Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013728.1 Kokia drynarioides strain JFW-HI SEQ_128756, 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: 41029
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Warning! 92 characters in sequence are not A, C, G, or T
Found at i:405 original size:216 final size:216
Alignment explanation
Indices: 1--2207 Score: 2507
Period size: 216 Copynumber: 10.2 Consensus size: 216
** * * * * *
1 AACTCGTAAAAGTTTGTTAATTTAAGAATTTCGTCCAAGAACCAAGAGAGAAACGATTCTCACGT
1 AACTCGTAAAAGTTTGACAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGT
* * * * * * *
66 AAATAAGTTTTTAACTCAAA-GTTCAGAACATGTTTACAAAATGAAAAACTATTTAGACCAAAAG
66 AAATAAGTTTTTAATTCAAAGGCT-AAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATG
* * *** * *
130 ATGTGATTTCCCTCTCATGGAATGTTC-GAAAAATTACTCGAAGGAATGGATCGTCTTGAACACT
130 ATGCGACTTCCCGAGCATGTAATGTTCAG-AAAATTACTCGAAGGAATGGATCGTCTTGAATACT
* ** *
194 TTAAGGAACCGGATTTAAAAAAG
194 TTAAGGAACCGAAGCTATAAAAG
* * * * *
217 AACTTGTAAAAGTTTGACAAGTTCGGAAGTTCATCCAACAACCAAGAGAAAAACAACTCTCACGT
1 AACTCGTAAAAGTTTGACAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGT
* * *
282 AAATAAGTTGTTAATTNAAAGGCTGAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGA
66 AAATAAGTTTTTAATTCAAAGGCTAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGA
* * ** * * * * *
347 TGCGACTTCCCGAGCGTGTAATGCTCAGAGTATTGCTTGAAAGATTGGATCTTCTTGAATACTTT
131 TGCGACTTCCCGAGCATGTAATGTTCAGAAAATTACTCGAAGGAATGGATCGTCTTGAATACTTT
* ** *
412 AAGGAACCAAATATATAAAAT
196 AAGGAACCGAAGCTATAAAAG
* * * * *
433 AACTCGTAAAACTTCGACAAGTTCGGAAGTTCGTCCAGGAACCAAGAGAGAAACAATTCTCACGT
1 AACTCGTAAAAGTTTGACAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGT
* * ** * * *
498 AAATAAGGTTTTT-CTTCAAA-GATCAAAAGATGTTTAAAAAATGAAAAACTATTTAGACCAAAT
66 AAATAA-GTTTTTAATTCAAAGGCT-AAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAAT
* ** * **
561 GATGCGATTTCCCTCGCATGGAATGTTTGGAAAATTACTCGAAGGAATGGATCGTCTTGAATACT
129 GATGCGACTTCCCGAGCATGTAATGTTCAGAAAATTACTCGAAGGAATGGATCGTCTTGAATACT
* **
626 TTAATGAACTAAAGCTATAAAAG
194 TTAAGGAACCGAAGCTATAAAAG
* ** * * * * *
649 AACTTGTAAAAGTTTGTTAATTTAAGAATTTCGTCCAAGAACCAAGAGAGAAACGATTCTCACGT
1 AACTCGTAAAAGTTTGACAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGT
*
714 AAATAAGTTTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGA
66 AAATAAGTTTTTAATTCAAAGGCTAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGA
* * * * * * *
779 TGCAACTTTCCAACCATGTAATGTTCA-AAATAATGCTCGAAGGATTGGATCGTCTTGAATACTT
131 TGCGACTTCCCGAGCATGTAATGTTCAGAAA-ATTACTCGAAGGAATGGATCGTCTTGAATACTT
*
843 TAAGGAACCGAAGTTATAAAAG
195 TAAGGAACCGAAGCTATAAAAG
* * * * *
865 AACTCGTAAAAGTTCGACAAGTTCAGATGTTCATCCAAGAACCAAGAGGGAAACAACTCTCACAT
1 AACTCGTAAAAGTTTGACAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGT
* * *
930 AAATAAGTTTTTAATTCAAA-GATCAAAACTTGTTTACAAAATGAAAAACTATTTAGACCAAATG
66 AAATAAGTTTTTAATTCAAAGGCT-AAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATG
* ** * * * * * *
994 ATGCGATTTCCCTTGCATGGAATGTTTAGAAAATTAATCGAAGGAATGGATCCTCTTGGACACTT
130 ATGCGACTTCCCGAGCATGTAATGTTCAGAAAATTACTCGAAGGAATGGATCGTCTTGAATACTT
* *
1059 TAATGAACTGAAGCTATAAAAG
195 TAAGGAACCGAAGCTATAAAAG
** * * * * *
1081 AACTCGTAAAAGTTTGTTAATTTAAGAATTTCATCCAAGAACCTAGAGAGAAACGATTCTCACGT
1 AACTCGTAAAAGTTTGACAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGT
* *
1146 AAATAAGTTTTTAATTCAAAGGCCT-AAACTTGTTTACAAAATGACCAACGTTTTAGACCAAATG
66 AAATAAGTTTTTAATTCAAAGG-CTAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATG
* * * *
1210 ATGCGACTTCCCGACCATGTAATGTTC-GAAATATTGCTCGAAGGATTGGATCGTCTTGTATACT
130 ATGCGACTTCCCGAGCATGTAATGTTCAGAAA-ATTACTCGAAGGAATGGATCGTCTTGAATACT
1274 TTAAGGAACCGAAGCTATAAAAG
194 TTAAGGAACCGAAGCTATAAAAG
* * * * *
1297 AAGTCGTAAAAGTTTGACAAGTTC-GAAAGTTCATCCAACAACTAAAAGAGAAACAATTCTCATG
1 AACTCGTAAAAGTTTGACAAGTTCAG-AAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACG
*
1361 TAAATAAGTTTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATG
65 TAAATAAGTTTTTAATTCAAAGGCTAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATG
* * *
1426 ATGCGACTTCCCGAGCAAGTAATGTTCAGAAAATTACTCAAAGGAATGGATCGTCTTGAACACTT
130 ATGCGACTTCCCGAGCATGTAATGTTCAGAAAATTACTCGAAGGAATGGATCGTCTTGAATACTT
* * ** *
1491 TAAGGAATCGGATTTAAAAAAG
195 TAAGGAACCGAAGCTATAAAAG
*
1513 AACTCGTAAAAGTTTGACAAGTTCAGAAGTTCATCCAACAACCAAGAGAGAAACAATTCTCACGT
1 AACTCGTAAAAGTTTGACAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGT
**
1578 AAATAAGTTTTTAATTCAAAGGCCGAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGA
66 AAATAAGTTTTTAATTCAAAGGCTAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGA
* * * ** * ** * * * *
1643 TGCGACTTCCTGAGCATGTAATGCTCGGAGTACTGTTTGAAAGATTGGATCCTCTTGAATACTTT
131 TGCGACTTCCCGAGCATGTAATGTTCAGAAAATTACTCGAAGGAATGGATCGTCTTGAATACTTT
* *
1708 AAGGAACAGAAGTTATAAAAG
196 AAGGAACCGAAGCTATAAAAG
* * * *
1729 AACTCGTAAAAGTTCGACAAGTTC-GAAAGTTCGTCCAAGAACAAAGAGAGACACAATTCTCACG
1 AACTCGTAAAAGTTTGACAAGTTCAG-AAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACG
* * * * **
1793 TAAATAAGTTTTTAATTCGAA-GATCAAAATTTGTTTACAAAATGAAAAACTACTTAGACCAAAT
65 TAAATAAGTTTTTAATTCAAAGGCT-AAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAAT
* * * *
1857 GATGCGATTTCCCTCA-CATGGAATGTTCAGAAAATTACTCGAAGGAATGGATCGTCTTGAACAC
129 GATGCGACTTCCC-GAGCATGTAATGTTCAGAAAATTACTCGAAGGAATGGATCGTCTTGAATAC
* *
1921 TTTAATGAACTGAAGCTATAAAAG
193 TTTAAGGAACCGAAGCTATAAAAG
*** * * * ** *
1945 AACTCGTAAAAGTTTTTTAATTTAAGAATTTTGTCCAAGAACCAAAAGAGAAACAATTCTCACGT
1 AACTCGTAAAAGTTTGACAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGT
* *
2010 AAATAAGATTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGA
66 AAATAAGTTTTTAATTCAAAGGCTAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGA
* * * * **
2075 TGCGACTTCCCGACCATGTAATGTTC-GAAATATTGCTCAAAGGATTGGATTTTCTTGAATACTT
131 TGCGACTTCCCGAGCATGTAATGTTCAGAAA-ATTACTCGAAGGAATGGATCGTCTTGAATACTT
*
2139 TAAGGAACCGAAGCTACAAAAG
195 TAAGGAACCGAAGCTATAAAAG
* ** * * *
2161 AAGTCGTAAAAGTTCAACAAGTTC-GAAAGTTCGTCCAGGAGCCAAGA
1 AACTCGTAAAAGTTTGACAAGTTCAG-AAGTTCATCCAAGAACCAAGA
2208 TGATAAGAGT
Statistics
Matches: 1658, Mismatches: 309, Indels: 48
0.82 0.15 0.02
Matches are distributed among these distances:
215 26 0.02
216 1610 0.97
217 21 0.01
218 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (216 bp):
AACTCGTAAAAGTTTGACAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGT
AAATAAGTTTTTAATTCAAAGGCTAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGA
TGCGACTTCCCGAGCATGTAATGTTCAGAAAATTACTCGAAGGAATGGATCGTCTTGAATACTTT
AAGGAACCGAAGCTATAAAAG
Found at i:827 original size:432 final size:431
Alignment explanation
Indices: 30--2207 Score: 3009
Period size: 432 Copynumber: 5.0 Consensus size: 431
20 ATTTAAGAAT
* * * *
30 TTCGTCCAAGAACCAAGAGAGAAACGATTCTCACGTAAATAAGTTTTTAACTCAAAGTTCAGAAC
1 TTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAAC
* * * *
95 ATGTTTACAAAATGAAAAACTATTTAGACCAAAAGATGTGATTTCCCTCTCATGGAATGTTC-GA
66 TTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATGGAATGTTCAG-
* * * ** * *
159 AAAATTACTCGAAGGAATGGATCGTCTTGAACACTTTAAGGAACCGGATTTAAAAAAGAACTTGT
130 AAAATTACTCGAAGGAATGGATCGTCTTGAACACTTTAATGAACTGAAGCTATAAAAGAACTCGT
** * ** * * * *
224 AAAAGTTTGACAAGTTCGGAAGTTCATCCAACAACCAAGAGAAAAACAACTCTCACGTAAATAAG
195 AAAAGTTTGTTAATTTAAGAATTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAG
* * **
289 TTGTTAATTNAAAGGCTGAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGCGACT
260 TTTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGCGACT
* * * * * * *
354 TCCCGAGCGTGTAATGCTC-AGAGTATTGCTTGAAAGATTGGATCTTCTTGAATACTTTAAGGAA
325 TCCCGACCATGTAATGTTCGA-AATATTGCTCGAAGGATTGGATCGTCTTGAATACTTTAAGGAA
* * *
418 CCAAATATATAAAATAACTCGTAAAACTTCGACAAGTTCGGAAG
389 CCAAAT-TATAAAAGAACTCGTAAAAGTTCGACAAGTTCGAAAG
* *
462 TTCGTCCAGGAACCAAGAGAGAAACAATTCTCACGTAAATAAGGTTTTT-CTTCAAAGATCAAAA
1 TTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAA-GTTTTTAATTCAAAGATCAAAA
** * **
526 GATGTTTAAAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATGGAATGTTTGG
65 CTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATGGAATGTTCAG
* * *
591 AAAATTACTCGAAGGAATGGATCGTCTTGAATACTTTAATGAACTAAAGCTATAAAAGAACTTGT
130 AAAATTACTCGAAGGAATGGATCGTCTTGAACACTTTAATGAACTGAAGCTATAAAAGAACTCGT
* *
656 AAAAGTTTGTTAATTTAAGAATTTCGTCCAAGAACCAAGAGAGAAACGATTCTCACGTAAATAAG
195 AAAAGTTTGTTAATTTAAGAATTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAG
*
721 TTTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGCAACT
260 TTTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGCGACT
* * * *
786 TTCCAACCATGTAATGTTCAAAATAATGCTCGAAGGATTGGATCGTCTTGAATACTTTAAGGAAC
325 TCCCGACCATGTAATGTTCGAAATATTGCTCGAAGGATTGGATCGTCTTGAATACTTTAAGGAAC
* *
851 CGAAGTTATAAAAGAACTCGTAAAAGTTCGACAAGTTC-AGATG
390 C-AAATTATAAAAGAACTCGTAAAAGTTCGACAAGTTCGA-AAG
* * * *
894 TTCATCCAAGAACCAAGAGGGAAACAACTCTCACATAAATAAGTTTTTAATTCAAAGATCAAAAC
1 TTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAAC
* *
959 TTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTTGCATGGAATGTTTAGA
66 TTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATGGAATGTTCAGA
* * *
1024 AAATTAATCGAAGGAATGGATCCTCTTGGACACTTTAATGAACTGAAGCTATAAAAGAACTCGTA
131 AAATTACTCGAAGGAATGGATCGTCTTGAACACTTTAATGAACTGAAGCTATAAAAGAACTCGTA
* *
1089 AAAGTTTGTTAATTTAAGAATTTCATCCAAGAACCTAGAGAGAAACGATTCTCACGTAAATAAGT
196 AAAGTTTGTTAATTTAAGAATTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGT
* * *
1154 TTTTAATTCAAAGGCCTAAACTTGTTTACAAAATGACCAACGTTTTAGACCAAATGATGCGACTT
261 TTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGCGACTT
*
1219 CCCGACCATGTAATGTTCGAAATATTGCTCGAAGGATTGGATCGTCTTGTATACTTTAAGGAACC
326 CCCGACCATGTAATGTTCGAAATATTGCTCGAAGGATTGGATCGTCTTGAATACTTTAAGGAACC
** * *
1284 GAAGCTATAAAAGAAGTCGTAAAAGTTTGACAAGTTCGAAAG
391 -AAATTATAAAAGAACTCGTAAAAGTTCGACAAGTTCGAAAG
* * * * * **
1326 TTCATCCAACAACTAAAAGAGAAACAATTCTCATGTAAATAAGTTTTTAATTCAAAGGCCAAAAC
1 TTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAAC
* * * ** * *
1391 TTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGCGACTTCCCGAGCAAGTAATGTTCAGA
66 TTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATGGAATGTTCAGA
* * * ** *
1456 AAATTACTCAAAGGAATGGATCGTCTTGAACACTTTAAGGAA-TCGGATTTAAAAAAGAACTCGT
131 AAATTACTCGAAGGAATGGATCGTCTTGAACACTTTAATGAACT-GAAGCTATAAAAGAACTCGT
** * * * *
1520 AAAAGTTTGACAAGTTCAGAAGTTCATCCAACAACCAAGAGAGAAACAATTCTCACGTAAATAAG
195 AAAAGTTTGTTAATTTAAGAATTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAG
*
1585 TTTTTAATTCAAAGGCCGAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGCGACT
260 TTTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGCGACT
* * * * * * * * * *
1650 TCCTGAGCATGTAATGCTCGGAGTACTGTTTGAAAGATTGGATCCTCTTGAATACTTTAAGGAA-
325 TCCCGACCATGTAATGTTCGAAATATTGCTCGAAGGATTGGATCGTCTTGAATACTTTAAGGAAC
1714 CAGAAGTTATAAAAGAACTCGTAAAAGTTCGACAAGTTCGAAAG
390 CA-AA-TTATAAAAGAACTCGTAAAAGTTCGACAAGTTCGAAAG
* * * *
1758 TTCGTCCAAGAACAAAGAGAGACACAATTCTCACGTAAATAAGTTTTTAATTCGAAGATCAAAAT
1 TTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAAC
* *
1823 TTGTTTACAAAATGAAAAACTACTTAGACCAAATGATGCGATTTCCCTCACATGGAATGTTCAGA
66 TTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATGGAATGTTCAGA
1888 AAATTACTCGAAGGAATGGATCGTCTTGAACACTTTAATGAACTGAAGCTATAAAAGAACTCGTA
131 AAATTACTCGAAGGAATGGATCGTCTTGAACACTTTAATGAACTGAAGCTATAAAAGAACTCGTA
* ** * *
1953 AAAGTTTTTTAATTTAAGAATTTTGTCCAAGAACCAAAAGAGAAACAATTCTCACGTAAATAAGA
196 AAAGTTTGTTAATTTAAGAATTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGT
2018 TTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGCGACTT
261 TTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGCGACTT
* **
2083 CCCGACCATGTAATGTTCGAAATATTGCTCAAAGGATTGGATTTTCTTGAATACTTTAAGGAACC
326 CCCGACCATGTAATGTTCGAAATATTGCTCGAAGGATTGGATCGTCTTGAATACTTTAAGGAACC
** * * *
2148 GAAGCTACAAAAGAAGTCGTAAAAGTTCAACAAGTTCGAAAG
391 -AAATTATAAAAGAACTCGTAAAAGTTCGACAAGTTCGAAAG
* *
2190 TTCGTCCAGGAGCCAAGA
1 TTCGTCCAAGAACCAAGA
2208 TGATAAGAGT
Statistics
Matches: 1541, Mismatches: 192, Indels: 26
0.88 0.11 0.01
Matches are distributed among these distances:
430 1 0.00
431 9 0.01
432 1515 0.98
433 15 0.01
434 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (431 bp):
TTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAAC
TTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATGGAATGTTCAGA
AAATTACTCGAAGGAATGGATCGTCTTGAACACTTTAATGAACTGAAGCTATAAAAGAACTCGTA
AAAGTTTGTTAATTTAAGAATTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGT
TTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGCGACTT
CCCGACCATGTAATGTTCGAAATATTGCTCGAAGGATTGGATCGTCTTGAATACTTTAAGGAACC
AAATTATAAAAGAACTCGTAAAAGTTCGACAAGTTCGAAAG
Found at i:1252 original size:648 final size:644
Alignment explanation
Indices: 1--2197 Score: 2898
Period size: 648 Copynumber: 3.4 Consensus size: 644
* *
1 AACTCGTAAAAGTTTGTTAATTTAAGAATTTCGTCCAAGAACCAAGAGAGAAACGATTCTCACGT
1 AACTCGTAAAAGTTTGTTAATTTAAGAATTTCGTCCAAGAACCAAAAGAGAAACAATTCTCACGT
* ** * * * * *
66 AAATAAGTTTTTAACTCAAAGTTCAGAACATGTTTACAAAATGAAAAACTATTTAGACCAAAAGA
66 AAATAAGTTTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGA
* * * * *
131 TGTGATTTCCC-TCTCATGGAATGTTCGAAAAATTACTCGAAGGAATGGATCGTCTTGAACACTT
131 TGCGACTTCCCGAC-CATGTAATGTTC-AAAAATTACTCAAAGGAATGGATCGTCTTGAACACTT
* * * * *
195 TAAGGAACCGGATTTAAAAAAGAACTTGTAAAAGTTTGACAAGTTCGGAAGTTCATCCAACAACC
194 TAAGGAACCGAAGTTAAAAAAGAACTCGTAAAAGTTCGACAAGTTCAGAAGTTCATCCAACAACC
* * * *
260 AAGAGAAAAACAACTCTCACGTAAATAAGTTGTTAATTNAAAGGCTGAAACTTGTTTACAAAATG
259 AAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAA-GCCGAAACTTGTTTACAAAATG
* * *
325 ACAAACTTTTTAGACCAAATGATGCGACTTCCCGAGCGTGTAATGCTCAGAGTATTGCTTGAAAG
323 ACAAACTTTTTAGACCAAATGATGCGACTTCCCTAGCATGTAATGCTCAGAGTATTGATTGAAAG
* * * *
390 ATTGGATCTTCTTGAATACTTTAAGGAACCA-AATATATAAAATAACTCGTAAAACTTCGACAAG
388 ATTGGATCCTCTTGAATACTTTAAGGAA-CAGAAGATATAAAAGAACTCGTAAAAGTTCGACAAG
* * *
454 TTCGGAAGTTCGTCCAGGAACCAAGAGAGAAACAATTCTCACGTAAATAAGGTTTTT-CTTCAAA
452 TT-AGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAA-GTTTTTAATTCAAA
** * *
518 GATCAAAAGATGTTTAAAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATGGA
515 GATCAAAACTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTCACATGGA
* *
583 ATGTTTGGAAAATTACTCGAAGGAATGGATCGTCTTGAATACTTTAATGAACTAAAGCTATAAAA
580 ATG-TTCGAAAATTACTCGAAGGAATGGATCGTCTTGAATACTTTAATGAACTGAAGCTATAAAA
648 G
644 G
* * *
649 AACTTGTAAAAGTTTGTTAATTTAAGAATTTCGTCCAAGAACCAAGAGAGAAACGATTCTCACGT
1 AACTCGTAAAAGTTTGTTAATTTAAGAATTTCGTCCAAGAACCAAAAGAGAAACAATTCTCACGT
714 AAATAAGTTTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGA
66 AAATAAGTTTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGA
* * * * * * * *
779 TGCAACTTTCCAACCATGTAATGTTCAAAATAATGCTCGAAGGATTGGATCGTCTTGAATACTTT
131 TGCGACTTCCCGACCATGTAATGTTCAAAA-ATTACTCAAAGGAATGGATCGTCTTGAACACTTT
* * *
844 AAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTCGACAAGTTCAGATGTTCATCCAAGAACCA
195 AAGGAACCGAAGTTAAAAAAGAACTCGTAAAAGTTCGACAAGTTCAGAAGTTCATCCAACAACCA
* * * *
909 AGAGGGAAACAACTCTCACATAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAATGA
260 AGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAG-CCGAAACTTGTTTACAAAATGA
* * * * * * * ** * * *
974 AAAACTATTTAGACCAAATGATGCGATTTCCCTTGCATGGAATGTTTAGAAAATTAATCGAAGGA
324 CAAACTTTTTAGACCAAATGATGCGACTTCCCTAGCATGTAATGCTCAGAGTATTGATTGAAAGA
* * * * * * * ** *
1039 ATGGATCCTCTTGGACACTTTAATGAACTGAAGCTATAAAAGAACTCGTAAAAGTTTGTTAATTT
389 TTGGATCCTCTTGAATACTTTAAGGAACAGAAGATATAAAAGAACTCGTAAAAGTTCGACAAGTT
* * * * **
1104 AAGAATTTCATCCAAGAACCTAGAGAGAAACGATTCTCACGTAAATAAGTTTTTAATTCAAAGGC
454 -AGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAT
* ** * * *
1169 CTAAACTTGTTTACAAAATGACCAACGT-TTTAGACCAAATGATGCGACTTCCC-GACCATGTAA
518 CAAAACTTGTTTACAAAATGAAAAAC-TATTTAGACCAAATGATGCGATTTCCCTCA-CATGGAA
* * * * *
1232 TGTTCGAAATATTGCTCGAAGGATTGGATCGTCTTGTATACTTTAAGGAACCGAAGCTATAAAAG
581 TGTTCGAAA-ATTACTCGAAGGAATGGATCGTCTTGAATACTTTAATGAACTGAAGCTATAAAAG
* ** * * * * * * *
1297 AAGTCGTAAAAGTTTGACAAGTT-CGAAAGTTCATCCAACAACTAAAAGAGAAACAATTCTCATG
1 AACTCGTAAAAGTTTGTTAATTTAAG-AATTTCGTCCAAGAACCAAAAGAGAAACAATTCTCACG
1361 TAAATAAGTTTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATG
65 TAAATAAGTTTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATG
* *
1426 ATGCGACTTCCCGAGCAAGTAATGTTCAGAAAATTACTCAAAGGAATGGATCGTCTTGAACACTT
130 ATGCGACTTCCCGACCATGTAATGTTCA-AAAATTACTCAAAGGAATGGATCGTCTTGAACACTT
* * * *
1491 TAAGGAATCGGATTTAAAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTTCATCCAACAACC
194 TAAGGAACCGAAGTTAAAAAAGAACTCGTAAAAGTTCGACAAGTTCAGAAGTTCATCCAACAACC
*
1556 AAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGGCCGAAACTTGTTTACAAAATG
259 AAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAA-GCCGAAACTTGTTTACAAAATG
* * *
1621 ACAAACTTTTTAGACCAAATGATGCGACTT-CCTGAGCATGTAATGCTCGGAGTACTGTTTGAAA
323 ACAAACTTTTTAGACCAAATGATGCGACTTCCCT-AGCATGTAATGCTCAGAGTATTGATTGAAA
*
1685 GATTGGATCCTCTTGAATACTTTAAGGAACAGAAGTTATAAAAGAACTCGTAAAAGTTCGACAAG
387 GATTGGATCCTCTTGAATACTTTAAGGAACAGAAGATATAAAAGAACTCGTAAAAGTTCGACAAG
* * * *
1750 TTCGAAAGTTCGTCCAAGAACAAAGAGAGACACAATTCTCACGTAAATAAGTTTTTAATTCGAAG
452 TTAG-AAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG
* *
1815 ATCAAAATTTGTTTACAAAATGAAAAACTACTTAGACCAAATGATGCGATTTCCCTCACATGGAA
516 ATCAAAACTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTCACATGGAA
*
1880 TGTTCAGAAAATTACTCGAAGGAATGGATCGTCTTGAACACTTTAATGAACTGAAGCTATAAAAG
581 TGTTC-GAAAATTACTCGAAGGAATGGATCGTCTTGAATACTTTAATGAACTGAAGCTATAAAAG
* *
1945 AACTCGTAAAAGTTTTTTAATTTAAGAATTTTGTCCAAGAACCAAAAGAGAAACAATTCTCACGT
1 AACTCGTAAAAGTTTGTTAATTTAAGAATTTCGTCCAAGAACCAAAAGAGAAACAATTCTCACGT
*
2010 AAATAAGATTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGA
66 AAATAAGTTTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGA
* * * ** *
2075 TGCGACTTCCCGACCATGTAATGTTCGAAATATTGCTCAAAGGATTGGATTTTCTTGAATACTTT
131 TGCGACTTCCCGACCATGTAATGTTC-AAAAATTACTCAAAGGAATGGATCGTCTTGAACACTTT
* * * * *
2140 AAGGAACCGAAGCTACAAAAGAAGTCGTAAAAGTTCAACAAGTTC-GAAAGTTCGTCCA
195 AAGGAACCGAAGTTAAAAAAGAACTCGTAAAAGTTCGACAAGTTCAG-AAGTTCATCCA
2198 GGAGCCAAGA
Statistics
Matches: 1325, Mismatches: 205, Indels: 38
0.85 0.13 0.02
Matches are distributed among these distances:
647 25 0.02
648 1287 0.97
649 13 0.01
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (644 bp):
AACTCGTAAAAGTTTGTTAATTTAAGAATTTCGTCCAAGAACCAAAAGAGAAACAATTCTCACGT
AAATAAGTTTTTAATTCAAAGGCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGA
TGCGACTTCCCGACCATGTAATGTTCAAAAATTACTCAAAGGAATGGATCGTCTTGAACACTTTA
AGGAACCGAAGTTAAAAAAGAACTCGTAAAAGTTCGACAAGTTCAGAAGTTCATCCAACAACCAA
GAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGCCGAAACTTGTTTACAAAATGACA
AACTTTTTAGACCAAATGATGCGACTTCCCTAGCATGTAATGCTCAGAGTATTGATTGAAAGATT
GGATCCTCTTGAATACTTTAAGGAACAGAAGATATAAAAGAACTCGTAAAAGTTCGACAAGTTAG
AAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAA
AACTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTCACATGGAATGTTC
GAAAATTACTCGAAGGAATGGATCGTCTTGAATACTTTAATGAACTGAAGCTATAAAAG
Found at i:3979 original size:19 final size:18
Alignment explanation
Indices: 3957--3993 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
3947 ATCAAAAAGT
3957 CGAGAAAAAAAGAAAAATA
1 CGAGAAAAAAA-AAAAATA
*
3976 CGAGAAAAATAAAAAATA
1 CGAGAAAAAAAAAAAATA
3994 AAAAATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.73, C:0.05, G:0.14, T:0.08
Consensus pattern (18 bp):
CGAGAAAAAAAAAAAATA
Found at i:3983 original size:18 final size:19
Alignment explanation
Indices: 3957--3993 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
3947 ATCAAAAAGT
3957 CGAGAAAAAA-AGAAAAATA
1 CGAGAAAAAATA-AAAAATA
3976 CGAG-AAAAATAAAAAATA
1 CGAGAAAAAATAAAAAATA
3994 AAAAATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.73, C:0.05, G:0.14, T:0.08
Consensus pattern (19 bp):
CGAGAAAAAATAAAAAATA
Found at i:7834 original size:216 final size:216
Alignment explanation
Indices: 7410--11999 Score: 2697
Period size: 216 Copynumber: 20.9 Consensus size: 216
7400 ATTCGTATCA
* *
7410 CAAGAGA-AAACAATTCTCACGTAAATAAGTTTTTAATTTAAAGATCAAAACATGTTTACAAAAT
1 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
* ** *
7474 GAAAAACTATTTAGACCAAATGATGTGATTTCCCTTGCATGGAATGTTCGGAAAATTACTCGAAG
66 GAAAAACTATTTAGACCAAATGATGTGACTTCCCGCGCATGGAATGTTCAGAAAATTACTCGAAG
* * * **
7539 GAATT-GATCGTCTTGAACACTTTAATGAACTGAAGCTATAAAAGAACTCGTAAAATTTTGTTAA
131 G-ATTGGATCGTCTTGAACACTTTAAGGAACCGAAGCTATAAAAGAACTCGTAAAAGTTTGACAA
* * * *
7603 TTTAATAATTTCGTCCAAGAAC
195 GTTCAGAAGTTCGTCCAAGAAC
* ** *
7625 CAAGAGAGAAACGATTCTCACGTAAATAAGTTTTTAATTCAAAGGCCAAAACTTGCTTACAAAAT
1 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
* * * * * * * *
7690 GACAAACTTTTTAGACCAAATTATGTTACTTCTCGCCCATGTAATGTTC-GAAATATTGCTCGAA
66 GAAAAACTATTTAGACCAAATGATGTGACTTCCCGCGCATGGAATGTTCAGAAA-ATTACTCGAA
* * * * * *
7754 TGATTGGATCGTCTTGAATACTTTAAGGAACCAAAGCTATGAAAGAATTTGTAAAAGTTTGACAA
130 GGATTGGATCGTCTTGAACACTTTAAGGAACCGAAGCTATAAAAGAACTCGTAAAAGTTTGACAA
* *
7819 GTTCGGAAGTTCGTCCAAGAGC
195 GTTCAGAAGTTCGTCCAAGAAC
* * * *
7841 CAAGACA-AAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATTACAACATGTTTACAAAAT
1 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
* * **
7905 GAAAAACTATTTAGACCAAATGATGTGATTTCCCTCGCATGGAATGTTTGGAAAATTACTCGAAG
66 GAAAAACTATTTAGACCAAATGATGTGACTTCCCGCGCATGGAATGTTCAGAAAATTACTCGAAG
* * * * *
7970 GAATGGATCATCTTGAACACTTTAAGGAACC--AGATTTAAAAGGAACTCTTAAAAGTTTGACAA
131 GATTGGATCGTCTTGAACACTTTAAGGAACCGAAGCTATAAAA-GAACTCGTAAAAGTTTGACAA
* *
8033 G-TCGGAAGTTCGTCCAACAAC
195 GTTCAGAAGTTCGTCCAAGAAC
* **
8054 CAAGAGAGAAAAAATTCTCACGTAAATAAGTTTTTAATTCAAAGGCCAAAACTTGTTTACAAAAT
1 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
* * * * ** * *
8119 GACAAACTTTTTAGACCAAATGATGCGACTTTCCAAGCATGTAATGTTCAGAAAATTGCTCGAAG
66 GAAAAACTATTTAGACCAAATGATGTGACTTCCCGCGCATGGAATGTTCAGAAAATTACTCGAAG
* * * *
8184 GATTGGATCGTCTTGAATAATTTAAGGAACCGAAGTTATAAAAGAACTCGTCAAAGTTTGACAAG
131 GATTGGATCGTCTTGAACACTTTAAGGAACCGAAGCTATAAAAGAACTCGTAAAAGTTTGACAAG
* *
8249 TTCAAAAGTTCGTCCGAGAAC
196 TTCAGAAGTTCGTCCAAGAAC
* *
8270 CAAGAGAGACACAATTCTCACATAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
1 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
* *
8335 GAAAAACTATTTAGACCAAATGATGCGA-TTACCCTCGCATGGAATGTTCAGAAAATTACTCGAA
66 GAAAAACTATTTAGACCAAATGATGTGACTT-CCCGCGCATGGAATGTTCAGAAAATTACTCGAA
* * * ** *
8399 GGAATGGATCGTCTTGCACACTTTAAGGAACCGGATTTA-AAAAGAACACGTAAAAGTTTGACAA
130 GGATTGGATCGTCTTGAACACTTTAAGGAACCGAAGCTATAAAAGAACTCGTAAAAGTTTGACAA
*
8463 GTTCAGAAGTTTGTCCAAGAAC
195 GTTCAGAAGTTCGTCCAAGAAC
* **
8485 CAAGAGAGAAACAATTCTCAGGTAAATAAGTTTTTAATTCAAAGGCCAAAACTTGTTTACAAAAT
1 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
* * * * * * * *
8550 GACAAACTTTTTAGACCAAATGATGCGGCTTCCCGAGCATGTAATGTTC-GAATTATTGCTCGAA
66 GAAAAACTATTTAGACCAAATGATGTGACTTCCCGCGCATGGAATGTTCAGAA-AATTACTCGAA
* * * * * * *
8614 GGATTGGATCGTCTTGAATACTTTAAGGAATCGAAGCTATAAAAGGAGTCTTAAAAGTTTCAAAA
130 GGATTGGATCGTCTTGAACACTTTAAGGAACCGAAGCTATAAAAGAACTCGTAAAAGTTTGACAA
** * * *
8679 GTTTGGAAGTTCATCTAAGAGC
195 GTTCAGAAGTTCGTCCAAGAAC
* *
8701 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACATGGTTACAAAAT
1 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
* * * ** *
8766 GAAAAACTATTTAGACCAAAAGATGTAATTTCCCTTGCATGGAATGTTCAGAAAATTACTTGAAG
66 GAAAAACTATTTAGACCAAATGATGTGACTTCCCGCGCATGGAATGTTCAGAAAATTACTCGAAG
* * * * ** * **
8831 GAATGGATCGTCTTGAACACTTCATGGAACCGGATTTA-AAAAGGAACTCGTAAAGGTTTGGTAA
131 GATTGGATCGTCTTGAACACTTTAAGGAACCGAAGCTATAAAA-GAACTCGTAAAAGTTTGACAA
* * *
8895 GTTC-GGA-TTCATCCAACAAC
195 GTTCAGAAGTTCGTCCAAGAAC
* **** * * *
8915 CAAGAGAGAAACAATTCTCTCAAAAGTTCGTCCAAGAACCAAGAGAGACATAATTCTCACG-TAA
1 CAAGAGAGAAACAA-T-TCTC---A---CGT---A-AA--TA-AG-TTTTTAATTC-AAAGATCA
* * * * *** ***
8979 ATAAGTT-TTTAATTCAAAGAT-CAAAACT-TGTT-TACAAAATGA-CAAACTTTTTTGAC-CAA
49 A-AACTTGTTT-A--CAAA-ATGAAAAACTAT-TTAGACCAAATGATGTGAC-TTCCCG-CGC--
* ** * * * ** * * * *
9038 AT-G-ATGCGACTTCCCGAGCATGTAACGTTAGGAA-AATTTCTCGAAGGAT-TGGATCGTCTTG
104 ATGGAAT--G--TT-CAGAAAAT-T-AC--T-CGAAGGA--T-TGGATCG-TCTTGAAC-ACTTT
* * * * * * * *
9099 AA--TACTCTAAGGAACTGAAGCTATAAAAGAACTCGTAAATGTTCGACAAGTTCAAAAGTTCAT
154 AAGGAAC-CGAA-G--CT--A--TAAAAG--AACTCGTAAAAGTTTGACAAGTTCAGAAGTTCGT
9162 CCAAGAAC
209 CCAAGAAC
**
9170 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGGCCAAAACTTGTTTACAAAAT
1 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
* * * * * * *
9235 GACAAACTTTTTGGACCAAATGATGTGACTTCCCGAGCATGTAACGTTCGGAAAATTACTCGAAG
66 GAAAAACTATTTAGACCAAATGATGTGACTTCCCGCGCATGGAATGTTCAGAAAATTACTCGAAG
* * *
9300 GATTGGATCGTCTTGAATACTCTAAGGAACCGAAGCTATAAAAGAACTCGTAAAAGTTCGACAAG
131 GATTGGATCGTCTTGAACACTTTAAGGAACCGAAGCTATAAAAGAACTCGTAAAAGTTTGACAAG
*
9365 TTCGGAAGTTCGTCCAAGAAC
196 TTCAGAAGTTCGTCCAAGAAC
* * *
9386 CAAGAGAGACACAATTCTCATGTAAGTAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
1 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
* * * * * *
9451 AAAAAACTATTTAGACCAAGTGATGCGATTTCCCTCGCATGGAATGTTCAAAAAATTACTCGAAG
66 GAAAAACTATTTAGACCAAATGATGTGACTTCCCGCGCATGGAATGTTCAGAAAATTACTCGAAG
* * * * ** * * * *
9516 GAATGGATCGTCTTGAACACTTTATGGAAACGGATTTAAAAAAGAACTCATAAAGGTTTGGCAAG
131 GATTGGATCGTCTTGAACACTTTAAGGAACCGAAGCTATAAAAGAACTCGTAAAAGTTTGACAAG
* * *
9581 TTCGGAAGTTCATCCAACAAC
196 TTCAGAAGTTCGTCCAAGAAC
* * * ** *
9602 CAAGAGAGAAACAATTCTCTCGTAAATAAGTTTTTAATTTAGAGGCCGAAACTTGTTTACAAAAT
1 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
* * * * * * * *
9667 GACAAACTTTTTAGACCAAATGATGCGACTTCCCGAGCATGTAACGTTCGGAAAATTACTCCAAG
66 GAAAAACTATTTAGACCAAATGATGTGACTTCCCGCGCATGGAATGTTCAGAAAATTACTCGAAG
* * * * * * *
9732 GATTGGATCGTCTTGAATACTCTAAGGAACCGAACCTATAAAAGAACTCGTACATGTTCGAGAAG
131 GATTGGATCGTCTTGAACACTTTAAGGAACCGAAGCTATAAAAGAACTCGTAAAAGTTTGACAAG
*
9797 TTCAAAAGTTCGTCCAAGAAC
196 TTCAGAAGTTCGTCCAAGAAC
* * *
9818 CAAGAGATACACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTTTTTACAAAAT
1 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
* * *
9883 GAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATGGAATGTTC-GAAAAATTACTCGAA
66 GAAAAACTATTTAGACCAAATGATGTGACTTCCCGCGCATGGAATGTTCAG-AAAATTACTCGAA
* * * * *
9947 GGAATGGATCGTCTTGAATACTTTAATGAACTGAAGCTATAAAAGAACTCGTAAAAGTTT-ATTA
130 GGATTGGATCGTCTTGAACACTTTAAGGAACCGAAGCTATAAAAGAACTCGTAAAAGTTTGA-CA
* * *
10011 ATTTCAGAATTTCGTGCAAGAAC
194 AGTTCAGAAGTTCGTCCAAGAAC
*
10034 CAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
1 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
* * * * ** ** **
10099 GAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGTATTTAATGAACTGAAGCTATAACAGAA
66 GAAAAACTATTTAGACCAAATGATGTGACTTCCCGCGCATGGAATG---TTCAG--A-AA-ATTA
* * * ** *** ** * * *
10164 CTCGTAA-AAGTTTGTTAAT-TTAAGAATTTTGTTCAA-GAACC-AAGAGAGAAACGATTCTCAC
124 CTCG-AAGGA-TTGGATCGTCTT--GAACACT-TT-AAGGAACCGAAGCTATAAAAGA-ACT--C
**
10225 GTAAATAAGTTT-TTAA-TTCA-AAG---G-CCAA-AAC
180 GT-AA-AAGTTTGACAAGTTCAGAAGTTCGTCCAAGAAC
* * * * * * * * * * * * *
10256 TTGTTTACAAAATGACAAAC-TTTTTAGACCTAATGATGCGACTTCCTGACCATGT-AATGTTTG
1 -------CAAGA-GAGAAACAATTCT-CACGTAA--AT--AAGTT-TTTA--AT-TCAAAG-ATC
* * **** * * *** *** *
10319 AAATA-TTG-CT-CGAAGGATTAGATCGTCTTATGTT-TACAAAATGA-AAAACTATTTAG-AC-
48 AAA-ACTTGTTTAC-AA--AAT-GAAAAAC-TAT-TTAGACCAAATGATGTGACT-TCCCGCGCA
* * * * * *** * * * *
10377 T-AAATGATGC-G--ATTTCCCTCGCATGGAATGTTCGGAAAATTACTCGAAGGAATGGATCGTG
105 TGGAATG-TTCAGAAAATT-ACTCG-AAGG-A--TT-GG-ATCGT-CTTGAA-CACT---T--TA
** * * ** * ** ** *
10438 TTGAACACTTTAAGGAACCGGATTTAAAA-AAGAAC-TCGTAAAAGTTCGACAAGTTCGGAAGTT
155 AGGAAC-C------GAA---GCTATAAAAGAA-CTCGT--AAAAGTTTGA-CAAGTTCAGAAGTT
10501 CGTCCAAGAAC
206 CGTCCAAGAAC
* * *
10512 AAAGAGAGACACAATTCTCACGTAAATAAGTTTTTAATTCAAATATCAAAACTTGTTTACAAAAT
1 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
* * *
10577 GAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATGGAATGTTC-GAAAAATTACTCGAA
66 GAAAAACTATTTAGACCAAATGATGTGACTTCCCGCGCATGGAATGTTCAG-AAAATTACTCGAA
** * * * * **
10641 GGAAAGGATCGTCTTGAACACTTTAATGAACTGATGCTAGAAAAGAACTCGTAAAAGTTTGTTAA
130 GGATTGGATCGTCTTGAACACTTTAAGGAACCGAAGCTATAAAAGAACTCGTAAAAGTTTGACAA
* * *
10706 TTTAAGAATTTCGTCCAAGAAC
195 GTTCAGAAGTTCGTCCAAGAAC
**
10728 CAAGAGAGAAATGATTCTCACGTAAATAAGTTTTTAATTCAAAGGA-CAAAACTTGTTTAC-AAA
1 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAA-GATCAAAACTTGTTTACAAAA
* * * * *
10791 TGACAAACTTTTTAGACCAAATGATGCGACTTCCCGAC-CATGTAATGTTC-GAAATATTGCTCG
65 TGAAAAACTATTTAGACCAAATGATGTGACTTCCCG-CGCATGGAATGTTCAGAAA-ATTACTCG
* * * * **
10854 AAGGATTGGATCATCTTGAATACTTTAAGGAACCGAAGCTATAAAAGAAGTCATAAAAGTTCAAC
128 AAGGATTGGATCGTCTTGAACACTTTAAGGAACCGAAGCTATAAAAGAACTCGTAAAAGTTTGAC
*
10919 AAGTTC-GAAAGTTCGTCCAAGAGC
193 AAGTTCAG-AAGTTCGTCCAAGAAC
* *
10943 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAGCAAAACATGTTTACAAAAT
1 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
* * * ** *
11008 GAAAAACTATTTAGACCAAATAATGCGATTTCCTTCACATGGAATGTTC-GAAAAATTACTCGAA
66 GAAAAACTATTTAGACCAAATGATGTGACTTCCCGCGCATGGAATGTTCAG-AAAATTACTCGAA
* * * * ** * *
11072 GGAATGGATCATCTTGAACACTTTAGGGAATC-AGATTTAGAAAAGAACTCGAAAAAGTTTGACA
130 GGATTGGATCGTCTTGAACACTTTAAGGAACCGA-AGCTATAAAAGAACTCGTAAAAGTTTGACA
* *
11136 AGTTCGGAAGTTCGTCCAACAAC
194 AGTTCAGAAGTTCGTCCAAGAAC
* ** * *
11159 CAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAATTCAAAGGCCGAAACTCGTTTACAAAAT
1 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
** * * * * *******************
11224 GGTAAACTTTTTAGACCAAATAATGCGAATT--C-C-C---G-A-GNNNNNNNNNNNNNNNNNNN
66 GAAAAACTATTTAGACCAAATGATGTGACTTCCCGCGCATGGAATGTTCAGAAAATTACTCGAAG
*****************************************************************
11280 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
131 GATTGGATCGTCTTGAACACTTTAAGGAACCGAAGCTATAAAAGAACTCGTAAAAGTTTGACAAG
*******
11345 NNNNNNNGTTCGTCCAAGAAC
196 TTCAGAAGTTCGTCCAAGAAC
*
11366 CAAGAGAGACACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
1 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
* * ** * * * * *
11431 GAAAATCTATTTAGACTAAATGATACGATTTCTCTCGCATGGAATGTTCGGAAAATTACTCAAAG
66 GAAAAACTATTTAGACCAAATGATGTGACTTCCCGCGCATGGAATGTTCAGAAAATTACTCGAAG
* * * ** * * ** *
11496 GAATGGATTGTCTTGAACACTTTAATGAACTAAAGCTATAATAGAACTCGTATAAGTTTGTTAAT
131 GATTGGATCGTCTTGAACACTTTAAGGAACCGAAGCTATAAAAGAACTCGTAAAAGTTTGACAAG
* * *
11561 TTTAGAATTTCTTCCAAGAAC
196 TTCAGAAGTTCGTCCAAGAAC
* * **
11582 CAAAAGAGAAACAAGTCTCACGTAAATAAGTTTTTAATTCAAAGGCCAAAACTTGTTTACAAAAT
1 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
* * * * ** * *
11647 GACAAGCTTTTTAGACCAAATGATGTGACTTCGCAAGCATGTAATGTTC-GAAAAATTTCTCGAA
66 GAAAAACTATTTAGACCAAATGATGTGACTTCCCGCGCATGGAATGTTCAG-AAAATTACTCGAA
* * * * * *
11711 GGATTGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAATAACTCATAAAAGGTCGACAA
130 GGATTGGATCGTCTTGAACACTTTAAGGAACCGAAGCTATAAAAGAACTCGTAAAAGTTTGACAA
* *
11776 GTTCGGAAGTTCGTCTAAGAAC
195 GTTCAGAAGTTCGTCCAAGAAC
* *
11798 CAAGGGAGATAA-AATTCTCACGTAAATAAGTTTTTAATTCAAAGAACAAAACTTGTTTACAAAA
1 CAAGAGAGA-AACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAA
* * * * * *
11862 TGAAAAGCTATTTAGACCAAATGATGCGATTTCCCTCACATGGTATGTTC-GAAAAATTACTCGA
65 TGAAAAACTATTTAGACCAAATGATGTGACTTCCCGCGCATGGAATGTTCAG-AAAATTACTCGA
* * * * * * * *
11926 AGGAATGGATCATCTTGAACACTTTAATGTACTGAAGCTATAAAAGAACTCATTAAAGTTTGTCA
129 AGGATTGGATCGTCTTGAACACTTTAAGGAACCGAAGCTATAAAAGAACTCGTAAAAGTTTGACA
*
11991 ATTTCAGAA
194 AGTTCAGAA
12000 TAAGTATTTA
Statistics
Matches: 3293, Mismatches: 879, Indels: 405
0.72 0.19 0.09
Matches are distributed among these distances:
207 96 0.03
208 1 0.00
209 2 0.00
210 1 0.00
211 1 0.00
212 1 0.00
213 32 0.01
214 185 0.06
215 535 0.16
216 1865 0.57
217 15 0.00
218 11 0.00
219 5 0.00
220 2 0.00
221 3 0.00
222 10 0.00
223 12 0.00
224 13 0.00
225 25 0.01
226 13 0.00
227 7 0.00
228 16 0.00
229 14 0.00
230 36 0.01
231 9 0.00
232 21 0.01
233 20 0.01
234 14 0.00
235 15 0.00
236 21 0.01
237 40 0.01
238 29 0.01
239 25 0.01
240 27 0.01
241 27 0.01
242 9 0.00
243 6 0.00
244 14 0.00
245 5 0.00
246 2 0.00
247 9 0.00
248 14 0.00
249 9 0.00
250 5 0.00
251 8 0.00
252 3 0.00
253 24 0.01
254 3 0.00
255 30 0.01
256 3 0.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.28
Consensus pattern (216 bp):
CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
GAAAAACTATTTAGACCAAATGATGTGACTTCCCGCGCATGGAATGTTCAGAAAATTACTCGAAG
GATTGGATCGTCTTGAACACTTTAAGGAACCGAAGCTATAAAAGAACTCGTAAAAGTTTGACAAG
TTCAGAAGTTCGTCCAAGAAC
Found at i:8657 original size:431 final size:432
Alignment explanation
Indices: 7410--11999 Score: 3895
Period size: 431 Copynumber: 10.5 Consensus size: 432
7400 ATTCGTATCA
* *
7410 CAAGAGA-AAACAATTCTCACGTAAATAAGTTTTTAATTTAAAGATCAAAACATGTTTACAAAAT
1 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
* *
7474 GAAAAACTATTTAGACCAAATGATGTGATTTCCCTTGCATGGAATGTTCGGAAAATTACTCGAAG
66 GAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATGGAATGTTCGGAAAATTACTCGAAG
* * * * * * * ** *
7539 GAATTGATCGTCTTGAACACTTTAATGAACTGAAGCTATAAAAGAACTCGTAAAATTTTGTTAAT
131 GAATGGATCGTCTTGAACACTTTAAGGAACCGGATCTAGAAAAGAACTCGTAAAAGTTTGACAAG
* * * *
7604 TTAATAATTTCGTCCAAGAACCAAGAGAGAAACGATTCTCACGTAAATAAGTTTTTAATTCAAAG
196 TTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG
* * ** * **
7669 GCCAAAACTTGCTTACAAAATGACAAACTTTTTAGACCAAATTATGTTACTTCTCGCCCATGTAA
261 GCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGCGACTTCCCGAGCATGTAA
* * * *
7734 TGTTCGAAATATTGCTCGAATGATTGGATCGTCTTGAATACTTTAAGGAACCAAAGCTATGAAAG
326 TGTTCGAAAAATTGCTCGAAGGATTGGATCGTCTTGAATACTTTAAGGAACCGAAGCTATAAAAG
* * *
7799 AATTTGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAGC
391 AACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAAC
* * * *
7841 CAAGACA-AAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATTACAACATGTTTACAAAAT
1 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
* *
7905 GAAAAACTATTTAGACCAAATGATGTGATTTCCCTCGCATGGAATGTTTGGAAAATTACTCGAAG
66 GAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATGGAATGTTCGGAAAATTACTCGAAG
* * * * *
7970 GAATGGATCATCTTGAACACTTTAAGGAACCAGATTTA-AAAGGAACTCTTAAAAGTTTGACAAG
131 GAATGGATCGTCTTGAACACTTTAAGGAACCGGATCTAGAAAAGAACTCGTAAAAGTTTGACAAG
* * *
8034 -TCGGAAGTTCGTCCAACAACCAAGAGAGAAAAAATTCTCACGTAAATAAGTTTTTAATTCAAAG
196 TTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG
* *
8098 GCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGCGACTTTCCAAGCATGTAA
261 GCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGCGACTTCCCGAGCATGTAA
* *
8163 TGTTC-AGAAAATTGCTCGAAGGATTGGATCGTCTTGAATAATTTAAGGAACCGAAGTTATAAAA
326 TGTTCGA-AAAATTGCTCGAAGGATTGGATCGTCTTGAATACTTTAAGGAACCGAAGCTATAAAA
* ** *
8227 GAACTCGTCAAAGTTTGACAAGTTCAAAAGTTCGTCCGAGAAC
390 GAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAAC
* *
8270 CAAGAGAGACACAATTCTCACATAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
1 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
* *
8335 GAAAAACTATTTAGACCAAATGATGCGATTACCCTCGCATGGAATGTTCAGAAAATTACTCGAAG
66 GAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATGGAATGTTCGGAAAATTACTCGAAG
* * *
8400 GAATGGATCGTCTTGCACACTTTAAGGAACCGGATTTA-AAAAGAACACGTAAAAGTTTGACAAG
131 GAATGGATCGTCTTGAACACTTTAAGGAACCGGATCTAGAAAAGAACTCGTAAAAGTTTGACAAG
* *
8464 TTCAGAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCAGGTAAATAAGTTTTTAATTCAAAG
196 TTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG
*
8529 GCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGCGGCTTCCCGAGCATGTAA
261 GCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGCGACTTCCCGAGCATGTAA
** *
8594 TGTTCGAATTATTGCTCGAAGGATTGGATCGTCTTGAATACTTTAAGGAATCGAAGCTATAAAAG
326 TGTTCGAAAAATTGCTCGAAGGATTGGATCGTCTTGAATACTTTAAGGAACCGAAGCTATAAAAG
* * * * * * * * *
8659 GAGTCTTAAAAGTTTCAAAAGTTTGGAAGTTCATCTAAGAGC
391 AACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAAC
* *
8701 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACATGGTTACAAAAT
1 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
* ** * * *
8766 GAAAAACTATTTAGACCAAAAGATGTAATTTCCCTTGCATGGAATGTTCAGAAAATTACTTGAAG
66 GAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATGGAATGTTCGGAAAATTACTCGAAG
* * * * **
8831 GAATGGATCGTCTTGAACACTTCATGGAACCGGATTTA-AAAAGGAACTCGTAAAGGTTTGGTAA
131 GAATGGATCGTCTTGAACACTTTAAGGAACCGGATCTAGAAAA-GAACTCGTAAAAGTTTGACAA
* * * *
8895 GTTC-GGA-TTCATCCAACAACCAAGAGAGAAACAATTCTCTCAAAAGTTCGTCCAAGAACCAAG
195 GTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAA-T-TCTC---A---CGT---A-AA--TA-
**** ** * ** * *
8958 AGAGACATAATTCTCACGTAAATAAGTT-TTTAATTCAAAGATCA-AAACTTGTTTACAAAATGA
245 AG-TTTTTAATTCAAAGGCCAA-AACTTGTTT-A--CAAA-ATGACAAACTT-TTT-----A-G-
* * * *
9021 CAAACTTTTTTGACCAAATGATGCGACTTCCCGAGCATGTAACGTTAGGAAAATTTCTCGAAGGA
296 ------------ACCAAATGATGCGACTTCCCGAGCATGTAATGTTCGAAAAATTGCTCGAAGGA
* * * *
9086 TTGGATCGTCTTGAATACTCTAAGGAACTGAAGCTATAAAAGAACTCGTAAATGTTCGACAAGTT
349 TTGGATCGTCTTGAATACTTTAAGGAACCGAAGCTATAAAAGAACTCGTAAAAGTTTGACAAGTT
** *
9151 CAAAAGTTCATCCAAGAAC
414 CGGAAGTTCGTCCAAGAAC
**
9170 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGGCCAAAACTTGTTTACAAAAT
1 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
* * * * * ** * *
9235 GACAAACTTTTTGGACCAAATGATGTGACTTCCCGAGCATGTAACGTTCGGAAAATTACTCGAAG
66 GAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATGGAATGTTCGGAAAATTACTCGAAG
* * * * * * *
9300 GATTGGATCGTCTTGAATACTCTAAGGAACCGAAGCTATAAAAGAACTCGTAAAAGTTCGACAAG
131 GAATGGATCGTCTTGAACACTTTAAGGAACCGGATCTAGAAAAGAACTCGTAAAAGTTTGACAAG
* * * *
9365 TTCGGAAGTTCGTCCAAGAACCAAGAGAGACACAATTCTCATGTAAGTAAGTTTTTAATTCAAAG
196 TTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG
** * * * * * ** *
9430 ATCAAAACTTGTTTACAAAATAAAAAACTATTTAGACCAAGTGATGCGATTTCCCTCGCATGGAA
261 GCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGCGACTTCCCGAGCATGTAA
* * * * * * * ** *
9495 TGTTCAAAAAATTACTCGAAGGAATGGATCGTCTTGAACACTTTATGGAAACGGATTTAAAAAAG
326 TGTTCGAAAAATTGCTCGAAGGATTGGATCGTCTTGAATACTTTAAGGAACCGAAGCTATAAAAG
* * * * *
9560 AACTCATAAAGGTTTGGCAAGTTCGGAAGTTCATCCAACAAC
391 AACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAAC
* * * ** *
9602 CAAGAGAGAAACAATTCTCTCGTAAATAAGTTTTTAATTTAGAGGCCGAAACTTGTTTACAAAAT
1 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
* * * ** * * *
9667 GACAAACTTTTTAGACCAAATGATGCGACTTCCCGAGCATGTAACGTTCGGAAAATTACTCCAAG
66 GAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATGGAATGTTCGGAAAATTACTCGAAG
* * * * * * * * * *
9732 GATTGGATCGTCTTGAATACTCTAAGGAACCGAACCTATAAAAGAACTCGTACATGTTCGAGAAG
131 GAATGGATCGTCTTGAACACTTTAAGGAACCGGATCTAGAAAAGAACTCGTAAAAGTTTGACAAG
* * *
9797 TTCAAAAGTTCGTCCAAGAACCAAGAGATACACAATTCTCACGTAAATAAGTTTTTAATTCAAAG
196 TTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG
** * * * * ** *
9862 ATCAAAACTTTTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATGGAA
261 GCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGCGACTTCCCGAGCATGTAA
* * * *
9927 TGTTCGAAAAATTACTCGAAGGAATGGATCGTCTTGAATACTTTAATGAACTGAAGCTATAAAAG
326 TGTTCGAAAAATTGCTCGAAGGATTGGATCGTCTTGAATACTTTAAGGAACCGAAGCTATAAAAG
* * * * *
9992 AACTCGTAAAAGTTT-ATTAATTTCAGAATTTCGTGCAAGAAC
391 AACTCGTAAAAGTTTGA-CAAGTTCGGAAGTTCGTCCAAGAAC
*
10034 CAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
1 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
* ** ** **
10099 GAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGTATTTAATGAACTGAAGCTATAACAGAA
66 GAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATGGAATGTTC-G--G--A-AA-ATTA
* * ** *** * * * *
10164 CTCGTAA--AAGTTTGTTAAT-TTAAGAATTTTGTTCAA-GAACCAAGA--GAGAAACGATTCTC
124 CTCG-AAGGAA--TGGATCGTCTT--GAACACT-TT-AAGGAACC-GGATCTAGAAAAGA-ACT-
* ** * * * * * * *
10223 ACGTAAATAAGTTTTTAATTCAAAGGCCAAAACTT-GTTTACAAAATGACAAACTTTTTAGACCT
179 -CGT-AA-AAG--TTTGA--C-AAGTTCAGAAGTTCG--TCCAAGA--ACCAA-----GAGA--G
* * * ** * * * *** * *
10287 AATGATGCGACTTCCTGAC-CATGTAATGTTTGAAATATTGCTCGAAGGATTAGA-TCGTCTT--
225 AA--A--C-AATT-CTCACGTAAATAA-GTTT---TTAAT--TCAAAGGCCAAAACTTGT-TTAC
*** * * * * ** * *
10348 ATGTTTACAAAATGAAAAACTATTTAGACTAAATGATGCGATTTCCCTCGCATGGAATGTTCGGA
277 AAAATGAC--AA--A----CTTTTTAGACCAAATGATGCGACTTCCCGAGCATGTAATGTTCGAA
* * * * * ** *
10413 AAATTACTCGAAGGAATGGATCGTGTTGAACACTTTAAGGAACCGGATTTAAAAAAGAACTCGTA
334 AAATTGCTCGAAGGATTGGATCGTCTTGAATACTTTAAGGAACCGAAGCTATAAAAGAACTCGTA
*
10478 AAAGTTCGACAAGTTCGGAAGTTCGTCCAAGAAC
399 AAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAAC
* * *
10512 AAAGAGAGACACAATTCTCACGTAAATAAGTTTTTAATTCAAATATCAAAACTTGTTTACAAAAT
1 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
*
10577 GAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATGGAATGTTCGAAAAATTACTCGAAG
66 GAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATGGAATGTTCGGAAAATTACTCGAAG
* * * **
10642 GAAAGGATCGTCTTGAACACTTTAATGAA-CTGATGCTAGAAAAGAACTCGTAAAAGTTTGTTAA
131 GAATGGATCGTCTTGAACACTTTAAGGAACCGGAT-CTAGAAAAGAACTCGTAAAAGTTTGACAA
* * * **
10706 TTTAAGAATTTCGTCCAAGAACCAAGAGAGAAATGATTCTCACGTAAATAAGTTTTTAATTCAAA
195 GTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAA
* *
10771 GGACAAAACTTGTTTAC-AAATGACAAACTTTTTAGACCAAATGATGCGACTTCCCGACCATGTA
260 GGCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGCGACTTCCCGAGCATGTA
* *
10835 ATGTTCGAAATATTGCTCGAAGGATTGGATCATCTTGAATACTTTAAGGAACCGAAGCTATAAAA
325 ATGTTCGAAAAATTGCTCGAAGGATTGGATCGTCTTGAATACTTTAAGGAACCGAAGCTATAAAA
* * ** * *
10900 GAAGTCATAAAAGTTCAACAAGTTCGAAAGTTCGTCCAAGAGC
390 GAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAAC
* *
10943 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAGCAAAACATGTTTACAAAAT
1 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
* * * *
11008 GAAAAACTATTTAGACCAAATAATGCGATTTCCTTCACATGGAATGTTCGAAAAATTACTCGAAG
66 GAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATGGAATGTTCGGAAAATTACTCGAAG
* * * * * *
11073 GAATGGATCATCTTGAACACTTTAGGGAATCAGATTTAGAAAAGAACTCGAAAAAGTTTGACAAG
131 GAATGGATCGTCTTGAACACTTTAAGGAACCGGATCTAGAAAAGAACTCGTAAAAGTTTGACAAG
* * *
11138 TTCGGAAGTTCGTCCAACAACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAATTCAAAG
196 TTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG
* * ** * *
11203 GCCGAAACTCGTTTACAAAATGGTAAACTTTTTAGACCAAATAATGCGAATT-CC---C--G--A
261 GCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGCGACTTCCCGAGCATGTAA
***************************************************************
11260 -GNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
326 TGTTCGAAAAATTGCTCGAAGGATTGGATCGTCTTGAATACTTTAAGGAACCGAAGCTATAAAAG
****************************
11324 NNNNNNNNNNNNNNNNNNNNNNNNNNNNGTTCGTCCAAGAAC
391 AACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAAC
*
11366 CAAGAGAGACACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
1 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
* * * * *
11431 GAAAATCTATTTAGACTAAATGATACGATTTCTCTCGCATGGAATGTTCGGAAAATTACTCAAAG
66 GAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATGGAATGTTCGGAAAATTACTCGAAG
* * *** * * * * ** *
11496 GAATGGATTGTCTTGAACACTTTAATGAACTAAAGCTATAATAGAACTCGTATAAGTTTGTTAAT
131 GAATGGATCGTCTTGAACACTTTAAGGAACCGGATCTAGAAAAGAACTCGTAAAAGTTTGACAAG
* * * * *
11561 TTTAGAATTTCTTCCAAGAACCAAAAGAGAAACAAGTCTCACGTAAATAAGTTTTTAATTCAAAG
196 TTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG
* * * *
11626 GCCAAAACTTGTTTACAAAATGACAAGCTTTTTAGACCAAATGATGTGACTTCGCAAGCATGTAA
261 GCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGCGACTTCCCGAGCATGTAA
* * *
11691 TGTTCGAAAAATTTCTCGAAGGATTGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAT
326 TGTTCGAAAAATTGCTCGAAGGATTGGATCGTCTTGAATACTTTAAGGAACCGAAGCTATAAAAG
* * * *
11756 AACTCATAAAAGGTCGACAAGTTCGGAAGTTCGTCTAAGAAC
391 AACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAAC
* *
11798 CAAGGGAGATAA-AATTCTCACGTAAATAAGTTTTTAATTCAAAGAACAAAACTTGTTTACAAAA
1 CAAGAGAGA-AACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAA
* * * *
11862 TGAAAAGCTATTTAGACCAAATGATGCGATTTCCCTCACATGGTATGTTCGAAAAATTACTCGAA
65 TGAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATGGAATGTTCGGAAAATTACTCGAA
* * * * * * * * * *
11927 GGAATGGATCATCTTGAACACTTTAATGTACTGAAGCTATAAAAGAACTCATTAAAGTTTGTCAA
130 GGAATGGATCGTCTTGAACACTTTAAGGAACCGGATCTAGAAAAGAACTCGTAAAAGTTTGACAA
*
11992 TTTCAGAA
195 GTTCAGAA
12000 TAAGTATTTA
Statistics
Matches: 3321, Mismatches: 704, Indels: 267
0.77 0.16 0.06
Matches are distributed among these distances:
423 282 0.08
424 2 0.00
426 1 0.00
427 1 0.00
428 2 0.00
429 212 0.06
430 215 0.06
431 891 0.27
432 853 0.26
433 2 0.00
435 3 0.00
437 3 0.00
438 16 0.00
439 13 0.00
440 9 0.00
441 12 0.00
442 10 0.00
443 11 0.00
444 10 0.00
445 4 0.00
446 16 0.00
447 6 0.00
448 3 0.00
449 12 0.00
450 7 0.00
451 19 0.01
452 14 0.00
454 9 0.00
455 14 0.00
456 7 0.00
457 1 0.00
458 5 0.00
459 11 0.00
460 2 0.00
461 2 0.00
462 3 0.00
463 3 0.00
464 3 0.00
465 3 0.00
466 13 0.00
467 11 0.00
468 7 0.00
469 295 0.09
470 18 0.01
471 34 0.01
472 15 0.00
473 1 0.00
474 1 0.00
477 1 0.00
478 232 0.07
479 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.28
Consensus pattern (432 bp):
CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAAT
GAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGCATGGAATGTTCGGAAAATTACTCGAAG
GAATGGATCGTCTTGAACACTTTAAGGAACCGGATCTAGAAAAGAACTCGTAAAAGTTTGACAAG
TTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG
GCCAAAACTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGCGACTTCCCGAGCATGTAA
TGTTCGAAAAATTGCTCGAAGGATTGGATCGTCTTGAATACTTTAAGGAACCGAAGCTATAAAAG
AACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAAC
Found at i:9025 original size:20 final size:21
Alignment explanation
Indices: 9002--9041 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
8992 TCAAAGATCA
9002 AAACTTGTTT-ACAAAATGAC
1 AAACTTGTTTGACAAAATGAC
* *
9022 AAACTTTTTTGACCAAATGA
1 AAACTTGTTTGACAAAATGA
9042 TGCGACTTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (21 bp):
AAACTTGTTTGACAAAATGAC
Found at i:10256 original size:170 final size:170
Alignment explanation
Indices: 9968--10301 Score: 551
Period size: 170 Copynumber: 2.0 Consensus size: 170
9958 TCTTGAATAC
*
9968 TTTAATGAACTGAAGCTATAAAAGAACTCGTAAAAGTTTATTAATTTCAGAATTTCGTGCAAGAA
1 TTTAATGAACTGAAGCTATAAAAGAACTCGTAAAAGTTTATTAATTTAAGAATTTCGTGCAAGAA
* *
10033 CCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTACAAAA
66 CCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAA
*
10098 TGAAAAACTATTTAGACCAAATGATGCGATTTCCCTCGTA
131 TGAAAAACTATTTAGACCAAATGATGCGACTTCCCTCGTA
* * * *
10138 TTTAATGAACTGAAGCTATAACAGAACTCGTAAAAGTTTGTTAATTTAAGAATTTTGTTCAAGAA
1 TTTAATGAACTGAAGCTATAAAAGAACTCGTAAAAGTTTATTAATTTAAGAATTTCGTGCAAGAA
* *
10203 CCAAGAGAGAAACGATTCTCACGTAAATAAGTTTTTAATTCAAAGGCCAAAACTTGTTTACAAAA
66 CCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAA
* * *
10268 TGACAAACTTTTTAGACCTAATGATGCGACTTCC
131 TGAAAAACTATTTAGACCAAATGATGCGACTTCC
10302 TGACCATGTA
Statistics
Matches: 151, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
170 151 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (170 bp):
TTTAATGAACTGAAGCTATAAAAGAACTCGTAAAAGTTTATTAATTTAAGAATTTCGTGCAAGAA
CCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAA
TGAAAAACTATTTAGACCAAATGATGCGACTTCCCTCGTA
Found at i:10407 original size:92 final size:91
Alignment explanation
Indices: 10257--10436 Score: 222
Period size: 92 Copynumber: 2.0 Consensus size: 91
10247 GGCCAAAACT
* * * *
10257 TGTTTACAAAATGACAAACTTTTTAGACCTAATGATGCGACTTCCTGACCATGTAATGTT-TGAA
1 TGTTTACAAAATGAAAAACTATTTAGACCTAATGATGCGACTTCCTGA-CATGGAATGTTCGGAA
* *
10321 ATATTGCTCGAAGGATTAGATCGTCTTA
65 A-ATTACTCGAAGGAATAGATCGTCTTA
*
10349 TGTTTACAAAATGAAAAACTATTTAGA-CTAAATGATGCGATTTCCCTCG-CATGGAATGTTCGG
1 TGTTTACAAAATGAAAAACTATTTAGACCT-AATGATGCGACTT-CCT-GACATGGAATGTTCGG
*
10412 AAAATTACTCGAAGGAATGGATCGT
63 AAAATTACTCGAAGGAATAGATCGT
10437 GTTGAACACT
Statistics
Matches: 76, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
91 2 0.03
92 66 0.87
93 7 0.09
94 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (91 bp):
TGTTTACAAAATGAAAAACTATTTAGACCTAATGATGCGACTTCCTGACATGGAATGTTCGGAAA
ATTACTCGAAGGAATAGATCGTCTTA
Found at i:16872 original size:39 final size:40
Alignment explanation
Indices: 16754--16889 Score: 193
Period size: 40 Copynumber: 3.4 Consensus size: 40
16744 TTATTTTTTA
** *
16754 AAAAGGAAGGTTTATGACTCGGTAGAGTATAAGAGTGATT
1 AAAAGGAAGACTTATGACTCGGTAGAGCATAAGAGTGATT
* *
16794 AAAAGGAAGACTTATTACTCAGTAGAGCATAAGAGTGATT
1 AAAAGGAAGACTTATGACTCGGTAGAGCATAAGAGTGATT
* *
16834 AAAAGGAAGATTTATGACT-GGTAGAGCATAAGATTGATT
1 AAAAGGAAGACTTATGACTCGGTAGAGCATAAGAGTGATT
*
16873 AAAATGAAGACTTATGA
1 AAAAGGAAGACTTATGA
16890 AGTATGGAAT
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 33 0.39
40 52 0.61
ACGTcount: A:0.42, C:0.07, G:0.25, T:0.26
Consensus pattern (40 bp):
AAAAGGAAGACTTATGACTCGGTAGAGCATAAGAGTGATT
Found at i:26745 original size:24 final size:24
Alignment explanation
Indices: 26718--26765 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
26708 GAAGGTGCCC
26718 TTAGTTGATACAACAACTGCTTGG
1 TTAGTTGATACAACAACTGCTTGG
* * *
26742 TTAGTTGATATAGCTACTGCTTGG
1 TTAGTTGATACAACAACTGCTTGG
26766 AGTGATAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (24 bp):
TTAGTTGATACAACAACTGCTTGG
Found at i:26973 original size:25 final size:25
Alignment explanation
Indices: 26944--26995 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
26934 CTATCCAAAC
26944 CATATTTTTACAAGTTTAGAGGACT
1 CATATTTTTACAAGTTTAGAGGACT
26969 CATATTTTTACAAGTTTAGAGGACT
1 CATATTTTTACAAGTTTAGAGGACT
26994 CA
1 CA
26996 GTGTTGTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (25 bp):
CATATTTTTACAAGTTTAGAGGACT
Found at i:30270 original size:38 final size:36
Alignment explanation
Indices: 30211--30282 Score: 94
Period size: 36 Copynumber: 1.9 Consensus size: 36
30201 TTTTTACATT
30211 AAAAGAGATGGAGAAGAAAATAAAATAAAAAGAAAAAC
1 AAAAGAGATGGAGAAGAAAAT--AATAAAAAGAAAAAC
30249 AAAAGAGAATGGA-AA-ATAAATAATAAAAAGAAAA
1 AAAAGAG-ATGGAGAAGA-AAATAATAAAAAGAAAA
30283 TTTAAATATG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
36 13 0.41
37 1 0.03
38 13 0.41
39 5 0.16
ACGTcount: A:0.72, C:0.01, G:0.17, T:0.10
Consensus pattern (36 bp):
AAAAGAGATGGAGAAGAAAATAATAAAAAGAAAAAC
Found at i:34950 original size:22 final size:22
Alignment explanation
Indices: 34896--34947 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
34886 TATTTTATAT
34896 AATTT-ATAATTTTTTATGTTA
1 AATTTGATAATTTTTTATGTTA
34917 AATTTGATAATTTTTTA-GTTTA
1 AATTTGATAATTTTTTATG-TTA
34939 AA-TTGATAA
1 AATTTGATAA
34948 ATTAATACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 13 0.45
22 16 0.55
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.56
Consensus pattern (22 bp):
AATTTGATAATTTTTTATGTTA
Found at i:35061 original size:72 final size:71
Alignment explanation
Indices: 34918--35050 Score: 178
Period size: 72 Copynumber: 1.9 Consensus size: 71
34908 TTTATGTTAA
* * * *
34918 ATTTGATAATTTTTTAGTTTAAATTGATAAATTAATACAAAGTAAAATCTAAATTTTGATTTGAT
1 ATTTGATAATTTTTTAGTTTAAATTAATAAAGTAATACAAAGTAAAATCTAAATATTAATTTGAT
34983 AAAAAT
66 AAAAAT
* ***
34989 ATTTGATAATATTTTTAGTTTAATTTAATAAAGTAATACAAA-TGGTATCTAAATATTAATTT
1 ATTTGATAAT-TTTTTAGTTTAAATTAATAAAGTAATACAAAGTAAAATCTAAATATTAATTT
35051 ATTTAAAAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
71 25 0.47
72 28 0.53
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (71 bp):
ATTTGATAATTTTTTAGTTTAAATTAATAAAGTAATACAAAGTAAAATCTAAATATTAATTTGAT
AAAAAT
Found at i:38905 original size:109 final size:109
Alignment explanation
Indices: 38714--38994 Score: 386
Period size: 109 Copynumber: 2.6 Consensus size: 109
38704 ACAAACCATA
* * *
38714 GCGATGGTTGAGATCCTACATATGTTGCGAATTCTCGATAGCTTGTGTGAGCAGCATCATGAGTC
1 GCGATGGTTGAGATCCTACATATGTTGCGGATTCTCGATAGCTTGTGTGAGCAACATCGTGAGTC
* * *
38779 GGTGAATACTGAATGGATACTATGTTCTGATGACA-CACACCGTC
66 GATGAATACTAAATGGATACTATGTTCTGATAACATC-CACCGTC
*
38823 GCGATGGTTGAGATCCTACATATGTTGCGGATTCTCGATACCTTGTGTGAGCAACATCGTGA-TC
1 GCGATGGTTGAGATCCTACATATGTTGCGGATTCTCGATAGCTTGTGTGAGCAACATCGTGAGTC
*
38887 TGATGAATACTAAATGGATACTATGTTCTGATAACATCCACTGTC
66 -GATGAATACTAAATGGATACTATGTTCTGATAACATCCACCGTC
* * * ** * * *
38932 GTGATGGCTGAGATCCTACACATGTTATGGATTCTCAACAGCTTGTGTGAACAACATCGTGAG
1 GCGATGGTTGAGATCCTACATATGTTGCGGATTCTCGATAGCTTGTGTGAGCAACATCGTGAG
38995 CAGGTGATAT
Statistics
Matches: 152, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
108 2 0.01
109 149 0.98
110 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (109 bp):
GCGATGGTTGAGATCCTACATATGTTGCGGATTCTCGATAGCTTGTGTGAGCAACATCGTGAGTC
GATGAATACTAAATGGATACTATGTTCTGATAACATCCACCGTC
Done.