Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01002824.1 Kokia drynarioides strain JFW-HI SEQ_115181, 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: 3520
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Found at i:391 original size:215 final size:216
Alignment explanation
Indices: 5--453 Score: 528
Period size: 215 Copynumber: 2.1 Consensus size: 216
1 AAAG
* ** * *
5 TTCGTCCAAGAACCAAGAGAGACACAATTCTCACGTAAATAAGTTTCTAATTGAAAGATCAAAAC
1 TTCGTCCAAGAACCAAGAGAGAAACAATTCTCACAAAAATAAGTTTCTAATTCAAAGACCAAAAC
* ** * *
70 TTGTTTGCAAAATGAAAAACTATTTAGACCAAATGATGTGATTTCGCTCGCATGGAATGTTCGAA
66 TAGTTTGCAAAATGAAAAACTATTTAGACCAAATGATACGACTTCGCTAGCATGGAATGTTCGAA
* * *
135 AAATTACTCGAAGGAATGGATTATCTTGAACACTTTAAGGAACCAG-ATTTAAAAAAGAACTCGT
131 AAATTACTCGAAGGAATAGATCATCTTGAACACTTTAAGGAA-CAGAAGTTAAAAAAGAACTCGT
* *
199 AAAAGTTTGACAAGTTTGGAAA
195 AAAAGTTTGAAAAGTTCGGAAA
* * * * * * *
221 TTTGTCCAACAACAAAGAGAGAAACAATTGTCGCAAAAATAAGTTTTTAATTCAAAGGCCAAAAC
1 TTCGTCCAAGAACCAAGAGAGAAACAATTCTCACAAAAATAAGTTTCTAATTCAAAGACCAAAAC
* * * *
286 TAGTTTTC-AAATGACAAACCT-TTTAGACCAAATGCTACGACTTC-CTGAGCATGTAATGTTCG
66 TAGTTTGCAAAATGA-AAAACTATTTAGACCAAATGATACGACTTCGCT-AGCATGGAATGTTCG
* * * * * * **
348 AAAAATTGCTTGAAGGATTAGATCGTCTTGAATACTTTAAGGAACTGAAGTTGTAAAAGAACTCG
129 AAAAATTACTCGAAGGAATAGATCATCTTGAACACTTTAAGGAACAGAAGTTAAAAAAGAACTCG
*
413 TAAAAGTTTGAAAAGTTCGGAAG
194 TAAAAGTTTGAAAAGTTCGGAAA
436 TTCGTCCAAGAACCAAGA
1 TTCGTCCAAGAACCAAGA
454 TCAAAATATG
Statistics
Matches: 192, Mismatches: 38, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
214 4 0.02
215 124 0.65
216 64 0.33
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (216 bp):
TTCGTCCAAGAACCAAGAGAGAAACAATTCTCACAAAAATAAGTTTCTAATTCAAAGACCAAAAC
TAGTTTGCAAAATGAAAAACTATTTAGACCAAATGATACGACTTCGCTAGCATGGAATGTTCGAA
AAATTACTCGAAGGAATAGATCATCTTGAACACTTTAAGGAACAGAAGTTAAAAAAGAACTCGTA
AAAGTTTGAAAAGTTCGGAAA
Found at i:968 original size:216 final size:214
Alignment explanation
Indices: 462--1923 Score: 1409
Period size: 216 Copynumber: 6.8 Consensus size: 214
452 GATCAAAATA
* * * *
462 TGTTTACAAAATGAAAAACTATTTAGACCAAATGATGTGATTTCTCTCA-CATGGAATGTTTTG-
1 TGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCT-AGCATGAAATG-TTCGA
* * * *
525 AAAATTACTCGAAGGAATTGATCGTTTAGAACACTTTAAGGAACCAA-ATTTAAGAAAGAACTTG
64 AAAATTACTCGAAGGAATGGATCGCTT-GAATACTTTAAGGAACCAAGATTT-A-AAAGAACTCG
**
589 TAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACC-A-AGAGAAACAATTCTCATATAAATAA
126 TAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAATTCTCACGTAAATAA
*
652 GTTTTTAATTCAAAGGCCAAAACT
191 GTTTTCAATTCAAAGGCCAAAACT
* * * *
676 TGTTTACAAAATGACAAAA-T-TGTTAGATCAAATGATGCAACTTCCCAAGCATGAAATGTTC-A
1 TGTTTACAAAATGA-AAAACTAT-TTAGACCAAATGATGCGATTTCCCTAGCATGAAATGTTCGA
* * *
738 GAAAATTGCTCGAAGGACTGGATCAGCTTGAATACTTTAAGGAACCTAAGCTTTAAAAGAACTCG
64 -AAAATTACTCGAAGGAATGGATC-GCTTGAATACTTTAAGGAACC-AAGATTTAAAAGAACTCG
* * *** * * *
803 TAAAAGTTTGACAAGTTTGAAAGTTTACCCAAGAACCAAGAGAGATAGAATTCTCACGTAAATAA
126 TAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAATTCTCACGTAAATAA
* **
868 GTTTTCAATTGAAAGATCAAAACT
191 GTTTTCAATTCAAAGGCCAAAACT
* *
892 TGTTTACAAAAT-AAAAATCTATTTAGACCAAATGATGTGATTTCCCTCGCATGAAATGTTCGAA
1 TGTTTACAAAATGAAAAA-CTATTTAGACCAAATGATGCGATTTCCCTAGCATGAAATGTTCGAA
* * *
956 AAATTACTCGAAGGAATGGATCGTTTTGAACACTTTAAGGAA--TAGAATTTAAGAAAGAACTCG
65 AAATTACTCGAAGGAATGGATCG-CTTGAATACTTTAAGGAACCAAG-ATTT-A-AAAGAACTCG
* * * ** * * *
1019 TAAAAGTTTTACAAGTTCGGAAGCTCCTCTGACAACCGAGAAAGAAACAATTCTCATGTAAATAA
126 TAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAATTCTCACGTAAATAA
* *
1084 GTTTTTAATTCAAAGGCCAAGACT
191 GTTTTCAATTCAAAGGCCAAAACT
* * * * * * ** *
1108 TGTTTACAAATTAAAAAACTATTTTGACCAGATGATGCGATTACCCGAGTGTGTAATGTTCGAAA
1 TGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTAGCATGAAATGTTCGAAA
* * * * *
1173 AATTACTCGAACGATTGGATCATCTTGATTACTTTAAGGAACAGAAG-TTATAAAAGAACTCGTA
66 AATTACTCGAAGGAATGGATC-GCTTGAATACTTTAAGGAAC-CAAGATT-TAAAAGAACTCGTA
* * * * * * * * *
1237 AATGTTCGACAAGTTTGGAAGTTCGTCTAAGAACCAAGAGAGACATAATTTTCACGTAAATAAAT
128 AAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAATTCTCACGTAAATAAGT
* * * * ** *
1302 TGTCCATTTAATGATCAGAACT
193 TTTCAATTCAAAGGCCAAAACT
* * *
1324 TGTTTACAAAATGAAAAACTATTTAGACTAAATGATGCGATTTCCCTCGCATGAAATGTTTGAAA
1 TGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTAGCATGAAATGTTCGAAA
** * * *
1389 AATTACTCGAAGGAATGGATTATCTTGAACATTTTAAGGAACC-GGATTTAAAAAAGAACTCGTA
66 AATTACTCGAAGGAATGGA-TCGCTTGAATACTTTAAGGAACCAAGATTT--AAAAGAACTCGTA
* * * ** *
1453 ATAGTTTGACAAGTTTGGAAGTTTGTCCAACAACCAAGAGAGAAACAATTCTCATATAAATATGT
128 AAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAATTCTCACGTAAATAAGT
*
1518 TTACAATTCAAAGGCCAAAACT
193 TTTCAATTCAAAGGCCAAAACT
* * * *
1540 TGTTTACAAAATGACAAAA-T-TGTTAGATCAAATGATGCAACTT-CCTAAGCATGTAATGTTC-
1 TGTTTACAAAATGA-AAAACTAT-TTAGACCAAATGATGCGATTTCCCT-AGCATGAAATGTTCG
* * * ** * *
1601 AGAAAATTGCTCAAAGGATTATATCGGCTTGAATACTTTAAGGAACCGAA-TTTATAAAACAACT
63 A-AAAATTACTCGAAGGAATGGATC-GCTTGAATACTTTAAGGAACC-AAGATT-TAAAAGAACT
* * * *
1665 CGTTAAAGTTTGACAACTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAATTGTCACGTAAAC
124 CGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAATTCTCACGTAAAT
*
1730 AAGTTTTTAATTCAAAGGCCAAAACT
189 AAGTTTTCAATTCAAAGGCCAAAACT
* * * ** * *
1756 TGTTTTCAAAATGATAAACTTTTTTTACCAAATGATGCGACTT-CCTGAGCATGTAATGTTCGAA
1 TGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCT-AGCATGAAATGTTCGAA
* * * * *
1820 AAACTACTTC-AAGGATTGGATCGTCTTGAATACTTTAAGGAACCAA-ATCTTTAGATGACCTCG
65 AAATTAC-TCGAAGGAATGGATCG-CTTGAATACTTTAAGGAACCAAGA--TTTAAAAGAACTCG
* *
1883 TAAAAGTTTGAAAAGTTCGGAAGTTCGTCCAAGAACCAAGA
126 TAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAAGA
1924 TCAAAACATT
Statistics
Matches: 1011, Mismatches: 194, Indels: 84
0.78 0.15 0.07
Matches are distributed among these distances:
213 6 0.01
214 127 0.13
215 28 0.03
216 823 0.81
217 23 0.02
218 2 0.00
219 2 0.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (214 bp):
TGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTAGCATGAAATGTTCGAAA
AATTACTCGAAGGAATGGATCGCTTGAATACTTTAAGGAACCAAGATTTAAAAGAACTCGTAAAA
GTTTGACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
CAATTCAAAGGCCAAAACT
Found at i:1277 original size:432 final size:430
Alignment explanation
Indices: 450--1920 Score: 1800
Period size: 432 Copynumber: 3.4 Consensus size: 430
440 TCCAAGAACC
* * *
450 AAGATCAAAA-TATGTTTACAAAATGAAAAACTATTTAGACCAAATGATGTGATTTCTCTCACAT
1 AAGATCAAAACT-TGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCAT
* * *
514 GGAATGTTTTG-AAAATTACTCGAAGGAATTGATCGT-TTAGAACACTTTAAGGAACCAAATTTA
65 GAAATG-TTCGAAAAATTACTCGAAGGAATGGATCGTCTT-GAACACTTTAAGGAACCAAATTTA
*
577 AGAAAGAACTTGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCA-AGAGAAACAATTCT
128 AGAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAGAGAGAAACAATTCT
641 CATATAAATAAGTTTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAAATTGTTAGATCA
193 CATATAAATAAGTTTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAAATTGTTAGATCA
* *
706 AATGATGCAACTTCCCAAGCATGAAATGTTCAGAAAATTGCTCGAAGGACTGGATCAGCTTGAAT
258 AATGATGCAACTTCCCAAGCATGTAATGTTCAGAAAATTGCTCGAAGGATTGGATCAGCTTGAAT
* * ***
771 ACTTTAAGGAACCTAAGCTT-TAAAAGAACTCGTAAAAGTTTGACAAGTTTGAAAGTTTACCCAA
323 ACTTTAAGGAACCGAAG-TTATAAAAGAACTCGT-AAAGTTTGACAAGTTTGGAAGTTCGTCCAA
* * *
835 GAACCAAGAGAGATAGAATTCTCACGTAAATAAGTTTTCAATTGA
386 GAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTCAATTCA
*
880 AAGATCAAAACTTGTTTACAAAAT-AAAAATCTATTTAGACCAAATGATGTGATTTCCCTCGCAT
1 AAGATCAAAACTTGTTTACAAAATGAAAAA-CTATTTAGACCAAATGATGCGATTTCCCTCGCAT
* *
944 GAAATGTTCGAAAAATTACTCGAAGGAATGGATCGTTTTGAACACTTTAAGGAA-TAGAATTTAA
65 GAAATGTTCGAAAAATTACTCGAAGGAATGGATCGTCTTGAACACTTTAAGGAACCA-AATTTAA
* * * ** *
1008 GAAAGAACTCGTAAAAGTTTTACAAGTTCGGAAGCTCCTCTGACAACCGAGAAAGAAACAATTCT
129 GAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACC-AGAGAGAAACAATTCT
* * * * * *
1073 CATGTAAATAAGTTTTTAATTCAAAGGCCAAGACTTGTTTAC-AAATTAAAAAACTAT-TTTGAC
193 CATATAAATAAGTTTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAAA-T-TGTTAGAT
* * * ** * * *
1136 CAGATGATGCGA-TTACCCGAGTGTGTAATGTTC-GAAAAATTACTCGAACGATTGGATCATCTT
256 CAAATGATGCAACTT-CCCAAGCATGTAATGTTCAG-AAAATTGCTCGAAGGATTGGATCAGCTT
* * *
1199 GATTACTTTAAGGAACAGAAGTTATAAAAGAACTCGTAAATGTTCGACAAGTTTGGAAGTTCGTC
319 GAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAA-GTTTGACAAGTTTGGAAGTTCGTC
* * * * * * * *
1264 TAAGAACCAAGAGAGACATAATTTTCACGTAAATAAATTGTCCATTTA
383 CAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTCAATTCA
* * *
1312 ATGATCAGAACTTGTTTACAAAATGAAAAACTATTTAGACTAAATGATGCGATTTCCCTCGCATG
1 AAGATCAAAACTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATG
* ** * ** *
1377 AAATGTTTGAAAAATTACTCGAAGGAATGGATTATCTTGAACATTTTAAGGAACCGGATTTAAAA
66 AAATGTTCGAAAAATTACTCGAAGGAATGGATCGTCTTGAACACTTTAAGGAACCAAATTTAAGA
* * *
1442 AAGAACTCGTAATAGTTTGACAAGTTTGGAAGTTTGTCCAACAACCAAGAGAGAAACAATTCTCA
131 AAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACC-AGAGAGAAACAATTCTCA
* **
1507 TATAAATATGTTTACAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAAATTGTTAGATCAAA
195 TATAAATAAGTTTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAAATTGTTAGATCAAA
* * ** *
1572 TGATGCAACTTCCTAAGCATGTAATGTTCAGAAAATTGCTCAAAGGATTATATCGGCTTGAATAC
260 TGATGCAACTTCCCAAGCATGTAATGTTCAGAAAATTGCTCGAAGGATTGGATCAGCTTGAATAC
* * * * *
1637 TTTAAGGAACCGAATTTATAAAACAACTCGTTAAAGTTTGACAACTTCGGAAGTTCGTCCAACAA
325 TTTAAGGAACCGAAGTTATAAAAGAACTCG-TAAAGTTTGACAAGTTTGGAAGTTCGTCCAAGAA
* * *
1702 CCAAGAGAGAAACAATTGTCACGTAAACAAGTTTTTAATTCA
389 CCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTCAATTCA
** * * * ** * *
1744 AAGGCCAAAACTTGTTTTCAAAATGATAAACTTTTTTTACCAAATGATGCGACTT-CCTGAGCAT
1 AAGATCAAAACTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCT-CGCAT
* * * * *
1808 GTAATGTTCGAAAAACTACTTC-AAGGATTGGATCGTCTTGAATACTTTAAGGAACCAAATCTTT
65 GAAATGTTCGAAAAATTAC-TCGAAGGAATGGATCGTCTTGAACACTTTAAGGAACCAAAT-TTA
* * * *
1872 AG-ATGACCTCGTAAAAGTTTGAAAAGTTCGGAAGTTCGTCCAAGAACCA
128 AGAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCA
1921 AGATCAAAAC
Statistics
Matches: 879, Mismatches: 139, Indels: 45
0.83 0.13 0.04
Matches are distributed among these distances:
429 9 0.01
430 147 0.17
431 26 0.03
432 670 0.76
433 27 0.03
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (430 bp):
AAGATCAAAACTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATG
AAATGTTCGAAAAATTACTCGAAGGAATGGATCGTCTTGAACACTTTAAGGAACCAAATTTAAGA
AAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAGAGAGAAACAATTCTCAT
ATAAATAAGTTTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAAATTGTTAGATCAAAT
GATGCAACTTCCCAAGCATGTAATGTTCAGAAAATTGCTCGAAGGATTGGATCAGCTTGAATACT
TTAAGGAACCGAAGTTATAAAAGAACTCGTAAAGTTTGACAAGTTTGGAAGTTCGTCCAAGAACC
AAGAGAGAAACAATTCTCACGTAAATAAGTTTTCAATTCA
Found at i:1715 original size:648 final size:644
Alignment explanation
Indices: 462--1923 Score: 1587
Period size: 648 Copynumber: 2.3 Consensus size: 644
452 GATCAAAATA
* * * * * *
462 TGTTTACAAAATGAAAAACTATTTAGACCAAATGATGTGATTTCTCTC-A-CATGGAATGTTTTG
1 TGTTTACAAAATAAAAAACTATTTTGACCAAATGATGCGACTTC-C-CGAGCATGTAATG-TTCG
* * * *
525 -AAAATTAC-TCGAAGGAATT-GATCGT-TTAGAACACTTTAAGGAACCAAATT-TAAGAAAGAA
63 AAAAACTACTTC-AACG-ATTGGATCATCTT-GAATACTTTAAGGAACCAAATTAT-A-AAAGAA
* * *
585 CTTGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAAACAATTCTCATATAAAT
123 CTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAAACAATTCTCACATAAAT
* * * *
650 AAGTTTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAAATTGTTAGATCAAATGATGCA
188 AAATTGTCAATTCAAAGACCAAAACTTGTTTACAAAATGACAAAATTGTTAGATCAAATGATGCA
* * *
715 ACTTCCCAAGCATGAAATGTTCAGAAAATTGCTCGAAGGACTGGATCAGCTTGAATACTTTAAGG
253 ACTTCCCAAGCATGAAATGTTCAGAAAATTACTCGAAGGAATGGATCAGCTTGAACACTTTAAGG
* *
780 AACCTAAGCTTTAAAAGAACTCGTAAAAGTTTGACAAGTTTGAAAGTTTACCCAAGAACCAAGAG
318 AACC-AAGATTTAAAAGAACTCGTAAAAGTTTGACAAGTTTGAAAGTTTACCCAACAACCAAGAG
* * * * * *
845 AGATAGAATTCTCACGTAAATAAGTTTTCAATTGAAAGATCAAAACTTGTTTACAAAATAAAAAT
382 AGAAACAATTCTCACATAAATAAGTTTACAATTCAAAGACCAAAACTTGTTTACAAAATAAAAAT
* ** * * * *
910 CTATTTAGACCAAATGATGTGATTTCCCTCGCATGAAATGTTCGAAAAATTACTCGAAGGAATGG
447 CTAGTTAGACCAAATGATGCAACTTCCCTAGCATGAAATGTTCGAAAAATTACTCAAAGGAATAG
** * * * *
975 ATCGTTTTGAACACTTTAAGGAATAGAATTTAAGAAAGAACTCGTAAAAGTTTTACAAGTTCGGA
512 ATCGGCTTGAACACTTTAAGGAACAGAATTTAAGAAACAACTCGTAAAAGTTTGACAACTTCGGA
** * * * *
1040 AGCTCCTCTGACAACCGAGAAAGAAACAATTCTCATGTAAATAAGTTTTTAATTCAAAGGCCAAG
577 AGCTCCTCCAACAACCAAGAAAGAAACAATTCTCACGTAAACAAGTTTTTAATTCAAAGGCCAAA
1105 ACT
642 ACT
* * **
1108 TGTTTACAAATTAAAAAACTATTTTGACCAGATGATGCGA-TTACCCGAGTGTGTAATGTTCGAA
1 TGTTTACAAAATAAAAAACTATTTTGACCAAATGATGCGACTT-CCCGAGCATGTAATGTTCGAA
* *
1172 AAATTAC-TCGAACGATTGGATCATCTTGATTACTTTAAGGAA-CAGAAGTTATAAAAGAACTCG
65 AAACTACTTC-AACGATTGGATCATCTTGAATACTTTAAGGAACCA-AA-TTATAAAAGAACTCG
* * * * * * *
1235 TAAATGTTCGACAAGTTTGGAAGTTCGTCTAAGAACCAAGAGAGACATAATTTTCACGTAAATAA
127 TAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGA-A-ACAATTCTCACATAAATAA
* * * * *
1300 ATTGTCCATTTAATGATCAGAACTTGTTTACAAAATGA-AAAACTAT-TTAGA-CTAAATGATGC
190 ATTGTCAATTCAAAGACCAAAACTTGTTTACAAAATGACAAAA-T-TGTTAGATC-AAATGATGC
* * ** * * * *
1362 GATTTCCCTCGCATGAAATGTT-TGAAAAATTACTCGAAGGAATGGATTATCTTGAACATTTTAA
252 AACTTCCCAAGCATGAAATGTTCAG-AAAATTACTCGAAGGAATGGATCAGCTTGAACACTTTAA
* * * **
1426 GGAACC-GGATTTAAAAAAGAACTCGTAATAGTTTGACAAGTTTGGAAGTTTGTCCAACAACCAA
316 GGAACCAAGATTT--AAAAGAACTCGTAAAAGTTTGACAAGTTTGAAAGTTTACCCAACAACCAA
* * *
1490 GAGAGAAACAATTCTCATATAAATATGTTTACAATTCAAAGGCCAAAACTTGTTTACAAAATGAC
379 GAGAGAAACAATTCTCACATAAATAAGTTTACAATTCAAAGACCAAAACTTGTTTACAAAAT-A-
* * *
1555 AAAAT-T-GTTAGATCAAATGATGCAACTT-CCTAAGCATGTAATGTTC-AGAAAATTGCTCAAA
442 AAAATCTAGTTAGACCAAATGATGCAACTTCCCT-AGCATGAAATGTTCGA-AAAATTACTCAAA
* * * * *
1616 GGATTATATCGGCTTGAATACTTTAAGGAACCGAATTTATA-AAACAACTCGTTAAAGTTTGACA
505 GGAATAGATCGGCTTGAACACTTTAAGGAACAGAATTTA-AGAAACAACTCGTAAAAGTTTGACA
* * * *
1680 ACTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAATTGTCACGTAAACAAGTTTTTAATTCAA
569 ACTTCGGAAGCTCCTCCAACAACCAAGAAAGAAACAATTCTCACGTAAACAAGTTTTTAATTCAA
1745 AGGCCAAAACT
634 AGGCCAAAACT
* * * * * *
1756 TGTTTTCAAAATGATAAACTTTTTTTACCAAATGATGCGACTTCCTGAGCATGTAATGTTCGAAA
1 TGTTTACAAAATAAAAAACTATTTTGACCAAATGATGCGACTTCCCGAGCATGTAATGTTCGAAA
* * * * * *
1821 AACTACTTCAAGGATTGGATCGTCTTGAATACTTTAAGGAACCAAATCTTTAGATGACCTCGTAA
66 AACTACTTCAACGATTGGATCATCTTGAATACTTTAAGGAACCAAAT-TATAAAAGAACTCGTAA
*
1886 AAGTTTGAAAAGTTCGGAAGTTCGTCCAAGAACCAAGA
130 AAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGA
1924 TCAAAACATT
Statistics
Matches: 677, Mismatches: 113, Indels: 50
0.81 0.13 0.06
Matches are distributed among these distances:
644 1 0.00
645 12 0.02
646 127 0.19
647 17 0.03
648 505 0.75
649 10 0.01
650 5 0.01
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (644 bp):
TGTTTACAAAATAAAAAACTATTTTGACCAAATGATGCGACTTCCCGAGCATGTAATGTTCGAAA
AACTACTTCAACGATTGGATCATCTTGAATACTTTAAGGAACCAAATTATAAAAGAACTCGTAAA
AGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAAACAATTCTCACATAAATAAATTGTC
AATTCAAAGACCAAAACTTGTTTACAAAATGACAAAATTGTTAGATCAAATGATGCAACTTCCCA
AGCATGAAATGTTCAGAAAATTACTCGAAGGAATGGATCAGCTTGAACACTTTAAGGAACCAAGA
TTTAAAAGAACTCGTAAAAGTTTGACAAGTTTGAAAGTTTACCCAACAACCAAGAGAGAAACAAT
TCTCACATAAATAAGTTTACAATTCAAAGACCAAAACTTGTTTACAAAATAAAAATCTAGTTAGA
CCAAATGATGCAACTTCCCTAGCATGAAATGTTCGAAAAATTACTCAAAGGAATAGATCGGCTTG
AACACTTTAAGGAACAGAATTTAAGAAACAACTCGTAAAAGTTTGACAACTTCGGAAGCTCCTCC
AACAACCAAGAAAGAAACAATTCTCACGTAAACAAGTTTTTAATTCAAAGGCCAAAACT
Found at i:1774 original size:20 final size:21
Alignment explanation
Indices: 1751--1791 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1741 TCAAAGGCCA
1751 AAACTTGTTTT-CAAAATGAT
1 AAACTTGTTTTACAAAATGAT
* *
1771 AAACTTTTTTTACCAAATGAT
1 AAACTTGTTTTACAAAATGAT
1792 GCGACTTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.41
Consensus pattern (21 bp):
AAACTTGTTTTACAAAATGAT
Found at i:2352 original size:217 final size:216
Alignment explanation
Indices: 1965--2952 Score: 1103
Period size: 216 Copynumber: 4.6 Consensus size: 216
1955 TAGATCGTCT
* * * * * *
1965 CATGGAATGTTCAGAAAATCACTTGAAGGAATGGATCGTTTTGAACACTTTAAGGAATAGAATTT
1 CATGTAATGTTCAGAAAATTACTCGAAGGATTGGATCGTCTTGAACACTTTAAGGAATCGAATTT
* * * * * * * * ** *
2030 AAAAAATAACCCATAAAAGTTTTACAAGTTCGAAAGCTCCTCTGACAACCGAGAGAGAAACAATT
66 ATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAATT
** * *
2095 CTCATGTAAATAAGTTTTTAATTCAAATG-CCAAGACTTGTTTACAAAATGACGAACTATTTAGA
131 CTCACATAAATAAGTTTTTAATTCAAA-GACCAAAACTTGTTTACAAAATGACAAACTATTTAGA
*
2159 CCAAATGGTTGCAACTTCCTAAG
195 CCAAAT-GATGCAACTTCCTAAG
* * * * * *
2182 CGTGTAATGTTCGGAAAATTACTCGAAGGATTGGATCATCTTGAATACTTTAAGGAATTGAAGTT
1 CATGTAATGTTCAGAAAATTACTCGAAGGATTGGATCGTCTTGAACACTTTAAGGAATCGAATTT
* * *
2247 ATAAAAGAACTCGTAAAAGTTCGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGACACAATT
66 ATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAATT
* * * * *
2312 CTCACGTAAATAAGTTTTTAATTGAAAGATCAAAACTTGTTCACAAAATGAAAAACTATTTAGAC
131 CTCACATAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGAC
* *
2377 CAAATGATGCAATTTCCCT-CG
196 CAAATGATGCAACTT-CCTAAG
* ** * * *
2398 CATGAAATGTTTTGAAAATTACTCGAAAGAATGGATCGTCTTGAACACTTTAAGGAA-CCATATT
1 CATGTAATGTTCAGAAAATTACTCGAAGGATTGGATCGTCTTGAACACTTTAAGGAATCGA-ATT
*
2462 TA-AGAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTTGTCCAACAACCAAGAGAGAAACAA
65 TATA-AAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAA
* * * * *
2526 TTTTCATATAAATAAGTTTTTAATTCCAAGGCCAAAACTTGTTTACAAAATGACAAAAT-TGTTA
129 TTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTAT-TTA
* * *
2590 GATCAAATGATGTAACTTCCCAAG
193 GACCAAATGATGCAACTTCCTAAG
* * ** * **
2614 CATGTAATGTTCAGAAAATTGCTCAAAGGATTATATCGGCTTGAATGCTTTAAGGAATCGAATTT
1 CATGTAATGTTCAGAAAATTACTCGAAGGATTGGATCGTCTTGAACACTTTAAGGAATCGAATTT
2679 ATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAGAGAAAC
66 ATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACC---A-AGAGAGAAAC
* * *
2744 AATTATCACATAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTTCAAAATGACAAACTTTTT
127 AATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTT
* * *
2809 ATACCAAATGATGCGACTTCCTGAG
192 AGACCAAATGATGCAACTTCCTAAG
** * * * *
2834 CACATAATGTTC-GAGAAATTGCATC-AAGGATTGGATCGTCTTGAAAACTTTAAAGAACCGAAT
1 CATGTAATGTTCAGA-AAATTAC-TCGAAGGATTGGATCGTCTTGAACACTTTAAGGAATCGAAT
* * * *
2897 CTT-TAAATGAACTCGTAAAAGTTTGA-AACATTCGGAAGTTTGTCCAAGAACCAAGA
64 -TTATAAAAGAACTCGTAAAAGTTTGACAA-GTTCGGAAGTTCGTCCAACAACCAAGA
2953 TCAAAACATG
Statistics
Matches: 650, Mismatches: 104, Indels: 35
0.82 0.13 0.04
Matches are distributed among these distances:
215 5 0.01
216 286 0.44
217 173 0.27
219 5 0.01
220 176 0.27
221 5 0.01
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.28
Consensus pattern (216 bp):
CATGTAATGTTCAGAAAATTACTCGAAGGATTGGATCGTCTTGAACACTTTAAGGAATCGAATTT
ATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAATT
CTCACATAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGAC
CAAATGATGCAACTTCCTAAG
Found at i:2435 original size:593 final size:592
Alignment explanation
Indices: 1387--2516 Score: 1487
Period size: 593 Copynumber: 1.9 Consensus size: 592
1377 AAATGTTTGA
* * * * * * *
1387 AAAATTACTCGAAGGAATGGATTATCTTGAACATTTTAAGGAACCGGATTTAAAAAAGAACTCGT
1 AAAATCACTCGAAGGAATGGATCATCTTGAACACTTTAAGGAACAGAATTTAAAAAAGAACCCAT
* * * * ** *
1452 AATAGTTTGACAAGTTTGGAAGTTTGTCCAACAACCAAGAGAGAAACAATTCTCATATAAATATG
66 AAAAGTTTGACAAGTTCGAAAGCTCCTCCAACAACCAAGAGAGAAACAATTCTCATATAAATAAG
*
1517 TTTACAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAAATTGTTAGATCAAATGATGCAACT
131 TTTACAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAAATTGTTAGACCAAATGATGCAACT
* * *
1582 TCCTAAGCATGTAATGTTCAGAAAATTGCTCAAAGGATTATATCGGCTTGAATACTTTAAGGAAC
196 TCCTAAGCATGTAATGTTCAGAAAATTACTCAAAGGATTAGATCAGCTTGAATACTTTAAGGAAC
* * *
1647 CGAATTTATAAAACAACTCGTTAAAGTTTGACAACTTCGGAAGTTCGTCCAACAACCAAGAGAGA
261 CGAAGTTATAAAACAACTCGTAAAAGTTCGACAACTTCGGAAGTTCGTCCAACAACCAAGAGAGA
* * ** * *
1712 AACAATTGTCACGTAAACAAGTTTTTAATTCAAAGGCCAAAACTTGTTTTCAAAATGATAAACTT
326 AACAATTCTCACGTAAACAAGTTTTTAATTCAAAGACCAAAACTTGTTCACAAAATGAAAAACTA
** * * * *
1777 TTTTTACCAAATGATGCGACTTCCTGAGCATGTAATGTTCGAAAAACTACTTCAAGGATTGGATC
391 TTTAGACCAAATGATGCAACTTCCTGAGCATGAAATGTTCGAAAAACTACTTCAAAGAATGGATC
* * * *
1842 GTCTTGAATACTTTAAGGAACCAAATCTTTAG-ATGACCTCGTAAAAGTTTGAAAAGTTCGGAAG
456 GTCTTGAACACTTTAAGGAACCAAAT-TTAAGAAAGAACTCGTAAAAGTTTGAAAAGTTCGGAAG
*
1906 TTCGTCCAAGAACCAAGATCAAAACATTTTTACAAAATGAAAAACTATTTAGATCGTCTCATGGA
520 TTCGTCCAACAACCAAGATCAAAACATTTTTACAAAATGAAAAACTATTTAGATCGTCTCATGGA
1971 ATGTTCAG
585 ATGTTCAG
* * * * *
1979 AAAATCACTTGAAGGAATGGATCGTTTTGAACACTTTAAGGAATAGAATTTAAAAAATAACCCAT
1 AAAATCACTCGAAGGAATGGATCATCTTGAACACTTTAAGGAACAGAATTTAAAAAAGAACCCAT
* ** * *
2044 AAAAGTTTTACAAGTTCGAAAGCTCCTCTGACAACCGAGAGAGAAACAATTCTCATGTAAATAAG
66 AAAAGTTTGACAAGTTCGAAAGCTCCTCCAACAACCAAGAGAGAAACAATTCTCATATAAATAAG
** * * * * *
2109 TTTTTAATTCAAATGCCAAGACTTGTTTACAAAATGACGAACTAT-TTAGACCAAATGGTTGCAA
131 TTTACAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAAAT-TGTTAGACCAAAT-GATGCAA
* * * * *
2173 CTTCCTAAGCGTGTAATGTTCGGAAAATTACTCGAAGGATTGGATCATCTTGAATACTTTAAGGA
194 CTTCCTAAGCATGTAATGTTCAGAAAATTACTCAAAGGATTAGATCAGCTTGAATACTTTAAGGA
** * * *
2238 ATTGAAGTTATAAAAGAACTCGTAAAAGTTCGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGA
259 ACCGAAGTTATAAAACAACTCGTAAAAGTTCGACAACTTCGGAAGTTCGTCCAACAACCAAGAGA
* * * *
2303 GACACAATTCTCACGTAAATAAGTTTTTAATTGAAAGATCAAAACTTGTTCACAAAATGAAAAAC
324 GAAACAATTCTCACGTAAACAAGTTTTTAATTCAAAGACCAAAACTTGTTCACAAAATGAAAAAC
* * * *
2368 TATTTAGACCAAATGATGCAATTTCCCT-CGCATGAAATGTTTTG-AAAATTAC-TCGAAAGAAT
389 TATTTAGACCAAATGATGCAACTT-CCTGAGCATGAAATG-TTCGAAAAACTACTTC-AAAGAAT
* *
2430 GGATCGTCTTGAACACTTTAAGGAACCATATTTAAGAAAGAACTCGTAAAAGTTTGACAAGTTCG
451 GGATCGTCTTGAACACTTTAAGGAACCAAATTTAAGAAAGAACTCGTAAAAGTTTGAAAAGTTCG
*
2495 GAAGTTTGTCCAACAACCAAGA
516 GAAGTTCGTCCAACAACCAAGA
2517 GAGAAACAAT
Statistics
Matches: 456, Mismatches: 76, Indels: 11
0.84 0.14 0.02
Matches are distributed among these distances:
592 159 0.35
593 291 0.64
594 6 0.01
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (592 bp):
AAAATCACTCGAAGGAATGGATCATCTTGAACACTTTAAGGAACAGAATTTAAAAAAGAACCCAT
AAAAGTTTGACAAGTTCGAAAGCTCCTCCAACAACCAAGAGAGAAACAATTCTCATATAAATAAG
TTTACAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAAATTGTTAGACCAAATGATGCAACT
TCCTAAGCATGTAATGTTCAGAAAATTACTCAAAGGATTAGATCAGCTTGAATACTTTAAGGAAC
CGAAGTTATAAAACAACTCGTAAAAGTTCGACAACTTCGGAAGTTCGTCCAACAACCAAGAGAGA
AACAATTCTCACGTAAACAAGTTTTTAATTCAAAGACCAAAACTTGTTCACAAAATGAAAAACTA
TTTAGACCAAATGATGCAACTTCCTGAGCATGAAATGTTCGAAAAACTACTTCAAAGAATGGATC
GTCTTGAACACTTTAAGGAACCAAATTTAAGAAAGAACTCGTAAAAGTTTGAAAAGTTCGGAAGT
TCGTCCAACAACCAAGATCAAAACATTTTTACAAAATGAAAAACTATTTAGATCGTCTCATGGAA
TGTTCAG
Found at i:2939 original size:436 final size:433
Alignment explanation
Indices: 2074--2952 Score: 1146
Period size: 436 Copynumber: 2.0 Consensus size: 433
2064 AGCTCCTCTG
* * * *
2074 ACAACCGAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAATTCAAATGCCAAGACTTGTTTAC
1 ACAACCAAGAGAGAAACAATTCTCATATAAATAAGTTTTTAATTCAAAGGCCAAAACTTGTTTAC
* * * * * *
2139 AAAATGACGAACTATTTAGACCAAATGGTTGCAACTTCCTAAGCGTGTAATGTTCGGAAAATTAC
66 AAAATGACAAAATATTTAGACCAAATGGATGCAACTTCCCAAGCATGTAATGTTCAGAAAATTAC
* * * *
2204 TCGAAGGATTGGATCATCTTGAATACTTTAAGGAATTGAAGTTATAAAAGAACTCGTAAAAGTTC
131 TCAAAGGATTAGATCAGCTTGAATACTTTAAGGAATCGAAGTTATAAAAGAACTCGTAAAAGTTC
* * * *
2269 GACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGACACAATTCTCACGTAAATAAGTTTTTAAT
196 GACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAATTATCACATAAATAAGTTTTTAAT
* * * *
2334 TGAAAGATCAAAACTTGTTCACAAAATGAAAAACTATTTAGACCAAATGATGCAATTTCCCTCGC
261 TCAAAGACCAAAACTTGTTCACAAAATGAAAAACTATTTAGACCAAATGATGCAACTTCCCTAGC
* * * *
2399 ATGAAATGTTTTGAAAATTACTCGAAAGAATGGATCGTCTTGAACACTTTAAGGAACCATATTTA
326 ATCAAATGTTTCGAAAATTACTCGAAAGAATGGATCGTCTTGAAAACTTTAAAGAACCATATTTA
*
2464 AGAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTTGTCCA
391 AGAAAGAACTCGTAAAAGTTTGACAAATTCGGAAGTTTGTCCA
* *
2507 ACAACCAAGAGAGAAACAATTTTCATATAAATAAGTTTTTAATTCCAAGGCCAAAACTTGTTTAC
1 ACAACCAAGAGAGAAACAATTCTCATATAAATAAGTTTTTAATTCAAAGGCCAAAACTTGTTTAC
* * *
2572 AAAATGACAAAAT-TGTTAGATCAAAT-GATGTAACTTCCCAAGCATGTAATGTTCAGAAAATTG
66 AAAATGACAAAATAT-TTAGACCAAATGGATGCAACTTCCCAAGCATGTAATGTTCAGAAAATTA
* * * *
2635 CTCAAAGGATTATATCGGCTTGAATGCTTTAAGGAATCGAATTTATAAAAGAACTCGTAAAAGTT
130 CTCAAAGGATTAGATCAGCTTGAATACTTTAAGGAATCGAAGTTATAAAAGAACTCGTAAAAGTT
*
2700 TGACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAGAGAAACAATTATCACATAAATAAGTTT
195 CGACAAGTTCGGAAGTTCGTCCAACAACC---A-AGAGAGAAACAATTATCACATAAATAAGTTT
** * * * *
2765 TTAATTCAAAGACCAAAACTTGTTTTCAAAATGACAAACTTTTTATACCAAATGATGCGACTT-C
256 TTAATTCAAAGACCAAAACTTGTTCACAAAATGAAAAACTATTTAGACCAAATGATGCAACTTCC
* * *
2829 CTGAGCA-CATAATG-TTCGAGAAATTGCATC-AAGGATTGGATCGTCTTGAAAACTTTAAAGAA
321 CT-AGCATCA-AATGTTTCGA-AAATTAC-TCGAAAGAATGGATCGTCTTGAAAACTTTAAAGAA
* *
2891 CCGA-ATCTTTA-AATGAACTCGTAAAAGTTTGA-AACATTCGGAAGTTTGTCCA
382 CC-ATAT-TTAAGAAAGAACTCGTAAAAGTTTGACAA-ATTCGGAAGTTTGTCCA
*
2943 AGAACCAAGA
1 ACAACCAAGA
2953 TCAAAACATG
Statistics
Matches: 385, Mismatches: 49, Indels: 21
0.85 0.11 0.05
Matches are distributed among these distances:
432 116 0.30
433 80 0.21
435 11 0.03
436 172 0.45
437 6 0.02
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.28
Consensus pattern (433 bp):
ACAACCAAGAGAGAAACAATTCTCATATAAATAAGTTTTTAATTCAAAGGCCAAAACTTGTTTAC
AAAATGACAAAATATTTAGACCAAATGGATGCAACTTCCCAAGCATGTAATGTTCAGAAAATTAC
TCAAAGGATTAGATCAGCTTGAATACTTTAAGGAATCGAAGTTATAAAAGAACTCGTAAAAGTTC
GACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAATTATCACATAAATAAGTTTTTAAT
TCAAAGACCAAAACTTGTTCACAAAATGAAAAACTATTTAGACCAAATGATGCAACTTCCCTAGC
ATCAAATGTTTCGAAAATTACTCGAAAGAATGGATCGTCTTGAAAACTTTAAAGAACCATATTTA
AGAAAGAACTCGTAAAAGTTTGACAAATTCGGAAGTTTGTCCA
Found at i:3090 original size:176 final size:176
Alignment explanation
Indices: 2773--3096 Score: 388
Period size: 176 Copynumber: 1.8 Consensus size: 176
2763 TTTTAATTCA
* * * * *
2773 AAGACCAAAACTTGTTTTCAAAATGACAAACTTTTTATACCAAATGATGCGACTTCCTGAGCACA
1 AAGACCAAAACATGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGACTTCCTGAGCACA
* * * *
2838 TAATGTTCGAGAAATTGCATCAAGGATTGGATCGTCTTGAAAACTTTAAAGAACCGAATCTTTAA
66 TAATGTTCGAGAAATTACATCAAGGAATGGATCGTCTTGAAAACTTTAAAGAACAGAATCTTAAA
*
2903 ATGAACTCGTAAAAGTTTGAAACATTCGGAAGTTTGTCCAAGAACC
131 AAGAACTCGTAAAAGTTTGAAACATTCGGAAGTTTGTCCAAGAACC
* * * * *
2949 AAGATCAAAACATGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTTC-G-TCGCA
1 AAGACCAAAACATGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGACTTCCTGAGCACA
* * * *
3012 TGGAATGTTC-AGAAAATTAC-TCGAAGGAATGGATCGTTTTGAACACTTTAAGGAATAGAAT-T
66 T--AATGTTCGAG-AAATTACATC-AAGGAATGGATCGTCTTGAAAACTTTAAAGAACAGAATCT
*
3074 TAAAAAAGATCTCGTAAAAGTTT
127 T-AAAAAGAACTCGTAAAAGTTT
3097 TACAAGTTCA
Statistics
Matches: 123, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
174 4 0.03
175 7 0.06
176 112 0.91
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (176 bp):
AAGACCAAAACATGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGACTTCCTGAGCACA
TAATGTTCGAGAAATTACATCAAGGAATGGATCGTCTTGAAAACTTTAAAGAACAGAATCTTAAA
AAGAACTCGTAAAAGTTTGAAACATTCGGAAGTTTGTCCAAGAACC
Found at i:3303 original size:392 final size:394
Alignment explanation
Indices: 2613--3344 Score: 974
Period size: 392 Copynumber: 1.9 Consensus size: 394
2603 AACTTCCCAA
* * * * ** *
2613 GCATGTAATGTTCAGAAAATTGCTCAAAGGATTATATCGGCTTGAATGCTTTAAGGAATCGAATT
1 GCATGGAATGTTCAGAAAATTACTCAAAGGAATAGATCGGCTTGAACACTTTAAGGAATAGAATT
* * * *
2678 TATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAACAACCAAGAGAGAGAGAAA
66 TAAAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGCTCCTCCAACAACC-A-AGAGAGAGAAA
* * * *
2743 CAATTATCACATAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTTCAAAATGACAAACTTTT
129 CAATTATCACATAAATAAATTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAAATTAT
* * **
2808 TATACCAAATGATGCGACTTCCTGAGCACATAATGTTCGAGAAATTGCATCAAGGATTGGATCGT
194 TAGACCAAATGATGCAACTTCCCAAGCACATAATGTTCGAGAAATTGCATCAAGGATTGGATCGT
* * *
2873 CTTGAAAACTTTAAAGAACCGAATCTTTAAATGAACTCGTAAAAGTTTGA-AACATTCGGAAGTT
259 CTTGAAAACTTTAAAGAACCGAATCTTAAAAAGAACTCGTAAAAGTTTGACAA-ATTCAGAAGTT
* *
2937 TGTCCAAGAACCAAGATCAAAACATGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGAT
323 CGTCCAACAACCAAGATCAAAACATGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGAT
3002 TTTCGTC
388 TTTCGTC
* * **
3009 GCATGGAATGTTCAGAAAATTACTCGAAGGAATGGATCGTTTTGAACACTTTAAGGAATAGAATT
1 GCATGGAATGTTCAGAAAATTACTCAAAGGAATAGATCGGCTTGAACACTTTAAGGAATAGAATT
* * * *
3074 TAAAAAAGATCTCGTAAAAGTTTTACAAGTTCAGAAGCTCCTCCGACAA-C-TGAGAGAGAAACA
66 TAAAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGCTCCTCCAACAACCAAGAGAGAGAAACA
* ** *
3137 ATTCTCATGTAAATAAATTTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAAATTATTA
131 ATTATCACATAAATAAATTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAAATTATTA
* **
3202 GATCAAATGATGCAACTTCCCAAGCATGTAATGTTC-AGAAAATTGC-TCGAAGGATTGGATCGT
196 GACCAAATGATGCAACTTCCCAAGCACATAATGTTCGAG-AAATTGCATC-AAGGATTGGATCGT
* * *
3265 CTTGAATACTTTAAGGAACC-AGAT-TTAAGAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGT
259 CTTGAAAACTTTAAAGAACCGA-ATCTTAA-AAAGAACTCGTAAAAGTTTGACAAATTCAGAAGT
3328 TCGTCCAACAACCAAGA
322 TCGTCCAACAACCAAGA
3345 GAGAAACAAT
Statistics
Matches: 289, Mismatches: 42, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
391 8 0.03
392 182 0.63
393 2 0.01
395 1 0.00
396 96 0.33
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.28
Consensus pattern (394 bp):
GCATGGAATGTTCAGAAAATTACTCAAAGGAATAGATCGGCTTGAACACTTTAAGGAATAGAATT
TAAAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGCTCCTCCAACAACCAAGAGAGAGAAACA
ATTATCACATAAATAAATTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAAATTATTA
GACCAAATGATGCAACTTCCCAAGCACATAATGTTCGAGAAATTGCATCAAGGATTGGATCGTCT
TGAAAACTTTAAAGAACCGAATCTTAAAAAGAACTCGTAAAAGTTTGACAAATTCAGAAGTTCGT
CCAACAACCAAGATCAAAACATGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTT
CGTC
Found at i:3348 original size:216 final size:217
Alignment explanation
Indices: 2954--3501 Score: 832
Period size: 216 Copynumber: 2.5 Consensus size: 217
2944 GAACCAAGAT
* * * * * *** *
2954 CAAAACATGTTTACAAAATGA-AAAACTATTTAGACCAAATGATGCGATTTTCGTCGCATGGAAT
1 CAAAACTTGTTTACAAAATGACAAAATTA-TTAGATCAAATGATGCAACTTTCCAAGCATGTAAT
* * * * *
3018 GTTCAGAAAATTACTCGAAGGAATGGATCGTTTTGAACACTTTAAGGAA-TAGAATTTAAAAAAG
65 GTTCAGAAAATTGCTCGAAGGATTGGATCGTCTTGAATACTTTAAGGAACCAGAATTTAAAAAAG
* * * ** *
3082 ATCTCGTAAAAGTTTTACAAGTTCAGAAGCTCCTCCGACAACTGAGAGAGAAACAATTCTCATGT
130 AACTCGTAAAAGTTTGACAAGTTCAGAAGCTCCTCCAACAACCAAGAGAGAAACAATTCTCATAT
3147 AAATAAATTTTTAATTCAAAGGC
195 AAATAAATTTTTAATTCAAAGGC
*
3170 CAAAACTTGTTTACAAAATGACAAAATTATTAGATCAAATGATGCAACTTCCCAAGCATGTAATG
1 CAAAACTTGTTTACAAAATGACAAAATTATTAGATCAAATGATGCAACTTTCCAAGCATGTAATG
*
3235 TTCAGAAAATTGCTCGAAGGATTGGATCGTCTTGAATACTTTAAGGAACCAG-ATTTAAGAAAGA
66 TTCAGAAAATTGCTCGAAGGATTGGATCGTCTTGAATACTTTAAGGAACCAGAATTTAAAAAAGA
* *
3299 ACTCGTAAAAGTTTGACAAGTTCAGAAGTTCGTCCAACAACCAAGAGAGAAACAATTCTCATATA
131 ACTCGTAAAAGTTTGACAAGTTCAGAAGCTCCTCCAACAACCAAGAGAGAAACAATTCTCATATA
*
3364 AATAAGTTTTTAATTCAAAGGC
196 AATAAATTTTTAATTCAAAGGC
3386 CAAAACTTGTTTACAAAATGACAAAATTATTAGATCAAATGATGCAACTTTCCAAGCATGTAATG
1 CAAAACTTGTTTACAAAATGACAAAATTATTAGATCAAATGATGCAACTTTCCAAGCATGTAATG
*
3451 TTCAGAAAATTGCTCGAAGGATTGGATCGGCTTGAATACTTTAAGGAACCA
66 TTCAGAAAATTGCTCGAAGGATTGGATCGTCTTGAATACTTTAAGGAACCA
3502 AAGCTTTAAA
Statistics
Matches: 303, Mismatches: 27, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
216 295 0.97
217 8 0.03
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (217 bp):
CAAAACTTGTTTACAAAATGACAAAATTATTAGATCAAATGATGCAACTTTCCAAGCATGTAATG
TTCAGAAAATTGCTCGAAGGATTGGATCGTCTTGAATACTTTAAGGAACCAGAATTTAAAAAAGA
ACTCGTAAAAGTTTGACAAGTTCAGAAGCTCCTCCAACAACCAAGAGAGAAACAATTCTCATATA
AATAAATTTTTAATTCAAAGGC
Done.