGAC
* *
896946 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
896977 CAATCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
* *
897008 CAGTCCATATGTTCCAAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
897039 CAGTCCATATGTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
897069 CCCTCGACCC
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
31 82 0.99
32 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:898421 original size:3 final size:3
Alignment explanation
Indices: 898413--898453 Score: 64
Period size: 3 Copynumber: 13.0 Consensus size: 3
898403 GATACGGAAG
898413 GAA GAA GAA GAA GAA GGAA GAA GAA GAA GAA GGAA GAA GAA
1 GAA GAA GAA GAA GAA -GAA GAA GAA GAA GAA -GAA GAA GAA
898454 AGAGTTTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 30 0.83
4 6 0.17
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:898430 original size:16 final size:16
Alignment explanation
Indices: 898409--898453 Score: 90
Period size: 16 Copynumber: 2.8 Consensus size: 16
898399 TGGAGATACG
898409 GAAGGAAGAAGAAGAA
1 GAAGGAAGAAGAAGAA
898425 GAAGGAAGAAGAAGAA
1 GAAGGAAGAAGAAGAA
898441 GAAGGAAGAAGAA
1 GAAGGAAGAAGAA
898454 AGAGTTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (16 bp):
GAAGGAAGAAGAAGAA
Found at i:898432 original size:13 final size:12
Alignment explanation
Indices: 898413--898453 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 12
898403 GATACGGAAG
898413 GAAGAAGAAGAA
1 GAAGAAGAAGAA
898425 GAAGGAAGAAGAA
1 GAA-GAAGAAGAA
898438 GAAGAAGGAAGAA
1 GAAGAA-GAAGAA
898451 GAA
1 GAA
898454 AGAGTTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.22
13 21 0.78
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAGAA
Found at i:899537 original size:21 final size:22
Alignment explanation
Indices: 899501--899542 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
899491 GTTCTAAAGG
*
899501 AAATATTAAAATATTAGATCTA
1 AAATATTAAAAAATTAGATCTA
*
899523 AAATA-TAAAAAATTATATCT
1 AAATATTAAAAAATTAGATCT
899543 CATAAAACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (22 bp):
AAATATTAAAAAATTAGATCTA
Found at i:903230 original size:70 final size:70
Alignment explanation
Indices: 903135--903275 Score: 282
Period size: 70 Copynumber: 2.0 Consensus size: 70
903125 TTATGTGAGG
903135 TAGACCATGATGCCAGCCAGCATGAGACTAATCTTAGTTTCATGTTGTTGCTTTTGTATGCATGG
1 TAGACCATGATGCCAGCCAGCATGAGACTAATCTTAGTTTCATGTTGTTGCTTTTGTATGCATGG
903200 AATAT
66 AATAT
903205 TAGACCATGATGCCAGCCAGCATGAGACTAATCTTAGTTTCATGTTGTTGCTTTTGTATGCATGG
1 TAGACCATGATGCCAGCCAGCATGAGACTAATCTTAGTTTCATGTTGTTGCTTTTGTATGCATGG
903270 AATAT
66 AATAT
903275 T
1 T
903276 CTTGTTTGTA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (70 bp):
TAGACCATGATGCCAGCCAGCATGAGACTAATCTTAGTTTCATGTTGTTGCTTTTGTATGCATGG
AATAT
Found at i:905083 original size:32 final size:32
Alignment explanation
Indices: 905019--905110 Score: 177
Period size: 32 Copynumber: 2.9 Consensus size: 32
905009 TCGAATTACA
905019 TAGTCCAACATCCAAACATAATT-AAAAATGT
1 TAGTCCAACATCCAAACATAATTAAAAAATGT
905050 TAGTCCAACATCCAAACATAATTAAAAAATGT
1 TAGTCCAACATCCAAACATAATTAAAAAATGT
905082 TAGTCCAACATCCAAACATAATTAAAAAA
1 TAGTCCAACATCCAAACATAATTAAAAAA
905111 ATGTCATGTT
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
31 23 0.38
32 37 0.62
ACGTcount: A:0.51, C:0.20, G:0.05, T:0.24
Consensus pattern (32 bp):
TAGTCCAACATCCAAACATAATTAAAAAATGT
Found at i:905495 original size:140 final size:140
Alignment explanation
Indices: 905243--905522 Score: 560
Period size: 140 Copynumber: 2.0 Consensus size: 140
905233 TAAATGACCA
905243 AATAGATAGTGTACCCTAAAAAACCCTAATCGGGTACCTAAAAAAATTCAATTTTGTGACCCGGG
1 AATAGATAGTGTACCCTAAAAAACCCTAATCGGGTACCTAAAAAAATTCAATTTTGTGACCCGGG
905308 CCCGACCCGTGAAATATTGGGTCAGCTAATATTTTTTAAAAAATTATCCGATTTTTTTAGGTTAG
66 CCCGACCCGTGAAATATTGGGTCAGCTAATATTTTTTAAAAAATTATCCGATTTTTTTAGGTTAG
905373 GATACGTGGG
131 GATACGTGGG
905383 AATAGATAGTGTACCCTAAAAAACCCTAATCGGGTACCTAAAAAAATTCAATTTTGTGACCCGGG
1 AATAGATAGTGTACCCTAAAAAACCCTAATCGGGTACCTAAAAAAATTCAATTTTGTGACCCGGG
905448 CCCGACCCGTGAAATATTGGGTCAGCTAATATTTTTTAAAAAATTATCCGATTTTTTTAGGTTAG
66 CCCGACCCGTGAAATATTGGGTCAGCTAATATTTTTTAAAAAATTATCCGATTTTTTTAGGTTAG
905513 GATACGTGGG
131 GATACGTGGG
905523 TCGACGAGTC
Statistics
Matches: 140, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
140 140 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (140 bp):
AATAGATAGTGTACCCTAAAAAACCCTAATCGGGTACCTAAAAAAATTCAATTTTGTGACCCGGG
CCCGACCCGTGAAATATTGGGTCAGCTAATATTTTTTAAAAAATTATCCGATTTTTTTAGGTTAG
GATACGTGGG
Found at i:905672 original size:3 final size:3
Alignment explanation
Indices: 905652--905772 Score: 188
Period size: 3 Copynumber: 40.3 Consensus size: 3
905642 TACCCATATC
* * *
905652 ATT ATC ATT ATC ATT ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
905700 ATT ATT ATT ATT ATT ATC ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
905748 ATT ATC ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
905773 AATATATTAA
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 108 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:907175 original size:20 final size:21
Alignment explanation
Indices: 907146--907186 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
907136 TTTATTTTTA
907146 TTTTATTATATGAATAAATAT
1 TTTTATTATATGAATAAATAT
**
907167 TTTTA-TATATTCATAAATAT
1 TTTTATTATATGAATAAATAT
907187 ATATATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
TTTTATTATATGAATAAATAT
Found at i:907378 original size:48 final size:49
Alignment explanation
Indices: 907326--907422 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 49
907316 TATCAATATC
907326 AAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGT-TCTTTTCTGATATTT
1 AAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGTCTCTTTTCTGATATTT
907374 AAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGTCTCTTTTCTGATATTT
1 AAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGTCTCTTTTCTGATATTT
907423 TTAAATAAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 33 0.69
49 15 0.31
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (49 bp):
AAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGTCTCTTTTCTGATATTT
Found at i:908595 original size:16 final size:17
Alignment explanation
Indices: 908565--908597 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
908555 ACTAACTTAT
*
908565 TTTCTTTTTTTTGTTTG
1 TTTCTTTTTTCTGTTTG
908582 TTTC-TTTTTCTGTTTG
1 TTTCTTTTTTCTGTTTG
908598 CATTGCATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.00, C:0.09, G:0.12, T:0.79
Consensus pattern (17 bp):
TTTCTTTTTTCTGTTTG
Found at i:919870 original size:83 final size:82
Alignment explanation
Indices: 919598--919969 Score: 569
Period size: 83 Copynumber: 4.6 Consensus size: 82
919588 AATAGAACAA
** * *
919598 ATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGA-TTATCTGACCTGGTT-TAGCA-AAC
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CAGAA-
* **
919660 CAATCATTGAATTGGGAAG
64 CAATCATTGAGTTTAGAAG
*
919679 ATGAATGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT-GTTGG--AGAAC
1 ATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
919740 AATCATTGAGTTTAGAAG
65 AATCATTGAGTTTAGAAG
*
919758 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATC
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA-C
*
919823 AAGCATTGAGTTTAGAAG
65 AATCATTGAGTTTAGAAG
919841 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACA
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACA
919906 ATCATTGAGTTTAGAAG
66 ATCATTGAGTTTAGAAG
919923 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
919970 GTTTGGTATG
Statistics
Matches: 269, Mismatches: 13, Indels: 17
0.90 0.04 0.06
Matches are distributed among these distances:
78 1 0.00
79 65 0.24
80 6 0.02
81 38 0.14
82 79 0.29
83 80 0.30
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (82 bp):
ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACA
ATCATTGAGTTTAGAAG
Found at i:919949 original size:165 final size:161
Alignment explanation
Indices: 919598--919969 Score: 570
Period size: 165 Copynumber: 2.3 Consensus size: 161
919588 AATAGAACAA
** * *
919598 ATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGA-TTATCTGACCTGGTTTAGCAAACCA
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGATTGAGCAAACCA
* *
919662 ATCATTGAATTGGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA
66 AGCATTGAATTGAGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA
919727 TCTGTTGGAGAACAATCATTGAGTTTAGAAG
131 TCTGTTGGAGAACAATCATTGAGTTTAGAAG
* *
919758 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTG-GACAGAAT
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGATTGAG-CA-AAC
* * *
919822 CAAGCATTGAGTTTAGAAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
64 CAAGCATTGAATTGAGAAGATGAATGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
919886 TGATCTGGTTGGACAGAACAATCATTGAGTTTAGAAG
128 TGATCT-GTTGG--AGAACAATCATTGAGTTTAGAAG
919923 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
919970 GTTTGGTATG
Statistics
Matches: 194, Mismatches: 11, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
160 38 0.20
161 16 0.08
162 65 0.34
163 5 0.03
165 70 0.36
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (161 bp):
ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGATTGAGCAAACCA
AGCATTGAATTGAGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA
TCTGTTGGAGAACAATCATTGAGTTTAGAAG
Found at i:920977 original size:109 final size:112
Alignment explanation
Indices: 920795--921342 Score: 873
Period size: 109 Copynumber: 5.0 Consensus size: 112
920785 GCAAAGATCA
* ** *
920795 AATCTATCATTTGAAAGATTAGCTTTTCCAGAGAAAG-TCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
920859 AGGAAGAAGAAGTTCATAAT-G-AGAATTTGTTCAACCTTTTA-CTG
66 AGGAAGAAGAAGTTCATAATAGAAGAATTTGTTCAACCTTTTACCTG
920903 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
920968 AGGAAGAAGAAGTTCATAAT-GAAGAATTTGTTCAACC-TTTA-CTG
66 AGGAAGAAGAAGTTCATAATAGAAGAATTTGTTCAACCTTTTACCTG
921012 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
921077 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAAT-AGAAGAATTTGTTCAACCTTTTACCTG
* *
921125 AATCCATCATTTGAGGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
921190 AGGAAGAAGAAGTTCATAATTAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAA-TAGAAGAATTTGTTCAACCTTTTACCTG
* * * * *
921238 AATTCATCAATTGATGGATTATCTTTTCCGGAG-AAGTTCATAATGAGAAGAA--CATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* * *
921300 AGAAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTT
66 AGGAAGAAGAAGTTCATAAT-AGAAGAATTTGTTCAACCTTTT
921343 GCATAATTCT
Statistics
Matches: 418, Mismatches: 14, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
108 33 0.08
109 141 0.34
110 63 0.15
111 17 0.04
112 23 0.06
113 140 0.33
114 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (112 bp):
AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATAGAAGAATTTGTTCAACCTTTTACCTG
Found at i:921181 original size:222 final size:224
Alignment explanation
Indices: 920795--921342 Score: 882
Period size: 222 Copynumber: 2.5 Consensus size: 224
920785 GCAAAGATCA
* **
920795 AATCTATCATTTGAAAGATTAGCTTTTCCAGAGAAAG-TCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATTAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
920859 AGGAAGAAGAAGTTCATAAT-G-AGAATTTGTTCAACCTTTTACTGAATCCATCATTTGATGGAT
66 AGGAAGAAGAAGTTCATAATAGAAGAATTTGTTCAACCTTTTACTGAATCCATCATTTGAGGGAT
920922 CAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
131 CAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
920987 -T-GAAGAATTTGTTCAACC-TTTA-CTG
196 TTAGAAGAATTTGTTCAACCTTTTACCTG
*
921012 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATTAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
921077 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGAGGG
66 AGGAAGAAGAAGTTCATAAT-AGAAGAATTTGTTCAACCTTTTA-CTGAATCCATCATTTGAGGG
*
921142 ATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
129 ATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
921207 AATTAGAAGAATTTGTTCAACCTTTTACCTG
194 AATTAGAAGAATTTGTTCAACCTTTTACCTG
* * * *
921238 AATTCATCAATTGATGGATTATCTTTTCCGGAG-AAGTTCATAATGAGAAGAA--CATCTGAAGA
1 AATCCATCATTTGATGGATTAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* * *
921300 AGAAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTT
66 AGGAAGAAGAAGTTCATAAT-AGAAGAATTTGTTCAACCTTTT
921343 GCATAATTCT
Statistics
Matches: 307, Mismatches: 15, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
217 33 0.11
218 47 0.15
220 1 0.00
221 20 0.07
222 85 0.28
223 50 0.16
224 17 0.06
225 23 0.07
226 31 0.10
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (224 bp):
AATCCATCATTTGATGGATTAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATAGAAGAATTTGTTCAACCTTTTACTGAATCCATCATTTGAGGGAT
CAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
TTAGAAGAATTTGTTCAACCTTTTACCTG
Found at i:921684 original size:3 final size:3
Alignment explanation
Indices: 921660--921758 Score: 127
Period size: 3 Copynumber: 34.3 Consensus size: 3
921650 TACCCATATC
* *
921660 ATT ATC ATT ATT A-T ATT A-T ATT ATT ATC ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
921706 ATAT ATT ATT ATT A-T ATT ATT A-T ATT A-T ATT ATT ATC ATT ATT
1 AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
921749 ATT ATT ATT A
1 ATT ATT ATT A
921759 AATATATTAA
Statistics
Matches: 84, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
2 10 0.12
3 71 0.85
4 3 0.04
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:921741 original size:55 final size:55
Alignment explanation
Indices: 921660--921767 Score: 191
Period size: 55 Copynumber: 2.0 Consensus size: 55
921650 TACCCATATC
*
921660 ATTATCATTATTATATTATATTATTATCATTATTATTATTATTATTATATATTATT
1 ATTATCATTATTATATTATATTATTATCATTATTATTATTATTA-AATATATTATT
921716 ATTAT-ATTATTATATTATATTATTATCATTATTATTATTATTAAATATATTA
1 ATTATCATTATTATATTATATTATTATCATTATTATTATTATTAAATATATTA
921768 ATACATATAT
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
54 8 0.16
55 38 0.75
56 5 0.10
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (55 bp):
ATTATCATTATTATATTATATTATTATCATTATTATTATTATTAAATATATTATT
Found at i:923135 original size:19 final size:20
Alignment explanation
Indices: 923099--923140 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
923089 TTTTTATTTT
923099 TATTTTATATATGAATAA-A
1 TATTTTATATATGAATAATA
* **
923118 TATTTTTTATATTCATAATA
1 TATTTTATATATGAATAATA
923138 TAT
1 TAT
923141 ATATAATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
TATTTTATATATGAATAATA
Found at i:926540 original size:27 final size:25
Alignment explanation
Indices: 926510--926591 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 25
926500 TTTAACATTT
926510 CCGGTAAAGTGCACAACAATAACAAAA
1 CCGGTAAAG-GCACAA-AATAACAAAA
926537 CCGGTAGAA---A-AAAATAACAAAA
1 CCGGTA-AAGGCACAAAATAACAAAA
*
926559 CCGGTAAAGCGCCCAATAATAACAAAA
1 CCGGTAAAG-GCACAA-AATAACAAAA
926586 CCGGTA
1 CCGGTA
926592 GCGCCTATTT
Statistics
Matches: 47, Mismatches: 1, Indels: 14
0.76 0.02 0.23
Matches are distributed among these distances:
21 2 0.04
22 16 0.34
23 2 0.04
24 1 0.02
26 2 0.04
27 22 0.47
28 2 0.04
ACGTcount: A:0.51, C:0.22, G:0.16, T:0.11
Consensus pattern (25 bp):
CCGGTAAAGGCACAAAATAACAAAA
Found at i:927228 original size:25 final size:27
Alignment explanation
Indices: 927188--927243 Score: 73
Period size: 25 Copynumber: 2.1 Consensus size: 27
927178 ATTAATTTCC
*
927188 AAATAATAAAGTTTTTTTA-TTA-AAT
1 AAATAATAAAGTTTTTTAATTTATAAT
927213 AAATAAATAAAG-TTTTTAATTTATAAT
1 AAAT-AATAAAGTTTTTTAATTTATAAT
927240 AAAT
1 AAAT
927244 TTAAAATCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 10 0.37
26 10 0.37
27 7 0.26
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.45
Consensus pattern (27 bp):
AAATAATAAAGTTTTTTAATTTATAAT
Found at i:928843 original size:18 final size:20
Alignment explanation
Indices: 928809--928852 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 20
928799 AATGTGATTA
928809 ATTATTAGTAGTATTTTAGG
1 ATTATTAGTAGTATTTTAGG
928829 ATTATT-GTA-TATTTTAGG
1 ATTATTAGTAGTATTTTAGG
928847 A-TATTA
1 ATTATTA
928853 TATAATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.17
18 10 0.43
19 3 0.13
20 6 0.26
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (20 bp):
ATTATTAGTAGTATTTTAGG
Found at i:940290 original size:36 final size:36
Alignment explanation
Indices: 940205--940299 Score: 102
Period size: 36 Copynumber: 2.6 Consensus size: 36
940195 GTCAATAAAG
* *
940205 CCTTCACAAAAGAGTTGTGAAGCGATATAAGTCAAT
1 CCTTCACAAAAGAGTAGTGAAGCGATACAAGTCAAT
* *** * *
940241 CTTTCATGGAAGAGTAGTGAAGTGATACACATTCAA-
1 CCTTCACAAAAGAGTAGTGAAGCGATACA-AGTCAAT
940277 CCTTCACAAAAGAGTAGTGAAGC
1 CCTTCACAAAAGAGTAGTGAAGC
940300 AGGAACATAT
Statistics
Matches: 45, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
36 40 0.89
37 5 0.11
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (36 bp):
CCTTCACAAAAGAGTAGTGAAGCGATACAAGTCAAT
Found at i:942036 original size:22 final size:21
Alignment explanation
Indices: 942011--942051 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
942001 AATATCAAAG
*
942011 GGGAACCGATTCCCCTGCTACA
1 GGGAACCGA-TACCCTGCTACA
*
942033 GGGAACTGATACCCTGCTA
1 GGGAACCGATACCCTGCTA
942052 AAGTACTGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.20
Consensus pattern (21 bp):
GGGAACCGATACCCTGCTACA
Found at i:942793 original size:31 final size:31
Alignment explanation
Indices: 942755--942845 Score: 93
Period size: 31 Copynumber: 3.0 Consensus size: 31
942745 CCCGAAGGAC
* *
942755 CAGTCCATAGATTCCGAAGAACCTAGGTAAT
1 CAGTCCATAGATTCCGAAGAACATAGGTAAA
*
942786 CAGTCCAT--ATGTCC--CGAACATAGGTAAA
1 CAGTCCATAGAT-TCCGAAGAACATAGGTAAA
*
942814 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
1 CAGTCCATA-GATTCCGAAGAACATAGGTAAA
942845 C
1 C
942846 CCTCGACCCT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
28 19 0.39
29 4 0.08
30 4 0.08
31 22 0.45
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (31 bp):
CAGTCCATAGATTCCGAAGAACATAGGTAAA
Found at i:942817 original size:28 final size:29
Alignment explanation
Indices: 942772--942845 Score: 105
Period size: 28 Copynumber: 2.5 Consensus size: 29
942762 TAGATTCCGA
* *
942772 AGAACCTAGGTAATCAGTCCATATGTCCC
1 AGAACATAGGTAAACAGTCCATATGTCCC
942801 -GAACATAGGTAAACAGTCCATATGTCCC
1 AGAACATAGGTAAACAGTCCATATGTCCC
942829 GAAGAACATAGGTAAAC
1 --AGAACATAGGTAAAC
942846 CCTCGACCCT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 26 0.65
31 14 0.35
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (29 bp):
AGAACATAGGTAAACAGTCCATATGTCCC
Found at i:953266 original size:90 final size:89
Alignment explanation
Indices: 953107--953270 Score: 283
Period size: 90 Copynumber: 1.8 Consensus size: 89
953097 CCTAACACAC
*
953107 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTAAAATTAATTAAATCTATA
1 CCTTTTATAGCCAAGTCACCCTAATCATATTAGGGTTTTATTATTTAAAATTAATTAAATCTATA
953172 TTTAATTAATTGGAATTTAATAAT
66 TTTAATTAATTGGAATTTAATAAT
* * *
953196 CCTTTTATATCCAAGTCACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATTTAT
1 CCTTTTATAGCCAAGTCACCCTAATCATATTAGGG-TTTTATTATTTAAAATTAATTAAATCTAT
953261 ATTTAATTAA
65 ATTTAATTAA
953271 CTGAAATTAA
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
89 33 0.47
90 37 0.53
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.45
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTCACCCTAATCATATTAGGGTTTTATTATTTAAAATTAATTAAATCTATA
TTTAATTAATTGGAATTTAATAAT
Found at i:960052 original size:90 final size:88
Alignment explanation
Indices: 959898--960073 Score: 298
Period size: 90 Copynumber: 2.0 Consensus size: 88
959888 CCTAACACAC
959898 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTATTATTTCAAATTAATTAAATCTATAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTATTATTTCAAATTAATTAAATCTATAT
* *
959963 TTAATTAATTGGAATTTAATAAT
66 TTAATTAATTGAAATTAAATAAT
* *
959986 CCTTTTATATCCATGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGG--TTTATTATTTCAAATTAATTAAATCTAT
960051 ATTTAATTAATTGAAATTAAATA
64 ATTTAATTAATTGAAATTAAATA
960074 TTCGGGATTA
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
88 33 0.40
90 49 0.60
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.45
Consensus pattern (88 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTATTATTTCAAATTAATTAAATCTATAT
TTAATTAATTGAAATTAAATAAT
Found at i:974019 original size:30 final size:30
Alignment explanation
Indices: 973966--974028 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
973956 AGAGTCTAGG
***
973966 GTTACCTATGTCCTTCGGGACATAGGGACA
1 GTTACCTATGTCCTTCAAAACATAGGGACA
* * *
973996 GTTACCTATGTTCTTCAAAACATATGGATA
1 GTTACCTATGTCCTTCAAAACATAGGGACA
974026 GTT
1 GTT
974029 CCTTCGGGAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (30 bp):
GTTACCTATGTCCTTCAAAACATAGGGACA
Found at i:982298 original size:20 final size:21
Alignment explanation
Indices: 982273--982313 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
982263 GTTGTGGCCG
*
982273 TTTATAGTC-GTTGGGGATGA
1 TTTATAGCCAGTTGGGGATGA
*
982293 TTTATAGCCATTTGGGGATGA
1 TTTATAGCCAGTTGGGGATGA
982314 AATCTATGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.22, C:0.07, G:0.32, T:0.39
Consensus pattern (21 bp):
TTTATAGCCAGTTGGGGATGA
Found at i:988012 original size:20 final size:21
Alignment explanation
Indices: 987987--988027 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
987977 TACGAAATTA
*
987987 TTAATTTTTAA-ATAAATAAT
1 TTAATTTTAAATATAAATAAT
988007 TTAATTTTAAATATAAATAAT
1 TTAATTTTAAATATAAATAAT
988028 AATATTTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAATTTTAAATATAAATAAT
Found at i:988030 original size:19 final size:19
Alignment explanation
Indices: 987981--988027 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
987971 ATAAATTACG
* *
987981 AAATTATTAATTTTTAAAT
1 AAATAATTAATTTTAAAAT
988000 AAATAATTTAATTTTAAATAT
1 AAATAA-TTAATTTTAAA-AT
988021 AAATAAT
1 AAATAAT
988028 AATATTTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.21
20 11 0.46
21 8 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATAATTAATTTTAAAAT
Found at i:988439 original size:27 final size:25
Alignment explanation
Indices: 988408--988482 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 25
988398 TATTCTCCCA
988408 ATTAACTTAAGTTCATAATATTTTTA-T
1 ATTAACTTAA-TT-A-AATATTTTTATT
988435 ATTAACTT-ATTAAATATATTTTATT
1 ATTAACTTAATTAAATAT-TTTTATT
988460 ATTAACTTAATTTAAAATATTTT
1 ATTAACTTAA-TT-AAATATTTT
988483 ATTTTATTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
23 5 0.12
24 6 0.14
25 11 0.26
26 2 0.05
27 13 0.30
28 6 0.14
ACGTcount: A:0.40, C:0.05, G:0.01, T:0.53
Consensus pattern (25 bp):
ATTAACTTAATTAAATATTTTTATT
Found at i:988462 original size:25 final size:27
Alignment explanation
Indices: 988408--988513 Score: 100
Period size: 25 Copynumber: 4.1 Consensus size: 27
988398 TATTCTCCCA
*
988408 ATTAACTTAAGTTCATAATAT-TTTTA-T
1 ATTAACTTAA-TTTA-AATATATTTTATT
988435 ATTAACTT-A-TTAAATATATTTTATT
1 ATTAACTTAATTTAAATATATTTTATT
988460 ATTAACTTAATTTAAA-ATATTTTATT
1 ATTAACTTAATTTAAATATATTTTATT
** * *
988486 -TTATTTTAATTTTAATATA-TATATT
1 ATTAACTTAATTTAAATATATTTTATT
988511 ATT
1 ATT
988514 TTATCAAAAC
Statistics
Matches: 68, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
23 5 0.07
24 7 0.10
25 26 0.38
26 17 0.25
27 13 0.19
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.57
Consensus pattern (27 bp):
ATTAACTTAATTTAAATATATTTTATT
Found at i:988507 original size:28 final size:27
Alignment explanation
Indices: 988429--988517 Score: 94
Period size: 26 Copynumber: 3.2 Consensus size: 27
988419 TTCATAATAT
988429 TTTTATATTAACTTATTAAATATATTTTA
1 TTTTATATTAA-TT-TTAAATATATTTTA
988458 TTATTA-ACTTAA-TTTAAA-ATATTTTA
1 TT-TTATA-TTAATTTTAAATATATTTTA
* *
988484 TTTTATTTTAATTTTAATATATATATTA
1 TTTTATATTAATTTTAA-ATATATTTTA
988512 TTTTAT
1 TTTTAT
988518 CAAAACTTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
25 7 0.13
26 15 0.29
27 6 0.12
28 14 0.27
29 3 0.06
30 7 0.13
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (27 bp):
TTTTATATTAATTTTAAATATATTTTA
Found at i:989280 original size:18 final size:16
Alignment explanation
Indices: 989240--989281 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
989230 TTTAATCGAA
989240 AATAT-TATTAAGTAC
1 AATATATATTAAGTAC
989255 AATAATATATTAAGTAGC
1 AAT-ATATATTAAGTA-C
989273 ACATATATA
1 A-ATATATA
989282 ATGTAATAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 3 0.13
16 2 0.09
17 9 0.39
18 7 0.30
19 2 0.09
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (16 bp):
AATATATATTAAGTAC
Found at i:990130 original size:179 final size:179
Alignment explanation
Indices: 989743--990189 Score: 668
Period size: 179 Copynumber: 2.5 Consensus size: 179
989733 TTACTACTGG
* * *
989743 TTTTGTCATTTCGAGATCGATTTTATCATATATTTACTTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTT-AAGATCGATTTTGTCATATTTTTACTTGTTATATTGTTATGGATCGATACATT
*
989808 TTTATAAAGTATCGACACTTTATTGACGCTATAACTTATTTTCTTTTAAATTCCAAAAGTGTCGA
65 TTTATAAAGTATCGACACTTTATTGACGCTATAAC-T-TTCTCTTTTAAATTCCAAAAGTGTCGA
* *
989873 TACTTATAATAAAGTATCGATACTTTCAACATATCCGATAGTTCTTTATCGA
128 TACTTATAATAAAGTATCGACACTATCAACATATCCGATAGTTCTTTATCGA
*
989925 TTTTGTCATTTCAAGATCGATTTTGTCATATTTTTACTTGTTATATTGTTATAGATCGATACATT
1 TTTTGTCATTT-AAGATCGATTTTGTCATATTTTTACTTGTTATATTGTTATGGATCGATACATT
989990 TTTATAAAGTATCGACACTTTATT-AGCGCTATAAC-TTCTCTTTTAAATTCCAAAAGTGTCGAT
65 TTTATAAAGTATCGACACTTTATTGA-CGCTATAACTTTCTCTTTTAAATTCCAAAAGTGTCGAT
* *
990053 ACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGTGT-TTTA-CATA
129 ACTTATAATAAAGTATCGACACTATCAACATATCCGATAGT-TCTTTATC-GA
* * * * *
990104 TTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACAGT
1 TTTTGTCATTTA-AGATCGATTTTGTCATATTTTTACTTGTTATATTGTTATGGATCGATACATT
990169 TTTATAAAGTATCGACACTTT
65 TTTATAAAGTATCGACACTTT
990190 CAATATATCC
Statistics
Matches: 246, Mismatches: 15, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
178 2 0.01
179 148 0.60
180 1 0.00
181 1 0.00
182 94 0.38
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.44
Consensus pattern (179 bp):
TTTTGTCATTTAAGATCGATTTTGTCATATTTTTACTTGTTATATTGTTATGGATCGATACATTT
TTATAAAGTATCGACACTTTATTGACGCTATAACTTTCTCTTTTAAATTCCAAAAGTGTCGATAC
TTATAATAAAGTATCGACACTATCAACATATCCGATAGTTCTTTATCGA
Found at i:990536 original size:111 final size:112
Alignment explanation
Indices: 990060--990635 Score: 965
Period size: 113 Copynumber: 5.1 Consensus size: 112
990050 GATACTTATA
* * * * *
990060 ATAAAGTATCGACACTATCAACATATCCGGTAGTGTTTTACATATTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGGT
*
990125 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACAGTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
*
990172 ATAAAGTATCGACACTTTCAATATATCCGATAGCGCTTTACATGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGGT
990237 TTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCA-TTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* * *
990285 ATAAAGTATCGACACTTTCAATATATTCGGTAGCGTTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGGT
990350 TTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCA-TTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* *
990398 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGGT
990463 TTTGTCA-TTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* * *
990509 ATAAAGTATCGATACTTTCAATATATCCGGTAGCGCTTTACTTGCTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGGT
* **
990574 TTTGTCATTTTTTTACCTGTTATATTGTTATAGATTAATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
990621 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
990636 AAACCGACAA
Statistics
Matches: 440, Mismatches: 22, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
111 107 0.24
112 116 0.26
113 217 0.49
ACGTcount: A:0.25, C:0.15, G:0.14, T:0.45
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
Found at i:991140 original size:15 final size:15
Alignment explanation
Indices: 991104--991141 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
991094 TTTAATTATT
991104 TTCTAATATATTTAAA
1 TTCTAAT-TATTTAAA
*
991120 -TGTAATTATTTAAA
1 TTCTAATTATTTAAA
991134 TTCTAATT
1 TTCTAATT
991142 TGAAGTAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (15 bp):
TTCTAATTATTTAAA
Found at i:994981 original size:21 final size:21
Alignment explanation
Indices: 994957--994997 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
994947 TTGGAAATGT
* *
994957 TAAAAATATTAATATTTTAAG
1 TAAAAATAATAAAATTTTAAG
994978 TAAAAATAATAAAATTTTAA
1 TAAAAATAATAAAATTTTAA
994998 ATAATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
TAAAAATAATAAAATTTTAAG
Found at i:995761 original size:2 final size:2
Alignment explanation
Indices: 995754--995779 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
995744 AACAAATTTA
995754 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
995780 GTGCGCGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:998923 original size:45 final size:45
Alignment explanation
Indices: 998683--998938 Score: 325
Period size: 45 Copynumber: 5.7 Consensus size: 45
998673 ACTCTAATAT
* *
998683 CTTTTCTGTTGATAATGCACCCATATGCATTTCAATTATAGTATA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATA
* * ** *
998728 CTTTTATGTTGATAATGTACCCATATATATTTCAA-TCATAGTATA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACT-ATAGCATA
* *
998773 CTTTTCTGTTGATAATGTACCCATATACATTTCAACTATAGCATA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATA
*
998818 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATA
* * * *
998863 TTTTTCTGTTGATAATGCACCCATATGTATTTCAACTATGGCATC
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATA
** ***
998908 CTTTAATGCCAATAATGCACCCATATGCATT
1 CTTTTCTGTTGATAATGCACCCATATGCATT
998939 ATTCTTTTAT
Statistics
Matches: 187, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
44 1 0.01
45 185 0.99
46 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.41
Consensus pattern (45 bp):
CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATA
Found at i:998923 original size:135 final size:135
Alignment explanation
Indices: 998683--998938 Score: 361
Period size: 135 Copynumber: 1.9 Consensus size: 135
998673 ACTCTAATAT
* *
998683 CTTTTCTGTTGATAATGCACCCATATGCATTTCAATTATAGTATACTTTTATGTTGATAATGTAC
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTATGTTGATAATGCAC
* ** *** *
998748 CCATATATATTTCAATCATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAACTATA
66 CCATATATATTTCAATCATAGCATACTTTAATGCCAATAATGCACCCATATACATTTCAACTATA
998813 GCATA
131 GCATA
* *
998818 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATATTTTTCTGTTGATAATGCAC
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTATGTTGATAATGCAC
* * * *
998883 CCATATGTATTTCAA-CTATGGCATCCTTTAATGCCAATAATGCACCCATATGCATT
66 CCATATATATTTCAATC-ATAGCATACTTTAATGCCAATAATGCACCCATATACATT
998939 ATTCTTTTAT
Statistics
Matches: 105, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
134 1 0.01
135 104 0.99
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.41
Consensus pattern (135 bp):
CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTATGTTGATAATGCAC
CCATATATATTTCAATCATAGCATACTTTAATGCCAATAATGCACCCATATACATTTCAACTATA
GCATA
Found at i:998981 original size:79 final size:79
Alignment explanation
Indices: 998876--999026 Score: 248
Period size: 79 Copynumber: 1.9 Consensus size: 79
998866 TTCTGTTGAT
**
998876 AATGCACCCATATGTATTTCAACTATGGCATCCTTTAATGCCAATAATGCACCCATATGCATTAT
1 AATGCACCCATATACATTTCAACTATGGCATCCTTTAATGCCAATAATGCACCCATATGCATTAT
998941 TCTTTTATCCTGAC
66 TCTTTTATCCTGAC
* * * *
998955 AATGTACCCATATACATTTCATCTATGGCGTCCTTTCATGCCAATAATGCACCCATATGCATTAT
1 AATGCACCCATATACATTTCAACTATGGCATCCTTTAATGCCAATAATGCACCCATATGCATTAT
999020 TCTTTTA
66 TCTTTTA
999027 CATTCATTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 66 1.00
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.36
Consensus pattern (79 bp):
AATGCACCCATATACATTTCAACTATGGCATCCTTTAATGCCAATAATGCACCCATATGCATTAT
TCTTTTATCCTGAC
Found at i:999515 original size:21 final size:21
Alignment explanation
Indices: 999489--999563 Score: 77
Period size: 19 Copynumber: 3.6 Consensus size: 21
999479 CGATGTTTAC
999489 TGGTATCGATACCCT-TACCATA
1 TGGTATCGATACCCTATA-C-TA
*
999511 T-GTATGGATACCACTATACTA
1 TGGTATCGATACC-CTATACTA
*
999532 TGGTATCGATACCC-CTA-TA
1 TGGTATCGATACCCTATACTA
999551 TGGTATCGATACC
1 TGGTATCGATACC
999564 AATATTAGGT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
19 15 0.32
20 2 0.04
21 14 0.30
22 14 0.30
23 2 0.04
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (21 bp):
TGGTATCGATACCCTATACTA
Found at i:999568 original size:17 final size:18
Alignment explanation
Indices: 999530--999568 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
999520 ACCACTATAC
*
999530 TATGGTATCGATACCCCTA
1 TATGGTATCGATA-CCCAA
999549 TATGGTATCGATA-CCAA
1 TATGGTATCGATACCCAA
999566 TAT
1 TAT
999569 TAGGTTCGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
19 13 0.68
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (18 bp):
TATGGTATCGATACCCAA
Found at i:1003156 original size:21 final size:21
Alignment explanation
Indices: 1003126--1003182 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
1003116 AATATATATA
* *
1003126 TATATGTATGTATGTATGAGT
1 TATATATATGTATATATGAGT
*
1003147 TATATATATGTTTATATGA-T
1 TATATATATGTATATATGAGT
1003167 T-TGATATATGCTATAT
1 TAT-ATATATG-TATAT
1003183 GATTCATGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
19 1 0.03
20 9 0.30
21 20 0.67
ACGTcount: A:0.32, C:0.02, G:0.16, T:0.51
Consensus pattern (21 bp):
TATATATATGTATATATGAGT
Found at i:1003297 original size:22 final size:22
Alignment explanation
Indices: 1003249--1003298 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
1003239 CACATATATG
1003249 TGATATGTGATAAAAGAGAAGA
1 TGATATGTGATAAAAGAGAAGA
* *
1003271 -AATATGTGATCATAAGAGAA-A
1 TGATATGTGAT-AAAAGAGAAGA
1003292 TGATATG
1 TGATATG
1003299 AATACATGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.48, C:0.02, G:0.24, T:0.26
Consensus pattern (22 bp):
TGATATGTGATAAAAGAGAAGA
Found at i:1010206 original size:2 final size:2
Alignment explanation
Indices: 1010199--1010223 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1010189 TGTCGTAAAT
1010199 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1010224 GTAGATTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1018435 original size:18 final size:18
Alignment explanation
Indices: 1018412--1018446 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1018402 AACTGGAACC
* *
1018412 AAAGAAGCAAGAAAGAAG
1 AAAGAAGAAAAAAAGAAG
1018430 AAAGAAGAAAAAAAGAA
1 AAAGAAGAAAAAAAGAA
1018447 ACACACAGCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.03, G:0.23, T:0.00
Consensus pattern (18 bp):
AAAGAAGAAAAAAAGAAG
Found at i:1029578 original size:28 final size:24
Alignment explanation
Indices: 1029546--1029613 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 24
1029536 TTCTAAAACA
1029546 TATTTTTAAAATATATAAATCCATAATT
1 TATTTTTAAAAT-TATAAAT--ATAA-T
1029574 TATTTTT-AAATTATAAA-ATAAT
1 TATTTTTAAAATTATAAATATAAT
1029596 T-TTTTTAAAATTATAAAT
1 TATTTTTAAAATTATAAAT
1029614 TTATGAATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
21 5 0.13
22 12 0.32
23 4 0.11
26 6 0.16
27 4 0.11
28 7 0.18
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (24 bp):
TATTTTTAAAATTATAAATATAAT
Found at i:1033984 original size:55 final size:54
Alignment explanation
Indices: 1033916--1034030 Score: 169
Period size: 55 Copynumber: 2.1 Consensus size: 54
1033906 AGGCTTTCAT
*
1033916 AATCATGATGATTT-CTTGAGATTTGGGTATTTAAGCATTTTAAGGTTTCTGCTTG
1 AATCATGAAGATTTGC-TGAGATTTGGGTATTTAAGCA-TTTAAGGTTTCTGCTTG
* * *
1033971 ATTCATGAAGATTTGCTGAGATTTGGGTATTTAAGTATTTAAGGTTTTTGCTTG
1 AATCATGAAGATTTGCTGAGATTTGGGTATTTAAGCATTTAAGGTTTCTGCTTG
1034025 AATCAT
1 AATCAT
1034031 ACCATAGATG
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
54 21 0.39
55 32 0.59
56 1 0.02
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.45
Consensus pattern (54 bp):
AATCATGAAGATTTGCTGAGATTTGGGTATTTAAGCATTTAAGGTTTCTGCTTG
Found at i:1039730 original size:14 final size:14
Alignment explanation
Indices: 1039711--1039740 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1039701 TGTTGAAGTA
*
1039711 TGAAATGCATTGCT
1 TGAAATGCATTACT
1039725 TGAAATGCATTACT
1 TGAAATGCATTACT
1039739 TG
1 TG
1039741 CTAAGTTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (14 bp):
TGAAATGCATTACT
Done.