Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014079.1 Kokia drynarioides strain JFW-HI SEQ_129110, 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: 42894
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Warning! 25 characters in sequence are not A, C, G, or T
Found at i:985 original size:216 final size:216
Alignment explanation
Indices: 181--1309 Score: 1356
Period size: 216 Copynumber: 5.2 Consensus size: 216
171 AGGTACCAAA
* * * * * *
181 GTAAAAGTTTGACAAGTTCTGAAGTTAGTCCCAGAACCAAGAGAGAAATAGTTCTCACGTAAATA
1 GTAAAAGTTTGACAAGTTCGGAAGTTCGTCTCAGAACCAAAAGAGAAACAATTCTCACGTAAATA
*
246 AGTTTTTAATTCAAAGACAAAAA-TCTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCG
66 AGTTTTTAATTCAAAGACAAAAAGT-TGATTACAAAATGACAAACTATTTAGACCAAATGATGCG
* * * *
310 ATTTCCCGAGCATGGAATGTTTGAAAAATTGCTCGAAGGAAT-TATTCATCTTCAATATTTT-AT
130 ATTTCTCGAGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGA-TCATCTTCAATATTTTAAG
*
373 GAACCGAATTTATAAAAGAACTC
194 GAACCGAAGTTATAAAAGAACTC
* * * * *
396 GTAAAAGTTTGACAAGTTCGAAAGTTCATCTCAGAACCAATAGAGAAACAATTCTCAAGTACATA
1 GTAAAAGTTTGACAAGTTCGGAAGTTCGTCTCAGAACCAAAAGAGAAACAATTCTCACGTAAATA
**
461 AGTTTTTAATTC-AAGATC-AAAAGTTGA-TAGCAAAATGACAAA-TGATTTAGATAAAACT-AT
66 AGTTTTTAATTCAAAGA-CAAAAAGTTGATTA-CAAAATGACAAACT-ATTTAGACCAAA-TGAT
* *
521 GTGATTTC-CAGAGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATCATCTTGAAT-TCTT
127 GCGATTTCTC-GAGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATCATCTTCAATAT-TT
* *
584 TAAGGAACCGGAGTTATAAAAGAACTT
190 TAAGGAACCGAAGTTATAAAAGAACTC
* * * *
611 TTAAAAGCTTGACATGTTCGGAAGTTTGTC-CAAGAACC--AAGAGAAACAATTCTCACGTAAAT
1 GTAAAAGTTTGACAAGTTCGGAAGTTCGTCTC-AGAACCAAAAGAGAAACAATTCTCACGTAAAT
* * *
673 AA-TCTTTTAATTCAAAGACCAAAAGTTGATAACAAAATGAAAAACTATTTAGACCAAATGATGC
65 AAGT-TTTTAATTCAAAGACAAAAAGTTGATTACAAAATGACAAACTATTTAGACCAAATGATGC
* * * * * *
737 AATTTATCGAGCATAGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTCAATATTTTAAG
129 GATTTCTCGAGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATCATCTTCAATATTTTAAG
*
802 GAACCAAAGTTATAAAAGAACTC
194 GAACCGAAGTTATAAAAGAACTC
* *
825 GTAAAATTTTGACAAGTTCGGAAGTTCGTCTCAGAACCAAAAGAGAAACAATTCTCACATAAATA
1 GTAAAAGTTTGACAAGTTCGGAAGTTCGTCTCAGAACCAAAAGAGAAACAATTCTCACGTAAATA
* * * * *
890 AGTTTTTAATTCAAAGACAAAAATTTGTTTACAAAATGACAAACAATTTAAACCAAATGATGTGA
66 AGTTTTTAATTCAAAGACAAAAAGTTGATTACAAAATGACAAACTATTTAGACCAAATGATGCGA
* * * * * * * ***
955 TTTCTTGTGCATGGAATATTTGGAAAATTGCTTGAAGGATTGGATCGTCTTGAATGCATTAAGGA
131 TTTCTCGAGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATCATCTTCAATATTTTAAGGA
** **
1020 ATTGAAGTTATAATGGAACTC
196 ACCGAAGTTATAAAAGAACTC
* *
1041 GTAAAAGTTTGACAAGTTCAGAAGTTCGTC-CAAGAACCAAGAGAGAAACAATTCTCACGTAAAT
1 GTAAAAGTTTGACAAGTTCGGAAGTTCGTCTC-AGAACCAAAAGAGAAACAATTCTCACGTAAAT
* * * *
1105 AAGTTTTTAATTCAAAGACCAAAAGTTGATAACAAAATGAAAAACTATTTAGACCAAATGATGCA
65 AAGTTTTTAATTCAAAGACAAAAAGTTGATTACAAAATGACAAACTATTTAGACCAAATGATGCG
* *
1170 ACTTCTCGAGCATGGAATGTTCT-GAAAATTGCAT-GAAGGAATGGATTATCTTCAATATTTTAA
130 ATTTCTCGAGCATGGAATGTT-TGGAAAATTGC-TCGAAGGAATGGATCATCTTCAATATTTTAA
* *
1233 GGAATCAAAGTTATAAAAGAACTC
193 GGAACCGAAGTTATAAAAGAACTC
* * * * * *
1257 GTAAAATTTTGACAAGTTTGGAAGTTCATCTCAAAACTAATAGAGAAACAATT
1 GTAAAAGTTTGACAAGTTCGGAAGTTCGTCTCAGAACCAAAAGAGAAACAATT
1310 TGATCATCTT
Statistics
Matches: 775, Mismatches: 113, Indels: 51
0.83 0.12 0.05
Matches are distributed among these distances:
212 1 0.00
213 39 0.05
214 231 0.30
215 128 0.17
216 372 0.48
217 4 0.01
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.29
Consensus pattern (216 bp):
GTAAAAGTTTGACAAGTTCGGAAGTTCGTCTCAGAACCAAAAGAGAAACAATTCTCACGTAAATA
AGTTTTTAATTCAAAGACAAAAAGTTGATTACAAAATGACAAACTATTTAGACCAAATGATGCGA
TTTCTCGAGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATCATCTTCAATATTTTAAGGA
ACCGAAGTTATAAAAGAACTC
Found at i:1169 original size:432 final size:431
Alignment explanation
Indices: 181--1309 Score: 1571
Period size: 432 Copynumber: 2.6 Consensus size: 431
171 AGGTACCAAA
* * * *
181 GTAAAAGTTTGACAAGTTCTGAAGTTAGTCCCAGAACCAAGAGAGAAATAGTTCTCACGTAAATA
1 GTAAAAGTTTGACAAGTTCAGAAGTTAGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATA
* * * * *
246 AGTTTTTAATTCAAAGA-CAAAAATCTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCG
66 AGTTTTTAATTCAAAGACCAAAAGT-TGATAACAAAATGAAAAACTATTTAGACCAAATGATGCA
* * * *
310 ATTTCCCGAGCATGGAATGTTTGAAAAATTGCTCGAAGGAAT-TATTCATCTTCAATATTTT-AT
130 ATTTCTCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGA-TCATCTTCAATATTTTAAG
* * * *
373 GAACCGAATTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCATCTCAGAACCAATA
194 GAACCAAAGTTATAAAAGAACTCGTAAAATTTTGACAAGTTCGGAAGTTCATCTCAGAACCAATA
*
438 GAGAAACAATTCTCAAGTACATAAGTTTTTAATTCAAGATCAAAAGTTGATAGCAAAATGACAAA
259 GAGAAACAATTCTCAAGTAAATAAGTTTTTAATTCAAGATCAAAAGTTGATAGCAAAATGACAAA
** * * *
503 TGATTTAGATAAAACTATGTGATTTCCAGAGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGG
324 CAATTTAAACAAAACTATGTGATTTCCAGAGCATGGAATATTTGGAAAATTGCTCGAAGGAATGG
* * * *
568 ATCATCTTGAATTCTTTAAGGAACCGGAGTTATAAAAGAACTT
389 ATCATCTTGAATGCATTAAGGAACCGAAGTTATAAAAGAACTC
* * * * *
611 TTAAAAGCTTGACATGTTCGGAAGTTTGTCCAAGAACC-A-AGAGAAACAATTCTCACGTAAATA
1 GTAAAAGTTTGACAAGTTCAGAAGTTAGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATA
674 A-TCTTTTAATTCAAAGACCAAAAGTTGATAACAAAATGAAAAACTATTTAGACCAAATGATGCA
66 AGT-TTTTAATTCAAAGACCAAAAGTTGATAACAAAATGAAAAACTATTTAGACCAAATGATGCA
* * *
738 ATTTATCGAGCATAGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTCAATATTTTAAGG
130 ATTTCTCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCATCTTCAATATTTTAAGG
* *
803 AACCAAAGTTATAAAAGAACTCGTAAAATTTTGACAAGTTCGGAAGTTCGTCTCAGAACCAAAAG
195 AACCAAAGTTATAAAAGAACTCGTAAAATTTTGACAAGTTCGGAAGTTCATCTCAGAACCAATAG
* *
868 AGAAACAATTCTCACA-TAAATAAGTTTTTAATTCAAAGA-CAAAAATTTGTTTA-CAAAATGAC
260 AGAAACAATTCTCA-AGTAAATAAGTTTTTAATTC-AAGATC-AAAAGTTG-ATAGCAAAATGAC
* ** * *
930 AAACAATTTAAACCAAA-TGATGTGATTTCTTGTGCATGGAATATTTGGAAAATTGCTTGAAGGA
321 AAACAATTTAAACAAAACT-ATGTGATTTCCAGAGCATGGAATATTTGGAAAATTGCTCGAAGGA
* * ** **
994 TTGGATCGTCTTGAATGCATTAAGGAATTGAAGTTATAATGGAACTC
385 ATGGATCATCTTGAATGCATTAAGGAACCGAAGTTATAAAAGAACTC
*
1041 GTAAAAGTTTGACAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATA
1 GTAAAAGTTTGACAAGTTCAGAAGTTAGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATA
1106 AGTTTTTAATTCAAAGACCAAAAGTTGATAACAAAATGAAAAACTATTTAGACCAAATGATGCAA
66 AGTTTTTAATTCAAAGACCAAAAGTTGATAACAAAATGAAAAACTATTTAGACCAAATGATGCAA
* *
1171 CTTCTCGAGCATGGAATGTTCTG-AAAATTGCAT-GAAGGAATGGATTATCTTCAATATTTTAAG
131 TTTCTCGAGCATGGAATGTTC-GAAAAATTGC-TCGAAGGAATGGATCATCTTCAATATTTTAAG
* * * *
1234 GAATCAAAGTTATAAAAGAACTCGTAAAATTTTGACAAGTTTGGAAGTTCATCTCAAAACTAATA
194 GAACCAAAGTTATAAAAGAACTCGTAAAATTTTGACAAGTTCGGAAGTTCATCTCAGAACCAATA
1299 GAGAAACAATT
259 GAGAAACAATT
1310 TGATCATCTT
Statistics
Matches: 620, Mismatches: 65, Indels: 26
0.87 0.09 0.04
Matches are distributed among these distances:
427 1 0.00
428 125 0.20
429 102 0.16
430 175 0.28
431 3 0.00
432 211 0.34
433 3 0.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.29
Consensus pattern (431 bp):
GTAAAAGTTTGACAAGTTCAGAAGTTAGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATA
AGTTTTTAATTCAAAGACCAAAAGTTGATAACAAAATGAAAAACTATTTAGACCAAATGATGCAA
TTTCTCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCATCTTCAATATTTTAAGGA
ACCAAAGTTATAAAAGAACTCGTAAAATTTTGACAAGTTCGGAAGTTCATCTCAGAACCAATAGA
GAAACAATTCTCAAGTAAATAAGTTTTTAATTCAAGATCAAAAGTTGATAGCAAAATGACAAACA
ATTTAAACAAAACTATGTGATTTCCAGAGCATGGAATATTTGGAAAATTGCTCGAAGGAATGGAT
CATCTTGAATGCATTAAGGAACCGAAGTTATAAAAGAACTC
Found at i:1400 original size:98 final size:98
Alignment explanation
Indices: 1228--1404 Score: 223
Period size: 98 Copynumber: 1.8 Consensus size: 98
1218 TCTTCAATAT
***
1228 TTTAAGGAATCAAAGTTATAAAAGAACTCGTAAAATTTTGACAAGTTTGGAAGTTCATCTCAAAA
1 TTTAAGGAATCAAAGTTATAAAAGAACTCGTAAAATTTTGACAAGTTCAAAAGTTCATCTCAAAA
* *
1293 CTAATAGAGAAACAATTTGATCATCTTGTATAC
66 CCAAGAGAGAAACAATTTGATCATCTTGTATAC
* * * **
1326 TTTAAGGAATCGAAGTTATAAAGGAATTCGT-AAATGTTTGACAAGTTCAAAAGTTTGTC-CAAG
1 TTTAAGGAATCAAAGTTATAAAAGAACTCGTAAAAT-TTTGACAAGTTCAAAAGTTCATCTCAA-
*
1389 AGCCAAGAGAGAAACA
64 AACCAAGAGAGAAACA
1405 CTTCTCACAT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
97 7 0.11
98 59 0.89
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.29
Consensus pattern (98 bp):
TTTAAGGAATCAAAGTTATAAAAGAACTCGTAAAATTTTGACAAGTTCAAAAGTTCATCTCAAAA
CCAAGAGAGAAACAATTTGATCATCTTGTATAC
Found at i:1701 original size:162 final size:163
Alignment explanation
Indices: 1391--1705 Score: 375
Period size: 162 Copynumber: 1.9 Consensus size: 163
1381 TGTCCAAGAG
* * ***
1391 CCAAGAGAGAAACACTTCTCACATAAATAAGTTTTTAATTCAAAGACACACACATTTTTACAAAA
1 CCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACACAAACAGGCTTACAAAA
* * * *** *
1456 TAAAAAAACTATTTGGACCAAATGATGCGATTTCCTGAGCATGGAATGTTTGGAAAATTGCTTGA
66 TAAAAAAACTATTTAGACAAAATGATGCAATTTCCTGAGCATGGAATGTTCAAAAAATTGCTCGA
*
1521 AAGAATGGAGCGTCTTGAATACTCCTCTCAGAA
131 AAGAATGGAGCATCTTGAATACTCCTCTCAGAA
* ** * *
1554 CCAAGAGAGAAATAATTCTCATGTAAATGAGTTTTTAATTCAAAGAC-CAAAAGAGGCTTACAAA
1 CCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACAC-AAACAGGCTTACAAA
* * * *
1618 AT-GACAAACTATTTAGACAAAATGATTCAATTT-CTCGAGCATGGAATGTTCAAAAAATTTCTC
65 ATAAAAAAACTATTTAGACAAAATGATGCAATTTCCT-GAGCATGGAATGTTCAAAAAATTGCTC
* *
1681 GAAGGAATGGATCATCTTGAATACT
129 GAAAGAATGGAGCATCTTGAATACT
1706 TTAAGGAACC
Statistics
Matches: 126, Mismatches: 24, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
161 2 0.02
162 70 0.56
163 54 0.43
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (163 bp):
CCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACACAAACAGGCTTACAAAA
TAAAAAAACTATTTAGACAAAATGATGCAATTTCCTGAGCATGGAATGTTCAAAAAATTGCTCGA
AAGAATGGAGCATCTTGAATACTCCTCTCAGAA
Found at i:1885 original size:159 final size:161
Alignment explanation
Indices: 1583--1885 Score: 394
Period size: 159 Copynumber: 1.9 Consensus size: 161
1573 CATGTAAATG
* * * *
1583 AGTTTTTAATTCAAAGACCAAAAGAGGCTTACAAAATGACAAACTATTTAGACAAAATGATTCAA
1 AGTTTTTAATTCAAAAACCAAAAGAGGATAACAAAATGACAAACTATTTAGAC---ATGATGCAA
* * * *
1648 TTTCTCGAGCATGGAATGTTCAAAAAATTTCTCGAAGGAATGGATCATCTTGAATACTTTAAGGA
63 TTTCTCGAGCATGGAATGTTCAAAAAATTGCTCGAAAGAATGGATCATCCTAAATACTTTAAGGA
*
1713 ACCGAAGTAATAAAGGAACTCGAAAGGTTTGACA
128 ACCAAAGTAATAAAGGAACTCGAAAGGTTTGACA
** * * *
1747 AGTTTTTAATTCAAAAACCAAAAGTTGATAACAAAATTACGAACTATTTAGAC-T-ATGCGATTT
1 AGTTTTTAATTCAAAAACCAAAAGAGGATAACAAAATGACAAACTATTTAGACATGATGCAATTT
* * * *
1810 TTCGAGCATGGAATGTTCAATAAATTGCTCGAAAGAATGGATCATCCTAAATTCTTTAAGGAATC
66 CTCGAGCATGGAATGTTCAAAAAATTGCTCGAAAGAATGGATCATCCTAAATACTTTAAGGAACC
*
1875 AAAGTTATAAA
131 AAAGTAATAAA
1886 AGAAATCATA
Statistics
Matches: 120, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
159 73 0.61
160 1 0.01
164 46 0.38
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (161 bp):
AGTTTTTAATTCAAAAACCAAAAGAGGATAACAAAATGACAAACTATTTAGACATGATGCAATTT
CTCGAGCATGGAATGTTCAAAAAATTGCTCGAAAGAATGGATCATCCTAAATACTTTAAGGAACC
AAAGTAATAAAGGAACTCGAAAGGTTTGACA
Found at i:2593 original size:417 final size:414
Alignment explanation
Indices: 2041--3271 Score: 1438
Period size: 419 Copynumber: 2.9 Consensus size: 414
2031 GGAATGTTCA
* * * * * *
2041 TCTTCAATATTTTAAGGAACTGAAGTTAT-AAAAGATCTCGTAAAAATTTTACAACTTCGGAAAT
1 TCTTCAATATTTTAAGGAACCGAAGTTATAAAAAAAT-TCGTAAAAGTTTTACTAGTTCGGAAGT
* * *
2105 TCGTCTCAAAACCAATAAAGAAAGAATTCTCATGTAAATAAGTTTTTAATTAAAAGACAAAAATT
65 TCGTCTCAGAACCAATAGAGAAACAATTCTCATGTAAATAAGTTTTTAATT-AAAGAC-AAAATT
* *
2170 TGTTTACAAAATGACAAACTATTTTGACAGAATGATTCAATTTCCCGAGCATGGAATGTTTGAAA
128 TGTTTACAAAATGACAAACTATTTAGACA-AATGATTCAATTTCCCGAGCATGGAATGTTCGAAA
* *
2235 AATTGCTCAAAGGAATGGATCGTCTTGAATACTTTTTAAGAATCGAAGTAATAAAGAATCTTGTA
192 AATTGCTCAAAGGAATGGATCGTCTTGAATACTTTTTAAGAACCAAAGTAATAAAGAATCTTGTA
* * * * *
2300 AAAGTTTCACAAGTTCTTCAATCCATCCAAGAACCAAGAGAAACAATTCTCACGTAAATACGTCT
257 AAAGTTTGACAAGTTCTTCAATTCGTCCAAGAACCAAGAGAAACAATTCTCACGTAAATAAGTTT
* * * *
2365 CTAATTCAAAGACCAAAACTTTTTTAGAATATGACAAACTATTTAAACCAAATGGTGAGATTTCC
322 TTAATTCAAAGACCAAAACTTTTTTAGAATATGACAAACTATTTAAACCAAATGATGCGATTTCT
2430 CGAGAAAATTGCTCGAAGGAATGGATCG
387 CGAGAAAATTGCTCGAAGGAATGGATCG
*
2458 TCTTCAATATTTTAAGGAACCAAAGTTATAAAAAAATTCGTAAAAGTTTTACTAGTTCGGAAGTT
1 TCTTCAATATTTTAAGGAACCGAAGTTATAAAAAAATTCGTAAAAGTTTTACTAGTTCGGAAGTT
* * * * * **
2523 CGTCTCAGATCCAACAGAGAAACAATTCTCACGTAAATGAGTTCTTAATTCAAAGACGAAAACAT
66 CGTCTCAGAACCAATAGAGAAACAATTCTCATGTAAATAAGTTTTTAATT-AAAGAC-AAAATTT
* * * *
2588 GTTTACAGAAA-GGCAAAATATTTACACAAAATGATTCAATTTCCCGAGTATGGAATGTTCGAAA
129 GTTTACA-AAATGACAAACTATTTAGAC-AAATGATTCAATTTCCCGAGCATGGAATGTTCGAAA
* * * * * * *
2652 ATTTGTTTAAAGGAATGGATAGTCTTGAATACTTTTTAAGAACCAAAGTAATAGAGGATCGTGTA
192 AATTGCTCAAAGGAATGGATCGTCTTGAATACTTTTTAAGAACCAAAGTAATAAAGAATCTTGTA
* * *
2717 AAAGTTTGACAAGTTCTTTTCAGTTCGTCCAAGAACCAAAAGAAACAATTCTCACGTAAATATGT
257 AAAGTTTGACAAGTTC--TTCAATTCGTCCAAGAACCAAGAGAAACAATTCTCACGTAAATAAGT
* *
2782 TTTTAATTCAAAGACCAAAACTTGTTTAGAATATTACAAACTATTTAAACCAAATGATGCGATTT
320 TTTTAATTCAAAGACCAAAACTTTTTTAGAATATGACAAACTATTTAAACCAAATGATGCGATTT
* *
2847 CTCGAGAAAATTGCTTGAAGGAATGTATCG
385 CTCGAGAAAATTGCTCGAAGGAATGGATCG
* * ** * * * * * *
2877 TGTTGAATGCTTTATGGAATCGAAGTTATAAAAGAACTCGTAGAAGTTTTTA-TAAGTTCGGATG
1 TCTTCAATATTTTAAGGAACCGAAGTTATAAAAAAATTCGTAAAAG-TTTTACT-AGTTCGGAAG
2941 TTCGTC-CAAGAACCAATAGAGAAACAATTCTCATGTAAATAAGTTTTTAATGTAAAGACAAAAT
64 TTCGTCTC-AGAACCAATAGAGAAACAATTCTCATGTAAATAAGTTTTTAAT-TAAAGACAAAA-
** * * **
3005 TTTGTTTACAAAATGTTAAACTATTTAGACCAAATTATGT-GATTT-CTTATGCATGGAATGTTC
126 TTTGTTTACAAAATGACAAACTATTTAGA-CAAATGAT-TCAATTTCCCGA-GCATGGAATGTTC
* * * * * *
3068 GGAAAATTGCTCGAAGGAATGGATCATCTTGAATAC--ATTAAGGAACCAAAGTTATAACGGAA-
188 GAAAAATTGCTCAAAGGAATGGATCGTCTTGAATACTTTTTAA-GAACCAAAGTAATAA-AGAAT
* * ** *
3130 CTCGTAAAAGTTTGACAACTTC-GGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGCA
251 CTTGTAAAAGTTTGACAAGTTCTTCAA-TTCGTCCAAGAACC-A-AGAGAAACAATTCTCACGTA
* * * * * * * *
3194 AATAAGTTTTTTATTCAAAGACCAAAAGTTTATAACAAAATGAAAAACTATTTAGACCAAATGAT
313 AATAAGTTTTTAATTCAAAGACCAAAACTTTTTTAGAATATGACAAACTATTTAAACCAAATGAT
3259 GCGATTTCTCGAG
378 GCGATTTCTCGAG
3272 CATGGAATGT
Statistics
Matches: 688, Mismatches: 107, Indels: 36
0.83 0.13 0.04
Matches are distributed among these distances:
416 1 0.00
417 241 0.35
418 15 0.02
419 292 0.42
420 136 0.20
421 3 0.00
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (414 bp):
TCTTCAATATTTTAAGGAACCGAAGTTATAAAAAAATTCGTAAAAGTTTTACTAGTTCGGAAGTT
CGTCTCAGAACCAATAGAGAAACAATTCTCATGTAAATAAGTTTTTAATTAAAGACAAAATTTGT
TTACAAAATGACAAACTATTTAGACAAATGATTCAATTTCCCGAGCATGGAATGTTCGAAAAATT
GCTCAAAGGAATGGATCGTCTTGAATACTTTTTAAGAACCAAAGTAATAAAGAATCTTGTAAAAG
TTTGACAAGTTCTTCAATTCGTCCAAGAACCAAGAGAAACAATTCTCACGTAAATAAGTTTTTAA
TTCAAAGACCAAAACTTTTTTAGAATATGACAAACTATTTAAACCAAATGATGCGATTTCTCGAG
AAAATTGCTCGAAGGAATGGATCG
Found at i:3012 original size:203 final size:201
Alignment explanation
Indices: 2738--3271 Score: 565
Period size: 216 Copynumber: 2.6 Consensus size: 201
2728 AGTTCTTTTC
*
2738 AGTTCGTCCAAGAACCAAA-AGAAACAATTCTCACGTAAATATGTTTTTAATTCAAAGACCAAAA
1 AGTTCGTCCAAGAACCAAAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAA
* * * * * *
2802 CTTGTTTAGAATATTACAAACTATTTAAACCAAATGATGCGATTTCTCGAGAAAATTGCTTGAAG
66 TTTGTTTACAAAATTAAAAACTATTTAGACCAAATGATGCGATTTCTCGAGAAAATTGCTCGAAG
* * * * * * * * * * *
2867 GAATGTATCGTGTTGAATGCTTTATGGAATCGAAGTTATAAAAGAACTCGTAGAAGTTTTTATAA
131 GAATGGATCATCTTGAATACATTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAG-TTTGACAA
*
2932 GTTCGGA
195 CTTCGGA
* *
2939 TGTTCGTCCAAGAACCAATAGAGAAACAATTCTCATGTAAATAAGTTTTTAATGT-AAAGA-CAA
1 AGTTCGTCCAAGAACCAA-AGAGAAACAATTCTCACGTAAATAAGTTTTTAAT-TCAAAGACCAA
* * *
3002 AATTTTGTTTACAAAATGT-TAAACTATTTAGACCAAATTATGTGATTTCTTATGCATGGAATGT
64 AA-TTTGTTTACAAAAT-TAAAAACTATTTAGACCAAATGATGCGATTTC---T-C---G-A---
**
3066 TCGGAAAATTGCTCGAAGGAATGGATCATCTTGAATACATTAAGGAACCAAAGTTATAACGGAAC
116 ---GAAAATTGCTCGAAGGAATGGATCATCTTGAATACATTAAGGAACCAAAGTTATAAAAGAAC
3131 TCGTAAAAGTTTGACAACTTCGGA
178 TCGTAAAAGTTTGACAACTTCGGA
* *
3155 AGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGCAAATAAGTTTTTTATTCAAAGACCAAA
1 AGTTCGTCCAAGAACCAA-AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
* * *
3220 AGTTT-ATAACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCTCGAG
65 A-TTTGTTTACAAAATTAAAAACTATTTAGACCAAATGATGCGATTTCTCGAG
3272 CATGGAATGT
Statistics
Matches: 274, Mismatches: 37, Indels: 43
0.77 0.10 0.12
Matches are distributed among these distances:
201 17 0.06
202 7 0.03
203 72 0.26
204 2 0.01
206 1 0.00
207 1 0.00
208 1 0.00
209 1 0.00
210 1 0.00
211 1 0.00
212 1 0.00
213 1 0.00
215 1 0.00
216 100 0.36
217 67 0.24
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (201 bp):
AGTTCGTCCAAGAACCAAAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAA
TTTGTTTACAAAATTAAAAACTATTTAGACCAAATGATGCGATTTCTCGAGAAAATTGCTCGAAG
GAATGGATCATCTTGAATACATTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAC
TTCGGA
Found at i:3234 original size:216 final size:215
Alignment explanation
Indices: 2851--3378 Score: 639
Period size: 216 Copynumber: 2.4 Consensus size: 215
2841 CGATTTCTCG
* * * * *
2851 AGAAAATTGCTTGAAGGAATGTATCGTGTTGAATGCTTTATGGAATCGAAGTTATAAAAGAACTC
1 AGAAAATTGC-TGAAGGAATGGATCATCTTGAATACTTTAAGGAATCGAAGTTATAAAAGAACTC
* * * * * * *
2916 GTAGAAGTTTTTATAAGTTCGGATGTTCGTCCAAGAACCAATAGAGAAACAATTCTCATGTAAAT
65 GTAAAAG-TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGCAAAT
* * * ** * *
2981 AAGTTTTTAATGTAAAGACAAAATTTTGTTTACAAAATGTTAAACTATTTAGACCAAATTATGTG
129 AAGTTTTTAATGTAAAGACAAAAGTTTGATAACAAAATGAAAAACTATTTAGACCAAATGATGCG
*
3046 ATTTCT-TATGCATGGAATGTTC
194 ATTTCTCGA-GCATGGAATGTTC
* * * * **
3068 GGAAAATTGCTCGAAGGAATGGATCATCTTGAATACATTAAGGAACCAAAGTTATAACGGAACTC
1 AGAAAATTGCT-GAAGGAATGGATCATCTTGAATACTTTAAGGAATCGAAGTTATAAAAGAACTC
*
3133 GTAAAAGTTTGACAACTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGCAAATA
65 GTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGCAAATA
*
3198 AGTTTTTTAT-TCAAAGACCAAAAGTTT-ATAACAAAATGAAAAACTATTTAGACCAAATGATGC
130 AGTTTTTAATGT-AAAGA-CAAAAGTTTGATAACAAAATGAAAAACTATTTAGACCAAATGATGC
3261 GATTTCTCGAGCATGGAATGTTC
193 GATTTCTCGAGCATGGAATGTTC
* ** * * * *
3284 AAAAAATTGCATGATTGAATGGATTATCTTCAATATTTTGAGGAATCGAAGTTATAAAAGAACTC
1 AGAAAATTGC-TGAAGGAATGGATCATCTTGAATACTTTAAGGAATCGAAGTTATAAAAGAACTC
* *
3349 GTAAAATTTTGACAAGTTTGGAAGTTCGTC
65 GTAAAAGTTTGACAAGTTCGGAAGTTCGTC
3379 TCAAAACACA
Statistics
Matches: 262, Mismatches: 44, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
215 1 0.00
216 193 0.74
217 68 0.26
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (215 bp):
AGAAAATTGCTGAAGGAATGGATCATCTTGAATACTTTAAGGAATCGAAGTTATAAAAGAACTCG
TAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGCAAATAA
GTTTTTAATGTAAAGACAAAAGTTTGATAACAAAATGAAAAACTATTTAGACCAAATGATGCGAT
TTCTCGAGCATGGAATGTTC
Found at i:3304 original size:419 final size:412
Alignment explanation
Indices: 1812--3271 Score: 1300
Period size: 419 Copynumber: 3.5 Consensus size: 412
1802 TGCGATTTTT
* * * *
1812 CGAGCATGGAATGTTCAATAAATTGCTCGAAA-GAATGGATCATCCTAAATTC-TTTAAGGAATC
1 CGAGCATGGAATGTTCAA-AAATTGCTC-AAAGGAATGGATCATCTTGAATACTTTTAA-GAACC
* * * * *
1875 AAAGTTATAAAAGAAATCATAACA-TTTGACAAGTTC-AAAAGCTT-GT-CAAGAACCAAGAGAG
63 AAAGTAAT-AAAGAACTCGTAAAAGTTTGACAAGTTCTTAAAG-TTCGTCCAAGAACCAA-AGAG
* * * * *
1936 AAACAATTCTCATGTGAATAAG-TTTTAATTC-AAGATCAAAAGTTGATAACAAAATGACAAACT
125 AAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTTATAACAAAATGACAAACT
** * * * * * * *
1999 ATTTAGGCAAAACT-ATGCGATTTCCCGAG--CA-TG-----G-AATG-TTCATCTTCAATATTT
190 ATTTAAACCAAA-TGATGCGATTTCCCGAGAAAATTGTTCAAGAAATGCATCGTATTGAAT-GTT
* * * * *
2053 TAAGGAACTGAAGTTATAAAAGATCTCGTAAAAATTTTACAACTTCGGAAATTCGTCTCAA-AAC
253 TAAGGAAC-GAAGTTATAAAAGAACTCGT-AAAGTTTTATAAGTTCGGAAGTTCGTCTCAAGAAC
* *
2117 CAATAAAGAAAGAATTCTCATGTAAATAAGTTTTTAATTAAAAGACAAAAATTTGTTTACAAAAT
316 CAATAGAGAAACAATTCTCATGTAAATAAGTTTTTAATTAAAAGAC-AAAATTTGTTTACAAAAT
*
2182 GACAAACTATTTTGA-CAGAATGATTCAATTTCC
380 GACAAACTATTTAGACCA-AATGATTCAATTTCC
* * * *
2215 CGAGCATGGAATGTTTGAAAAATTGCTCAAAGGAATGGATCGTCTTGAATACTTTTTAAGAATCG
1 CGAGCATGGAATG-TTCAAAAATTGCTCAAAGGAATGGATCATCTTGAATAC-TTTTAAGAACCA
* * * * *
2280 AAGTAATAAAGAATCTTGTAAAAGTTTCACAAGTTCTTCAA-TCCATCCAAGAACC-AAGAGAAA
64 AAGTAATAAAGAA-CTCGTAAAAGTTTGACAAGTTCTTAAAGTTCGTCCAAGAACCAAAGAGAAA
* * * * * * *
2343 CAATTCTCACGTAAATACGTCTCTAATTCAAAGACCAAAACTTTTTTAGAATATGACAAACTATT
128 CAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTTATAACAAAATGACAAACTATT
* * * * * * * *
2408 TAAACCAAATGGTGAGATTTCCCGAGAAAATTGCTCGAAGGAATGGATCGTCTTCAATATTTTAA
193 TAAACCAAATGATGCGATTTCCCGAGAAAATTGTTC-AAGAAATGCATCGTATTGAAT-GTTTAA
* * * *
2473 GGAACCAAAGTTATAAAAAAATTCGTAAAAGTTTTACT-AGTTCGGAAGTTCGTCTC-AGATCCA
256 GGAA-CGAAGTTATAAAAGAACTCGT-AAAGTTTTA-TAAGTTCGGAAGTTCGTCTCAAGAACCA
* * * * * **
2536 ACAGAGAAACAATTCTCACGTAAATGAGTTCTTAATTCAAAGACGAAAACATGTTTACAGAAA-G
318 ATAGAGAAACAATTCTCATGTAAATAAGTTTTTAATTAAAAGAC-AAAATTTGTTTACA-AAATG
* * * *
2600 GCAAAATATTTACACAAAATGATTCAATTTCC
381 ACAAACTATTTAGACCAAATGATTCAATTTCC
* * * *
2632 CGAGTATGGAATGTTCGAAAATTTGTTTAAAGGAATGGAT-AGTCTTGAATACTTTTTAAGAACC
1 CGAGCATGGAATGTTC-AAAAATTGCTCAAAGGAATGGATCA-TCTTGAATAC-TTTTAAGAACC
* * **
2696 AAAGTAATAGAGGA-TCGTGTAAAAGTTTGACAAGTTCTTTTCAGTTCGTCCAAGAACCAAA-AG
63 AAAGTAATAAAGAACTC--GTAAAAGTTTGACAAGTTC-TTAAAGTTCGTCCAAGAACCAAAGAG
* * * * *
2759 AAACAATTCTCACGTAAATATGTTTTTAATTCAAAGACCAAAACTTGT-TTAGAATATTACAAAC
125 AAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTT-TATAACAAAATGACAAAC
* * * * *
2823 TATTTAAACCAAATGATGCGATTTCTCGAGAAAATTGCTTGAAGGAATGTATCGTGTTGAATGCT
189 TATTTAAACCAAATGATGCGATTTCCCGAGAAAATTG-TTCAAGAAATGCATCGTATTGAATG-T
* *
2888 TTATGGAATCGAAGTTATAAAAGAACTCGTAGAAGTTTTTATAAGTTCGGATGTTCGTC-CAAGA
252 TTAAGGAA-CGAAGTTATAAAAGAACTCGTA-AAG-TTTTATAAGTTCGGAAGTTCGTCTCAAGA
2952 ACCAATAGAGAAACAATTCTCATGTAAATAAGTTTTTAATGT-AAAGACAAAATTTTGTTTACAA
314 ACCAATAGAGAAACAATTCTCATGTAAATAAGTTTTTAAT-TAAAAGACAAAA-TTTGTTTACAA
** * *
3016 AATGTTAAACTATTTAGACCAAATTATGT-GATTT-C
377 AATGACAAACTATTTAGACCAAATGAT-TCAATTTCC
** * * *
3051 TTATGCATGGAATGTTCGGAAAATTGCTCGAAGGAATGGATCATCTTGAATAC-ATTAAGGAACC
1 CGA-GCATGGAATGTTC-AAAAATTGCTCAAAGGAATGGATCATCTTGAATACTTTTAA-GAACC
* * * **
3115 AAAGTTATAACGGAACTCGTAAAAGTTTGACAACTTC-GGAAGTTCGTCCAAGAACCAAGAGAGA
63 AAAGTAATAA-AGAACTCGTAAAAGTTTGACAAGTTCTTAAAGTTCGTCCAAGAACCAA-AGAGA
* * * *
3179 AACAATTCTCACGCAAATAAGTTTTTTATTCAAAGACCAAAAGTTTATAACAAAATGAAAAACTA
126 AACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTTATAACAAAATGACAAACTA
* *
3244 TTTAGACCAAATGATGCGATTTCTCGAG
191 TTTAAACCAAATGATGCGATTTCCCGAG
3272 CATGGAATGT
Statistics
Matches: 867, Mismatches: 136, Indels: 92
0.79 0.12 0.08
Matches are distributed among these distances:
402 3 0.00
403 44 0.05
404 44 0.05
405 26 0.03
406 57 0.07
408 1 0.00
409 2 0.00
415 2 0.00
416 7 0.01
417 241 0.28
418 15 0.02
419 279 0.32
420 141 0.16
421 5 0.01
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (412 bp):
CGAGCATGGAATGTTCAAAAATTGCTCAAAGGAATGGATCATCTTGAATACTTTTAAGAACCAAA
GTAATAAAGAACTCGTAAAAGTTTGACAAGTTCTTAAAGTTCGTCCAAGAACCAAAGAGAAACAA
TTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTTATAACAAAATGACAAACTATTTAA
ACCAAATGATGCGATTTCCCGAGAAAATTGTTCAAGAAATGCATCGTATTGAATGTTTAAGGAAC
GAAGTTATAAAAGAACTCGTAAAGTTTTATAAGTTCGGAAGTTCGTCTCAAGAACCAATAGAGAA
ACAATTCTCATGTAAATAAGTTTTTAATTAAAAGACAAAATTTGTTTACAAAATGACAAACTATT
TAGACCAAATGATTCAATTTCC
Found at i:3493 original size:98 final size:99
Alignment explanation
Indices: 3319--3499 Score: 217
Period size: 98 Copynumber: 1.8 Consensus size: 99
3309 ATCTTCAATA
* * ** *
3319 TTTTGAGGAATCGAAGTTATAAAAGAACTCGTAAAATTTTGACAAGTTTGGAAGTTCGTCTCAAA
1 TTTTGAGGAATCAAAGTTATAAAAGAACTCATAAAATTTTGACAAGTTCAGAAGTTCATCTCAAA
* *
3384 ACACATAGAGAAATAATTTGATCGTCTTGTATAC
66 ACACAGAGAGAAACAATTTGATCGTCTTGTATAC
* *
3418 TTTT-AGGAATCAAAGTTATAAAGGAATTCAT-AAATGTTTGACAAGTTCAGAAGTTCATC-CAA
1 TTTTGAGGAATCAAAGTTATAAAAGAACTCATAAAAT-TTTGACAAGTTCAGAAGTTCATCTCAA
*
3480 GAGC-CAAGAGAGAAACAATT
65 -AACAC-AGAGAGAAACAATT
3500 CTCACATAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
97 8 0.12
98 57 0.83
99 4 0.06
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.30
Consensus pattern (99 bp):
TTTTGAGGAATCAAAGTTATAAAAGAACTCATAAAATTTTGACAAGTTCAGAAGTTCATCTCAAA
ACACAGAGAGAAACAATTTGATCGTCTTGTATAC
Found at i:3814 original size:201 final size:201
Alignment explanation
Indices: 3458--3841 Score: 522
Period size: 201 Copynumber: 1.9 Consensus size: 201
3448 TAAATGTTTG
*
3458 ACAAGTTCAGAAGTTCATCCAAGAGCCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATT
1 ACAAGTTCAGAAGTTCATCCAAGAGCCAAGAGAGAAACAATTCTCACATAAATAAGTCTTTAATT
** * * * * *
3523 CAAAGACACAAACATTTTTACAAAATAAAAACCTATTTGGACCAAATGATACGATTTCCTGAGCA
66 CAAAGACACAAACAGGTTTACAAAATAAAAACCTATTTAGACAAAATAATACAATTTCCCGAGCA
** *
3588 TGGAATGTTCGGAAAATTGCTCGAAGGAATGGAGCGTCTTGAATACTTTAAGGTACCAAAGTAAA
131 TGGAATGTTCAAAAAATTGCTCGAAGGAATGGAGCATCTTGAATACTTTAAGGTACCAAAGTAAA
3653 AGTCTA
196 AGTCTA
* * * ** *
3659 ACAAGTTCAGAAGTTCCTCTC-AGATCCAAGAGAGAAATAATTCTCATGTAAATGAGTCTTTAAT
1 ACAAGTTCAGAAGTTCATC-CAAGAGCCAAGAGAGAAACAATTCTCACATAAATAAGTCTTTAAT
* * *
3723 TCAAAGATCA-AAAGAGGTTTACAAAATGACAAA-CTATTTAGACAAAATAATTCAATTTCCCGA
65 TCAAAGA-CACAAACAGGTTTACAAAAT-AAAAACCTATTTAGACAAAATAATACAATTTCCCGA
* *
3786 GCATGGAATGTTCAAAAAATTTCTCGAAGGAATGGATCATCTTGAATACTTTAAGG
128 GCATGGAATGTTCAAAAAATTGCTCGAAGGAATGGAGCATCTTGAATACTTTAAGG
3842 AATCGAAGTA
Statistics
Matches: 158, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
201 151 0.96
202 7 0.04
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (201 bp):
ACAAGTTCAGAAGTTCATCCAAGAGCCAAGAGAGAAACAATTCTCACATAAATAAGTCTTTAATT
CAAAGACACAAACAGGTTTACAAAATAAAAACCTATTTAGACAAAATAATACAATTTCCCGAGCA
TGGAATGTTCAAAAAATTGCTCGAAGGAATGGAGCATCTTGAATACTTTAAGGTACCAAAGTAAA
AGTCTA
Found at i:4157 original size:204 final size:200
Alignment explanation
Indices: 3801--4200 Score: 559
Period size: 204 Copynumber: 2.0 Consensus size: 200
3791 GAATGTTCAA
* * * * *
3801 AAAATTTCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAATCGAAGTAATAAAGGAACTTGT
1 AAAATTGCTCAAAGGAATCGATCATCTTAAATACTTTAAGGAATCAAAGTAATAAAGGAACTTGT
* * * *
3866 TAAGGTTTGACAAGTTCTGAAGTTCGTGAAAGAACCAAGAGATACAATTCTCACATAAATAAGTT
66 AAAAGTTTGACAAGTTCTGAAGTTCGTCAAAGAACCAAGAGAAACAATTCTCACATAAATAAGTT
*
3931 TTTAATTCAAAGACCAAAACTTGTTTAGAAAATGACAAACTATTTAGACCAAATGATGCGATTTC
131 TTTAATCCAAAGACCAAAACTTGTTTAGAAAATGACAAACTATTTAGACCAAATGATGCGATTTC
3996 CCGAG
196 CCGAG
* * **
4001 AAAATTGCTCAAAGGAATCGATCGTCTTAAATACTTTATGGAATCAAAGTTGTAAAGGAACTCGT
1 AAAATTGCTCAAAGGAATCGATCATCTTAAATACTTTAAGGAATCAAAGTAATAAAGGAACT--T
** *
4066 GTAAAAGTTTGACAAGTT-TGAAAGTTCGTCATGGAACCAAGAGAGAAGCAATTCTCACGTAAAT
64 GTAAAAGTTTGACAAGTTCTG-AAGTTCGTCAAAGAACCAAGAGA-AA-CAATTCTCACATAAAT
* * * *
4130 GAGTTTTTAATCCAAAGACCAAAACTTGTTTAGAAAATGTCAAACTATTTAGATCAAATGATGTG
126 AAGTTTTTAATCCAAAGACCAAAACTTGTTTAGAAAATGACAAACTATTTAGACCAAATGATGCG
4195 ATTTCC
191 ATTTCC
4201 TGAGCATGGA
Statistics
Matches: 174, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
200 53 0.30
201 2 0.01
202 37 0.21
203 1 0.01
204 81 0.47
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (200 bp):
AAAATTGCTCAAAGGAATCGATCATCTTAAATACTTTAAGGAATCAAAGTAATAAAGGAACTTGT
AAAAGTTTGACAAGTTCTGAAGTTCGTCAAAGAACCAAGAGAAACAATTCTCACATAAATAAGTT
TTTAATCCAAAGACCAAAACTTGTTTAGAAAATGACAAACTATTTAGACCAAATGATGCGATTTC
CCGAG
Found at i:4646 original size:39 final size:39
Alignment explanation
Indices: 4600--4698 Score: 162
Period size: 39 Copynumber: 2.5 Consensus size: 39
4590 TTAAATAGGG
* *
4600 TTTTAATGTGTCTTAGTTTTATACATATTTAATAGTTGT
1 TTTTAATGTGTCTTAGTTTGATACATATTTAATAGTTGC
*
4639 TTTTAATGTGTCTTAGCTTGATACATATTTAATAGTTGC
1 TTTTAATGTGTCTTAGTTTGATACATATTTAATAGTTGC
*
4678 TTTTAATGTGTCTAAGTTTGA
1 TTTTAATGTGTCTTAGTTTGA
4699 GACAAATTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.25, C:0.07, G:0.15, T:0.53
Consensus pattern (39 bp):
TTTTAATGTGTCTTAGTTTGATACATATTTAATAGTTGC
Found at i:6553 original size:215 final size:215
Alignment explanation
Indices: 5763--7896 Score: 2105
Period size: 216 Copynumber: 10.1 Consensus size: 215
5753 GATCATTTAA
*
5763 AATACTTTAAGGAACCGAAGTTATAAAAGAACT--TAAAAGTTTGACAAGTTTGGAAGTTCGTCC
1 AATACTTTAAGGAACCGAAGTTATAAAA-AACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCC
* * * *
5826 AAGAACTAAGAGTGAAACAATTCTCACGCAAATAAGTTTTTAATTCAAAGACC-AAAGTTGTTTA
65 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * ** * ** *
5890 CAAAATGACGAACTATTTAGAACAAATGATACGATTTCTAGAGCATGG-ATGGCTCAAAAAATTT
130 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAAT-GTTCGGAAAATTG
5954 CTCGAAGGAATGGATCGTCTTG
194 CTCGAAGGAATGGATCGTCTTG
* * * * * * *
5976 AATACTGTAAGGAGCCGAAGTTATGGAAGAGCTCTTAAAAGTTTGACAAGTTCGGAAGTTAGTCC
1 AATACTTTAAGGAACCGAAGTTAT-AAAAAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCC
*
6041 AAGAACC-A-AGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGA-CAAAATCTTGTTT
65 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAA-CTTGTTT
* * * * * *
6103 ACAGAATGACAAACTATTTAGACCAAATGATGCAAATTCCCGAGCATGGAATGTTTGAAAAATTA
129 ACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGGAAAATTG
*
6168 CTCAAAGGAATGGATCGTCTTG
194 CTCGAAGGAATGGATCGTCTTG
* * * * * *
6190 AATACTTTGAGGAACCGAAGTTCTTAAATAACTTGTAAAAGTTTGACAAGTTCGGAATTTCGTCT
1 AATACTTTAAGGAACCGAAGTT-ATAAAAAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCC
* * * * * * * *
6255 AGGAATCAAGATAGAAACAATTCTCACGGAAATAAGATTTTAGTTTAAAGACCAAAATTTGTTTA
65 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * *
6320 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCTGTGCATGGAATTTTCGGGAAATTGC
130 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGGAAAATTGC
* *
6385 TCGCAA-GAATGGATCGCCTTC
195 TCG-AAGGAATGGATCGTCTTG
* * * * * * ** *
6406 AATATTTTAATGAACCGAAGTTATAAAAAACTCATAAAAGGTTAACAAATTCAAAAGTTCATCTC
1 AATACTTTAAGGAACCGAAGTTATAAAAAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTC-C
* *
6471 -AGAACCAATAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACCTGTTTA
65 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * * * *
6535 CAAAATGACAAACTATTTAGACCAAATGATTCGATTTCTCGAGCGTGAAATGTTTGAAAAATTGC
130 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGGAAAATTGC
** *
6600 TTTAAGGAATGAATCGTCTTG
195 TCGAAGGAATGGATCGTCTTG
** * * * * * *
6621 AGCACTTTAAGGAATCGAAGTTATAAAGATCTTGTAAAAGTTTGAAAAGTTTGGAAGGTT-GTCC
1 AATACTTTAAGGAACCGAAGTTATAAAAAACTCGTAAAAGTTTGACAAGTTCGGAA-GTTCGTCC
* * * * *
6685 AAGAACCAAGAGAGAAATAATTCTCACATGAATAAGTTTTTAATTCAAACACCAAAAGTTGTTTA
65 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * ** * **
6750 CAAAATGACAAACTTTTTAGACCAAATGATTCGATTTCCCGAGCAAAGAATGCTCGGAAAATTAT
130 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGGAAAATTGC
* * *
6815 TCGGATGAATTGATCGTCTTG
195 TCGAAGGAATGGATCGTCTTG
* * * * * ** **
6836 AATACTTTAATGAACCAAAGTTATAAAGGAACTCATAACAGTTTGATTAGTTCAAAAGTTCGTCC
1 AATACTTTAAGGAACCGAAGTTATAAA-AAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCC
* * ** *
6901 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAATA-TACAATTTTTTTT
65 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCA-AAACTTGTTT
* * * *
6965 ACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGTATGGAATGTTCGGTAAATTA
129 ACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGGAAAATTG
* *
7030 CTTGAAGGAATGGATCGACTTG
194 CTCGAAGGAATGGATCGTCTTG
* * *
7052 AAATACTTTAAGGTACC-----------AAA---GTAAAAGTTTGACAAATTTGGAAGTTCGTCC
1 -AATACTTTAAGGAACCGAAGTTATAAAAAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGT-C
* * * * * * * *
7103 CAA-AATCAAAAGAGAAATAATTCTCATGTAAATGAGATTTTATTTCAAAGACCAAAACCTGTTT
64 CAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTT
* * * * * *
7167 ACAAAATGAAAAACTATTTAGACAAAATGATTCGGTTTCCCGAGCATGGAATGTTCGAAAAATTT
129 ACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGGAAAATTG
* * * *
7232 CACGAAGGAATGGGTCATCTTC
194 CTCGAAGGAATGGATCGTCTTG
* * * *** *
7254 AATACTTTAAGGAACCGAAGTAATAAAGGAACTCGTAAAAG-TT-ATAAGTTATTAAGTTCGTCA
1 AATACTTTAAGGAACCGAAGTTATAAA-AAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCC
* * ** *
7317 AAGAACC-A-TGAGATACAATTCTCATTTAAATAAGTTTTTAATTCAAAAACCAAAACTTGTTTA
65 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * *
7380 GAAAATGACAAACTTTTTAGACCAAATGATGTGATTT--C---C-T-G-A------GAAAAATGC
130 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGGAAAATTGC
* *
7431 TTGAAGGAATGGATCGTCTTA
195 TCGAAGGAATGGATCGTCTTG
* ** *
7452 AATACTTTAAGGAATCGGTGTTGTAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGT-C
1 AATACTTTAAGGAACCGAAGTTATAAAA-AACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCC
* ** * * *
7516 AAGGAAGCAAGAGAGAAGGAATTCTCATGTAAATAAGTTTTTAATCCAAAGACCAAAACCTGTTT
65 AA-GAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTT
* * * *
7581 ACAAAAT-ACCAAACTATTTAGACTAAATGATACGATTTCCCGAGAAT-GATATGTTTGGAAAAT
129 ACAAAATGA-CAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGA-ATGTTCGGAAAAT
* *
7644 TGCTCGAAGGAATGGATCGTTTTA
192 TGCTCGAAGGAATGGATCGTCTTG
* * * * * *
7668 AATACATTAAGGAATCTATGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTTCATCC
1 AATACTTTAAGGAACCGAAGTTATAAAA-AACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCC
* * * *
7733 AAGAACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGATAA
65 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * * *
7798 TAAAATGACAAACTATTTAGACTAAACT-ATGCGATTTCCCGACCACGGAATGTTCAGAAAATTG
130 CAAAATGACAAACTATTTAGACCAAA-TGATGCGATTTCCCGAGCATGGAATGTTCGGAAAATTG
*
7862 CTCGAAGGAATGGATCGTCTTA
194 CTCGAAGGAATGGATCGTCTTG
*
7884 AATACTTTGAGGA
1 AATACTTTAAGGA
7897 GAAGATGATA
Statistics
Matches: 1558, Mismatches: 301, Indels: 121
0.79 0.15 0.06
Matches are distributed among these distances:
198 56 0.04
199 4 0.00
200 18 0.01
201 17 0.01
202 216 0.14
203 5 0.00
204 2 0.00
205 3 0.00
206 1 0.00
207 1 0.00
208 2 0.00
210 2 0.00
212 77 0.05
213 72 0.05
214 155 0.10
215 386 0.25
216 513 0.33
217 28 0.02
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (215 bp):
AATACTTTAAGGAACCGAAGTTATAAAAAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCA
AGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTAC
AAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGGAAAATTGCT
CGAAGGAATGGATCGTCTTG
Found at i:7850 original size:832 final size:843
Alignment explanation
Indices: 5749--7893 Score: 2402
Period size: 832 Copynumber: 2.5 Consensus size: 843
5739 GATCATATCA
* *
5749 AATGGATCAT-TTAAAATACTTTAAGGAACCGAAGTTATAAAAGAACT-TAAAAGTTTGACAAGT
1 AATGGATCGTCTT-AAATACTTTAAGGAATCGAAGTTATAAAAGAACTGTAAAAGTTTGACAAGT
* *
5812 TTGGAAGTTCGTCCAAGAACTAAGAGTGAAACAATTCTCACGCAAATAAGTTTTTAATTCAAAGA
65 TTGGAAGTTCGTCCAAGAAC-AAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* ** *
5877 CC-AAAGTTGTTTACAAAATGACGAACTATTTAGAACAAATGATACGATTTCTAGAGCATGGAT-
129 CCAAAAGTTGTTTACAAAATGACAAACTATTTAG-ACAAATGATACGATTTCCCGAGAAT-GATA
* ** * * * **
5940 GGCTCAAAAAATTTCTCGAAGGAATGGATCGTCTTGAATACTGTAAGGAGCCGAAGTTATGGAAG
192 TGCTCGGAAAATTACTCGAAGGAATGGATCGTCTTGAATACT-TAAGGAACCAAAGTTATAAAAG
* * * *
6005 AGCTCTTAAAAGTTTGACAAGTTCGGAAGTT-AGTCCAAGAACC-A-AGAGAAACAATTCTCACA
256 AACTCATAAAAGTTTGACAAGTTCAGAAGTTCA-TCCAAGAACCAAGAGAGAAACAATTCTCACG
*
6067 TAAATAAGTTTTTAATTCAAAGACAAAATCTTGTTTACAGAATGACAAACTATTTAGACCAAATG
320 TAAATAAGTTTTTAATTCAAAGACAAAA-CTTGTTTACAAAATGACAAACTATTTAGACCAAATG
* * * * *
6132 ATGCAAATTCCCGAGCATGGAATGTTTGAAAAATTACTCAAAGGAATGGATCGTCTTG-AATACT
384 ATGCGATTTCCCGAGCATGGAATGTTCGGAAAATTACTCGAAGGAATGGATCGTCTTGAAATACT
* * * * *
6196 TTGAGGAACCGAAGTTCTTAAATAACTTGTAAAAGTTTGACAAGTTCGGAATTTCGTCTAGGAAT
449 TT---GAA-CG-AGTAC-T-AATAA--TGTAAAAGTTTGACAAATTCGGAAGTTCGTCCAGAAAT
* * **
6261 CAAGATAGAAACAATTCTCACGGAAATAAGATTTTAGTTTAAAGACCAAAATTTGTTTACAAAAT
505 CAAAAGAGAAACAATTCTCACGGAAATAAGATTTTAGTTTAAAGACCAAAACCTGTTTACAAAAT
* * * * * ** *
6326 GACAAACTATTTAGACCAAATGATGCGATTTCCTGTGCATGGAATTTTCGGGAAATTGCTCGCAA
570 GAAAAACTATTTAGACAAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCACGCAA
* * * *
6391 GAATGGATCGCCTTCAATATTTTAATGAACCGAAGTTATAAAAAACTCATAAAAGGTTAACAAAT
635 GAATGGATCACCTTCAATACTTTAAGGAACCGAAGTAATAAAAAACTCATAAAAGGTTAACAAAT
** *
6456 TCAAAAGTTCATCTCAGAACCAATAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
700 TCAAAAGTTCATCAAAGAACCAATAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAAA
6521 CCAAAACCTGTTTACAAAATGACAAACTATTTAGACCAAATGATTCGATTTCTCGAGCGTGAAAT
765 CCAAAACCTGTTTACAAAATGACAAACTATTTAGACCAAATGATTCGATTTCTC--GCGTG-AA-
*
6586 GTTTGAAAAATTGCTTTAAGG
826 ---TGAAAAATTGCTTGAAGG
* * ** * *
6607 AATGAATCGTCTTGAGCACTTTAAGGAATCGAAGTTAT-AAAGATCTTGTAAAAGTTTGAAAAGT
1 AATGGATCGTCTTAAATACTTTAAGGAATCGAAGTTATAAAAGAAC-TGTAAAAGTTTGACAAGT
* * * *
6671 TTGGAAGGTT-GTCCAAGAACCAAGAGAGAAATAATTCTCACATGAATAAGTTTTTAATTCAAAC
65 TTGGAA-GTTCGTCCAAGAA-CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG
* * *
6735 ACCAAAAGTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATTCGATTTCCCGAGCAAAGA-
128 ACCAAAAGTTGTTTACAAAATGACAAACTATTTAGA-CAAATGATACGATTTCCCGAG-AATGAT
* * * * * *
6799 ATGCTCGGAAAATTATTCGGATGAATTGATCGTCTTGAATACTTTAATGAACCAAAGTTATAAAG
191 ATGCTCGGAAAATTACTCGAAGGAATGGATCGTCTTGAATAC-TTAAGGAACCAAAGTTATAAAA
* ** * *
6864 GAACTCATAACAGTTTGATTAGTTCAAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACG
255 GAACTCATAAAAGTTTGACAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACG
* * ** *
6929 TAAATAAGTTTTTAATTCAAATATACAATTTTTTTTACAAAATGACAAACTATTTAGACCAAATG
320 TAAATAAGTTTTTAATTCAAAGACA-AAACTTGTTTACAAAATGACAAACTATTTAGACCAAATG
* * * * *
6994 ATGCGATTTCTCGAGTATGGAATGTTCGGTAAATTACTTGAAGGAATGGATCGACTTGAAATACT
384 ATGCGATTTCCCGAGCATGGAATGTTCGGAAAATTACTCGAAGGAATGGATCGTCTTGAAATACT
* *
7059 TT-AA-G-GTAC-CA-AA-GTAAAAGTTTGACAAATTTGGAAGTTCGTCCCA-AAATCAAAAGAG
449 TTGAACGAGTACTAATAATGTAAAAGTTTGACAAATTCGGAAGTTCGT-CCAGAAATCAAAAGAG
* * * *
7117 AAATAATTCTCATGTAAATGAGATTTTA-TTTCAAAGACCAAAACCTGTTTACAAAATGAAAAAC
513 AAACAATTCTCACGGAAATAAGATTTTAGTTT-AAAGACCAAAACCTGTTTACAAAATGAAAAAC
* * *
7181 TATTTAGACAAAATGATTCGGTTTCCCGAGCATGGAATGTTCGAAAAATTTCACG-AAGGAATGG
577 TATTTAGACAAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCACGCAA-GAATGG
* * * * * * *
7245 GTCATCTTCAATACTTTAAGGAACCGAAGTAATAAAGGAACTCGTAAAA-GTT-ATAAGTT-ATT
641 ATCACCTTCAATACTTTAAGGAACCGAAGTAATAAA-AAACTCATAAAAGGTTAACAAATTCA-A
* * **
7307 AAGTTCGTCAAAGAACC-AT-GAGATACAATTCTCATTTAAATAAGTTTTTAATTCAAAAACCAA
704 AAGTTCATCAAAGAACCAATAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAAACCAA
* * *
7370 AACTTGTTTAGAAAATGACAAACTTTTTAGACCAAATGATGT-GA-TT-TC-C-TG-A-GAAAAA
769 AACCTGTTTACAAAATGACAAACTATTTAGACCAAATGAT-TCGATTTCTCGCGTGAATGAAAAA
7428 -TGCTTGAAGG
833 TTGCTTGAAGG
** *
7438 AATGGATCGTCTTAAATACTTTAAGGAATCGGTGTTGTAAAAGAACTCGTAAAAGTTTGACAAGT
1 AATGGATCGTCTTAAATACTTTAAGGAATCGAAGTTATAAAAGAACT-GTAAAAGTTTGACAAGT
* ** * *
7503 TCGGAAGTTCGT-CAAGGAAGCAAGAGAGAAGGAATTCTCATGTAAATAAGTTTTTAATCCAAAG
65 TTGGAAGTTCGTCCAA-GAA-CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG
**
7567 ACCAAAACCTGTTTACAAAAT-ACCAAACTATTTAGACTAAATGATACGATTTCCCGAGAATGAT
128 ACCAAAAGTTGTTTACAAAATGA-CAAACTATTTAGAC-AAATGATACGATTTCCCGAGAATGAT
* * * * * * * *
7631 ATGTTTGGAAAATTGCTCGAAGGAATGGATCGTTTTAAATACATTAAGGAATCTATGTTATAAAA
191 ATGCTCGGAAAATTACTCGAAGGAATGGATCGTCTTGAATAC-TTAAGGAACCAAAGTTATAAAA
* *
7696 GAACTCGTAAAAGTTTGACAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCATG
255 GAACTCATAAAAGTTTGACAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACG
* * * * *
7761 TAAATAAGTTTTTAATTCAAAGACCAAAAGTTGATAATAAAATGACAAACTATTTAGACTAAACT
320 TAAATAAGTTTTTAATTCAAAGA-CAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAA-T
* * * *
7826 -ATGCGATTTCCCGACCACGGAATGTTCAGAAAATTGCTCGAAGGAATGGATCGTCTT-AAATAC
383 GATGCGATTTCCCGAGCATGGAATGTTCGGAAAATTACTCGAAGGAATGGATCGTCTTGAAATAC
7889 TTTGA
448 TTTGA
7894 GGAGAAGATG
Statistics
Matches: 1085, Mismatches: 171, Indels: 88
0.81 0.13 0.07
Matches are distributed among these distances:
831 62 0.06
832 334 0.31
833 2 0.00
837 1 0.00
839 2 0.00
840 1 0.00
843 2 0.00
844 2 0.00
845 79 0.07
846 4 0.00
847 24 0.02
848 172 0.16
849 12 0.01
851 2 0.00
852 1 0.00
855 3 0.00
857 7 0.01
858 30 0.03
859 75 0.07
860 136 0.13
861 3 0.00
862 121 0.11
863 10 0.01
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (843 bp):
AATGGATCGTCTTAAATACTTTAAGGAATCGAAGTTATAAAAGAACTGTAAAAGTTTGACAAGTT
TGGAAGTTCGTCCAAGAACAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACC
AAAAGTTGTTTACAAAATGACAAACTATTTAGACAAATGATACGATTTCCCGAGAATGATATGCT
CGGAAAATTACTCGAAGGAATGGATCGTCTTGAATACTTAAGGAACCAAAGTTATAAAAGAACTC
ATAAAAGTTTGACAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATA
AGTTTTTAATTCAAAGACAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGAT
TTCCCGAGCATGGAATGTTCGGAAAATTACTCGAAGGAATGGATCGTCTTGAAATACTTTGAACG
AGTACTAATAATGTAAAAGTTTGACAAATTCGGAAGTTCGTCCAGAAATCAAAAGAGAAACAATT
CTCACGGAAATAAGATTTTAGTTTAAAGACCAAAACCTGTTTACAAAATGAAAAACTATTTAGAC
AAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCACGCAAGAATGGATCACCTTCA
ATACTTTAAGGAACCGAAGTAATAAAAAACTCATAAAAGGTTAACAAATTCAAAAGTTCATCAAA
GAACCAATAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAAACCAAAACCTGTTTACA
AAATGACAAACTATTTAGACCAAATGATTCGATTTCTCGCGTGAATGAAAAATTGCTTGAAGG
Found at i:10432 original size:217 final size:214
Alignment explanation
Indices: 9939--11845 Score: 1814
Period size: 216 Copynumber: 9.0 Consensus size: 214
9929 CATATCAGCA
* * * * * *
9939 GAAGTTATAAAAGAACTCGTTAATGTTTGACTAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAA
1 GAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTGA-AAGTTCGTCCAAGAACCAAGAGAGAA
* * ** *
10004 ATAATTCTCACGTAAATAAGATTTTAATTCAAAG-----ATTTTCTTTACAAAATGACAAACTAT
65 ACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTATTTACAAAATGACAAACTAT
* * * * *
10064 TTAGACCAAATGATGT-GATTTCCTGTGCATGCAATGCT-AGAAAAATTGCTCGAAGGAATGAAT
130 TTAGA-CAAATGAT-TCGATTTCCCGAGCATGGAATGTTCAG-AAAATTGCTCGAAGGAATGGAT
* *
10127 CATCTTTAATACTTTAAGGAACC
192 CGTCTTGAATACTTTAAGGAACC
* * *
10150 GAAGTTATAAAAGAACTCATAAAAGTTTAACAAGTTCGGAAGTTCGTCCAAGAAGCAAGAGAGAA
1 GAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTT-GAAAGTTCGTCCAAGAACCAAGAGAGAA
* * * * * * *
10215 ATAATTCTCGCGTAAATAAGTTTTTAGTTCAAAGATCAAAACCTATTTCCAAAACGACAAACTAT
65 ACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTATTTACAAAATGACAAACTAT
* * * * ** *
10280 TTAGAGAGAATGATTCAATTTCCCAAGCATGGAATGTTCAGAAAATTGCTCGAAGAAATTAATTG
130 TTAGACA-AATGATTCGATTTCCCGAGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGATCG
* *
10345 TCTTGAATACTTTTAAAGAATC
194 TCTTGAATAC-TTTAAGGAACC
* * * * * *
10367 GAAGTAATAAAGGATCTCGTAAAAGTTTGACAAGTTGTTAAGTTCGTCCAGGAACCAAGAGAGAA
1 GAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTG-AAAGTTCGTCCAAGAACCAAGAGAGAA
* * *
10432 ACAATTCTCACGTAAATAAATTTTTAATTCAAGGA-CATAAACTTTTTTACAAAATGACAAACTA
65 ACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCA-AAACTTATTTACAAAATGACAAACTA
* * * *
10496 TTTAGACCAAATGATGCGATTTCTC-AGGAATGGAATGTTCAGAAAATTACTCGAAGGAATGGAT
129 TTTAGA-CAAATGATTCGATTTCCCGA-GCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGAT
** * *
10560 TTTCTTGAATACTGTAAGGTACC
192 CGTCTTGAATACTTTAAGGAACC
*
10583 ---------AAAG------TAAAAGTTTGACAAGTTCGAAAGTTCGTCCTAGAACCAAGAGAGAA
1 GAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTT-GAAAGTTCGTCCAAGAACCAAGAGAGAA
* * * * * * *
10633 ACTATTCTCACGTAAATTAGTTTTAAATTCTAATG-CCAAAACATCTTTAC-AAATCACAAACTA
65 ACAATTCTCACGTAAATAAGTTTTTAATTC-AAAGACCAAAACTTATTTACAAAATGACAAACTA
* * ** *
10696 TTTAGACAAAATGATTCAATTTCTCGAGCATGGAATGTTTGGAAAATTGTTCGAAGGAATGGATC
129 TTTAGAC-AAATGATTCGATTTCCCGAGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGATC
* *
10761 GTCTTTAATACTTTTAAAGAACC
193 GTCTTGAATAC-TTTAAGGAACC
* * * **
10784 GAAGTAATAAATGATCTCATAAAAGTTTGACAAGTTCTTAAGTTCGTCCAAGAACCAAGAGAGAA
1 GAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTT-GAAAGTTCGTCCAAGAACCAAGAGAGAA
* * * *
10849 ACAATTCTCACGTAAATAAGTTTTTAATTCGAAGACCAAAAGTTGA-TAACAAAATGATAAACTA
65 ACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTT-ATTTACAAAATGACAAACTA
* * * * ** * * * *
10913 TTTAGAGTAAACT-ATGCGATTACCCGAGCATGTAATGTTTGGGAAATTGTTCAAAGGAATGAAT
129 TTTAGA-CAAA-TGATTCGATTTCCCGAGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGAT
* * *
10977 CAATGTTGAATATTTTTAAGGAACC
192 C-GTCTTGAATA-CTTTAAGGAACC
* * * ** * * *
11002 GAAGTAATAAAGGATCTCATAAAAAGTTTGACAAGTTCTTAAGTTCCTTCAAGAA-CTA-AGAGA
1 GAAGTTATAAAAGAACTCAT-AAAAGTTTGACAAGTT-GAAAGTTCGTCCAAGAACCAAGAGAGA
* * *
11065 AACAATTCTCACGTAAATAAGTTTTTAACTCAAAGACCAAAACTTGTTTAGAAAATGACAAACTA
64 AACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTATTTACAAAATGACAAACTA
* * * *
11130 TTTAGACCAAATGATGCGATTT--C---C-T---A-----AGAAAATTGCTCGTAGGAATGCATT
129 TTTAGA-CAAATGATTCGATTTCCCGAGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGATC
* *
11181 GTTTTGAATACTTTAAGGAAAC
193 GTCTTGAATACTTTAAGGAACC
* * * * *
11203 GAAGTTATAAAAGAACTCATAAAAGTTTGACAAGCTCGGAAGTTCGTCCCAGAATCAATAGAGAA
1 GAAGTTATAAAAGAACTCATAAAAGTTTGACAAG-TTGAAAGTTCGTCCAAGAACCAAGAGAGAA
* * * * *
11268 ACAATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAAGTTGA-TAACAAAATAAGAAACTA
65 ACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTT-ATTTACAAAATGACAAACTA
* **
11332 TTTAGACTAAACT-ATGCGATTTCTTGAGCATGGAATGTTCTA-AAAATTGCTCGAAGGAATGGA
129 TTTAGAC-AAA-TGATTCGATTTCCCGAGCATGGAATGTTC-AGAAAATTGCTCGAAGGAATGGA
11395 TCGTCTTGAATACTTTAAGGAACC
191 TCGTCTTGAATACTTTAAGGAACC
* * *
11419 GAAGTTATAAAAGAACT-AGTAAAAGTTTAACAAGTTCGAAAGTTCGTCCCAGAACCAATAGAGA
1 GAAGTTATAAAAGAACTCA-TAAAAGTTTGACAAGTT-GAAAGTTCGTCCAAGAACCAAGAGAGA
* * * * * *
11483 AACAATTTTCACGTAAATAAGTTTTTAATTTAAAGACCAAAACCTGTTTACAAAATGAAAAACTT
64 AACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTATTTACAAAATGACAAACTA
* *
11548 TTTAGACAAAATGATTCGATTACCCGAGCATAGAATGTTC-GAAAAATTGCTCGAAGGAATGGAT
129 TTTAGAC-AAATGATTCGATTTCCCGAGCATGGAATGTTCAG-AAAATTGCTCGAAGGAATGGAT
* * *
11612 CATCTTGTATACTTTAAGGAACT
192 CGTCTTGAATACTTTAAGGAACC
* *
11635 GAAGTTATAAAGGAACTCGTAAAAGTTTGACAAGTTTGAAAGTTCGTCCAAGAACCAAGAGAGAA
1 GAAGTTATAAAAGAACTCATAAAAGTTTGACAAG-TTGAAAGTTCGTCCAAGAACCAAGAGAGAA
* *
11700 ACAATTCTCACATAAATAAGTTTTTAATTCAAAGA-CATAAACTTTTTTACAAAATGACAAACTA
65 ACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCA-AAACTTATTTACAAAATGACAAACTA
* *
11764 TTTA-ACAAAATGATGT-GATTTCCAGAGCATGTAATGTTC-GATAAATTGCTCGAAGGAATGGA
129 TTTAGAC-AAATGAT-TCGATTTCCCGAGCATGGAATGTTCAGA-AAATTGCTCGAAGGAATGGA
* *
11826 TTGTCTTGTATACTTTAAGG
191 TCGTCTTGAATACTTTAAGG
11846 TGCCAAAGTA
Statistics
Matches: 1412, Mismatches: 207, Indels: 150
0.80 0.12 0.08
Matches are distributed among these distances:
199 1 0.00
200 100 0.07
201 117 0.08
202 93 0.07
203 19 0.01
207 4 0.00
208 2 0.00
210 3 0.00
211 88 0.06
212 1 0.00
214 1 0.00
215 78 0.06
216 507 0.36
217 326 0.23
218 40 0.03
219 32 0.02
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.29
Consensus pattern (214 bp):
GAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTGAAAGTTCGTCCAAGAACCAAGAGAGAAA
CAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTATTTACAAAATGACAAACTATT
TAGACAAATGATTCGATTTCCCGAGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGATCGTC
TTGAATACTTTAAGGAACC
Found at i:11761 original size:20 final size:20
Alignment explanation
Indices: 11738--11776 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11728 TCAAAGACAT
* *
11738 AAACTTTTTTACAAAATGAC
1 AAACTATTTAACAAAATGAC
11758 AAACTATTTAACAAAATGA
1 AAACTATTTAACAAAATGA
11777 TGTGATTTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.13, G:0.05, T:0.31
Consensus pattern (20 bp):
AAACTATTTAACAAAATGAC
Found at i:12349 original size:215 final size:216
Alignment explanation
Indices: 11895--12809 Score: 548
Period size: 216 Copynumber: 4.3 Consensus size: 216
11885 AGACCCAAGA
* * *
11895 GACAAACTA-TTAGAACAAAATGATGCAATTTCCCAAGCATGGAATGTTTGAAAAATTGCTCGAG
1 GACAAACTATTTA-AACAAAATGATGCAATTTCCCGAGCATGGAATGTTAGAAAAATTGCTCGAA
* * * *
11959 GGAATGACTCGTCTTGAATACTTTGAGGAACCGAAGTTATAAAAGAATTGGTAAAAGTTTGACAA
65 GGAATGACTCGTCTTGAATACTTTAAAGAACCGAAGTAATAAAAGAATTGGTAAAAGTTTAACAA
* * **
12024 GTTCAAAAGTTCATCCAACAACCTAGAGAGAAACAATTCTCACGTAAATGTGATTTTAATTCAAA
130 GCTCAAAAGTTCATCCAACAACCCAGAGAGAAACAATTCTCACGTAAATGACATTTTAATTCAAA
12089 GACCAAAACATGTTTACAGAAT
195 GACCAAAACATGTTTACAGAAT
* * * *
12111 GACAAAATATTTAGACAAAATGATTCAATTTCCCGAGCATGGAATGTTCAG-AAAATTGTTCGAA
1 GACAAACTATTTAAACAAAATGATGCAATTTCCCGAGCATGGAATGTT-AGAAAAATTGCTCGAA
* *
12175 GG-ATGGA-TCGTCTTGAATACTTTTAAAGAACCGAAGTAAT-AAAGGATCTTGTAAAAGTTTAA
65 GGAAT-GACTCGTCTTGAATAC-TTTAAAGAACCGAAGTAATAAAAGAAT-TGGTAAAAGTTTAA
*** ** * * *
12237 CAAGCTCTTCAGTTTGTCCAAGAACCCA-AGAGAAATAGTTCTCACGTAAAT-ACATTTTTAATT
127 CAAGCTCAAAAGTTCATCCAACAACCCAGAGAGAAACAATTCTCACGTAAATGACA-TTTTAATT
* *
12300 CAAAGACCAAAACTTGTTTAGA-ATAT
191 CAAAGACCAAAACATGTTTACAGA-AT
* * * * *
12326 TACAAACTATTTAAACCAAATGATGCGATTT-CC---C-------G--AG-AAAATTGCTTG-AT
1 GACAAACTATTTAAACAAAATGATGCAATTTCCCGAGCATGGAATGTTAGAAAAATTGCTCGAAG
** * * * * *
12376 G--T-A-TCGTCTTGAATGA-TTTATGGAATCGAAGTTATAAAAGAACTCGTAAAAGTTTTTACA
66 GAATGACTCGTCTTGAAT-ACTTTAAAGAACCGAAGTAATAAAAGAATTGGTAAAAG-TTTAACA
* *** * * ** * * * * **
12436 AGTTTGGATGTTCGTCCATGAACCAATAGTGAAACAATTCTCACGTAAATAAGTTTTTAATGT-A
129 AGCTCAAAAGTTCATCCAACAACCCAGAGAGAAACAATTCTCACGTAAATGACATTTTAAT-TCA
** *
12500 AAGA-CAAAATTTTGTTTACAAAAT
193 AAGACCAAAA-CATGTTTACAGAAT
** * * * * ** ** * * *
12524 GTTAAGCTATTTAGACCAAATTATGTGATTT-CTTATGCATGGAATATTCGGAAAATTGCTCGAA
1 GACAAACTATTTAAACAAAATGATGCAATTTCCCGA-GCATGGAATGTTAGAAAAATTGCTCGAA
* * * * ** * * * *
12588 GGAATGGA-TCATCTTGAATACATTAAGGAACCGAAGTTATAATGGAACTCGTCAAAGTTTGACA
65 GGAAT-GACTCGTCTTGAATACTTTAAAGAACCGAAGTAATAAAAGAATTGGTAAAAGTTTAACA
* ** * * * ** * **
12652 AGTTCGGAAG-TCAGTCCAAGAACCAAGAGAGAAACAATTCTCATGCGAATAAGTTTTTAATTCA
129 AGCTCAAAAGTTCA-TCCAACAACCCAGAGAGAAACAATTCTCACGTAAATGACATTTTAATTCA
** * * *
12716 AAGACCAAAAGTTGATAACAAAAT
193 AAGACCAAAACATGTTTACAGAAT
* * * * * *
12740 GAAAAACTATTTACACCAAATGATGCGATTTCTCGAGCATGGAATGTTCAG-AAAATTGCACGAA
1 GACAAACTATTTAAACAAAATGATGCAATTTCCCGAGCATGGAATGTT-AGAAAAATTGCTCGAA
12804 GGAATG
65 GGAATG
12810 GATTAACTTC
Statistics
Matches: 555, Mismatches: 104, Indels: 81
0.75 0.14 0.11
Matches are distributed among these distances:
196 23 0.04
197 45 0.08
198 68 0.12
199 4 0.01
200 2 0.00
201 11 0.02
202 1 0.00
204 1 0.00
211 2 0.00
212 10 0.02
213 2 0.00
214 4 0.01
215 102 0.18
216 228 0.41
217 52 0.09
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (216 bp):
GACAAACTATTTAAACAAAATGATGCAATTTCCCGAGCATGGAATGTTAGAAAAATTGCTCGAAG
GAATGACTCGTCTTGAATACTTTAAAGAACCGAAGTAATAAAAGAATTGGTAAAAGTTTAACAAG
CTCAAAAGTTCATCCAACAACCCAGAGAGAAACAATTCTCACGTAAATGACATTTTAATTCAAAG
ACCAAAACATGTTTACAGAAT
Found at i:12760 original size:216 final size:216
Alignment explanation
Indices: 12397--12907 Score: 636
Period size: 216 Copynumber: 2.4 Consensus size: 216
12387 AATGATTTAT
* * *
12397 GGAATCGAAGTTATAAAAGAACTCGTAAAAGTTTTTACAAGTTTGGATGTTCGTCCATGAACCAA
1 GGAATCGAAGTTATAAAAGAACTCGTAAAAG-TTTGACAAGTTTGGAAGTTCGTCCAAGAACCAA
* * * * * **
12462 TAGTGAAACAATTCTCACGTAAATAAGTTTTTAATGTAAAGACAAAATTTTGTTTACAAAATGTT
65 TAGAGAAACAATTCTCACGCAAATAAGTTTTTAATGTAAAGACAAAATGTTGATAACAAAATGAA
* * * * * * *
12527 AAGCTATTTAGACCAAATTATGTGATTTCT-TATGCATGGAATATTCGGAAAATTGCTCGAAGGA
130 AAACTATTTACACCAAATGATGCGATTTCTCGA-GCATGGAATATTCAGAAAATTGCACGAAGGA
* *
12591 ATGGATCATCTTGAATACATTAA
194 ATGGATCAACTTCAATACATTAA
* ** * *
12614 GGAACCGAAGTTATAATGGAACTCGTCAAAGTTTGACAAGTTCGGAAG-TCAGTCCAAGAACCAA
1 GGAATCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTTGGAAGTTC-GTCCAAGAACCAA
* * *
12678 GAGAGAAACAATTCTCATGCGAATAAGTTTTTAAT-TCAAAGACCAAAA-GTTGATAACAAAATG
65 TAGAGAAACAATTCTCACGCAAATAAGTTTTTAATGT-AAAGA-CAAAATGTTGATAACAAAATG
*
12741 AAAAACTATTTACACCAAATGATGCGATTTCTCGAGCATGGAATGTTCAGAAAATTGCACGAAGG
128 AAAAACTATTTACACCAAATGATGCGATTTCTCGAGCATGGAATATTCAGAAAATTGCACGAAGG
* **
12806 AATGGATTAACTTCAATATTTTAA
193 AATGGATCAACTTCAATACATTAA
* *
12830 GGAATCAAAGTTATAAAAGAACTCGTAAAATTTTGACAAGTTTGGAAGTTCGTCTCAA-AACCAA
1 GGAATCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTTGGAAGTTCGTC-CAAGAACCAA
12894 TAGAGAAACAATTC
65 TAGAGAAACAATTC
12908 GATCGTCTTG
Statistics
Matches: 249, Mismatches: 39, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
215 3 0.01
216 208 0.84
217 38 0.15
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.29
Consensus pattern (216 bp):
GGAATCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTTGGAAGTTCGTCCAAGAACCAAT
AGAGAAACAATTCTCACGCAAATAAGTTTTTAATGTAAAGACAAAATGTTGATAACAAAATGAAA
AACTATTTACACCAAATGATGCGATTTCTCGAGCATGGAATATTCAGAAAATTGCACGAAGGAAT
GGATCAACTTCAATACATTAA
Found at i:12997 original size:98 final size:98
Alignment explanation
Indices: 12825--13005 Score: 240
Period size: 98 Copynumber: 1.8 Consensus size: 98
12815 ACTTCAATAT
* ***
12825 TTTAAGGAATCAAAGTTATAAAAGAACTCGTAAAATTTTGACAAGTTTGGAAGTTCGTCTCAAAA
1 TTTAAGGAATCAAAGTTATAAAAGAACTCATAAAATTTTGACAAGTTCAAAAGTTCGTCTCAAAA
* *
12890 CCAATAGAGAAACAATTCGATCGTCTTGTATAC
66 CAAAGAGAGAAACAATTCGATCGTCTTGTATAC
* * *
12923 TTTAAGGAATCGAAGTTATAAAGGAATTCAT-AAATGTTTGACAAGTTCAAAAGTTCGTC-CAAG
1 TTTAAGGAATCAAAGTTATAAAAGAACTCATAAAAT-TTTGACAAGTTCAAAAGTTCGTCTCAA-
*
12986 AGCAAAGAGAGAAACAATTC
64 AACAAAGAGAGAAACAATTC
13006 TCACATAAAT
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
97 7 0.10
98 64 0.90
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (98 bp):
TTTAAGGAATCAAAGTTATAAAAGAACTCATAAAATTTTGACAAGTTCAAAAGTTCGTCTCAAAA
CAAAGAGAGAAACAATTCGATCGTCTTGTATAC
Found at i:14376 original size:214 final size:214
Alignment explanation
Indices: 13516--15587 Score: 1817
Period size: 214 Copynumber: 9.8 Consensus size: 214
13506 AAATCGCTCA
* * * * * *
13516 AAGGAATGGATCGTCTTAAATACTTTATGGAATCGAAGTTGTAAAGGAACTCGTTTAAAAGTTTG
1 AAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCG--TAAAAGTTTG
* * *
13581 ACAAGTTCGAAAGTTCGT-CAAGGAAGCAAGAGAGAAGCAATTCTCACGTAAATAAGTTTTTAAT
64 ACAAGTTCGAAAGTTCATCCAA-GAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAAT
* * * * * * *
13645 CCAAAGACCAAAACTTGTTTAGAAAATGCCAAATTATTTAGATCAAATTATGCGATTTCCCGAGC
128 TCAAAGACCAAAATTTGTTTACAAAATG--ACACTATTTAGACCAAATGATGCGATTTCCCGAGC
* *
13710 GTGGAATGTTC-AGAAAATTGCTCG
191 ATGGAATGTTCGAG-AAATTACTCG
* * ** * * *
13734 AAGGAACGGATCATATAAAATACTTCAAGGAATCAAAGTTATAAAAGAACT--TAAAAGTTTGAC
1 AAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAC
* **
13797 AAGTT-AAGAAGTTCATCCTCGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTC
66 AAGTTCGA-AAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTC
* * * ** **
13861 AAAGACCAAAAATTGTTTACAAAATG-----A--TAGAACGAATGATATGATTTCTAGAGCATGG
130 AAAGACCAAAATTTGTTTACAAAATGACACTATTTAGACCAAATGATGCGATTTCCCGAGCATGG
* * *
13919 -ATGGCTCGAGAAATTTCACG
195 AAT-GTTCGAGAAATTACTCG
* * *
13939 AAGGAATGGATCATCCTGAATACTGTAAGGAACCGAAGTTATAAAAGAGCTCGTAAAAGTTTGAC
1 AAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAC
*
14004 AAGTTC-AGAA-TT-AGTCCAAGAACC-A-AGAGAAACAATTCTCACATAAATAAGTTTTTAATT
66 AAGTTCGA-AAGTTCA-TCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATT
* * *
14064 CAAAGA-CAAAATCTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCAAATTCCCAAGC
129 CAAAGACCAAAAT-TTGTTTACAAAATGAC--ACTATTTAGACCAAATGATGCGATTTCCCGAGC
* *
14128 ATGGAATGTTTGAAAAATTACTCG
191 ATGGAATGTTCGAGAAATTACTCG
* ** * * * * * * *
14152 AAGCAATGGATTGTCTTGAATATTTTAAGGAACCGAAGTTCTTAAATAACTTGTCAAAGCTTGAC
1 AAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAC
* * * * * * * * *
14217 AAGTTCGAAATTTCATACAAGAATCAAGATAGAAATAATTCTCACGAAAATAAGATTTTAGTTTA
66 AAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCA
* * *
14282 AAGACCAAAATTTGTTTACAAAATGACACTATTTAGATCAAATGATGCGATTTCCTGTGCATGGA
131 AAGACCAAAATTTGTTTACAAAATGACACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGA
* *
14347 ATTTTCGAGAAATTGCTCG
196 ATGTTCGAGAAATTACTCG
* * * * * *
14366 AAAGAATGGATCGTCTTCAATATTTTAATGAACC-ATAGTTATAAAA-AACTCGTAAAAGGTTGA
1 AAGGAATGGATCATCTTGAATACTTTAAGGAACCGA-AGTTATAAAAGAACTCGTAAAAGTTTGA
* *
14429 CAAGTTCGAAAGTTCATCTC-AGAACCAATAGAGAAACAATTC-CATGTAAATAAGTTTTTAATT
65 CAAGTTCGAAAGTTCATC-CAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATT
** * * * *
14492 CAAAGACCAAAACCTGTTTACAAAATGACAAACTATTTAGACCAAATGATTCGATATCTCGAGCG
129 CAAAGACCAAAATTTGTTTACAAAATGAC--ACTATTTAGACCAAATGATGCGATTTCCCGAGCA
*
14557 TGGAATGTTCGA-AAATTGCTCG
192 TGGAATGTTCGAGAAATTACTCG
* ** * * *
14579 AAGGAATGAATTGTCTTGAACACTTTAAGGAATCGAAGTTAT-AAAGATCTCGTAAAAGTTTGAC
1 AAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAC
* ** * * * * *
14643 AAGTTCGGAAGGCCGTCCAAGAACTAAGAAAGAAATAATTCTCACGTGAATAAGTTTTTAATTCA
66 AAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCA
* * * * * **
14708 AACACCAAAAGTTGTTTA-AAAATGAAAAACTTTTTATACCAAATGATTTGATTTCCCGAGCATG
131 AAGACCAAAATTTGTTTACAAAATG--ACACTATTTAGACCAAATGATGCGATTTCCCGAGCATG
* * *
14772 GAATGCTCAAAAAATTACTCG
194 GAATGTTCGAGAAATTACTCG
* * * * *
14793 AAGAAATTGATCATCTTGAATACTTTAACGAACTGAAGTTATAAAAGAACTCATAAAAGTTTGAC
1 AAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAC
* * * *
14858 TAGTTCAAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTGTCACGTAAATAAGTTTTTAATTCA
66 AAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCA
* *
14923 AAGACACAAACATTT-TTTACAAAATGACAAACTATTTAGACCAAATGATGCAATTTCCCAAGCA
131 AAGAC-CAAA-ATTTGTTTACAAAATGAC--ACTATTTAGACCAAATGATGCGATTTCCCGAGCA
*
14987 TGGAATGGTCG-GTAAATTACTCG
192 TGGAATGTTCGAG-AAATTACTCG
*
15010 AAGGAATGGATCATCTTGAAATACTTTAAGGTACC----------AA-AA----TAAAAGTTTGA
1 AAGGAATGGATCATCTTG-AATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGA
* * * * * * * * * *
15060 AAAATTTGGAAGTTCGTCCTAGAACCAAAAGAGAAACAATTCTCACGTAAATGAGATTTTATTTC
65 CAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTC
* * * ** *
15125 AAAGACCAAAACTTGTTTACAAAATGACAAACTATTTTGACAAAATGATTTGATTTCCCAAGCAT
130 AAAGACCAAAATTTGTTTACAAAATGAC--ACTATTTAGACCAAATGATGCGATTTCCCGAGCAT
* * * *
15190 GCAATGTTCGAAAAATTTCACG
193 GGAATGTTCGAGAAATTACTCG
* *
15212 AAGGAATGGATCATCTTGAATACTTTAAGGAACCGACA-TAATAAAGGAACTCGTAAAAGTTTGA
1 AAGGAATGGATCATCTTGAATACTTTAAGGAACCGA-AGTTATAAAAGAACTCGTAAAAGTTTGA
** * * ** * * *
15276 CAAGTTCTTATGTTCGTTAAAGAACC-A-TGAGATACAATTCTCACTTAAATAAGTTTTTAATTC
65 CAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTC
* * *
15339 TAAA-ACCAAAAATTGTTTAGAAAATGACAAACTATTTAGACCAAATGATGCAATTT--C---C-
130 -AAAGACCAAAATTTGTTTACAAAATGAC--ACTATTTAGACCAAATGATGCGATTTCCCGAGCA
* *
15397 T-G-A-----GACAAA-TGCTCG
192 TGGAATGTTCGAGAAATTACTCG
* * * *
15412 AATGAATGGAT-AGTCTTGAATACTTTAAGGAACTGATGTTGTAAAAGAACTCGTAAAAGTTTGA
1 AAGGAATGGATCA-TCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGA
* * *
15476 CAAGTTC-AGAAGTTCGT-CAAGGAACCAATAGAGAAGA-AATTCTCACATAAAATAAGTTTTTA
65 CAAGTTCGA-AAGTTCATCCAA-GAACCAAGAGAGAA-ACAATTCTCACGT-AAATAAGTTTTTA
* * * *
15538 ATCCAAAGACCAAAACTTGTTTACAAAATGTCAAACTATTTAAACCAAAT
126 ATTCAAAGACCAAAATTTGTTTACAAAATG--ACACTATTTAGACCAAAT
15588 AATACGATAA
Statistics
Matches: 1522, Mismatches: 259, Indels: 161
0.78 0.13 0.08
Matches are distributed among these distances:
199 3 0.00
200 78 0.05
201 24 0.02
202 100 0.07
203 127 0.08
204 56 0.04
205 78 0.05
206 13 0.01
207 24 0.02
208 3 0.00
209 1 0.00
211 2 0.00
212 50 0.03
213 277 0.18
214 379 0.25
215 88 0.06
216 86 0.06
217 78 0.05
218 55 0.04
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (214 bp):
AAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAC
AAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCA
AAGACCAAAATTTGTTTACAAAATGACACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGA
ATGTTCGAGAAATTACTCG
Found at i:15435 original size:200 final size:203
Alignment explanation
Indices: 15210--15587 Score: 516
Period size: 200 Copynumber: 1.9 Consensus size: 203
15200 AAAAATTTCA
*
15210 CGAAGGAATGGATCATCTTGAATACTTTAAGGAACCGACATAATAAAGGAACTCGTAAAAGTTTG
1 CGAAGGAATGGATCATCTTGAATACTTTAAGGAACCGACATAATAAAAGAACTCGTAAAAGTTTG
** * * * *
15275 ACAAGTTCTTATGTTCGTTAAAGAACC-AT-GAGATA-CAATTCTCAC-TTAAATAAGTTTTTAA
66 ACAAGTTCAGAAGTTCGTCAAAGAACCAATAGAGA-AGAAATTCTCACATAAAATAAGTTTTTAA
* * *
15336 TTCTAAA-ACCAAAAATTGTTTAGAAAATGACAAACTATTTAGACCAAATGATGCAATTTCCTGA
130 -TCCAAAGACCAAAAATTGTTTACAAAATGACAAACTATTTAAACCAAATGATGCAATTTCCTGA
15400 GACAAATGCT
194 GACAAATGCT
* * ** **
15410 CGAATGAATGGAT-AGTCTTGAATACTTTAAGGAACTGATGTTGTAAAAGAACTCGTAAAAGTTT
1 CGAAGGAATGGATCA-TCTTGAATACTTTAAGGAACCGACATAATAAAAGAACTCGTAAAAGTTT
*
15474 GACAAGTTCAGAAGTTCGTCAAGGAACCAATAGAGAAGAAATTCTCACATAAAATAAGTTTTTAA
65 GACAAGTTCAGAAGTTCGTCAAAGAACCAATAGAGAAGAAATTCTCACATAAAATAAGTTTTTAA
* *
15539 TCCAAAGACCAAAACTTGTTTACAAAATGTCAAACTATTTAAACCAAAT
130 TCCAAAGACCAAAAATTGTTTACAAAATGACAAACTATTTAAACCAAAT
15588 AATACGATAA
Statistics
Matches: 153, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
199 1 0.01
200 78 0.51
201 3 0.02
202 18 0.12
203 53 0.35
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.29
Consensus pattern (203 bp):
CGAAGGAATGGATCATCTTGAATACTTTAAGGAACCGACATAATAAAAGAACTCGTAAAAGTTTG
ACAAGTTCAGAAGTTCGTCAAAGAACCAATAGAGAAGAAATTCTCACATAAAATAAGTTTTTAAT
CCAAAGACCAAAAATTGTTTACAAAATGACAAACTATTTAAACCAAATGATGCAATTTCCTGAGA
CAAATGCT
Found at i:16023 original size:216 final size:216
Alignment explanation
Indices: 15596--16367 Score: 843
Period size: 216 Copynumber: 3.6 Consensus size: 216
15586 ATAATACGAT
* * * * * * * * *
15596 AAGGATTGGATTGTTTTAAATACATTAAGGAATCGACGGTAAAAAAGAACTCGTAAAAGTTTGAA
1 AAGGAATGGATCGTCTTAAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAC
* * * * *
15661 AAGTTCAGAAGTTCATCCAAGAACCAAAAGAGAAACAATTCTCACGCAAATAAGTTTTTAATTCA
66 AAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAATTCA
* * * * * * * * *
15726 AAGACCAAAAGTTGATAACAAAATGACGAACTACTTAGACTAAACT-ATGCGATTTCCCGACCAA
131 AAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGAC-AAAATGATGCAATTTCCCGAGCAT
15790 GGAATGTTCAGAAAATTGCTCG
195 GGAATGTTCAGAAAATTGCTCG
* * * * * *
15812 AAGGAATGGATCGTCTTAAATTCTTTGAGGAATCGAAGTTATAAATGAACTCGTTAATGTTTGAC
1 AAGGAATGGATCGTCTTAAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAC
* * * * *
15877 TAGTTCGGAAGTTCTTCCAAGAACCAAGAGAGAAACAATTCTCATTTAAATAAGATTTTAATTTA
66 AAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAATTCA
** * * * * *
15942 AAGACCAAATTTTGTTTACAGAATGATAAACTATTTAGACCAAATGATGCAATTTCCTGTGCATG
131 AAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACAAAATGATGCAATTTCCCGAGCATG
* *
16007 CAATGCT-AGAAAAATTGCTCG
196 GAATGTTCAG-AAAATTGCTCG
* * *
16028 AAAGAATGGATCATCTTCAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAC
1 AAGGAATGGATCGTCTTAAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAC
* * ** * *
16093 AAGTTCGAAAGTTCGTCC-TGAAAGTAAGAGAGAAACAATTCTCGTGTAAATAAGTTTTTAGTTC
66 AAGTTCGGAAGTTCGTCCAAG-AACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAATTC
* * * * *
16157 AAAGACCAAAACCTATTTCCAAAATGACAAACTATTTAGAGAAAATGATTCAATTTCCCGAGCAT
130 AAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACAAAATGATGCAATTTCCCGAGCAT
16222 GGAATGTTCAGAAAATTGCTCG
195 GGAATGTTCAGAAAATTGCTCG
* * * * * * *
16244 AAGGAATGGATTGTCTTGAATACTTTTAAAGAACCAAAGTAATAAAGGATCTCGTAAAAGTTTGA
1 AAGGAATGGATCGTCTTAAATAC-TTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGA
* * * * *
16309 CAAGTT-GTTAAGTTCGTCCAAGAACTAAGAGAGAAATAATTTTCACGTAAATAA-TTTTT
65 CAAGTTCG-GAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTT
16368 GGATATGATC
Statistics
Matches: 460, Mismatches: 89, Indels: 14
0.82 0.16 0.02
Matches are distributed among these distances:
215 6 0.01
216 372 0.81
217 81 0.18
218 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.28
Consensus pattern (216 bp):
AAGGAATGGATCGTCTTAAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAC
AAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAATTCA
AAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACAAAATGATGCAATTTCCCGAGCATG
GAATGTTCAGAAAATTGCTCG
Found at i:17490 original size:39 final size:39
Alignment explanation
Indices: 17447--17545 Score: 189
Period size: 39 Copynumber: 2.5 Consensus size: 39
17437 TTAATTTGTC
*
17447 TCAAACTTAGACACATTAAAAACAACTATTAAATATGTA
1 TCAAACTAAGACACATTAAAAACAACTATTAAATATGTA
17486 TCAAACTAAGACACATTAAAAACAACTATTAAATATGTA
1 TCAAACTAAGACACATTAAAAACAACTATTAAATATGTA
17525 TCAAACTAAGACACATTAAAA
1 TCAAACTAAGACACATTAAAA
17546 CCCTATTTTA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.54, C:0.16, G:0.05, T:0.25
Consensus pattern (39 bp):
TCAAACTAAGACACATTAAAAACAACTATTAAATATGTA
Found at i:25587 original size:5 final size:5
Alignment explanation
Indices: 25577--25615 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
25567 AAGGATATTA
* *
25577 TTTTC TTTTC TTTTC TTTTC TATTC TGTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
25616 TCAATACCGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.77
Consensus pattern (5 bp):
TTTTC
Found at i:29825 original size:21 final size:21
Alignment explanation
Indices: 29799--29846 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
29789 TGCTCAGTTC
29799 GCAACTGATTTAAGGTATTGT
1 GCAACTGATTTAAGGTATTGT
29820 GCAACTGATTTAAGGTATTGT
1 GCAACTGATTTAAGGTATTGT
*
29841 TCAACT
1 GCAACT
29847 AATTGCACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (21 bp):
GCAACTGATTTAAGGTATTGT
Found at i:30511 original size:18 final size:17
Alignment explanation
Indices: 30480--30534 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
30470 AACCCACAAA
* *
30480 TATTTTTTTTTATTTTT
1 TATTTTTCTCTATTTTT
30497 TATTTTTCTCGTATTTTT
1 TATTTTTCTC-TATTTTT
* *
30515 CTTTTTTTCTCTACTTTT
1 -TATTTTTCTCTATTTTT
30533 TA
1 TA
30535 ATCACTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
17 9 0.29
18 13 0.42
19 9 0.29
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.76
Consensus pattern (17 bp):
TATTTTTCTCTATTTTT
Found at i:31434 original size:25 final size:24
Alignment explanation
Indices: 31393--31443 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
31383 TTAAAACAAC
31393 TTCTTAAAAAAAACTC-AAGAGCAA
1 TTCTTAAAAAAAACTCAAAGAG-AA
*
31417 TTCTTGAAGAAAAACTCAAAGAGAA
1 TTCTT-AAAAAAAACTCAAAGAGAA
31442 TT
1 TT
31444 ATTATTAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 5 0.21
25 14 0.58
26 5 0.21
ACGTcount: A:0.51, C:0.14, G:0.12, T:0.24
Consensus pattern (24 bp):
TTCTTAAAAAAAACTCAAAGAGAA
Found at i:34798 original size:15 final size:15
Alignment explanation
Indices: 34780--34817 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
34770 ATTTACCAAT
34780 TTTACTTTCTTGCAA
1 TTTACTTTCTTGCAA
* *
34795 TTTATTTTCTTGCAC
1 TTTACTTTCTTGCAA
34810 TTTACTTT
1 TTTACTTT
34818 ACTGCAACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.16, C:0.18, G:0.05, T:0.61
Consensus pattern (15 bp):
TTTACTTTCTTGCAA
Found at i:35923 original size:17 final size:15
Alignment explanation
Indices: 35896--35967 Score: 56
Period size: 17 Copynumber: 4.4 Consensus size: 15
35886 AAATCTTTAT
35896 TTTAAATTTATTCTAAG
1 TTTAAA-TTATT-TAAG
*
35913 TTTAGAATTATTTTAAA
1 TTTA-AATTA-TTTAAG
35930 TTTAAA-TATATTAAG
1 TTTAAATTAT-TTAAG
*
35945 TTTAAATTTATTTTAAA
1 TTTAAA-TTA-TTTAAG
35962 TTTAAA
1 TTTAAA
35968 ATTTGAAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
14 1 0.02
15 12 0.26
16 2 0.04
17 26 0.57
18 5 0.11
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (15 bp):
TTTAAATTATTTAAG
Found at i:35948 original size:15 final size:15
Alignment explanation
Indices: 35909--35956 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
35899 AAATTTATTC
*
35909 TAAGTTTAGAATTATTT
1 TAAGTTTA-AA-TATAT
*
35926 TAAATTTAAATATAT
1 TAAGTTTAAATATAT
*
35941 TAAGTTTAAATTTAT
1 TAAGTTTAAATATAT
35956 T
1 T
35957 TTAAATTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 18 0.67
16 2 0.07
17 7 0.26
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (15 bp):
TAAGTTTAAATATAT
Found at i:36798 original size:16 final size:15
Alignment explanation
Indices: 36779--36819 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
36769 ATAATAATAA
36779 TAATAATAAATATCTT
1 TAATAATAAATAT-TT
36795 TAATAAT-AATATTT
1 TAATAATAAATATTT
*
36809 T-CTAATAAATA
1 TAATAATAAATA
36820 AAAAAGAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 4 0.17
14 7 0.30
15 5 0.22
16 7 0.30
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATAATAAATATTT
Found at i:36805 original size:3 final size:3
Alignment explanation
Indices: 36741--36787 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
36731 ATTTTTTTTA
36741 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
36788 ATATCTTTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:38002 original size:29 final size:29
Alignment explanation
Indices: 37963--38256 Score: 213
Period size: 29 Copynumber: 9.9 Consensus size: 29
37953 ATATTTTGAC
37963 CCTCGAATTTTCCAAAAATTCCATTTTTAA
1 CCTCG-ATTTTCCAAAAATTCCATTTTTAA
* *
37993 CCTCGATTTTCCAAAAATTATCA-TTTTAC
1 CCTCGATTTTCCAAAAATT-CCATTTTTAA
** * *
38022 CCAT-GAACTTCCAAAAATTTCATTTTTGA
1 CC-TCGATTTTCCAAAAATTCCATTTTTAA
* *
38051 CCCCGATTTTTCCAAAAATTACCA-TTTTAG
1 CCTCGA-TTTTCCAAAAATT-CCATTTTTAA
* ** *
38081 CCCCGAACTTCCAAAAGTTCCATTTTTAA
1 CCTCGATTTTCCAAAAATTCCATTTTTAA
* * * *
38110 CCTTGTTTTTTCCAAAAATTATCA-TTTTAC
1 CCTCG-ATTTTCCAAAAATT-CCATTTTTAA
** *
38140 CCTCGAACTTCCAAAAATTCCAATTTTAA
1 CCTCGATTTTCCAAAAATTCCATTTTTAA
* *
38169 CCTCGATTTTTTCCAAAAACTACCA-TTTTAC
1 CCTCGA--TTTTCCAAAAA-TTCCATTTTTAA
**
38200 CCTCGAACTTCCAAAAATTCCATTTTTAA
1 CCTCGATTTTCCAAAAATTCCATTTTTAA
*
38229 CC-CTAATCTTTCCAAAAATTACCATTTT
1 CCTC-GAT-TTTCCAAAAATT-CCATTTT
38257 ACCCCCGAAT
Statistics
Matches: 206, Mismatches: 41, Indels: 33
0.74 0.15 0.12
Matches are distributed among these distances:
28 13 0.06
29 99 0.48
30 59 0.29
31 31 0.15
32 4 0.02
ACGTcount: A:0.32, C:0.26, G:0.04, T:0.38
Consensus pattern (29 bp):
CCTCGATTTTCCAAAAATTCCATTTTTAA
Found at i:38067 original size:59 final size:59
Alignment explanation
Indices: 37955--38284 Score: 418
Period size: 59 Copynumber: 5.6 Consensus size: 59
37945 CAAAAATCAT
* *
37955 ATTTTGACCCTCGAATTTTCCAAAAATTCCATTTTTAACCTCGA-TTTTCCAAAAATTATC
1 ATTTT-ACCCTCGAA-CTTCCAAAAATTCCATTTTTAACCTCGATTTTTCCAAAAATTACC
* * *
38015 ATTTTACCCAT-GAACTTCCAAAAATTTCATTTTTGACCCCGATTTTTCCAAAAATTACC
1 ATTTTACCC-TCGAACTTCCAAAAATTCCATTTTTAACCTCGATTTTTCCAAAAATTACC
* * * *
38074 ATTTTAGCCC-CGAACTTCCAAAAGTTCCATTTTTAACCTTGTTTTTTCCAAAAATTATC
1 ATTTTA-CCCTCGAACTTCCAAAAATTCCATTTTTAACCTCGATTTTTCCAAAAATTACC
* *
38133 ATTTTACCCTCGAACTTCCAAAAATTCCAATTTTAACCTCGATTTTTTCCAAAAACTACC
1 ATTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACCTCGA-TTTTTCCAAAAATTACC
* *
38193 ATTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACC-CTAATCTTTCCAAAAATTACC
1 ATTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACCTC-GATTTTTCCAAAAATTACC
* * *
38252 ATTTTACCCCCGAA-TATCTAAAAATTCCGTTTT
1 ATTTTACCCTCGAACT-TCCAAAAATTCCATTTT
38285 GACCATGAAC
Statistics
Matches: 237, Mismatches: 25, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
58 28 0.12
59 147 0.62
60 62 0.26
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.38
Consensus pattern (59 bp):
ATTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACCTCGATTTTTCCAAAAATTACC
Found at i:38224 original size:119 final size:117
Alignment explanation
Indices: 37955--38279 Score: 422
Period size: 119 Copynumber: 2.7 Consensus size: 117
37945 CAAAAATCAT
* * *
37955 ATTTTGACCCTCGAATTTTCCAAAAATTCCATTTTTAACCTCGATTTTCCAAAAATTATCATTTT
1 ATTTT-ACCCTCGAA-CTTCCAAAAATTCCATTTTTAACCTTGTTTTTCCAAAAATTATCATTTT
* * * *
38020 ACCCAT-GAACTTCCAAAAATTTCATTTTTGACCCCGATTTTTCCAAAAATTACC
64 ACCC-TCGAACTTCCAAAAATTCCAATTTTAACCCCGATTTTTCCAAAAACTACC
*
38074 ATTTTAGCCC-CGAACTTCCAAAAGTTCCATTTTTAACCTTGTTTTTTCCAAAAATTATCATTTT
1 ATTTTA-CCCTCGAACTTCCAAAAATTCCATTTTTAACCTTG-TTTTTCCAAAAATTATCATTTT
*
38138 ACCCTCGAACTTCCAAAAATTCCAATTTTAACCTCGATTTTTTCCAAAAACTACC
64 ACCCTCGAACTTCCAAAAATTCCAATTTTAACCCCGA-TTTTTCCAAAAACTACC
** * *
38193 ATTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACCCTAATCTTTCCAAAAATTACCATTTTA
1 ATTTTACCCTCGAACTTCCAAAAATTCCATTTTTAA-CCTTGTTTTTCCAAAAATTATCATTTTA
* *
38258 CCCCCGAA-TATCTAAAAATTCC
65 CCCTCGAACT-TCCAAAAATTCC
38280 GTTTTGACCA
Statistics
Matches: 183, Mismatches: 16, Indels: 14
0.86 0.08 0.07
Matches are distributed among these distances:
117 25 0.14
118 61 0.33
119 94 0.51
120 3 0.02
ACGTcount: A:0.32, C:0.26, G:0.04, T:0.37
Consensus pattern (117 bp):
ATTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACCTTGTTTTTCCAAAAATTATCATTTTAC
CCTCGAACTTCCAAAAATTCCAATTTTAACCCCGATTTTTCCAAAAACTACC
Done.