Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013259.1 Kokia drynarioides strain JFW-HI SEQ_128280, 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: 28336
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Found at i:390 original size:215 final size:216
Alignment explanation
Indices: 1--403 Score: 587
Period size: 215 Copynumber: 1.9 Consensus size: 216
*
1 TTTTAATTCAAAGACCAAAACTTGTTTACAAAATGTCAAACTTTTTAGACCAAATGATGCGACTT
1 TTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGCGACTT
* *
66 CCCAAGCATGTAATGTTCAAAAACTTGCTCGAAGGATTATATCGTCTTGAATACTTTAAGGAAAT
66 CCCAAGCATGTAATGTTCAAAAACTTGCTCGAAGGAGTAGATCGTCTTGAATACTTTAAGGAAAT
* ** * * *
131 GGATTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAACAGAGAA
131 GAAGCTATAAAAGAACTCGTAAAAGTTCGAAAAGTTCAGAAGTTCGTCCAACAACCAACAGAGAA
196 ACAATTGTCGCATAAATAAGT
196 ACAATTGTCGCATAAATAAGT
* * *
217 TTTTAATTCAATGGCCAAAACTTGTTTTC-AAATGACAAACTTTTTAGACCAAATGATGCGACTT
1 TTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGCGACTT
** * * * * *
281 CCTGAGCATGTAATGTTCGAAAATTTGCTTGAAGG-GTAGGGTCGTCTTGAATACTTTATGGAAC
66 CCCAAGCATGTAATGTTCAAAAACTTGCTCGAAGGAGTA-GATCGTCTTGAATACTTTAAGGAA-
*
345 A-GAAGCTATAAAAGAACTCGTAAAAGTTCGAAAAGTTCAGAAGTTCGTCCAAGAACCAA
129 ATGAAGCTATAAAAGAACTCGTAAAAGTTCGAAAAGTTCAGAAGTTCGTCCAACAACCAA
404 GATCAAAACA
Statistics
Matches: 165, Mismatches: 20, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
214 2 0.01
215 136 0.82
216 27 0.16
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.29
Consensus pattern (216 bp):
TTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGCGACTT
CCCAAGCATGTAATGTTCAAAAACTTGCTCGAAGGAGTAGATCGTCTTGAATACTTTAAGGAAAT
GAAGCTATAAAAGAACTCGTAAAAGTTCGAAAAGTTCAGAAGTTCGTCCAACAACCAACAGAGAA
ACAATTGTCGCATAAATAAGT
Found at i:579 original size:175 final size:175
Alignment explanation
Indices: 232--580 Score: 406
Period size: 175 Copynumber: 2.0 Consensus size: 175
222 ATTCAATGGC
* * * *
232 CAAAACTTGTTTTCAAATGACAAACTTTTTAGACCAAATGATGCGACTTCCTGAGCATGTAATGT
1 CAAAACATGTTTACAAATGACAAACTATTTAGACCAAATGATGCGACTTCCTGAGCATGGAATGT
* * ** * *
297 TCGAAAATTTGCTTGAAGGGTAGGGTCGTCTTGAATACTTTATGGAACAGAAGCTATAAAAGAAC
66 TCGAAAATTTGCTCGAAGGATAGAATCGTCTTGAACACTTTAAGGAACAGAAGCTATAAAAGAAC
*
362 TCGTAAAAGTTCGAAAAGTTCAGAAGTTCGTCCAAGAACCAAGAT
131 TCGTAAAAGTTCGAAAAGTTCAGAAGTTCGTCCAACAACCAAGAT
* *
407 CAAAACATGTTTACAAAATGA-AAACTATTTAGACCAAATGATGCGATTTCTCT-CGCATGGAAT
1 CAAAACATGTTTAC-AAATGACAAACTATTTAGACCAAATGATGCGACTTC-CTGAGCATGGAAT
*
470 GTTTGGAAAATTT-CTCGAAGGA-ATGAATCGTCTTGAACACTTTAAGGAATCAG-A-CT-TAAG
64 G-TTCGAAAATTTGCTCGAAGGATA-GAATCGTCTTGAACACTTTAAGGAA-CAGAAGCTAT-A-
* * * ** *
530 AAATAACTCGTAAAAGTTTGACAAGTTTGGAAGTTTGTCCAACAACCAAGA
124 AAAGAACTCGTAAAAGTTCGAAAAGTTCAGAAGTTCGTCCAACAACCAAGA
581 GAGAAACAAT
Statistics
Matches: 147, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
173 1 0.01
174 4 0.03
175 121 0.82
176 21 0.14
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (175 bp):
CAAAACATGTTTACAAATGACAAACTATTTAGACCAAATGATGCGACTTCCTGAGCATGGAATGT
TCGAAAATTTGCTCGAAGGATAGAATCGTCTTGAACACTTTAAGGAACAGAAGCTATAAAAGAAC
TCGTAAAAGTTCGAAAAGTTCAGAAGTTCGTCCAACAACCAAGAT
Found at i:749 original size:390 final size:391
Alignment explanation
Indices: 11--1227 Score: 1107
Period size: 390 Copynumber: 3.0 Consensus size: 391
1 TTTTAATTCA
* * *
11 AAGACCAAAACTTGTTTACAAAATGTCAAACTTTTTAGACCAAATGATGCGACTTCCCAAGCATG
1 AAGACCAAAACATGTTTACAAAATGTAAAACTATTTAGACCAAATGATGCGACTTCCCAAGCATG
* * * * *
76 TAATGTTCAAAAACTTGCTCGAAGGATTATATCGTCTTGAATACTTTAAGGAAATGGATTTATAA
66 GAATGTTCAAAAACTTGCTCGAAGGATGATATCGTCTTGAACACTTTAAGGAAATAGACTTATAA
* *
141 AAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAACAGAGAAACAATTGTCG
131 AAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAACAGAGAAACAATTCTCA
* * * *
206 CATAAATAAGTTTTTAATTCAATGGCCAAAACTTGTTTTCAAATGACAAACTTTTTAGACCAAAT
196 CATAAATAAGTTTTTAATTCAACGGCCAAAACTTGTTTACAAATGACAAAATTGTTAGACCAAAT
* ** * ** * *
271 GATGCGACTTCCTGAGCATGTAATGTTCGAAAATTTGCTTGAAGGGTAGGGTCGTCTTGAATACT
261 GATGCAACTTCCCAAGCATGTAATGTTCGAAAATTTACTCAAAGGATAGGATCGTCTTGAATACT
*
336 TTATGGAACAGAAGCTATAAAAGAACTCGTAAAAGTTCGAAAAGTTCAGAAGTTCGTCCAAGAAC
326 TTAAGGAACAGAAGCTATAAAAGAACTCGTAAAAGTTCGAAAAGTTCAGAAGTTCGTCCAAGAAC
401 C
391 C
* * * **
402 AAGATCAAAACATGTTTACAAAATG-AAAACTATTTAGACCAAATGATGCGATTTCTCTCGCATG
1 AAGACCAAAACATGTTTACAAAATGTAAAACTATTTAGACCAAATGATGCGACTTCCCAAGCATG
** *
466 GAATGTTTGGAAAA-TTTCTCGAAGGAATGA-ATCGTCTTGAACACTTTAAGG-AATCAGACTTA
66 GAATG-TTCAAAAACTTGCTCGAAGG-ATGATATCGTCTTGAACACTTTAAGGAAAT-AGACTTA
* * * *
528 -AGAAATAACTCGTAAAAGTTTGACAAGTTTGGAAGTTTGTCCAACAACCAAGAGAGAAACAATT
128 TA-AAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAACAGAGAAACAATT
*
592 CTCACATAAATAAGTTTTTAATTCAACGGCCAAAACTTGTTTACAAAATGACAAAATTGTTAGAT
192 CTCACATAAATAAGTTTTTAATTCAACGGCCAAAACTTGTTTAC-AAATGACAAAATTGTTAGAC
* *
657 CAAATGATGTAACTTCCCAAGCATGTAATGTTCAGAAAA-TTACTCAAAGGATTGGATCG-CTTG
256 CAAATGATGCAACTTCCCAAGCATGTAATGTTC-GAAAATTTACTCAAAGGATAGGATCGTCTTG
* * * * ** *
720 AATACTTTAAGGAACAGAAGTTTTAAAAGAACTCGTAAAAGTTCTACAAGTTTGGAAGTTTGTCC
320 AATACTTTAAGGAACAGAAGCTATAAAAGAACTCGTAAAAGTTCGAAAAGTTCAGAAGTTCGTCC
*
785 AAGATCC
385 AAGAACC
* * *
792 AAGAGAGACACAATTCTCATGTAAATAAGTTTTTAATTCAAAGAT-CAAAACTTATTTACAAAAT
1 ---A-AGAC-CAA-----A---ACAT--G--TTT-A--CAAA-ATGTAAAAC-TATTT---AGA-
* * ** * *
856 GAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATGGAATGTTCAAAAAATTACTCG-AG
40 -C--------------CAAATGATGCGACTTCCCAAGCATGGAATGTTCAAAAACTTGCTCGAAG
* * *
920 GAAATGGAT-T-GT-TCTGAACACTTTAAGGAAACAGATTTAAAAAAGAACTCGTAAAAGTTTGA
90 G--AT-GATATCGTCT-TGAACACTTTAAGGAAATAGACTTATAAAAGAACTCGTAAAAGTTTGA
* * * * **
982 CAAGTTCGGTAGTTCGTCCGACAACTAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAATTC
151 CAAGTTCGGAAGTTCGTCCAACAACCAACAGAGAAACAATTCTCACATAAATAAGTTTTTAATTC
** * * * * *
1047 AAATGCCAAAACTTGTTTACAAAATGACAAACTAT-TTAGACCTAATGATGCGACTTCCCGAGCG
216 AACGGCCAAAACTTGTTTAC-AAATGACAAAAT-TGTTAGACCAAATGATGCAACTTCCCAAGCA
* * * * *
1111 TGTAATGTTTGGAAAA-TTACTCGAAGGATTGGATCATCTTGAATACTTTAAGGAATC-GAAGTT
279 TGTAATG-TTCGAAAATTTACTCAAAGGATAGGATCGTCTTGAATACTTTAAGGAA-CAGAAGCT
* * *
1174 ATAAAAGAACTCGTAAAAGTTCGACAAGTTC-GAAAGTTCATCCAAGAACG
342 ATAAAAGAACTCGTAAAAGTTCGAAAAGTTCAG-AAGTTCGTCCAAGAACC
1224 AAGA
1 AAGA
1228 GAGACATAAT
Statistics
Matches: 683, Mismatches: 83, Indels: 83
0.80 0.10 0.10
Matches are distributed among these distances:
389 4 0.01
390 237 0.35
391 92 0.13
392 5 0.01
393 1 0.00
394 3 0.00
395 3 0.00
400 1 0.00
403 3 0.00
405 1 0.00
407 3 0.00
408 1 0.00
410 4 0.01
411 7 0.01
412 5 0.01
415 2 0.00
428 3 0.00
429 1 0.00
430 10 0.01
431 222 0.33
432 74 0.11
433 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (391 bp):
AAGACCAAAACATGTTTACAAAATGTAAAACTATTTAGACCAAATGATGCGACTTCCCAAGCATG
GAATGTTCAAAAACTTGCTCGAAGGATGATATCGTCTTGAACACTTTAAGGAAATAGACTTATAA
AAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAACAGAGAAACAATTCTCA
CATAAATAAGTTTTTAATTCAACGGCCAAAACTTGTTTACAAATGACAAAATTGTTAGACCAAAT
GATGCAACTTCCCAAGCATGTAATGTTCGAAAATTTACTCAAAGGATAGGATCGTCTTGAATACT
TTAAGGAACAGAAGCTATAAAAGAACTCGTAAAAGTTCGAAAAGTTCAGAAGTTCGTCCAAGAAC
C
Found at i:1038 original size:216 final size:216
Alignment explanation
Indices: 402--2180 Score: 2123
Period size: 216 Copynumber: 8.2 Consensus size: 216
392 TCCAAGAACC
* * *
402 AAGATCAAAACATGTTTACAAAATG-AAAACTATTTAGACCAAATGATGCGATTTCTCTCGCATG
1 AAGATCAAAACTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTAGCATG
* * * * *
466 GAATGTTTGGAAAATTTCTCGAAGGAATGAATCGTCTTGAACACTTTAAGGAATCAG-ACTTAAG
66 GAATGTTCGGAAAATTACTCGAAGGAATGGATCGTCTTGAACACTTTAAGGAA-CAGAATTTAAA
* * *
530 AAATAACTCGTAAAAGTTTGACAAGTTTGGAAGTTTGTCCAACAACCAAGAGAGAAACAATTCTC
130 AAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAATTCTC
*
595 ACATAAATAAGTTTTTAATTCA
195 ACGTAAATAAGTTTTTAATTCA
* ** * ** * *
617 ACGGCCAAAACTTGTTTACAAAATGACAAAA-T-TGTTAGATCAAATGATGTAACTTCCCAAGCA
1 AAGATCAAAACTTGTTTACAAAATGA-AAAACTAT-TTAGACCAAATGATGCGATTTCCCTAGCA
* * * * *
680 TGTAATGTTCAGAAAATTACTCAAAGGATTGGATCG-CTTGAATACTTTAAGGAACAGAAGTTT-
64 TGGAATGTTCGGAAAATTACTCGAAGGAATGGATCGTCTTGAACACTTTAAGGAACAGAA-TTTA
* * * * * *
743 TAAAAGAACTCGTAAAAGTTCT-ACAAGTTTGGAAGTTTGTCCAAGATCCAAGAGAGACACAATT
128 AAAAAGAACTCGTAAAAGTT-TGACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAATT
*
807 CTCATGTAAATAAGTTTTTAATTCA
192 CTCACGTAAATAAGTTTTTAATTCA
* *
832 AAGATCAAAACTTATTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATG
1 AAGATCAAAACTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTAGCATG
** *
897 GAATGTTCAAAAAATTACTCG-AGGAAATGGATTGT-TCTGAACACTTTAAGGAAACAG-ATTTA
66 GAATGTTCGGAAAATTACTCGAAGG-AATGGATCGTCT-TGAACACTTTAAGG-AACAGAATTTA
* * *
959 AAAAAGAACTCGTAAAAGTTTGACAAGTTCGGTAGTTCGTCCGACAACTAAGAGAGAAACAATTC
128 AAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAATTC
*
1024 TCATGTAAATAAGTTTTTAATTCA
193 TCACGTAAATAAGTTTTTAATTCA
* * * * * *
1048 AATG-CCAAAACTTGTTTACAAAATGACAAACTATTTAGACCTAATGATGCGACTTCCCGAGCGT
1 AA-GATCAAAACTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTAGCAT
* * * * * * *
1112 GTAATGTTTGGAAAATTACTCGAAGGATTGGATCATCTTGAATACTTTAAGGAATC-GAAGTTAT
65 GGAATGTTCGGAAAATTACTCGAAGGAATGGATCGTCTTGAACACTTTAAGGAA-CAGAATTTAA
* * * * * * *
1176 AAAAGAACTCGTAAAAGTTCGACAAGTTCGAAAGTTCATCCAAGAACGAAGAGAGACATAATTCT
129 AAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAATTCT
1241 CACGTAAATAAGTTTTTAATTCA
194 CACGTAAATAAGTTTTTAATTCA
* * * *
1264 ATGATCAAAACTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGTGATTTCCCTCGCATT
1 AAGATCAAAACTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTAGCATG
* * * *
1329 GAATGTTAGGAAAATTACTCGAAGGAATAGATCGTCTTGAACACTTTAAGGAATC-GGATTGAAA
66 GAATGTTCGGAAAATTACTCGAAGGAATGGATCGTCTTGAACACTTTAAGGAA-CAGAATTTAAA
1393 AAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAATTCTC
130 AAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAATTCTC
* *
1458 ATGTAAATAAGATTTTAATTCA
195 ACGTAAATAAGTTTTTAATTCA
** ** * * * * *
1480 AAGGCCAAAACTTGTTTACAAAATGTCAAACTTTTTAGAGCAAATGATGAGACTTCCCGAGCATG
1 AAGATCAAAACTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTAGCATG
* ** * * * * ** *
1545 TAATGTTC-GAAAACTTGTTCGACGGATTGGATCGTCTTGAATACTTTAAGGAACTGAAGCTATA
66 GAATGTTCGGAAAA-TTACTCGAAGGAATGGATCGTCTTGAACACTTTAAGGAACAGAATTTAAA
** * * * * *
1609 AAAGATGTCGTAAAAGTTCGACAAGTTCGAAAGTTCATCCAAGAACCCAGAGAGAAACAATTCTC
130 AAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAATTCTC
1674 ACGTAAATAAGTTTTTAATTCA
195 ACGTAAATAAGTTTTTAATTCA
* *
1696 AAGATCAAAACATGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATG
1 AAGATCAAAACTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTAGCATG
* *
1761 GAATGTT-GGAAAAATTACTCGAAGGAATGGATTGTGTTGAACACTTTAAGGAACTAG-ATTTAA
66 GAATGTTCGG-AAAATTACTCGAAGGAATGGATCGTCTTGAACACTTTAAGGAAC-AGAATTTAA
* * *
1824 AAAAGAACTCGTAAAAGATTGACAAGTTCAGAAGTTCGTCCAACAACCAAGAAAGAAACAATTCT
129 AAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAATTCT
* * *
1889 TACATAAATAAGTTTTTAATTTA
194 CACGTAAATAAGTTTTTAATTCA
** * * * * * *
1912 AAGGCCAAAACTTGTTTACAAAATGACAAACTTTTTAAACCAAATGATGTGACTTCCCGAGCATG
1 AAGATCAAAACTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTAGCATG
* * * * * * *
1977 TAACGTTCGGAAAATTACTCGAAGGATTGGATCGTCTTGAATACTTTAAGGAACTGAAGTTATAA
66 GAATGTTCGGAAAATTACTCGAAGGAATGGATCGTCTTGAACACTTTAAGGAACAGAATTTAAAA
* * * * * * *
2042 AAGAACTTGTGAAAGTTCGATAAGTTCGGAAGTTCGTCCAAGAGCCAAGAGAGACACAATTCTCA
131 AAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAATTCTCA
*
2107 TGTAAATAAGTTTTTAATTCA
196 CGTAAATAAGTTTTTAATTCA
* * *
2128 AAGATAAAAACTTGTTTACAAAATAAAAAACTATTTAGACCAAATGATACGAT
1 AAGATCAAAACTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGAT
2181 GATACGAGTC
Statistics
Matches: 1314, Mismatches: 223, Indels: 53
0.83 0.14 0.03
Matches are distributed among these distances:
214 10 0.01
215 208 0.16
216 1075 0.82
217 21 0.02
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (216 bp):
AAGATCAAAACTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTAGCATG
GAATGTTCGGAAAATTACTCGAAGGAATGGATCGTCTTGAACACTTTAAGGAACAGAATTTAAAA
AAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAATTCTCA
CGTAAATAAGTTTTTAATTCA
Found at i:1335 original size:432 final size:431
Alignment explanation
Indices: 402--2180 Score: 2636
Period size: 432 Copynumber: 4.1 Consensus size: 431
392 TCCAAGAACC
* *
402 AAGATCAAAACATGTTTACAAAATG-AAAACTATTTAGACCAAATGATGCGATTTCTCTCGCATG
1 AAGATCAAAACTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATG
** * * * * *
466 GAATGTTTGGAAAATTTCTCGAAGGAATGAATCGTCTTGAACACTTTAAGGAATCAGACTTAAGA
66 GAATG-TTAAAAAATTACTCGAAGGAATGGATCGTCTTGAACACTTTAAGGAAACAGATTTAAAA
* * *
531 AATAACTCGTAAAAGTTTGACAAGTTTGGAAGTTTGTCCAACAACCAAGAGAGAAACAATTCTCA
130 AAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAATTCTCA
* * * *
596 CATAAATAAGTTTTTAATTCAACGGCCAAAACTTGTTTACAAAATGACAAAATTGTTAGATCAAA
195 CATAAATAAGTTTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAA
* * * *
661 TGATGTAACTTCCCAAGCATGTAATGTTCAGAAAATTACTCAAAGGATTGGATCG-CTTGAATAC
260 TGATGTGACTTCCCGAGCATGTAATGTTCGGAAAATTACTCGAAGGATTGGATCGTCTTGAATAC
* * * * * ** *
725 TTTAAGGAACAGAAGTTTTAAAAGAACTCGTAAAAGTTCTACAAGTTTGGAAGTTTGTCCAAGAT
325 TTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTCGACAAGTTCGAAAGTTCATCCAAGAA
*
790 CCAAGAGAGACACAATTCTCATGTAAATAAGTTTTTAATTCA
390 CCAAGAGAGACACAATTCTCACGTAAATAAGTTTTTAATTCA
*
832 AAGATCAAAACTTATTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATG
1 AAGATCAAAACTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATG
*
897 GAATGTTCAAAAAATTACTCG-AGGAAATGGATTGT-TCTGAACACTTTAAGGAAACAGATTTAA
66 GAATGTT-AAAAAATTACTCGAAGG-AATGGATCGTCT-TGAACACTTTAAGGAAACAGATTTAA
* * *
960 AAAAGAACTCGTAAAAGTTTGACAAGTTCGGTAGTTCGTCCGACAACTAAGAGAGAAACAATTCT
128 AAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAATTCT
** * * *
1025 CATGTAAATAAGTTTTTAATTCAAATGCCAAAACTTGTTTACAAAATGACAAACTATTTAGACCT
193 CACATAAATAAGTTTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCA
* * * *
1090 AATGATGCGACTTCCCGAGCGTGTAATGTTTGGAAAATTACTCGAAGGATTGGATCATCTTGAAT
258 AATGATGTGACTTCCCGAGCATGTAATGTTCGGAAAATTACTCGAAGGATTGGATCGTCTTGAAT
1155 ACTTTAAGGAA-TCGAAGTTATAAAAGAACTCGTAAAAGTTCGACAAGTTCGAAAGTTCATCCAA
323 ACTTTAAGGAACT-GAAGTTATAAAAGAACTCGTAAAAGTTCGACAAGTTCGAAAGTTCATCCAA
* *
1219 GAACGAAGAGAGACATAATTCTCACGTAAATAAGTTTTTAATTCA
387 GAACCAAGAGAGACACAATTCTCACGTAAATAAGTTTTTAATTCA
* * *
1264 ATGATCAAAACTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGTGATTTCCCTCGCATT
1 AAGATCAAAACTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATG
* * * * *
1329 GAATGTTAGGAAAATTACTCGAAGGAATAGATCGTCTTGAACACTTTAAGGAATCGGATTGAAAA
66 GAATGTTA-AAAAATTACTCGAAGGAATGGATCGTCTTGAACACTTTAAGGAAACAGATTTAAAA
1394 AAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAATTCTCA
130 AAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAATTCTCA
** * * *
1459 TGTAAATAAGATTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGTCAAACTTTTTAGAGCAAA
195 CATAAATAAGTTTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAA
* ** *
1524 TGATGAGACTTCCCGAGCATGTAATGTTC-GAAAACTTGTTCGACGGATTGGATCGTCTTGAATA
260 TGATGTGACTTCCCGAGCATGTAATGTTCGGAAAA-TTACTCGAAGGATTGGATCGTCTTGAATA
* **
1588 CTTTAAGGAACTGAAGCTATAAAAGATGTCGTAAAAGTTCGACAAGTTCGAAAGTTCATCCAAGA
324 CTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTCGACAAGTTCGAAAGTTCATCCAAGA
* *
1653 ACCCAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCA
389 ACCAAGAGAGACACAATTCTCACGTAAATAAGTTTTTAATTCA
*
1696 AAGATCAAAACATGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATG
1 AAGATCAAAACTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATG
* * *
1761 GAATGTTGGAAAAATTACTCGAAGGAATGGATTGTGTTGAACACTTTAAGG-AACTAGATTTAAA
66 GAATGTT-AAAAAATTACTCGAAGGAATGGATCGTCTTGAACACTTTAAGGAAAC-AGATTTAAA
* * * *
1825 AAAGAACTCGTAAAAGATTGACAAGTTCAGAAGTTCGTCCAACAACCAAGAAAGAAACAATTCTT
129 AAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAATTCTC
* *
1890 ACATAAATAAGTTTTTAATTTAAAGGCCAAAACTTGTTTACAAAATGACAAACTTTTTAAACCAA
194 ACATAAATAAGTTTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAA
*
1955 ATGATGTGACTTCCCGAGCATGTAACGTTCGGAAAATTACTCGAAGGATTGGATCGTCTTGAATA
259 ATGATGTGACTTCCCGAGCATGTAATGTTCGGAAAATTACTCGAAGGATTGGATCGTCTTGAATA
* * * * *
2020 CTTTAAGGAACTGAAGTTATAAAAGAACTTGTGAAAGTTCGATAAGTTCGGAAGTTCGTCCAAGA
324 CTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTCGACAAGTTCGAAAGTTCATCCAAGA
* *
2085 GCCAAGAGAGACACAATTCTCATGTAAATAAGTTTTTAATTCA
389 ACCAAGAGAGACACAATTCTCACGTAAATAAGTTTTTAATTCA
* * *
2128 AAGATAAAAACTTGTTTACAAAATAAAAAACTATTTAGACCAAATGATACGAT
1 AAGATCAAAACTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGAT
2181 GATACGAGTC
Statistics
Matches: 1213, Mismatches: 122, Indels: 26
0.89 0.09 0.02
Matches are distributed among these distances:
430 29 0.02
431 256 0.21
432 918 0.76
433 10 0.01
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (431 bp):
AAGATCAAAACTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATG
GAATGTTAAAAAATTACTCGAAGGAATGGATCGTCTTGAACACTTTAAGGAAACAGATTTAAAAA
AGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAATTCTCAC
ATAAATAAGTTTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAAT
GATGTGACTTCCCGAGCATGTAATGTTCGGAAAATTACTCGAAGGATTGGATCGTCTTGAATACT
TTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTCGACAAGTTCGAAAGTTCATCCAAGAAC
CAAGAGAGACACAATTCTCACGTAAATAAGTTTTTAATTCA
Found at i:5208 original size:214 final size:216
Alignment explanation
Indices: 4741--6477 Score: 2088
Period size: 214 Copynumber: 8.1 Consensus size: 216
4731 TTTTCTCAAA
* *
4741 AAATAGCATCAATTT-GTCTAAATAGTTTGTCATTTTGTGAACAAGCTTTT-GTCTTTGAATTAA
1 AAATCGCATC-ATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAG-TTTTGGTCTTTGAATTAA
* * *
4804 AAACTTATTTACATGAGAATTGTTTCTCCCTTTGTTCTTGGACAAACTTCCAAACTTG-CAAACT
64 AAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTGTCAAACT
* * *
4868 TTTACGAGTTCTTTTATAATTTTGGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAGCAAT
129 TTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAAT
* *
4933 TTTTCGAACATTCCATTCTCGGG
194 TTTTCAAACATTCCATGCTCGGG
* * * *
4956 GAGTCGCATCATTTGGTATAAATAGTTTGTCATTTTGTAAACAAGTTTTGGCCTTTGAATTAAAA
1 AAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAA
* * * *
5021 ATTTATTTACATGAGACTTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTAGTCAAACTTT
66 ACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTGTCAAACTTT
* * * * *
5086 GAAGAGTTC-TTTATAACTTCAGTTCCTTAACGT-TTCAAGACGATCCATTCCTTCAAGCAATTT
131 TACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTT
* * *
5149 TCCGAACATTCCATGCTCGAG
196 TTCAAACATTCCATGCTCGGG
** * * *
5170 AAATCATATCATTTGGTCAAAATAGTTTGTCATTTTGTAAACAAGTTTTTGTCTATGAATTAAAA
1 AAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAA
* * * * *
5235 ACTTATTTACGTGAGAATTGTTTGTCTCCAT-GTTCTTTGATGAACTTCCAAACTTGTCAAACTT
66 ACTTATTTACATGAGAATTGTTTCTCT-CTTGGTTCTTGGACGAACTTCCAAACTTGTCAAACTT
* * * * *
5299 TAACGAGTTCTTTTATAACTCCAGTTCCTTAAAGTATTCAAGACAATCCATTCCTTCGAGTAATT
130 TTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATT
** *
5364 TTTTGAACATTCCATGCTCGAG
195 TTTCAAACATTCCATGCTCGGG
* * * * *
5386 AAATTGCATCATTTAGTTTTAAAT-GTTTGTCATTTTGTAAACAATTTTTGG-CATGTGAATTAA
1 AAATCGCATCATTT-GGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTC-TTTGAATTAA
* *
5449 AAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACT
64 AAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTGTCAAACT
* * * ** *
5514 TTTACGTGTTCTTTTATAACTTCGGTTCCTTAAAGAATTCAAGATC-ATTCATTCCTTAAAGTAA
129 TTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGA-CGATCCATTCCTTCGAG-CA
* * *
5578 ATTTTT-GAACAATCCATGATCGGG
192 ATTTTTCAAACATTCCATGCTCGGG
* * * * ***
5602 AAATCGTATCACTTGGTCTAAATAGTTTATCATTTTGTAGACAAG-TTT-GTCTACAAATTAAAA
1 AAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAA
* * * * *
5665 ACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACAAACTTTCAAACTTATCAAACTGT
66 ACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTGTCAAACTTT
* * * *
5730 TACGTGTTCTTTTATAACTTCGGTTTCATAAAGTATTCAAGACGATCCATTCCTTCAAGCAATTT
131 TACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTT
5795 TTCAAACATTCCATGCTCGGG
196 TTCAAACATTCCATGCTCGGG
* * * *
5816 AAGTCGCATAATTTGGTCTAAATAATTTGTCATTTTTTAAACAAGTTTTGGTCTTTGAATTAAAA
1 AAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAA
* * * * *
5881 ACTTCTTTACATGAGAATTGTTTCTCCCTTGGTTCATGTACGAACTTCCAAACTTGTGAAACTTT
66 ACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTGTCAAACTTT
* * * *
5946 TATGAGTTCCTTTATAACTTCGGTTCCTTAAAGTATTAAAGGCGATCCATTCCTTCGAGCAATTT
131 TACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTT
* ** *
6011 TTCAAACATTCCATTCTTAGA
196 TTCAAACATTCCATGCTCGGG
* * * * *
6032 AAATCGCAACA-AT-ATCTAAATAGTTTGTCATTTTGTAAAAAAGTTTTGGTTTTTGAATTAAAA
1 AAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAA
* * * * * *
6095 ACGTATTTACATGAGAGTTGTTTATCTCTTGGTTCGTGGACGAACTTCCGAACTTGTCAAAATTT
66 ACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTGTCAAACTTT
* * *
6160 TATGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCATTCTTTCGAGCAATTT
131 TACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTT
* * * * *
6225 TTAAAACTTTTCGTGCTTGGG
196 TTCAAACATTCCATGCTCGGG
* * *
6246 AAGTCGCATCATTTGGTCTAAATAGTTTGTCATTTTTTAAACAGGTTTTGGTCTTTGAATTAAAA
1 AAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAA
** * * * *** * *
6311 TTTTTTTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTTTGAATTTG-AAAACTTT
66 ACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTGTCAAACTTT
* * * *
6375 TTCGATTTCTTTTAAAACTTCGGTTCCATT-AAGTATTCAAGACGATCCATT-CTTCGAGTAATT
131 TACGAGTTCTTTTATAACTTCGGTTCC-TTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATT
*
6438 TTTCAAACATTCCTTGCTTC-GG
195 TTTCAAACATTCCATGC-TCGGG
*
6460 AAGTCGCATCATTTGGTC
1 AAATCGCATCATTTGGTC
6478 AAAACATTCC
Statistics
Matches: 1301, Mismatches: 200, Indels: 43
0.84 0.13 0.03
Matches are distributed among these distances:
213 8 0.01
214 570 0.44
215 211 0.16
216 498 0.38
217 14 0.01
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (216 bp):
AAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAA
ACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTGTCAAACTTT
TACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTT
TTCAAACATTCCATGCTCGGG
Found at i:5653 original size:430 final size:429
Alignment explanation
Indices: 4756--6477 Score: 2093
Period size: 430 Copynumber: 4.0 Consensus size: 429
4746 GCATCAATTT
* *
4756 GTCTAAATAGTTTGTCATTTTGTGAACAAGCTTTTGTCTTTGAATTAAAAACTTATTTACATGAG
1 GTCTAAATAGTTTGTCATTTTGTAAACAAG-TTTTGTCTATGAATTAAAAACTTATTTACATGAG
* *
4821 AATTGTTTCTCCCTTTGTTCTTGGACAAACTTCCAAACTTG-CAAACTTTTACGAGTTCTTTTAT
65 AATTGTTTCTCTCTTGGTTCTTGGACAAACTTCCAAACTTGTCAAACTTTTACGAGTTCTTTTAT
* * * * *
4885 AATTTTGGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATT
130 AACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCAAACATTCCATG
* * *
4950 CTCGGGGAGTCGCATCATTTGGTATAAATAGTTTGTCATTTTGTAAACAAGTTTTGGCCTTTGAA
195 CTCGGGAAGTCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAA
* * *
5015 TTAAAAATTTATTTACATGAGACTTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTAGTCA
260 TTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCA
* * * *
5080 AACTTTGAAGAGTTC-TTTATAACTTCAGTTCCTTAACGT-TTCAAGACGATCCATTCCTTCAAG
325 AACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCAAG
* * *
5143 CAATTTTCCGAACATTCCATGCTCGAGAAATCATATCATTTG
390 CAATTTT-TGAACATTCCATGCTCGGGAAATCGTATCA-TTG
* *
5185 GTCAAAATAGTTTGTCATTTTGTAAACAAGTTTTTGTCTATGAATTAAAAACTTATTTACGTGAG
1 GTCTAAATAGTTTGTCATTTTGTAAACAAG-TTTTGTCTATGAATTAAAAACTTATTTACATGAG
* * * ** *
5250 AATTGTTTGTCTCCAT-GTTCTTTGATGAACTTCCAAACTTGTCAAACTTTAACGAGTTCTTTTA
65 AATTGTTTCTCT-CTTGGTTCTTGGACAAACTTCCAAACTTGTCAAACTTTTACGAGTTCTTTTA
* * * * **
5314 TAACTCCAGTTCCTTAAAGTATTCAAGACAATCCATTCCTTCGAGTAATTTTTTGAACATTCCAT
129 TAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCAAACATTCCAT
* * * * * * *
5379 GCTCGAGAAATTGCATCATTTAGTTTTAAAT-GTTTGTCATTTTGTAAACAATTTTTGG-CATGT
194 GCTCGGGAAGTCGCATCATTT-GGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTC-TTT
*
5442 GAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTG
257 GAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTG
* * *
5507 TCAAACTTTTACGTGTTCTTTTATAACTTCGGTTCCTTAAAGAATTCAAGATC-ATTCATTCCTT
322 TCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGA-CGATCCATTCCTT
* * * *
5571 AAAGTAAATTTTTGAACAATCCATGATCGGGAAATCGTATCACTTG
386 CAAG-CAATTTTTGAACATTCCATGCTCGGGAAATCGTATCA-TTG
* * ** *
5617 GTCTAAATAGTTTATCATTTTGTAGACAAG-TTTGTCTACAAATTAAAAACTTATTTACGTGAGA
1 GTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGTCTATGAATTAAAAACTTATTTACATGAGA
* * * *
5681 ATTGTTTCTCTCTTGGTTCTTGGACAAACTTTCAAACTTATCAAACTGTTACGTGTTCTTTTATA
66 ATTGTTTCTCTCTTGGTTCTTGGACAAACTTCCAAACTTGTCAAACTTTTACGAGTTCTTTTATA
* * *
5746 ACTTCGGTTTCATAAAGTATTCAAGACGATCCATTCCTTCAAGCAATTTTTCAAACATTCCATGC
131 ACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCAAACATTCCATGC
* * *
5811 TCGGGAAGTCGCATAATTTGGTCTAAATAATTTGTCATTTTTTAAACAAGTTTTGGTCTTTGAAT
196 TCGGGAAGTCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAAT
* * * * * *
5876 TAAAAACTTCTTTACATGAGAATTGTTTCTCCCTTGGTTCATGTACGAACTTCCAAACTTGTGAA
261 TAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAA
* * * * *
5941 ACTTTTATGAGTTCCTTTATAACTTCGGTTCCTTAAAGTATTAAAGGCGATCCATTCCTTCGAGC
326 ACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCAAGC
* * ** * * * *
6006 AATTTTTCAAACATTCCATTCTTAGAAAATCGCAACAAT-
391 AATTTTT-GAACATTCCATGCTCGGGAAATCGTATCATTG
* * * * *
6045 ATCTAAATAGTTTGTCATTTTGTAAAAAAGTTTTGGTTTTTGAATTAAAAACGTATTTACATGAG
1 GTCTAAATAGTTTGTCATTTTGTAAACAAGTTTT-GTCTATGAATTAAAAACTTATTTACATGAG
* * * * * * *
6110 AGTTGTTTATCTCTTGGTTCGTGGACGAACTTCCGAACTTGTCAAAATTTTATGAGTTCTTTTAT
65 AATTGTTTCTCTCTTGGTTCTTGGACAAACTTCCAAACTTGTCAAACTTTTACGAGTTCTTTTAT
* * * * * *
6175 AACTTTGGTTCCTTAAAGTATTCAAGACGATCCATTCTTTCGAGCAATTTTTAAAACTTTTCGTG
130 AACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCAAACATTCCATG
* * *
6240 CTTGGGAAGTCGCATCATTTGGTCTAAATAGTTTGTCATTTTTTAAACAGGTTTTGGTCTTTGAA
195 CTCGGGAAGTCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAA
** * * * ** * *
6305 TTAAAATTTTTTTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTTTGAATTTG-AA
260 TTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCA
* * * *
6369 AACTTTTTCGATTTCTTTTAAAACTTCGGTTCCATT-AAGTATTCAAGACGATCCATT-CTTCGA
325 AACTTTTACGAGTTCTTTTATAACTTCGGTTCC-TTAAAGTATTCAAGACGATCCATTCCTTCAA
* * * * *
6432 GTAATTTTTCAAACATTCCTTGCTTC-GGAAGTCGCATCATTTG
389 GCAATTTTT-GAACATTCCATGC-TCGGGAAATCGTATCA-TTG
6475 GTC
1 GTC
6478 AAAACATTCC
Statistics
Matches: 1102, Mismatches: 172, Indels: 37
0.84 0.13 0.03
Matches are distributed among these distances:
428 62 0.06
429 164 0.15
430 765 0.69
431 29 0.03
432 75 0.07
433 7 0.01
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.41
Consensus pattern (429 bp):
GTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGTCTATGAATTAAAAACTTATTTACATGAGA
ATTGTTTCTCTCTTGGTTCTTGGACAAACTTCCAAACTTGTCAAACTTTTACGAGTTCTTTTATA
ACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCAAACATTCCATGC
TCGGGAAGTCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAAT
TAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAA
ACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCAAGC
AATTTTTGAACATTCCATGCTCGGGAAATCGTATCATTG
Found at i:7962 original size:50 final size:49
Alignment explanation
Indices: 7889--8023 Score: 141
Period size: 50 Copynumber: 2.7 Consensus size: 49
7879 TGCATGACTT
*
7889 GATTTAATGATGC-ATTTAACTAACATGGGAGTTACATAATACATGAT-AG
1 GATTT-ATGATGCAATTTAACTAACATGAGAGTTACATAATACATG-TCAG
* * *
7938 GATTTATGATGCATATTTAACTAACATGTA-AGTTACTTAATGCATGTCAT
1 GATTTATGATGCA-ATTTAACTAACATG-AGAGTTACATAATACATGTCAG
* *
7988 TATTTATGATGCAAACTTAACTAATCATGAGAGTTA
1 GATTTATGATGC-AATTTAACTAA-CATGAGAGTTA
8024 ATGGATGTCA
Statistics
Matches: 73, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
48 7 0.10
49 6 0.08
50 50 0.68
51 10 0.14
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (49 bp):
GATTTATGATGCAATTTAACTAACATGAGAGTTACATAATACATGTCAG
Found at i:8249 original size:17 final size:17
Alignment explanation
Indices: 8218--8250 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8208 CAAACACTTA
8218 TTAAACTAAAATAAAAC
1 TTAAACTAAAATAAAAC
8235 TTAAA-TAAAATTAAAA
1 TTAAACTAAAA-TAAAA
8251 AGTCCTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (17 bp):
TTAAACTAAAATAAAAC
Found at i:11753 original size:216 final size:215
Alignment explanation
Indices: 11361--15385 Score: 4375
Period size: 216 Copynumber: 18.7 Consensus size: 215
11351 ATGGAATGCA
* * *
11361 TGTAAACAAGTTTTGGTCTTTGAATTAAAAAACTTGTTTACGTGAAAATTGTTTCTCTCTTGTTT
1 TGTAAACAAGTTTTGGTCTTTGAATT-AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTT
* * * * *
11426 CTTAGACGAACTTTCGAACTTGTCAAACTTTTACAAGTTCTTCTATAACTTCGATTCTTTAAAGT
65 CTTGGACGAACTTT-GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGT
* * * * * * ** *
11491 GTTCAAGACGATCCATTCTTTCCAGCAATTTTTTGAACAATCCATGCTCTGGAAATAACATGATT
129 ATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATT
11556 TGGTCTAAA-ATGTTTGTCATTT
194 TGGTCTAAATA-GTTTGTCATTT
* * * * * * * **
11578 TGTATACAAGTTTTGGTCTTTGAATTATAAACATATTTATGTGACAATTGTTTCTATTTTTATTC
1 TGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTC
* * * * *
11643 TTGGACGAACTTCTGAACTTG-CTAAACATTTATGAGTTCTTTTATGACTTCGGTTCCTGAGAGT
66 TTGGACGAACTT-TGAACTTGTC-AAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGT
* * * * *
11707 ATACAAGACGATCCATTCCATCGACCAGTTTTTCGAACATTCCATGCTCGGAAAATCGCATCATT
129 ATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATT
*
11772 TGGCCTAAATAGTTTGTCATTT
194 TGGTCTAAATAGTTTGTCATTT
*
11794 TGTAAAGAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTC
1 TGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTC
*** * * * *
11859 TTGGACGAACTCCCAAACCTGTCAAACTTTTATGTTGTTCTTTTATAACTTCGGTTCCTTAAAGA
66 TTGGACGAACT-TTGAACTTGTCAAACTTTTACG-AGTTCTTTTATAACTTCGGTTCCTTAAAGT
* * * * * * *
11924 ATTCAAGACAATTCATTCCTTCAAGCAA-ATTTCTGAACAATCCATACTCGGGAAATCGCATCAC
129 ATTCAAGACGATCCATTCCTTCGAGCAATTTTTC-GAACATTCCATGCTCGGGAAATCGCATCAT
* *
11988 TTGGTC-AATAAAGTTTATCATTT
193 TTGGTCTAA-ATAGTTTGTCATTT
** *** * * * *
12011 TGTAAACAAAATTT-GTCCACGAATTAAAAAATTATTTACGTGAGATTTGTTTTTTTCTTGGTTC
1 TGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTC
* * * * **
12075 TTGGACAAACTTTCGAACTTGTCAAACTGTTACGTGTTCTTTTATAACTTGGGTTCCACAAAGTA
66 TTGGACGAACTTT-GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTA
* * *
12140 TTCAAGATGATCCATTCCTTCGAGCAATTTTTCAAACATTCCATGCTCGGGAAGTCGCATCATTT
130 TTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTT
* *
12205 GGTCTAAATA--ATGACATTT
195 GGTCTAAATAGTTTGTCATTT
*
12224 T-TAAACAAGTTTTGGTCTTTGAATTAAAAACTTCTTTACGTGAGAATTG-TT-TCTCTTGGTTC
1 TGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTC
* * * * *
12286 ATGGATGAACTCTGAACTTGTCAAACTTTTACGATTTCTTTTATAACTTCTGTTCCTTAAAGTAT
66 TTGGACGAACTTTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTAT
* * * * * * * * *
12351 TTAAGGCAATCAATTCCTTCGAGCTATTTTTCGAACATTCCATTCTC-AGAAATTCGCAACAATC
131 TCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAA-TCGCATC-ATT
*
12415 T-GTCTAAATAGTTTGTAATTT
194 TGGTCTAAATAGTTTGTCATTT
* * *
12436 TGTAAACAAGTTTTGGTATTTGAATTAAAAACTTATTTACATGAGAGTTGTTTCTCTCTTGGTT-
1 TGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTC
* * * *
12500 TGTGGATGAACTTCCGAACTTGTCAAACTTTTATGAGTTCTTTTATAACTTTGGTTCCTTAAAG-
66 T-TGGACGAACTT-TGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGT
* * ** *
12564 ATTTCAAGACGATCCATTCTTTCGAGCAA-TTTTCAGAACATTCCATGCTTGGGAAGCCACATCA
129 A-TTCAAGACGATCCATTCCTTCGAGCAATTTTTC-GAACATTCCATGCTCGGGAAATCGCATCA
*
12628 TTTAGTCTAAATAGTTTGTCATTT
192 TTTGGTCTAAATAGTTTGTCATTT
** * * *
12652 T-TAAACAAGTTTTGGTCTTTGAATTAAAAAAAT-TTTACATGAAAATTG-TT-TCTCTTAGTTC
1 TGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTC
* * *
12713 TTGGACGAACTTTTGAATTTGTCAAACTGTTACGAGTTCTTTTATAACTTCGGTTCGTTAAAGTA
66 TTGGACGAAC-TTTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTA
* * * * *
12778 TTCAACA-GAATCCATTCCTTAGAGCAATTTTTTGAACATTCCACGCTCAGGAAATCGCATC-TT
130 TTCAAGACG-ATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATT
* *
12841 TAGGTCTAAATAGTTTTTTATTT
194 T-GGTCTAAATAGTTTGTCATTT
* * *
12864 TGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACTTGAAAATTG-TTCTCTCTCGGTTC
1 TGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTC
** * * * *
12928 TTGGATTAACTTTCAAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCAGTTCCTTGAAGTG
66 TTGGACGAACTTT-GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTA
* * ** * * * * ** *
12993 TTC-AGAATGATCCATTCCTTCCAAAAATTTTTCGAAGAATCCATGCTCAGTAAATAACATTATT
130 TTCAAG-ACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATT
*
13057 TGGTCTAAAAAGTTTGTCATTT
194 TGGTCTAAATAGTTTGTCATTT
* * **
13079 TGTAAACAAGTTTTTGTCTTTGAATTATAAACTTATTTACGTGAGAATTGTTTCTCTCTTTATTC
1 TGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTC
* * * *
13144 TTGGACGAACTTCTGAACTTGTCAAA-TATTTATGATTTCTTTTATAACTTCAGTT-CTTGATAG
66 TTGGACGAACTT-TGAACTTGTCAAACT-TTTACGAGTTCTTTTATAACTTCGGTTCCTT-AAAG
* ** * * **
13207 AATAAAAGACGATCCATTCCATT-GACCAA-TTTTCTGAACATTCCATGCTCGTGAAATCAAATC
128 TATTCAAGACGATCCATTCC-TTCGAGCAATTTTTC-GAACATTCCATGCTCGGGAAATCGCATC
*
13270 ATTTGGCCTAAATAGTTTGTCATTT
191 ATTTGGTCTAAATAGTTTGTCATTT
* * *
13295 TGTAAACAAGTTTTGGTCTTTGAATTTAAAACTTATATACGTGAGAATTGTTTCACTCTTGGTTC
1 TGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTC
* * * * * *
13360 TTGGATGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAAATTTGATTCCTTAAAATA
66 TTGGACGAACTT-TGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTA
* * * * * ** *
13425 TTTAAGCCGATTCATTCCTTCGAGCAATTTTTTGAACATTTCATGCTCGAAAAATCGCATCAATT
130 TTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTT
13490 GGTCTAAATAGTTTGTCATTT
195 GGTCTAAATAGTTTGTCATTT
* *** * * *
13511 TGGT-AACAAGTTTTTGTCTCCAAATTAAAAAGTTATTTACATGAGAATTGTTTCTCCCTTGGTT
1 T-GTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTT
* * *
13575 CTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGGTGTTTTATAACTTCAGTTCCTTAAAGT
65 CTTGGACGAACTTT-GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGT
* * * * *
13640 ATTCAAGATGATCCATTCTTTCGAGCAATTTTTCGAACATTACATGCTCGGGAAGTTGCATCATT
129 ATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATT
* *
13705 TGGTCTGAATAGTGTGTCATTT
194 TGGTCTAAATAGTTTGTCATTT
* * *
13727 TATAAAAAAGTTTTGGTCTTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTC
1 TGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTC
* * * * * * *
13792 TTGGGCAAACTTTCGAACTAGTCAAACTTTGAAGAGTTCTTTTATAACTTCAGTTCCTTAATGT-
66 TTGGACGAACTTT-GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTA
* * * * *
13856 TTCAAGACGATCCATTCCTTCGAGCGA-TTTTCTAAACATTCTATGCTCGGGAAATCACATTATT
130 TTCAAGACGATCCATTCCTTCGAGCAATTTTTC-GAACATTCCATGCTCGGGAAATCGCATCATT
*
13920 TGGTCAAAATAGTTTGTCATTT
194 TGGTCTAAATAGTTTGTCATTT
* ** *
13942 AGTAAACAAGTTTTTTTTCTGTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTT
1 TGTAAACAAG-TTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTT
* * * *
14007 CTTGGATGAACTTTCGGACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTGAGAGT
65 CTTGGACGAACTTT-GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGT
* * * * * * * *
14072 ATACAAGACGATCCATTGCATCGACCAA-TTTTCGAACATTCCATGCTCAGTAAACCGAATCATT
129 ATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATT
**
14136 TGACCTAAATAGTTTGTCATTT
194 TGGTCTAAATAGTTTGTCATTT
* * *
14158 TGTAAACAGGTTTTTGTCTTTGAATTAAAAACTTATTTACGTGAGAATTATTTCTCTCTTGGTTC
1 TGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTC
* * *
14223 TAGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAAATTTGGTTCCTTAAAGTA
66 TTGGACGAACTTT-GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTA
* * * * ** * * * *** * *
14288 TTTAAGCCAATTCATTCCTTTAAGCAATTTTTTGAACATTTCATGATCAAAAAATTGCATCAATT
130 TTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTT
*
14353 GGTCTAAATAATTTGTCATTT
195 GGTCTAAATAGTTTGTCATTT
* * *** * *
14374 TGTGAACAAGTTTTTGTCAACGAATTAAAAACTTATTTACATGAGAATTGTTTCTCCCTTGGTTC
1 TGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTC
* * * *
14439 TTGGACGAACTTCTGAACTTTTCAAACTTTTACTAGTTCTTTTATAACTTCGGTTCGTTAAAGAA
66 TTGGACGAACTT-TGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTA
* * * * ** * * * *
14504 TTCAAGATGATTCATTCCTTCAAGCAAATTACCGAACAATCCACGCGCGGGAAATCGCATCACTT
130 TTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTT
*
14569 GGTCTAAATAGTTTATCATTT
195 GGTCTAAATAGTTTGTCATTT
* * * * *
14590 TGCAGACAAGTTTTTTGTCTGCT-AATTAAAAACTTATTTACGTGAGAACTGTTTCTCTCTTGGT
1 TGTAAACAAG-TTTTGGTCT-TTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGT
* * *
14654 TCTTGGACGAACTTTTGAACTTATCAAA-TTGTTACGAGTTATTTTATAACTT-GAGTTCCATAA
64 TCTTGGACGAAC-TTTGAACTTGTCAAACTT-TTACGAGTTCTTTTATAACTTCG-GTTCCTTAA
* * * *
14717 AGTATTCAAGAC-ATCTATTCCTTCGAGCAATTTTTCGAACATTCCATGCTTGGGAAGTCGTATC
126 AGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATC
* *
14781 ATTCGGTCTAAATAATTTGTCATTT
191 ATTTGGTCTAAATAGTTTGTCATTT
* *
14806 TTTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTC
1 TGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTC
* * * ** *
14871 TTGGACGAACTTCCGAACTTGTCAAACTGTTACGAGTTCTTTTATAACTTTGGTTTGTTAAAGTG
66 TTGGACGAACTT-TGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTA
* * * *
14936 TTCAAGA-GAATCCCTTGCTTCGAGCAATTTTTTGAACATTCCACGCTCGGGAAATCGCATC-TT
130 TTCAAGACG-ATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATT
* *
14999 TAGGTCTGAATAGTTTGTTATTT
194 T-GGTCTAAATAGTTTGTCATTT
* * * *
15022 TATAAACAAGTTTTGGTCTTTGAATTAAAAACATATTTACGTGAAAATTGTTTCTCTCTCGGTTC
1 TGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTC
* * * *
15087 TTGAACAAACTTTCGAACTTGTCAAACATTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTG
66 TTGGACGAACTTT-GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTA
* * * * * * * ** *
15152 TTCATGATGATCCATTCCTTCTAGTAATTTTCCGAACAATT-CACGCTCGAGAAATAACAT-GTC
130 TTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAAC-ATTCCATGCTCGGGAAATCGCATCAT-
*
15215 TTGGTCTAAAAAGTTTGTCATTT
193 TTGGTCTAAATAGTTTGTCATTT
* * * * **
15238 TTTAAACAAGTTCTGGTCTTTGAATTATAAACTTATTTACGTGAGAATTGTTTCTTTCTTTTTTC
1 TGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTC
* * * * * * * * * *
15303 TTGGATGAACTTTTGAACTTGCCAAACATTTACGAATTATTTTATAGCATCGGTTCATGAGAGTA
66 TTGGACGAAC-TTTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTA
* *
15368 TACAAGATGATCCATTCC
130 TTCAAGACGATCCATTCC
15386 GAACTTATTT
Statistics
Matches: 3172, Mismatches: 561, Indels: 151
0.82 0.14 0.04
Matches are distributed among these distances:
209 3 0.00
210 99 0.03
211 26 0.01
212 143 0.05
213 120 0.04
214 43 0.01
215 632 0.20
216 1815 0.57
217 289 0.09
218 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (215 bp):
TGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTC
TTGGACGAACTTTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTAT
TCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTG
GTCTAAATAGTTTGTCATTT
Found at i:15488 original size:120 final size:120
Alignment explanation
Indices: 15267--15503 Score: 285
Period size: 120 Copynumber: 2.0 Consensus size: 120
15257 TTGAATTATA
* * ** **
15267 AACTTATTTACGTGAGAATTGTTTCTTTCTTTTTTCTTGGATGAACTTTTGAACTTGCCAAACAT
1 AACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGCCAAACAT
* * *
15332 TTACGAATTATTTTATAGCATCGGTTCATGAGAGTATACAAGATGATCCATTCCG
66 TTACGAATTATTTTATAACATCGGTTCATGAAAGTATACAAGACGATCCATTCCG
* **
15387 AACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAATTT
1 AACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGCCAAACAT
* * * * * * * * *
15452 TTATGAGTTCTTTTTTAACTTTGGTTCCTTAAAGTATTCAAGACGATCCATT
66 TTACGAATTATTTTATAACATCGGTTCATGAAAGTATACAAGACGATCCATT
15504 GTTTCGAGAA
Statistics
Matches: 96, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
120 96 1.00
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (120 bp):
AACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGCCAAACAT
TTACGAATTATTTTATAACATCGGTTCATGAAAGTATACAAGACGATCCATTCCG
Found at i:15780 original size:214 final size:215
Alignment explanation
Indices: 15387--17348 Score: 2089
Period size: 215 Copynumber: 9.2 Consensus size: 215
15377 ATCCATTCCG
* * *
15387 AACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAATTT
1 AACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTT
* * * ** *
15452 TTATGAGTTCTTTTTTAACTTTGGTTCCTTAAAGTATTCAAGACGATCCATTGTTTCGAGAAATT
66 TTACGAGTTCTTTTATAACTTCGGTT-CTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATT
* * * * * * *
15517 TTCCAAACATTTCATGCTTGGGAAGTTGCATTATTTGGTCTAAATAGTTTGTTATTGTT-TAAAC
130 TTTCAAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATT-TTGTAAAC
*
15581 AAGTTTTGGTCTTTAAATTAAA
194 AAGTTTTGGTCTTTGAATTAAA
* * ** *
15603 AACTTCTTTACGTGACAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTAGAATTTG-CAAACTT
1 AACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTT
* * * * * * * *
15667 TTATGAGTTCATTTAAAACTTCGGTTCTGTTAAGTATTCATGATGATCAATT-CTTCGAGTAATT
66 TTACGAGTTCTTTTATAACTTCGGTTCT-TAAAGTATTCAAGACGATCCATTCCTTCGAGCAATT
* * * * *
15731 TTTCGAACATTGCATGCTCGGGAAGTCGCATCATTTGGTCTAAATAGTTTGTTATTTTGTAAAAA
130 TTTCAAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACA
15796 AGTTTTGGTCTTTGAATTAAA
195 AGTTTTGGTCTTTGAATTAAA
* * *
15817 AACTTATTTACGTGAGAATTGTTTCTCTCTTGTTTCTTGGACGAACTTCCGAGCTAGTCAAACTT
1 AACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTT
* * * * *
15882 TGAAGAGTTCTTTTATAATTTCGGTTCCTTAACA-T-TTCAAGATGATCCATTTCTTCGAGCAAT
66 TTACGAGTTCTTTTATAACTTCGGTT-CTTAA-AGTATTCAAGACGATCCATTCCTTCGAGCAAT
* * * * ** * *
15945 TTTTTAGACATTCCATGCTCGGGTAGTTACATCATTTGGTCTAAATAGTTTTTCATTTTGTAAGC
129 TTTTCAAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAC
*
16010 AAGTTTT-GTCTGTGAATTAAA
194 AAGTTTTGGTCTTTGAATTAAA
* * * *
16031 AACTTATTTACGTGAGAATTGTTTCTCTCCAT-CTTCTTTGACGAACTTCCGAAGTTGTCAAACT
1 AACTTATTTACGTGAGAATTGTTTCTCT-CTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACT
* * * ** *
16095 TTTACAAGTTCTTTTATAACTCCGGTTACTTACAGTATTCAAGATAATCCATTCCTTCGAGTAAT
65 TTTACGAGTTCTTTTATAACTTCGGTT-CTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAAT
* * * * * * * *
16160 TTTCCAAACATTCAATGCTTGAGAAATCGCATCATTTGGTCTAAAAAATTTATCGTTTTGTAAAC
129 TTTTCAAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAC
* *
16225 AAGTTTT-TTCTGTGAATTAAA
194 AAGTTTTGGTCTTTGAATTAAA
* * *
16246 AACTTATTTACGCGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTGTAAAACTT
1 AACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTT
* * * * *
16311 TTACGTA-TTCTTTTATAACTTCGGTTCCTTAAAGTATCCAAGAAGATTCATTCCTTCAAGCAAA
66 TTACG-AGTTCTTTTATAACTTCGGTT-CTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAAT
* * * * * *
16375 TTTTCGAACAATCCATGCTCGAGAAAT--CATGACTTT-GTCTAATTAGTTTATCATTTTGTAAA
129 TTTTCAAACATTCCATGCTCGGGAAATCGCATCA-TTTGGTCTAAATAGTTTGTCATTTTGTAAA
* **
16437 CAAGTTTTTGT-TTAAAAATTAAA
193 CAAGTTTTGGTCTT-TGAATTAAA
* * * *
16460 ATCTTATTTACGTAAGAATTGTTTCACTCTTGGTTCTTGGACGAACTTCCGAACTTGTGAAA-TT
1 AACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTT
* * * * * * *
16524 GTTTCGAGTTCTTTTATAACTTCTGTTCCATAAATTTTTCAAGATGATCTATTCCTTCGAGCAAT
66 -TTACGAGTTCTTTTATAACTTCGGTT-CTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAAT
* * * *
16589 TTTCCAAACATTCCATGCTCGGGAAATCTCACCATTTGGTCTAAATAATTTGTCA---T-T----
129 TTTTCAAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAC
16646 ---TTTTGGTCTTTGAATTAAA
194 AAGTTTTGGTCTTTGAATTAAA
* * *
16665 AACTTCTTTACGTGAGAATTGTTTTTCTCTTGGTTCATGGACGAACTTCCGAACTTGTCAAACTT
1 AACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTT
* * *
16730 TTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTTAAGGCGATCCATTCCTTCGAGCAATT
66 TTACGAGTTCTTTTATAACTTCGGTT-CTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATT
** * * * * *
16795 TTTTGAACATTCCATGCTCAGAAAATTGCAACAATCT-GTCTAAATAGTTTGTCATTTTGTAAAC
130 TTTCAAACATTCCATGCTCGGGAAATCGCATC-ATTTGGTCTAAATAGTTTGTCATTTTGTAAAC
*
16859 AAGTTTTGGTCTTTAAATTAAA
194 AAGTTTTGGTCTTTGAATTAAA
* * * * *
16881 AACTTATTTACATGAGAATTATTTCTCTCTTAGTTCATGGACGAACTTTCGAACTTGTCAAACTT
1 AACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTT
* * * * * * * *
16946 TTAAGAGTTATTTTTTAACTTTGGTCCCTTAAAGTATTCAAGACAATCCATTCTTTCGAGCAATG
66 TTACGAGTTCTTTTATAACTTCGGT-TCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATT
* * * * * * *
17011 TTCCAAACATTCCATACTTGGGAAGTCGCATCATTTGGTGTAAATAGTTTGTCATTTTTTAAAAA
130 TTTCAAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACA
*
17076 AGTTTTGGTCTTTAAATTAAA
195 AGTTTTGGTCTTTGAATTAAA
* * * * * * * *
17097 AACTTCTTTACGTCAGTATTGTTTCTCTCTTGGTTTTTTGGACGAACTTTC-AAATTTTAAAACT
1 AACTTATTTACGTGAGAATTGTTTCTCTCTTGG-TTCTTGGACGAACTTCCGAACTTGTCAAACT
* * *
17161 TTTACGAGTTCTTTTAAAACTTCGGTTCCGTT-AAGTATTCAAGACGATCCATT-CTAC-ATTCA
65 TTTACGAGTTCTTTTATAACTTCGGTT-C-TTAAAGTATTCAAGACGATCCATTCCTTCGA-GCA
* * *
17223 A-TTTTCTGAACATTCCATGCTCGGGAAATCACATCATTTGGTC-ATAATAGTTTGTTATTTTGT
127 ATTTTTC-AAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTA-AATAGTTTGTCATTTTGT
* *
17286 AAAAAAGTTTTGGGCTTTGAATTAAA
190 AAACAAGTTTTGGTCTTTGAATTAAA
* *
17312 AACTTATTGACATGAGAATTGTTTCTCTCTTGGTTCT
1 AACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCT
17349 CAGACGTGAT
Statistics
Matches: 1461, Mismatches: 244, Indels: 84
0.82 0.14 0.05
Matches are distributed among these distances:
205 163 0.11
206 7 0.00
208 1 0.00
209 1 0.00
212 1 0.00
213 42 0.03
214 396 0.27
215 483 0.33
216 350 0.24
217 17 0.01
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (215 bp):
AACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTT
TTACGAGTTCTTTTATAACTTCGGTTCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTT
TTCAAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAA
GTTTTGGTCTTTGAATTAAA
Found at i:16285 original size:429 final size:432
Alignment explanation
Indices: 15387--17348 Score: 2175
Period size: 429 Copynumber: 4.6 Consensus size: 432
15377 ATCCATTCCG
* * *
15387 AACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAATTT
1 AACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTT
* * *
15452 TTATGAGTTCTTTTTTAACTTT-GGTTCCTTAAAGTATTCAAGACGATCCATTGT-TTCGAGAAA
66 TTACGAGTTCTTTTATAA-TTTCGGTTCCTTAAAGTATTCAAGACGATCCATT-TCTTCGAGCAA
*** * * * * *
15515 TTTTCCAAACATTTCATGCTTGGGAAGTTGCATTATTTGGTCTAAATAGTTTGTT-ATTGTT-TA
129 TTTTTTGAACATTCCATGCTCGGGAAATTACATCATTTGGTCTAAATAGTTT-TTCATT-TTGTA
* *
15578 AACAAGTTTTGGTCTTTAAATTAAAAACTTCTTTACGTGACAATTGTTTCTCTCTTGGTTCTTGG
192 AACAAGTTTTGGTCTTTAAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGG
** * ** * * *
15643 ACGAACTTTAGAATTTG-CAAACTTTTATGAGTTCATTTAAAACTTCGGTT-CTGTTAAGTATTC
257 ACGAACTTCCGAACTTGTCAAACTTTTACAAGTTCTTTTATAACTTCGGTTCCT-TAAAGTATTC
* * * * * * * *
15706 ATGATGATCAATT-CTTCGAGTAATTTTTCGAACATTGCATGCTCGGGAAGTCGCATCATTTGGT
321 AAGATAATCCATTCCTTCGAGCAATTTTCCAAACATTCCATGCTCGGGAAATCGCATCATTTGGT
* *
15770 CTAAATAGTTTGTTATTTTGTAAAAAAGTTTTGGTCTTTGAATTAAA
386 CTAAATAATTTGTCATTTTGTAAAAAAGTTTTGGTCTTTGAATTAAA
* * *
15817 AACTTATTTACGTGAGAATTGTTTCTCTCTTGTTTCTTGGACGAACTTCCGAGCTAGTCAAACTT
1 AACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTT
* * *
15882 TGAAGAGTTCTTTTATAATTTCGGTTCCTTAACA-T-TTCAAGATGATCCATTTCTTCGAGCAAT
66 TTACGAGTTCTTTTATAATTTCGGTTCCTTAA-AGTATTCAAGACGATCCATTTCTTCGAGCAAT
* * *
15945 TTTTT-AGACATTCCATGCTCGGGTAGTTACATCATTTGGTCTAAATAGTTTTTCATTTTGTAAG
130 TTTTTGA-ACATTCCATGCTCGGGAAATTACATCATTTGGTCTAAATAGTTTTTCATTTTGTAAA
* * * * *
16009 CAAGTTTT-GTCTGTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCCAT-CTTCTTTGA
194 CAAGTTTTGGTCTTTAAATTAAAAACTTATTTACGTGAGAATTGTTTCTCT-CTTGGTTCTTGGA
* * * *
16072 CGAACTTCCGAAGTTGTCAAACTTTTACAAGTTCTTTTATAACTCCGGTTACTTACAGTATTCAA
258 CGAACTTCCGAACTTGTCAAACTTTTACAAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAA
* * * *
16137 GATAATCCATTCCTTCGAGTAATTTTCCAAACATTCAATGCTTGAGAAATCGCATCATTTGGTCT
323 GATAATCCATTCCTTCGAGCAATTTTCCAAACATTCCATGCTCGGGAAATCGCATCATTTGGTCT
* * * * * *
16202 AAAAAATTTATCGTTTTGTAAACAAGTTTT-TTCTGTGAATTAAA
388 AAATAATTTGTCATTTTGTAAAAAAGTTTTGGTCTTTGAATTAAA
* * *
16246 AACTTATTTACGCGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTGTAAAACTT
1 AACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTT
* * * * * * *
16311 TTACGTA-TTCTTTTATAACTTCGGTTCCTTAAAGTATCCAAGAAGATTCATTCCTTCAAGCAAA
66 TTACG-AGTTCTTTTATAATTTCGGTTCCTTAAAGTATTCAAGACGATCCATTTCTTCGAGCAAT
* * * * * *
16375 TTTTCGAACAATCCATGCTCGAGAAA-T-CATGACTTT-GTCTAATTAGTTTATCATTTTGTAAA
130 TTTTTGAACATTCCATGCTCGGGAAATTACATCA-TTTGGTCTAAATAGTTTTTCATTTTGTAAA
* * * * *
16437 CAAGTTTTTGT-TTAAAAATTAAAATCTTATTTACGTAAGAATTGTTTCACTCTTGGTTCTTGGA
194 CAAGTTTTGGTCTT-TAAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGA
* * * * * * *
16501 CGAACTTCCGAACTTGTGAAA-TTGTTTCGAGTTCTTTTATAACTTCTGTTCCATAAATTTTTCA
258 CGAACTTCCGAACTTGTCAAACTT-TTACAAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCA
* * * *
16565 AGATGATCTATTCCTTCGAGCAATTTTCCAAACATTCCATGCTCGGGAAATCTCACCATTTGGTC
322 AGATAATCCATTCCTTCGAGCAATTTTCCAAACATTCCATGCTCGGGAAATCGCATCATTTGGTC
16630 TAAATAATTTGTCA---T-T-------TTTTGGTCTTTGAATTAAA
387 TAAATAATTTGTCATTTTGTAAAAAAGTTTTGGTCTTTGAATTAAA
* * *
16665 AACTTCTTTACGTGAGAATTGTTTTTCTCTTGGTTCATGGACGAACTTCCGAACTTGTCAAACTT
1 AACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTT
* * *
16730 TTACGAGTTCTTTTATAACTTT-GGTTCCTTAAAGTATTTAAGGCGATCCATTCCTTCGAGCAAT
66 TTACGAGTTCTTTTATAA-TTTCGGTTCCTTAAAGTATTCAAGACGATCCATTTCTTCGAGCAAT
* * * * * *
16794 TTTTTGAACATTCCATGCTCAGAAAATTGCAACAATCT-GTCTAAATAGTTTGTCATTTTGTAAA
130 TTTTTGAACATTCCATGCTCGGGAAATTACATC-ATTTGGTCTAAATAGTTTTTCATTTTGTAAA
* * * *
16858 CAAGTTTTGGTCTTTAAATTAAAAACTTATTTACATGAGAATTATTTCTCTCTTAGTTCATGGAC
194 CAAGTTTTGGTCTTTAAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGAC
* * * * *
16923 GAACTTTCGAACTTGTCAAACTTTTA-AGAGTTATTTTTTAACTTTGGTCCCTTAAAGTATTCAA
259 GAACTTCCGAACTTGTCAAACTTTTACA-AGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAA
* * * * * * *
16987 GACAATCCATTCTTTCGAGCAATGTTCCAAACATTCCATACTTGGGAAGTCGCATCATTTGGTGT
323 GATAATCCATTCCTTCGAGCAATTTTCCAAACATTCCATGCTCGGGAAATCGCATCATTTGGTCT
* * *
17052 AAATAGTTTGTCATTTTTTAAAAAAGTTTTGGTCTTTAAATTAAA
388 AAATAATTTGTCATTTTGTAAAAAAGTTTTGGTCTTTGAATTAAA
* * * * * * * *
17097 AACTTCTTTACGTCAGTATTGTTTCTCTCTTGGTTTTTTGGACGAACTTTC-AAATTTTAAAACT
1 AACTTATTTACGTGAGAATTGTTTCTCTCTTGG-TTCTTGGACGAACTTCCGAACTTGTCAAACT
* * * *
17161 TTTACGAGTTCTTTTAAAACTTCGGTTCCGTT-AAGTATTCAAGACGATCCA-TTCTAC-ATTCA
65 TTTACGAGTTCTTTTATAATTTCGGTTCC-TTAAAGTATTCAAGACGATCCATTTCTTCGA-GCA
* *
17223 ATTTTCTGAACATTCCATGCTCGGGAAATCACATCATTTGGTC-ATAATAGTTTGTT-ATTTTGT
128 ATTTTTTGAACATTCCATGCTCGGGAAATTACATCATTTGGTCTA-AATAGTTT-TTCATTTTGT
* * * * *
17286 AAAAAAGTTTTGGGCTTTGAATTAAAAACTTATTGACATGAGAATTGTTTCTCTCTTGGTTCT
191 AAACAAGTTTTGGTCTTTAAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCT
17349 CAGACGTGAT
Statistics
Matches: 1286, Mismatches: 200, Indels: 91
0.82 0.13 0.06
Matches are distributed among these distances:
418 5 0.00
419 143 0.11
420 3 0.00
421 195 0.15
422 5 0.00
424 1 0.00
425 2 0.00
426 1 0.00
428 105 0.08
429 393 0.31
430 204 0.16
431 113 0.09
432 100 0.08
433 16 0.01
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (432 bp):
AACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTT
TTACGAGTTCTTTTATAATTTCGGTTCCTTAAAGTATTCAAGACGATCCATTTCTTCGAGCAATT
TTTTGAACATTCCATGCTCGGGAAATTACATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACA
AGTTTTGGTCTTTAAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGA
ACTTCCGAACTTGTCAAACTTTTACAAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGAT
AATCCATTCCTTCGAGCAATTTTCCAAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAA
TAATTTGTCATTTTGTAAAAAAGTTTTGGTCTTTGAATTAAA
Found at i:17022 original size:216 final size:215
Alignment explanation
Indices: 16646--17347 Score: 874
Period size: 216 Copynumber: 3.3 Consensus size: 215
16636 ATTTGTCATT
* * * *
16646 TTTTGGTCTTTGAATTAAAAACTTCTTTACGTGAGAATTGTTTTTCTCTTGGTTCATGGACGAAC
1 TTTTGGTCTTTAAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCATGGACGAAC
* * * *
16711 TTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTTAAGGCGA
66 TTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTTGGTCCCTTAAAGTATTCAAGACGA
* * * * * *
16776 TCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCTCAGAAAATTGCAACAATCT-GTCTAAAT
131 TCCATT-CTTCGAGCAATTTTCTGAACATTCCATGCTCGGGAAATCGCATC-ATTTGGTCTAAAT
*
16840 AGTTTGTCATTTTGTAAACAAG
194 AGTTTGTCATTTTGTAAAAAAG
* *
16862 TTTTGGTCTTTAAATTAAAAACTTATTTACATGAGAATTATTTCTCTCTTAGTTCATGGACGAAC
1 TTTTGGTCTTTAAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCATGGACGAAC
* * * *
16927 TTTCGAACTTGTCAAACTTTTAAGAGTTATTTTTTAACTTTGGTCCCTTAAAGTATTCAAGACAA
66 TTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTTGGTCCCTTAAAGTATTCAAGACGA
* ** * * * *
16992 TCCATTCTTTCGAGCAATGTTCCAAACATTCCATACTTGGGAAGTCGCATCATTTGGTGTAAATA
131 TCCATTC-TTCGAGCAATTTTCTGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATA
*
17057 GTTTGTCATTTTTTAAAAAAG
195 GTTTGTCATTTTGTAAAAAAG
* * * * **
17078 TTTTGGTCTTTAAATTAAAAACTTCTTTACGTCAGTATTGTTTCTCTCTTGGTTTTTTGGACGAA
1 TTTTGGTCTTTAAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGG-TTCATGGACGAA
* * * * * *
17143 CTTTC-AAATTTTAAAACTTTTACGAGTTCTTTTAAAACTTCGGTTCCGTT-AAGTATTCAAGAC
65 CTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTTGG-TCCCTTAAAGTATTCAAGAC
* * *
17206 GATCCATTCTAC-ATTCAATTTTCTGAACATTCCATGCTCGGGAAATCACATCATTTGGTC-ATA
129 GATCCATTCTTCGA-GCAATTTTCTGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTA-A
*
17269 ATAGTTTGTTATTTTGTAAAAAAG
192 ATAGTTTGTCATTTTGTAAAAAAG
* * *
17293 TTTTGGGCTTTGAATTAAAAACTTATTGACATGAGAATTGTTTCTCTCTTGGTTC
1 TTTTGGTCTTTAAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTC
17348 TCAGACGTGA
Statistics
Matches: 413, Mismatches: 67, Indels: 14
0.84 0.14 0.03
Matches are distributed among these distances:
214 4 0.01
215 111 0.27
216 278 0.67
217 20 0.05
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (215 bp):
TTTTGGTCTTTAAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCATGGACGAAC
TTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTTGGTCCCTTAAAGTATTCAAGACGA
TCCATTCTTCGAGCAATTTTCTGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAG
TTTGTCATTTTGTAAAAAAG
Found at i:19268 original size:16 final size:17
Alignment explanation
Indices: 19234--19269 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
19224 AAAGAGTGGT
*
19234 AAAAGGCAAGAGTTGCG
1 AAAAGGCAAGAGATGCG
19251 AAAAGGCAAGA-ATGCG
1 AAAAGGCAAGAGATGCG
19267 AAA
1 AAA
19270 GAGCATTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.50, C:0.11, G:0.31, T:0.08
Consensus pattern (17 bp):
AAAAGGCAAGAGATGCG
Found at i:19951 original size:15 final size:16
Alignment explanation
Indices: 19926--19972 Score: 60
Period size: 15 Copynumber: 2.9 Consensus size: 16
19916 AAATAGAGAG
*
19926 AAGAAAAAAAGAAATT
1 AAGAGAAAAAGAAATT
19942 -AGAGAAAAAGAAATT
1 AAGAGAAAAAGAAATT
19957 GAAAGAGAAAAAGAAA
1 --AAGAGAAAAAGAAA
19973 AAGAACTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 14 0.52
18 13 0.48
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.09
Consensus pattern (16 bp):
AAGAGAAAAAGAAATT
Found at i:19976 original size:24 final size:22
Alignment explanation
Indices: 19944--19998 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 22
19934 AAGAAATTAG
19944 AGAAAAAGAAATTGAAAGAGAAAA
1 AGAAAAAGAAATT--AAGAGAAAA
*
19968 AGAAAAAGAACTTAAGAGAAAA
1 AGAAAAAGAAATTAAGAGAAAA
*
19990 A-AAAGAGAA
1 AGAAAAAGAA
19999 GAGTTGTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 7 0.24
22 10 0.34
24 12 0.41
ACGTcount: A:0.71, C:0.02, G:0.20, T:0.07
Consensus pattern (22 bp):
AGAAAAAGAAATTAAGAGAAAA
Found at i:20001 original size:38 final size:37
Alignment explanation
Indices: 19911--19990 Score: 99
Period size: 39 Copynumber: 2.1 Consensus size: 37
19901 AGCATAAAAT
* *
19911 AAAAGAAAT-AGAGAGAAGAAAAAAAGAAATTAGAGA
1 AAAAGAAATGAAAGAGAAAAAAAAAAGAAATTAGAGA
*
19947 AAAAGAAATTGAAAGAGAAAAAGAAAAAGAACTTAAGAGA
1 AAAAGAAA-TGAAAGAGAAAAA-AAAAAGAAATT-AGAGA
19987 AAAA
1 AAAA
19991 AAAGAGAAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 8 0.22
37 1 0.03
38 9 0.24
39 10 0.27
40 9 0.24
ACGTcount: A:0.70, C:0.01, G:0.20, T:0.09
Consensus pattern (37 bp):
AAAAGAAATGAAAGAGAAAAAAAAAAGAAATTAGAGA
Found at i:22616 original size:18 final size:18
Alignment explanation
Indices: 22567--22617 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
22557 CATGCATTCT
* *
22567 ATGCATTTCATACAACTT
1 ATGCATTTCATGCAACTC
* *
22585 GTGCATTTCTTGCAACTC
1 ATGCATTTCATGCAACTC
*
22603 ATGCATTCCATGCAA
1 ATGCATTTCATGCAA
22618 TGTGCTGCAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.35
Consensus pattern (18 bp):
ATGCATTTCATGCAACTC
Found at i:27456 original size:19 final size:19
Alignment explanation
Indices: 27434--27470 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
27424 TCAAAAAGTC
27434 GAGAAAAA-AAGAAAAATAT
1 GAGAAAAATAA-AAAAATAT
27453 GAGAAAAATAAAAAAATA
1 GAGAAAAATAAAAAAATA
27471 AAAAAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.11
Consensus pattern (19 bp):
GAGAAAAATAAAAAAATAT
Done.