Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold5065.1
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: 34380
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.32
Warning! 327 characters in sequence are not A, C, G, or T
Found at i:554 original size:86 final size:87
Alignment explanation
Indices: 399--597 Score: 224
Period size: 86 Copynumber: 2.2 Consensus size: 87
389 GAAAGTAGAA
* *
399 TTTGAAAAGCATAAATTGAAAAAACGAAAAATTGAAAATACCTCAGCGTGCGAGCCGAGGCTCAA
1 TTTGAAAA-CATAAATTG-AAAAACGAAAAATGGAAAATACCTCAGCATGC--GCCGAGGCTCAA
*
464 CTCACCTTTAGCAATATGAATTGATT
62 CTCACCTCTAGCAATATGAATTGATT
* *
490 TTTGAAAACATAAATTGAAAAAC-AGAAATGGAAAATACCTCAGCATGTC-CTGAGGCTCAACTC
1 TTTGAAAACATAAATTGAAAAACGAAAAATGGAAAATACCTCAGCATG-CGCCGAGGCTCAACTC
* * * *
553 ACCTCTCGCAGTATGAGTTGGTT
65 ACCTCTAGCAATATGAATTGATT
*
576 TTTGCCAAACAGT-AATTGAAAA
1 TTTG-AAAACA-TAAATTGAAAA
598 TACCTCAGCG
Statistics
Matches: 95, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
86 35 0.37
87 14 0.15
88 22 0.23
89 7 0.07
90 9 0.09
91 8 0.08
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (87 bp):
TTTGAAAACATAAATTGAAAAACGAAAAATGGAAAATACCTCAGCATGCGCCGAGGCTCAACTCA
CCTCTAGCAATATGAATTGATT
Found at i:628 original size:73 final size:72
Alignment explanation
Indices: 508--1340 Score: 808
Period size: 73 Copynumber: 11.1 Consensus size: 72
498 CATAAATTGA
* * *
508 AAAACAGAAATGGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
573 GTTTTTG
66 ATTTTTG
* * * *
580 CCAAACAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 -AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
645 GA-TTTAG
65 GATTTTTG
* ** * ** * ** * *
652 AAAACAGACATAAAAACAGAAATTGAAAGTGACTCAACATGTGAGC-CAAGGCTCAACTCACCTT
1 AAAACAGAAATTGAAA-A-TACCTCAGCGTG--TC--C-TGAG-GCTCAA----C---TCACCTC
716 TCGCAATATGAGTTGATTTTTTTG
51 TCGCAATATGAGTTGA--TTTTTG
** * * * *
740 AAAGTAGAATTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
805 ATTTTTG
66 ATTTTTG
* *
812 AAAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 -AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
877 GATTTTTG
65 GATTTTTG
* *
885 AAAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 -AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
950 GATTTTTG
65 GATTTTTG
* *
958 AAAAACATAAATTGAACAGGAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCG
1 -AAAAC----A--G---A--AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
1023 CAATATGAGTTGATTTTCTTG
54 CAATATGAGTTGA-TTT-TTG
* **
1044 AAAAGTAGAAATTGAAAATACCTCAATGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAA-CAGAAATTGAAAATACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGT
1108 TGATTTTTTTG
64 TGA--TTTTTG
* * **
1119 ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
1184 AATTTTG
66 ATTTTTG
* * * **
1191 AAAAGCAGAAATTGAAAATACTTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAAA-CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
1256 GAATTTTG
65 GATTTTTG
* ** * **
1264 AAAACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
1329 ATTCTTTC
66 ATT-TTTG
1337 AAAA
1 AAAA
1341 ACATAATAAT
Statistics
Matches: 646, Mismatches: 75, Indels: 78
0.81 0.09 0.10
Matches are distributed among these distances:
71 11 0.02
72 79 0.12
73 282 0.44
74 76 0.12
75 63 0.10
76 4 0.01
77 4 0.01
78 5 0.01
79 2 0.00
80 3 0.00
81 5 0.01
82 4 0.01
84 56 0.09
85 29 0.04
86 8 0.01
87 1 0.00
88 14 0.02
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (72 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTG
Found at i:1061 original size:305 final size:302
Alignment explanation
Indices: 504--1589 Score: 1166
Period size: 305 Copynumber: 3.5 Consensus size: 302
494 AAAACATAAA
* * *
504 TTGAAAAACAGAAATGGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAGTATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* **
569 GTTGGTTTTTGCCAAACAGT-AATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTC
66 GTTGATTTTTGAAAAACA-TAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTC
* *
633 GCAATATGAGTTGATTTAGAAAACAGACATAAA-AACAGAAATTGAAAGTGA-CTCAACATGTGA
130 GCAATATGAGTTGATTTTG-AAA-A-ACATAAAGAACAG-AATTGAAAAT-ACCTCAAC--GTG-
* ** * * *
696 GC-CAAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTG-AAAGTAGAATTTGAAAATA
187 TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGTAGAAATTGAAAATA
* *
759 CCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
252 CCTCGGTGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* *
809 TTGAAAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * *
874 GTTGATTTTTGAAAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
66 GTTGATTTTTGAAAAACATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCG
939 CAATATGAGTTGATTTTTGAAAAACATAAATTGAACAGGAATTGAAAATACCTCAACGTGTCTTG
131 CAATATGAGTTGA-TTTTGAAAAACATAAA--GAACA-GAATTGAAAATACCTCAACGTGTCTTG
*
1004 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGTAGAAATTGAAAATACCTCA
192 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGTAGAAATTGAAAATACCTCG
* *
1069 ATGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
257 GTGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
* * **
1116 TTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * * * * * ** **
1180 GTTGAATTTTGAAAAGCAGAAATTGAAAATACTTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
66 GTTGATTTTTGAAAAACATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCG
* *
1245 CAATATGAGTTGAATTTTG-AAAAC----AG---A-AATTGAAATTACCTCAATGTGTCTTGAGG
131 CAATATGAGTTG-ATTTTGAAAAACATAAAGAACAGAATTGAAAATACCTCAACGTGTCTTGAGG
** * *
1301 CTCAACTCATTTCTCGCAATATGAGTTGATTCTTTCAAAAACATAATAATGAAAA-CAGAAATGG
195 CTCAACTCACCTCTCGCAATATGAGTTGA-T-TTT------C----T--TGAAAAGTAGAAATTG
*
1365 AAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
246 AAAATACCTCGGTGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
*
1423 TTGAAAAACAGAAATCAAAAGGCTTAATTGAAAATACCTCGGCGTGTGCCCTGAGGCTCAACTCA
1 TTGAAAAACAG--------A-----AATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCA
** *
1488 CCTCTCGCAATATGAGTTGA-AATT-AAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGG
51 CCTCTCGCAATATGAGTTGATTTTTGAAAA-ACATAAATTGAAAATACCTCAGCGTGCCCCGAGG
* *
1551 CTCAACTCACCTCTTGCAATATGAGCTGATTTTGAAAAA
115 CTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAA
1590 GTAGAAATTA
Statistics
Matches: 672, Mismatches: 65, Indels: 71
0.83 0.08 0.09
Matches are distributed among these distances:
294 54 0.08
295 1 0.00
296 4 0.01
299 1 0.00
301 1 0.00
302 1 0.00
303 8 0.01
304 43 0.06
305 199 0.30
306 154 0.23
307 72 0.11
308 12 0.02
316 1 0.00
321 30 0.04
322 57 0.08
323 34 0.05
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (302 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGAAAAACATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCG
CAATATGAGTTGATTTTGAAAAACATAAAGAACAGAATTGAAAATACCTCAACGTGTCTTGAGGC
TCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGTAGAAATTGAAAATACCTCGGTGT
GCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
Found at i:1192 original size:233 final size:227
Alignment explanation
Indices: 427--1583 Score: 928
Period size: 232 Copynumber: 4.9 Consensus size: 227
417 AAAAAACGAA
* * * * *
427 AAATTGAAAATACCTCAGCGTG-CGAGCCGAGGCTCAACTCACCTTTAGCAATATGAATTGATTT
1 AAATTGAAATTACCTCAGCGTGTC---CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT
* * *
491 TTG-AAAACATAAATTGAAAAACAGAAATGGAAAATACCTCAGCATGTCCTGAGGCTCAACTCAC
62 TTGAAAAACA-AAA--G---AACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCAC
* * * * **
555 CTCTCGCAGTATGAGTTGGTTTTTGCCAAACAGTAATTGAAAATACCTCAGCGTG-CCCCGAGGC
121 CTCTCGCAATATGAGTT-GATTTTG-AAAACAGAAATTGAAAATACCTCAGCGTGTCCTTGAGGC
**** *
619 TCAACTCACCTCTCGCAATATGAGTTGATTTAGAAAACAGACATAAAAACAG
184 TCAACTCACCTCTCGCAATATGAGTTGATTT--------TTTTTGAAAACAG
* * * * *
671 AAATTGAAAGTGA-CTCAACATGTGAGCC-AAGGCTCAACTCACCTTTCGCAATATGAGTTGATT
1 AAATTGAAA-TTACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
**** * * ** * *
734 TT----TTTGAAAG--TAGAATTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCG
62 TTGAAAAACAAAAGAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
* *
793 CAATATGAGTTGATTTTTGAAAAACATAAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACT
127 CAATATGAGTTGA-TTTTG-AAAACAGAAATTGAAAATACCTCAGCGTGTCCTTGAGGCTCAACT
*
857 CACCTCTCGCAATATGAGTTGA---TTTTTGAAAAACAT
190 CACCTCTCGCAATATGAGTTGATTTTTTTTG-AAAACAG
893 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTG
* *
958 AAAAACATAAATTGAACAGGAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCG
65 AAAAACA-AAA--GAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
* **
1023 CAATATGAGTTGATTTTCTTGAAAAGTAGAAATTGAAAATACCTCAATGTG-CCTTGAGGCTCAA
127 CAATATGAGTTGA--TT-TTGAAAA-CAGAAATTGAAAATACCTCAGCGTGTCCTTGAGGCTCAA
*
1087 CTCACCTCTCGCAATATGAGTTGA-TTTTTTTGACAACAG
188 CTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAACAG
**
1126 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTG
* * **
1191 ------AAAAG--CAGAAATTGAAAATACTTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAA
65 AAAAACAAAAGAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAA
* ** **
1248 TATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAATGTGT-CTTGAGGCTCAACTCATT
130 TATGAGTTG-ATTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTTGAGGCTCAACTCACC
1312 TCTCGCAATATGAGTTGATTCTTTCAAAAACATAATAATGAAAACAG
194 TCTCGCAATATGAGTTGATT-TTT--------T--T--TGAAAACAG
* * * * *
1359 AAATGGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTT
* * * **
1424 TGAAAAACAGAAATCAAAAGGCTTAATTGAAAATACCTCGGCGTGTGCCCTGAGGCTCAACTCAC
63 TGAAAAACA-AAA-GAACA-G--AAATTGAAAATACCTCAACGTGT--CCTGAGGCTCAACTCAC
** * * **
1489 CTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTG-CCCCGAGGCT
121 CTCTCGCAATATGAGTTGATTTTGAAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTTGAGGCT
* *
1553 CAACTCACCTCTTGCAATATGAGCTGATTTT
185 CAACTCACCTCTCGCAATATGAGTTGATTTT
1584 GAAAAAGTAG
Statistics
Matches: 755, Mismatches: 95, Indels: 121
0.78 0.10 0.12
Matches are distributed among these distances:
219 59 0.08
220 42 0.06
221 12 0.02
222 77 0.10
223 1 0.00
224 1 0.00
226 6 0.01
227 1 0.00
228 1 0.00
229 1 0.00
230 54 0.07
231 11 0.01
232 173 0.23
233 127 0.17
234 7 0.01
235 5 0.01
237 1 0.00
239 3 0.00
241 1 0.00
242 3 0.00
243 4 0.01
244 44 0.06
245 3 0.00
246 4 0.01
248 20 0.03
249 8 0.01
250 86 0.11
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (227 bp):
AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
AAAACAAAAGAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTGATTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTTGAGGCTCAACTCACCTC
TCGCAATATGAGTTGATTTTTTTTGAAAACAG
Found at i:1411 original size:88 final size:87
Alignment explanation
Indices: 1262--1507 Score: 289
Period size: 88 Copynumber: 2.8 Consensus size: 87
1252 AGTTGAATTT
* ** * * **
1262 TGAAAACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 TGAAAACAGAAATTGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1327 TGA-TTCTTTCAAAAACATAATAA
66 TGATTTCTTTCAAAAACA-AA-AA
*
1350 TGAAAACAGAAATGGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TGAAAACAGAAATTGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
1415 TGATTTTTTTGAAAAACAGAAA
66 TGATTTCTTTCAAAAACAAAAA
* ** *
1437 TCAAAAGGC-TTAATTGAAAATACCTCGGCGTGTGCCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TGAAAA--CAGAAATTGAAAATACCTC-G-GTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1501 GAGTTGA
62 GAGTTGA
1508 AATTAAAACA
Statistics
Matches: 137, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
87 7 0.05
88 75 0.55
89 14 0.10
90 41 0.30
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.28
Consensus pattern (87 bp):
TGAAAACAGAAATTGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTCTTTCAAAAACAAAAA
Found at i:2039 original size:77 final size:76
Alignment explanation
Indices: 1731--2074 Score: 428
Period size: 72 Copynumber: 4.5 Consensus size: 76
1721 AGTGTGTAAT
* **
1731 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAAAAACAGAAATTGAAAAT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTT--TGAAAACAGAAATTGAAAAT
*
1796 ACCTCAGCATGTGAAC
64 ACCTCAGC--GTG-TC
*
1812 C-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
*
1876 CTCAACGTGTC
66 CTCAGCGTGTC
* ** * * * * *
1887 TTGAGGCTCAACTCATTTCTCGTAATATAAGTTGA----ATTTTGAAAACAGAAATTTAAATTAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
1948 CTCAGCGTGTC
66 CTCAGCGTGTC
** * *
1959 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTAACAACAGAAATTGAAATTA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAA-AACAGAAATTGAAAATA
2024 CCTCAGCGTGTC
65 CCTCAGCGTGTC
*
2036 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
2075 GAAAAACAAA
Statistics
Matches: 234, Mismatches: 23, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
72 65 0.28
75 1 0.00
76 39 0.17
77 64 0.27
78 25 0.11
80 39 0.17
81 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (76 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
CTCAGCGTGTC
Found at i:2041 original size:149 final size:149
Alignment explanation
Indices: 1731--2092 Score: 426
Period size: 149 Copynumber: 2.4 Consensus size: 149
1721 AGTGTGTAAT
* * * *
1731 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAAAAACAGAAATTGAAAAT
1 CTGAGGCTCAACTCACCTCTAGCAATATAAGTTGA----TTTT--GAAAAACAGAAATTGAAAAT
1796 ACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAAC
60 ACCTCAGCA-GTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAAC
1861 AGAAATTGAAAATACCTCAACGTGTC
124 AGAAATTGAAAATACCTCAACGTGTC
* ** * * * *
1887 TTGAGGCTCAACTCATTTCTCGTAATATAAGTTGAATTTTG-AAAACAGAAATTTAAATTACCTC
1 CTGAGGCTCAACTCACCTCTAGCAATATAAGTTG-ATTTTGAAAAACAGAAATTGAAAATACCTC
* ** * *
1951 AGC-GTG-TCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTAACAACAGAA
65 AGCAGTGAACC-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAA-AACAGAA
* *
2014 ATTGAAATTACCTCAGCGTGTC
128 ATTGAAAATACCTCAACGTGTC
* *
2036 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATT-AAAA
1 CTGAGGCTCAACTCACCTCTAGCAATATAAGTTGATTTTGAAAAACAGAAATTGAAAA
2093 GGCTTAACTC
Statistics
Matches: 178, Mismatches: 24, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
147 2 0.01
148 53 0.30
149 66 0.37
150 24 0.13
153 4 0.02
156 28 0.16
157 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (149 bp):
CTGAGGCTCAACTCACCTCTAGCAATATAAGTTGATTTTGAAAAACAGAAATTGAAAATACCTCA
GCAGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATT
GAAAATACCTCAACGTGTC
Found at i:9003 original size:107 final size:107
Alignment explanation
Indices: 8824--9038 Score: 376
Period size: 107 Copynumber: 2.0 Consensus size: 107
8814 CCCCGTGGCG
*
8824 TTACTAGCACTATAGAATCGTAGGATACCCATGTCAATGAGTCCTTGAACTCTCCTTTTGAAAGC
1 TTACTAGCACTATAGAATCGTAGGATACCCACGTCAATGAGTCCTTGAACTCTCCTTTTGAAAGC
*
8889 GAGACAGTTCTCAATAGAGTGCCCTTGGTTCCCTGCGTGGTA
66 GAGACAGTTCTCAATAGAGTGCCCTTGGCTCCCTGCGTGGTA
* * *
8931 TTACTAGCACTATAGAATCGTAGGATATCCGCGTCAATGAGTCCTTGAACTCTCTTTTTGAAAGC
1 TTACTAGCACTATAGAATCGTAGGATACCCACGTCAATGAGTCCTTGAACTCTCCTTTTGAAAGC
*
8996 GAGACAGTTCTCAGTAGAGTGCCCTTGGCTCCCTGCGTGGTA
66 GAGACAGTTCTCAATAGAGTGCCCTTGGCTCCCTGCGTGGTA
9038 T
1 T
9039 GCACAACTAG
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
107 102 1.00
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.30
Consensus pattern (107 bp):
TTACTAGCACTATAGAATCGTAGGATACCCACGTCAATGAGTCCTTGAACTCTCCTTTTGAAAGC
GAGACAGTTCTCAATAGAGTGCCCTTGGCTCCCTGCGTGGTA
Found at i:13921 original size:91 final size:91
Alignment explanation
Indices: 13766--13948 Score: 357
Period size: 91 Copynumber: 2.0 Consensus size: 91
13756 AATTTGGTTT
*
13766 TAAAATAAATCGGGAGTCGCCACCGATCCTTTTTCTAGGTGTGATCGGACACCTATTAGATTTTT
1 TAAAATAAACCGGGAGTCGCCACCGATCCTTTTTCTAGGTGTGATCGGACACCTATTAGATTTTT
13831 CTTTAAAAAAATGAGGAAAAGGCGAG
66 CTTTAAAAAAATGAGGAAAAGGCGAG
13857 TAAAATAAACCGGGAGTCGCCACCGATCCTTTTTCTAGGTGTGATCGGACACCTATTAGATTTTT
1 TAAAATAAACCGGGAGTCGCCACCGATCCTTTTTCTAGGTGTGATCGGACACCTATTAGATTTTT
13922 CTTTAAAAAAATGAGGAAAAGGCGAG
66 CTTTAAAAAAATGAGGAAAAGGCGAG
13948 T
1 T
13949 TAAGGTCTAC
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (91 bp):
TAAAATAAACCGGGAGTCGCCACCGATCCTTTTTCTAGGTGTGATCGGACACCTATTAGATTTTT
CTTTAAAAAAATGAGGAAAAGGCGAG
Found at i:14868 original size:22 final size:22
Alignment explanation
Indices: 14838--14900 Score: 99
Period size: 22 Copynumber: 2.9 Consensus size: 22
14828 TACGAGGGCT
*
14838 GTGGAGGTATGGGACTGCTGTA
1 GTGGAGGTATGGGGCTGCTGTA
* *
14860 GTGGGGGTATGGGGCCGCTGTA
1 GTGGAGGTATGGGGCTGCTGTA
14882 GTGGAGGTATGGGGCTGCT
1 GTGGAGGTATGGGGCTGCT
14901 TCATGGTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.13, C:0.11, G:0.51, T:0.25
Consensus pattern (22 bp):
GTGGAGGTATGGGGCTGCTGTA
Found at i:18207 original size:26 final size:26
Alignment explanation
Indices: 18160--18209 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
18150 TATTTTTATT
*
18160 ATTCTATTCTTTCATCCAAATCATTC
1 ATTCTATTCATTCATCCAAATCATTC
*
18186 ATTC-ATTCATTCATTCATAATCAT
1 ATTCTATTCATTCATCCA-AATCAT
18210 ACTGTGCAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.46
Consensus pattern (26 bp):
ATTCTATTCATTCATCCAAATCATTC
Found at i:18963 original size:32 final size:32
Alignment explanation
Indices: 18927--18987 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
18917 TTCAGACTAA
18927 AAAAAAACAAAAAAAACAAAAGTCAAAAAATC
1 AAAAAAACAAAAAAAACAAAAGTCAAAAAATC
* **
18959 AAAAAAATAAAAAAAATTAAAGTCAAAAA
1 AAAAAAACAAAAAAAACAAAAGTCAAAAA
18988 TAGGAGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.79, C:0.08, G:0.03, T:0.10
Consensus pattern (32 bp):
AAAAAAACAAAAAAAACAAAAGTCAAAAAATC
Found at i:19017 original size:6 final size:6
Alignment explanation
Indices: 18992--19029 Score: 58
Period size: 6 Copynumber: 6.0 Consensus size: 6
18982 CAAAAATAGG
18992 AGAAAA AGAAAGA AGAAAAA AGAAAA AGAAAA AGAAAA
1 AGAAAA AGAAA-A AG-AAAA AGAAAA AGAAAA AGAAAA
19030 TGGAGAGGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 21 0.70
7 6 0.20
8 3 0.10
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:19890 original size:31 final size:30
Alignment explanation
Indices: 19829--19892 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
19819 ACTTTGAGTC
* **
19829 AAACAAAAAAAACAAAAAAATGAATGATGA
1 AAACAAAAAAAACAAAAAAATAAAAAATGA
* *
19859 AAACCAAAAAACCAAAAAAAATAAAAAATGA
1 AAACAAAAAAAAC-AAAAAAATAAAAAATGA
19890 AAA
1 AAA
19893 AGTAAAAATG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 11 0.39
31 17 0.61
ACGTcount: A:0.77, C:0.09, G:0.06, T:0.08
Consensus pattern (30 bp):
AAACAAAAAAAACAAAAAAATAAAAAATGA
Found at i:21226 original size:45 final size:45
Alignment explanation
Indices: 21175--21314 Score: 126
Period size: 45 Copynumber: 3.2 Consensus size: 45
21165 GGAGCTGGTT
21175 GAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAACCAAATC
1 GAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAACCAAATC
* * * * * * * * *** *
21220 GAAGACATA-A-ACCTTGTCTCTCTTG-GTTG-TAGTGGAGCTGGTT
1 GAAGACA-ACAGATCTTGCCT-TCCTGCCTTGACAGCGAACCAAATC
21263 GAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAACCAAATC
1 GAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAACCAAATC
21308 GAAGACA
1 GAAGACA
21315 TAAACCTTGT
Statistics
Matches: 65, Mismatches: 24, Indels: 12
0.64 0.24 0.12
Matches are distributed among these distances:
42 1 0.02
43 18 0.28
44 20 0.31
45 25 0.38
46 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (45 bp):
GAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAACCAAATC
Found at i:21891 original size:88 final size:88
Alignment explanation
Indices: 21086--21883 Score: 1204
Period size: 88 Copynumber: 9.1 Consensus size: 88
21076 AATAGATCAA
* * *
21086 TGAAGACAACAGATCTTGCCTTCCTGCCTTGACAGTGAAGCAGATCGAAGATACAAACCTTGCGT
1 TGAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
* **
21151 TTCTCAATTGTAGTGGAGCTGGT
66 CTCTCGGTTGTAGTGGAGCTGGT
* * * *
21174 TGAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAACCAAATCGAAGACATAAACCTTGTCT
1 TGAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
*
21239 CTCTTGGTTGTAGTGGAGCTGGT
66 CTCTCGGTTGTAGTGGAGCTGGT
* * * *
21262 TGAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAACCAAATCGAAGACATAAACCTTGTCT
1 TGAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
*
21327 CTCTTGGTTGTAGTGGAGCTGGT
66 CTCTCGGTTGTAGTGGAGCTGGT
* * *
21350 TGAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAAGTAGATTGAAGACACAAACCTTGACT
1 TGAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
21415 CTCTCGGTTGTAGTGGAGCTGGT
66 CTCTCGGTTGTAGTGGAGCTGGT
* *
21438 TGAAGACAACAGATCTTACCTTCCTGCCTTGACAGCAAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
21503 CTCTCGGTTGTAGTGGAGCTGGT
66 CTCTCGGTTGTAGTGGAGCTGGT
* ** *
21526 TGCAGACAACAGATCTCACCTTCCTGCCTTGACAGCAAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
21591 CTCTCGGTTGTAGTGGAGCTGGT
66 CTCTCGGTTGTAGTGGAGCTGGT
* * * *
21614 TGAAGACAACAGATCTTGCTTTCTTGCTTTGACAGCGAAGCAGATCGAAGACACAAAACTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
* *
21679 CTCTCAGTTGTAGTAGAGCTGGT
66 CTCTCGGTTGTAGTGGAGCTGGT
*
21702 TAAAGACAACAGATCTTGCCTTCCTGCCTTGACAGC-ACAGCAGATCGAAGACACAAACCTTGCC
1 TGAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGA-AGCAGATCGAAGACACAAACCTTGCC
*
21766 TCTCTCGGTTGCAGTGGAGCTGGT
65 TCTCTCGGTTGTAGTGGAGCTGGT
* * * * * *
21790 TGAAGATAACAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGTCT
1 TGAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
*
21855 -TCCTCGGTTGTAGTGGAGCAGGT
66 CT-CTCGGTTGTAGTGGAGCTGGT
21878 TGAAGA
1 TGAAGA
21884 TTTCAGATTG
Statistics
Matches: 655, Mismatches: 52, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
87 2 0.00
88 652 1.00
89 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (88 bp):
TGAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
CTCTCGGTTGTAGTGGAGCTGGT
Found at i:22184 original size:95 final size:95
Alignment explanation
Indices: 22021--22786 Score: 1347
Period size: 95 Copynumber: 8.1 Consensus size: 95
22011 AAAGTGGGGC
* * * * *
22021 AGATCGAAAATGGCAGATTTTACCTCCCTATGACTACAGTGGAGTATATTGAAGCCGATAATTCT
1 AGATTGAATATGGCAGATTTTACCTCCTTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
*
22086 ATCT-CTCTAGTTGGCAGTGGAATAGATTGA
66 ATCTCCT-TGGTTGGCAGTGGAATAGATTGA
* * *
22116 AGATCGAAGATGGCAGATTTTACCT-CTCTGTGACTACAGTGGAGTACATTGAAACCGATAATTC
1 AGATTGAATATGGCAGATTTTACCTCCT-TGTGACTACAGTGGAGTACATTGAAGCCGATAATTC
* *
22180 TATCTCCCTGGTTGGCAGTGGAATAGATTGC
65 TATCTCCTTGGTTGGCAGTGGAATAGATTGA
*
22211 AGATTGAAGATGGCAGATTTTACCTCCTTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
1 AGATTGAATATGGCAGATTTTACCTCCTTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
22276 ATCTCCTTGGTTGGCAGTGGAATAGATTGA
66 ATCTCCTTGGTTGGCAGTGGAATAGATTGA
22306 AGATTGAATATGGCAGATTTTACCTCCTTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
1 AGATTGAATATGGCAGATTTTACCTCCTTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
22371 ATCTCCTTGGTTGGCAGTGGAATAGATTGA
66 ATCTCCTTGGTTGGCAGTGGAATAGATTGA
22401 AGATTGAATATGGCAGATTTTACCTCCTTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
1 AGATTGAATATGGCAGATTTTACCTCCTTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
22466 ATCTCCTTGGTTGGCAGTGGAATAGATTGA
66 ATCTCCTTGGTTGGCAGTGGAATAGATTGA
22496 AGATTGAATATGGCAGATTTTACCTCCTTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
1 AGATTGAATATGGCAGATTTTACCTCCTTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
22561 ATCTCCTTGGTTGGCAGTGGAATAGATTGA
66 ATCTCCTTGGTTGGCAGTGGAATAGATTGA
22591 AGATTGAATATGGCAGATTTTACCTCCTTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
1 AGATTGAATATGGCAGATTTTACCTCCTTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
22656 ATCTCCTTGGTTGGCAGTGGAATAGATTGA
66 ATCTCCTTGGTTGGCAGTGGAATAGATTGA
*
22686 AGATTGAATATGGCAGATTTTACCTCCTTGTGACTACAGTGGAGTACATTGAAGCCAATAATTCT
1 AGATTGAATATGGCAGATTTTACCTCCTTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
* ***
22751 ATCTCCCTGGACAGCAGTGGAATAGATTGA
66 ATCTCCTTGGTTGGCAGTGGAATAGATTGA
22781 AGATTG
1 AGATTG
22787 CAGATTCTGT
Statistics
Matches: 650, Mismatches: 18, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
94 1 0.00
95 646 0.99
96 3 0.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (95 bp):
AGATTGAATATGGCAGATTTTACCTCCTTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
ATCTCCTTGGTTGGCAGTGGAATAGATTGA
Found at i:23526 original size:17 final size:18
Alignment explanation
Indices: 23504--23543 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
23494 GTTACTCTTC
23504 TTTTTATTTTT-GTTTCA
1 TTTTTATTTTTAGTTTCA
*
23521 TTTTTATTTTTATTTTCA
1 TTTTTATTTTTAGTTTCA
23539 TTTTT
1 TTTTT
23544 TTTATTTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.12, C:0.05, G:0.03, T:0.80
Consensus pattern (18 bp):
TTTTTATTTTTAGTTTCA
Found at i:23531 original size:18 final size:17
Alignment explanation
Indices: 23504--23543 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
23494 GTTACTCTTC
23504 TTTTTATTTT-TGTTTCA
1 TTTTTATTTTAT-TTTCA
23521 TTTTTATTTTTATTTTCA
1 TTTTTA-TTTTATTTTCA
23539 TTTTT
1 TTTTT
23544 TTTATTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.29
18 14 0.67
19 1 0.05
ACGTcount: A:0.12, C:0.05, G:0.03, T:0.80
Consensus pattern (17 bp):
TTTTTATTTTATTTTCA
Found at i:24313 original size:13 final size:13
Alignment explanation
Indices: 24289--24313 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24279 TTAATCTTGT
24289 ATTATTATTATTG
1 ATTATTATTATTG
24302 ATTATTATTATT
1 ATTATTATTATT
24314 TACTCATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
ATTATTATTATTG
Found at i:30555 original size:10 final size:9
Alignment explanation
Indices: 30524--30558 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
30514 TTTATCATCT
*
30524 TTTTTTACG
1 TTTTTTATG
30533 TTTTTTATG
1 TTTTTTATG
30542 TTTTTTATG
1 TTTTTTATG
30551 ATTTTTTA
1 -TTTTTTA
30559 ACATAGATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 17 0.71
10 7 0.29
ACGTcount: A:0.14, C:0.03, G:0.09, T:0.74
Consensus pattern (9 bp):
TTTTTTATG
Found at i:32434 original size:403 final size:403
Alignment explanation
Indices: 31687--32498 Score: 1615
Period size: 403 Copynumber: 2.0 Consensus size: 403
31677 AATTGATGTA
31687 AAAAATATGTTATAAAATGTTAGAATGCCTTTGTAGGACCCAATTTATGCCCGGGCCCAAAATGA
1 AAAAATATGTTATAAAATGTTAGAATGCCTTTGTAGGACCCAATTTATGCCCGGGCCCAAAATGA
31752 AACAACTTATGTACAACGGACCCGAAACGGCCCAAATTCTTAAAAAACCCTGAACGTCCCATTGG
66 AACAACTTATGTACAACGGACCCGAAACGGCCCAAATTCTTAAAAAACCCTGAACGTCCCATTGG
31817 GGCCCAAAAACTAAGCAAGCACCAGGGAACCCTAGAGTTCTCTCCCCTCTCGCGCCGCTCTCCCC
131 GGCCCAAAAACTAAGCAAGCACCAGGGAACCCTAGAGTTCTCTCCCCTCTCGCGCCGCTCTCCCC
31882 TTTCGGGCCACCCGAGGTGCTTCGTCCCGAGGTCTGCCTCCCCTTTGCACCGAAATGGCAAGGTC
196 TTTCGGGCCACCCGAGGTGCTTCGTCCCGAGGTCTGCCTCCCCTTTGCACCGAAATGGCAAGGTC
31947 ACCTCCGTTGACCTTGCCTAACCCTGCAAAACAAAGCAAAAATAGAGGACAGAACGCAGAGAAAA
261 ACCTCCGTTGACCTTGCCTAACCCTGCAAAACAAAGCAAAAATAGAGGACAGAACGCAGAGAAAA
32012 AACGAATCTTTGTAATCGGCTATAAAGCCTGAGGAAAAATGTAATCTTTACACAACGAAGAGAAA
326 AACGAATCTTTGTAATCGGCTATAAAGCCTGAGGAAAAATGTAATCTTTACACAACGAAGAGAAA
32077 TACAACAGAGAAC
391 TACAACAGAGAAC
32090 AAAAATATGTTATAAAATGTTAGAATGCCTTTGTAGGACCCAATTTATGCCCGGGCCCAAAATGA
1 AAAAATATGTTATAAAATGTTAGAATGCCTTTGTAGGACCCAATTTATGCCCGGGCCCAAAATGA
*
32155 AACAACTTATGTACAACGGGCCCGAAACGGCCCAAATTCTTAAAAAACCCTGAACGTCCCATTGG
66 AACAACTTATGTACAACGGACCCGAAACGGCCCAAATTCTTAAAAAACCCTGAACGTCCCATTGG
32220 GGCCCAAAAACTAAGCAAGCACCAGGGAACCCTAGAGTTCTCTCCCCTCTCGCGCCGCTCTCCCC
131 GGCCCAAAAACTAAGCAAGCACCAGGGAACCCTAGAGTTCTCTCCCCTCTCGCGCCGCTCTCCCC
32285 TTTCGGGCCACCCGAGGTGCTTCGTCCCGAGGTCTGCCTCCCCTTTGCACCGAAATGGCAAGGTC
196 TTTCGGGCCACCCGAGGTGCTTCGTCCCGAGGTCTGCCTCCCCTTTGCACCGAAATGGCAAGGTC
32350 ACCTCCGTTGACCTTGCCTAACCCTGCAAAACAAAGCAAAAATAGAGGACAGAACGCAGAGAAAA
261 ACCTCCGTTGACCTTGCCTAACCCTGCAAAACAAAGCAAAAATAGAGGACAGAACGCAGAGAAAA
32415 AACGAATCTTTGTAATCGGCTATAAAGCCTGAGGAAAAATGTAATCTTTACACAACGAAGAGAAA
326 AACGAATCTTTGTAATCGGCTATAAAGCCTGAGGAAAAATGTAATCTTTACACAACGAAGAGAAA
32480 TACAACAGAGAAC
391 TACAACAGAGAAC
32493 AAAAAT
1 AAAAAT
32499 CAATCAAGAA
Statistics
Matches: 408, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
403 408 1.00
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (403 bp):
AAAAATATGTTATAAAATGTTAGAATGCCTTTGTAGGACCCAATTTATGCCCGGGCCCAAAATGA
AACAACTTATGTACAACGGACCCGAAACGGCCCAAATTCTTAAAAAACCCTGAACGTCCCATTGG
GGCCCAAAAACTAAGCAAGCACCAGGGAACCCTAGAGTTCTCTCCCCTCTCGCGCCGCTCTCCCC
TTTCGGGCCACCCGAGGTGCTTCGTCCCGAGGTCTGCCTCCCCTTTGCACCGAAATGGCAAGGTC
ACCTCCGTTGACCTTGCCTAACCCTGCAAAACAAAGCAAAAATAGAGGACAGAACGCAGAGAAAA
AACGAATCTTTGTAATCGGCTATAAAGCCTGAGGAAAAATGTAATCTTTACACAACGAAGAGAAA
TACAACAGAGAAC
Found at i:34143 original size:107 final size:106
Alignment explanation
Indices: 33957--34284 Score: 392
Period size: 106 Copynumber: 3.1 Consensus size: 106
33947 CATCAAAAAG
* * * *
33957 AAACTTTAAAAATAAGGTAATATTTCGCATTTGAAAACTCGAGAAAACATGCCCTAACGTGCTGG
1 AAACTTTCAAAATAAGGCAATATTTCGCATTTGAAAATTCGAGAAAACGTGCCCTAACGTGCTGG
* * *
34022 GTTTC-AGTTTCTCGTTCGACCGAATAGCCAAATATCATTTTT
66 GTTTCGA-TTTCTCGTTCGACCAAATAGCCAAATATC-CTTTC
* *
34064 AAACTTTCAAAATAAGGCAATATTTCGCGTTTGAAAATTCGAGAAAACGTGCCCTAACGTGTTGG
1 AAACTTTCAAAATAAGGCAATATTTCGCATTTGAAAATTCGAGAAAACGTGCCCTAACGTGCTGG
* * ***
34129 GTTTCGATTACTCGTTTGACCAAATAGTTGAATATCCTTTC
66 GTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTC
* ** * * * * *
34170 AAAATTTCAAAACGAGGCAATGTTTTGCATTTGGAAATTCGAGAGAACGGGCCCTAACGTGCTGG
1 AAACTTTCAAAATAAGGCAATATTTCGCATTTGAAAATTCGAGAAAACGTGCCCTAACGTGCTGG
* *
34235 GTTTCGATTTCTTGTTCGACTAAATAGCCAAATATCCTCTT-
66 GTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCT-TTC
34276 AAA-TTTCAA
1 AAACTTTCAA
34285 TCCATGTCAT
Statistics
Matches: 188, Mismatches: 31, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
105 6 0.03
106 92 0.49
107 89 0.47
108 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (106 bp):
AAACTTTCAAAATAAGGCAATATTTCGCATTTGAAAATTCGAGAAAACGTGCCCTAACGTGCTGG
GTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTC
Done.