Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01005125.1 Kokia drynarioides strain JFW-HI SEQ_118956, 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: 2708
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Found at i:386 original size:85 final size:85
Alignment explanation
Indices: 281--447 Score: 237
Period size: 85 Copynumber: 2.0 Consensus size: 85
271 TCAAACCCAT
* * *
281 CTTCCTGATGAGATACAGAGAAGTAGGTTAAAGT-AATAAAGCGGTCATCTTTCTGATCAGATAC
1 CTTCCTAATGAGATACAGAGAAGTAGATTAAA-TCAATAAAGCGGTCATCTTCCTGATCAGATAC
*
345 AAAGAAGTAGACCAAATCTGC
65 AAAGAAGTAAACCAAATCTGC
* * *
366 CTTCCTAATGAGATATAGAGAAGTAGATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATACA
1 CTTCCTAATGAGATACAGAGAAGTAGATTAAATCAATAAAGCGGTCATCTTCCTGATCAGATACA
* *
431 GAGATGTAAACCAAATC
66 AAGAAGTAAACCAAATC
448 AATGAAGCAA
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
84 1 0.01
85 71 0.99
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.25
Consensus pattern (85 bp):
CTTCCTAATGAGATACAGAGAAGTAGATTAAATCAATAAAGCGGTCATCTTCCTGATCAGATACA
AAGAAGTAAACCAAATCTGC
Found at i:427 original size:207 final size:206
Alignment explanation
Indices: 1--614 Score: 847
Period size: 206 Copynumber: 3.0 Consensus size: 206
* *
1 TTCTGGATGAGATACAGAGAAGTAGACGAAATCAATGAAGCGAAACTCAATACGAATGAGACTTC
1 TTCT-GATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTTC
* *
66 AAACCTCATCTTCCTGATGAGATATAGAGAAGTGGGTGAAAGCAGTAAAGCGGTCATCTTCTTGA
65 AAACC-CATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCTTGA
* * * *
131 TGAGATACAAAGAAGTGGACCAAAT-T-CATCTTCCTGATAAGATACAAAGAAGTGGATTAAATC
129 TAAGATACAAAGAAGTGGACCAAATCTGC--CTTCCTGATGAGATACAGAGAAGTAGATTAAATC
194 AATGAAGCGGTCATC
192 AATGAAGCGGTCATC
* * * *
209 TTTTCATGAGATACAGAGAAGTAGACCAAATCAGTGAAGCGAAGCTCAATACAAATGAGACTTCA
1 TTCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTTCA
* * * *
274 AACCCATCTTCCTGATGAGATACAGAGAAGTAGGTTAAAGTAATAAAGCGGTCATCTT-TCTGAT
66 AACCCATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCT-TGAT
* * * *
338 CAGATACAAAGAAGTAGACCAAATCTGCCTTCCTAATGAGATATAGAGAAGTAGATTAAATCAAT
130 AAGATACAAAGAAGTGGACCAAATCTGCCTTCCTGATGAGATACAGAGAAGTAGATTAAATCAAT
403 GAAGCGGTCATC
195 GAAGCGGTCATC
* * *
415 TTCCTGATGAGATACAGAGATGTAAACCAAATCAATGAAGCAAAGCTCAATACGAATGAGACTTC
1 TT-CTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTTC
* * * *
480 AAACCCCATCATCCTAATGAGATATAGAGAAGTGGGTCATAGCAATAAAGCGGCCATCTTCTTGA
65 AAA-CCCATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCTTGA
* * * * **
545 TAAAATACAAAGAAGTGGACCAAATCTGTCTTTCGGATGAGATACAGAGAAGTAGACCAAATCAA
129 TAAGATACAAAGAAGTGGACCAAATCTGCCTTCCTGATGAGATACAGAGAAGTAGATTAAATCAA
610 TGAAG
194 TGAAG
615 TGAAGCTCAA
Statistics
Matches: 357, Mismatches: 43, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
205 1 0.00
206 121 0.34
207 119 0.33
208 115 0.32
209 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (206 bp):
TTCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTTCA
AACCCATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCTTGATA
AGATACAAAGAAGTGGACCAAATCTGCCTTCCTGATGAGATACAGAGAAGTAGATTAAATCAATG
AAGCGGTCATC
Found at i:686 original size:160 final size:160
Alignment explanation
Indices: 420--775 Score: 471
Period size: 160 Copynumber: 2.2 Consensus size: 160
410 TCATCTTCCT
* *
420 GATGAGATACAGAGATGTAAACCAAATCAATGAAGCAAAGCTCAATACGAATGAGACTTCAAACC
1 GATGAGATACAGAGAAGTAAACCAAATCAATGAAGCAAAGCTCAATACGAATAAGACTTCAAACC
* * *
485 CCATCATCCTAATGAGATATAGAGAAGTGGGTCATAGCAATAAAGCGGCCATCTTCTTGATAAAA
66 CCATCATCCTAATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGCCATCTTCCTAATAAAA
550 TACAAAGAAGTGGACCAAATCTGTCTTTCG
131 TACAAAGAAGTGGACCAAATCTGTCTTTCG
* **
580 GATGAGATACAGAGAAGTAGACCAAATCAATGAAGTGAAGCTCAATACGAATAAGACTTCAAACC
1 GATGAGATACAGAGAAGTAAACCAAATCAATGAAGCAAAGCTCAATACGAATAAGACTTCAAACC
* * * * * * **
645 CCATCTTCTTGATGAGATATAGAGAAGTGGGTGAAAGCAATAAAGCGGTCATCTTCCTAATGAGG
66 CCATCATCCTAATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGCCATCTTCCTAATAAAA
* ** *
710 TACAGAGAAGTGGACCAAATCCATC-TTCTT
131 TACAAAGAAGTGGACCAAATCTGTCTTTC-G
* * * **
740 GATAAAATACAGAGAAGTGAATTAAATCAATGAAGC
1 GATGAGATACAGAGAAGTAAACCAAATCAATGAAGC
776 GGTCATCTTC
Statistics
Matches: 168, Mismatches: 27, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
159 3 0.02
160 165 0.98
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (160 bp):
GATGAGATACAGAGAAGTAAACCAAATCAATGAAGCAAAGCTCAATACGAATAAGACTTCAAACC
CCATCATCCTAATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGCCATCTTCCTAATAAAA
TACAAAGAAGTGGACCAAATCTGTCTTTCG
Found at i:705 original size:208 final size:203
Alignment explanation
Indices: 536--1549 Score: 1016
Period size: 208 Copynumber: 4.9 Consensus size: 203
526 AAAGCGGCCA
* ** *
536 TCTTCTTGATAAAATACAAAGAAGTGGACCAAATC-T-GTC-T-TTC-GGATGAGATACAGAGAA
1 TCTTCTTGATAAAATACAGAGAAGTGGATTAAATCATGGTCATCTTCTTGATGAGATACAGAGAA
** * *
596 GTAGACCAAATCAATGAAGTGAAGCTCAATACGAATAAGACTTCAAACCCCATCTTCTTGATGAG
66 GTAGACCAAATCAATGAAGCAAAGCTCAATACGAATGAGACTTCAAACCCCATCTTCCTGATGAG
* * * *
661 ATATAGAGAAGTGGGTGAAAGCAATAAAGCGGTCATCTTCCTAATGAGGTACAGAGAAGTGGACC
131 ATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCTAATGAGATACAAAGAAGTGGATC
726 AAATC--C
196 AAATCTGC
*
732 ATCTTCTTGATAAAATACAGAGAAGTGAATTAAATCAATGAAGCGGTCATCTTCTTGATGAGATA
1 -TCTTCTTGATAAAATACAGAGAAGTGGATTAAATC-AT-----GGTCATCTTCTTGATGAGATA
* * * * * *
797 TAGAGAAGTTGACCAAATCAATGAAGCAAAACTCAATACAAATGAGACTTCAAACTCCATCTTCA
59 CAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATACGAATGAGACTTCAAACCCCATCTTCC
* * * *
862 TGATAAGATATAGAGAAGTGTGTCAAAGTAATAAAGCGGTCATCTTCCTTATGAGATACAAAGAA
124 TGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCTAATGAGATACAAAGAA
927 GTGGATCAAATCTGC
189 GTGGATCAAATCTGC
* * * * * *
942 -CTTCCTGATGAGATATAGAGAACTGGATTAAATCAATTAAGTGGTCATCTTCCTGATGAGATAC
1 TCTTCTTGATAAAATACAGAGAAGTGGATTAAATC-----A-TGGTCATCTTCTTGATGAGATAC
* * * * * **
1006 AGATAAGTAGACCAAATAAACGAAGCAAAGCTGAATACGAATGAGAC-TCTAAAACCCAAGTTCC
60 AGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATACGAATGAGACTTC-AAACCCCATCTTCC
** * * *
1070 TGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTTGTCTTCCTGATGAGGTAAAAAGAA
124 TGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCTAATGAGATACAAAGAA
1135 GTGGATCAAATCTG-
189 GTGGATCAAATCTGC
* * * *
1149 TCTTCTTGATAAGATATAGAGTAGTAGG-TTAAATTAATGAAGTGGTCATCTTCTTGATGAGATA
1 TCTTCTTGATAAAATACAGAGAAGT-GGATT--A--AAT-CA-TGGTCATCTTCTTGATGAGATA
* ** *
1213 CAGAGAAGTAGACCGAATCAATGAAGTGAAGCTCAATACGAATGAGACTTCAAACACCATCTTCC
59 CAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATACGAATGAGACTTCAAACCCCATCTTCC
* * *
1278 TGATGAGATATAGAGAAGTGTGACAAAGCAATAAAGCAGTCATCTTCCTAATGAGATACAAAGAA
124 TGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCTAATGAGATACAAAGAA
* **
1343 GTGGACCAAATCCAC
189 GTGGATCAAATCTGC
* * * * *
1358 -CTT-TCTGATGAGATACAGACAAATGGATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATA
1 TCTTCT-TGATAAAATACAGAGAAGTGGATTAAATC-AT-----GGTCATCTTCTTGATGAGATA
* * * * * * * *
1421 TAGAGAAGTACACCAAATCAATGAAGCGAAGCTCAATATGAATGAGACTCCAAAACCCATGTTCT
59 CAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATACGAATGAGACTTCAAACCCCATCTTCC
** *
1486 TGATGAG--ATAGAGAAGTGGGTCAAAATAATAAAGCGG-CTATCTTCCTAATGAGATACATAGA
124 TGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTC-ATCTTCCTAATGAGATACAAAGA
1548 AG
188 AG
1550 CAGACCAAAT
Statistics
Matches: 679, Mismatches: 101, Indels: 65
0.80 0.12 0.08
Matches are distributed among these distances:
197 31 0.05
199 1 0.00
203 1 0.00
204 4 0.01
205 4 0.01
206 51 0.08
207 8 0.01
208 567 0.84
209 4 0.01
210 2 0.00
212 5 0.01
213 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (203 bp):
TCTTCTTGATAAAATACAGAGAAGTGGATTAAATCATGGTCATCTTCTTGATGAGATACAGAGAA
GTAGACCAAATCAATGAAGCAAAGCTCAATACGAATGAGACTTCAAACCCCATCTTCCTGATGAG
ATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCTAATGAGATACAAAGAAGTGGATC
AAATCTGC
Found at i:730 original size:368 final size:367
Alignment explanation
Indices: 214--963 Score: 1045
Period size: 368 Copynumber: 2.0 Consensus size: 367
204 TCATCTTTTC
* *
214 ATGAGATACAGAGAAGTAGACCAAATCAGTGAAGCGAAGCTCAATACAAATGAGACTTCAAACCC
1 ATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACAAATAAGACTTCAAACCC
* * * *
279 ATCTTCCTGATGAGATACAGAGAAGTAGGTTAAAGTAATAAAGCGGTCATCTTTCTGATCAGATA
66 ATCTTCCTGATGAGATACAGAGAAGTAGGTGAAAGCAATAAAGCGGTCATCTTCCTAATCAGATA
** * * *
344 CAAAGAAGTAGACCAAATCTGCCTTCCTAATGAGATATAGAGAAGT-AGATTAAATCAATGAAGC
131 CAAAGAAGTAGACCAAATCCACCTTCCTAATAAAATACAGAGAAGTGA-ATTAAATCAATGAAGC
* * *
408 GGTCATCTTCCTGATGAGATACAGAGATGTAAACCAAATCAATGAAGCAAAGCTCAATACGAATG
195 GGTCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATCAATGAAGCAAAACTCAATACAAATG
* * *
473 AGACTTCAAACCCCATCATCCTAATGAGATATAGAGAAGTGGGTCATAGCAATAAAGCGGCCATC
260 AGACTTCAAACCCCATCATCATAATAAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGCCATC
* *
538 TT-CTTGATAAAATACAAAGAAGTGGACCAAATCTGTCTTTCGG
325 TTCCTT-ATAAAATACAAAGAAGTGGACCAAATCTGCCTTCCGG
* *
581 ATGAGATACAGAGAAGTAGACCAAATCAATGAAGTGAAGCTCAATACGAATAAGACTTCAAACCC
1 ATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACAAATAAGACTTCAAA-CC
* * * * *
646 CATCTTCTTGATGAGATATAGAGAAGTGGGTGAAAGCAATAAAGCGGTCATCTTCCTAATGAGGT
65 CATCTTCCTGATGAGATACAGAGAAGTAGGTGAAAGCAATAAAGCGGTCATCTTCCTAATCAGAT
* * * * *
711 ACAGAGAAGTGGACCAAATCCATCTTCTTGATAAAATACAGAGAAGTGAATTAAATCAATGAAGC
130 ACAAAGAAGTAGACCAAATCCACCTTCCTAATAAAATACAGAGAAGTGAATTAAATCAATGAAGC
* * **
776 GGTCATCTTCTTGATGAGATATAGAGAAGTTGACCAAATCAATGAAGCAAAACTCAATACAAATG
195 GGTCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATCAATGAAGCAAAACTCAATACAAATG
* * * * * *
841 AGACTTCAAACTCCATCTTCATGATAAGATATAGAGAAGTGTGTCAAAGTAATAAAGCGGTCATC
260 AGACTTCAAACCCCATCATCATAATAAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGCCATC
* * * *
906 TTCCTTATGAGATACAAAGAAGTGGATCAAATCTGCCTTCCTG
325 TTCCTTATAAAATACAAAGAAGTGGACCAAATCTGCCTTCCGG
*
949 ATGAGATATAGAGAA
1 ATGAGATACAGAGAA
964 CTGGATTAAA
Statistics
Matches: 334, Mismatches: 46, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
367 58 0.17
368 272 0.81
369 4 0.01
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (367 bp):
ATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACAAATAAGACTTCAAACCC
ATCTTCCTGATGAGATACAGAGAAGTAGGTGAAAGCAATAAAGCGGTCATCTTCCTAATCAGATA
CAAAGAAGTAGACCAAATCCACCTTCCTAATAAAATACAGAGAAGTGAATTAAATCAATGAAGCG
GTCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATCAATGAAGCAAAACTCAATACAAATGA
GACTTCAAACCCCATCATCATAATAAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGCCATCT
TCCTTATAAAATACAAAGAAGTGGACCAAATCTGCCTTCCGG
Found at i:793 original size:85 final size:85
Alignment explanation
Indices: 645--815 Score: 225
Period size: 85 Copynumber: 2.0 Consensus size: 85
635 ACTTCAAACC
* * * ** *
645 CCATCTTCTTGATGAGATATAGAGAAGTGGGTGAAAGCAATAAAGCGGTCATCTTCCTAATGAGG
1 CCATCTTCTTGATAAAATACAGAGAAGTGAATGAAAGCAATAAAGCGGTCATCTTCCTAATGAGA
710 TACAGAGAAGTGGACCAAAT
66 TACAGAGAAGTGGACCAAAT
* * * * *
730 CCATCTTCTTGATAAAATACAGAGAAGTGAATTAAATCAATGAAGCGGTCATCTTCTTGATGAGA
1 CCATCTTCTTGATAAAATACAGAGAAGTGAATGAAAGCAATAAAGCGGTCATCTTCCTAATGAGA
* *
795 TATAGAGAAGTTGACCAAAT
66 TACAGAGAAGTGGACCAAAT
815 C
1 C
816 AATGAAGCAA
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
85 73 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (85 bp):
CCATCTTCTTGATAAAATACAGAGAAGTGAATGAAAGCAATAAAGCGGTCATCTTCCTAATGAGA
TACAGAGAAGTGGACCAAAT
Found at i:802 original size:48 final size:48
Alignment explanation
Indices: 731--823 Score: 125
Period size: 48 Copynumber: 1.9 Consensus size: 48
721 GGACCAAATC
**
731 CATCTTCTTGATAAAATACAGAGAAG-TGAATTAAATCAATGAAGCGGT
1 CATCTTCTTGATAAAATACAGAGAAGTTG-ACCAAATCAATGAAGCGGT
* * *
779 CATCTTCTTGATGAGATATAGAGAAGTTGACCAAATCAATGAAGC
1 CATCTTCTTGATAAAATACAGAGAAGTTGACCAAATCAATGAAGC
824 AAAACTCAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 37 0.95
49 2 0.05
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (48 bp):
CATCTTCTTGATAAAATACAGAGAAGTTGACCAAATCAATGAAGCGGT
Found at i:946 original size:37 final size:37
Alignment explanation
Indices: 905--975 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
895 AAGCGGTCAT
* *
905 CTTCCTTATGAGATACAAAGAAGTGGATCAAATCTGC
1 CTTCCTGATGAGATACAAAGAACTGGATCAAATCTGC
* * *
942 CTTCCTGATGAGATATAGAGAACTGGATTAAATC
1 CTTCCTGATGAGATACAAAGAACTGGATCAAATC
976 AATTAAGTGG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (37 bp):
CTTCCTGATGAGATACAAAGAACTGGATCAAATCTGC
Found at i:1155 original size:416 final size:414
Alignment explanation
Indices: 580--1605 Score: 1401
Period size: 416 Copynumber: 2.5 Consensus size: 414
570 CTGTCTTTCG
* * *
580 GATGAGATACAGAGAAGTAGACCAAATCAATGAAGTGAAGCTCAATACGAATAAGACT-TCAAAC
1 GATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTCT-AAAA
* * *
644 CCCATCTTCTTGATGAGATATAGAGAAGTGGGTGAAAGCAATAAAGCGGTCATCTTCCTAATGAG
65 CCCATGTTCTTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTTATCTTCCTAATGAG
* *
709 GTACAGAGAAGTGGACCAAATCCATCTTCTTGATAAAATACAGAGAAGTGAATTAAATCAATGAA
130 GTACAAAGAAGTGGACCAAAT-CATCTTCTTGATAAGATACAGAGAAGT-AATTAAATCAATGAA
* *
774 GCGGTCATCTTCTTGATGAGATATAGAGAAGTTGACCAAATCAATGAAGCAAAACTCAATACAAA
193 GCGGTCATCTTCTTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAACTCAATACAAA
* * * *
839 TGAGACTTCAAACTCCATCTTCATGATAAGATATAGAGAAGTGTGTCAAAGTAATAAAGCGGTCA
258 TGAGACTTCAAACACCATCTTCATGATAAGATATAGAGAAGTGTGACAAAGCAATAAAGCAGTCA
* * ** * * *
904 TCTTCCTTATGAGATACAAAGAAGTGGATCAAATCTGCCTTCCTGATGAGATATAGAGAACTGGA
323 TCTTCCTAATGAGATACAAAGAAGTGGACCAAATCCACCTTCCTGATGAGATACAGACAAATGGA
* *
969 TTAAATCAATTAAGTGGTCATCTTCCT
388 TTAAATCAATGAAGCGGTCATCTTCCT
* * * * *
996 GATGAGATACAGATAAGTAGACCAAATAAACGAAGCAAAGCTGAATACGAATGAGACTCTAAAAC
1 GATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTCTAAAAC
* * * *
1061 CCAAGTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTTGTCTTCCTGATGAGG
66 CCATGTTCTTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTTATCTTCCTAATGAGG
* * * * * * *
1126 TAAAAAGAAGTGGATCAAATCTGTCTTCTTGATAAGATATAGAGTAGTAGGTTAAATTAATGAAG
131 TACAAAGAAGTGGACCAAATC-ATCTTCTTGATAAGATACAGAGAAGTA-ATTAAATCAATGAAG
* * ** * *
1191 TGGTCATCTTCTTGATGAGATACAGAGAAGTAGACCGAATCAATGAAGTGAAGCTCAATACGAAT
194 CGGTCATCTTCTTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAACTCAATACAAAT
* *
1256 GAGACTTCAAACACCATCTTCCTGATGAGATATAGAGAAGTGTGACAAAGCAATAAAGCAGTCAT
259 GAGACTTCAAACACCATCTTCATGATAAGATATAGAGAAGTGTGACAAAGCAATAAAGCAGTCAT
*
1321 CTTCCTAATGAGATACAAAGAAGTGGACCAAATCCACCTTTCTGATGAGATACAGACAAATGGAT
324 CTTCCTAATGAGATACAAAGAAGTGGACCAAATCCACCTTCCTGATGAGATACAGACAAATGGAT
1386 TAAATCAATGAAGCGGTCATCTTCCT
389 TAAATCAATGAAGCGGTCATCTTCCT
* * * *
1412 GATGAGATATAGAGAAGTACACCAAATCAATGAAGCGAAGCTCAATATGAATGAGACTCCAAAAC
1 GATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTCTAAAAC
** * *
1477 CCATGTTCTTGATGAG--ATAGAGAAGTGGGTCAAAATAATAAAGCGGCTATCTTCCTAATGAGA
66 CCATGTTCTTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTTATCTTCCTAATGAGG
* ** * * * **
1540 TACATAGAAGCAGACCAAATCACCTTCTTGATGAGATGCAGAGAAGTAAACCAAATCAATGAAGC
131 TACAAAGAAGTGGACCAAATCATCTTCTTGATAAGATACAGAGAAGT-AATTAAATCAATGAAGC
1605 G
195 G
1606 AAGCTCAATA
Statistics
Matches: 525, Mismatches: 81, Indels: 11
0.85 0.13 0.02
Matches are distributed among these distances:
413 32 0.06
414 58 0.11
415 2 0.00
416 432 0.82
417 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (414 bp):
GATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTCTAAAAC
CCATGTTCTTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTTATCTTCCTAATGAGG
TACAAAGAAGTGGACCAAATCATCTTCTTGATAAGATACAGAGAAGTAATTAAATCAATGAAGCG
GTCATCTTCTTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAACTCAATACAAATGA
GACTTCAAACACCATCTTCATGATAAGATATAGAGAAGTGTGACAAAGCAATAAAGCAGTCATCT
TCCTAATGAGATACAAAGAAGTGGACCAAATCCACCTTCCTGATGAGATACAGACAAATGGATTA
AATCAATGAAGCGGTCATCTTCCT
Found at i:1642 original size:365 final size:366
Alignment explanation
Indices: 1198--1963 Score: 1042
Period size: 365 Copynumber: 2.1 Consensus size: 366
1188 AAGTGGTCAT
* *
1198 CTTCTTGATGAGATACAGAGAAGTAGACCGAATCAATGAAGTGAAGCTCAATACGAATGAGACTT
1 CTTCTTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTT
* * *
1263 CAAACACCATCTTCCTGATGAGATATAGAGAAGTGTGACAAAGCAATAAAGC-AGTCATCTTCCT
66 CAAACACCATCTTCCTGATGAGATACAGAGAAATGGGACAAAGCAATAAAGCGA-TCATCTTCCT
* * *
1327 AATGAGATACAA-AGAAGTGGACCAAATCCACCTTTCTGATGAGATACAGACAAATGGATTAAAT
130 AATGAGATA-AAGAGAAGTGGACCAAATCCACCTTCCTGATAAGATACAGACAAATGAATTAAAT
* * *
1391 CAATGAAGCGGTCATCTTCCTGATGAGATATAGAGAAGTACACCAAATCAATGAAGCGAAGCTCA
194 CAATGAAGCGGTAATCTTCATGATGAGATACAGAGAAGTACACCAAATCAATGAAGCGAAGCTCA
** * *
1456 ATATGAATGAGACTCCAAAACCCATGTTCTTGATGAG-ATAGAGAAGTGGGTCAAA-ATAATAAA
259 ATACAAATGAGACTCCAAAACCCATCTTCCTGATGAGAATAGAGAAGTGGGTCAAAGA-AATAAA
** *
1519 GC-GGCTATCTTCCTAATGAGATACATAGAAGCAGACCAAATCAC-
323 GCAATC-ATCTTCCTAATGAGATACAAAGAAGCAGACCAAATC-CG
* *
1563 CTTCTTGATGAGATGCAGAGAAGTAAACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTT
1 CTTCTTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTT
* * *
1628 CAAATC-CTATCTTCCTGATGAGATACAGAGAAATGGGTCAAAGCAATAAAGCGATTATCTTCCT
66 CAAA-CACCATCTTCCTGATGAGATACAGAGAAATGGGACAAAGCAATAAAGCGATCATCTTCCT
* * * ** * * *
1692 GATGAGGTAAAGAGAAGTGGACCAAATTCGTCTTCCTGATAAGATATAGAGAAGTGAATTAAATC
130 AATGAGATAAAGAGAAGTGGACCAAATCCACCTTCCTGATAAGATACAGACAAATGAATTAAATC
*
1757 AATGAAGCGGTAATCTTCATGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAA
195 AATGAAGCGGTAATCTTCATGATGAGATACAGAGAAGTACACCAAATCAATGAAGCGAAGCTCAA
* * * *
1822 TACAAATGAGACTTCAAACCCCATCTTCCTGATGAGATATAGAGCAGTGTGTCAAAGAAATAAAG
260 TACAAATGAGACTCCAAAACCCATCTTCCTGATGAGA-ATAGAGAAGTGGGTCAAAGAAATAAAG
* **
1887 CAATCATCTTCCTGATGAGATACAAAGAAGTGGACCAAATCCG
324 CAATCATCTTCCTAATGAGATACAAAGAAGCAGACCAAATCCG
* *
1930 TCTTTTTGATGAGATACAGAGAAGTGGACCAAAT
1 -CTTCTTGATGAGATACAGAGAAGTAGACCAAAT
1964 TCGCCTTCCT
Statistics
Matches: 349, Mismatches: 43, Indels: 15
0.86 0.11 0.04
Matches are distributed among these distances:
364 2 0.01
365 257 0.74
366 3 0.01
367 56 0.16
368 31 0.09
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.23
Consensus pattern (366 bp):
CTTCTTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTT
CAAACACCATCTTCCTGATGAGATACAGAGAAATGGGACAAAGCAATAAAGCGATCATCTTCCTA
ATGAGATAAAGAGAAGTGGACCAAATCCACCTTCCTGATAAGATACAGACAAATGAATTAAATCA
ATGAAGCGGTAATCTTCATGATGAGATACAGAGAAGTACACCAAATCAATGAAGCGAAGCTCAAT
ACAAATGAGACTCCAAAACCCATCTTCCTGATGAGAATAGAGAAGTGGGTCAAAGAAATAAAGCA
ATCATCTTCCTAATGAGATACAAAGAAGCAGACCAAATCCG
Found at i:1780 original size:85 final size:85
Alignment explanation
Indices: 1637--1803 Score: 208
Period size: 85 Copynumber: 2.0 Consensus size: 85
1627 TCAAATCCTA
* ** * * *
1637 TCTTCCTGATGAGATACAGAGAAATGGGTCAAAGCAATAAAGCGATTATCTTCCTGATGAGGTAA
1 TCTTCCTGATAAGATACAGAGAAATGAATCAAAGCAATAAAGCGATAATCTTCATGATGAGATAA
*
1702 AGAGAAGTGGACCAAATTCG
66 AGAGAAGTAGACCAAATTCG
* * * * * * *
1722 TCTTCCTGATAAGATATAGAGAAGTGAATTAAATCAATGAAGCGGTAATCTTCATGATGAGATAC
1 TCTTCCTGATAAGATACAGAGAAATGAATCAAAGCAATAAAGCGATAATCTTCATGATGAGATAA
1787 AGAGAAGTAGACCAAAT
66 AGAGAAGTAGACCAAAT
1804 CAATGAAGCG
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
85 68 1.00
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.25
Consensus pattern (85 bp):
TCTTCCTGATAAGATACAGAGAAATGAATCAAAGCAATAAAGCGATAATCTTCATGATGAGATAA
AGAGAAGTAGACCAAATTCG
Found at i:1782 original size:159 final size:154
Alignment explanation
Indices: 1402--1765 Score: 422
Period size: 157 Copynumber: 2.3 Consensus size: 154
1392 AATGAAGCGG
1402 TCATCTTCCTGATGAGATATAGAGAAGTACACCAAATCAATGAAGCGAAGCTCAATATGAATGAG
1 TCATCTTCCTGATGAGATATAGAGAAGTA-ACCAAATCAATGAAGCGAAGCTC-A-ATGAATGAG
* * * * *
1467 ACTCCAAAACCCATGTTCTTGATGAGATAGAGAAGTGGGTCAAAATAATAAAGCGGCTATCTTCC
63 ACTCCAAAACCCATCTTCCTGATGAGATAGAGAAATGGGTCAAAACAATAAAGCGACTATCTTCC
* *
1532 TAATGAGATACATAGAAGCAGACCAAA
128 TAATGAGATAAAGAGAAGCAGACCAAA
* * **
1559 TCACCTTCTTGATGAGATGCAGAGAAGTAAACCAAATCAATGAAGCGAAGCTCAATACGAATGAG
1 TCATCTTCCTGATGAGATATAGAGAAGT-AACCAAATCAATGAAGCGAAGCTCAAT--GAATGAG
* * * * *
1624 ACTTCAAATCCTATCTTCCTGATGAGATACAGAGAAATGGGTCAAAGCAATAAAGCGATTATCTT
63 ACTCCAAAACCCATCTTCCTGATGAGAT--AGAGAAATGGGTCAAAACAATAAAGCGACTATCTT
* * **
1689 CCTGATGAGGTAAAGAGAAGTGGACCAAA
126 CCTAATGAGATAAAGAGAAGCAGACCAAA
* * **
1718 TTCGTCTTCCTGATAAGATATAGAGAAGTGAATTAAATCAATGAAGCG
1 -TCATCTTCCTGATGAGATATAGAGAAGT-AACCAAATCAATGAAGCG
1766 GTAATCTTCA
Statistics
Matches: 172, Mismatches: 29, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
155 2 0.01
156 1 0.01
157 77 0.45
158 1 0.01
159 53 0.31
160 38 0.22
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (154 bp):
TCATCTTCCTGATGAGATATAGAGAAGTAACCAAATCAATGAAGCGAAGCTCAATGAATGAGACT
CCAAAACCCATCTTCCTGATGAGATAGAGAAATGGGTCAAAACAATAAAGCGACTATCTTCCTAA
TGAGATAAAGAGAAGCAGACCAAA
Found at i:1793 original size:48 final size:48
Alignment explanation
Indices: 1722--1813 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
1712 ACCAAATTCG
* * **
1722 TCTTCCTGATAAGATATAGAGAAGT-GAATTAAATCAATGAAGCGGTAA
1 TCTTCATGATAAGATACAGAGAAGTAG-ACCAAATCAATGAAGCGGTAA
*
1770 TCTTCATGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCG
1 TCTTCATGATAAGATACAGAGAAGTAGACCAAATCAATGAAGCG
1814 AAGCTCAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
48 37 0.97
49 1 0.03
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.24
Consensus pattern (48 bp):
TCTTCATGATAAGATACAGAGAAGTAGACCAAATCAATGAAGCGGTAA
Found at i:1807 original size:208 final size:208
Alignment explanation
Indices: 1563--2708 Score: 1163
Period size: 208 Copynumber: 5.5 Consensus size: 208
1553 ACCAAATCAC
* * *
1563 CTTCTTGATGAGATGCAGAGAAGTAAACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTT
1 CTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTT
* * * *
1628 CAAATCCTATCTTCCTGATGAGATACAGAGAAATGGGTCAAAGCAATAAAGCGATTATCTTCCTG
66 CAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGATCATCTTCCTG
* * * * *
1693 ATGAGGTAAAGAGAAGTGGACCAAATTCGTCTTCCTGATAAGATATAGAGAAGTGAATTAAATCA
131 ATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGTGGATTAAATCA
*
1758 ATGAAGCGGTAAT
196 ATGAAGCGGTCAT
* *
1771 CTTCATGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACAAATGAGACTT
1 CTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTT
* * * * *
1836 CAAACCCCATCTTCCTGATGAGATATAGAGCAGTGTGTCAAAGAAATAAAGCAATCATCTTCCTG
66 CAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGATCATCTTCCTG
* * ** **
1901 ATGAGATACAAAGAAGTGGACCAAATCCGTCTTTTTGATGAGATACAGAGAAGTGGACCAAAT--
131 ATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGTGGATTAAATCA
1964 -T----C-G-C--
196 ATGAAGCGGTCAT
* * ** * * *
1968 CTTCCTGATAAGATACAGAGAAGTGGATTAAATCAATGAAGCGGTCATGTTCCTGATGA-GATAT
1 CTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGC-G--AAGCT-C-AAT-ACGA-AT
** * ** *
2032 AGAGAAGT-AGACCAAATCAATGAAGCAAAGCTCAGAACCTGATGAGATACAGAGAAGTGGGTCA
59 -GAGACTTCAAACCCCATC--T---TC----CT--------GATGAGATACAGAGAAGTGGGTCA
* ** * * * *
2096 ATA-TAATAAAGCGGCCATCTTCCTAATGAGATACAGAGAAGTTGACCAAGTTC-TCCTTCTTGA
106 A-AGCAATAAAGCGATCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGT-CTTCCTGA
** *
2159 TGAGATACAGAGAAGTGGATTAAATCAATGATTCAGTCAT
169 TGAGATACAGAGAAGTGGATTAAATCAATGAAGCGGTCAT
* * *
2199 TTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATAAAGTGAAGCTCAATACGAATGAGACTT
1 CTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTT
* * * * *
2264 CAAAGCCCATCTTCTTGATGAGAAACAGAGAAGTGGATCAAAGCAATAAAGCGGTCATCTTCCTG
66 CAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGATCATCTTCCTG
* * * * *
2329 ATGAAATACAGAGAAGTGGATCAAATCCATCTTCCTGATGAGATACAGAGAAGTGGATTAAATTA
131 ATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGTGGATTAAATCA
**
2394 ATGAAGCTATCAT
196 ATGAAGCGGTCAT
** * *
2407 CTTCCTGATGAGGCATAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATACGAATGAGACTT
1 CTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTT
* * * * *
2472 CAAACCTCATCTTCCTAATAAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGACCATC-TCTCT
66 CAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGATCATCTTC-CT
* * * * *
2536 GATAAGACACAGAGTACTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGTGAATTAAATC
130 GATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGTGGATTAAATC
2601 AATGAAGCGGTCAT
195 AATGAAGCGGTCAT
* * * *
2615 CTTCCTGATGAGATACAGAGAAGTAGACGAAATCAATGAAGCGAAGCTCGATACAAATGAGGCTT
1 CTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTT
* * *
2680 TAAGCCCCATCTTCCTGATGAGTTACAGA
66 CAAACCCCATCTTCCTGATGAGATACAGA
Statistics
Matches: 762, Mismatches: 133, Indels: 86
0.78 0.14 0.09
Matches are distributed among these distances:
197 37 0.05
198 1 0.00
200 4 0.01
201 2 0.00
202 3 0.00
203 10 0.01
204 5 0.01
205 2 0.00
207 3 0.00
208 532 0.70
209 1 0.00
212 2 0.00
216 1 0.00
219 1 0.00
220 94 0.12
221 1 0.00
223 2 0.00
224 5 0.01
225 9 0.01
226 4 0.01
227 2 0.00
228 4 0.01
229 1 0.00
230 1 0.00
231 35 0.05
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.23
Consensus pattern (208 bp):
CTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTT
CAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGATCATCTTCCTG
ATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGTGGATTAAATCA
ATGAAGCGGTCAT
Found at i:1942 original size:37 final size:37
Alignment explanation
Indices: 1894--1994 Score: 148
Period size: 37 Copynumber: 2.7 Consensus size: 37
1884 AAGCAATCAT
* *
1894 CTTCCTGATGAGATACAAAGAAGTGGACCAAATCCGT
1 CTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGC
** *
1931 CTTTTTGATGAGATACAGAGAAGTGGACCAAATTCGC
1 CTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGC
*
1968 CTTCCTGATAAGATACAGAGAAGTGGA
1 CTTCCTGATGAGATACAGAGAAGTGGA
1995 TTAAATCAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.24
Consensus pattern (37 bp):
CTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGC
Found at i:2049 original size:48 final size:48
Alignment explanation
Indices: 1969--2235 Score: 182
Period size: 48 Copynumber: 5.8 Consensus size: 48
1959 CAAATTCGCC
* **
1969 TTCCTGATAAGATACAGAGAAGTGGATTAAATCAATGAAGCGGTCATG
1 TTCCTGATGAGATACAGAGAAGTGGACCAAATCAATGAAGCGGTCATG
* * *
2017 TTCCTGATGAGATATAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCA-G
1 TTCCTGATGAGATACAGAGAAGTGGACCAAATCAATGAAGC---GGTCATG
** ** * * *
2067 AACCTGATGAGATACAGAGAAGTGGGTCAATAT-AATAAAGCGGCCATC
1 TTCCTGATGAGATACAGAGAAGTGGACCAA-ATCAATGAAGCGGTCATG
* * * *
2115 TTCCTAATGAGATACAGAGAAGTTGACCAAGT---T----C--TC--C
1 TTCCTGATGAGATACAGAGAAGTGGACCAAATCAATGAAGCGGTCATG
* ** ** * *
2152 TTCTTGATGAGATACAGAGAAGTGGATTAAATCAATGATTCAGTCATT
1 TTCCTGATGAGATACAGAGAAGTGGACCAAATCAATGAAGCGGTCATG
*
2200 TTCCTGATGAGATACAGAGAAGTAGACCAAATCAAT
1 TTCCTGATGAGATACAGAGAAGTGGACCAAATCAAT
2236 AAAGTGAAGC
Statistics
Matches: 168, Mismatches: 35, Indels: 32
0.71 0.15 0.14
Matches are distributed among these distances:
37 27 0.16
39 1 0.01
40 1 0.01
41 1 0.01
44 1 0.01
45 1 0.01
46 2 0.01
47 4 0.02
48 92 0.55
50 32 0.19
51 6 0.04
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.24
Consensus pattern (48 bp):
TTCCTGATGAGATACAGAGAAGTGGACCAAATCAATGAAGCGGTCATG
Found at i:2214 original size:85 final size:85
Alignment explanation
Indices: 2071--2229 Score: 212
Period size: 85 Copynumber: 1.9 Consensus size: 85
2061 GCTCAGAACC
* *
2071 TGATGAGATACAGAGAAGTGGGTCAATATAATAAAGCGGCCATCTTCCTAATGAGATACAGAGAA
1 TGATGAGATACAGAGAAGTGGATCAATATAATAAAGCAGCCATCTTCCTAATGAGATACAGAGAA
*
2136 GTTGACCAAGTTCTCCTTCT
66 GTAGACCAAGTTCTCCTTCT
* * ** * * *
2156 TGATGAGATACAGAGAAGTGGATTAA-ATCAATGATTCAGTCATTTTCCTGATGAGATACAGAGA
1 TGATGAGATACAGAGAAGTGGATCAATAT-AATAAAGCAGCCATCTTCCTAATGAGATACAGAGA
2220 AGTAGACCAA
65 AGTAGACCAA
2230 ATCAATAAAG
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
84 2 0.03
85 61 0.97
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (85 bp):
TGATGAGATACAGAGAAGTGGATCAATATAATAAAGCAGCCATCTTCCTAATGAGATACAGAGAA
GTAGACCAAGTTCTCCTTCT
Found at i:2369 original size:37 final size:37
Alignment explanation
Indices: 2319--2391 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
2309 ATAAAGCGGT
2319 CATCTTCCTGATGAAATACAGAGAAGTGGATCAAATC
1 CATCTTCCTGATGAAATACAGAGAAGTGGATCAAATC
* *
2356 CATCTTCCTGATGAGATACAGAGAAGTGGATTAAAT
1 CATCTTCCTGATGAAATACAGAGAAGTGGATCAAAT
2392 TAATGAAGCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (37 bp):
CATCTTCCTGATGAAATACAGAGAAGTGGATCAAATC
Found at i:2427 original size:48 final size:48
Alignment explanation
Indices: 2356--2448 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
2346 GGATCAAATC
* * ** *
2356 CATCTTCCTGATGAGATACAGAGAAGTGGATTAAATTAATGAAGCTAT
1 CATCTTCCTGATGAGACACAGAGAAGTAGACCAAATCAATGAAGCTAT
* *
2404 CATCTTCCTGATGAGGCATAGAGAAGTAGACCAAATCAATGAAGC
1 CATCTTCCTGATGAGACACAGAGAAGTAGACCAAATCAATGAAGC
2449 AAAGCTCAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (48 bp):
CATCTTCCTGATGAGACACAGAGAAGTAGACCAAATCAATGAAGCTAT
Found at i:2427 original size:85 final size:85
Alignment explanation
Indices: 2270--2440 Score: 216
Period size: 85 Copynumber: 2.0 Consensus size: 85
2260 ACTTCAAAGC
* *
2270 CCATCTTCTTGATGAGAAACAGAGAAGTGGATCAAAGCAATAAAGCGGTCATCTTCCTGATGAAA
1 CCATCTTCCTGATGAGAAACAGAGAAGTGGATCAAAGCAATAAAGCGATCATCTTCCTGATGAAA
* * *
2335 TACAGAGAAGTGGATCAAAT
66 CACAGAGAAGTAGACCAAAT
* * ** * * **
2355 CCATCTTCCTGATGAGATACAGAGAAGTGGATTAAATTAATGAAGCTATCATCTTCCTGATGAGG
1 CCATCTTCCTGATGAGAAACAGAGAAGTGGATCAAAGCAATAAAGCGATCATCTTCCTGATGAAA
*
2420 CATAGAGAAGTAGACCAAAT
66 CACAGAGAAGTAGACCAAAT
2440 C
1 C
2441 AATGAAGCAA
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
85 72 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (85 bp):
CCATCTTCCTGATGAGAAACAGAGAAGTGGATCAAAGCAATAAAGCGATCATCTTCCTGATGAAA
CACAGAGAAGTAGACCAAAT
Found at i:2637 original size:48 final size:48
Alignment explanation
Indices: 2566--2657 Score: 150
Period size: 48 Copynumber: 1.9 Consensus size: 48
2556 ACCAAATTCG
**
2566 TCTTCCTGATGAGATACAGAGAAGT-GAATTAAATCAATGAAGCGGTCA
1 TCTTCCTGATGAGATACAGAGAAGTAG-ACGAAATCAATGAAGCGGTCA
2614 TCTTCCTGATGAGATACAGAGAAGTAGACGAAATCAATGAAGCG
1 TCTTCCTGATGAGATACAGAGAAGTAGACGAAATCAATGAAGCG
2658 AAGCTCGATA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
48 40 0.98
49 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (48 bp):
TCTTCCTGATGAGATACAGAGAAGTAGACGAAATCAATGAAGCGGTCA
Done.