Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018399300.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_257.0, 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: 24530
ACGTcount: A:0.29, C:0.09, G:0.10, T:0.29
Warning! 5680 characters in sequence are not A, C, G, or T
Found at i:888 original size:171 final size:169
Alignment explanation
Indices: 496--1525 Score: 888
Period size: 171 Copynumber: 6.0 Consensus size: 169
486 NNNNNNNNNN
*
496 TTTAAAGCGAGTAATAAGGCTTTTGAAGAAAT-GAGTGACTATAAATGGA-TTTTTTCTGCCAAT
1 TTTAAAGCGAGTAATAAGGCTTTTGAAGAAATAGA-T-ACTATAAATGGACTTTTCT-TGCCAAT
* * * * * *
559 GAATGCTTTCTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTCAACCAAAAAAG
63 GAATGCTTTTTTCTTCATGTTTCTCGAGGTAAACATTTAATTATAGTCTGTTTTAACCAAAAATG
* *
624 TAAAACAAATTGAACTTAAAATCAATTTTGAGATTATAAGACCA
128 T-AAA-AAATTGAACTTAAAATCAATTATGAGATTATAAAACCA
* * * * * * *
668 TTTAAATC-ATGTAATAAAGCTTTTAAAGGAATGAGAGACTATAAATGGACTTTTCTTACCGATG
1 TTTAAAGCGA-GTAATAAGGCTTTTGAAGAAAT-AGATACTATAAATGGACTTTTCTTGCCAATG
* * *
732 AATGCTTTTTTCTTTATGTTTCTCGAGGTAGACATTTAATTATAGTCTGTTTTAATCAAAAATGT
64 AATGCTTTTTTCTTCATGTTTCTCGAGGTAAACATTTAATTATAGTCTGTTTTAACCAAAAATGT
*
797 AAAAGAATTCAACTTAAAAT-ATATTATGAGATTATAAAACCA
129 AAAA-AATTGAACTTAAAATCA-ATTATGAGATTATAAAACCA
* * *
839 TTTAAAGCGAGTAATAATGCTTTTGAAGGAATAGATATCTATAAATGGACTTTTCTTGTCAATGA
1 TTTAAAGCGAGTAATAAGGCTTTTGAAGAAATAGATA-CTATAAATGGACTTTTCTTGCCAATGA
* * * * * * *
904 ATGCATTTCTCTTCATGTTTCTCGATGTAAAGATTTAATTATGGCCTGTTTTAACCAAAAACGTA
65 ATGCTTTTTTCTTCATGTTTCTCGAGGTAAACATTTAATTATAGTCTGTTTTAACCAAAAATGTA
*
969 AAAGAATTTAACTTAAAATCAATTATGAGATTATAAAACCA
130 AAA-AATTGAACTTAAAATCAATTATGAGATTATAAAACCA
**************************** * * **
1010 TTTAAAGCGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGTAAATGGACTTTTTTTTATCAATG
1 TTTAAAGCGA-GTAATAAGGCTTTTGAAGAAATAGATACTATAAATGGAC-TTTTCTTGCCAATG
* * * * * * * ** * *
1075 ATTGCCTTTCTCTTCATGTTTCTCGAAGTAAACGTTCAATTATAATCCATTTTAATCAATAATGG
64 AATGCTTTTTTCTTCATGTTTCTCGAGGTAAACATTTAATTATAGTCTGTTTTAACCAAAAAT-G
* * * *
1140 AAAAAAAATTGAA-TCTAAAATTAATTTTGAGATTATAAAACTA
128 -TAAAAAATTGAACT-TAAAATCAATTATGAGATTATAAAACCA
* * * * *
1183 TTTAAAGCGAGTAACAAGGATTTTGAAGAAATAGGAGATTATAAATGGACTTTTTTTGCCAATGA
1 TTTAAAGCGAGTAATAAGGCTTTTGAAGAAATA-GATACTATAAATGGACTTTTCTTGCCAATGA
* * *
1248 ATGCTTTTTTCTTCACGTTTCTTGAGGTAAAC-TTTCAATTATAGTCTG-TTTCACCAAAAATGT
65 ATGCTTTTTTCTTCATGTTTCTCGAGGTAAACATTT-AATTATAGTCTGTTTTAACCAAAAATGT
* *
1311 AAAAAATTCAACTTAAAATCAATTATGAGATTCTAAAACCA
129 AAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACCA
* * * * *
1352 TTAAAAGCGAGTAATAAGGCTTTTGAAAAAATGGGTGACTATAAATGGATTTTTCTTGCCAATGA
1 TTTAAAGCGAGTAATAAGGCTTTTGAAGAAATAGAT-ACTATAAATGGACTTTTCTTGCCAATGA
* ** * * * *
1417 AT-ATTTTCTTCTTCACATTTCTTGAGGTAGACATTTAATTATAGTCTGTTTTAACTAAAAAAAG
65 ATGCTTTT-TTCTTCATGTTTCTCGAGGTAAACATTTAATTATAGTCTGTTTTAAC-CAAAAATG
*
1481 TAGAGAAAATTGAACTTAAAATCAATTTTGAGATTATAAAACCA
128 TA-A-AAAATTGAACTTAAAATCAATTATGAGATTATAAAACCA
1525 T
1 T
1526 NNNNNNNNNN
Statistics
Matches: 679, Mismatches: 155, Indels: 47
0.77 0.18 0.05
Matches are distributed among these distances:
168 5 0.01
169 123 0.18
170 16 0.02
171 220 0.32
172 215 0.32
173 94 0.14
174 6 0.01
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.36
Consensus pattern (169 bp):
TTTAAAGCGAGTAATAAGGCTTTTGAAGAAATAGATACTATAAATGGACTTTTCTTGCCAATGAA
TGCTTTTTTCTTCATGTTTCTCGAGGTAAACATTTAATTATAGTCTGTTTTAACCAAAAATGTAA
AAAATTGAACTTAAAATCAATTATGAGATTATAAAACCA
Found at i:1569 original size:173 final size:169
Alignment explanation
Indices: 499--1789 Score: 701
Period size: 172 Copynumber: 7.5 Consensus size: 169
489 NNNNNNNTTT
*
499 AAAGCGAGTAATAAGGCTTTTGAAGAAATGAGTGACTATAAATGGA-TTTTTTCTGCCAATGAAT
1 AAAGCGAGTAATAAGGCTTTTGAAGAAATGAGAGACTATAAATGGACTTTTTT-TGCCAATGAAT
* * ** ** * * *
563 GCTTTCTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTCAACCAAAAAAGTAAA
65 GATTTTTTCTTCACATTTCTTGAGGTAAACTTTCAATTATAGTCTGTTT-AACAAAAAAAGT-AA
* * * *
628 ACAAATTGAACTTAAAATCAATTTTGAGATTATAAGACCATTT
128 A-AAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTA
* * * * * * *
671 AAATC-ATGTAATAAAGCTTTTAAAGGAATGAGAGACTATAAATGGACTTTTCTTACCGATGAAT
1 AAAGCGA-GTAATAAGGCTTTTGAAGAAATGAGAGACTATAAATGGACTTTTTTTGCCAATGAAT
* * ** * * *
735 GCTTTTTTCTTTATGTTTCTCGAGGTAGACATTT-AATTATAGTCTGTTTTAATC-AAAAATGTA
65 GATTTTTTCTTCACATTTCTTGAGGTAAAC-TTTCAATTATAGTCTG-TTTAA-CAAAAAAAGTA
*
798 AAAGAATTCAACTTAAAAT-ATATTATGAGATTATAAAACCATTT
127 AAA-AATTCAACTTAAAATCA-ATTATGAGATTATAAAACCATTA
* * * * *
842 AAAGCGAGTAATAATGCTTTTGAAGGAAT-AGATATCTATAAATGGACTTTTCTTGTCAATGAAT
1 AAAGCGAGTAATAAGGCTTTTGAAGAAATGAGAGA-CTATAAATGGACTTTTTTTGCCAATGAAT
* ** * * * * * * *
906 GCA-TTTCTCTTCATGTTTCTCGATGTAAAGATTT-AATTATGGCCTGTTTTAACCAAAAACGTA
65 G-ATTTTTTCTTCACATTTCTTGAGGTAAA-CTTTCAATTATAGTCTG-TTTAACAAAAAAAGTA
* *
969 AAAGAATTTAACTTAAAATCAATTATGAGATTATAAAACCATTT
127 AAA-AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTA
***************************** * ** *
1013 AAAGCGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGTAAATGGACTTTTTTTTATCAATGATT
1 AAAGCGAGTAATAAGGCTTTTGAAGAAATGAGAGACTATAAATGGAC-TTTTTTTGCCAATGAAT
** * ** * * * * * ** *
1078 GCCTTTCTCTTCATGTTTCTCGAAGTAAACGTTCAATTATAATCCAT-TTTAATCAATAATGGAA
65 GATTTTTTCTTCACATTTCTTGAGGTAAACTTTCAATTATAGT-C-TGTTTAA-CAAAAAAAG-T
* * * * *
1142 AAAAAATTGAA-TCTAAAATTAATTTTGAGATTATAAAACTATTT
126 AAAAAATTCAACT-TAAAATCAATTATGAGATTATAAAACCATTA
* * *
1186 AAAGCGAGTAACAAGGATTTTGAAGAAAT-AGGAGATTATAAATGGACTTTTTTTGCCAATGAAT
1 AAAGCGAGTAATAAGGCTTTTGAAGAAATGA-GAGACTATAAATGGACTTTTTTTGCCAATGAAT
* * * * *
1250 GCTTTTTTCTTCACGTTTCTTGAGGTAAACTTTCAATTATAGTCTGTTTCACCAAAAATGTAAAA
65 GATTTTTTCTTCACATTTCTTGAGGTAAACTTTCAATTATAGTCTGTTTAACAAAAAAAGTAAAA
*
1315 AATTCAACTTAAAATCAATTATGAGATTCTAAAACCATTA
130 AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTA
* * *
1355 AAAGCGAGTAATAAGGCTTTTGAAAAAATGGGTGACTATAAATGGA-TTTTTCTTGCCAATGAAT
1 AAAGCGAGTAATAAGGCTTTTGAAGAAATGAGAGACTATAAATGGACTTTTT-TTGCCAATGAAT
*
1419 -ATTTTCTTCTTCACATTTCTTGAGGTAGACATTT-AATTATAGTCTGTTTTAACTAAAAAAAGT
65 GATTTT-TTCTTCACATTTCTTGAGGTAAAC-TTTCAATTATAGTCTG-TTTAAC-AAAAAAAGT
* * **
1482 AGAGAAAATTGAACTTAAAATCAATTTTGAGATTATAAAACCATNN
126 A-A-AAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTA
******** * * *
1528 NNNNNNNNTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATGGACTCTTTGT-CTCAATGAAT
1 AAAGCGAGTAATAAGGCTTTTGAAGAAATGAGAGACTATAAATGGACTTTTTTTGC-CAATGAAT
* * * * * * * ********* * *** *
1592 -AGCTTTTACTACATATTTCCTGAGGTAAGCATTCAATNNNNNNNNNNTATAATGTAAAATGTAA
65 GA-TTTTTTCTTCACATTTCTTGAGGTAAACTTTCAAT-TATAGTCTGTTTAACAAAAAAAGT--
* * * **
1656 AAAAAAATCAACTTAAAATCAATCATGAAATTATAAAGTCATTTA
126 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCA-TTA
* * * * * * *
1701 ATA-TGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGGC-TTTCTTGCCAATGAATG
1 AAAGCGAGTAATAAGGCTTTTGAAGAAATGAGAGACTATAAATGGACTTTTTTTGCCAATGAATG
* *
1764 CTTTTTTCTTCACATTTCATGAGGTA
66 ATTTTTTCTTCACATTTCTTGAGGTA
1790 GACATTTAAT
Statistics
Matches: 863, Mismatches: 213, Indels: 87
0.74 0.18 0.07
Matches are distributed among these distances:
168 9 0.01
169 121 0.14
170 22 0.03
171 243 0.28
172 279 0.32
173 176 0.20
174 13 0.02
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.35
Consensus pattern (169 bp):
AAAGCGAGTAATAAGGCTTTTGAAGAAATGAGAGACTATAAATGGACTTTTTTTGCCAATGAATG
ATTTTTTCTTCACATTTCTTGAGGTAAACTTTCAATTATAGTCTGTTTAACAAAAAAAGTAAAAA
ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTA
Found at i:1572 original size:515 final size:513
Alignment explanation
Indices: 496--1597 Score: 1064
Period size: 515 Copynumber: 2.1 Consensus size: 513
486 NNNNNNNNNN
* *
496 TTTAAAGCGAGTAATAAGGCTTTTGAAGAAATGAGTGACTATAAATGGA-TTTTTTCTGCCAATG
1 TTTAAAGCGA-TAATAAGGCTTTTGAAGAAATGAGAGACTATAAATGGACTTTTTTCTACCAATG
* * ** *
560 AATGCTTTCTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTCAACCAAAAAAGT
65 AATGCTTTCTTCTTCATGTTTCTCAAGGTAAACATTCAATTATAATCCATTTCAACCAAAAAAGG
* * * * *
625 AAAACAAATTGAACTTAAAATCAATTTTGAGATTATAAGACCATTTAAATCATGTAATAAAGCTT
130 AAAAAAAATTGAACTTAAAATCAATTTTGAGATTATAAAACCATTTAAAGCATGTAACAAAGATT
* * * *
690 TTAAAGGAATGAGAGACTATAAATGGACTTTTCTTACCGATGAATGCTTTTTTCTTTATGTTTCT
195 TTAAAGAAATGAGAGACTATAAATGGACTTTTCTTACCAATGAATGCTTTTTTCTTCACGTTTCT
* *
755 CGAGGTAGACATTTAATTATAGTCTGTTTTAATCAAAAATGTAAAAGAATTCAACTTAAAATATA
260 CGAGGTAAACATTTAATTATAGTCTGTTTTAACCAAAAATGTAAAAGAATTCAACTTAAAATATA
* * **
820 TTATGAGATTATAAAACCATTTAAAGCGAGTAATAATGCTTTTGAAGGAATAGATATCTATAAAT
325 TTATGAGATTATAAAACCATTAAAAGCGAGTAATAAGGCTTTTGAAAAAATAGATATCTATAAAT
* ** * * *
885 GGACTTTTCTTGTCAATGAATGCATTTCTCTTCATGTTTCTCGATGTAAAGATTTAATTATGGCC
390 GGACTTTTCTTGCCAATGAAT-CATTTCTCTTCACATTTCTCGAGGTAAACATTTAATTATAGCC
* * *
950 TGTTTTAACCAAAAACGTAAAAGAATTTAACTTAAAATCAATTATGAGATTATAAAACCA
454 TGTTTTAACAAAAAAAGTAAAAGAATTGAACTTAAAATCAATTATGAGATTATAAAACCA
**************************** * * *
1010 TTTAAAGCGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGTAAATGGACTTTTTTTTATCAATG
1 TTTAAAGCGA-TAATAAGGCTTTTGAAGAAATGAGAGACTATAAATGGACTTTTTTCTACCAATG
* * * * * *
1075 ATTGCCTTTC-TCTTCATGTTTCTCGAA-GTAAACGTTCAATTATAATCCATTTTAATCAATAAT
65 AATG-CTTTCTTCTTCATGTTTCTC-AAGGTAAACATTCAATTATAATCCATTTCAACCAAAAAA
* * *
1138 GGAAAAAAAATTGAA-TCTAAAATTAATTTTGAGATTATAAAACTATTTAAAGCGA-GTAACAAG
128 GGAAAAAAAATTGAACT-TAAAATCAATTTTGAGATTATAAAACCATTTAAAGC-ATGTAACAAA
* * * *
1201 GATTTTGAAGAAAT-AGGAGATTATAAATGGACTTTTTTTGCCAATGAATGCTTTTTTCTTCACG
191 GATTTTAAAGAAATGA-GAGACTATAAATGGACTTTTCTTACCAATGAATGCTTTTTTCTTCACG
* *
1265 TTTCTTGAGGTAAAC-TTTCAATTATAGTCTG-TTTCACCAAAAATGTAAAA-AATTCAACTTAA
255 TTTCTCGAGGTAAACATTT-AATTATAGTCTGTTTTAACCAAAAATGTAAAAGAATTCAACTTAA
* * *
1327 AATCA-ATTATGAGATTCTAAAACCATTAAAAGCGAGTAATAAGGCTTTTGAAAAAATGGGTGA-
319 AAT-ATATTATGAGATTATAAAACCATTAAAAGCGAGTAATAAGGCTTTTGAAAAAATAGAT-AT
* * *
1390 CTATAAATGGATTTTTCTTGCCAATGAAT-ATTTTCTTCTTCACATTTCTTGAGGTAGACATTTA
382 CTATAAATGGACTTTTCTTGCCAATGAATCA-TTTC-TCTTCACATTTCTCGAGGTAAACATTTA
* *
1454 ATTATAGTCTGTTTTAACTAAAAAAAGTAGAGAA-AATTGAACTTAAAATCAATTTTGAGATTAT
445 ATTATAGCCTGTTTTAAC-AAAAAAAGTA-A-AAGAATTGAACTTAAAATCAATTATGAGATTAT
1518 AAAACCA
507 AAAACCA
********* * *
1525 TNNNNNNNNNNTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATGGACTCTTTGTCT--CAAT
1 T-TTAAAGCGATAATAAGGCTTTTGAAGAAATGAGAGACTATAAATGGACT-TTTTTCTACCAAT
1588 GAATAGCTTT
64 GAAT-GCTTT
1598 TACTACATAT
Statistics
Matches: 445, Mismatches: 126, Indels: 34
0.74 0.21 0.06
Matches are distributed among these distances:
511 1 0.00
512 4 0.01
513 129 0.29
514 62 0.14
515 234 0.53
516 15 0.03
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.35
Consensus pattern (513 bp):
TTTAAAGCGATAATAAGGCTTTTGAAGAAATGAGAGACTATAAATGGACTTTTTTCTACCAATGA
ATGCTTTCTTCTTCATGTTTCTCAAGGTAAACATTCAATTATAATCCATTTCAACCAAAAAAGGA
AAAAAAATTGAACTTAAAATCAATTTTGAGATTATAAAACCATTTAAAGCATGTAACAAAGATTT
TAAAGAAATGAGAGACTATAAATGGACTTTTCTTACCAATGAATGCTTTTTTCTTCACGTTTCTC
GAGGTAAACATTTAATTATAGTCTGTTTTAACCAAAAATGTAAAAGAATTCAACTTAAAATATAT
TATGAGATTATAAAACCATTAAAAGCGAGTAATAAGGCTTTTGAAAAAATAGATATCTATAAATG
GACTTTTCTTGCCAATGAATCATTTCTCTTCACATTTCTCGAGGTAAACATTTAATTATAGCCTG
TTTTAACAAAAAAAGTAAAAGAATTGAACTTAAAATCAATTATGAGATTATAAAACCA
Found at i:10624 original size:171 final size:171
Alignment explanation
Indices: 9729--11127 Score: 1419
Period size: 171 Copynumber: 8.2 Consensus size: 171
9719 NNNNNNNNNN
* *
9729 AATCTCATAATTGATTTTAAATTGAA-TTTTTTACATTTTTGGTTAAAACAGACCATAATTGAAT
1 AATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAAT
* * * ** * * *
9793 GTCTACCTCAAGAAACGTGAAGAAAAAAGTGTTCATAGG-AACGAAAAGTCTATTTATAATCTCC
66 GTCTACCTTAAGAAACATGAAGGAAAAAGCATTCATTGGCAA-GAAAAGTCTATTTATAGTCACC
* ** *
9857 TATTCTTTCAAAAATCTTATTACTCGCTTTAAATAGTTTTAT
130 TATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTAT
** * * *
9899 AATCTCATAATCAATTTTAGGTTGAATTCTTTTACATTTTTGGTT-AAACAAACTATAATTGAAT
1 AATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAAT
* * * * * *
9963 GTCTACCTTGAGAAACATGAAGAAAAAAACATTCATAGGCAAGAAAAGTCTATTTATAATCTCCT
66 GTCTACCTTAAGAAACATGAAGGAAAAAGCATTCATTGGCAAGAAAAGTCTATTTATAGTCACCT
* * * * * **
10028 ATTTCTTTAAAAGCCCTATTACTCACTTTAGATACTTTTAT
131 ATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTAT
* * * * * * * *
10069 TATCTCAAAATTGATTTT-AGATTCAATTTTTTTTACATTATTGATTAAAGCGGATTATAATTGA
1 AATCTCATAATTGATTTTAAG-TTGAA-TTTTTTTACATTTTTGGTTAAAACAGACTATAATTGA
* * * * *
10133 ATGTCTACCTCAAGAAACATGAA-GAGAAAGGCATTTATTGGTAAGAAAAGTCTATTTATAGACA
64 ATGTCTACCTTAAGAAACATGAAGGA-AAAAGCATTCATTGGCAAGAAAAGTCTATTTATAGTCA
* *
10197 CCGATTCCTTCAAAAGCCTTATTACTTGCTTTAAATGGTTTTAT
128 CCTATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTAT
* * * * *
10241 AATTTCATAATTGATTTTAAGTTGAATTCTTTTACATCTTTAGTTAAAACATACTATAA-TGAAA
1 AATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACTATAATTG-AA
** * * ** * *
10305 TGTCTACCTCGAGAAATAT-AAAGAAAAAGCATTCATTGATAAGAAAAGTCTACTTATAGTCTCC
65 TGTCTACCTTAAGAAACATGAAGGAAAAAGCATTCATTGGCAAGAAAAGTCTATTTATAGTCACC
* * * * * *
10369 CATTCTTTCAAAAGCCTCATTACACGATTTAAATAGTTTTAT
130 TATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTAT
* * * * *
10411 AATCTCAAAATTGGTTTTAAGTTCAATTTTTTTCCTTTTTTGGTTAAAACAGACTATAATTGAAT
1 AATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAAT
* ** *
10476 GTCTACCTTGAGAAACATGAAGGAGTAAGCATTCATTGGCAAGAAAAAT-TCATTTATAGTCACC
66 GTCTACCTTAAGAAACATGAAGGAAAAAGCATTCATTGGCAAGAAAAGTCT-ATTTATAGTCACC
* * *
10540 AATTCCTTCGAAAGCCTTATTATTCGCTTTAAATGGCTTTT-T
130 TATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGG-TTTTAT
* * *
10582 AATCTTATAATTGATTTTAAATTGAATTTTTTTACATTTTTGGTTAAAACAGACTATAATTAAAT
1 AATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAAT
* ** * * *
10647 GTTTACC-TAATGAAATGTGAAGAAAAAAGCATTCATTGGTAAGAAAAGTCTATTTATAGCCACC
66 GTCTACCTTAA-GAAACATGAAGGAAAAAGCATTCATTGGCAAGAAAAGTCTATTTATAGTCACC
* * **
10711 TATTCCTTCAAAAGCCTTATTACTCGCATTAGATGACTTTAT
130 TATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTAT
* * * ** *
10753 AATTTCATAATTGATTTTATGTTGAATATTTTTACATTTTTCATTAAAATAGACTATAATTGAAT
1 AATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAAT
* * ** * ** * * *
10818 G-CTTACCTCAGGAAATGTGTA-GTTAAAGCTATTCATTGAG-AAGAAAAATCCATTTATTGTCA
66 GTC-TACCTTAAGAAACATGAAGGAAAAAGC-ATTCATTG-GCAAGAAAAGTCTATTTATAGTCA
* *
10880 -CTCATTTCTTCAAAAGCCTTATTACTCGCTTTAAATAGTTTT-T
128 CCT-ATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTAT
* * * * *
10923 AAAACTCATAATTGCTTGTAAGTTGAATTTTTTTACATTGTTGGCTAAAACAGACTATAATTGAA
1 -AATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAA
* * **
10988 TGTCTACCATAAGAAACGTGAA-GAAAAACGCATTCATTGGCAAGAAAAGTCTATTTATAGTGTC
65 TGTCTACCTTAAGAAACATGAAGGAAAAA-GCATTCATTGGCAAGAAAAGTCTATTTATAGTCAC
* * * * *
11052 CCATTACTTTAAAAGTCTTATTACTC-CATTTAAAAGGTTTTAT
129 CTATTCCTTCAAAAGCCTTATTACTCGC-TTTAAATGGTTTTAT
* *
11095 AATCTCAAAATTGATTTTAAGTTTAATTTTTTT
1 AATCTCATAATTGATTTTAAGTTGAATTTTTTT
11128 TANNNNNNNN
Statistics
Matches: 1005, Mismatches: 196, Indels: 55
0.80 0.16 0.04
Matches are distributed among these distances:
169 1 0.00
170 302 0.30
171 570 0.57
172 130 0.13
173 2 0.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.39
Consensus pattern (171 bp):
AATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAAT
GTCTACCTTAAGAAACATGAAGGAAAAAGCATTCATTGGCAAGAAAAGTCTATTTATAGTCACCT
ATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTAT
Found at i:10954 original size:513 final size:510
Alignment explanation
Indices: 9733--11127 Score: 1634
Period size: 513 Copynumber: 2.7 Consensus size: 510
9723 NNNNNNAATC
* * *
9733 TCATAATTGATTTTAAATTGAATTTTTTACATTTTTGGTTAAAACAGACCATAATTGAATGTCTA
1 TCATAATTGATTTTAAGTTGAATTTTTTACATTTTT-ATTAAAACAGACTATAATTGAATGTCTA
* * * * *
9798 CCTCAAGAAACGTGAAGAAAAAAG-TGTTCATAG-GAACGAAAAGTCTATTTATAATCTCCT-AT
65 CCTCAGGAAATGTGAAG-AAAAAGCTATTCATTGAGAA-GAAAAGTCTATTTAT--TGTCCTCAT
** ** *
9860 TCTTTCAAAAATCTTATTACTCGCTTTAAATAGTTTTATAATCTCATAATCAATTTTAGGTTGAA
126 TCTTTCAAAAGCCTTATTACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTGAA
* * *
9925 TTCTTTTACATTTTTGGTT-AAACAAACTATAATTGAATGTCTACCTTGAGAAACATGAAGAAAA
191 TTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTTGAGAAACATGAAGGAAA
* * * * * *
9989 AAACATTCATAGGCAAGAAAAGTCTATTTATAATCTCCTATTTCTTTAAAAGCCCTATTACTCAC
256 AAGCATTCATTGGCAAGAAAAGTCTATTTATAGTCTCCAATTACTTTAAAAGCCTTATTACTC-C
* * * *
10054 TTTAGAT-ACTTTTATTATCTCAAAATTGATTTTAGATTCAATTTTTTTTACATTATTGATTAAA
320 TTTAAATGGCTTTTATAATCTCAAAATTGATTTTAAATTCAA-TTTTTTTACATTATTGATTAAA
* * * * * * *
10118 GCGGATTATAATTGAATGTCTACCTCAAGAAACATGAAGAGAAAGGCATTTATTGGTAAGAAAAG
384 ACAGACTATAATTAAATGTCTACCTCAAGAAACATGAAGAAAAAAGCATTCATTGGTAAGAAAAG
* * **
10183 TCTATTTATAGACACCGATTCCTTCAAAAGCCTTATTACTTGCTTTAAATGGTTTTATAATT
449 TCTATTTATAGACACCGATTCCTTCAAAAGCCTTATTACTCGCATTAAATGACTTTATAATT
* *
10245 TCATAATTGATTTTAAGTTGAATTCTTTTACATCTTTAGTTAAAACATACTATAA-TGAAATGTC
1 TCATAATTGATTTTAAGTTGAATT-TTTTACATTTTTA-TTAAAACAGACTATAATTG-AATGTC
* * * * * *
10309 TACCTC-GAGAAATATAAAGAAAAAGC-ATTCATTGATAAGAAAAGTCTACTTATAGTCTCCCAT
63 TACCTCAG-GAAATGTGAAGAAAAAGCTATTCATTGAGAAGAAAAGTCTATTTATTGTC-CTCAT
* * * * * *
10372 TCTTTCAAAAGCCTCATTACACGATTTAAATAGTTTTATAATCTCAAAATTGGTTTTAAGTTCAA
126 TCTTTCAAAAGCCTTATTACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTGAA
* * **
10437 TTTTTTTCCTTTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTTGAGAAACATGAAGGAGT
191 TTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTTGAGAAACATGAAGGAAA
* * * ** *
10502 AAGCATTCATTGGCAAGAAAAAT-TCATTTATAGTCACCAATTCCTTCGAAAGCCTTATTATTCG
256 AAGCATTCATTGGCAAGAAAAGTCT-ATTTATAGTCTCCAATTACTTTAAAAGCCTTATTACTC-
* * * * *
10566 CTTTAAATGGCTTTT-TAATCTTATAATTGATTTTAAATTGAATTTTTTTACATTTTTGGTTAAA
319 CTTTAAATGGCTTTTATAATCTCAAAATTGATTTTAAATTCAATTTTTTTACATTATTGATTAAA
* **
10630 ACAGACTATAATTAAATGTTTACCT-AATGAAATGTGAAGAAAAAAGCATTCATTGGTAAGAAAA
384 ACAGACTATAATTAAATGTCTACCTCAA-GAAACATGAAGAAAAAAGCATTCATTGGTAAGAAAA
* * *
10694 GTCTATTTATAGCCACCTATTCCTTCAAAAGCCTTATTACTCGCATTAGATGACTTTATAATT
448 GTCTATTTATAGACACCGATTCCTTCAAAAGCCTTATTACTCGCATTAAATGACTTTATAATT
* *
10757 TCATAATTGATTTTATGTTGAATATTTTTACATTTTTCATTAAAATAGACTATAATTGAATG-CT
1 TCATAATTGATTTTAAGTTGAAT-TTTTTACATTTTT-ATTAAAACAGACTATAATTGAATGTC-
* ** * *
10821 TACCTCAGGAAATGTGTAGTTAAAGCTATTCATTGAGAAGAAAAATCCATTTATTGTCACTCATT
63 TACCTCAGGAAATGTGAAGAAAAAGCTATTCATTGAGAAGAAAAGTCTATTTATTGTC-CTCATT
* * *
10886 -TCTTCAAAAGCCTTATTACTCGCTTTAAATAGTTTT-TAAAACTCATAATTGCTTGTAAGTTGA
127 CT-TTCAAAAGCCTTATTACTCGCTTTAAATAGTTTTAT-AATCTCATAATTGATTTTAAGTTGA
* * * * *
10949 ATTTTTTTACATTGTTGGCTAAAACAGACTATAATTGAATGTCTACCATAAGAAACGTGAA-GAA
190 ATTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTTGAGAAACATGAAGGAA
* * *
11013 AAACGCATTCATTGGCAAGAAAAGTCTATTTATAGTGTCCCATTACTTTAAAAGTCTTATTACTC
255 AAA-GCATTCATTGGCAAGAAAAGTCTATTTATAGTCTCCAATTACTTTAAAAGCCTTATTACTC
* * *
11078 CATTTAAAAGG-TTTTATAATCTCAAAATTGATTTTAAGTTTAATTTTTTT
319 C-TTTAAATGGCTTTTATAATCTCAAAATTGATTTTAAATTCAATTTTTTT
11128 TANNNNNNNN
Statistics
Matches: 740, Mismatches: 119, Indels: 47
0.82 0.13 0.05
Matches are distributed among these distances:
510 2 0.00
511 4 0.01
512 332 0.45
513 396 0.54
514 6 0.01
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.39
Consensus pattern (510 bp):
TCATAATTGATTTTAAGTTGAATTTTTTACATTTTTATTAAAACAGACTATAATTGAATGTCTAC
CTCAGGAAATGTGAAGAAAAAGCTATTCATTGAGAAGAAAAGTCTATTTATTGTCCTCATTCTTT
CAAAAGCCTTATTACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTT
TTACATTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTTGAGAAACATGAAGGAAAAAGCA
TTCATTGGCAAGAAAAGTCTATTTATAGTCTCCAATTACTTTAAAAGCCTTATTACTCCTTTAAA
TGGCTTTTATAATCTCAAAATTGATTTTAAATTCAATTTTTTTACATTATTGATTAAAACAGACT
ATAATTAAATGTCTACCTCAAGAAACATGAAGAAAAAAGCATTCATTGGTAAGAAAAGTCTATTT
ATAGACACCGATTCCTTCAAAAGCCTTATTACTCGCATTAAATGACTTTATAATT
Found at i:14781 original size:171 final size:170
Alignment explanation
Indices: 13700--15049 Score: 1384
Period size: 171 Copynumber: 7.9 Consensus size: 170
13690 NNNNNNNNNN
* ** * * * *
13700 CTTTTCTTGCCAATGAATGCTTTTTTCTTTACATTTGAT--ATGGTAGACATTTAATAATTGTCT
1 CTTTTCTTGCCAATGAATGCTTTCTTCTTTATGTTT-CTCGA-GGTAGACATTCAATTATAGTCT
* * * *
13763 ATTTTAACCAAAAATGTAAAAAAATTTAATTTAAAATCAATTATGAGATTATAAAACCATTTAAA
64 GTTTTAACCAAAAATGT-AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAA
* *
13828 ATGAGTAATAAGGCTTTTGAAGGAATGTGTGACTATAAAT-GA
128 GTGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATAGA
* * *
13870 ATTTGTCTTGCCAATGAATGCTTTCTTCTTTACGTTTCT-GAGGATAGACATTCAACTATAGTCT
1 CTTT-TCTTGCCAATGAATGCTTTCTTCTTTATGTTTCTCGAGG-TAGACATTCAATTATAGTCT
* * * *
13934 GTTTTAACCAAAAAAGGATAAAAAATTAAACTTAAAA-CTAATTTTGAGATTATAAAGCTATTTA
64 GTTTTAACC-AAAAATG-TAAAAAATTCAACTTAAAATC-AATTATGAGATTATAAAACTATTTA
* * * * * * *
13998 AA-TCGTGTAATAAGGCTTTAGAAAGAATGAGAGACTATAAGTGGG
126 AAGT-GAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATAGA
* ** * *
14043 CTTTTCTTACCAATGAATGCTTT-TTCTTTACATTCCTCGAGGTAGACATTTAATTATAGTCTGT
1 CTTTTCTTGCCAATGAATGCTTTCTTCTTTATGTTTCTCGAGGTAGACATTCAATTATAGTCTGT
* * * ***
14107 TTTAA-CTAAAGTCGTACAAGAATTCAACTTAAAATCAATTGCAAGATTATAAAATCT-TTTAAA
66 TTTAACCAAAAAT-GTA-AAAAATTCAACTTAAAATCAATTATGAGATTATAAAA-CTATTTAAA
* *
14170 GTAAGTAATAAGGCTTTTGAAGGAATGAGTGTCTATAAATAGA
128 GTGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATAGA
* ** * * * *
14213 CTTTTCTTACCAATGAATGCCTTTC-TCTCCATGTTTCTTGAGGTAAACATTAAATTATAATCTG
1 CTTTTCTTGCCAATGAATG-CTTTCTTCTTTATGTTTCTCGAGGTAGACATTCAATTATAGTCTG
** * * * * * *
14277 TTTTAGTCAATAATGTAAAAAAAAATGAA-TCTAAAATGAATTTTGAGATTATAAAACCATTTAA
65 TTTTAACCAAAAATGT--AAAAAATTCAACT-TAAAATCAATTATGAGATTATAAAACTATTTAA
* * * * * * *
14341 AGCGAGTATTAAGGCTTTTTAAGAAAT-AGGAGATTATAAATCGA
127 AGTGAGTAATAAGGCTTTTGAAGGAATGA-GTGACTATAAATAGA
** * * * *
14385 CTTTTCTTGCCTGTGAATGCTTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATAATAGTCTGT
1 CTTTTCTTGCCAATGAATGCTTTCTTCTTTATGTTTCTCGAGGTAGACATTCAATTATAGTCTGT
* * *
14450 TTTAACTAAAAATGTAAAAAATTCAATTTAAAATCAATTATGAGATTATAAAACTAATTAAAGTG
66 TTTAACCAAAAATGTAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGTG
*
14515 AGTAATAAGGCTTTTGAAGGAAT-AGGTGACTATAAATGGA
131 AGTAATAAGGCTTTTGAAGGAATGA-GTGACTATAAATAGA
* * * * * *
14555 CTTTTTTTGCCAATGAATGCCTTT-TTCTTTATGTTACTTGAAGTAGATATTCAATTATACTCTG
1 CTTTTCTTGCCAATGAATG-CTTTCTTCTTTATGTTTCTCGAGGTAGACATTCAATTATAGTCTG
* * *
14619 TTTTAGCCAAAAATGTAAAACAATTCAGCTTAAAATCAATTGTGAGATTATAAAACTATTTAAAG
65 TTTTAACCAAAAATGTAAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAG
* *
14684 TGAGTAATAAGGCTTTTGAAAGAATAAGTGACTATAAATAGA
129 TGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATAGA
* * * * *
14726 TTTTTCTTGCCAATGAATGCTTTCTTCTTCATGTTTGTCGAGGAAGACTTTCAATTATAGTCTGT
1 CTTTTCTTGCCAATGAATGCTTTCTTCTTTATGTTTCTCGAGGTAGACATTCAATTATAGTCTGT
* * * *
14791 TTTAACTAAAAAAAAGTAGAGAAAATTGAACTTAAAATGAAATT-TGAGATTATAAAACTATTTA
66 TTTAAC--CAAAAATGTA-A-AAAATTCAACTTAAAAT-CAATTATGAGATTATAAAACTATTTA
*
14855 AA-TCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAGA
126 AAGT-GAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATAGA
* * * ** *
14900 CTTTTCTTGCCAATGAATGCTTTTTTCTTTATGTTTTTCGAGGTAGACATTCAATTATTGTAAGC
1 CTTTTCTTGCCAATGAATGCTTTCTTCTTTATGTTTCTCGAGGTAGACATTCAATTATAGTCTGT
* * * * *
14965 TTTAGCCAAAAATGTAAAAAAAATCAATTTAAAAGCAATTATGAGATT-TAGAAACCATTTAAAG
66 TTTAACCAAAAATGT-AAAAAATTCAACTTAAAATCAATTATGAGATTATA-AAACTATTTAAAG
*
15029 CGAGTAATAAGGCTTTTGAAG
129 TGAGTAATAAGGCTTTTGAAG
15050 NNNNNNNNNN
Statistics
Matches: 983, Mismatches: 159, Indels: 75
0.81 0.13 0.06
Matches are distributed among these distances:
169 5 0.01
170 247 0.25
171 334 0.34
172 241 0.25
173 16 0.02
174 134 0.14
175 6 0.01
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (170 bp):
CTTTTCTTGCCAATGAATGCTTTCTTCTTTATGTTTCTCGAGGTAGACATTCAATTATAGTCTGT
TTTAACCAAAAATGTAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGTG
AGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATAGA
Found at i:15732 original size:67 final size:67
Alignment explanation
Indices: 15622--15756 Score: 225
Period size: 67 Copynumber: 2.0 Consensus size: 67
15612 GTTTTGAAGG
* *
15622 AATGAGTATCTATAAATAGACTTTTTTGGCAATGACTGCCTTTCTTTTCACGTTTCTCGAGGTAG
1 AATGAGTATCTATAAATAGACTTTTTTGGCAATGACTGCCTTTCTCTTCACATTTCTCGAGGTAG
15687 AC
66 AC
* * *
15689 AATGAGTGTCTATAAATAGACTTTTTTGGTAATGACTGTCTTTCTCTTCACATTTCTCGAGGTAG
1 AATGAGTATCTATAAATAGACTTTTTTGGCAATGACTGCCTTTCTCTTCACATTTCTCGAGGTAG
15754 AC
66 AC
15756 A
1 A
15757 TTCAATTATA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (67 bp):
AATGAGTATCTATAAATAGACTTTTTTGGCAATGACTGCCTTTCTCTTCACATTTCTCGAGGTAG
AC
Found at i:16184 original size:171 final size:169
Alignment explanation
Indices: 15810--17354 Score: 1180
Period size: 171 Copynumber: 9.0 Consensus size: 169
15800 TAAATTTTAC
* * * *
15810 GATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTAAAGAAATAGGAGATTATAAATGGACTT
1 GATTATAAAACTATTTAAAGT-AGTAATAAGGCTTTTAAAGGAATGGGTGATTATAAATGGAATT
* * * *
15875 TTCTTGCCCATGAATG-TTTTTTCTTCATATTTCTTGATGTAGACATTCAATTATAGTCTATTTT
65 TTCTTGCCAATGAATGCCTTTTTCTTCATGTTTCTTGAAGTAGACATTCAATTATAGTCTATTTT
* * *
15939 CACTAAAACTGTAAAAAATTCAACTTAAAATCAATTATGA
130 AACCAAAAATGTAAAAAATTCAACTTAAAATCAATTATGA
* * ** **
15979 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATAAGTGATTATAAATAAAATT
1 GATTATAAAACTATTTAAAG-TAGTAATAAGGCTTTTAAAGGAATGGGTGATTATAAATGGAATT
* * * * * * *
16044 TTTTTACCAATGAATGCCTTTTTCATCACGTTTCTTTAAGTAGACAATCATTTAT-GCTCTATTT
65 TTCTTGCCAATGAATGCCTTTTTCTTCATGTTTCTTGAAGTAGACATTCAATTATAG-TCTATTT
* ** *
16108 TAACTAAAAATGTAAAACAATTCAGTTTAAAATTAATTATGA
129 TAACCAAAAATGTAAAA-AATTCAACTTAAAATCAATTATGA
* * * *
16150 GATTATAAAACTATTTAAAGATAGTAACAAGGCTTTTGAAA-GAATGGGTGACTATAAATAGATT
1 GATTATAAAACTATTTAAAG-TAGTAATAAGGCTTTT-AAAGGAATGGGTGATTATAAATGGAAT
* * *
16214 TTTCTTGCCAATGAATG-CTTTGTTCTTCATGTTTCTTGAGGTAGACATTGAATTATAGTCCATT
64 TTTCTTGCCAATGAATGCCTTT-TTCTTCATGTTTCTTGAAGTAGACATTCAATTATAGTCTATT
** * * *
16278 TTAAATAAAAAAAGTAGAGAAAATTAAACCTT-AAATCAATTTTGA
128 TT-AACCAAAAATGTA-A-AAAATTCAA-CTTAAAATCAATTATGA
* * * * *
16323 GATTATAAAA-TCATTTAAA-TCGAGTAATAAGGCTTCTAAAGGAATGGGAGACTGTAAAT-AAA
1 GATTATAAAACT-ATTTAAAGT--AGTAATAAGGCTTTTAAAGGAATGGGTGATTATAAATGGAA
* * * * * * *
16385 GTTTTCTTAGTC-ATGAATGCTTTTTTCTTTACGTTTTTTG-AGATAGACATACAATTATAGCCT
63 -TTTTCTT-GCCAATGAATGCCTTTTTCTTCATGTTTCTTGAAG-TAGACATTCAATTATAGTCT
* *
16448 ATTTTTAACCAAATATGTAAAAGAATTCAACTTAAAACCAATTATGA
125 A-TTTTAACCAAAAATGTAAAA-AATTCAACTTAAAATCAATTATGA
* * * * *
16495 GATTATAAAACTATTTAAGGTGAGTAATAAAGCTTTTTAAGGAATGGGTGACTATAAATGGACTT
1 GATTATAAAACTATTTAAAGT-AGTAATAAGGCTTTTAAAGGAATGGGTGATTATAAATGGAATT
** * * * * *
16560 TTCTTGCTGATGAATG-ATTTTT-TTCCATGTTTCTCG-AGCGAGACATTCATTTATAGTCTGTT
65 TTCTTGCCAATGAATGCCTTTTTCTT-CATGTTTCTTGAAG-TAGACATTCAATTATAGTCTATT
* * * *
16622 TTAACCAAATATATAAAAGAATTTAACTTAAAATCAAATATGA
128 TTAACCAAAAATGTAAAA-AATTCAACTTAAAATCAATTATGA
* * * * *
16665 GATTATAAAACTATTTAAAGTGAGTAATAAAGCTTTTGAATGAATGAGT-ATCTATAAATGGACT
1 GATTATAAAACTATTTAAAGT-AGTAATAAGGCTTTTAAAGGAATGGGTGAT-TATAAATGGAAT
* * * * * * * *
16729 TTTGTTGCCAATGAATGCCTTTCTCTCCATGTTTCTCGAGGTAGACATTCACTTATAATCTTTTT
64 TTTCTTGCCAATGAATGCCTTTTTCTTCATGTTTCTTGAAGTAGACATTCAATTATAGTCTATTT
** * * *
16794 TAACCATTAATGTAAAAAAAATT-GACTCTAAAATTAATTTTGA
129 TAACCAAAAATGT--AAAAAATTCAACT-TAAAATCAATTATGA
* * * *
16837 -AGTTATAAAA-TCATTTAAAGAGAGTAATAA-GCTTTT-GAGGAAATAGGAGATTATAAATGG-
1 GA-TTATAAAACT-ATTTAAAG-TAGTAATAAGGCTTTTAAAGG-AATGGGTGATTATAAATGGA
* * * * * * * *
16897 ATATTTCTTGCCTATGAGTACTTTTTTTTTCACGTTTCTTGAGGTAGACATTCAATTATAGTTTA
62 AT-TTTCTTGCCAATGAATGCCTTTTTCTTCATGTTTCTTGAAGTAGACATTCAATTATAGTCTA
* * *
16962 TTTTAACAAAAAATGTAAAATAATTCAACTGAAAATCAATTGTGA
126 TTTTAACCAAAAATGTAAAA-AATTCAACTTAAAATCAATTATGA
* * * * * ** *
17007 AATTATAAAACCATTTAAAGCGAGCAATAAGGTTTTTGAAA-GAATGGGT-ATCTATAAACAGAC
1 GATTATAAAACTATTTAAAG-TAGTAATAAGGCTTTT-AAAGGAATGGGTGAT-TATAAATGGAA
* * ** * * *
17070 TTTTCTTGCTAATGAATGCTTTTTTCTTCACCTTTC-TCAAGGGAGACATTCATTTATAGTCTAT
63 TTTTCTTGCCAATGAATGCCTTTTTCTTCATGTTTCTTGAA-GTAGACATTCAATTATAGTCTAT
* * **********
17134 TTTAA-AAAAATATATAAAAGAATNNNNNNNNNNATCAATTATGA
127 TTTAACCAAAA-ATGTAAAA-AATTCAACTTAAAATCAATTATGA
* * ** * * * * *
17178 GATTATAAAACCATTTAAAGCAAACAATAAGGCTTTCAAAGGAATGAGTG-TCTGTAAACGGACT
1 GATTATAAAACTATTTAAAG-TAGTAATAAGGCTTTTAAAGGAATGGGTGAT-TATAAATGGAAT
* * * * * *
17242 TTTCTTGCTAATGAATGCTTTTTTTCTTCACGTTTCTT-AAGCGAGACATTCATTTATAGTCTGT
64 TTTCTTGCCAATGAATGC-CTTTTTCTTCATGTTTCTTGAAG-TAGACATTCAATTATAGTCTAT
* *
17306 TTTAATCAAAAATTTAAAAATATTCAACTTAAAATCAATTATGA
127 TTTAACCAAAAATGTAAAAA-ATTCAACTTAAAATCAATTATGA
17350 GATTA
1 GATTA
17355 NNNNNNNNNN
Statistics
Matches: 1111, Mismatches: 207, Indels: 113
0.78 0.14 0.08
Matches are distributed among these distances:
169 75 0.07
170 225 0.20
171 453 0.41
172 216 0.19
173 129 0.12
174 13 0.01
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (169 bp):
GATTATAAAACTATTTAAAGTAGTAATAAGGCTTTTAAAGGAATGGGTGATTATAAATGGAATTT
TCTTGCCAATGAATGCCTTTTTCTTCATGTTTCTTGAAGTAGACATTCAATTATAGTCTATTTTA
ACCAAAAATGTAAAAAATTCAACTTAAAATCAATTATGA
Found at i:16864 original size:342 final size:339
Alignment explanation
Indices: 15689--21052 Score: 1838
Period size: 342 Copynumber: 15.5 Consensus size: 339
15679 CGAGGTAGAC
* ** * * * *
15689 AATGAGTGTCTATAAATAGACTTTT-TTGGTAATGACTGTCTTTCTCTTCACATTTCTCGAGGTA
1 AATGAGTATCTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTTCTTCACGTTTCTCGAGGTA
** * * *
15753 GACATTCAATTATAATCCGTTTT-------A-GTAAAAAAAAATTGAATCTAAAATAAATT-TTA
66 GACATTCAATTATAATCTATTTTAACAAAAATGT-AAAAAAAATTGACTCTAAAATCAATTATGA
* * * * *
15809 CGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTAAAGAAATAGGAGATTATAAATGGACT
130 -GATTATAAAACTATTTAAAGAGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATGGACT
** * * *
15874 TTTCTTGCCCATGAATG-TTTTTTCTTCATATTTCTTGATGTAGACATTCAATTATAGTCTATTT
194 TTTCTTGCTAATGAATGATTTTTT-TCCATGTTTCTTGA-GGAGACATTCAATTATAGTCTATTT
* * * *
15938 TCACTAAAACTGTAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAG
257 TAACCAAAAATATAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAG
16003 TAATAAGGCTTTTAAAGG
322 TAATAAGGCTTTTAAAGG
* * * * * * ** *
16021 AATAAGTGAT-TATAAATAAAATTTTTTTACCAATGAATGCCTTTTTCATCACGTTTCTTTAAGT
1 AATGAGT-ATCTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTTCTTCACGTTTCTCGAGGT
* * ** * * * * *
16085 AGACAATCATTTATGCTCTATTTTAACTAAAAATGT-AAAACAATTCAGTTTAAAATTAATTATG
65 AGACATTCAATTATAATCTATTTTAAC-AAAAATGTAAAAAAAATTGACTCTAAAATCAATTATG
* * * *
16149 AGATTATAAAACTATTTAAAGATAGTAACAAGGCTTTTGAAA-GAATGGGTGACTATAAATAGAT
129 AGATTATAAAACTATTTAAAGAGAGTAATAAGGCTTTT-AAAGGAATGGGTGACTATAAATGGAC
* * * *
16213 TTTTCTTGCCAATGAATGCTTTGTTCTT-CATGTTTCTTGAGGTAGACATTGAATTATAGTCCAT
193 TTTTCTTGCTAATGAATGATTT-TT-TTCCATGTTTCTTGAGG-AGACATTCAATTATAGTCTAT
** * * * *
16277 TTTAAATAAAAAAAGTAGAGAAAATTAAACCTT-AAATCAATTTTGAGATTATAAAATCATTTAA
255 TTTAACCAAAAATA-TA-A-AAAATTCAA-CTTAAAATCAATTATGAGATTATAAAACCATTTAA
* *
16341 ATCGAGTAATAAGGCTTCTAAAGG
316 AGCGAGTAATAAGGCTTTTAAAGG
* * * * * * * *
16365 AATGGGAG-A-CTGTAAATAAAGTTTTCTTAGTC-ATGAATGCTTTTTTCTTTACGTTTTTTGAG
1 AAT--GAGTATCTATAAATAGACTTTTCTT-GCCAATGAATGCCTTTTTCTTCACGTTTCTCGAG
* * ** * * * *
16427 ATAGACATACAATTATAGCCTATTTTTAACCAAATATGT-AAAAGAATTCAACT-TAAAACCAAT
63 GTAGACATTCAATTATAATCTA-TTTTAA-CAAAAATGTAAAAAAAATT-GACTCTAAAATCAAT
* * * *
16490 TATGAGATTATAAAACTATTTAAGGTGAGTAATAAAGCTTTTTAAGGAATGGGTGACTATAAATG
125 TATGAGATTATAAAACTATTTAAAGAGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATG
* * * *
16555 GACTTTTCTTGCTGATGAATGATTTTTTTCCATGTTTCTCGAGCGAGACATTCATTTATAGTCTG
190 GACTTTTCTTGCTAATGAATGATTTTTTTCCATGTTTCTTGAG-GAGACATTCAATTATAGTCTA
* * * *
16620 TTTTAACCAAATATATAAAAGAATTTAACTTAAAATCAAATATGAGATTATAAAACTATTTAAAG
254 TTTTAACCAAAAATATAAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG
* * * *
16685 TGAGTAATAAAGCTTTTGAATG
318 CGAGTAATAAGGCTTTTAAAGG
* * * * *
16707 AATGAGTATCTATAAATGGACTTTTGTTGCCAATGAATGCCTTTCTCTCCATGTTTCTCGAGGTA
1 AATGAGTATCTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTTCTTCACGTTTCTCGAGGTA
* * ** * *
16772 GACATTCACTTATAATCTTTTTTAACCATTAATGTAAAAAAAATTGACTCTAAAATTAATTTTGA
66 GACATTCAATTATAATCTATTTTAA-CAAAAATGTAAAAAAAATTGACTCTAAAATCAATTATGA
* * * *
16837 -AGTTATAAAA-TCATTTAAAGAGAGTAATAA-GCTTTT-GAGGAAATAGGAGATTATAAATGGA
130 GA-TTATAAAACT-ATTTAAAGAGAGTAATAAGGCTTTTAAAGG-AATGGGTGACTATAAATGGA
* * * *
16898 -TATTTCTTGCCT-ATGAGT-ACTTTTTTTTTCACGTTTCTTGAGGTAGACATTCAATTATAGTT
192 CT-TTTCTTG-CTAATGAATGA--TTTTTTTCCATGTTTCTTGAGG-AGACATTCAATTATAGTC
* * * * *
16960 TATTTTAACAAAAAATGTAAAATAATTCAACTGAAAATCAATTGTGAAATTATAAAACCATTTAA
252 TATTTTAACCAAAAATATAAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAA
* *
17025 AGCGAGCAATAAGGTTTTTGAAA-G
316 AGCGAGTAATAAGGCTTTT-AAAGG
* * * * * * *
17049 AATGGGTATCTATAAACAGACTTTTCTTGCTAATGAATGCTTTTTTCTTCACCTTTCTCAAGGGA
1 AATGAGTATCTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTTCTTCACGTTTCTCGAGGTA
* * * * **********
17114 GACATTCATTTATAGTCTATTTTAA-AAAAATATATAAAAGAATNNNNNNNNNNATCAATTATGA
66 GACATTCAATTATAATCTATTTTAACAAAAATGTA-AAAAAAATTGACTCTAAAATCAATTATGA
* ** * * * * *
17178 GATTATAAAACCATTTAAAGCA-AACAATAAGGCTTTCAAAGGAATGAGTGTCTGTAAACGGACT
130 GATTATAAAACTATTTAAAG-AGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATGGACT
* * * * *
17242 TTTCTTGCTAATGAATGCTTTTTTTCTTCACGTTTCTTAAGCGAGACATTCATTTATAGTCTGTT
194 TTTCTTGCTAATGAATGATTTTTTTC--CATGTTTCTTGAG-GAGACATTCAATTATAGTCTATT
* *
17307 TTAATCAAAAATTTAAAAATATTCAACTTAAAATCAATTATGAGATTANNNNNNNNNNNNNNNNN
256 TTAACCAAAAATATAAAAA-ATTCAACTTAAAATCAATTATGAGATTA-----------------
*************************************
17372 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
303 TAAAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGG
***************************************************************
17409 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTA
1 AATGAGTATCTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTTCTTCACGTTTCTCGAGGTA
* * * * * * * * *** * *** * * **** *
17474 -CCAATGAATGCAT-TTTTTTTTTCACGTTTCCCAAGGTAGATAGTCACTTGTAGT-TTGTTTTA
66 GACATTCAAT-TATAATCTATTTTAAC----AAAAATGTA-A-AAAAAATTG-ACTCTAAAATCA
** * * * * * * * * ** * *** * *
17536 ACCA-AAAATGTA-AAAA-AATTCAAATTAAAATAAATTATGAAATTATAAAACCAT--TTAAAG
123 ATTATGAGAT-TATAAAACTATTTAAA-GAGAGT-AA-TAAG-GCTTTTAAAGGAATGGGT-GA-
* * * * *
17596 CGACT-AAT-AAGCCTTTCGATGGAATGGGTAACTGTAAATGGACTTTTCTTGCCAATGAATGTA
181 CTA-TAAATGGA-CTTTTC--T----T-GCTAA-TG--AAT-GA-TTTT-TTTCC-----ATG--
* * * * ** *
17659 AATTTCTTTACATTTCTCAAGGTAGACAGTCAGTTATTGTCCGTTTTAACCAAAAATGTAAAAAA
224 ------TTT-C---T-T-GAGG-AGACATTCAATTATAGTCTATTTTAACCAAAAATAT-AAAAA
* * * * * *
17724 ATTCAAATAAAAATCAATTATG-GAATTATAAAACTATTTACAGTGAGTAATAAGGCTTTTAAAA
275 ATTCAACTTAAAATCAATTATGAG-ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTAAAG
17788 G
339 G
* * * * * *
17789 AATGGGTGA-CTATAAAT-GAACATTTCTT-CTTAATAAATGGCTTTTTCTAT-ACGTTTCTTGA
1 AATGAGT-ATCTATAAATAG-ACTTTTCTTGC-CAATGAATGCCTTTTTCT-TCACGTTTCTCGA
* * * * ** * *
17850 AGCAGACTTTCAATTATAGTCTATTTTAACAAAAA-ACATAAAAAAATTCAACT-TAAAATTAAT
62 GGTAGACATTCAATTATAATCTATTTTAACAAAAATGTA-AAAAAAATT-GACTCTAAAATCAAT
********** * * * * *
17913 TATGNNNNNNNNNNACCATTTAAAGAGAGTAATAAGCCTTTTAAAGGAATGAGTGACTATGAATA
125 TATGAGATTATAAAACTATTTAAAGAGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATG
* * * * * *********
17978 GATTTTTCTTGCCAATGAATGCTTTGTTCTT-CACGTTTCTCGANNNNNNNNNNCAATTATAGTC
190 GACTTTTCTTGCTAATGAATGATTT-TT-TTCCATGTTTCTTGA-GGAGACATTCAATTATAGTC
* * * * *
18042 TGTTTTAACTAAAAA-AGTAAAAAAATTGAA-TCTAAAATCAATTTTGAGGTTATAAAACCATTT
252 TATTTTAACCAAAAATA-T-AAAAAATTCAACT-TAAAATCAATTATGAGATTATAAAACCATTT
* * *
18105 AAAGCAAGTAATAAGGCTTTTGAAGA
314 AAAGCGAGTAATAAGGCTTTTAAAGG
* * * * *
18131 AATAGGAG-AT-TATAAATGGACTTTTCTTGCCTATGAATG--TTTTTTTTTACGTTTTGTCGA-
1 AAT--GAGTATCTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTTCTTCACG-TTTCTCGAG
* * * *
18191 GTAGACATTCAATTATAGTCTGTTTTAACTAAAAAT-T-TAAAAAATTCAACT-TAAAATCAATT
63 GTAGACATTCAATTATAATCTATTTTAAC-AAAAATGTAAAAAAAATT-GACTCTAAAATCAATT
* * * *
18253 ATGAGATTATAAAA-TCATTTAAAGCGAGTAATAAGTG-TTTTGAAGGAATAGGTGGCTATAAAT
126 ATGAGATTATAAAACT-ATTTAAAGAGAGTAATAAG-GCTTTTAAAGGAATGGGTGACTATAAAT
** * * * * * * *
18316 AAAATTTTTTTTACCAATGAATG-TCTTTTTCTTCACGTTTCTCT-AGGTAGATATTCAATTATA
189 -GGACTTTTCTTGCTAATGAATGAT-TTTTT-TCCATGTTTCT-TGAGG-AGACATTCAATTATA
* * * * * **
18379 ATCTGTTTTAACTAAAAATTTAAAAAATTCAACTTAAAATCAATTATGAGCTTAT-AAATTATTT
249 GTCTATTTTAACCAAAAATATAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTT
* **
18443 AAAACGAGTAATAAGTG-TTTCGAAGG
314 AAAGCGAGTAATAAG-GCTTTTAAAGG
* * * *
18469 AAT-AGGTGA-CTATAAATAAAATTTTTTTGCCAATGAATGCCTTTTTCTTCACGTTTCTCGAAA
1 AATGA-GT-ATCTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTTCTTCACGTTTCTCG-AG
* * * * * *
18532 G-AGACATTTAATTAT-TTACTGTTTTAACTACAAATGT-AAAACAATTCAGCT-TAAAATCAAT
63 GTAGACATTCAATTATAAT-CTATTTTAAC-AAAAATGTAAAAAAAATTGA-CTCTAAAATCAAT
** * *
18593 TATGAGATTATAAAACTATTTAAAGCTAATAACAAGGCTTTTGAAA-GAATGGGTGACTATAAAT
125 TATGAGATTATAAAACTATTTAAAGAGAGTAATAAGGCTTTT-AAAGGAATGGGTGACTATAAAT
* * * *
18657 GGATTTTTCTTACCAATGAATGCTTTCTTCTT-C-TCGTTTCTTGAGGTAGACATTCAATTATAG
189 GGACTTTTCTTGCTAATGAATGATTT-TT-TTCCAT-GTTTCTTGAGG-AGACATTCAATTATAG
* * * ** * * * * *
18720 TTTGTTTAAATTAGAAAA-AGTAGAGAAAATTGAACTTAAGACCAATTTTGAGATTATAAAACTA
250 TCTATTTTAACCA-AAAATA-TA-A-AAAATTCAACTTAAAATCAATTATGAGATTATAAAACCA
* *
18784 TTTAAATCGAATAATAAGGC-TTTAGAAGG
311 TTTAAAGCGAGTAATAAGGCTTTTA-AAGG
* * * * * * * ** * *
18813 AATGAG-AGACTATAAATGGAGTTTTCTTAG-AAATGAATACTTTTTTCTTTATATTTTTCAAGG
1 AATGAGTA-TCTATAAATAGACTTTTCTT-GCCAATGAATGCCTTTTTCTTCACGTTTCTCGAGG
* * * * * * * *
18876 TAGACATTCAATTATAGTCTGTTTTAAC-CAAATATATAAAAGAATTCAACT-TGAAACCAATTA
64 TAGACATTCAATTATAATCTATTTTAACAAAAATGTA-AAAAAAATT-GACTCTAAAATCAATTA
* * *
18939 TGAGATTATAAAACTATTTAAAGTGAGTAATAA--CTTTTTAAGGAATGGGTGACTATAACTGGA
127 TGAGATTATAAAACTATTTAAAGAGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATGGA
* * * ** * *
19002 TTTTTCTT-ATCAATGAATGCTTTTTTCTTAACT-TTTCTTAATGTAGACATTCAATTATAGTCT
192 CTTTTCTTGCT-AATGAATGATTTTTT-TCCA-TGTTTCTTGA-GGAGACATTCAATTATAGTCT
* * ** * ** *
19065 ATTTCAAGCAAAAATGCAAAACAATTCAGCTTAAAAAAAATTATGAGATTATAAAATCATTTAAA
253 ATTTTAACCAAAAATATAAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAA
* *
19130 GTGAGTAATAAGGCTTTCT-AAGA
317 GCGAGTAATAAGGCTTT-TAAAGG
* * * * * *
19153 AATGGGAG-A-CTATAAATAGA-TTTTTTTAGTCAATGAATGCTTTTTTCTTTACATTT-TCCAA
1 AAT--GAGTATCTATAAATAGACTTTTCTT-GCCAATGAATGCCTTTTTCTTCACGTTTCT-CGA
* * * * *
19214 GGTAGACATTTAATTAGAATCTATTTAAACCAATAATGTAAAAATAATTGAGCT-TAAAATCAAT
62 GGTAGACATTCAATTATAATCTATTTTAA-CAAAAATGTAAAAAAAATTGA-CTCTAAAATCAAT
* * ** * * * *
19278 TTTGAGATTATAAAACCATTTAAATCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATA
125 TATGAGATTATAAAACTATTTAAAGAGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATG
* ** * * * * *
19343 GACTTTTCTAGAAAATGAAT-ACTTTTTTCTTCACGTTTC-TCAGGGTAAACAATCAATTATAGT
190 GACTTTTCTTGCTAATGAATGA-TTTTTT-TCCATGTTTCTTGA-GG-AGACATTCAATTATAGT
* * * * *
19406 CTGTTTTAAACAAAAATGTAAAAAAAATCAACTTAAAATCAATTATGAGCTTATAAAACCATTTA
251 CTATTTTAACCAAAAATAT-AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTA
19471 AAGCGAGTAATAAGGCTTTTGAAA-G
315 AAGCGAGTAATAAGGCTTTT-AAAGG
* * * ** **
19496 AATGGGAG-A-CTATAAATGGACTTTTCTAGCCAATGAGTGTATTTTTCTTCACGTTTCTCGAAA
1 AAT--GAGTATCTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTTCTTCACGTTTCTCGAGG
* * * * *
19559 T-GAAAATTCAATTATAGTCTGTTTTAGTA-AAAAATAT-AAAAAAATTCAACT-TAAAATCAAT
64 TAG-ACATTCAATTATAATCTATTTTA--ACAAAAATGTAAAAAAAATT-GACTCTAAAATCAAT
* * *
19620 TATGAGCTTCTAAAACTATTTAAA-ACGAGTAATAAGGCTTTTGAAA-GAATGGGTGACCATAAA
125 TATGAGATTATAAAACTATTTAAAGA-GAGTAATAAGGCTTTT-AAAGGAATGGGTGACTATAAA
* * * ** * * * *
19683 TAGACTTTTCTT-CTCAATGAATGGCTTTTTGTATATATTTCCTGATGTAGGCATTCAATTATAG
188 TGGACTTTTCTTGCT-AATGAAT-GATTTTTTTCCATGTTTCTTGA-GGAGACATTCAATTATAG
* *
19747 TCTATTTTAACTAAAAATATAAAAAAAATCAACTTAAAATCAATTATGAGATTATAAAACCATTT
250 TCTATTTTAACCAAAAATAT-AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTT
* *
19812 AAAGCGAGTAGTAAGGCTTTTGAAGG
314 AAAGCGAGTAATAAGGCTTTTAAAGG
* * * * * ** * *
19838 AATAAGTGA-CTGTAAATGGACTTTGCTTGTCAATGAATATCTTTCTT-TTCATGTTTCTCAAGG
1 AATGAGT-ATCTATAAATAGACTTTTCTTGCCAATGAATGCCTTT-TTCTTCACGTTTCTCGAGG
* * * * * * * *
19901 TAAACATTTAATTATAATCTTTTTTAATCAAAACTAT-AAAAAACTTAAACT-TAAAATCAATTT
64 TAGACATTCAATTATAATCTATTTTAA-CAAAAATGTAAAAAAAATT-GACTCTAAAATCAATTA
* * * * * * *
19964 TCAGAATT-TAAAACTATTTAAAGTGAGTGATATGGCTTTTGAAGGAATGGGAGACTATTAATGG
127 TGAG-ATTATAAAACTATTTAAAGAGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATGG
* **
20028 ACATTTCTTGCCAATGAATGCTCTTTTCTTCCCAATGAATGCTTTTTTTCTTCATGTTTCTCCAG
191 AC--TT-TT--C--T---TG-------C-T---AATGAATGATTTTTTTC--CATGTTTCTTGAG
* * * * *
20093 GTAGACATTCAATTATAGTCT-TTGTTAGCGAAAATTGTAAAAAACTTCAACTTAAAAGCAATTA
233 G-AGACATTCAATTATAGTCTATT-TTAACCAAAAATATAAAAAA-TTCAACTTAAAATCAATTA
* * * * *
20157 TAAGATTATCAAACCACTTAAAGCGAGTAATAAGG-TTTTGAAGA
295 TGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGG
* * * * * *
20201 AATG-GT-TGACTATAAATGGACTTTTCTT-CTTAATGAATGGCTTTTACTACACATTTC-CTGA
1 AATGAGTAT--CTATAAATAGACTTTTCTTGC-CAATGAATGCCTTTTTCTTCACGTTTCTC-GA
* * * * * *
20262 TGTAAACATTCAATTATATTCTATTTTAATAAAAAAATGTAAAAAAAGTTAACT-TAAAATCAAT
62 GGTAGACATTCAATTATAATCTATTTT-A-ACAAAAATGTAAAAAAAATTGACTCTAAAATCAAT
* * *
20326 TATGA-AGTTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAAT
125 TATGAGA-TTATAAAACTATTTAAAGAGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAAT
* * * * * * *
20390 AGACTTTTCTTGCCAATGAATGCGTTTTTCTTTACA--TTTCATGAGGTGAACATTTAATTATTA
189 GGACTTTTCTTGCTAATGAAT--GATTTT-TTTCCATGTTTCTTGAGGAG-ACATTCAATTA-TA
* * * * *
20453 -TCTGTTCTAACTAAAAATACAAAAATATTTAACTTAAAATCAATTATGAGATTATAAAACCATT
249 GTCTATTTTAACCAAAAATATAAAAA-ATTCAACTTAAAATCAATTATGAGATTATAAAACCATT
*
20517 TAAAGTGAGTAATAAGGCTTTTGAAA-G
313 TAAAGCGAGTAATAAGGCTTTT-AAAGG
* * * ** * ** *
20544 AATGAGTGA-CTATAAATAGATTTTTCTAGCCAATGAATG-TTTGTTTCTT-TTGTTTTTTAAGT
1 AATGAGT-ATCTATAAATAGACTTTTCTTGCCAATGAATGCCTT-TTTCTTCACGTTTCTCGAGG
* * * * *
20606 TAAACATTCAATTATAGTCTGTTTTAAC-CAAA---AAAAAAAATTGAACT-TAAAATCAATTTT
64 TAGACATTCAATTATAATCTATTTTAACAAAAATGTAAAAAAAATTG-ACTCTAAAATCAATTAT
* * *** *
20666 GAGATTATAAAACAATTCAAATCTAGTAATAAGGCTTTTAAAGGAATGGGAGACTATAAATGGAC
128 GAGATTATAAAACTATTTAAAGAGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATGGAC
* * * *
20731 TTTTCTTG-TCAATGAATGCTTTTTTCTTCATGTTTCTAGAGGTAGACATTCAATTATAGTCTGT
193 TTTTCTTGCT-AATGAATGATTTTTT-TCCATGTTTCTTGAGG-AGACATTCAATTATAGTCTAT
* * * * * * *
20795 TTTAGA-TAAAAATGTAAAAAAATTCAACTGAAAAGCATTTATGAGATTATGAAAGCATTTAAAG
255 TTTA-ACCAAAAATAT-AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG
* * *
20859 TGAGTAATAAGGCTTTTGAAGA
318 CGAGTAATAAGGCTTTTAAAGG
* * * * * * * *
20881 AATGGGTGA-CTATAAATGGACTTTTCTT-CTCAATGAATGGCTTTTACTACGCATTTCTTGAGG
1 AATGAGT-ATCTATAAATAGACTTTTCTTGC-CAATGAATGCCTTTTTCTTCACGTTTCTCGAGG
* * * * *
20944 TA-AGCATTCAATTATAGTCTATTTTAATGAAAAATGT-AAAAACATTCAACT-TAAAATTAATT
64 TAGA-CATTCAATTATAATCTATTTTAA-CAAAAATGTAAAAAAAATT-GACTCTAAAATCAATT
* * *
21006 ATAAAATTATAAAA-TCATTTAAAGCA-AGCAATAAGGCTTTTAAAGGA
126 ATGAGATTATAAAACT-ATTTAAAG-AGAGTAATAAGGCTTTTAAAGGA
21053 CATTTCATGA
Statistics
Matches: 3710, Mismatches: 992, Indels: 650
0.69 0.19 0.12
Matches are distributed among these distances:
332 19 0.01
333 46 0.01
334 2 0.00
335 9 0.00
336 15 0.00
337 211 0.06
338 97 0.03
339 123 0.03
340 415 0.11
341 319 0.09
342 1080 0.29
343 384 0.10
344 325 0.09
345 122 0.03
346 8 0.00
347 3 0.00
348 3 0.00
349 1 0.00
352 1 0.00
354 2 0.00
356 2 0.00
357 1 0.00
359 13 0.00
360 4 0.00
361 8 0.00
362 18 0.00
363 99 0.03
364 172 0.05
365 23 0.01
366 7 0.00
367 16 0.00
368 1 0.00
369 1 0.00
371 1 0.00
372 1 0.00
373 18 0.00
374 9 0.00
375 17 0.00
376 6 0.00
377 11 0.00
378 2 0.00
379 4 0.00
380 6 0.00
381 13 0.00
383 2 0.00
391 3 0.00
392 1 0.00
395 1 0.00
396 3 0.00
397 57 0.02
398 5 0.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.36
Consensus pattern (339 bp):
AATGAGTATCTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTTCTTCACGTTTCTCGAGGTA
GACATTCAATTATAATCTATTTTAACAAAAATGTAAAAAAAATTGACTCTAAAATCAATTATGAG
ATTATAAAACTATTTAAAGAGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATGGACTTT
TCTTGCTAATGAATGATTTTTTTCCATGTTTCTTGAGGAGACATTCAATTATAGTCTATTTTAAC
CAAAAATATAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
AAGGCTTTTAAAGG
Found at i:17225 original size:513 final size:507
Alignment explanation
Indices: 15689--17278 Score: 1527
Period size: 513 Copynumber: 3.1 Consensus size: 507
15679 CGAGGTAGAC
* ** * * **
15689 AATGAGTGTCTATAAATAGACTTTT-TTGGTAATGACTGTCTTTCTCTTCACATTTCTCGAGGTA
1 AATGAGTATCTATAAATAGACTTTTCTTGCCAATGAATGCCTTTCTCTTCATGTTTCTCGAGGTA
** * * *
15753 GACATTCAATTATAATCCGTTTT--AGT-A--AAAAAAAATTGAATCTAAAATAAATTTT-ACGA
66 GACATTCAATTATAATCATTTTTAAAATAAGTAAAAAAAATTGACTCTAAAATAAATTTTGAAGA
* *
15812 TTATAAAA-CTATTTAAAGTGAGTAATAAGGCTTTTAAAGAAATAGGAGATTATAAATGGACTTT
131 TTATAAAATC-ATTTAAAGAGAGTAATAAGGCTTTTAAGGAAATAGGAGATTATAAATGGACTTT
* * ** * *
15876 TCTTGCCCATGAATGTTTTTTCTTCATATTTCTTGATGTAGACATTCAATTATAGTCTATTTTCA
195 TCTTG-CCATGAATCTTTTTTTTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTATTTTAA
* *
15941 CTAAAACTGTAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
259 CAAAAAATGTAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
* ** * * * * * * *
16006 TAAGGCTTTTAAAGGAATAAGTGAT-TATAAATAAAATTTTTTTACCAATGAATGCCTTTTTCAT
324 TAAGGTTTTTAAA-GAATGGGTGATCTATAAATAGACTTTTCTTGCTAATGAATGCTTTTTTCTT
* * * * * *
16070 CACGTTTCTTTAA-GTAGACAATCATTTAT-GCTCTATTTTAACTAAAA-ATGTAAAACAATTCA
388 CACGTTTC-TCAAGGGAGACATTCATTTATAG-TCTATTTTAA-AAAAATATATAAAAGAATTCA
** * * *
16132 GTTTAAAATTAATTATGAGATTATAAAACTATTTAAAGATAGTAACAAGGCTTTTGAAAG
450 ACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGA-AGTAATAAGGC-TTTCAAAG
* * * *
16192 AATGGGTGA-CTATAAATAGATTTTTCTTGCCAATGAATG-CTTTGTTCTTCATGTTTCTTGAGG
1 AATGAGT-ATCTATAAATAGACTTTTCTTGCCAATGAATGCCTTT-CTCTTCATGTTTCTCGAGG
* * * * * * * *
16255 TAGACATTGAATTATAGTCCATTTTAAATAAAAAAAGTAGAGAAAATTAAAC-CTTAAATCAATT
64 TAGACATTCAATTATAAT-CATTTT---TAAAATAAGTAAAAAAAATT-GACTCTAAAATAAATT
** * * * *
16319 TTG-AGATTATAAAATCATTTAAATCGAGTAATAAGGCTTCTAAAGG-AATGGGAGACTGTAAAT
124 TTGAAGATTATAAAATCATTTAAAGAGAGTAATAAGGCTT-TTAAGGAAATAGGAGATTATAAAT
** * * * * * *
16382 AAAGTTTTCTTAGTCATGAATGCTTTTTTCTTT-ACGTTTTTTGAGATAGACATACAATTATAGC
188 GGACTTTTCTT-GCCATGAAT-CTTTTTT-TTTCACGTTTCTTGAGGTAGACATTCAATTATAGT
* * * *
16446 CTATTTTTAACCAAATATGTAAAAGAATTCAACTTAAAACCAATTATGAGATTATAAAACTATTT
250 CTA-TTTTAACAAAAAATGTAAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTT
* * * * * *
16511 AAGGTGAGTAATAAAGCTTTTTAAGGAATGGGTGA-CTATAAATGGACTTTTCTTGCTGATGAAT
313 AAAGCGAGTAAT-AAGGTTTTTAAAGAATGGGTGATCTATAAATAGACTTTTCTTGCTAATGAAT
* * * * * * **
16575 GATTTTTT-TCCATGTTTCTCGAGCGAGACATTCATTTATAGTCTGTTTTAACCAAATATATAAA
377 GCTTTTTTCTTCACGTTTCTCAAGGGAGACATTCATTTATAGTCTATTTTAAAAAAATATATAAA
* * * * *
16639 AGAATTTAACTTAAAATCAAATATGAGATTATAAAACTATTTAAAGTGAGTAATAAAGCTTTTGA
442 AGAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAG-AAGTAATAAGGC-TTTCA
*
16704 ATG
505 AAG
* * *
16707 AATGAGTATCTATAAATGGACTTTTGTTGCCAATGAATGCCTTTCTCTCCATGTTTCTCGAGGTA
1 AATGAGTATCTATAAATAGACTTTTCTTGCCAATGAATGCCTTTCTCTTCATGTTTCTCGAGGTA
* * * *
16772 GACATTCACTTATAATCTTTTTTAACCATTAATGTAAAAAAAATTGACTCTAAAATTAATTTTGA
66 GACATTCAATTATAATCATTTTTAA--AATAA-GTAAAAAAAATTGACTCTAAAATAAATTTTGA
*
16837 AG-TTATAAAATCATTTAAAGAGAGTAATAA-GCTTTTGAGGAAATAGGAGATTATAAATGGA-T
128 AGATTATAAAATCATTTAAAGAGAGTAATAAGGCTTTTAAGGAAATAGGAGATTATAAATGGACT
* *
16899 ATTTCTTGCCTATGAGTACTTTTTTTTTCACGTTTCTTGAGGTAGACATTCAATTATAGTTTATT
193 -TTTCTTGCC-ATGAAT-CTTTTTTTTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTATT
* * *
16964 TTAACAAAAAATGTAAAATAATTCAACTGAAAATCAATTGTGAAATTATAAAACCATTTAAAGCG
255 TTAACAAAAAATGTAAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCG
* *
17029 AGCAATAAGGTTTTTGAAAGAATGGGT-ATCTATAAACAGACTTTTCTTGCTAATGAATGCTTTT
319 AGTAATAAGGTTTTT-AAAGAATGGGTGATCTATAAATAGACTTTTCTTGCTAATGAATGCTTTT
* *
17093 TTCTTCACCTTTCTCAAGGGAGACATTCATTTATAGTCTATTTTAAAAAAATATATAAAAGAATN
383 TTCTTCACGTTTCTCAAGGGAGACATTCATTTATAGTCTATTTTAAAAAAATATATAAAAGAATT
********* * **
17158 NNNNNNNNNATCAATTATGAGATTATAAAACCATTTAAAGCAAACAATAAGGCTTTCAAAGG
448 CAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAG-AAGTAATAAGGCTTTCAAA-G
* * ** * * * *
17220 AATGAGTGTCTGTAAACGGACTTTTCTTGCTAATGAATGCTTTTTTTCTTCACGTTTCT
1 AATGAGTATCTATAAATAGACTTTTCTTGCCAATGAATGC-CTTTCTCTTCATGTTTCT
17279 TAAGCGAGAC
Statistics
Matches: 869, Mismatches: 175, Indels: 75
0.78 0.16 0.07
Matches are distributed among these distances:
503 25 0.03
504 41 0.05
505 4 0.00
508 1 0.00
510 1 0.00
511 13 0.01
512 120 0.14
513 277 0.32
514 114 0.13
515 176 0.20
516 88 0.10
517 9 0.01
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (507 bp):
AATGAGTATCTATAAATAGACTTTTCTTGCCAATGAATGCCTTTCTCTTCATGTTTCTCGAGGTA
GACATTCAATTATAATCATTTTTAAAATAAGTAAAAAAAATTGACTCTAAAATAAATTTTGAAGA
TTATAAAATCATTTAAAGAGAGTAATAAGGCTTTTAAGGAAATAGGAGATTATAAATGGACTTTT
CTTGCCATGAATCTTTTTTTTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTATTTTAACA
AAAAATGTAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATA
AGGTTTTTAAAGAATGGGTGATCTATAAATAGACTTTTCTTGCTAATGAATGCTTTTTTCTTCAC
GTTTCTCAAGGGAGACATTCATTTATAGTCTATTTTAAAAAAATATATAAAAGAATTCAACTTAA
AATCAATTATGAGATTATAAAACTATTTAAAGAAGTAATAAGGCTTTCAAAG
Found at i:17794 original size:171 final size:170
Alignment explanation
Indices: 17474--20057 Score: 2200
Period size: 171 Copynumber: 15.1 Consensus size: 170
17464 NNNNNNNNTA
* * * * * * *
17474 CCAATGAATGCATTTTTTTTTTCACGTTTCCCAAGGTAGATAGTCACTTGTAGTTTGTTTTAACC
1 CCAATGAATG--TTTTTTCTTT-ACGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACC
* * * * *
17539 AAAAATGTAAAAAAATTCAAATTAAAATAAATTATGAAATTATAAAACCATTTAAAGCGACTAAT
63 AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAAT
* * * * *
17604 AAGCCTTTCGATGGAATGGGTAACTGTAAATGGACTTTTCTTG
128 AAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTG
** * * * * *
17647 CCAATGAATGTAAATTTCTTTACATTTCTCAAGGTAGACAGTCAGTTATTGTCCGTTTTAACCAA
1 CCAATGAATGT-TTTTTCTTTACGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCAA
* * * *
17712 AAATGTAAAAAAATTCAAATAAAAATCAATTATG-GAATTATAAAACTATTTACAGTGAGTAATA
65 AAATGTAAAAAAATTCAACTTAAAATCAATTATGAG-ATTATAAAACTATTTAAAGCGAGTAATA
* * * *
17776 AGGCTTTTAAAAGAATGGGTGACTATAAATGAACATTTCTT-
129 AGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTG
* * * * * * * * *
17817 CTTAATAAATGGCTTTTTCTATACGTTTCTTGAA-GCAGACTTTCAATTATAGTCTATTTTAACA
1 C-CAATGAAT-GTTTTTTCTTTACGTTTC-TCAAGGTAGACATTCAATTATAGTCTGTTTTAACC
** * ********** * *
17881 AAAAACATAAAAAAATTCAACTTAAAATTAATTATGNNNNNNNNNNACCATTTAAAGAGAGTAAT
63 AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAAT
* * * * * *
17946 AAGCCTTTTAAAGGAATGAGTGACTATGAATAGATTTTTCTTG
128 AAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTG
* * * ********** *
17989 CCAATGAATGCTTTGTTCTTCACGTTTCTCGANNNNNNNNNNCAATTATAGTCTGTTTTAACTAA
1 CCAATGAATG-TTTTTTCTTTACGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCAA
* * * * * *
18054 AAAAGTAAAAAAATTGAA-TCTAAAATCAATTTTGAGGTTATAAAACCATTTAAAGCAAGTAATA
65 AAATGTAAAAAAATTCAACT-TAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATA
* * * *
18118 AGGCTTTTGAAGAAATAGGAGATTATAAATGGACTTTTCTTG
129 AGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTG
* * * *
18160 CCTATGAATGTTTTTT-TTTACGTTTTGTCGA-GTAGACATTCAATTATAGTCTGTTTTAACTAA
1 CCAATGAATGTTTTTTCTTTACG-TTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCAA
*
18223 AAAT-TTAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA-TCATTTAAAGCGAGTAATA
65 AAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACT-ATTTAAAGCGAGTAATA
* * ** * * *
18286 AGTG-TTTTGAAGGAATAGGTGGCTATAAATAAAATTTTTTTTA
129 AG-GCTTTTGAAGGAATGGGTGACTATAAAT-GGACTTTTCTTG
* * * * *
18329 CCAATGAATGTCTTTTTCTTCACGTTTCTCTAGGTAGATATTCAATTATAATCTGTTTTAACTAA
1 CCAATGAATGT-TTTTTCTTTACGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCAA
* * * *
18394 AAAT-TTAAAAAATTCAACTTAAAATCAATTATGAGCTTAT-AAATTATTTAAAACGAGTAATAA
65 AAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAA
* * ** * *
18457 GTG-TTTCGAAGGAATAGGTGACTATAAATAAAATTTTTTTG
130 G-GCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTG
* * * * * *
18498 CCAATGAATGCCTTTTTCTTCACGTTTCTCGAAAG-AGACATTTAATTAT-TTACTGTTTTAACT
1 CCAATGAATG-TTTTTTCTTTACGTTTCTC-AAGGTAGACATTCAATTATAGT-CTGTTTTAACC
* * * * * *
18561 ACAAATGTAAAACAATTCAGCTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCTAATAAC
63 AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAAT
* * *
18626 AAGGCTTTTGAAAGAATGGGTGACTATAAATGGATTTTTCTTA
128 AAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTG
* ** * * **
18669 CCAATGAATGCTTTCTTCTTCT-CGTTTCTTGAGGTAGACATTCAATTATAGTTTGTTTAAATTA
1 CCAATGAATG-TTTTTTCTT-TACGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCA
* * * * * * * *
18733 GAAAAAGTAGAGAAAATTGAACTTAAGACCAATTTTGAGATTATAAAACTATTTAAATCGAATAA
64 -AAAATGTA-AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAA
* * * *
18798 TAAGGCTTTAGAAGGAATGAGAGACTATAAATGGAGTTTTCTTAG
127 TAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTT-G
* * ** *
18843 -AAATGAATACTTTTTTCTTTATATTTTTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCAA
1 CCAATGAAT-GTTTTTTCTTTACGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCAA
* * * * * *
18907 ATATATAAAAGAATTCAACTTGAAACCAATTATGAGATTATAAAACTATTTAAAGTGAGTAATAA
65 AAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAA
* * * *
18972 --CTTTTTAAGGAATGGGTGACTATAACTGGATTTTTCTTA
130 GGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTG
* * * * * * * *
19011 TCAATGAATGCTTTTTTCTTAACTTTTCTTAATGTAGACATTCAATTATAGTCTATTTCAAGCAA
1 CCAATGAATG-TTTTTTCTTTACGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCAA
* * * ** *
19076 AAATGCAAAACAATTCAGCTTAAAAAAAATTATGAGATTATAAAA-TCATTTAAAGTGAGTAATA
65 AAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACT-ATTTAAAGCGAGTAATA
* * * *
19140 AGGCTTTCT-AAGAAATGGGAGACTATAAATAGA-TTTTTTTAG
129 AGGCTTT-TGAAGGAATGGGTGACTATAAATGGACTTTTCTT-G
* * * * * * *
19182 TCAATGAATGCTTTTTTCTTTACATTT-TCCAAGGTAGACATTTAATTAGAATCTATTTAAACCA
1 CCAATGAATG-TTTTTTCTTTACGTTTCT-CAAGGTAGACATTCAATTATAGTCTGTTTTAACCA
* * * * * *
19246 ATAATGTAAAAATAATTGAGCTTAAAATCAATTTTGAGATTATAAAACCATTTAAATCGAGTAAT
64 AAAATGTAAAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAAT
* * * *
19311 AAGGCTTTTGAAGGAATGAGAGACTATAAATAGACTTTTCTAG
128 AAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTG
** * * * * * *
19354 AAAATGAATACTTTTTTCTTCACGTTTCTCAGGGTAAACAATCAATTATAGTCTGTTTTAAACAA
1 CCAATGAAT-GTTTTTTCTTTACGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCAA
* * *
19419 AAATGTAAAAAAAATCAACTTAAAATCAATTATGAGCTTATAAAACCATTTAAAGCGAGTAATAA
65 AAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAA
* * *
19484 GGCTTTTGAAAGAATGGGAGACTATAAATGGACTTTTCTAG
130 GGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTG
* * * * ***
19525 CCAATGAGTGTATTTTTCTTCACGTTTCTCGAA-AT-GAAAATTCAATTATAGTCTGTTTTAGTA
1 CCAATGAATGT-TTTTTCTTTACGTTTCTC-AAGGTAG-ACATTCAATTATAGTCTGTTTTAACC
* * * *
19588 AAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGCTTCTAAAACTATTTAAAACGAGTAAT
63 AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAAT
* * *
19653 AAGGCTTTTGAAAGAATGGGTGACCATAAATAGACTTTTCTT-
128 AAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTG
* * * ** * * * * *
19695 CTCAATGAATGGCTTTTTGTATATATTTC-CTGATGTAGGCATTCAATTATAGTCTATTTTAACT
1 C-CAATGAAT-GTTTTTTCTTTACGTTTCTC-AAGGTAGACATTCAATTATAGTCTGTTTTAACC
* * * *
19759 AAAAATATAAAAAAAATCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAGT
63 AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAAT
** * *
19824 AAGGCTTTTGAAGGAATAAGTGACTGTAAATGGACTTTGCTTG
128 AAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTG
* * * * * * * * *
19867 TCAATGAATATCTTTCTT-TTCATGTTTCTCAAGGTAAACATTTAATTATAATCTTTTTTAATCA
1 CCAATGAATGT-TTT-TTCTTTACGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCA
* * * * * * * *
19931 AAACTATAAAAAACTTAAACTTAAAATCAATTTTCAGAATT-TAAAACTATTTAAAGTGAGTGAT
64 AAAATGTAAAAAAATTCAACTTAAAATCAATTATGAG-ATTATAAAACTATTTAAAGCGAGTAAT
* * * *
19995 ATGGCTTTTGAAGGAATGGGAGACTATTAATGGACATTTCTTG
128 AAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTG
*
20038 CCAATGAATGCTCTTTTCTT
1 CCAATGAATG-TTTTTTCTT
20058 CCCAATGAAT
Statistics
Matches: 1953, Mismatches: 397, Indels: 124
0.79 0.16 0.05
Matches are distributed among these distances:
168 76 0.04
169 255 0.13
170 125 0.06
171 1182 0.61
172 168 0.09
173 147 0.08
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.36
Consensus pattern (170 bp):
CCAATGAATGTTTTTTCTTTACGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCAAA
AATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAG
GCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTG
Found at i:19052 original size:513 final size:509
Alignment explanation
Indices: 17472--21029 Score: 2750
Period size: 513 Copynumber: 6.9 Consensus size: 509
17462 NNNNNNNNNN
* * ** * * * * * *
17472 TACCAATGAATGCATTTTTTTTTTCACGTTTCCCAAGGTAGATAGTCACTTGTAGTTTGTTTTAA
1 TACCAATGAATGC--TTTTTTCTTCACTTTTCTTAATGTAGACATTCAATTATAGTCTGTTTTAA
* * * * * * *
17537 CCAAAAATGTAAAAAAATTCAAATTAAAATAAATTATGAAATTATAAAACCATTTAAAGCGACTA
64 CTAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCTAGTA
* * * * * *
17602 ATAAGCCTTTCGATGGAATGGGTA-ACTGTAAATGGACTTTTCTTGCCAATGAATG-TAAATTTC
129 ATAAGGCTTTTGAAGAAATGGG-AGACTATAAATGGACTTTTCTT-CCAATGAATGCT--TTTTC
** * * * ** * * *
17665 TT-TACATTTCTCAAGGTAGACAGTCAGTTATTGTCCGTTTTAACCAAAAATGTAAAAAAATTCA
190 TTCT-CATTTCTTGAGGTAGACATTCAATTATAGTCTATTTAAACTAAAAAAGTAAAAAAATTCA
* * * * * * *
17729 AATAAAAATCAATTATG-GAATTATAAAACTATTTACAGTGAGTAATAAGGCTTTTAAAAGAATG
254 ACTTAAAATCAATTATGAG-ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATG
* * *** * * * *
17793 GGTGACTATAAAT-GAACATTTCTT-CTTAATAAATGGC-TTTTTCTAT-ACGTTTCTTGAA-GC
318 AGTGACTATAAATAG-ACTTTTCTTAGACAATGAAT-ACTTTTTTCT-TCACGTTTC-TCAAGGT
* * * * * * *
17853 AGACTTTCAATTATAGTCTATTTTAACAAAAAACATAAAAAAATTCAACTTAAAATTAATTATGN
379 AGACATTCAATTATAATCTGTTTTAACCAAAAATAT-AAAAAATTCAACTTAAAATCAATTATGA
********* * * * * * *
17918 NNNNNNNNNACCATTTAAAGAGAGTAATAAGCCTTTTAAAGGAATGAGTGACTATGAATAGATTT
443 GATTATAAAACTATTTAAAGTGAGTAATAA--CTTTTGAAGGAATGGGTGACTATAAATGGATTT
17983 TTCT
506 TTCT
* * * ** **********
17987 TGCCAATGAATGCTTTGTTCTTCACGTTTCTCGANNNNNNNNNNCAATTATAGTCTGTTTTAACT
1 TACCAATGAATGCTTTTTTCTTCACTTTTCTTAATGTAGACATTCAATTATAGTCTGTTTTAACT
* * * * * *
18052 AAAAAAGTAAAAAAATTGAA-TCTAAAATCAATTTTGAGGTTATAAAACCATTTAAAGCAAGTAA
66 AAAAATGTAAAAAAATTCAACT-TAAAATCAATTATGAGATTATAAAACTATTTAAAGCTAGTAA
* * * *
18116 TAAGGCTTTTGAAGAAATAGGAGATTATAAATGGACTTTTCTTGCCTATGAATG-TTTTT-TTTT
130 TAAGGCTTTTGAAGAAATGGGAGACTATAAATGGACTTTTCTT-CCAATGAATGCTTTTTCTTCT
* * * * *
18179 ACGTTT-TGTCGA-GTAGACATTCAATTATAGTCTGTTTTAACT-AAAAATTTAAAAAATTCAAC
194 -CATTTCT-T-GAGGTAGACATTCAATTATAGTCTATTTAAACTAAAAAAGTAAAAAAATTCAAC
*
18241 TTAAAATCAATTATGAGATTATAAAATCATTTAAAGCGAGTAATAAGTG-TTTTGAAGGAAT-AG
256 TTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAG-GCTTTTGAAGGAATGA-
* * * * * * *
18304 GTGGCTATAAATAAAATTTTTTTTA-CCAATGAAT-GTCTTTTTCTTCACGTTTCTCTAGGTAGA
319 GTGACTATAAAT-AGACTTTTCTTAGACAATGAATACT-TTTTTCTTCACGTTTCTCAAGGTAGA
* * * *
18367 TATTCAATTATAATCTGTTTTAACTAAAAATTTAAAAAATTCAACTTAAAATCAATTATGAGCTT
382 CATTCAATTATAATCTGTTTTAACCAAAAATATAAAAAATTCAACTTAAAATCAATTATGAGATT
* ** * * **
18432 AT-AAATTATTTAAAACGAGTAATAAGTGTTTCGAAGGAATAGGTGACTATAAATAAAATTTTT-
447 ATAAAACTATTTAAAGTGAGTAATAACT-TTT-GAAGGAATGGGTGACTATAAAT-GGATTTTTC
18495 T
509 T
* * * * * * *
18496 TGCCAATGAATGCCTTTTTCTTCACGTTTCTCGAAAG-AGACATTTAATTAT-TTACTGTTTTAA
1 TACCAATGAATGCTTTTTTCTTCACTTTTCT-TAATGTAGACATTCAATTATAGT-CTGTTTTAA
* * * *
18559 CTACAAATGTAAAACAATTCAGCTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCTAATA
64 CTAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCTAGTA
* * *
18624 ACAAGGCTTTTGAA-AGAATGGGTGACTATAAATGGATTTTTCTTACCAATGAATGCTTTCTTCT
129 ATAAGGCTTTTGAAGA-AATGGGAGACTATAAATGGACTTTTCTT-CCAATGAATGCTTT-TTCT
* * * * * *
18688 TCTCGTTTCTTGAGGTAGACATTCAATTATAGTTTGTTTAAATTAGAAAAAGTAGAGAAAATTGA
191 TCTCATTTCTTGAGGTAGACATTCAATTATAGTCTATTTAAACTA-AAAAAGTA-AAAAAATTCA
* * * * * * *
18753 ACTTAAGACCAATTTTGAGATTATAAAACTATTTAAATCGAATAATAAGGCTTTAGAAGGAATGA
254 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGA
* * * * ** *
18818 GAGACTATAAATGGAGTTTTCTTAGA-AATGAATACTTTTTTCTTTATATTTTTCAAGGTAGACA
319 GTGACTATAAATAGACTTTTCTTAGACAATGAATACTTTTTTCTTCACGTTTCTCAAGGTAGACA
* * * *
18882 TTCAATTATAGTCTGTTTTAACCAAATATATAAAAGAATTCAACTTGAAACCAATTATGAGATTA
384 TTCAATTATAATCTGTTTTAACCAAAAATATAAAA-AATTCAACTTAAAATCAATTATGAGATTA
* *
18947 TAAAACTATTTAAAGTGAGTAATAACTTTTTAAGGAATGGGTGACTATAACTGGATTTTTCT
448 TAAAACTATTTAAAGTGAGTAATAACTTTTGAAGGAATGGGTGACTATAAATGGATTTTTCT
* * * *
19009 TATCAATGAATGCTTTTTTCTTAACTTTTCTTAATGTAGACATTCAATTATAGTCTATTTCAAGC
1 TACCAATGAATGCTTTTTTCTTCACTTTTCTTAATGTAGACATTCAATTATAGTCTGTTTTAA-C
* * * **
19074 -AAAAATGCAAAACAATTCAGCTTAAAAAAAATTATGAGATTATAAAA-TCATTTAAAG-TGAGT
65 TAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACT-ATTTAAAGCT-AGT
* * *
19136 AATAAGGCTTTCT-AAGAAATGGGAGACTATAAATAGA-TTTTTTTAGTCAATGAATGCTTTTTT
128 AATAAGGCTTT-TGAAGAAATGGGAGACTATAAATGGACTTTTCTT--CCAATGAATGC-TTTTT
** * * * * * *
19199 CTT-TACATTT-TCCAAGGTAGACATTTAATTAGAATCTATTTAAACCAATAATGTAAAAATAAT
189 CTTCT-CATTTCT-TGAGGTAGACATTCAATTATAGTCTATTTAAACTAAAAAAGTAAAAA-AAT
* * * *
19262 TGAGCTTAAAATCAATTTTGAGATTATAAAACCATTTAAATCGAGTAATAAGGCTTTTGAAGGAA
251 TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAA
* * * *
19327 TGAGAGACTATAAATAGACTTTTC-TAGAAAATGAATACTTTTTTCTTCACGTTTCTCAGGGTAA
316 TGAGTGACTATAAATAGACTTTTCTTAGACAATGAATACTTTTTTCTTCACGTTTCTCAAGGTAG
* * * * * *
19391 ACAATCAATTATAGTCTGTTTTAAACAAAAATGTAAAAAAAATCAACTTAAAATCAATTATGAGC
381 ACATTCAATTATAATCTGTTTTAACCAAAAATAT-AAAAAATTCAACTTAAAATCAATTATGAGA
* * * * *
19456 TTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGAGACTATAAATGGACTTTT
445 TTATAAAACTATTTAAAGTGAGTAATAA--CTTTTGAAGGAATGGGTGACTATAAATGGATTTTT
19521 C-
508 CT
* ** *
19522 TAGCCAATGAGTG-TATTTTTCTTCACGTTTCTCGAAATG-A-AAATTCAATTATAGTCTGTTTT
1 TA-CCAATGAATGCT-TTTTTCTTCAC-TTT-TCTTAATGTAGACATTCAATTATAGTCTGTTTT
* * * * * *
19584 -AGTAAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGCTTCTAAAACTATTTAAAACGA
62 AACT-AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCTA
* * *
19648 GTAATAAGGCTTTTGAA-AGAATGGGTGACCATAAATAGACTTTTCTTCTCAATGAATGGCTTTT
126 GTAATAAGGCTTTTGAAGA-AATGGGAGACTATAAATGGACTTTTCTTC-CAATGAAT-GCTTTT
* * * * * * *
19712 TGTATAT-ATTTCCTGATGTAGGCATTCAATTATAGTCTATTTTAACTAAAAATA-TAAAAAAAA
188 TCT-TCTCATTTCTTGAGGTAGACATTCAATTATAGTCTATTTAAACTAAAAA-AGTAAAAAAAT
*
19775 TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAGTAAGGCTTTTGAAGGAA
251 TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAA
* * * * * * *
19840 TAAGTGACTGTAAATGGACTTTGCTT-GTCAATGAATATCTTTCTT-TTCATGTTTCTCAAGGTA
316 TGAGTGACTATAAATAGACTTTTCTTAGACAATGAATA-CTTTTTTCTTCACGTTTCTCAAGGTA
* * * * * * * *
19903 AACATTTAATTATAATCTTTTTTAATCAAAACTATAAAAAACTTAAACTTAAAATCAATTTTCAG
380 GACATTCAATTATAATCTGTTTTAACCAAAAATATAAAAAA-TTCAACTTAAAATCAATTATGAG
** *
19968 AATT-TAAAACTATTTAAAGTGAGTGATATGGCTTTTGAAGGAATGGGAGACTATTAATGGACAT
444 -ATTATAAAACTATTTAAAGTGAGT-A-ATAACTTTTGAAGGAATGGGTGACTA-T-A---A-A-
20032 TTCTTGCCAATGAATGCTCTTTTCT
499 ----TG-----G-A---T-TTTTCT
* ** *
20057 TCCCAATGAATGCTTTTTTTCTTCA-TGTTTCTCCAGGTAGACATTCAATTATAGTCT-TTGTTA
1 TACCAATGAATGC-TTTTTTCTTCACT-TTTCTTAATGTAGACATTCAATTATAGTCTGTT-TTA
* * * * * * * * * *
20120 GCGAAAATTGTAAAAAACTTCAACTTAAAAGCAATTATAAGATTATCAAACCACTTAAAGCGAGT
63 ACTAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCTAGT
** * *
20185 AATAAGG-TTTTGAAGAAATGGTTGACTATAAATGGACTTTTCTTCTTAATGAATGGCTTTTACT
128 AATAAGGCTTTTGAAGAAATGGGAGACTATAAATGGACTTTTCTTC-CAATGAAT-GCTTTTTCT
* * * * * * *
20249 ACACATTTCCTGATGTAAACATTCAATTATATTCTATTTTAA-TAAAAAAATGTAAAAAAAGTT-
191 TCTCATTTCTTGAGGTAGACATTCAATTATAGTCTATTTAAACT-AAAAAA-GTAAAAAAA-TTC
20312 AACTTAAAATCAATTATGA-AGTTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAAT
253 AACTTAAAATCAATTATGAGA-TTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAAT
* * * * * * *
20376 GGGTGACTATAAATAGACTTTTCTT-GCCAATGAATGCGTTTTTCTTTACATTTCAT-GAGGT-G
317 GAGTGACTATAAATAGACTTTTCTTAGACAATGAATACTTTTTTCTTCACGTTTC-TCAAGGTAG
* * * * * *
20438 AACATTTAATTATTATCTGTTCTAACTAAAAATACAAAAATATTTAACTTAAAATCAATTATGAG
381 -ACATTCAATTATAATCTGTTTTAACCAAAAATATAAAAA-ATTCAACTTAAAATCAATTATGAG
* * * *
20503 ATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAATAGATTTT
444 ATTATAAAACTATTTAAAGTGAGTAATAA--CTTTTGAAGGAATGGGTGACTATAAATGGATTTT
20568 TC-
507 TCT
*** *
20570 TAGCCAATGAATG-TTTGTTTCTTTTGTTTT-TTAA-GTTAAACATTCAATTATAGTCTGTTTTA
1 TA-CCAATGAATGCTTT-TTTCTTCACTTTTCTTAATG-TAGACATTCAATTATAGTCTGTTTTA
* * * * * *
20632 AC-CAAAA---AAAAAAATTGAACTTAAAATCAATTTTGAGATTATAAAACAATTCAAATCTAGT
63 ACTAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCTAGT
* * *
20693 AATAAGGCTTTTAAAGGAATGGGAGACTATAAATGGACTTTTCTTGTCAATGAATGCTTTTTTCT
128 AATAAGGCTTTTGAAGAAATGGGAGACTATAAATGGACTTTTCTT-CCAATGAATGC-TTTTTCT
* * * * *
20758 TCAT-GTTTCTAGAGGTAGACATTCAATTATAGTCTGTTTTAGA-TAAAAATGTAAAAAAATTCA
191 TC-TCATTTCTTGAGGTAGACATTCAATTATAGTCT-ATTTAAACTAAAAAAGTAAAAAAATTCA
* * * * * * * *
20821 ACTGAAAAGCATTTATGAGATTATGAAAGCATTTAAAGTGAGTAATAAGGCTTTTGAAGAAATGG
254 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGA
* ** * * * * * **
20886 GTGACTATAAATGGACTTTTCTT-CTCAATGAATGGC-TTTTACTACGCATTTCTTGAGGTA-AG
319 GTGACTATAAATAGACTTTTCTTAGACAATGAAT-ACTTTTTTCTTCACGTTTCTCAAGGTAGA-
* * ** * * * *
20948 CATTCAATTATAGTCTATTTTAATGAAAAATGTAAAAACATTCAACTTAAAATTAATTATAAAAT
382 CATTCAATTATAATCTGTTTTAACCAAAAATATAAAAA-ATTCAACTTAAAATCAATTATGAGAT
21013 TATAAAA-TCATTTAAAG
446 TATAAAACT-ATTTAAAG
21030 CAAGCAATAA
Statistics
Matches: 2466, Mismatches: 441, Indels: 279
0.77 0.14 0.09
Matches are distributed among these distances:
507 5 0.00
508 236 0.10
509 259 0.11
510 128 0.05
511 138 0.06
512 257 0.10
513 616 0.25
514 337 0.14
515 52 0.02
516 7 0.00
518 2 0.00
519 2 0.00
524 3 0.00
529 2 0.00
530 2 0.00
533 10 0.00
534 119 0.05
535 287 0.12
536 4 0.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.36
Consensus pattern (509 bp):
TACCAATGAATGCTTTTTTCTTCACTTTTCTTAATGTAGACATTCAATTATAGTCTGTTTTAACT
AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCTAGTAAT
AAGGCTTTTGAAGAAATGGGAGACTATAAATGGACTTTTCTTCCAATGAATGCTTTTTCTTCTCA
TTTCTTGAGGTAGACATTCAATTATAGTCTATTTAAACTAAAAAAGTAAAAAAATTCAACTTAAA
ATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGTGACTA
TAAATAGACTTTTCTTAGACAATGAATACTTTTTTCTTCACGTTTCTCAAGGTAGACATTCAATT
ATAATCTGTTTTAACCAAAAATATAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTA
TTTAAAGTGAGTAATAACTTTTGAAGGAATGGGTGACTATAAATGGATTTTTCT
Found at i:20079 original size:22 final size:21
Alignment explanation
Indices: 20031--20080 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
20021 TTAATGGACA
*
20031 TTTCTTGCCAATGAATGCTCT
1 TTTCTTCCCAATGAATGCTCT
*
20052 TTTCTTCCCAATGAATGCTTTT
1 TTTCTTCCCAATGAATGC-TCT
20074 TTTCTTC
1 TTTCTTC
20081 ATGTTTCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.16, C:0.24, G:0.10, T:0.50
Consensus pattern (21 bp):
TTTCTTCCCAATGAATGCTCT
Found at i:20351 original size:171 final size:169
Alignment explanation
Indices: 20050--21046 Score: 978
Period size: 171 Copynumber: 5.9 Consensus size: 169
20040 AATGAATGCT
* * * * * *
20050 CTTTTCTTCCCAATGAATGCTTTTT-TTCTTCATGTTTCTCCAGGTAGACATTCAATTATAGTCT
1 CTTTTCTTCTCAATGAATGCTTTTTCTAC-ACAT-TTCCT-GAGGTAAACATTCAATTATAGTCT
** * * * * * *
20114 -TTGTTAGCGAAAATTGTAAAAAACTTCAACTTAAAAGCAATTATAAGATTATCAAACCACTTAA
63 GTT-TTA-ATAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAA
*
20178 AGCGAGTAATAAGG-TTTTGAAGAAATGGTTGACTATAAATGGA
126 AGCGAGTAATAAGGCTTTTGAAGAAATGGGTGACTATAAATGGA
* * * * *
20221 CTTTTCTTCTTAATGAATGGCTTTTACTACACATTTCCTGATGTAAACATTCAATTATATTCTAT
1 CTTTTCTTCTCAATGAAT-GCTTTTTCTACACATTTCCTGAGGTAAACATTCAATTATAGTCTGT
20286 TTTAATAAAAAAATGTAAAAAAAGTT-AACTTAAAATCAATTATGA-AGTTATAAAACCATTTAA
65 TTTAAT--AAAAATGTAAAAAAA-TTCAACTTAAAATCAATTATGAGA-TTATAAAACCATTTAA
* *
20349 AGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGA
126 AGCGAGTAATAAGGCTTTTGAAGAAATGGGTGACTATAAATGGA
** * * *
20393 CTTTTCTTGC-CAATGAATGCGTTTTTCTTTACATTTCATGAGGTGAACATTTAATTATTA-TCT
1 CTTTTCTT-CTCAATGAATGC-TTTTTCTACACATTTCCTGAGGTAAACATTCAATTA-TAGTCT
* ** * *
20456 GTTCTAACTAAAAATACAAAAATATTTAACTTAAAATCAATTATGAGATTATAAAACCATTTAAA
63 GTTTTAA-TAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAA
* * *
20521 GTGAGTAATAAGGCTTTTGAA-AGAATGAGTGACTATAAATAGA
127 GCGAGTAATAAGGCTTTTGAAGA-AATGGGTGACTATAAATGGA
* * * **** ** * *
20564 TTTTTCTAGC-CAATGAATGTTTGTTTCT-TTTGTTTTTTAAGTTAAACATTCAATTATAGTCTG
1 CTTTTCT-TCTCAATGAATGCTT-TTTCTACACATTTCCTGAGGTAAACATTCAATTATAGTCTG
** * * * * *
20627 TTTTAACCAAAA---AAAAAAATTGAACTTAAAATCAATTTTGAGATTATAAAACAATTCAAATC
64 TTTTAATAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGC
* * * *
20689 TAGTAATAAGGCTTTTAAAGGAATGGGAGACTATAAATGGA
129 GAGTAATAAGGCTTTTGAAGAAATGGGTGACTATAAATGGA
* * ** *
20730 CTTTTCTTGTCAATGAATGCTTTTTTCTTCATGTTT-CTAGAGGTAGACATTCAATTATAGTCTG
1 CTTTTCTTCTCAATGAATGC-TTTTTCTACACATTTCCT-GAGGTAAACATTCAATTATAGTCTG
* * * * *
20794 TTTTAGATAAAAATGTAAAAAAATTCAACTGAAAAGCATTTATGAGATTATGAAAGCATTTAAAG
64 TTTTA-ATAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG
*
20859 TGAGTAATAAGGCTTTTGAAGAAATGGGTGACTATAAATGGA
128 CGAGTAATAAGGCTTTTGAAGAAATGGGTGACTATAAATGGA
* * * * *
20901 CTTTTCTTCTCAATGAATGGCTTTTACTACGCATTTCTTGAGGTAAGCATTCAATTATAGTCTAT
1 CTTTTCTTCTCAATGAAT-GCTTTTTCTACACATTTCCTGAGGTAAACATTCAATTATAGTCTGT
* * * * *
20966 TTTAATGAAAAATGTAAAAACATTCAACTTAAAATTAATTATAAAATTATAAAATCATTTAAAGC
65 TTTAAT-AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGC
* *
21031 AAGCAATAAGGCTTTT
129 GAGTAATAAGGCTTTT
21047 AAAGGACATT
Statistics
Matches: 682, Mismatches: 114, Indels: 60
0.80 0.13 0.07
Matches are distributed among these distances:
166 98 0.14
167 34 0.05
168 5 0.01
169 6 0.01
170 58 0.09
171 382 0.56
172 93 0.14
173 6 0.01
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (169 bp):
CTTTTCTTCTCAATGAATGCTTTTTCTACACATTTCCTGAGGTAAACATTCAATTATAGTCTGTT
TTAATAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGA
GTAATAAGGCTTTTGAAGAAATGGGTGACTATAAATGGA
Found at i:21065 original size:121 final size:121
Alignment explanation
Indices: 20932--21173 Score: 278
Period size: 121 Copynumber: 2.0 Consensus size: 121
20922 TTTTACTACG
* * *
20932 CATTTCTTGAGGTA-AGCATTCAATTATAGTCTATTTTAA-TGAAAAATGTA-AAAACATTCAAC
1 CATTTCATGAGGTAGA-CATTCAATTATAGTCTATTTTAACT-AAAAATATATAAAA-AATCAAC
* * * *
20994 TTAAAATTAATTATAAAATTATAAAA-TCATT-TAAAGCAAGCAATAAGGCTTTTAAAGGA
63 CTAAAATCAACTATAAAATTATAAAACT-ATTAAAAAG-AAGCAATAAGGCTTTTAAAGGA
* * *
21053 CATTTCATGAGGTAGACATTTAATTATTGTCTGTTTTAACTAAAAATATATAAAAAATCAACCTA
1 CATTTCATGAGGTAGACATTCAATTATAGTCTATTTTAACTAAAAATATATAAAAAATCAACCTA
* * * *
21118 AAATCAACTATGAGATTATAAAACTATTAAAAAGGAGTAATAAGGCTTTTAAAGGA
66 AAATCAACTATAAAATTATAAAACTATTAAAAAGAAGCAATAAGGCTTTTAAAGGA
21174 ATGGGTGACT
Statistics
Matches: 102, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
121 91 0.89
122 11 0.11
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (121 bp):
CATTTCATGAGGTAGACATTCAATTATAGTCTATTTTAACTAAAAATATATAAAAAATCAACCTA
AAATCAACTATAAAATTATAAAACTATTAAAAAGAAGCAATAAGGCTTTTAAAGGA
Found at i:21310 original size:292 final size:291
Alignment explanation
Indices: 20769--21344 Score: 679
Period size: 292 Copynumber: 2.0 Consensus size: 291
20759 CATGTTTCTA
* **
20769 GAGGTAGACATTCAATTATAGTCTGTTTTAGATAAAAATGTAAAAAAATTCAACTGAAAAGCATT
1 GAGGTAGACATTCAATTATAGTCTGTTTTAGATAAAAATATAAAAAAATTCAACTGAAAAGCAAC
* * * *
20834 TATGAGATTATGAAAGCATTTAAAGTGAGTAATAAGGCTTTTGAAGAAATGGGTGACTATAAATG
66 TATGAGATTATGAAAACATTAAAAGTGAGTAATAAGGCTTTTAAAGAAATGGGTGACTATAAATA
20899 GACTTTTCTTCTCAATGAATGGCTTTTACTACGCATTTCTTGAGGTAAGCATTCAATTATAGTCT
131 GACTTTTCTTCTCAATGAATGGCTTTTACTACG-ATTTCTTGAGGTAAGCATTCAATTATAGTCT
* * * * *
20964 ATTTTAATGAAAAATGTAAAAACATTCAACTTAAAATTAATTATAAAATTATAAAA-TCATTTAA
195 ATTTTAATGAAAAAAGAAAAAAAATTCAACTAAAAATCAATTATAAAATTATAAAACT-ATTTAA
21028 AGCAAGCAATAAGGCTTTTAAAGGACATTTCAT
259 AGCAAGCAATAAGGCTTTTAAAGGACATTTCAT
* * *
21061 GAGGTAGACATTTAATTATTGTCTGTTTTA-ACTAAAAATATATAAAAAA-TCAACCT-AAAATC
1 GAGGTAGACATTCAATTATAGTCTGTTTTAGA-TAAAAATATA-AAAAAATTCAA-CTGAAAAGC
* *
21123 AACTATGAGATTAT-AAAACTATTAAAAAG-GAGTAATAAGGCTTTTAAAGGAATGGGTGACTTT
63 AACTATGAGATTATGAAAAC-ATT-AAAAGTGAGTAATAAGGCTTTTAAAGAAATGGGTGACTAT
* * *
21186 AAATAGAGTTTTCTTAC-CAATGAATGGTTTTTTTCTCACG-TTTCTTGAGGT-AG-ATAATCAA
126 AAATAGACTTTTCTT-CTCAATGAATGG-CTTTTACT-ACGATTTCTTGAGGTAAGCAT--TCAA
* * * * **
21247 TTATAGTCTGTTTTAACT-AAAAAAGAAAAAAAATTGAACTAAAAATCAATTTTGAGGTTATAAA
186 TTATAGTCTATTTTAA-TGAAAAAAGAAAAAAAATTCAACTAAAAATCAATTATAAAATTATAAA
* ** * *
21311 ACTATTTAAATCGTGTAATAAGGCTTTTGAAGGA
250 ACTATTTAAAGCAAGCAATAAGGCTTTTAAAGGA
21345 ATGAGAGACT
Statistics
Matches: 241, Mismatches: 31, Indels: 24
0.81 0.10 0.08
Matches are distributed among these distances:
290 2 0.01
291 7 0.03
292 208 0.86
293 21 0.09
294 3 0.01
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (291 bp):
GAGGTAGACATTCAATTATAGTCTGTTTTAGATAAAAATATAAAAAAATTCAACTGAAAAGCAAC
TATGAGATTATGAAAACATTAAAAGTGAGTAATAAGGCTTTTAAAGAAATGGGTGACTATAAATA
GACTTTTCTTCTCAATGAATGGCTTTTACTACGATTTCTTGAGGTAAGCATTCAATTATAGTCTA
TTTTAATGAAAAAAGAAAAAAAATTCAACTAAAAATCAATTATAAAATTATAAAACTATTTAAAG
CAAGCAATAAGGCTTTTAAAGGACATTTCAT
Found at i:21854 original size:170 final size:172
Alignment explanation
Indices: 21055--21936 Score: 866
Period size: 171 Copynumber: 5.2 Consensus size: 172
21045 TTAAAGGACA
* * * *
21055 TTTCATGAGGTAGACATTTAATTATTGTCTGTTTTAACTAAAAATATATAAAAAA-TCAACCTAA
1 TTTCTTGAGGTAGACATTTAATTATAGTCTGTTTTAACTAAAAATGTA-AAAAAATTCAACTTAA
* * * * *
21119 AATCAACTATGAGATTATAAAACTATTAAAAAG-GAGTAATAAGGCTTTTAAAGGAATGGGTGAC
65 AATCAATTATGGGATTATAAAACTATT-TAAAGCTAGTAATAAGGCTTTTGAAGGAATGGGTGAC
* * * * *
21183 TTTAAATAGAGTTTTCTTACCAATGAATGGTTTTTTTC-TCACG
129 TATAAATGGACTTTTCTTACCAATGAATAGTCTTTTTCTTCACG
* * * * * * *
21226 TTTCTTGAGGTAGATAATCAATTATAGTCTGTTTTAACTAAAAAAGAAAAAAAATTGAACTAAAA
1 TTTCTTGAGGTAGACATTTAATTATAGTCTGTTTTAACTAAAAATGTAAAAAAATTCAACTTAAA
* * * *
21291 ATCAATTTTGAGG-TTATAAAACTATTTAAATCGT-GTAATAAGGCTTTTGAAGGAATGAGAGAC
66 ATCAATTATG-GGATTATAAAACTATTTAAAGC-TAGTAATAAGGCTTTTGAAGGAATGGGTGAC
* * *
21354 TATAAATGAACTTTTC-TAGCCAATGAATA--CTTTTGTCTTTACA
129 TATAAATGGACTTTTCTTA-CCAATGAATAGTCTTTT-TCTTCACG
* * * * * * *
21397 TTTCTCGCGGTGGACATTTAATAATAGTCTATTTTAACAAACAAAATGTAAAAGAATTCAACTTA
1 TTTCTTGAGGTAGACATTTAATTATAGTCTGTTTTAAC-TA-AAAATGTAAAAAAATTCAACTTA
* * *
21462 AAATCAATTATGGGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGAC
64 AAATCAATTATGGGATTATAAAACTATTTAAAGCTAGTAATAAGGCTTTTGAAGGAATGGGTGAC
* *
21527 TATAAATGGACTTTTCTT-CTCAATAAATAG-CTTTTTCTAT-ATG
129 TATAAATGGACTTTTCTTAC-CAATGAATAGTCTTTTTCT-TCACG
* * * * * * * * *
21570 TTTCCTAAAGTAGGCATTCAATTATAGTCTATTTGAA-TGAAAAATGTAAACAAATTCAACCTAA
1 TTTCTTGAGGTAGACATTTAATTATAGTCTGTTTTAACT-AAAAATGTAAAAAAATTCAACTTAA
** * *
21634 AATCAATTATGAAATTATAAAACTATTTAAAG-TAAGTAATAAGCCTTTTGAAGGAATGAGTGAC
65 AATCAATTATGGGATTATAAAACTATTTAAAGCT-AGTAATAAGGCTTTTGAAGGAATGGGTGAC
* *
21698 TATAAATGGACTTTGT-TTACCAAGGAAT-GTC-TTTTCTTCCCG
129 TATAAATGGACTTT-TCTTACCAATGAATAGTCTTTTTCTTCACG
* * * * *
21740 TTTCTTGAGGTAGACAGTTAATTATTGTCTGCTTTATCTAAAAATGTAAAAAAATTTAACTTAAA
1 TTTCTTGAGGTAGACATTTAATTATAGTCTGTTTTAACTAAAAATGTAAAAAAATTCAACTTAAA
* * * * *
21805 ATCAATTATGGGATTATAAAACCATTTAAAGCTACTAAAAAGACTTTTGAAGGAATGGGTAACTA
66 ATCAATTATGGGATTATAAAACTATTTAAAGCTAGTAATAAGGCTTTTGAAGGAATGGGTGACTA
* * *
21870 TAAATGGACTTTTTCTT-CTCAATAAATAG-C-TTTTCTACAAG
131 TAAATGGAC-TTTTCTTAC-CAATGAATAGTCTTTTTCTTCACG
* *
21911 TTTCCTGAAGTAGACATTTAATTATA
1 TTTCTTGAGGTAGACATTTAATTATA
21937 ATATTTTTTA
Statistics
Matches: 575, Mismatches: 109, Indels: 54
0.78 0.15 0.07
Matches are distributed among these distances:
169 5 0.01
170 136 0.24
171 292 0.51
172 9 0.02
173 126 0.22
174 7 0.01
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.35
Consensus pattern (172 bp):
TTTCTTGAGGTAGACATTTAATTATAGTCTGTTTTAACTAAAAATGTAAAAAAATTCAACTTAAA
ATCAATTATGGGATTATAAAACTATTTAAAGCTAGTAATAAGGCTTTTGAAGGAATGGGTGACTA
TAAATGGACTTTTCTTACCAATGAATAGTCTTTTTCTTCACG
Found at i:22515 original size:171 final size:170
Alignment explanation
Indices: 21974--22752 Score: 837
Period size: 171 Copynumber: 4.6 Consensus size: 170
21964 AAAGTGAATC
* * * *
21974 TAAAACCATTTAAAGCGAGTAATAAGG-TTTTGAAGAAATAGGAGATTATAAATTGACTTTTCTT
1 TAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATGGGTGACTATAAATAGACTTTTCTT
* * * * * * * * *
22038 ACCTATAAAAGCTTTTTTTCTTCACGTTTCTCGAGGTAAACATTCAATTATAGTATGTCTTAACA
66 ACCAATGAATGC-CTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACA
** *
22103 AAAAATGTAAAAAATTCAACTTAAAATCAATTATGATTTTT
130 AAAAATGTAAAAAATTCAACTTAAAATCAATTATGAGATTA
** ** *
22144 TAAAACCATTTAAAGTAAGTAATAAGTTTTTTTTAAGAAATGGGTGACTATAAAT-GAACTTTTC
1 TAAAACCATTTAAAGCGAGTAATAAG-GCTTTTGAAGAAATGGGTGACTATAAATAG-ACTTTTC
* ** * * *
22208 TTACCAATGAATGCATTTTAATTCACGTTTCTTGAGGTAGACAGTGAATTATTA-TCTGTTTTAA
64 TTACCAATGAATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTA-TAGTCTGTTTTAA
* ** *
22272 CCAAAAAATGTAAAAAATTTTAAAATAAAATCAATTATGGGATTA
128 -CAAAAAATGTAAAAAA-TTCAACTTAAAATCAATTATGAGATTA
* * * *
22317 TAAAACCATTTAAAGCAAGTAATAAGGCTTTTGAAAAAATGGGTGACTATAAATGGACTTTTTTT
1 TAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATGGGTGACTATAAATAGAC-TTTTCT
* * *
22382 TATCAATGAATGCCTTTTTCTTCATGTTCCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACT
65 TACCAATGAATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACA
* * * *
22447 AAAAATATAAAAAATTCAACTCAAAATCAATTATCAGCTTA
130 AAAAATGTAAAAAATTCAACTTAAAATCAATTATGAGATTA
* * * *
22488 TAAAACCATTTAAGGCGACTAATAAGGCTTTTGAAGGAGTGGGTGACTATAAATAGACTTTTCTT
1 TAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATGGGTGACTATAAATAGACTTTTCTT
* * * * * * * * * *
22553 GCCAATGAATTCTTTTTTCTTCATGTTTCTAGTGGTAGACATTCATTTCTAGACTATTTTAACAG
66 ACCAATGAATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACAA
*
22618 AAAATGTGAAAAACTTCAACTTAAAATCAATTATGAGATTA
131 AAAATGT-AAAAAATTCAACTTAAAATCAATTATGAGATTA
* ** * * * ** *
22659 GAAAATTATTTAAAGCGAGTATTTAGGCTTTTGAAGGAATAAGAGACTATAAATAGACTTTTCTT
1 TAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATGGGTGACTATAAATAGACTTTTCTT
* * *
22724 GCTAATGAATG-CTTTTTCTTCATATTTCT
66 ACCAATGAATGCCTTTTTCTTCATGTTTCT
22753 NNNNNNNNNN
Statistics
Matches: 509, Mismatches: 90, Indels: 20
0.82 0.15 0.03
Matches are distributed among these distances:
170 104 0.20
171 202 0.40
172 100 0.20
173 103 0.20
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (170 bp):
TAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATGGGTGACTATAAATAGACTTTTCTT
ACCAATGAATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACAA
AAAATGTAAAAAATTCAACTTAAAATCAATTATGAGATTA
Found at i:23159 original size:172 final size:167
Alignment explanation
Indices: 22953--23509 Score: 573
Period size: 171 Copynumber: 3.3 Consensus size: 167
22943 NNNNNNNNNN
22953 AATTGATTTTAAGTTTAAATTTTTTTACTTTTTTAGTTAAAATAGACTATAATTGTATGTTTACC
1 AATTGATTTTAAG-TTAAATTTTTTTACTTTTTTAGTTAAAATAGACTATAATTG-ATGTTTACC
*
23018 TCGAGAAACGTGAAGAATAAAGCATTCATTGGAAAGAAAAGTCCATTCATAGTCACTCATTCCTT
64 TCGAGAAACGT-AAGAA-AAAGCATTCATTGGAAAGAAAAGTCCATTTATAGTCAC-CATTCCTT
* * **
23083 TAAAAGGCTTATTACTCACTCTAAATAATTTTATAATTTCAT
126 TAAAAGGCTTATTACTCGCTTTAAATGGTTTTATAATTTCAT
* * * * * *
23125 AATTAATTTTAAGTTAAATTTTTTTATGTTTTTTA-TTAAAATAGACTATAACTGAAAGCTT-GC
1 AATTGATTTTAAGTTAAATTTTTTTA-CTTTTTTAGTTAAAATAGACTATAATTG-ATGTTTACC
** * * * *
23188 TTTAGGAAACGTATAGAAAAAGCCATTTATT-AAGAAGAAAAGTTCGTTTATAGTCACCCATT-C
64 TCGA-GAAACGTA-AGAAAAAG-CATTCATTGGA-AAGAAAAGTCCATTTATAGTCA-CCATTCC
* * **
23251 TTTCAAAAGCCTTATTACTCGCTTTTAATGGTTTTATAATCCCAT
124 TTT-AAAAGGCTTATTACTCGCTTTAAATGGTTTTATAATTTCAT
* * * * * * * * *
23296 AATTGATTTTCAGTTGAATTTTTTTACTTTTTTGGTTAAAACATACAATGATTGACTGTCTATCT
1 AATTGATTTTAAGTTAAATTTTTTTACTTTTTTAGTTAAAATAGACTATAATTGA-TGTTTACCT
* * * * *
23361 CGAGAAACGTTAAGAAAAATGCATTCATTGGTAAGAAAAGTCCATTTACAGGCACCGATTCCATC
65 CGAGAAACG-TAAGAAAAA-GCATTCATTGGAAAGAAAAGTCCATTTATAGTCACC-ATTCCTTT
*
23426 AAAAGGCTTATTACTCGCTTTAAATGGTTTTATAATTTTAT
127 AAAAGGCTTATTACTCGCTTTAAATGGTTTTATAATTTCAT
* * * *
23467 AATTTATTTTAACTTGAATTTTTTTACATTTTTAGTTAAAATA
1 AATTGATTTTAAGTTAAATTTTTTTACTTTTTTAGTTAAAATA
23510 AACAATAAGT
Statistics
Matches: 312, Mismatches: 58, Indels: 31
0.78 0.14 0.08
Matches are distributed among these distances:
170 22 0.07
171 262 0.84
172 28 0.09
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.41
Consensus pattern (167 bp):
AATTGATTTTAAGTTAAATTTTTTTACTTTTTTAGTTAAAATAGACTATAATTGATGTTTACCTC
GAGAAACGTAAGAAAAAGCATTCATTGGAAAGAAAAGTCCATTTATAGTCACCATTCCTTTAAAA
GGCTTATTACTCGCTTTAAATGGTTTTATAATTTCAT
Found at i:23896 original size:171 final size:171
Alignment explanation
Indices: 23589--23940 Score: 476
Period size: 171 Copynumber: 2.1 Consensus size: 171
23579 NNNNNNNNNN
* * * *
23589 CTTATTACTCGCTTTAAATGGTTTTATAATTTTATAATTGATTTTAAGTTGAATATTTTTAAATT
1 CTTATTGCTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGATGAATATTTTTAAATT
* * *
23654 TTTGATTAAAAAAGACTATAAATGAATGTCTCCCTTGAGAAACATGAAGAAAAAAGCATTCATTT
66 TTTGATCAAAAAAGACTATAAATGAATGTCTCCCTTGAAAAACATGAAGAAAAAAGCATTCATTA
*
23719 GCAAGAAAAGTCCATTTATAGACACTCATT-TCTTCAAAAGC
131 GCAAGAAAAGTCCATTTATAGACACCCATTCT-TTCAAAAGC
* * *
23760 TTTATTGCTTGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGGAT-AAT-TCTTTTACA
1 CTTATTGCTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAA-GATGAATAT-TTTTAAA
* * ** * *
23823 TTTTTGGTCAAAATAGACTATAAATGAATGTCTCCCTTGAAAAAGGTGAAGAAAAATGCATTCCT
64 TTTTTGATCAAAAAAGACTATAAATGAATGTCTCCCTTGAAAAACATGAAGAAAAAAGCATTCAT
** *
23888 TAGCAAGAAAAGTCTGTTTATAGATACCCATTCTTTCAAAAGC
129 TAGCAAGAAAAGTCCATTTATAGACACCCATTCTTTCAAAAGC
23931 CTTATTGCTC
1 CTTATTGCTC
23941 NNNNNNNNNN
Statistics
Matches: 156, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
170 1 0.01
171 152 0.97
172 3 0.02
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (171 bp):
CTTATTGCTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGATGAATATTTTTAAATT
TTTGATCAAAAAAGACTATAAATGAATGTCTCCCTTGAAAAACATGAAGAAAAAAGCATTCATTA
GCAAGAAAAGTCCATTTATAGACACCCATTCTTTCAAAAGC
Done.