Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018398663.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_1948.0, 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: 7961
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.34
Warning! 527 characters in sequence are not A, C, G, or T
Found at i:1042 original size:170 final size:171
Alignment explanation
Indices: 586--6207 Score: 4749
Period size: 171 Copynumber: 33.0 Consensus size: 171
576 NNNNNAATGG
* * * * * * *
586 CTTTTTCTTCATGTTT-CTTATTGTAGACAATCAATTATAGTCTATTTTTACCAAAAAA-GAAAA
1 CTTTTTCTTCACGTTTCCTGA-GGTAGACATTCAATTATAATCT-GTTTTAACAAAAAATG--AA
* *
649 AAAAATT-AACTTAAAGGT-AATTATGACATTAT-AAACCCATTTAAAGCGAGTAATAAGGCTTT
62 AAAAATTCAACTTAAA-GTCAATTATGAGATTATAAAACTCATTTAAAGCGAGTAATAAGGCTTT
* * * * ** * **
711 TGAAGGCATAGGTGAGTGTAAGTATACTTTGCTTGAAAATGAATAT
126 CGAAGGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATAT
* * * ** * * * *
757 CTTTTTTTTCATGTTTCCAGATATAGACATTTAATTATAATCCGTTTTAATAATAGATAT-AAAA
1 CTTTTTCTTCACGTTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAACAA-A-AAATGAAAA
* *
821 AAATTCAGCTTCAAA-TC-ATGTATGAGATTATAAAACT-ATTTAAAGCGAGTAATAAGGCATTC
64 AAATTCAACTT-AAAGTCAAT-TATGAGATTATAAAACTCATTTAAAGCGAGTAATAAGGCTTTC
* *
883 GAATGCATTGGTGACTATAAATGGACTTTTCTTGCCAATGAATAT
127 GAAGGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATAT
* * *
928 GTTTTTCTTCACGTTTCCTAAGGT-GAACATTCAATTATAATCTATTTTAACAAAAAATGAAAAA
1 CTTTTTCTTCACGTTTCCTGAGGTAG-ACATTCAATTATAATCTGTTTTAACAAAAAATGAAAAA
* * * * *
992 AATTTAACTTAAAATCAACTATGAGATTATAAAACTC-TTTAAAGCGAGTAATAATGCTTTCAAA
65 AATTCAACTTAAAGTCAATTATGAGATTATAAAACTCATTTAAAGCGAGTAATAAGGCTTTCGAA
* ***
1056 GGC-TTGGATGACTATAAATAGG-CTTTTCTTGCCAATGAACGG
130 GGCATAGG-TGACTATAAAT-GGACTTTTCTTGCCAATGAATAT
* * * *
1098 CTTTTTCTTAATGTTTCAC-AAGGTAGATATTCAATTATAATCTGTTTTAACTAAAAATAT-AAA
1 CTTTTTCTTCACGTTTC-CTGAGGTAGACATTCAATTATAATCTGTTTTAAC-AAAAA-ATGAAA
* * *
1161 AAAATTCAACTTAAAGTCAATTATGAGATTATAAAAC-CATTCAAAGAGAGTAATAAGGCTTTCA
63 AAAATTCAACTTAAAGTCAATTATGAGATTATAAAACTCATTTAAAGCGAGTAATAAGGCTTTCG
* **
1225 AAGGCAT-GAGTGACTATAAAT-GAGCTTTTCTTGGCAATGAATGG
128 AAGGCATAG-GTGACTATAAATGGA-CTTTTCTTGCCAATGAATAT
** * ** * * * * *
1269 CTTGCTCTTCATGTTTGTTAAGGCAGACATTCAATTATAGTCTGTTTTGACCAAAAATGAAAAAA
1 CTTTTTCTTCACGTTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGAAAAAA
* * ** * **
1334 CAATCAACTTAAAGTTAATTATGACCTTATAAAACT-ATTGAAAATGAGTAATAAGGCTTTCGAA
66 -ATTCAACTTAAAGTCAATTATGAGATTATAAAACTCATTTAAAGCGAGTAATAAGGCTTTCGAA
* ** * *
1398 GGTATAACTGAGTATAAATGGACTTTTCTTACCAATGAATAT
130 GGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATAT
* * * ** *
1440 -ATTTTCTTCACGTTT-CTCGAGGAAGACATTTAATTATAATCAATTTTAACAAAAAATAAAAAA
1 CTTTTTCTTCACGTTTCCT-GAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGAAAAA
* * * *
1503 AATTCAACCTAAAGCCAATTATGAGATTATAAAAC-CATTTAAAGCAAGTAATAAGTCTTTCGAA
65 AATTCAACTTAAAGTCAATTATGAGATTATAAAACTCATTTAAAGCGAGTAATAAGGCTTTCGAA
* * *
1567 GGCATAGGTAACTATAGATGGACTTTTCTTACCAATGAATAT
130 GGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATAT
* * **
1609 CTTTTTCTTCATGTTT-CTCAAGGTAGACATTCAATTATAATCTGTTTTATTAAAAACTAT-AAA
1 CTTTTTCTTCACGTTTCCT-GAGGTAGACATTCAATTATAATCTGTTTTAACAAAAA--ATGAAA
* * * *
1672 AAAATTCAACTTCAAA-TCAACTATGAGATTATCAAACT-ATTGAAAGCGAGTAATAGGGCTTTC
63 AAAATTCAACTT-AAAGTCAATTATGAGATTATAAAACTCATTTAAAGCGAGTAATAAGGCTTTC
* * **
1735 GAAGGCATGGGTGACTATAAATGGACTTTACTTGCCAATGAATGG
127 GAAGGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATAT
* * * * * *
1780 C-TTTTCTTTATGTTTCTTGAGGTAGACATTTAATTATAATTTGTTTTAACAAAAACTGAAAAAA
1 CTTTTTCTTCACGTTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGAAAAAA
* * *
1844 CATTCAACTTAAAGTCAATTATGAGATTATAAAACT-ATTTAAAGGGTGTAATAAGGCTTTGGAA
66 -ATTCAACTTAAAGTCAATTATGAGATTATAAAACTCATTTAAAGCGAGTAATAAGGCTTTCGAA
*
1908 GGCATAGGTGACTATAAATAGACTTTTCTTGCCAATGAATAT
130 GGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATAT
* * * *
1950 CTTTTTCTTCACATTTCCTGAGGTAGACATTCAATTTTAATTTGTTTTAATAAAAAAT-ATAAAA
1 CTTTTTCTTCACGTTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGA-AAAA
* * * * *
2014 AAATCAATTTCAAA-TCAATTTTGAGATTATCAAA-TCATTTAAAGTGAGTAATAAGGCTTTCGA
65 AATTCAACTT-AAAGTCAATTATGAGATTATAAAACTCATTTAAAGCGAGTAATAAGGCTTTCGA
* * * *
2077 AGGCATGGGTGTCTATAAATAGACTTTTCTTGCCAACGAATGA-
129 AGGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAAT-AT
* * * * *
2120 CTTTTTCTTCACGTTT-CTGGATGTAGACATTTAATTACAATCTATTTTAACTAAAAATGAAAAA
1 CTTTTTCTTCACGTTTCCT-GAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATG-AAAA
* * * *
2184 AAAATCAACTTAAAGTCAATTATGACATTATAAAA-TCATTTAAAGCGAGTAATAATGCTTTTGA
64 AAATTCAACTTAAAGTCAATTATGAGATTATAAAACTCATTTAAAGCGAGTAATAAGGCTTTCGA
* *
2248 AGGCATGGGTGACTATAAATGGACTTTT-TTCGTCAATGAATAT
129 AGGCATAGGTGACTATAAATGGACTTTTCTT-GCCAATGAATAT
* * * * *
2291 CTTTTTCTTCATGTTTCTTGAGGTAGACATTTAACTATAATCTGTTTGAATC-AAAAATGAAAGA
1 CTTTTTCTTCACGTTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAA-CAAAAAATG-AA-A
* * *
2355 AAAATTCAACTTAAAGTCAATTGT-AGGGTTATAAAAC-CATTTAAAGCAAGTAATAAGGCTTTC
63 AAAATTCAACTTAAAGTCAATTATGA-GATTATAAAACTCATTTAAAGCGAGTAATAAGGCTTTC
* * * * ** * * * **
2418 GAAAGCTTGGGTGGCTATAAATCAACCTTTCTTACTAATGAATGC
127 GAAGGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATAT
* * * * * * *
2463 CTTTTTCTTTATGTTTCCAT-AGGCAGACATTCAACTGTAATATGTTTTAACCAAAAAAGTAAAA
1 CTTTTTCTTCACGTTTCC-TGAGGTAGACATTCAATTATAATCTGTTTTAA-CAAAAAA-T-GAA
* * *
2527 AAAAACTT-AAGTTAAAGTCAATTATGAGATTATAAAA-ACATTTAAAGTGAGTAATAAGGCTTT
62 AAAAA-TTCAACTTAAAGTCAATTATGAGATTATAAAACTCATTTAAAGCGAGTAATAAGGCTTT
* * *
2590 CGAAGGCATGGGTGACTATAAATGGACTTTTCTTACCAACGAATAT
126 CGAAGGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATAT
* * * * * *
2636 CTTTTTCTTCACGTTTCTTGAGACT-GACAATAAATTGTAATCTGTTTTAACAAAAAAAGTAAAA
1 CTTTTTCTTCACGTTTCCTGAG-GTAGACATTCAATTATAATCTGTTTTAACAAAAAATG-AAAA
* * * * * * *
2700 CAATTCCACTTTAAA-TAAAGTATGAGATTATAAAAC-CATTTAAAGTTG-GCAATAAGGCTTTT
64 AAATTCAAC-TTAAAGTCAATTATGAGATTATAAAACTCATTTAAAG-CGAGTAATAAGGCTTTC
* ** * * * **
2762 AAATACATGGGTGACTATAAATGGACTTTTCTTACCAATTAATGG
127 GAAGGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATAT
* * * * * * * *
2807 CTTTTTAC-TCA-GATTTTCAT-AGTTAGACATTCAACTGTAATTTGTGTAAACAAAAAATATAA
1 CTTTTT-CTTCACG--TTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAAT-GAA
* * * * *
2869 AAAAATTCAACTTAAAATCAATTATGAGATTA-AAAAATCTTTTAAAGCTAGTAATAAGGCTTTT
62 AAAAATTCAACTTAAAGTCAATTATGAGATTATAAAACTCATTTAAAGCGAGTAATAAGGCTTTC
* * * *
2933 AAAGGCATGGGTGACAATAAATGGACTTTTCTTGCCAATGAATAG
127 GAAGGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATAT
* * * * * *
2978 CTTTTTCTTCACATTTCCT-AGGGTAGAAATTTAATTATTATCTATTTTAATAAAATATAT-AAA
1 CTTTTTCTTCACGTTTCCTGA-GGTAGACATTCAATTATAATCTGTTTTAACAAAA-A-ATGAAA
* * * ** * *
3041 AAAATTCAACTTAATA-TTAATTATGAGAATT-TAAAA-ACAATTAAAGTAAGAAATTAGGCTTT
63 AAAATTCAACTTAA-AGTCAATTATGAG-ATTATAAAACTCATTTAAAGCGAGTAATAAGGCTTT
* * **
3103 CGAAGGCA-CGAGTGATTATAAATGGACTTTTCTTGCCAATGAATGG
126 CGAAGGCATAG-GTGACTATAAATGGACTTTTCTTGCCAATGAATAT
* * *
3149 CTTTTTC-TCAACGTTTCTTAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAAT-AAAAA
1 CTTTTTCTTC-ACGTTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGAAAAA
* * * * *
3212 CAATTCAACTTGAAGTCAATTATAAGATTATAAAAC-CATTTAAAGTGAGTAATAAAGCTTTTGA
65 -AATTCAACTTAAAGTCAATTATGAGATTATAAAACTCATTTAAAGCGAGTAATAAGGCTTTCGA
* *
3276 AGGCGTAGGTGACTATAAATGGACTTTTATTGCCAATGAATAT
129 AGGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATAT
* * * * * *
3319 ATTTTTCTTCACATTTCTTGAGTTAGACATTCAATTATAATTTGTTTTAACCAAAAAT-AAATAA
1 CTTTTTCTTCACGTTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGAAA-AA
* * * * *
3383 AATTCAACTTAAAGTCAATTATTAGATTATTAAACT-ATTTAAAGCCAATAATAAGGCTTTAGAA
65 AATTCAACTTAAAGTCAATTATGAGATTATAAAACTCATTTAAAGCGAGTAATAAGGCTTTCGAA
** * * * * **
3447 GAAAAAAGTGACTATAAATAGATTTTTCTTAACAATGAATAT
130 GGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATAT
* * * * * ** *
3489 CTTTTTCTTCATGTTTCCTGAGCTAGACATGCAATTATAATTTATTCCAATAAAAAAT-ATCAAA
1 CTTTTTCTTCACGTTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGA--AAA
*
3553 AAATTCAACTTCAA-TCAATTATGAGATTATAAAAC-CATTTAAAGCGAGTAATAAGGCTTT-GA
64 AAATTCAACTTAAAGTCAATTATGAGATTATAAAACTCATTTAAAGCGAGTAATAAGGCTTTCGA
** * * **
3615 A-AAACTTGGATGACTATAAATAGG-CTTTTCTTACCAATGAATGG
129 AGGCA-TAGG-TGACTATAAAT-GGACTTTTCTTGCCAATGAATAT
* * * * * **
3659 CTTTTTCTTCAAGTTTCCTTAGGTAGACATTCAACTGTAATCTGTTTTAACCAAAAATTTTAAAA
1 CTTTTTCTTCACGTTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAA-CAAAAAATGAAAAA
* * * * *
3724 AATTAAACTTAAAGTCAATTATGAGATTATAAATC-CATTTAAAGTGAGTAATAAGACTTTCAAA
65 AATTCAACTTAAAGTCAATTATGAGATTATAAAACTCATTTAAAGCGAGTAATAAGGCTTTCGAA
* * * *
3788 GGCATGGGTGACTATAAATGGACTTTTTTTGTCGATGAATAT
130 GGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATAT
* * * * * *
3830 ATTTTTCTTCACGTTT-TTCGAGGTTGACATTCAATTATAATCTATTTTAATAAAAAAAGTAAAA
1 CTTTTTCTTCACGTTTCCT-GAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATG-AAAA
* ** * * *
3894 CAATTCCGCTTCAAA-TCAAGTATGAGATTATAAAA-TCATTTAAAGTGAGTAATAAGGCTTACG
64 AAATTCAACTT-AAAGTCAATTATGAGATTATAAAACTCATTTAAAGCGAGTAATAAGGCTTTCG
* * * * ** *
3957 ATGGCATGGGTGACTATAAATGTACTTTTTTTTACAATGAATGGT
128 AAGGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAAT-AT
* * * * *
4002 -TTTTT-TTCACATTT-CTCAAGGTAAACATTTAATTATAATCAGTTTTAACTAAAAAAT----A
1 CTTTTTCTTCACGTTTCCT-GAGGTAGACATTCAATTATAATCTGTTTTAAC-AAAAAATGAAAA
** * *
4060 TTA-T-AACTTAAAGTCAATTATGAGATTA-AAAACCCATTTAAAGCAAGTAATAAGGCTTT-GA
64 AAATTCAACTTAAAGTCAATTATGAGATTATAAAACTCATTTAAAGCGAGTAATAAGGCTTTCG-
** * * *
4121 AAGGCATAGAAGACTATAAATGGACTTTTCTTACCGATAAATAT
128 AAGGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATAT
* * * * * * * *
4165 CTTTTCCTTCAAGTTTTCGGAGTTAGAC-TTCAATTATAATCTATTTTAATAAAAAAAGAAAAAA
1 CTTTTTCTTCACGTTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATG-AAAAA
* *
4229 AATTCAACTTGAAA-TTAATTATGAGATTATAAAAC-CATTTAAAGCGAGTAATAAGGCTTTGGA
65 AATTCAACTT-AAAGTCAATTATGAGATTATAAAACTCATTTAAAGCGAGTAATAAGGCTTTCGA
* * * * **
4292 AGGCTTATGTGACTATAAAT-AAGCTTTTCCTGCCAATGAATGG
129 AGGCATAGGTGACTATAAATGGA-CTTTTCTTGCCAATGAATAT
* * * * * * * *
4335 CTTTCTCTTCAAGTTTCCTTAAGTAGACATTCAACTGTAATCTGTTTTAATAAAAAATATAAAAA
1 CTTTTTCTTCACGTTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAAT-GAAAAA
* * * * * *
4400 AATTCAACTTAAAGTTAATTATGAGATTATAAATC-CATTTAAAGCAAGAAATAAGACTTTCAAA
65 AATTCAACTTAAAGTCAATTATGAGATTATAAAACTCATTTAAAGCGAGTAATAAGGCTTTCGAA
* * *
4464 GGCATGGGTGACTATAAATAGACTTTTCTTGCCGATGAATAT
130 GGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATAT
* * * * * *
4506 AATTTTT-TTCACGTTTTCC-GAGGTTGATATTCAATTATAATATGTTTTAATAAAAAAAGTAAA
1 -CTTTTTCTTCACG-TTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATG-AAA
* ** * * *
4569 ACAATTCCTCTTCAAA-TCAAGTATGAGATTATAAAAC-AATTTAAAGCGATTAATAAGGCTTTC
63 AAAATTCAACTT-AAAGTCAATTATGAGATTATAAAACTCATTTAAAGCGAGTAATAAGGCTTTC
* * * * *
4632 GATGGCATGGGTGACTATAAATGTACTTTTCTTACCAATGAATGGT
127 GAAGGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAAT-AT
* * * * * ** *
4678 -TTCTTT-TTCACATTT-CTCGAGGTAAAAATTTAACTATAATCAATTTTAACCAAAAAT-AAAA
1 CTT-TTTCTTCACGTTTCCT-GAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGAAAA
* * * *
4739 AAATTTCATCTTAAAGTCAATTATGAGATTAAAAAAC-CATTTAAAGTGAGTAATAAGGCTTTGG
64 AAA-TTCAACTTAAAGTCAATTATGAGATTATAAAACTCATTTAAAGCGAGTAATAAGGCTTTCG
* ** * * * *
4803 AAGACATAGACGAATATAAATGGACTTTTCTTACCGATGAATAA
128 AAGGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATAT
* * * * * *
4847 CTTTTCCTTCAAGTTT-CTGGAGTTAGTC-TTCAATTATAATCTATTTTAATAAAAAAT-ATAAA
1 CTTTTTCTTCACGTTTCCT-GAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGA-AAA
* ** * *
4909 ACAATTCAACTTCAAA-TCAATTATGAGATTATAGAACT-ATTTAAAATGAGTAAGAAGGCTTTG
64 A-AATTCAACTT-AAAGTCAATTATGAGATTATAAAACTCATTTAAAGCGAGTAATAAGGCTTTC
** * * * * *
4972 GAAGGTTTGGGTGACCATAAATAGG-CTTCTCTTGTCAATGCATCAT
127 GAAGGCATAGGTGACTATAAAT-GGACTTTTCTTGCCAATGAAT-AT
* * * * * *
5018 -TTTTTCTTCAGGTTTCCTTAGGCAAACATTCAACTGA-AATATGTTTTAACCAAAAATAT-AAA
1 CTTTTTCTTCACGTTTCCTGAGGTAGACATTCAA-TTATAATCTGTTTTAA-CAAAAA-ATGAAA
* *
5080 AAAGTTCAACTTAAAGTCAATTATGAGATTAATAAAA-TCATTTAAAGCGCGTAATAAGGCTTTC
63 AAAATTCAACTTAAAGTCAATTATGAGATT-ATAAAACTCATTTAAAGCGAGTAATAAGGCTTTC
* * * * * * * *
5144 AAAAGAATCGGTGGCTATAAATGAAATCTTT-TTACCAATGAATAT
127 GAAGGCATAGGTGACTATAAATGGACT-TTTCTTGCCAATGAATAT
* ** * * * *
5189 CTTTTTCATCACGTTTTTTAAGGTAGACATTTAATTATAATATGTTTTAATAAAAAATGCAAAAA
1 CTTTTTCTTCACGTTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATG--AAAA
*
5254 AAATTCAACTTCAAA-TCAATTATGAGATTATAAAAC-CATTTAAAGCGAGTAATAAGGCTTTCA
64 AAATTCAACTT-AAAGTCAATTATGAGATTATAAAACTCATTTAAAGCGAGTAATAAGGCTTTCG
* * * * * **
5317 AAGGCTTTA-GTGGCTATAAATAGG-CTTTCCCTACCAATGAATGC
128 AAGGC-ATAGGTGACTATAAAT-GGACTTTTCTTGCCAATGAATAT
* * * * * * * * *
5361 CTTTTTCTTCATGTTTCTTTATGCAGACATTCAACTGTAATCTGCTTTAACCAAAAATGTAAAAA
1 CTTTTTCTTCACGTTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATG-AAAAA
* * *
5426 AATTCAACTTAAAGCCAATTATGAGATTATAAAA-TCATTTAAAGGGAGTAATAAGGCTTTTGAA
65 AATTCAACTTAAAGTCAATTATGAGATTATAAAACTCATTTAAAGCGAGTAATAAGGCTTTCGAA
* * * * ***
5490 GGTATAGCTGACAATAAATAGACTTTTCTTAATAATGAATAT
130 GGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATAT
* * * * *
5532 CTTTTTCTTCATGTCTCCTGAGGTAGACATTCAATTATAATCTGTTTCAATAAAAAATGTAAAAA
1 CTTTTTCTTCACGTTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGAAAAAA
* *
5597 ATTCAACTTCAAA-TCAATTATGAGATTATAAAACT-TTTTAAAGCGAGTAATAAGGCTTTTGAA
66 ATTCAACTT-AAAGTCAATTATGAGATTATAAAACTCATTTAAAGCGAGTAATAAGGCTTTCGAA
* * * **
5660 TGCATAGGTGACTATAAAAGGACTTTTCCTGCCAATGAATGG
130 GGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATAT
* ** * * *
5702 CTTTTTCTTCA-GATTTCCTTAGGCT-GACATTCAGCTGTAATTTTTTTTAACCAAAAATAT-AA
1 CTTTTTCTTCACG-TTTCCTGAGG-TAGACATTCAATTATAATCTGTTTTAA-CAAAAA-ATGAA
* *
5764 AAACATTCAACTTAAAATCAATTATGAGATTAGT-AAA-TCATTTAAAGCGAGTAATAAGGCTTT
62 AAAAATTCAACTTAAAGTCAATTATGAGATTA-TAAAACTCATTTAAAGCGAGTAATAAGGCTTT
* * **
5827 CGAAGGCATGGGTGACTATAAATGGACTTTACTTGCCAATGAATGG
126 CGAAGGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATAT
* * * * * *
5873 C-TTTTCTTCATGTTTCTTCAGGTAGACATTTAATTATAAACTGTTTTAATAAAAAATGAAAAAA
1 CTTTTTCTTCACGTTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGAAAAAA
* * * *
5937 CATTCAACTTAAAGTCAATTATGGGATTATAAAACT-ATTTAAAGCGTGTAATAAGGTTTTGGAA
66 -ATTCAACTTAAAGTCAATTATGAGATTATAAAACTCATTTAAAGCGAGTAATAAGGCTTTCGAA
**********
6001 GGCATAGGTGACTATAAATGNNNNNNNNNNGCCAATGAATAT
130 GGCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATAT
* * * * * * ********
6043 CTTTTTCTTCACATTTTCTGAGGTAGATATTCAATTTTAATTTGTTTTAATAAAAANNNNNNNNN
1 CTTTTTCTTCACGTTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAA-ATGAAAAA
* * * * * * * *
6108 NATT-AATTTCAAA-TCAATTTTGAGATTATCAAAC-CGTTGAAAGTGTGTAATAAGGCTTTCGA
65 AATTCAACTT-AAAGTCAATTATGAGATTATAAAACTCATTTAAAGCGAGTAATAAGGCTTTCGA
* *
6170 AGGCATGGGTGACTATAAATGAACTTTTCTTGCCAATG
129 AGGCATAGGTGACTATAAATGGACTTTTCTTGCCAATG
6208 NNNNNNNNNN
Statistics
Matches: 4427, Mismatches: 824, Indels: 401
0.78 0.15 0.07
Matches are distributed among these distances:
163 15 0.00
164 93 0.02
165 14 0.00
166 3 0.00
168 8 0.00
169 180 0.04
170 1618 0.37
171 1901 0.43
172 414 0.09
173 172 0.04
174 9 0.00
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (171 bp):
CTTTTTCTTCACGTTTCCTGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGAAAAAA
ATTCAACTTAAAGTCAATTATGAGATTATAAAACTCATTTAAAGCGAGTAATAAGGCTTTCGAAG
GCATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATAT
Found at i:6049 original size:341 final size:340
Alignment explanation
Indices: 586--6207 Score: 4768
Period size: 341 Copynumber: 16.5 Consensus size: 340
576 NNNNNAATGG
* * * * * * *
586 CTTTTTCTTCATG-TTT-CTTATTGTAGACAATCAATTATAGTCTATTTTTACCAAAAAAGAAAA
1 CTTTTTCTTCA-GATTTCCTTA-GGTAGACATTCAATTATAATCTGTTTTAACC-AAAAATATAA
* ** *
649 AAAAATT-AACTTAAAGGT-AATTATGACATTATAAACCCATTTAAAGCGAGTAATAAGGCTTTT
63 AAAAATTCAACTTAAA-GTCAATTATGAGATTATAAAATCATTTAAAGCGAGTAATAAGGCTTTC
* * * * ** * * *
712 GAAGGCATAGGTGAGTGTAAGTATACTTTGCTTGA-AAATGAATATCTTTTTTTTCATGTTTC--
127 GAAGGCATGGGTGACTATAAATGGACTTTTCTT-ACCAATGAATATC-TTTTCTTCATGTTTCTT
* * * * * *
774 CAGATATAGACATTTAATTATAATCCGTTTTAATAATAGAT-ATAAAAAAATTCAGCTTCAAATC
190 CAG--GTAGACATTCAATTATAATCTGTTTTAATAAAAAATGA-AAAAAAATTCAACTT-AAATC
* * *
838 -ATGTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCATTCGAATGCATTGGTGACTATA
251 AAT-TATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATAGGTGACTATA
902 AATGGACTTTTCTTGCCAATGAATAT
315 AATGGACTTTTCTTGCCAATGAATAT
* * *
928 GTTTTTCTTCACG-TTTCCTAAGGT-GAACATTCAATTATAATCTATTTTAA-CAAAAA-ATGAA
1 CTTTTTCTTCA-GATTTCCTTAGGTAG-ACATTCAATTATAATCTGTTTTAACCAAAAATAT-AA
* * * *
989 AAAAATTTAACTTAAAATCAACTATGAGATTATAAAACTC-TTTAAAGCGAGTAATAATGCTTTC
63 AAAAATTCAACTTAAAGTCAATTATGAGATTATAAAA-TCATTTAAAGCGAGTAATAAGGCTTTC
* * * * *** * *
1053 AAAGGCTTGGATGACTATAAATAGG-CTTTTCTTGCCAATGAACGGCTTTTTCTTAATGTTTC-A
127 GAAGGCATGGGTGACTATAAAT-GGACTTTTCTTACCAATGAATATC-TTTTCTTCATGTTTCTT
*
1116 CAAGGTAGATATTCAATTATAATCTGTTTTAACT-AAAAAT-ATAAAAAAATTCAACTTAAAGTC
190 C-AGGTAGACATTCAATTATAATCTGTTTTAA-TAAAAAATGA-AAAAAAATTCAACTTAAA-TC
* * * *
1179 AATTATGAGATTATAAAACCATTCAAAGAGAGTAATAAGGCTTTCAAAGGCAT-GAGTGACTATA
251 AATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATAG-GTGACTATA
* **
1243 AAT-GAGCTTTTCTTGGCAATGAATGG
315 AATGGA-CTTTTCTTGCCAATGAATAT
** * * * *
1269 CTTGCTCTTCATG-TTT-GTTAAGGCAGACATTCAATTATAGTCTGTTTTGACCAAAAATGA-AA
1 CTTTTTCTTCA-GATTTCCTT-AGGTAGACATTCAATTATAATCTGTTTTAACCAAAAAT-ATAA
* ** * **
1331 AAACAA-TCAACTTAAAGTTAATTATGACCTTATAAAA-CTATTGAAAATGAGTAATAAGGCTTT
63 AAA-AATTCAACTTAAAGTCAATTATGAGATTATAAAATC-ATTTAAAGCGAGTAATAAGGCTTT
* *** * * *
1394 CGAAGGTATAACTGAGTATAAATGGACTTTTCTTACCAATGAATATATTTTCTTCACGTTTC-TC
126 CGAAGGCATGGGTGACTATAAATGGACTTTTCTTACCAATGAATATCTTTTCTTCATGTTTCTTC
* * ** * * *
1458 GAGGAAGACATTTAATTATAATCAATTTTAACAAAAAAT-AAAAAAAATTCAACCTAAAGCCAAT
191 -AGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATGAAAAAAAATTCAACTTAAA-TCAAT
* * * * *
1522 TATGAGATTATAAAACCATTTAAAGCAAGTAATAAGTCTTTCGAAGGCATAGGTAACTATAGATG
254 TATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATAGGTGACTATAAATG
*
1587 GACTTTTCTTACCAATGAATAT
319 GACTTTTCTTGCCAATGAATAT
* **
1609 CTTTTTCTTCATG-TTT-CTCAAGGTAGACATTCAATTATAATCTGTTTT-ATTAAAAACTATAA
1 CTTTTTCTTCA-GATTTCCT-TAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAA-TATAA
* * * *
1671 AAAAATTCAACTTCAAA-TCAACTATGAGATTATCAAA-CTATTGAAAGCGAGTAATAGGGCTTT
63 AAAAATTCAACTT-AAAGTCAATTATGAGATTATAAAATC-ATTTAAAGCGAGTAATAAGGCTTT
* * ** * *
1734 CGAAGGCATGGGTGACTATAAATGGACTTTACTTGCCAATGAATGGCTTTTCTTTATGTTTCTTG
126 CGAAGGCATGGGTGACTATAAATGGACTTTTCTTACCAATGAATATCTTTTCTTCATGTTTCTTC
* * * * *
1799 AGGTAGACATTTAATTATAATTTGTTTTAACAAAAACTGAAAAAACATTCAACTTAAAGTCAATT
191 AGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATGAAAAAAAATTCAACTTAAA-TCAATT
* * * *
1864 ATGAGATTATAAAACTATTTAAAGGGTGTAATAAGGCTTTGGAAGGCATAGGTGACTATAAATAG
255 ATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATAGGTGACTATAAATGG
1929 ACTTTTCTTGCCAATGAATAT
320 ACTTTTCTTGCCAATGAATAT
* * * * **
1950 CTTTTTCTTCACATTTCCTGAGGTAGACATTCAATTTTAATTTGTTTTAATAAAAAATATAAAAA
1 CTTTTTCTTCAGATTTCCTTAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATATAAAAA
* * * *
2015 AA-TCAATTTCAAA-TCAATTTTGAGATTATCAAATCATTTAAAGTGAGTAATAAGGCTTTCGAA
66 AATTCAACTT-AAAGTCAATTATGAGATTATAAAATCATTTAAAGCGAGTAATAAGGCTTTCGAA
* * * * * ** *
2078 GGCATGGGTGTCTATAAATAGACTTTTCTTGCCAACGAATGA-CTTTTTCTTCACGTTTCTGGAT
130 GGCATGGGTGACTATAAATGGACTTTTCTTACCAATGAAT-ATC-TTTTCTTCATGTTTCTTCAG
* * * *
2142 GTAGACATTTAATTACAATCTATTTTAACT-AAAAATGAAAAAAAAATCAACTTAAAGTCAATTA
193 GTAGACATTCAATTATAATCTGTTTTAA-TAAAAAATGAAAAAAAATTCAACTTAAA-TCAATTA
* * * *
2206 TGACATTATAAAA-TCATTTAAAGCGAGTAATAATGCTTTTGAAGGCATGGGTGACTATAAATGG
256 TGAGATTATAAAACT-ATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATAGGTGACTATAAATGG
*
2270 ACTTTT-TTCGTCAATGAATAT
320 ACTTTTCTT-GCCAATGAATAT
* * * *
2291 CTTTTTCTTCATG-TTT-CTTGAGGTAGACATTTAACTATAATCTGTTTGAATCAAAAATGA-AA
1 CTTTTTCTTCA-GATTTCCTT-AGGTAGACATTCAATTATAATCTGTTTTAACCAAAAAT-ATAA
* * * *
2353 GAAAAATTCAACTTAAAGTCAATTGT-AGGGTTATAAAACCATTTAAAGCAAGTAATAAGGCTTT
63 -AAAAATTCAACTTAAAGTCAATTATGA-GATTATAAAATCATTTAAAGCGAGTAATAAGGCTTT
* * * ** * * ** * *
2417 CGAAAGCTTGGGTGGCTATAAATCAACCTTTCTTACTAATGAATGCCTTTTTCTTTATGTTTCCA
126 CGAAGGCATGGGTGACTATAAATGGACTTTTCTTACCAATGAATATC-TTTTCTTCATGTTT-CT
* * * * * * *
2482 T-AGGCAGACATTCAACTGTAATATGTTTTAACCAAAAAAGTAAAAAAAAACTT-AAGTTAAAGT
189 TCAGGTAGACATTCAATTATAATCTGTTTTAA-TAAAAAA-TGAAAAAAAA-TTCAACTTAAA-T
* *
2545 CAATTATGAGATTATAAAAAC-ATTTAAAGTGAGTAATAAGGCTTTCGAAGGCATGGGTGACTAT
250 CAATTATGAGATTAT-AAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATAGGTGACTAT
* *
2609 AAATGGACTTTTCTTACCAACGAATAT
314 AAATGGACTTTTCTTGCCAATGAATAT
* * * * *
2636 CTTTTTCTTCACG-TTT-CTTGAGACT-GACAATAAATTGTAATCTGTTTTAA-CAAAAAAAGTA
1 CTTTTTCTTCA-GATTTCCTT-AG-GTAGACATTCAATTATAATCTGTTTTAACCAAAAATA-TA
* * * * * * *
2697 AAACAATTCCACTTTAAA-TAAAGTATGAGATTATAAAACCATTTAAAGTTG-GCAATAAGGCTT
62 AAAAAATTCAAC-TTAAAGTCAATTATGAGATTATAAAATCATTTAAAG-CGAGTAATAAGGCTT
** ** * ** *
2760 TTAAATACATGGGTGACTATAAATGGACTTTTCTTACCAATTAATGGCTTTT-TACTCA-GATT-
125 TCGAAGGCATGGGTGACTATAAATGGACTTTTCTTACCAATGAATATCTTTTCT--TCATGTTTC
* * * * * * *
2822 TTCATAGTTAGACATTCAACTGTAATTTGTGTAAACAAAAAAT-ATAAAAAAATTCAACTTAAAA
188 TTC--AGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATGA-AAAAAAATTCAACTT-AAA
* * ** * *
2886 TCAATTATGAGATTAAAAAATCT-TTTAAAGCTAGTAATAAGGCTTTTAAAGGCATGGGTGACAA
249 TCAATTATGAGATTATAAAA-CTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATAGGTGACTA
*
2950 TAAATGGACTTTTCTTGCCAATGAATAG
313 TAAATGGACTTTTCTTGCCAATGAATAT
* * * * * *
2978 CTTTTTCTTCACATTTCC-TAGGGTAGAAATTTAATTATTATCTATTTTAA-TAAAATATATAAA
1 CTTTTTCTTCAGATTTCCTTA-GGTAGACATTCAATTATAATCTGTTTTAACCAAAA-ATATAAA
* * * ** * *
3041 AAAATTCAACTTAATA-TTAATTATGAGAATT-TAAAAACAATTAAAGTAAGAAATTAGGCTTTC
64 AAAATTCAACTTAA-AGTCAATTATGAG-ATTATAAAATCATTTAAAGCGAGTAATAAGGCTTTC
* * * * ** *
3104 GAAGGCACGAGTGATTATAAATGGACTTTTCTTGCCAATGAATGGCTTTT-TCTCAACGTTTCTT
127 GAAGGCATGGGTGACTATAAATGGACTTTTCTTACCAATGAATATCTTTTCT-TC-ATGTTTCTT
* * *
3168 AAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAAT-AAAAACAATTCAACTTGAAGTCAAT
190 CAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATGAAAAAAAATTCAACTT-AAATCAAT
* * * * * *
3232 TATAAGATTATAAAACCATTTAAAGTGAGTAATAAAGCTTTTGAAGGCGTAGGTGACTATAAATG
254 TATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATAGGTGACTATAAATG
*
3297 GACTTTTATTGCCAATGAATAT
319 GACTTTTCTTGCCAATGAATAT
* * * * *
3319 ATTTTTCTTCACATTT-CTTGAGTTAGACATTCAATTATAATTTGTTTTAACCAAAAATA-AATA
1 CTTTTTCTTCAGATTTCCTT-AGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATATAAAA
* * * * *
3382 AAATTCAACTTAAAGTCAATTATTAGATTATTAAA-CTATTTAAAGCCAATAATAAGGCTTTAGA
65 AAATTCAACTTAAAGTCAATTATGAGATTATAAAATC-ATTTAAAGCGAGTAATAAGGCTTTCGA
** *** * * * * *
3446 AGAAAAAAGTGACTATAAATAGATTTTTCTTAACAATGAATATCTTTTTCTTCATGTTTCCTGAG
129 AGGCATGGGTGACTATAAATGGACTTTTCTTACCAATGAATATC-TTTTCTTCATGTTTCTTCAG
* * * * ** * *
3511 CTAGACATGCAATTATAATTTATTCCAATAAAAAAT-ATCAAAAAATTCAACTTCAATCAATTAT
193 GTAGACATTCAATTATAATCTGTTTTAATAAAAAATGA-AAAAAAATTCAACTTAAATCAATTAT
* ** *
3575 GAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT-GAA-AAACTTGGATGACTATAAATAG
257 GAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCA-TAGG-TGACTATAAAT-G
* **
3638 G-CTTTTCTTACCAATGAATGG
319 GACTTTTCTTGCCAATGAATAT
* * * *
3659 CTTTTTCTTCA-AGTTTCCTTAGGTAGACATTCAACTGTAATCTGTTTTAACCAAAAATTTTAAA
1 CTTTTTCTTCAGA-TTTCCTTAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATATAAAA
* * * *
3723 AAATTAAACTTAAAGTCAATTATGAGATTAT-AAATCCATTTAAAGTGAGTAATAAGACTTTCAA
65 AAATTCAACTTAAAGTCAATTATGAGATTATAAAAT-CATTTAAAGCGAGTAATAAGGCTTTCGA
* ** * * *
3787 AGGCATGGGTGACTATAAATGGACTTTTTTTGTCGATGAATATATTTTTCTTCACGTTT-TTCGA
129 AGGCATGGGTGACTATAAATGGACTTTTCTTACCAATGAATAT-CTTTTCTTCATGTTTCTTC-A
* * * * * ** *
3851 GGTTGACATTCAATTATAATCTATTTTAATAAAAAAAGTAAAACAATTCCGCTTCAAATCAAGTA
192 GGTAGACATTCAATTATAATCTGTTTTAATAAAAAATGAAAAAAAATTCAACTT-AAATCAATTA
* * * * *
3916 TGAGATTATAAAA-TCATTTAAAGTGAGTAATAAGGCTTACGATGGCATGGGTGACTATAAATGT
256 TGAGATTATAAAACT-ATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATAGGTGACTATAAATGG
* ** *
3980 ACTTTTTTTTACAATGAATGGT
320 ACTTTTCTTGCCAATGAAT-AT
* * * * * *
4002 -TTTTT-TTCACATTT-CTCAAGGTAAACATTTAATTATAATCAGTTTTAACTAAAAA-AT---A
1 CTTTTTCTTCAGATTTCCT-TAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATATAAAA
** * *
4060 TTA-T-AACTTAAAGTCAATTATGAGATTA-AAAACCCATTTAAAGCAAGTAATAAGGCTTT-GA
65 AAATTCAACTTAAAGTCAATTATGAGATTATAAAA-TCATTTAAAGCGAGTAATAAGGCTTTCG-
* ** * * *
4121 AAGGCATAGAAGACTATAAATGGACTTTTCTTACCGATAAATATCTTTTCCTTCAAG-TT-TTCG
128 AAGGCATGGGTGACTATAAATGGACTTTTCTTACCAATGAATATCTTTT-CTTCATGTTTCTTC-
* * * *
4184 GAGTTAGAC-TTCAATTATAATCTATTTTAATAAAAAAAGAAAAAAAATTCAACTTGAAATTAAT
191 -AGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATGAAAAAAAATTCAACTT-AAATCAAT
* * * *
4248 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTGGAAGGCTTATGTGACTATAAAT-
254 TATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATAGGTGACTATAAATG
* * **
4312 AAGCTTTTCCTGCCAATGAATGG
319 GA-CTTTTCTTGCCAATGAATAT
* * * * **
4335 CTTTCTCTTCA-AGTTTCCTTAAGTAGACATTCAACTGTAATCTGTTTTAATAAAAAATATAAAA
1 CTTTTTCTTCAGA-TTTCCTTAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATATAAAA
* * * * *
4399 AAATTCAACTTAAAGTTAATTATGAGATTAT-AAATCCATTTAAAGCAAGAAATAAGACTTTCAA
65 AAATTCAACTTAAAGTCAATTATGAGATTATAAAAT-CATTTAAAGCGAGTAATAAGGCTTTCGA
* * * * * * *
4463 AGGCATGGGTGACTATAAATAGACTTTTCTTGCCGATGAATATAATTTTTTTCACGTTT-TCCGA
129 AGGCATGGGTGACTATAAATGGACTTTTCTTACCAATGAATAT-CTTTTCTTCATGTTTCTTC-A
* * * * * * ** *
4527 GGTTGATATTCAATTATAATATGTTTTAATAAAAAAAGTAAAACAATTCCTCTTCAAATCAAGTA
192 GGTAGACATTCAATTATAATCTGTTTTAATAAAAAATGAAAAAAAATTCAACTT-AAATCAATTA
* * * * *
4592 TGAGATTATAAAACAATTTAAAGCGATTAATAAGGCTTTCGATGGCATGGGTGACTATAAATGTA
256 TGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATAGGTGACTATAAATGGA
* *
4657 CTTTTCTTACCAATGAATGGT
321 CTTTTCTTGCCAATGAAT-AT
* * * * * * **
4678 -TTCTTT-TTCACATTT-CTCGAGGTAAAAATTTAACTATAATCAATTTTAACCAAAAATA-AAA
1 CTT-TTTCTTCAGATTTCCT-TAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATATAAA
* * * * * *
4739 AAATTTCATCTTAAAGTCAATTATGAGATTAAAAAACCATTTAAAGTGAGTAATAAGGCTTTGGA
64 AAAATTCAACTTAAAGTCAATTATGAGATTATAAAATCATTTAAAGCGAGTAATAAGGCTTTCGA
* * ** * * * * **
4804 AGACATAGACGAATATAAATGGACTTTTCTTACCGATGAATAACTTTTCCTTCAAGTTTCTGGAG
129 AGGCATGGGTGACTATAAATGGACTTTTCTTACCAATGAATATCTTTT-CTTCATGTTTCTTCAG
* * * *
4869 TTAGTC-TTCAATTATAATCTATTTTAATAAAAAAT-ATAAAACAATTCAACTTCAAATCAATTA
193 GTAGACATTCAATTATAATCTGTTTTAATAAAAAATGA-AAAAAAATTCAACTT-AAATCAATTA
* ** * * ** * *
4932 TGAGATTATAGAACTATTTAAAATGAGTAAGAAGGCTTTGGAAGGTTTGGGTGACCATAAATAGG
256 TGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATAGGTGACTATAAAT-GG
* * *
4997 -CTTCTCTTGTCAATGCATCAT
320 ACTTTTCTTGCCAATGAAT-AT
* * * * *
5018 -TTTTTCTTCAGGTTTCCTTAGGCAAACATTCAACTGA-AATATGTTTTAACCAAAAATATAAAA
1 CTTTTTCTTCAGATTTCCTTAGGTAGACATTCAA-TTATAATCTGTTTTAACCAAAAATATAAAA
* * *
5081 AAGTTCAACTTAAAGTCAATTATGAGATTAATAAAATCATTTAAAGCGCGTAATAAGGCTTTCAA
65 AAATTCAACTTAAAGTCAATTATGAGATT-ATAAAATCATTTAAAGCGAGTAATAAGGCTTTCGA
* * * * * * * * * *
5146 AAGAATCGGTGGCTATAAATGAAATCTTT-TTACCAATGAATATCTTTTTCATCACGTTTTTTAA
129 AGGCATGGGTGACTATAAATGGACT-TTTCTTACCAATGAATATC-TTTTCTTCATGTTTCTTCA
* *
5210 GGTAGACATTTAATTATAATATGTTTTAATAAAAAATGCAAAAAAAATTCAACTTCAAATCAATT
192 GGTAGACATTCAATTATAATCTGTTTTAATAAAAAATG-AAAAAAAATTCAACTT-AAATCAATT
* * * *
5275 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCTTTA-GTGGCTATAAATA
255 ATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGC-ATAGGTGACTATAAAT-
* * * **
5339 GG-CTTTCCCTACCAATGAATGC
318 GGACTTTTCTTGCCAATGAATAT
* * * * * * *
5361 CTTTTTCTTCATG-TTTCTTTATGCAGACATTCAACTGTAATCTGCTTTAACCAAAAATGTAAAA
1 CTTTTTCTTCA-GATTTCCTTAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATATAAAA
* * *
5425 AAATTCAACTTAAAGCCAATTATGAGATTATAAAATCATTTAAAGGGAGTAATAAGGCTTTTGAA
65 AAATTCAACTTAAAGTCAATTATGAGATTATAAAATCATTTAAAGCGAGTAATAAGGCTTTCGAA
* * * * * ** * * *
5490 GGTATAGCTGACAATAAATAGACTTTTCTTAATAATGAATATCTTTTTCTTCATGTCTCCTGAGG
130 GGCATGGGTGACTATAAATGGACTTTTCTTACCAATGAATATC-TTTTCTTCATGTTTCTTCAGG
* *
5555 TAGACATTCAATTATAATCTGTTTCAATAAAAAATG-TAAAAAATTCAACTTCAAATCAATTATG
194 TAGACATTCAATTATAATCTGTTTTAATAAAAAATGAAAAAAAATTCAACTT-AAATCAATTATG
* * * *
5619 AGATTATAAAACTTTTTAAAGCGAGTAATAAGGCTTTTGAATGCATAGGTGACTATAAAAGGACT
258 AGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATAGGTGACTATAAATGGACT
* **
5684 TTTCCTGCCAATGAATGG
323 TTTCTTGCCAATGAATAT
** * * *
5702 CTTTTTCTTCAGATTTCCTTAGGCT-GACATTCAGCTGTAATTTTTTTTAACCAAAAATATAAAA
1 CTTTTTCTTCAGATTTCCTTAGG-TAGACATTCAATTATAATCTGTTTTAACCAAAAATATAAAA
* *
5766 ACATTCAACTTAAAATCAATTATGAGATTAGT-AAATCATTTAAAGCGAGTAATAAGGCTTTCGA
65 AAATTCAACTTAAAGTCAATTATGAGATTA-TAAAATCATTTAAAGCGAGTAATAAGGCTTTCGA
* * **
5830 AGGCATGGGTGACTATAAATGGACTTTACTTGCCAATGAATGGCTTTTCTTCATGTTTCTTCAGG
129 AGGCATGGGTGACTATAAATGGACTTTTCTTACCAATGAATATCTTTTCTTCATGTTTCTTCAGG
* * *
5895 TAGACATTTAATTATAAACTGTTTTAATAAAAAATGAAAAAACATTCAACTTAAAGTCAATTATG
194 TAGACATTCAATTATAATCTGTTTTAATAAAAAATGAAAAAAAATTCAACTTAAA-TCAATTATG
* * * * ****
5960 GGATTATAAAACTATTTAAAGCGTGTAATAAGGTTTTGGAAGGCATAGGTGACTATAAATGNNNN
258 AGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATAGGTGACTATAAATGGACT
******
6025 NNNNNNGCCAATGAATAT
323 TTTCTTGCCAATGAATAT
* * * * * * * *******
6043 CTTTTTCTTCACATTTTCTGAGGTAGATATTCAATTTTAATTTGTTTTAA-TAAAAANNNNNNNN
1 CTTTTTCTTCAGATTTCCTTAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAA-TATAAAA
** * * * * * * * *
6107 NNATT-AATTTCAAA-TCAATTTTGAGATTATCAAACCGTTGAAAGTGTGTAATAAGGCTTTCGA
65 AAATTCAACTT-AAAGTCAATTATGAGATTATAAAATCATTTAAAGCGAGTAATAAGGCTTTCGA
* *
6170 AGGCATGGGTGACTATAAATGAACTTTTCTTGCCAATG
129 AGGCATGGGTGACTATAAATGGACTTTTCTTACCAATG
6208 NNNNNNNNNN
Statistics
Matches: 4317, Mismatches: 790, Indels: 348
0.79 0.14 0.06
Matches are distributed among these distances:
333 2 0.00
334 131 0.03
335 135 0.03
336 5 0.00
337 2 0.00
339 28 0.01
340 939 0.22
341 1601 0.37
342 728 0.17
343 303 0.07
344 289 0.07
345 146 0.03
346 8 0.00
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (340 bp):
CTTTTTCTTCAGATTTCCTTAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATATAAAAA
AATTCAACTTAAAGTCAATTATGAGATTATAAAATCATTTAAAGCGAGTAATAAGGCTTTCGAAG
GCATGGGTGACTATAAATGGACTTTTCTTACCAATGAATATCTTTTCTTCATGTTTCTTCAGGTA
GACATTCAATTATAATCTGTTTTAATAAAAAATGAAAAAAAATTCAACTTAAATCAATTATGAGA
TTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATAGGTGACTATAAATGGACTTTT
CTTGCCAATGAATAT
Done.