Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018399042.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_2318.0, 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: 13865
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.32
Warning! 1333 characters in sequence are not A, C, G, or T
Found at i:293 original size:170 final size:168
Alignment explanation
Indices: 1--2053 Score: 1837
Period size: 170 Copynumber: 12.1 Consensus size: 168
* * ** ** *
1 AACCATTTAAAGCGAGTAATAAGGCTGTCAAAGGTTTGGGTGATTATAAATGGACTTTTCTT-CT
1 AACCATTT-AAGCTAGTAATTAGGCT-TTTAAGGCATGGGTGACTATAAATGGACTTTTCTTGC-
* * * * * *
65 CAATGATAGTCTTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAATATGTTTTCATTAAA
63 CAATGATAGGCTTTTTCTTCATGTTTCTTGAGGCAGACATTCAATTATAATCTGTTTTAACTAAA
* *
130 AATATAAAAAATTCAACATAAAATCAATTATGAGATTATAA
128 AATGTAAAAAATTCAACCTAAAATCAATTATGAGATTATAA
* * * *
171 AACCATTTAAGGCTAGTGATAAGGCTTTTAAGGACATGGGTGACCATAAATGGACTTTTCTTACC
1 AACCATTTAA-GCTAGTAATTAGGCTTTTAAGG-CATGGGTGACTATAAATGGACTTTTCTTGCC
* * * * *
236 AATGATAGCCTTTTTCTTCACGTTTCTTGAGGCAGACATTCAATTGTAATTTGTTTTCACTAAAA
64 AATGATAGGCTTTTTCTTCATGTTTCTTGAGGCAGACATTCAATTATAATCTGTTTTAACTAAAA
* *
301 ATGTAAAAAATTCAACATAAAATCAGTTATGAGATTATAA
129 ATGTAAAAAATTCAACCTAAAATCAATTATGAGATTATAA
* * * * * * *
341 AACCATTTAAAACGAGTAATAAGACTTTCAAAGGCATGGGTGACTATAAATAGA-TTTGTCTTAC
1 AACCATTT-AAGCTAGTAATTAGGCTTT-TAAGGCATGGGTGACTATAAATGGACTTT-TCTTGC
* * * * *
405 CAAAGATAGCCTTTTTCTTCACGTTTCTTGA-GCTAGTCATTCAATTATAATCTGTTTTAACCAA
63 CAATGATAGGCTTTTTCTTCATGTTTCTTGAGGC-AGACATTCAATTATAATCTGTTTTAACTAA
* * *
469 TAAT-AAATAAAACTTCAACCTAAAATCAATTATGACATTATAA
127 AAATGTAA-AAAA-TTCAACCTAAAATCAATTATGAGATTATAA
* ** * *
512 CACCATTTAAAG-TGAGTAATTAGGCTTTTAAAGGCATATGTAACTATAGAA-GGACCTTTCTTG
1 AACCATTT-AAGCT-AGTAATTAGGCTTTT-AAGGCATGGGTGACTATA-AATGGACTTTTCTTG
* * * *
575 CCAATGA-ATGGCTTTTTCTTCATGTTTCATGAGGTAGACATTCAATTATAATCTGCTTTAACCA
62 CCAATGATA-GGCTTTTTCTTCATGTTTCTTGAGGCAGACATTCAATTATAATCTGTTTTAACTA
**
639 AAAATAAAAAAAAATTCAACCTAAAATCAATTATGAGATTATAA
126 AAAAT-GTAAAAAATTCAACCTAAAATCAATTATGAGATTATAA
* * *
683 AACCATTTAAAG-TGAGTAATTAGGCTTTTAAAAGCATGGGTAATTATAAATGGA-TTTTCCTTG
1 AACCATTT-AAGCT-AGTAATTAGGCTTTT-AAGGCATGGGTGACTATAAATGGACTTTT-CTTG
* * * * * * * * **
746 CCATTGA-ATGGCTTTTTCCT-AGGTGTCTCGAGGTAAACTTTCAATTATAATCTGTCCTAA-TA
62 CCAATGATA-GGCTTTTTCTTCATGTTTCTTGAGGCAGACATTCAATTATAATCTGTTTTAACTA
* * ** *
808 AAATATTTAAATAATTCAATATAAAATCAATTACGAGATTATAA
126 AAA-ATGTAAAAAATTCAACCTAAAATCAATTATGAGATTATAA
* * * * *
852 AACCATTTCAAG-TGAGTAATAAGGCTTTGAAAGGCATGGCTGACTATGAATAGACTTTTCTTGC
1 AACCATTT-AAGCT-AGTAATTAGGCTTT-TAAGGCATGGGTGACTATAAATGGACTTTTCTTGC
* * * * * *
916 CAATGATAGCCTTTTTCTTTACGTTTCTTAAGGCAGACATTCAATTATAATATGTTTTCA-TAAA
63 CAATGATAGGCTTTTTCTTCATGTTTCTTGAGGCAGACATTCAATTATAATCTGTTTTAACT-AA
* * **
980 AAATGTATAAAATTAAATATAAAATCAATTATGAGATTATAA
127 AAATGTAAAAAATTCAACCTAAAATCAATTATGAGATTATAA
* * * * **
1022 AATCATTTAAAGCGAGTAATAAGGCTTTCAAAGATATGGGTGCAC-ATAAATGGACTTTTCTTGC
1 AACCATTT-AAGCTAGTAATTAGGCTTT-TAAGGCATGGGTG-ACTATAAATGGACTTTTCTTGC
* * * *
1086 CAATGATAGCCTTTTTCTTCATGTTTCTTAAGACAGTCATTCAATTATAATCTGTTTTAACTAAA
63 CAATGATAGGCTTTTTCTTCATGTTTCTTGAGGCAGACATTCAATTATAATCTGTTTTAACTAAA
* * * *
1151 AATATGAAAGAATTCAACCTAAAATCAGTTATGACATTATAA
128 AATGT-AAAAAATTCAACCTAAAATCAATTATGAGATTATAA
** * * *
1193 AACCATTTAAAATGAGTAATTAGGCTTTTAAAAGTATGGGTAACTATAAATGGACCTTTT-TTGC
1 AACCATTTAAGCT-AGTAATTAGGCTTTT-AAGGCATGGGTGACTATAAATGGA-CTTTTCTTGC
* * * * * * *
1257 CAATGA-ATGGCTTTTTTTTCATGTTTCCTGAGGTAAACATTCAATTATAATTTGTTTTAGCCAA
63 CAATGATA-GGCTTTTTCTTCATGTTTCTTGAGGCAGACATTCAATTATAATCTGTTTTAACTAA
*
1321 AAATGTAAAACAAATTCAATCTAAAATCAATTATGAGATTATAA
127 AAATGT-AAA-AAATTCAACCTAAAATCAATTATGAGATTATAA
* * * * * ** * *
1365 AACCATTTAAAGCGAGTGATTAGGCTTTCGAAAGCGTAAGTGA-TCAAAAATGGACTTTTCTTAC
1 AACCATTT-AAGCTAGTAATTAGGCTTT-TAAGGCATGGGTGACT-ATAAATGGACTTTTCTTGC
* * ** * * *
1429 CAATGATTGGCTTTTGCTTCACATTTCTTGAGGTAGATATTCAATTATAATCTGTTTTAACAAAA
63 CAATGATAGGCTTTTTCTTCATGTTTCTTGAGGCAGACATTCAATTATAATCTGTTTTAACTAAA
* *
1494 AATGTAAAAAATTCAACTTAAAATTAATTATGAGATTATAA
128 AATGTAAAAAATTCAACCTAAAATCAATTATGAGATTATAA
* * ** * **
1535 AACCATTTGAAGCGT-GTAATAAGGCTTTCAAAGATATGGGTGACTGTAAATAAACTTTTCTTGC
1 AACCATTT-AAGC-TAGTAATTAGGCTTT-TAAGGCATGGGTGACTATAAATGGACTTTTCTTGC
* * *** * * * *
1599 TAATGATAGCCTTTTTCTTCATGTTTCCCAAGGCAGACGTGCAATTATAATCTG-TTTCACAAAA
63 CAATGATAGGCTTTTTCTTCATGTTTCTTGAGGCAGACATTCAATTATAATCTGTTTTAACTAAA
*
1663 AATGTTAAAAAATTCAACCTAAAATCAATTATGAGAATATAA
128 AATG-TAAAAAATTCAACCTAAAATCAATTATGAGATTATAA
* * * * * * *
1705 AACCATTTGAAACAAGTAATTACGATTTTGAAGGCATGGGTAACTATAAATAGACTTTTCTTGCT
1 AACCATTT-AAGCTAGTAATTAGGCTTTT-AAGGCATGGGTGACTATAAATGGACTTTTCTTGCC
* * * * * ** * * * * *
1770 ACT-AAATGGCTTTTTTTTCTTATTTCTCAAGGTAGATATTCGATTATAATCTGTTATAACAAAA
64 AATGATA-GGCTTTTTCTTCATGTTTCTTGAGGCAGACATTCAATTATAATCTGTTTTAACTAAA
* * *
1834 AAGGTAAAAAATTCAACTTAAAATCAATTATAAGATTATAA
128 AATGTAAAAAATTCAACCTAAAATCAATTATGAGATTATAA
* * * * * * * *
1875 AACCATTCGAAGCGAGTAATTAGGCTTTCGAAGGCTTGAGCGACTAAAAATGGACTTTTCTTGTC
1 AACCATT-TAAGCTAGTAATTAGGCTTT-TAAGGCATGGGTGACTATAAATGGACTTTTCTTGCC
* * * * ** *
1940 AATGAAAGGC-TTTTCTTCATGTTTCTTGAGGCAAATATTCAATTATAGTCTGTGCTAGCTAAAA
64 AATGATAGGCTTTTTCTTCATGTTTCTTGAGGCAGACATTCAATTATAATCTGTTTTAACTAAAA
*
2004 ATGTAAAAAATTCAACCTAAAATTAATTATGAGATTATAA
129 ATGTAAAAAATTCAACCTAAAATCAATTATGAGATTATAA
*
2044 AACTATTTAA
1 AACCATTTAA
2054 NNNNNNNNNN
Statistics
Matches: 1556, Mismatches: 277, Indels: 102
0.80 0.14 0.05
Matches are distributed among these distances:
168 2 0.00
169 211 0.14
170 805 0.52
171 392 0.25
172 141 0.09
173 5 0.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.35
Consensus pattern (168 bp):
AACCATTTAAGCTAGTAATTAGGCTTTTAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAA
TGATAGGCTTTTTCTTCATGTTTCTTGAGGCAGACATTCAATTATAATCTGTTTTAACTAAAAAT
GTAAAAAATTCAACCTAAAATCAATTATGAGATTATAA
Found at i:933 original size:340 final size:338
Alignment explanation
Indices: 1--4711 Score: 2828
Period size: 341 Copynumber: 13.9 Consensus size: 338
* * **
1 AACCATTTAAAGCGAGTAATAAGGCTGTCAAAGGTTTGGGTGATTATAAATGGACTTTTCTT-CT
1 AACCATTTAAAGCGAGTAATAAGGCTTTCAAAAGCATGGGTGATTATAAATGGACTTTTCTTGC-
* * **
65 CAATGATAGTCTTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAATATGTTTTCATTAAA
65 CAATGATAGGCTTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAATCTGTTTT-AACAAA
* *
130 AATATAAAAAATTCAACATAAAATCAATTATGAGATTATAAAACCATTTAAGGCT-AGTGATAAG
129 AATATAAAAAATTCAAC-TAAAATCAATTATGAGATTATAAAACCATTTAAAG-TGAGTAATAAG
* * * *
194 GCTTT-TAAGGACATGGGTGACCATAAATGGACTTTTCTTACCAATGATAGCCTTTTTCTTCACG
192 GCTTTGAAAGG-CATGGGTGACTATAAATGGACTTTTCTTGCCAATGATAGCCTTTTTCTTCATG
* * * * *
258 TTTCTTGAGGCAGACATTCAATTGTAATTTGTTTTCACTAAAAATGTAAAAAATTCAACATAAAA
256 TTTCTTGAGGCAGACATTCAATTATAATCTGTTTTAACAAAAAATGTAAAAAATTCAACCTAAAA
*
323 TCAGTTATGAGATTATAA
321 TCAATTATGAGATTATAA
* * * * * *
341 AACCATTTAAAACGAGTAATAAGACTTTCAAAGGCATGGGTGACTATAAATAGA-TTTGTCTTAC
1 AACCATTTAAAGCGAGTAATAAGGCTTTCAAAAGCATGGGTGATTATAAATGGACTTT-TCTTGC
* * * * *
405 CAAAGATAGCCTTTTTCTTCACGTTTCTTGAGCTAGTCATTCAATTATAATCTGTTTTAACCAAT
65 CAATGATAGGCTTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAA-CAAA
* * *
470 AATA-AATAAAACTTCAACCTAAAATCAATTATGACATTATAACACCATTTAAAGTGAGTAATTA
129 AATATAA-AAAA-TTCAA-CTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAA
* ** * * *
534 GGCTTTTAAAGGCATATGTAACTATAGAA-GGACCTTTCTTGCCAATGA-ATGGCTTTTTCTTCA
191 GGCTTTGAAAGGCATGGGTGACTATA-AATGGACTTTTCTTGCCAATGATA-GCCTTTTTCTTCA
* * * * **
597 TGTTTCATGAGGTAGACATTCAATTATAATCTGCTTTAACCAAAAATAAAAAAAAATTCAACCTA
254 TGTTTCTTGAGGCAGACATTCAATTATAATCTGTTTTAACAAAAAAT-GTAAAAAATTCAACCTA
662 AAATCAATTATGAGATTATAA
318 AAATCAATTATGAGATTATAA
* * * *
683 AACCATTTAAAGTGAGTAATTAGGCTTTTAAAAGCATGGGTAATTATAAATGGA-TTTTCCTTGC
1 AACCATTTAAAGCGAGTAATAAGGCTTTCAAAAGCATGGGTGATTATAAATGGACTTTT-CTTGC
* * * * * * * ** *
747 CATTGA-ATGGCTTTTTCCT-AGGTGTCTCGAGGTAAACTTTCAATTATAATCTGTCCTAATAAA
65 CAATGATA-GGCTTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAACAAA
* * * * *
810 ATATTTAAATAATTCAATATAAAATCAATTACGAGATTATAAAACCATTTCAAGTGAGTAATAAG
129 A-ATATAAAAAATTCAA-CTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAG
* * * * *
875 GCTTTGAAAGGCATGGCTGACTATGAATAGACTTTTCTTGCCAATGATAGCCTTTTTCTTTACGT
192 GCTTTGAAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGATAGCCTTTTTCTTCATGT
* * * * * * **
940 TTCTTAAGGCAGACATTCAATTATAATATGTTTTCATAAAAAATGTATAAAATTAAATATAAAAT
257 TTCTTGAGGCAGACATTCAATTATAATCTGTTTTAACAAAAAATGTAAAAAATTCAACCTAAAAT
1005 CAATTATGAGATTATAA
322 CAATTATGAGATTATAA
* * *
1022 AATCATTTAAAGCGAGTAATAAGGCTTTC-AAAGATATGGGTGCA-CATAAATGGACTTTTCTTG
1 AACCATTTAAAGCGAGTAATAAGGCTTTCAAAAG-CATGGGTG-ATTATAAATGGACTTTTCTTG
* * * ** *
1085 CCAATGATAGCCTTTTTCTTCATGTTTCTTAAGACAGTCATTCAATTATAATCTGTTTTAACTAA
64 CCAATGATAGGCTTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAAC-AA
* * * * *
1150 AAATATGAAAGAATTCAACCTAAAATCAGTTATGACATTATAAAACCATTTAAAATGAGTAATTA
128 AAATAT-AAAAAATTCAA-CTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAA
* * * * * *
1215 GGCTTTTAAAAGTATGGGTAACTATAAATGGACCTTTT-TTGCCAATGA-ATGGCTTTTTTTTCA
191 GGCTTTGAAAGGCATGGGTGACTATAAATGGA-CTTTTCTTGCCAATGATA-GCCTTTTTCTTCA
* * * * * * *
1278 TGTTTCCTGAGGTAAACATTCAATTATAATTTGTTTTAGCCAAAAATGTAAAACAAATTCAATCT
254 TGTTTCTTGAGGCAGACATTCAATTATAATCTGTTTTAACAAAAAATGT-AAA-AAATTCAACCT
1343 AAAATCAATTATGAGATTATAA
317 AAAATCAATTATGAGATTATAA
* * * * ** * * *
1365 AACCATTTAAAGCGAGTGATTAGGCTTTCGAAAGCGTAAGTGATCAAAAATGGACTTTTCTTACC
1 AACCATTTAAAGCGAGTAATAAGGCTTTCAAAAGCATGGGTGATTATAAATGGACTTTTCTTGCC
* * * *
1430 AATGATTGGCTTTTGCTTCACATTTCTTGAGGTAGATATTCAATTATAATCTGTTTTAACAAAAA
66 AATGATAGGCTTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAAC-AAAA
* * * * *
1495 ATGTAAAAAATTCAACTTAAAATTAATTATGAGATTATAAAACCATTTGAAGCGTGTAATAAGGC
130 ATATAAAAAATTCAAC-TAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGC
* ** * ** *
1560 TTTCAAAGATATGGGTGACTGTAAATAAACTTTTCTTGCTAATGATAGCCTTTTTCTTCATGTTT
194 TTTGAAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGATAGCCTTTTTCTTCATGTTT
*** * * *
1625 CCCAAGGCAGACGTGCAATTATAATCTG-TTTCACAAAAAATGTTAAAAAATTCAACCTAAAATC
259 CTTGAGGCAGACATTCAATTATAATCTGTTTTAACAAAAAATG-TAAAAAATTCAACCTAAAATC
*
1689 AATTATGAGAATATAA
323 AATTATGAGATTATAA
* * * * ** * * * *
1705 AACCATTTGAAA-CAAGTAATTACGATTTTGAAGGCATGGGTAACTATAAATAGACTTTTCTTGC
1 AACCATTT-AAAGCGAGTAATAAGGCTTTCAAAAGCATGGGTGATTATAAATGGACTTTTCTTGC
* * * * *** ** * * *
1769 TACT-AAATGGCTTTTTTTTCTTATTTCTCAAGGTAGATATTCGATTATAATCTGTTATAACAAA
65 CAATGATA-GGCTTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAACAAA
* ** * *
1833 AA-AGGTAAAAAATTCAACTTAAAATCAATTATAAGATTATAAAACCATTCGAAGCGAGTAATTA
129 AATA--TAAAAAATTCAAC-TAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAA
* * * * * * *
1897 GGCTTTCG-AAGGCTTGAGCGACTAAAAATGGACTTTTCTTGTCAATGAAAGGC-TTTTCTTCAT
191 GGCTTT-GAAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGATAGCCTTTTTCTTCAT
* * * ** * *
1960 GTTTCTTGAGGCAAATATTCAATTATAGTCTGTGCTAGCTAAAAATGTAAAAAATTCAACCTAAA
255 GTTTCTTGAGGCAGACATTCAATTATAATCTGTTTTAACAAAAAATGTAAAAAATTCAACCTAAA
*
2025 ATTAATTATGAGATTATAA
320 ATCAATTATGAGATTATAA
* ******************************************************
2044 AACTATTTAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
1 AACCATTTAA-AGCGAGTAATAAGGCTTTCAAAAGCATGGGTGATTATAAATGGACTTTTCTTGC
********************************************* * *
2109 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTATAATCTATTTCAACCAAA
65 CAATGATAGGCTTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAA-CAAA
* * ** * *
2174 AATA-AAATAAATTCAACTTAAAATCAATTATGACATTATAAAACTATTTAAAGCAAGTAGTTAG
129 AATATAAA-AAATTCAAC-TAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAG
* * * * * **
2238 GCTTTTAAA-GCATGGGTAACTATAAATGTACCTTTCTTGCCAATGA-ATG-GTTGGATCTTCAT
192 GCTTTGAAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGATA-GCCTT-TTTCTTCAT
* * *
2300 GTTTCTTGAGGTAAACATTCAATTATAATCTGTTTTAATC-AAAAAGGTAAAAAAATTCAA-CTN
255 GTTTCTTGAGGCAGACATTCAATTATAATCTGTTTTAA-CAAAAAATGT-AAAAAATTCAACCT-
*********
2363 NNNNNNNNNTATGAGATTATAA
317 AAAATCAATTATGAGATTATAA
* ** * * * * ** * * *
2385 AACTATTTAAAGTAAGTAATTAGGCTTTCGAAGGCTTAAGCGACTAGAAATGGACTTTTCTTG-C
1 AACCATTTAAAGCGAGTAATAAGGCTTTCAAAAGCATGGGTGATTATAAATGGACTTTTCTTGCC
* * * * * * *
2449 AATGA-ATGGCTTTTTCTTCACATTTTTTGAGGTAGATATTCAATTGTAATTTGTTTTAGCCAAC
66 AATGATA-GGCTTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAATCTGTTTTA-ACAAA
* * * * * * * * *
2513 AATGTAAAAAATTTAATTTAAAATTAATTATAAAATTATAAAACTATTTAAAGCGCGTAATAAGG
129 AATATAAAAAATTCAA-CTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGG
* * * * * *
2578 TTTTAAAAGGCATGAGTGACTATAAATAGACTTTTCTTGCC--TG-T-GGC---TAC--C---TT
193 CTTTGAAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGATAGCCTTTTTCTTCATGTT
* * * * * **
2631 T-TT--------C-TTCAATTATAATTTG-TTTAGCCAAAACTGTAAAAAAGTCAATATAAAATC
258 TCTTGAGGCAGACATTCAATTATAATCTGTTTTAACAAAAAATGTAAAAAATTCAACCTAAAATC
2685 AATTATGAGATTATAA
323 AATTATGAGATTATAA
* * * * * ** *
2701 AACCATTGAAAGCGAGTAATAAGGCTTTTAAAGGCAAGAGTGACCATAAATAGACTTTTCTTGCC
1 AACCATTTAAAGCGAGTAATAAGGCTTTCAAAAGCATGGGTGATTATAAATGGACTTTTCTTGCC
* * * *
2766 AATGATAGCCTTTTTCTTTATGTTTCTTGAGG-CGACCATTCAATTATAATCTGTTTTAACCAAA
66 AATGATAGGCTTTTTCTTCACGTTTCTTGAGGTAGA-CATTCAATTATAATCTGTTTTAA-CAAA
* * * * * *
2830 AATGTAAAACAATTCTATCTAAAATCAATTATGACATTATAAAATCATTTAAAGTGTGTAATTAG
129 AATATAAAA-AATTC-AACTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAG
* * * *
2895 GCTTTTGAGA-GCATGGGT-ACCTATAAATGAACCTTTTCTTGCCAATGAATGGCC-TTTTCTTT
192 GC-TTTGAAAGGCATGGGTGA-CTATAAATGGA-CTTTTCTTGCCAATG-ATAGCCTTTTTCTTC
* ** * *
2957 ACGTTTCTTGAGATAGACATTCAATTATAATCTGTTTTAACTAAAAATATAAACAAACTT-AACC
253 ATGTTTCTTGAGGCAGACATTCAATTATAATCTGTTTTAACAAAAAATGTAAA-AAA-TTCAACC
3021 TAAAATCAATTATGAGATTATAA
316 TAAAATCAATTATGAGATTATAA
* * * * * * **
3044 AACTATTTAAAGTGAGTGATTAGGCTTTC-AAAGCCTTGGGTGACTCGAAATGGAC-TTTCTTGC
1 AACCATTTAAAGCGAGTAATAAGGCTTTCAAAAG-CATGGGTGATTATAAATGGACTTTTCTTGC
* * * * * *
3107 CAATGA-ATGGCTTTTTCTTCACATTT-TTTAGGCTAGATATTCAACTATAGTCTGTTTTAATGA
65 CAATGATA-GGCTTTTTCTTCACGTTTCTTGAGG-TAGACATTCAATTATAATCTGTTTTAA-CA
* * * * * *
3170 GAAATGTAAAAAATTCAACTTAAAATTAATTATGAGATTAT-AAACCATTTGAAGCGCGTAATAA
127 AAAATATAAAAAATTCAAC-TAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAA
* * * * * * * **
3234 GGCTTTCAAAGGCATGAGTGACAATAAATAGACTTTTGTTGTCAATGATAGCCTTTTTCCTCACA
191 GGCTTTGAAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGATAGCCTTTTTCTTCATG
* * * * * * *
3299 TTTCCTAAGGCAAACATTAAATTATAATCTGTTTTAACAAGAAAGGTGAAAAAATTCAACTTAAA
256 TTTCTTGAGGCAGACATTCAATTATAATCTGTTTTAACAAAAAATGT-AAAAAATTCAACCTAAA
*
3364 ATCAATTATGAAATTAT-A
320 ATCAATTATGAGATTATAA
** * *** * * * * * *
3382 AATTATTTAAAGCGAGTAATTACAATTTTAAAGGCATGAGTAAATATAAATGGACTTTTCTTACC
1 AACCATTTAAAGCGAGTAATAAGGCTTTCAAAAGCATGGGTGATTATAAATGGACTTTTCTTGCC
* * * * *
3447 AATGA-ATGTCTTTTTCTTAACATTTCCTGAGGCA-ATCATTCAATTATAATCTGTTTTAACTAA
66 AATGATA-GGCTTTTTCTTCACGTTTCTTGAGGTAGA-CATTCAATTATAATCTGTTTTAAC-AA
** * * * *
3510 AAA-AGTAAAAACATTTGACTTAAAATCAATTCTGAAATTATAAAACCATTTAAAGGGAGTAATT
128 AAATA-TAAAAA-ATTCAAC-TAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATA
* * * *
3574 AGGCTTTCAAAGGCAATGGGTGACTATAAATGGACTTTTCTTGCC-TTTAAATGCCTTTTTCTTC
190 AGGCTTTGAAAGGC-ATGGGTGACTATAAATGGACTTTTCTTGCCAATGATA-GCCTTTTTCTTC
* ** * * * * * * * *
3638 ACGTTTCTCAAAGTAAACAGTCAATTATAATCTATTTTAACAAAAAAGGTAAAAAAAATTTAACT
253 ATGTTTCTTGAGGCAGACATTCAATTATAATCTGTTTTAACAAAAAATGT--AAAAAATTCAACC
* *
3703 TAAAATCAATTATGAGACTACAA
316 TAAAATCAATTATGAGATTATAA
* * * * * * * * * * *
3726 AACTATTTAAAGTGAGTAATTAGGCTTTCGAAGGCTTGAGTGACTAGAAATGGACTTTTGTTGTC
1 AACCATTTAAAGCGAGTAATAAGGCTTTCAAAAGCATGGGTGATTATAAATGGACTTTTCTTGCC
* * * * *
3791 AATGA-ATGGCTTTTTCTTCATGTTTCTTGAGGTGGATATTCAATTATAATATGCTTTTACCAAA
66 AATGATA-GGCTTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAATCTG-TTTTAACAAA
* * * * *
3855 AAGATCAAAAAATTCAACCTGAACTCAATTACGAGATTATAAAACCATTTAAAGTGAGTAATTAC
129 AATAT-AAAAAATTCAA-CTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAA-TAA
** * * * *
3920 GATTTTG-AACGCATAGGTAACTATAAATGGACATTTTC-TGCCAATGA-A-CAACGTTTT-TTC
191 GGCTTTGAAAGGCATGGGTGACTATAAATGGAC-TTTTCTTGCCAATGATAGC--CTTTTTCTTC
* * * * *
3980 ATATTTCTTAAGGCA-A-ATATCTAATTATAATCTGTTTTTACTAAAAATGTAAAACAATTTAAC
253 ATGTTTCTTGAGGCAGACAT-TC-AATTATAATCTGTTTTAACAAAAAATGTAAAA-AATTCAAC
* **
4043 ATAAAATCAATTACAAGATTATAA
315 CTAAAATCAATTATGAGATTATAA
* * * *** ** * * * * *
4067 AGCTATTTAAAGCGAGTAATTACAATTTTGAAGGTATGGGTAACTATAAATGGACTTTTCTTGTC
1 AACCATTTAAAGCGAGTAATAAGGCTTTCAAAAGCATGGGTGATTATAAATGGACTTTTCTTGCC
* * *** ** * * *
4132 AATGA-ATGGCATTTTCTTCATGTTTCCCAAGACAGACATACAATTAAAATCTGTTTTAATAAAA
66 AATGATA-GGCTTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAA-CAAA
* ** * * *
4196 AATATAGAAAAATTCAACCTAAAATTAATTATGAGATTATAAAACTTTTTAAAGAGCGTAATTAG
129 AATATA-AAAAATTCAA-CTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAG
* ** * *
4261 GCTTTTGAAA-GCATGGGT-AATAATCGATGTACTTTTCTTGCCAATGA-ATGACTTTTTCCTT-
192 GC-TTTGAAAGGCATGGGTGACT-ATAAATGGACTTTTCTTGCCAATGATA-GCCTTTTT-CTTC
* *** * * * * * * * * *
4322 AGGTTTCCCAAAGTAGACTTTCAATTATAATCTGTTTTCATAAAATATTTAAAACATT-AGACAT
253 ATGTTTCTTGAGGCAGACATTCAATTATAATCTGTTTTAACAAAAAATGTAAAAAATTCA-ACCT
4386 AAAATCAATTATGAGATTATAA
317 AAAATCAATTATGAGATTATAA
* ** *
4408 AACCATTTAAAGCGAGTAATAAGGCTTTC-AAAGATATGGGTGACCATAAATGGACTTTTTTTTG
1 AACCATTTAAAGCGAGTAATAAGGCTTTCAAAAG-CATGGGTGATTATAAATGGAC-TTTTCTTG
* * * *
4472 TCAATGATAGCCTTTTTCTTCATGTTTCTTGAGACT-GTA-ATTCAATTATAATCTGTTTTAACT
64 CCAATGATAGGCTTTTTCTTCACGTTTCTTGAG-GTAG-ACATTCAATTATAATCTGTTTTAAC-
* * * **
4535 AAAAATAAAAAATAATTCAACCT-AAATCAATTATGACATTATAAAATCATTTAAAACGAGTAAT
126 AAAAATATAAAA-AATTCAA-CTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAAT
* * ** * * * * * *
4599 TATGCTTTTGAAA-GCATTAGTAACTATAAATGGACTTTTTTTGTCAATTA-ATG-GTTTTTTTT
189 AAGGC-TTTGAAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGATA-GCCTTTTTCTT
* * * * * * *
4661 TACGTTTCCTGAGGTAGACATTCAATTATAATATATTTTAACTAAAAATGT
252 CATGTTTCTTGAGGCAGACATTCAATTATAATCTGTTTTAACAAAAAATGT
4712 TAATTATGAG
Statistics
Matches: 3335, Mismatches: 883, Indels: 306
0.74 0.20 0.07
Matches are distributed among these distances:
316 75 0.02
317 69 0.02
318 74 0.02
319 18 0.01
321 2 0.00
323 1 0.00
324 2 0.00
326 2 0.00
327 2 0.00
328 3 0.00
331 4 0.00
332 2 0.00
333 1 0.00
336 1 0.00
338 55 0.02
339 440 0.13
340 796 0.24
341 804 0.24
342 538 0.16
343 270 0.08
344 157 0.05
345 19 0.01
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.35
Consensus pattern (338 bp):
AACCATTTAAAGCGAGTAATAAGGCTTTCAAAAGCATGGGTGATTATAAATGGACTTTTCTTGCC
AATGATAGGCTTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAA
TATAAAAAATTCAACTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTT
TGAAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGATAGCCTTTTTCTTCATGTTTCT
TGAGGCAGACATTCAATTATAATCTGTTTTAACAAAAAATGTAAAAAATTCAACCTAAAATCAAT
TATGAGATTATAA
Found at i:2682 original size:147 final size:148
Alignment explanation
Indices: 2487--2765 Score: 411
Period size: 147 Copynumber: 1.9 Consensus size: 148
2477 GAGGTAGATA
* * * * *
2487 TTCAATTGTAATTTGTTTTAGCCAACAATGTAAAAAATTTAATTTAAAATTAATTATAAAATTAT
1 TTCAATTATAATTTGTTTTAGCCAACAATGTAAAAAAGTCAATATAAAATCAATTATAAAATTAT
* * * * *
2552 AAAACTATTTAAAGCGCGTAATAAGG-TTTTAAAAGGCATGAGTGACTATAAATAGACTTTTCTT
66 AAAACCATTGAAAGCGAGTAATAAGGCTTTT-AAAGGCAAGAGTGACCATAAATAGACTTTTCTT
2616 GCCTGTGGCTACCTTTTTC
130 GCCTGTGGCTACCTTTTTC
* *
2635 TTCAATTATAATTTG-TTTAGCCAA-AACTGTAAAAAAGTCAATATAAAATCAATTATGAGATTA
1 TTCAATTATAATTTGTTTTAGCCAACAA-TGTAAAAAAGTCAATATAAAATCAATTATAAAATTA
2698 TAAAACCATTGAAAGCGAGTAATAAGGCTTTTAAAGGCAAGAGTGACCATAAATAGACTTTTCTT
65 TAAAACCATTGAAAGCGAGTAATAAGGCTTTTAAAGGCAAGAGTGACCATAAATAGACTTTTCTT
2763 GCC
130 GCC
2766 AATGATAGCC
Statistics
Matches: 117, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
146 2 0.02
147 97 0.83
148 18 0.15
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (148 bp):
TTCAATTATAATTTGTTTTAGCCAACAATGTAAAAAAGTCAATATAAAATCAATTATAAAATTAT
AAAACCATTGAAAGCGAGTAATAAGGCTTTTAAAGGCAAGAGTGACCATAAATAGACTTTTCTTG
CCTGTGGCTACCTTTTTC
Found at i:3382 original size:170 final size:169
Alignment explanation
Indices: 2635--4711 Score: 1607
Period size: 170 Copynumber: 12.2 Consensus size: 169
2625 TACCTTTTTC
* * * *
2635 TTCAATTATAATTTG-TTTAGCCAAAACTGTAAAAAAGTCAA-TATAAAATCAATTATGAGATTA
1 TTCAATTATAATCTGTTTTA-ACAAAAATGTAAAAAATTCAACT-TAAAATCAATTATGAGATTA
* * * * * *
2698 TAAAACCATTGAAAGCGAGTAATAAGGCTTTTAAAGGCAAGAGTGACCATAAATAGACTTTTCTT
64 TAAAACCATTTAAAGCGAGTAATTAGGCTTTCAAAGGCATGAGTGACTATAAATGGACTTTTCTT
* * * * *
2763 GCCAATG-ATAGCCTTTTTCTTTATGTTTCTTGAGGCGACCA
129 GCCAATGAAT-GCCTTTTTCTTCACGTTTCTTAAGGCAAACA
* *
2804 TTCAATTATAATCTGTTTTAACCAAAAATGTAAAACAATTCTA-TCTAAAATCAATTATGACATT
1 TTCAATTATAATCTGTTTTAA-CAAAAATGTAAAA-AATTCAACT-TAAAATCAATTATGAGATT
* * * ** * *
2868 ATAAAATCATTTAAAGTGTGTAATTAGGCTTT-TGAGAGCATGGGT-ACCTATAAATGAACCTTT
63 ATAAAACCATTTAAAGCGAGTAATTAGGCTTTCAAAG-GCATGAGTGA-CTATAAATGGA-CTTT
* * ** *
2931 TCTTGCCAATGAATGGCC-TTTTCTTTACGTTTCTTGAGATAGACA
125 TCTTGCCAATGAAT-GCCTTTTTCTTCACGTTTCTTAAGGCAAACA
* *
2976 TTCAATTATAATCTGTTTTAACTAAAAATATAAACAAACTT-AACCTAAAATCAATTATGAGATT
1 TTCAATTATAATCTGTTTTAAC-AAAAATGTAAA-AAA-TTCAACTTAAAATCAATTATGAGATT
* * * * * * **
3040 ATAAAACTATTTAAAGTGAGTGATTAGGCTTTCAAAGCCTTGGGTGACTCGAAATGGAC-TTTCT
63 ATAAAACCATTTAAAGCGAGTAATTAGGCTTTCAAAGGCATGAGTGACTATAAATGGACTTTTCT
* * * * *
3104 TGCCAATGAATGGCTTTTTCTTCACATTT-TTTAGGCTAGATA
128 TGCCAATGAATGCCTTTTTCTTCACGTTTCTTAAGGC-AAACA
* * * * *
3146 TTCAACTATAGTCTGTTTTAATGAGAAATGTAAAAAATTCAACTTAAAATTAATTATGAGATTAT
1 TTCAATTATAATCTGTTTTAA-CAAAAATGTAAAAAATTCAACTTAAAATCAATTATGAGATTAT
* * * * * *
3211 -AAACCATTTGAAGCGCGTAATAAGGCTTTCAAAGGCATGAGTGACAATAAATAGACTTTTGTTG
65 AAAACCATTTAAAGCGAGTAATTAGGCTTTCAAAGGCATGAGTGACTATAAATGGACTTTTCTTG
* * * *
3275 TCAATG-ATAGCCTTTTTCCTCACATTTCCTAAGGCAAACA
130 CCAATGAAT-GCCTTTTTCTTCACGTTTCTTAAGGCAAACA
* * *
3315 TTAAATTATAATCTGTTTTAACAAGAAAGGTGAAAAAATTCAACTTAAAATCAATTATGAAATTA
1 TTCAATTATAATCTGTTTTAACAA-AAATGT-AAAAAATTCAACTTAAAATCAATTATGAGATTA
** *** * * *
3380 T-AAATTATTTAAAGCGAGTAATTACAATTTTAAAGGCATGAGTAAATATAAATGGACTTTTCTT
64 TAAAACCATTTAAAGCGAGTAATTAGGCTTTCAAAGGCATGAGTGACTATAAATGGACTTTTCTT
* * * * * * *
3444 ACCAATGAATGTCTTTTTCTTAACATTTCCTGAGGCAATCA
129 GCCAATGAATGCCTTTTTCTTCACGTTTCTTAAGGCAAACA
* ** * *
3485 TTCAATTATAATCTGTTTTAACTAAAAAAGTAAAAACATTTGACTTAAAATCAATTCTGAAATTA
1 TTCAATTATAATCTGTTTTAAC-AAAAATGTAAAAA-ATTCAACTTAAAATCAATTATGAGATTA
* *
3550 TAAAACCATTTAAAGGGAGTAATTAGGCTTTCAAAGGCAATGGGTGACTATAAATGGACTTTTCT
64 TAAAACCATTTAAAGCGAGTAATTAGGCTTTCAAAGGC-ATGAGTGACTATAAATGGACTTTTCT
** * * * *
3615 TGCCTTTAAATGCCTTTTTCTTCACGTTTCTCAAAGTAAACA
128 TGCCAATGAATGCCTTTTTCTTCACGTTTCTTAAGGCAAACA
* * * * *
3657 GTCAATTATAATCTATTTTAACAAAAAAGGTAAAAAAAATTTAACTTAAAATCAATTATGAGACT
1 TTCAATTATAATCTGTTTTAAC-AAAAATGT--AAAAAATTCAACTTAAAATCAATTATGAGATT
* * * * * * *
3722 ACAAAACTATTTAAAGTGAGTAATTAGGCTTTCGAAGGCTTGAGTGACTAGAAATGGACTTTTGT
63 ATAAAACCATTTAAAGCGAGTAATTAGGCTTTCAAAGGCATGAGTGACTATAAATGGACTTTTCT
* * * * *** *
3787 TGTCAATGAATGGCTTTTTCTTCATGTTTCTTGAGGTGGATA
128 TGCCAATGAATGCCTTTTTCTTCACGTTTCTTAAGGCAAACA
* * * * * *
3829 TTCAATTATAATATGCTTTTACCAAAAA-GATCAAAAAATTCAACCTGAACTCAATTACGAGATT
1 TTCAATTATAATCTG-TTTTAACAAAAATG-T-AAAAAATTCAACTTAAAATCAATTATGAGATT
* * * ** * *
3893 ATAAAACCATTTAAAGTGAGTAATTACGATTTTGAACGCAT-AGGTAACTATAAATGGACATTTT
63 ATAAAACCATTTAAAGCGAGTAATTAGGCTTTCAAAGGCATGA-GTGACTATAAATGGAC-TTTT
*** * ** *
3957 C-TGCCAATGAACAACGTTTT-TTCATATTTCTTAAGGCAAATA
126 CTTGCCAATGAATGCCTTTTTCTTCACGTTTCTTAAGGCAAACA
* * * **
3999 -TCTAATTATAATCTGTTTTTACTAAAAATGTAAAACAATTTAACATAAAATCAATTACAAGATT
1 TTC-AATTATAATCTGTTTTAAC-AAAAATGTAAAA-AATTCAACTTAAAATCAATTATGAGATT
* * *** ** * * *
4063 ATAAAGCTATTTAAAGCGAGTAATTACAATTTTGAAGGTATGGGTAACTATAAATGGACTTTTCT
63 ATAAAACCATTTAAAGCGAGTAATTAGGCTTTCAAAGGCATGAGTGACTATAAATGGACTTTTCT
* * * * ** * *
4128 TGTCAATGAATGGCATTTTCTTCATGTTTCCCAAGACAGACA
128 TGCCAATGAATGCCTTTTTCTTCACGTTTCTTAAGGCAAACA
* * * * * *
4170 TACAATTAAAATCTGTTTTAATAAAAAATATAGAAAAATTCAACCTAAAATTAATTATGAGATTA
1 TTCAATTATAATCTGTTTTAA-CAAAAATGTA-AAAAATTCAACTTAAAATCAATTATGAGATTA
** * * * * * ** *
4235 TAAAACTTTTTAAAGAGCGTAATTAGGCTTTTGAAA-GCATGGGT-AATAATCGATGTACTTTTC
64 TAAAACCATTTAAAGCGAGTAATTAGGC-TTTCAAAGGCATGAGTGACT-ATAAATGGACTTTTC
* * ** * * * *
4298 TTGCCAATGAATGACTTTTTCCTT-AGGTTTCCCAAAGTAGACT
127 TTGCCAATGAATGCCTTTTT-CTTCACGTTTCTTAAGGCAAACA
* * * * *
4341 TTCAATTATAATCTGTTTTCATAAAATATTTAAAACATT-AGACATAAAATCAATTATGAGATTA
1 TTCAATTATAATCTGTTTTAACAAAA-ATGTAAAAAATTCA-ACTTAAAATCAATTATGAGATTA
* ** * * *
4405 TAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGATATGGGTGACCATAAATGGACTTTTTTT
64 TAAAACCATTTAAAGCGAGTAATTAGGCTTTCAAAGGCATGAGTGACTATAAATGGAC-TTTTCT
* * * * **
4470 TGTCAATG-ATAGCCTTTTTCTTCATGTTTCTTGAGACTGTA-A
128 TGCCAATGAAT-GCCTTTTTCTTCACGTTTCTTAAGGC-AAACA
** * *
4512 TTCAATTATAATCTGTTTTAACTAAAAATAAAAAATAATTCAACCT-AAATCAATTATGACATTA
1 TTCAATTATAATCTGTTTTAAC-AAAAATGTAAAA-AATTCAACTTAAAATCAATTATGAGATTA
* * * * * * *
4576 TAAAATCATTTAAAACGAGTAATTATGCTTTTGAAA-GCATTAGTAACTATAAATGGACTTTTTT
64 TAAAACCATTTAAAGCGAGTAATTAGGC-TTTCAAAGGCATGAGTGACTATAAATGGACTTTTCT
* * * * * * * * *
4640 TGTCAATTAATG-GTTTTTTTTTACGTTTCCTGAGGTAGACA
128 TGCCAATGAATGCCTTTTTCTTCACGTTTCTTAAGGCAAACA
* *
4681 TTCAATTATAATATATTTTAACTAAAAATGT
1 TTCAATTATAATCTGTTTTAAC-AAAAATGT
4712 TAATTATGAG
Statistics
Matches: 1532, Mismatches: 316, Indels: 120
0.78 0.16 0.06
Matches are distributed among these distances:
168 49 0.03
169 172 0.11
170 459 0.30
171 459 0.30
172 312 0.20
173 76 0.05
174 5 0.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (169 bp):
TTCAATTATAATCTGTTTTAACAAAAATGTAAAAAATTCAACTTAAAATCAATTATGAGATTATA
AAACCATTTAAAGCGAGTAATTAGGCTTTCAAAGGCATGAGTGACTATAAATGGACTTTTCTTGC
CAATGAATGCCTTTTTCTTCACGTTTCTTAAGGCAAACA
Found at i:4960 original size:170 final size:170
Alignment explanation
Indices: 4713--5415 Score: 613
Period size: 170 Copynumber: 4.1 Consensus size: 170
4703 TAAAAATGTT
** * * * * * * * * *
4713 AATTATGAGATTATTCAACTATTTAAAATGAGTGATTAGGCTTTTGAAGGCTTGGGTGAGTAGAA
1 AATTATGAGATTATAAAACCATTTGAAGTGAGTAATAAGGCTTTTAAAGGCATGGGTGACTATAA
* * * *
4778 ATAGACTTTTCTTGCCAATGAATCACTTTTTCTTCATATTTCATGGGGTA-AATATTCAATTATA
66 ATAGACTTTTCTTGCCAATGAAGC-CTTTTTTTTCATATTTCCTGAGGTACAATATTCAATTATA
* * *
4842 ATCTATTTTAACTAAAAATATAAAAAATTCAACTTAAAATT
130 ATCTGTTTTAACTAAAAATATAAAAAATTCAACCTAAAATC
* *
4883 AATTCTGAGATTATAAAACCATTTGAAGTGCGTAATAAGGCTTTTAAAGGCATGGGTGACTATAA
1 AATTATGAGATTATAAAACCATTTGAAGTGAGTAATAAGGCTTTTAAAGGCATGGGTGACTATAA
* * *
4948 ATAGACTTTTCTTGCCAATGATAGCCTTTTTTTTTA-AGTTTCCTGAGGTAGAA-AGTCAATTAT
66 ATAGACTTTTCTTGCCAATGA-AGCCTTTTTTTTCATA-TTTCCTGAGGTACAATATTCAATTAT
* * * * *
5011 AATTTGTTTTCACAAAAAATAGAAAAAAATTCAACTTAAAATC
129 AATCTGTTTTAACTAAAAATA-TAAAAAATTCAACCTAAAATC
* * * *
5054 AATTGTGAGATTATAAAACTATTTGAAGTAAGTAATAAGGCTTTCAAAGGCATGGGTGACTATAA
1 AATTATGAGATTATAAAACCATTTGAAGTGAGTAATAAGGCTTTTAAAGGCATGGGTGACTATAA
* ********* * * *
5119 ATGGACTTTTCTTNNNNNNNNNNGCC-TTTTTTTCATGTTTCTTGA-G-ACAGTCATTCAATTAT
66 ATAGACTTTTCTT-GCCAATGAAGCCTTTTTTTTCATATTTCCTGAGGTACAAT-ATTCAATTAT
* *
5181 AATCTGTTTTAACCAAAAATGA-AAAAAATTGAACCTAAAATC
129 AATCTGTTTTAACTAAAAAT-ATAAAAAATTCAACCTAAAATC
* * * * * *
5223 AATTATGACATTATAAAACTATTTAAAGCGAGTAACT-AGGCTTTTCAAA-GCATAGGTAACTAT
1 AATTATGAGATTATAAAACCATTTGAAGTGAGTAA-TAAGGCTTTT-AAAGGCATGGGTGACTAT
* * * * * * *
5286 AAATGGACCTTTCTTGCTAATGAATG-ATTTTTTTTCACT-TTTCCTTATGTA-GATATTCAATT
64 AAATAGACTTTTCTTGCCAATGAA-GCCTTTTTTTTCA-TATTTCCTGAGGTACAATATTCAATT
* * * * *
5348 ATAATTTGTTTTAACTACAAATGTAAAGAAATTCTACCCAAAATC
127 ATAATCTGTTTTAACTAAAAATATAAA-AAATTCAACCTAAAATC
*
5393 AGTTATGAGATTAT-AAACCATTT
1 AATTATGAGATTATAAAACCATTT
5416 AAAGCAAGTC
Statistics
Matches: 431, Mismatches: 84, Indels: 37
0.78 0.15 0.07
Matches are distributed among these distances:
168 2 0.00
169 137 0.32
170 192 0.45
171 100 0.23
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.37
Consensus pattern (170 bp):
AATTATGAGATTATAAAACCATTTGAAGTGAGTAATAAGGCTTTTAAAGGCATGGGTGACTATAA
ATAGACTTTTCTTGCCAATGAAGCCTTTTTTTTCATATTTCCTGAGGTACAATATTCAATTATAA
TCTGTTTTAACTAAAAATATAAAAAATTCAACCTAAAATC
Found at i:5548 original size:137 final size:136
Alignment explanation
Indices: 5297--5557 Score: 337
Period size: 137 Copynumber: 1.9 Consensus size: 136
5287 AATGGACCTT
* * * * *
5297 TCTTGCTAATGAATGATTTTTTTTCACTTTTCCTTATGTAGATATTCAATTATAATTTGTTTTAA
1 TCTTGCCAATGAATGATTTTTCTTCACATTTCCTTAGGTAGATATTCAATTATAATCTGTTTTAA
* * * *
5362 CTACAAATGTAAAGAAATTCTACCCAAAATCAGTTATGAGATTATAAACCATTTAAAGCAAGTCA
66 CTAAAAATGTAAAGAAATTCAACCCAAAATCACTTATAAGATTATAAACCATTTAAAGCAAGTCA
5427 TTACTC
131 TTACTC
*
5433 TCTTGCCAATGAATGGCTTTTTCTTCACATTT-CTTGAGGTAGATATTCAATTATAATCTGTTTT
1 TCTTGCCAATGAAT-GATTTTTCTTCACATTTCCTT-AGGTAGATATTCAATTATAATCTGTTTT
* * ** * *
5497 AAGTAAAAATGTAAA-ATATTCAACTTAAAATTACTTATAAGATTATAAAACCATTTGAAGC
64 AACTAAAAATGTAAAGAAATTCAACCCAAAATCACTTATAAGATTAT-AAACCATTTAAAGC
5558 GTGTAATAAG
Statistics
Matches: 106, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
136 40 0.38
137 66 0.62
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (136 bp):
TCTTGCCAATGAATGATTTTTCTTCACATTTCCTTAGGTAGATATTCAATTATAATCTGTTTTAA
CTAAAAATGTAAAGAAATTCAACCCAAAATCACTTATAAGATTATAAACCATTTAAAGCAAGTCA
TTACTC
Found at i:5774 original size:171 final size:170
Alignment explanation
Indices: 5433--5803 Score: 449
Period size: 171 Copynumber: 2.2 Consensus size: 170
5423 GTCATTACTC
* ** * * *
5433 TCTTGCCAATGAATGGCTTTTTCTTCACATTTCTTGAGGTAGATATTCAATTATAATCTGTTTTA
1 TCTTACCAATGAATGGCTTTTTCTTCATGTTTCTCGAGGCAGACATTCAATTATAATCTGTTTTA
** * * * * *
5498 AGTAAAAATGTAAAATATTCAACTTAAAATTACTTATAAGATTATAAAACCATTTGAAGCGTGTA
66 ACCAAAAATGTAAAAAATTCAACTTAAAATCAATTACAAGATTATAAAACCATTTGAAGCGAGTA
* * *
5563 ATAAGGCTTTCAAAGGCATGGGTGACTATAAATAGACTTT
131 ATAAGGATTTCAAAGACATGGGTAACTATAAATAGACTTT
* * * *
5603 TCTTGCTAGTG-ATGGCCTTTTTCTTTATGTTTCTCGAGGCAGACATTCAATTATAATCTGTTTT
1 TCTTACCAATGAATGG-CTTTTTCTTCATGTTTCTCGAGGCAGACATTCAATTATAATCTGTTTT
* * *
5667 CACCAAAAATGTAAAAAAATTCAA-TCTATAATCAATTACAAGATTATAATACCATTTGAAGCGA
65 AACCAAAAATGT-AAAAAATTCAACT-TAAAATCAATTACAAGATTATAAAACCATTTGAAGCGA
* ** * *
5731 GTTATATTGATTTTAAAGACATGGGTAACTATAAATGGACTTT
128 GTAATAAGGATTTCAAAGACATGGGTAACTATAAATAGACTTT
5774 TCTTACCAATGAATGGCTTTTTCTTCATGT
1 TCTTACCAATGAATGGCTTTTTCTTCATGT
5804 NNNNNNNNNN
Statistics
Matches: 167, Mismatches: 30, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
169 4 0.02
170 61 0.37
171 98 0.59
172 4 0.02
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (170 bp):
TCTTACCAATGAATGGCTTTTTCTTCATGTTTCTCGAGGCAGACATTCAATTATAATCTGTTTTA
ACCAAAAATGTAAAAAATTCAACTTAAAATCAATTACAAGATTATAAAACCATTTGAAGCGAGTA
ATAAGGATTTCAAAGACATGGGTAACTATAAATAGACTTT
Found at i:6661 original size:171 final size:171
Alignment explanation
Indices: 5908--8474 Score: 2356
Period size: 171 Copynumber: 15.0 Consensus size: 171
5898 NNNNNNTTCA
* * * * *
5908 TGAGGTAGACATTCAAATGTAATATGTTTTAACCAAAAAA-GTAAAACATTTCAACCTAAAATCA
1 TGAGGTAGACATTCAATTATAATCTGTTTTAA-CAAAAAATGTAAAAAAATTCAACCTAAAATCA
** * * * * *
5972 ATTATGAGATTGCAAAACCATTTAAAGCGAGTGATTAGGCTTTTCGAAGGCTTGGGTAAGTAGAA
65 ATTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGC-TTTCGAAGGCATGGGTGACTATAA
* * * * *
6037 ATGAACTTTTCTAGTCAATGGATGGCTTTTACTTCACGTTTCT
129 ATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCACGTTTCT
* * ** * * *
6080 TGAGGTAGATATTTAATTATAATCTGTTTTAATTAAAAATAT-AAAAAATTCAACTTAAAATTAA
1 TGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGTAAAAAAATTCAACCTAAAATCAA
* * * ** * * *
6144 TTATGAGATTGTAAAACTATTTGAAGCCCGTAATAAGGGTTTCGAACGCATGGGTGACTATAAAT
66 TTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACTATAAAT
** * *
6209 AAACTTTT-TCT-CCAATG-GTAGCCTTTCTT-TTCACGTTTCT
131 GGACTTTTCT-TGCCAATGAAT-GGCTTT-TTCTTCACGTTTCT
* * * * * *
6249 TAAGGTAGTCATTTAATTATAATCTGTTTTAACCAAAAATGTAAAACAATTCGACCTAAAATCAA
1 TGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGTAAAAAAATTCAACCTAAAATCAA
* * * * *
6314 TTATGACATTATAAAACCATTTAAAACGAGTAATTAGGCTTTTGAAAGCATGGGTAACTATAAAT
66 TTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACTATAAAT
* * * *
6379 GGACCTTTTTTTGCCAATGAATGGGTTTTT-TGTCATGTTTCC
131 GGA-CTTTTCTTGCCAATGAATGGCTTTTTCT-TCACGTTTCT
* * * * * *
6421 TAAGGTAAACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTGAACCTAATATTAA
1 TGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGTAAAAAAATTCAACCTAAAATCAA
* * * * * * *
6486 TTATGAAATTATAAAACTATTTAAAGCAAGTGATTAGGCTTTCGAAGGCTTGGATGACTAGAAAT
66 TTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACTATAAAT
* * *
6551 AGACTTTTCTTGCGAATGAATGGCTTTGTCTTCACGTTTCT
131 GGACTTTTCTTGCCAATGAATGGCTTTTTCTTCACGTTTCT
** * * * * * * *
6592 TGACATAGATATTCAGTCATAATCTATTTTCATAAAAAATGTAAAAAAATTCAACTTAAAATCAA
1 TGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGTAAAAAAATTCAACCTAAAATCAA
* * * ** * * * * *
6657 TTATGTGAATATAAAACTATTTAAAGTAAGTAATAAGGTTTTCAAAGGCTTGAGTGACTATAAAT
66 TTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACTATAAAT
* * * * *
6722 AGACTTTTCTTGCCAATTAATGGCTGTTTCTTCATGTTTCC
131 GGACTTTTCTTGCCAATGAATGGCTTTTTCTTCACGTTTCT
* * * * **
6763 TAAGGTAGACATCCAATTAT-ATACTGTTTTAACCAAAAATGTAAAAAAAATCAATTTAAAATCA
1 TGAGGTAGACATTCAATTATAAT-CTGTTTTAACAAAAAATGTAAAAAAATTCAACCTAAAATCA
* * * * * * *
6827 ATTATTAGACTGTAAAACCATTTAAAGTGAGTAATTAGGTTTTCGAAGGCAAGGGTGAATAATAA
65 ATTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACT-ATAA
** * * * ** * *
6892 ATAAAATTTTATTAGCAAAT-AATGAATTTTTCTTCACATTTCC
129 ATGGACTTTTCTT-GCCAATGAATGGCTTTTTCTTCACGTTTCT
** * * * ** * * * *
6935 CAATGCAGACATCCAATTATAATCTGTTTTAATTAAATATGTAAAACAATTCAACATAAAATTAA
1 TGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGTAAAAAAATTCAACCTAAAATCAA
* * * * * *
7000 TTATAAGATTATAAAACCATTTAAAGCAAGTAATAAGGCCTTAGAAGGAATGGGTGACTATAAAT
66 TTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACTATAAAT
* * * *
7065 TGACTTTTCTTGCCAAT-AATAGCCTTTTTCTTTATGTTTCT
131 GGACTTTTCTTGCCAATGAAT-GGCTTTTTCTTCACGTTTCT
* * * * * *
7106 TGAGATAAACATTCAATTATAATCTGTTTTCACCAAAAAT-TTAAAAAATTCAACATAAAATCAA
1 TGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGTAAAAAAATTCAACCTAAAATCAA
* * * * * **
7170 TAATGAGATTATAAAACCATATGAAGCGAGTAATAAGGCTTTCAAAGATATGGGTGA-TCATAAA
66 TTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACT-ATAAA
* * * *
7234 TGGACTTTTCTTACCAATG-ATAGCCTTTTTCTTAACATTTCT
130 TGGACTTTTCTTGCCAATGAAT-GGCTTTTTCTTCACGTTTCT
* * * *
7276 TGAGGCA-ATCATTCAATTATAATCTGTTTTAACCAAAAATGTAAACAAATTCAACCTAAAATTA
1 TGAGGTAGA-CATTCAATTATAATCTGTTTTAACAAAAAATGTAAAAAAATTCAACCTAAAATCA
* * * * * * * *
7340 ATTTTGACATTATAATACCATTTAAAGTGAGTAATTAGGCTTTTGAAAGCATAGGTAACTATAAA
65 ATTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACTATAAA
* * * * * *
7405 TGTG--TGTTTCTTGTCAACGAATGACTTCTTCTTCATGTTTCC
130 TG-GACT-TTTCTTGCCAATGAATGGCTTTTTCTTCACGTTTCT
* * * * *
7447 TAAGGTAGACATTCAATTATAATCTATTTCAACCAAAAAGGTAAAAAAATTCAACCTAAAATCAA
1 TGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGTAAAAAAATTCAACCTAAAATCAA
* * * * * * * * * *
7512 TTATAAAATTATCAAACCTTTTAAAGGGAGCAAATAGGCTTTTGAAGGCATGGGTAACTATTAAT
66 TTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACTATAAAT
* ** * **
7577 GAACTTTTCTTGTGAATGAATGACTTTTTCCTT-TGGTTTCT
131 GGACTTTTCTTGCCAATGAATGGCTTTTT-CTTCACGTTTCT
* * * * * **
7618 CGAGGTAGA-TTTTAATTATAATCTGTTTTAACAAAACAT-AAAAAAAATTCAATATAAAATCAA
1 TGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGTAAAAAAATTCAACCTAAAATCAA
* * * * * * *
7681 TTATGAGATTATAAAACCATTTCATGTGAGTAATAAGGATTTCAAAGACATGGGTGACTATAAAT
66 TTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACTATAAAT
*
7746 GGACTTTTCTTGCCAATG-ATAGCCTTTTTCTTCACGTTTCT
131 GGACTTTTCTTGCCAATGAAT-GGCTTTTTCTTCACGTTTCT
** * ** * * * *
7787 TGAGACAGACATTCAATTATAATCT-ATTTCCCCAAAAACGTTAAAAAATTCTACCTAAAATCAA
1 TGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGTAAAAAAATTCAACCTAAAATCAA
* * * * * *
7851 TTATGACATTATAAAATCATTTAAAGCAAGTAATTAGGCTTTTGAAAGCATGGGTAACTATAAAT
66 TTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACTATAAAT
* ** ** *
7916 GGA-TCTTTCTTACCAACAAATAACTTTTTCTTCACGTTTCC
131 GGACT-TTTCTTGCCAATGAATGGCTTTTTCTTCACGTTTCT
* * *
7957 TGAGGTTGACATTCAATTATAATCTATTTTAACTAAAAATGTAAAAAAATTCAACCTAAAATCAA
1 TGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGTAAAAAAATTCAACCTAAAATCAA
* * * *
8022 TTATGAGATTATAAAACCATTTAAAGCGAGTGATTAGGCTTTTGAAGGCTTGGGTGACTAGAAAT
66 TTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACTATAAAT
* * *
8087 GAACTTTTCTTACCAATGAATGGCTTTTTCTTCACTTTTCT
131 GGACTTTTCTTGCCAATGAATGGCTTTTTCTTCACGTTTCT
* * * * * *
8128 TTACGTAGATATTCAATTATAATCTGTTTTAATAAAAAATGT-AAAAAATTCAACTTAAAATTAA
1 TGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGTAAAAAAATTCAACCTAAAATCAA
* * * * * * * * *
8192 TTACGCGATTATATAACCATTTAAAGCGTGTAATAAGACTTTCAAAGGAATGGGTGACTATTAAT
66 TTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACTATAAAT
* *** * *
8257 CGACTTTTCTTGCTGGTGAATGCCTTTTTCTTCACGTTTCC
131 GGACTTTTCTTGCCAATGAATGGCTTTTTCTTCACGTTTCT
* * * * * *
8298 TGAGGTAGATATTCAATTTTAATCTGTTTTAACAAAAAAGGTAAAAAAAATCAACTTAAAATGAA
1 TGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGTAAAAAAATTCAACCTAAAATCAA
* * * * * *
8363 TTTTGAGATTATAAAACTATTTAAAGCGAGTAATTAGGCTTCCGAAGGCTTGAGTGATTATAAAT
66 TTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACTATAAAT
*
8428 GGACTTTTCTTGCCAATGAATGGCGTTTTT-TTCATGTTTCT
131 GGACTTTTCTTGCCAATGAATGGC-TTTTTCTTCACGTTTCT
8469 TGAGGT
1 TGAGGT
8475 NNNNNNNNNN
Statistics
Matches: 1931, Mismatches: 426, Indels: 77
0.79 0.18 0.03
Matches are distributed among these distances:
168 6 0.00
169 173 0.09
170 556 0.29
171 882 0.46
172 306 0.16
173 8 0.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.35
Consensus pattern (171 bp):
TGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGTAAAAAAATTCAACCTAAAATCAA
TTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACTATAAAT
GGACTTTTCTTGCCAATGAATGGCTTTTTCTTCACGTTTCT
Found at i:7366 original size:341 final size:341
Alignment explanation
Indices: 5908--8474 Score: 2238
Period size: 341 Copynumber: 7.5 Consensus size: 341
5898 NNNNNNTTCA
* * * * * *
5908 TGAGGTAGA-CATTCAAATGTAATATGTTTTAACCAAAAAAGTAAAACATTTCAACCTAAAATCA
1 TGAGGTAGATCATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACCTAAAATCA
** * * * * * *
5972 ATTATGAGATTGCAAAACCATTTAAAGCGAGTGATTAGGCTTTTCGAAGGCTTGGGTAAGTAGAA
66 ATTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGC-TTTAGAAGGCATGGGTGACTATAA
* * * * * * *
6037 A-TGAACTTTTCTAGTCAATGGATGGCTTTTACTTCACGTTTCTTGAGGTAGATATTTAATTATA
130 ATTG-ACTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATA
** * * * * *
6101 ATCTGTTTTAATTAAAAATATAAAAAATTCAACTTAAAATTAATTATGAGATTGTAAAACTATTT
194 ATCTGTTTTAACCAAAAATTTAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTT
* ** * * * *
6166 GAAGCCCGTAATAAGGGTTTCGAACGCATGGGTGACTATAAATAAACTTTT-TCT-CCAATGGTA
259 AAAGCGAGTAATAAGGCTTTC-AAAGCATGGGTGACTATAAATAGACTTTTCT-TACCAATGATA
*
6229 GCCTTTCTT-TTCACGTTTCT
322 GACTTT-TTCTTCACGTTTCT
* * * *
6249 TAAGGTAG-TCATTTAATTATAATCTGTTTTAACCAAAAATGTAAAACAATTCGACCTAAAATCA
1 TGAGGTAGATCATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACCTAAAATCA
* * * * *
6313 ATTATGACATTATAAAACCATTTAAAACGAGTAATTAGGCTTTTGAAAGCATGGGTAACTATAAA
66 ATTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTAGAAGGCATGGGTGACTATAAA
* * * * * *
6378 TGGACCTTTTTTTGCCAATGAATGGGTTTTT-TGTCATGTTTCCTAAGGTAAACATTCAATTATA
131 TTGA-CTTTTCTTGCCAATGAATGGCTTTTTCT-TCATGTTTCTTGAGGTAGACATTCAATTATA
* * * * * *
6442 ATCTGTTTTAACCAAAAATGTAAAAAAATTGAACCTAATATTAATTATGAAATTATAAAACTATT
194 ATCTGTTTTAACCAAAAAT-TTAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATT
* * * * * * * * *
6507 TAAAGCAAGTGATTAGGCTTTCGAAGGCTTGGATGACTAGAAATAGACTTTTCTTGCGAATGA-A
258 TAAAGCGAGTAATAAGGCTTTC-AAAGCATGGGTGACTATAAATAGACTTTTCTTACCAATGATA
* *
6571 TGGCTTTGTCTTCACGTTTCT
322 -GACTTTTTCTTCACGTTTCT
** * * * * ** *
6592 TGACATAGAT-ATTCAGTCATAATCTATTTTCATAAAAAATGTAAAAAAATTCAACTTAAAATCA
1 TGAGGTAGATCATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACCTAAAATCA
* * * ** * * * *
6656 ATTATGTGAATATAAAACTATTTAAAGTAAGTAATAAGGTTTTCA-AAGGCTTGAGTGACTATAA
66 ATTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTT-AGAAGGCATGGGTGACTATAA
* * * * * *
6720 ATAGACTTTTCTTGCCAATTAATGGCTGTTTCTTCATGTTTCCTAAGGTAGACATCCAATTAT-A
130 ATTGACTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAA
* * ** * * *
6784 TACTGTTTTAACCAAAAATGTAAAAAAAATCAATTTAAAATCAATTATTAGACTGTAAAACCATT
195 T-CTGTTTTAACCAAAAAT-TTAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATT
* * * * * * * * * * *
6849 TAAAGTGAGTAATTAGGTTTTCGAAGGCAAGGGTGAATAATAAATAAAATTTTATTAGCAAATAA
258 TAAAGCGAGTAATAAGGCTTTC-AAAGCATGGGTGACT-ATAAATAGACTTTTCTTA-CCAATGA
* * *
6914 T-GAATTTTTCTTCACATTTCC
320 TAGACTTTTTCTTCACGTTTCT
** * * * ** * * * *
6935 CAATGCAGA-CATCCAATTATAATCTGTTTTAATTAAATATGTAAAACAATTCAACATAAAATTA
1 TGAGGTAGATCATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACCTAAAATCA
* * * * *
6999 ATTATAAGATTATAAAACCATTTAAAGCAAGTAATAAGGCCTTAGAAGGAATGGGTGACTATAAA
66 ATTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTAGAAGGCATGGGTGACTATAAA
* * * *
7064 TTGACTTTTCTTGCCAAT-AATAGCCTTTTTCTTTATGTTTCTTGAGATAAACATTCAATTATAA
131 TTGACTTTTCTTGCCAATGAAT-GGCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAA
* * * * *
7128 TCTGTTTTCACCAAAAATTTAAAAAATTCAACATAAAATCAATAATGAGATTATAAAACCATATG
195 TCTGTTTTAACCAAAAATTTAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTA
* *
7193 AAGCGAGTAATAAGGCTTTCAAAGATATGGGTGA-TCATAAATGGACTTTTCTTACCAATGATAG
260 AAGCGAGTAATAAGGCTTTCAAAG-CATGGGTGACT-ATAAATAGACTTTTCTTACCAATGATAG
* * *
7257 CCTTTTTCTTAACATTTCT
323 ACTTTTTCTTCACGTTTCT
* * *
7276 TGAGGCA-ATCATTCAATTATAATCTGTTTTAACCAAAAATGTAAACAAATTCAACCTAAAATTA
1 TGAGGTAGATCATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACCTAAAATCA
* * * * * * * *
7340 ATTTTGACATTATAATACCATTTAAAGTGAGTAATTAGGCTTTTGAAAGCATAGGTAACTATAAA
66 ATTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTAGAAGGCATGGGTGACTATAAA
* * * * * *
7405 TGTG--TGTTTCTTGTCAACGAATGACTTCTTCTTCATGTTTCCTAAGGTAGACATTCAATTATA
131 T-TGACT-TTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATA
* * * * * * * *
7468 ATCTATTTCAACCAAAAAGGTAAAAAAATTCAACCTAAAATCAATTATAAAATTATCAAACCTTT
194 ATCTGTTTTAACCAAAAA-TTTAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATT
* * * * * * ***
7533 TAAAGGGAGCAA-ATAGGCTTTTGAAGGCATGGGTAACTATTAAT-GAACTTTTCTTGTGAATGA
258 TAAAGCGAGTAATA-AGGC-TTTCAAAGCATGGGTGACTATAAATAG-ACTTTTCTTACCAATGA
**
7596 -ATGACTTTTTCCTT-TGGTTTCT
320 TA-GACTTTTT-CTTCACGTTTCT
* * * **
7618 CGAGGTAGAT--TTTAATTATAATCTGTTTTAA-CAAAACAT-AAAAAAAATTCAATATAAAATC
1 TGAGGTAGATCATTCAATTATAATCTGTTTTAACCAAAA-ATGTAAAAAAATTCAACCTAAAATC
* * * * * *
7679 AATTATGAGATTATAAAACCATTTCATGTGAGTAATAAGGATTTCA-AAGACATGGGTGACTATA
65 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTT-AGAAGGCATGGGTGACTATA
* * * **
7743 AATGGACTTTTCTTGCCAATG-ATAGCCTTTTTCTTCACGTTTCTTGAGACAGACATTCAATTAT
129 AATTGACTTTTCTTGCCAATGAAT-GGCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTAT
* ** * * * *
7807 AATCT-ATTTCCCCAAAAACGTTAAAAAATTCTACCTAAAATCAATTATGACATTATAAAATCAT
193 AATCTGTTTTAACCAAAAA-TTTAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCAT
* * * * * **
7871 TTAAAGCAAGTAATTAGGCTTTTGAAAGCATGGGTAACTATAAATGGA-TCTTTCTTACCAACAA
257 TTAAAGCGAGTAATAAGGC-TTTCAAAGCATGGGTGACTATAAATAGACT-TTTCTTACCAA-TG
*
7935 ATA-ACTTTTTCTTCACGTTTCC
319 ATAGACTTTTTCTTCACGTTTCT
* * *
7957 TGAGGTTGA-CATTCAATTATAATCTATTTTAACTAAAAATGTAAAAAAATTCAACCTAAAATCA
1 TGAGGTAGATCATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACCTAAAATCA
* * * *
8021 ATTATGAGATTATAAAACCATTTAAAGCGAGTGATTAGGCTTTTGAAGGCTTGGGTGACTAGAAA
66 ATTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTAGAAGGCATGGGTGACTATAAA
* * * *
8086 -TGAACTTTTCTTACCAATGAATGGCTTTTTCTTCACT-TTTCTTTACGTAGATATTCAATTATA
131 TTG-ACTTTTCTTGCCAATGAATGGCTTTTTCTTCA-TGTTTCTTGAGGTAGACATTCAATTATA
** * * * * * *
8149 ATCTGTTTTAATAAAAAATGTAAAAAATTCAACTTAAAATTAATTACGCGATTATATAACCATTT
194 ATCTGTTTTAACCAAAAATTTAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTT
* * * * * * ***
8214 AAAGCGTGTAATAAGACTTTCAAAGGAATGGGTGACTATTAATCGACTTTTCTTGCTGGTGA-AT
259 AAAGCGAGTAATAAGGCTTTCAAA-GCATGGGTGACTATAAATAGACTTTTCTTACCAATGATA-
* *
8278 GCCTTTTTCTTCACGTTTCC
322 GACTTTTTCTTCACGTTTCT
* * * * * *
8298 TGAGGTAGAT-ATTCAATTTTAATCTGTTTTAACAAAAAAGGTAAAAAAAATCAACTTAAAATGA
1 TGAGGTAGATCATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACCTAAAATCA
* * ** * * *
8362 ATTTTGAGATTATAAAACTATTTAAAGCGAGTAATTAGGCTTCCGAAGGCTTGAGTGATTATAAA
66 ATTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTAGAAGGCATGGGTGACTATAAA
*
8427 TGGACTTTTCTTGCCAATGAATGGCGTTTTT-TTCATGTTTCTTGAGGT
131 TTGACTTTTCTTGCCAATGAATGGC-TTTTTCTTCATGTTTCTTGAGGT
8475 NNNNNNNNNN
Statistics
Matches: 1789, Mismatches: 375, Indels: 124
0.78 0.16 0.05
Matches are distributed among these distances:
338 4 0.00
339 117 0.07
340 187 0.10
341 748 0.42
342 394 0.22
343 331 0.19
344 8 0.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.35
Consensus pattern (341 bp):
TGAGGTAGATCATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACCTAAAATCA
ATTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTAGAAGGCATGGGTGACTATAAA
TTGACTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAAT
CTGTTTTAACCAAAAATTTAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAA
AGCGAGTAATAAGGCTTTCAAAGCATGGGTGACTATAAATAGACTTTTCTTACCAATGATAGACT
TTTTCTTCACGTTTCT
Found at i:8964 original size:170 final size:171
Alignment explanation
Indices: 8722--9093 Score: 473
Period size: 170 Copynumber: 2.2 Consensus size: 171
8712 TTCCTAGGGT
* * * *
8722 AGACATTCAACTATAATATGTTTTAACTAAAAACATAAAAAAATTCAACCTAAAATCAATCACGA
1 AGACATTCAATTATAATATATTTTAACTAAAAACATAAAAAAATTCAACATAAAATCAATCACAA
* * * *
8787 GATTATAAAACCATTTGAAGTGAGTAATTACAATTTTGAAGGCATGGGTAACTATAAGTGGACTT
66 GATTATAAAACCATTTAAAGCGAGTAATTACAATTTTGAAGGCATGGGTAACTATAAATGAACTT
* * * *
8852 TT-TCCGCTAATGAATGA-TTTTTTTTTCATGTTTTTTGAGGC
131 TTCT-CGCTAATGAATGACATTTTTTTT-ATGTTTCTTAAGAC
* * * * * **
8893 AGACATCCAATTATAAT-TATTTTCACTAAAAATATAAAACAATTTAACATAAAATCAATTTCAA
1 AGACATTCAATTATAATATATTTTAACTAAAAACATAAAAAAATTCAACATAAAATCAATCACAA
**
8957 GATTATAAAACCATTTAAAGCGAGTAATTATGATTTTGAAGGCATGGGTAACTATAAATGAACTT
66 GATTATAAAACCATTTAAAGCGAGTAATTACAATTTTGAAGGCATGGGTAACTATAAATGAACTT
* *
9022 TTCTTGCTAATGAATGACATTTTTTTTATGTTTCTTAATAC
131 TTCTCGCTAATGAATGACATTTTTTTTATGTTTCTTAAGAC
* *
9063 ATACATTCAATTATAATCTATTTTAA-TAAAA
1 AGACATTCAATTATAATATATTTTAACTAAAA
9094 NNNNNNNNNN
Statistics
Matches: 172, Mismatches: 26, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
170 141 0.82
171 31 0.18
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (171 bp):
AGACATTCAATTATAATATATTTTAACTAAAAACATAAAAAAATTCAACATAAAATCAATCACAA
GATTATAAAACCATTTAAAGCGAGTAATTACAATTTTGAAGGCATGGGTAACTATAAATGAACTT
TTCTCGCTAATGAATGACATTTTTTTTATGTTTCTTAAGAC
Found at i:9480 original size:171 final size:171
Alignment explanation
Indices: 9194--11360 Score: 1915
Period size: 171 Copynumber: 12.7 Consensus size: 171
9184 NNNNNNNNNN
* *
9194 TAAAAAAATTCAATTTAAAATCAATTATGAGATTATAAAACCATTTAAA--GTG-AA--A-GCTT
1 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTT
* * * * *
9253 TCGAAGGCTTGGGTGACTATAAATGGACTTTTCTTACCAATTAATG-GTTGTTTCTTCATGTTTC
66 TCGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGACTT-TTTCTTCACGTTTC
* * *
9317 CTATGGTAGACATTCAATTATATTCTGTTTTAACCAAATATG
130 CTAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATG
* * ** * *
9359 TAAAAAAATTCAACTCAAAATCAATTATGAGACTGCAAAACCATTCAAAGCGAGTAATTAGGCGT
1 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTT
* * *
9424 TCGAAGGCATGGGTGACTATAAATGGACTTTTCATGCCAATGAATGACATTTTCTTCATGTTT-C
66 TCGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGACTTTTTCTTCACGTTTCC
* * * * *
9488 TCAAGGTTA-AAATTCAATTATAATCTGTTTCAACTAAATATA
131 T-AAGG-TAGACATTCAATTATAATCTGTTTTAACCAAAAATG
* * * * * *
9530 TAAAAAAATTCAACTTAAAATCCATTATAAGATTATTAAAGCATTTAAAGCGAGCAATAAGGC-T
1 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTT
* * * * * * * *
9594 TCTGAAAGCTTGGATGACTGTAAGTGGACTTTTCTTACCAATTAATG-GTTGTTTCTTCACGTTT
66 TC-GAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGACTT-TTTCTTCACGTTT
* * * * *
9658 CAC-ATGGTAGACATTGAATTATATTCTATTTTAACCAAATATG
129 C-CTAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATG
* * ** * *
9701 TAAAAAAAATTTAACTTAAAATCAATTATGAGACTCCAAAACCATTCAAAGCGAGTAATTAGGCA
1 T-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCT
* * * *
9766 TTCGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCTAGTGAATGACTTTCTCCTCACGTTTC
65 TTCGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGACTTTTTCTTCACGTTTC
* * * * * *
9831 CTAAGGTAAACATTCAATTATAATTTTTTTTAGCCAAATATA
130 CTAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATG
* * * * *
9873 TAAAAAAAATTGAACCTAAAATCCATTATGAGATTATAAAATCATTTAAAGAGAGTAATTAGGCT
1 T-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCT
* * * * * * ** *
9938 TTCGAGGGTATTGGTAATTATAAATGAACTTTT-TTGCCAATGAATGACTTTTTCCACACATTTC
65 TTCGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGACTTTTTCTTCACGTTTC
* * * *
10002 CCAAGGTA-AGCATTCAATTATAGTCTGTTTTAAACAAATAT-
130 CTAAGGTAGA-CATTCAATTATAATCTGTTTTAACCAAAAATG
* * * * *
10043 TTAAAAAATTCAACCTAAAATC-CTATATGAGATTATACAACCATTTAAAGCGAGTAATT-GGAT
1 TAAAAAAATTCAACTTAAAATCAAT-TATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCT
** * * * * * * *
10106 TTTAAACGCGTGGGT-AGCCATAAATGGACTTTTCTGGCCAATGAATGGCTTTTTCATCATGTTT
65 TTCGAAGGCATGGGTGA-CTATAAATGGACTTTTCTTGCCAATGAATGACTTTTTCTTCACGTTT
* *
10170 CCTAAGGCA-AGCATTCAATTATAATCTGTTTTAACCATAAATG
129 CCTAAGGTAGA-CATTCAATTATAATCTGTTTTAACCAAAAATG
** * * * * *
10213 TAAAAAAATTCAACTTATGATCAATTATGACATTATAAAACCAATTAAAGTGAGCAATTAAGCAT
1 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGC-T
* * * * *
10278 TT-GAAGGCATGGGTAACTATAAATGGA-TATTTCTTGCCAATGAATGGCCTTTTGTTCAGGTTT
65 TTCGAAGGCATGGGTGACTATAAATGGACT-TTTCTTGCCAATGAATGACTTTTTCTTCACGTTT
* * * ** *
10341 CCTTAGATAGACATTCAATTATAATATGTTTTAAAGAAAAAGG
129 CCTAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATG
* * * * ** *
10384 TAAAAAACTTCAACCTAAAATCAATTATGATATTATAAAACCGTTTAAAATGAGTGATTAGGC-T
1 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTT
* * * * * * *
10448 TCTGAAGGCTTGAGTGACTAGATATGGACTTTTCCTACCAATG-ATAGCCTTTTT-TTCACGTTT
66 TC-GAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAAT-GACTTTTTCTTCACGTTT
* * * **
10511 CTTAAGGTAGACATTCAATTATATTCTATTTTTGCCAAAAAT-
129 CCTAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATG
* * * * *
10553 TTATAAAATTCAACATAAAATCAATTATGAGATTATAAAAGCATTTAAAGCAAGTAA-TATGGCT
1 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATTA-GGCT
* ** * * * *
10617 TTCAAAGGCATGATTGACCATAAATGTACTTTTATTGCCAATGACA-GCCTTTTT-TTCACGTTT
65 TTCGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGA-ATGACTTTTTCTTCACGTTT
* * * * *
10680 CTTGAGGTAGTCATTCAATTATAATCTGTTTTAGCCAAACAA-A
129 CCTAAGGTAGACATTCAATTATAATCTGTTTTAACCAAA-AATG
* ** *
10723 T-AAAAAATTCAACTTAAAATTAATTATGAGATTATAAAACCATTTAAAGCGCA-TAAGAAAGCT
1 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCG-AGTAATTAGGCT
* * * * *
10786 TTCAAAGGCATGGGTGACTATAAATGGACTTTTCTTGTCAATGAATGTCTTTTTCTTCATGTTTT
65 TTCGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGACTTTTTCTTCACGTTTC
** * ** *
10851 CTAAGACAGACATTCAATTATAATCTGTTTTCATAAAAAACG
130 CTAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATG
* * * * * * * * *
10893 TGAAAAAATTTAACATAAAATCAATTACGAGATTACAAAACTATTTAAAGTGAGTAATTAAGATT
1 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTT
*** * ** * * **
10958 TTTTAGACATGGGCAATTATAAATGGACTTTTCTTGCCAATGAATAACTTTTTCTTCATATTTCT
66 TCGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGACTTTTTCTTCACGTTTC-
* * * * *
11023 CCAA-GCAAACATTCAATTATAATCTGTTTTAACAAAAAAGG
130 CTAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATG
* ** *
11064 TAAAAAAATGT-AACTTAAAATTAATTACAAGATTATAAAACTATTTAAAGCGAGTAATTAGGCT
1 TAAAAAAAT-TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCT
* * * * * * * * *
11128 TTCGAAGGCTTGAGTGACTA-GAATGCACTTTTGTTGTCAATGAATGATTTTTTGTTCACGATTC
65 TTCGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGACTTTTTCTTCACGTTTC
* ** * *
11192 TTGAA-GTAGTTATTCAATTACAATCTGTTTTAGCCAAAAATG
130 CT-AAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATG
* * * * * ** *
11234 T-AAACAATTCAACTTAAAATTAATCATGAGATTATAAAACCATTTAAAGTGTGTAACAAGACTT
1 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTT
* * * *
11298 TCAAAGGTATGGGTGACTATAAATGGACTTTTCTTGCCAATG-ATAATCTTTTTCTTTACGTTT
66 TCGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGA-CTTTTTCTTCACGTTT
11361 TTTGANNNNN
Statistics
Matches: 1612, Mismatches: 338, Indels: 99
0.79 0.16 0.05
Matches are distributed among these distances:
165 43 0.03
167 3 0.00
168 31 0.02
169 409 0.25
170 243 0.15
171 652 0.40
172 225 0.14
173 6 0.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (171 bp):
TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTT
TCGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGACTTTTTCTTCACGTTTCC
TAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATG
Found at i:10219 original size:340 final size:340
Alignment explanation
Indices: 9194--11360 Score: 1655
Period size: 340 Copynumber: 6.4 Consensus size: 340
9184 NNNNNNNNNN
** * *
9194 TAAAAAAATTCAATTTAAAATCAATTATGAGATTATAAAACCATTT-AA-AGTG-AA--A-GCTT
1 TAAAAAAATTCAACATAAAATCAATTATGAGATTATAAAAGCATTTAAAGAGAGTAATTAGGCTT
* * * * * *
9253 TCGAAGGC-TTGGGTGACTATAAATGGACTTTTCTTACCAATTAATG-GTTGTTTCTTCATGTTT
66 TCGAAGGCATT-GGTAACTATAAATGAACTTTTCTTGCCAATGAATGACTT-TTTCTTCACGTTT
* * * * *
9316 CCTATGGTAGACATTCAATTATATTCTGTTTTAACCAAATATGTAAAAAAATTCAA-CTCAAAAT
129 CCCAAGGTAGACATTCAATTATAATCTGTTTTAAACAAATAT-TTAAAAAATTCAACCT-AAAAT
* ** * *
9380 CAATTATGAGACTGCAAAACCATTCAAAGCGAGTAATTAGGCGTTCGAAGGCATGGGTGACTATA
192 CAATTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACTATA
* * *
9445 AATGGACTTTTCATGCCAATGAATGACATTTTCTTCATGTTT-CTCAAGGTTAA-AATTCAATTA
257 AATGGACTTTTC-TGCCAATGAATGACTTTTTCTTCATGTTTCCT-AAGG-CAAGCATTCAATTA
* * *
9508 TAATCTGTTTCAACTAAATATA
319 TAATCTGTTTTAACCAAAAATA
* * * * * * *
9530 TAAAAAAATTCAACTTAAAATCCATTATAAGATTATTAAAGCATTTAAAGCGAGCAATAAGGC-T
1 TAAAAAAATTCAACATAAAATCAATTATGAGATTATAAAAGCATTTAAAGAGAGTAATTAGGCTT
* * * * * * * *
9594 TCTGAAAGC-TTGGATGACTGTAAGTGGACTTTTCTTACCAATTAATG-GTTGTTTCTTCACGTT
66 TC-GAAGGCATTGG-TAACTATAAATGAACTTTTCTTGCCAATGAATGACTT-TTTCTTCACGTT
* * * * * * * * *
9657 TCACATGGTAGACATTGAATTATATTCTATTTTAACCAAATATGTAAAAAAAATTTAACTTAAAA
128 TCCCAAGGTAGACATTCAATTATAATCTGTTTTAAACAAATAT-T-TAAAAAATTCAACCTAAAA
* ** * *
9722 TCAATTATGAGACTCCAAAACCATTCAAAGCGAGTAATTAGGCATTCGAAGGCATGGGTGACTAT
191 TCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACTAT
* * * * * * *
9787 AAATGGACTTTTCTTGCTAGTGAATGACTTTCTCCTCACGTTTCCTAAGGTAAACATTCAATTAT
256 AAATGGACTTTTC-TGCCAATGAATGACTTTTTCTTCATGTTTCCTAAGGCAAGCATTCAATTAT
* * * *
9852 AATTTTTTTTAGCCAAATATA
320 AATCTGTTTTAACCAAAAATA
* * * *
9873 TAAAAAAAATTGAACCTAAAATCCATTATGAGATTATAAAATCATTTAAAGAGAGTAATTAGGCT
1 T-AAAAAAATTCAACATAAAATCAATTATGAGATTATAAAAGCATTTAAAGAGAGTAATTAGGCT
* * * ** *
9938 TTCGAGGGTATTGGTAATTATAAATGAACTTTT-TTGCCAATGAATGACTTTTTCCACACATTTC
65 TTCGAAGGCATTGGTAACTATAAATGAACTTTTCTTGCCAATGAATGACTTTTTCTTCACGTTTC
*
10002 CCAAGGTA-AGCATTCAATTATAGTCTGTTTTAAACAAATATTTAAAAAATTCAACCTAAAATC-
130 CCAAGGTAGA-CATTCAATTATAATCTGTTTTAAACAAATATTTAAAAAATTCAACCTAAAATCA
* * * ** * * *
10065 CTATATGAGATTATACAACCATTTAAAGCGAGTAATT-GGATTTTAAACGCGTGGGT-AGCCATA
194 AT-TATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGA-CTATA
* *
10128 AATGGACTTTTCTGGCCAATGAATGGCTTTTTCATCATGTTTCCTAAGGCAAGCATTCAATTATA
257 AATGGACTTTTCT-GCCAATGAATGACTTTTTCTTCATGTTTCCTAAGGCAAGCATTCAATTATA
* *
10193 ATCTGTTTTAACCATAAATG
321 ATCTGTTTTAACCAAAAATA
* ** * * * * * *
10213 TAAAAAAATTCAACTTATGATCAATTATGACATTATAAAACCAATTAAAGTGAGCAATTAAGCAT
1 TAAAAAAATTCAACATAAAATCAATTATGAGATTATAAAAGCATTTAAAGAGAGTAATTAGGC-T
* * * * * *
10278 TT-GAAGGCATGGGTAACTATAAATGGA-TATTTCTTGCCAATGAATGGCCTTTTGTTCAGGTTT
65 TTCGAAGGCATTGGTAACTATAAATGAACT-TTTCTTGCCAATGAATGACTTTTTCTTCACGTTT
** * * * * **
10341 CCTTAGATAGACATTCAATTATAATATGTTTTAAAGAAAAAGGTAAAAAACTTCAACCTAAAATC
129 CCCAAGGTAGACATTCAATTATAATCTGTTTTAAACAAATATTTAAAAAA-TTCAACCTAAAATC
* * ** * * * *
10406 AATTATGATATTATAAAACCGTTTAAAATGAGTGATTAGGC-TTCTGAAGGCTTGAGTGACTAGA
193 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTC-GAAGGCATGGGTGACTATA
* * * * * *
10470 TATGGACTTTTCCTACCAATG-ATAGCCTTTTT-TTCACGTTTCTTAAGG-TAGACATTCAATTA
257 AATGGACTTTT-CTGCCAATGAAT-GACTTTTTCTTCATGTTTCCTAAGGCAAG-CATTCAATTA
* * **
10532 TATTCTATTTTTGCCAAAAAT-
319 TAATCTGTTTTAACCAAAAATA
* *
10553 TTATAAAATTCAACATAAAATCAATTATGAGATTATAAAAGCATTTAAAGCA-AGTAA-TATGGC
1 TAAAAAAATTCAACATAAAATCAATTATGAGATTATAAAAGCATTTAAAG-AGAGTAATTA-GGC
* * * * * * *
10616 TTTCAAAGGCA-TGATTGACCATAAATGTACTTTTATTGCCAATGACA-GCCTTTTT-TTCACGT
64 TTTCGAAGGCATTG-GTAACTATAAATGAACTTTTCTTGCCAATGA-ATGACTTTTTCTTCACGT
*** * ** * ** *
10678 TTCTTGAGGTAGTCATTCAATTATAATCTGTTTTAGCCAAACAAATAAAAAATTCAACTTAAAAT
127 TTCCCAAGGTAGACATTCAATTATAATCTGTTTTAAACAAATATTTAAAAAATTCAACCTAAAAT
* ** * *
10743 TAATTATGAGATTATAAAACCATTTAAAGCGCA-TAAGAAAGCTTTCAAAGGCATGGGTGACTAT
192 CAATTATGAGATTATAAAACCATTTAAAGCG-AGTAATTAGGCTTTCGAAGGCATGGGTGACTAT
* * * *
10807 AAATGGACTTTTCTTGTCAATGAATGTCTTTTTCTTCATGTTTTCTAAGAC-AGACATTCAATTA
256 AAATGGACTTTTC-TGCCAATGAATGACTTTTTCTTCATGTTTCCTAAGGCAAG-CATTCAATTA
* ** **
10871 TAATCTGTTTTCATAAAAAACG
319 TAATCTGTTTTAACCAAAAATA
* * * * * * *
10893 TGAAAAAATTTAACATAAAATCAATTACGAGATTACAAAA-CTATTTAAAGTGAGTAATTAAGAT
1 TAAAAAAATTCAACATAAAATCAATTATGAGATTATAAAAGC-ATTTAAAGAGAGTAATTAGGCT
*** * * * * * * **
10957 TTTTTAGACATGGGCAATTATAAATGGACTTTTCTTGCCAATGAATAACTTTTTCTTCATATTTC
65 TTCGAAGGCATTGGTAACTATAAATGAACTTTTCTTGCCAATGAATGACTTTTTCTTCACGTTTC
* * * * * *
11022 TCCAA-GCAAACATTCAATTATAATCTGTTTT-AACAAAAAAGGTAAAAAAATGT-AACTTAAAA
130 -CCAAGGTAGACATTCAATTATAATCTGTTTTAAAC-AAATA-TTTAAAAAAT-TCAACCTAAAA
* ** * * *
11084 TTAATTACAAGATTATAAAACTATTTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGAGTGACTA-
191 TCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACTAT
* * * * * * * * * * *
11148 GAATGCACTTTTGTTGTCAATGAATGATTTTTTGTTCACGATTCTTGAA-G-TAGTTATTCAATT
256 AAATGGACTTTT-CTGCCAATGAATGACTTTTTCTTCATGTTTCCT-AAGGCAAG-CATTCAATT
* * *
11211 ACAATCTGTTTTAGCCAAAAATG
318 ATAATCTGTTTTAACCAAAAATA
* * * * * * * ** *
11234 T-AAACAATTCAACTTAAAATTAATCATGAGATTATAAAACCATTTAAAGTGTGTAACAAGACTT
1 TAAAAAAATTCAACATAAAATCAATTATGAGATTATAAAAGCATTTAAAGAGAGTAATTAGGCTT
* * * * * * *
11298 TCAAAGGTATGGGTGACTATAAATGGACTTTTCTTGCCAATG-ATAATCTTTTTCTTTACGTTT
66 TCGAAGGCATTGGTAACTATAAATGAACTTTTCTTGCCAATGAATGA-CTTTTTCTTCACGTTT
11361 TTTGANNNNN
Statistics
Matches: 1472, Mismatches: 298, Indels: 118
0.78 0.16 0.06
Matches are distributed among these distances:
336 41 0.03
337 3 0.00
338 84 0.06
339 182 0.12
340 421 0.29
341 244 0.17
342 210 0.14
343 204 0.14
344 76 0.05
345 7 0.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (340 bp):
TAAAAAAATTCAACATAAAATCAATTATGAGATTATAAAAGCATTTAAAGAGAGTAATTAGGCTT
TCGAAGGCATTGGTAACTATAAATGAACTTTTCTTGCCAATGAATGACTTTTTCTTCACGTTTCC
CAAGGTAGACATTCAATTATAATCTGTTTTAAACAAATATTTAAAAAATTCAACCTAAAATCAAT
TATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACTATAAATG
GACTTTTCTGCCAATGAATGACTTTTTCTTCATGTTTCCTAAGGCAAGCATTCAATTATAATCTG
TTTTAACCAAAAATA
Found at i:10981 original size:680 final size:668
Alignment explanation
Indices: 9197--11360 Score: 1987
Period size: 680 Copynumber: 3.2 Consensus size: 668
9187 NNNNNNNTAA
* * *
9197 AAAAATTCAATTTAAAATCAATTATGAGATTATAAAACCATTTAAAG-TG-AA-A--GCTTTCGA
1 AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGAAGTAATATGGCTTTCAA
* * * * *
9257 AGGCTTGGGTGACTATAAATGGACTTTTCTTACCAATTAATGGTTGTTTCTTCATGTTTCCTATG
66 AGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCTT-TTTCTTCACGTTTCCTA-G
* * * *
9322 GTAGACATTCAATTATATTCTGTTTTAACCAAATATGTAAAAAAATTCAACTCAAAATCAATTAT
129 GTAG-CATTCAATTATAATCTGTTTTAACCAAATATAT-AAAAAATTCAACTTAAAATTAATTAT
* ** * * *
9387 GAGACTGCAAAACCATTCAAAGCGAGTAATTAGGCGTTCGAAGGCATGGGTGACTATAAATGGAC
192 GAGATTATAAAACCATTTAAAGCGAGTAA-TAGGCTTTCAAAGGCATGGGTGACTATAAATGGAC
* * ** *
9452 TTTTCATGCCAATGAATGACATTTTCTTCATG-TTTCTCAAGGTTAAAATTCAATTATAATCTG-
256 TTTTCTTGCCAATGAATGACTTTTTCTTCATGTTTTCT-AA-GACAACATTCAATTATAATCTGT
* * * *
9515 TTTCAACTAAATATA-TAAAAAAATTCAACTTAAAATCCATTATAAGATTATTAAAGCATTTAAA
319 TTTC-A-TAAA-AAAGTAAAAAAATTCAACTTAAAATCAATTATGAGATTA-TAAAACATTTAAA
* * * * * * * * * *
9579 GCGAGCAA-TAAGGCTTCTGAA-AGCTTGGATGACTGTAAGTGGACTTTTCTTACCAATTAATGG
380 GTGAGCAATTAA-GATT-TTAAGA-CATGGGTAACTATAAATGGACTTTTCTTGCCAATGAATGG
* * * * * * *
9642 -TTGTTTCTTCACGTTTCACAT-GGTAGACATTGAATTATATTCTATTTTAACCAAATATGTAAA
442 CTT-TTTCTTCACGTTTCACATAGATAGACATTCAATTATAATCTGTTTTAA-AAAAAAGGT-AA
* ** *
9705 AAAAATTTAACTTAAAATCAATTATGAGACTCCAAAACCATTCAAAGCGAGTAATTAGGCATTC-
504 AAAAA-TTAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGC-TTCT
* * * * * ** *
9769 GAAGGCATGGGTGACTATAAATGGACTTTTCTTGCTAGTGAATGACTTTCTCCTCACGTTTCCTA
567 GAAGGCTTGAGTGACTA-GAATGGACTTTTCTTGCCAATGAATGACTTT-TTTTCACGTTTCTTA
* *
9834 AGGTAAACATTCAATTATAATT-TTTTTTAGCCAAATATATAAA
630 AGGTAGACATTCAATTAT-ATTCTTTTTT-GCCAAA-A-AT-AT
* * * *
9877 AAAAATTGAACCTAAAATCCATTATGAGATTATAAAATCATTTAAAGAGAGTAAT-TAGGCTTTC
1 AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGA-AGTAATAT-GGCTTTC
* * * * * * * ** * *
9941 GAGGGTATTGGTAATTATAAATGAACTTTT-TTGCCAATGAATGACTTTTTCCACACATTTCCCA
64 AAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATG-CTTTTTCTTCACGTTT-CCT
* * * *
10005 AGGTAAGCATTCAATTATAGTCTGTTTTAAACAAATATTTAAAAAATTCAACCTAAAATCCT-A-
127 AGGT-AGCATTCAATTATAATCTGTTTTAACCAAATATATAAAAAATTCAACTTAAAAT--TAAT
* * * * * * *
10068 TATGAGATTATACAACCATTTAAAGCGAGTAATTGGATTTTAAACGCGTGGGT-AGCCATAAATG
189 TATGAGATTATAAAACCATTTAAAGCGAGTAATAGGCTTTCAAAGGCATGGGTGA-CTATAAATG
* * * * *
10132 GACTTTTCTGGCCAATGAATGGCTTTTTCATCATGTTTCCTAAGGCAAGCATTCAATTATAATCT
253 GACTTTTCTTGCCAATGAATGACTTTTTCTTCATGTTTTCTAAGACAA-CATTCAATTATAATCT
* * * * ** * *
10197 GTTTTAACCATAAATGTAAAAAAATTCAACTTATGATCAATTATGACATTATAAAACCAATTAAA
317 GTTTTCA-TAAAAAAGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA-CATTTAAA
* *
10262 GTGAGCAATTAAGCATTTGAAGGCATGGGTAACTATAAATGGA-TATTTCTTGCCAATGAATGGC
380 GTGAGCAATTAAG-ATTTTAAGACATGGGTAACTATAAATGGACT-TTTCTTGCCAATGAATGGC
* * * * *
10326 CTTTTGTTCAGGTTTC-CTTAGATAGACATTCAATTATAATATGTTTTAAAGAAAAAGGTAAAAA
443 TTTTTCTTCACGTTTCACATAGATAGACATTCAATTATAATCTGTTTTAAA-AAAAAGGTAAAAA
* * * * ** *
10390 ACTTCAACCTAAAATCAATTATGATATTATAAAACCGTTTAAAATGAGTGATTAGGCTTCTGAAG
507 AATT-AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTCTGAAG
* * *
10455 GCTTGAGTGACTAGATATGGACTTTTCCTACCAATG-ATAGCCTTTTTTTCACGTTTCTTAAGGT
571 GCTTGAGTGACTAGA-ATGGACTTTTCTTGCCAATGAAT-GACTTTTTTTCACGTTTCTTAAGGT
*
10519 AGACATTCAATTATATTCTATTTTTGCCAAAAATTT
634 AGACATTCAATTATATTCT-TTTTTGCCAAAAATAT
* *
10555 ATAAAATTCAACATAAAATCAATTATGAGATTATAAAAGCATTTAAAGCAAGTAATATGGCTTTC
1 A-AAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG-AAGTAATATGGCTTTC
** * * * *
10620 AAAGGCATGATTGACCATAAATGTACTTTTATTGCCAATGACA-GCCTTTTT-TTCACGTTTCTT
64 AAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGA-ATG-CTTTTTCTTCACGTTTCCT
* * *
10683 GAGGTAGTCATTCAATTATAATCTGTTTTAGCCAAACAAATAAAAAATTCAACTTAAAATTAATT
127 -AGGTAG-CATTCAATTATAATCTGTTTTAACCAAATATATAAAAAATTCAACTTAAAATTAATT
* *
10748 ATGAGATTATAAAACCATTTAAAGCGCA-TAAGAAAGCTTTCAAAGGCATGGGTGACTATAAATG
190 ATGAGATTATAAAACCATTTAAAGCG-AGTAA-TAGGCTTTCAAAGGCATGGGTGACTATAAATG
* *
10812 GACTTTTCTTGTCAATGAATGTCTTTTTCTTCATGTTTTCTAAGACAGACATTCAATTATAATCT
253 GACTTTTCTTGCCAATGAATGACTTTTTCTTCATGTTTTCTAAGACA-ACATTCAATTATAATCT
* * * * *
10877 GTTTTCATAAAAAACGTGAAAAAATTTAACATAAAATCAATTACGAGATTACAAAACTATTTAAA
317 GTTTTCATAAAAAA-GTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAC-ATTTAAA
* * * * **
10942 GTGAGTAATTAAGATTTTTTAGACATGGGCAATTATAAATGGACTTTTCTTGCCAATGAATAACT
380 GTGAGCAATTAAGA-TTTTAAGACATGGGTAACTATAAATGGACTTTTCTTGCCAATGAATGGCT
** *
11007 TTTTCTTCATATTTCTCCA-AGCA-A-ACATTCAATTATAATCTGTTTTAACAAAAAAGGTAAAA
444 TTTTCTTCACGTTTC-ACATAG-ATAGACATTCAATTATAATCTGTTTTAA-AAAAAAGGTAAAA
* ** *
11069 AAATGTAACTTAAAATTAATTACAAGATTATAAAACTATTTAAAGCGAGTAATTAGGCTT-TCGA
506 AAAT-TAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTCT-GA
* * * * *
11133 AGGCTTGAGTGACTAGAATGCACTTTTGTTGTCAATGAATGATTTTTTGTTCACGATTCTTGAA-
569 AGGCTTGAGTGACTAGAATGGACTTTTCTTGCCAATGAATGACTTTTT-TTCACGTTTCTT-AAG
** * * * *
11197 GTAGTTATTCAATTACAATCTGTTTTAGCCAAAAATGT
632 GTAGACATTCAATTATATTCT-TTTTTGCCAAAAATAT
* * ** * * *
11235 AAACAATTCAACTTAAAATTAATCATGAGATTATAAAACCATTTAAAGTGTGTAACAAGACTTTC
1 AAA-AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG-AAGTAATATGGCTTTC
* *
11300 AAAGGTATGGGTGACTATAAATGGACTTTTCTTGCCAATGATAAT-CTTTTTCTTTACGTTT
64 AAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATG--AATGCTTTTTCTTCACGTTT
11361 TTTGANNNNN
Statistics
Matches: 1202, Mismatches: 220, Indels: 123
0.78 0.14 0.08
Matches are distributed among these distances:
677 1 0.00
678 5 0.00
679 191 0.16
680 491 0.41
681 64 0.05
682 105 0.09
683 198 0.16
684 57 0.05
685 54 0.04
686 36 0.03
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (668 bp):
AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGAAGTAATATGGCTTTCAA
AGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCTTTTTCTTCACGTTTCCTAGGT
AGCATTCAATTATAATCTGTTTTAACCAAATATATAAAAAATTCAACTTAAAATTAATTATGAGA
TTATAAAACCATTTAAAGCGAGTAATAGGCTTTCAAAGGCATGGGTGACTATAAATGGACTTTTC
TTGCCAATGAATGACTTTTTCTTCATGTTTTCTAAGACAACATTCAATTATAATCTGTTTTCATA
AAAAAGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACATTTAAAGTGAGCAATTA
AGATTTTAAGACATGGGTAACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCACGT
TTCACATAGATAGACATTCAATTATAATCTGTTTTAAAAAAAAGGTAAAAAAATTAACTTAAAAT
CAATTATGAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTCTGAAGGCTTGAGTGACTAGA
ATGGACTTTTCTTGCCAATGAATGACTTTTTTTCACGTTTCTTAAGGTAGACATTCAATTATATT
CTTTTTTGCCAAAAATAT
Found at i:11273 original size:511 final size:508
Alignment explanation
Indices: 9194--11353 Score: 1940
Period size: 511 Copynumber: 4.2 Consensus size: 508
9184 NNNNNNNNNN
*
9194 TAAAAAAATTCAATTTAAAATCAATTATGAGATTATAAAACCATTTAAA--G-T--GAAAGCTTT
1 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGATAAGAAAGCTTT
* * * *
9254 CGAAGGCTTGGGTGACTATAAATGGACTTTTCTTACCAATTAATGGT-TGTTTCTTCATGTTTCC
66 CGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAAT-GTCTTTTTCTTCATGTTTCC
* * * * *
9318 TATGGTAGACATTCAATTATATTCTGTTTTAACCAAATATGTAAAAAAATTCAA-CTCAAAATCA
130 TAAGATAGACATTCAATTATAATCTGTTTT-ACAAAAAATGTAAAAAAATTCAACCT-AAAATCA
* * * * * * * *
9382 ATTATGAGACTGCAAAACCATTCAAAGCGAGTAATTAGGCGTTCGAAGGCATGGGTGACTATAAA
193 ATTATGAGATTACAAAACCATTTAAAGTGAGTAATTAAGCTTTTGAAGGCATGGGTAACTATAAA
* * * **
9447 TGGACTTTTCATGCCAATGAATGACATTTTCTTCATGTTTCTCAAGGTTAAA-ATTCAATTATAA
258 TGGACTTTTCTTGCCAATGAATAACTTTTTCTTCACATTTCTCAAGG-TAAACATTCAATTATAA
* * * * *
9511 TCTGTTTCAACTAAATATATAAAAAAATTCAACTTAAAATCCATTATAAGATTATTAAAGCATTT
322 TCTGTTTTAACAAAAAAT-TAAAAAAATTCAACTTAAAATCAATTATAAGATTA-TAAAACATTT
* * * * * * *
9576 AAAGCGAGCAATAAGGCTTCTGAAA-GCTTG-GATGACTGTAAGTGGACTTTTCTTACCAATTAA
385 AAAGCGAGTAATTAGGCTT-TCAAAGGCTTGAG-TGAC-ATAAATGGACTTTTCTTGCCAATGAA
* * * * * *
9639 TGG-TTGTTTCTTCACGTTTCACATG--GTAGACATTGAATTATATTCTATTTTAACCAAATATG
447 TGGCTT-TTTCTTCACGTTT--CTTGAAGTAGTCATTCAATTATAATCTGTTTTAACCAAAAATG
* * ** * ** * *
9701 TAAAAAAAATTTAACTTAAAATCAATTATGAGACTCCAAAACCATTCAAAGCGAGTAATTAGGCA
1 T-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGA-TAAGAAAGCT
* * * * * *
9766 TTCGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCTAGTGAATGACTTTCTCCTCACGTTTC
64 TTCGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTTCATGTTTC
* * * * * * * *
9831 CTAAGGTAAACATTCAATTATAATTTTTTTTAGCCAAATATATAAAAAAAATTGAACCTAAAATC
129 CTAAGATAGACATTCAATTATAATCTGTTTTA-CAAAAAATGT-AAAAAAATTCAACCTAAAATC
* * * * * * * * * *
9896 CATTATGAGATTATAAAATCATTTAAAGAGAGTAATTAGGCTTTCGAGGGTATTGGTAATTATAA
192 AATTATGAGATTACAAAACCATTTAAAGTGAGTAATTAAGCTTTTGAAGGCATGGGTAACTATAA
* * ** * * *
9961 ATGAACTTTT-TTGCCAATGAATGACTTTTTCCACACATTTCCCAAGGTAAGCATTCAATTATAG
257 ATGGACTTTTCTTGCCAATGAATAACTTTTTCTTCACATTTCTCAAGGTAAACATTCAATTATAA
* * * * * *
10025 TCTGTTTTAA-ACAAATATTTAAAAAATTCAACCTAAAATC-CTATATGAGATTATACAACCATT
322 TCTGTTTTAACA-AAAAATTAAAAAAATTCAACTTAAAATCAAT-TATAAGATTATA-AAACATT
* * * * * * *
10088 TAAAGCGAGTAATT-GGATTTTAAACGCGTGGGTAGCCATAAATGGACTTTTCTGGCCAATGAAT
384 TAAAGCGAGTAATTAGGCTTTCAAAGGCTTGAGT-GACATAAATGGACTTTTCTTGCCAATGAAT
* * * * *
10152 GGCTTTTTCATCATGTTTCCT-AAGGCAAG-CATTCAATTATAATCTGTTTTAACCATAAATG
448 GGCTTTTTCTTCACGTTTCTTGAA-G-TAGTCATTCAATTATAATCTGTTTTAACCAAAAATG
** * * * * **
10213 TAAAAAAATTCAACTTATGATCAATTATGACATTATAAAACCAATTAAAGTGAGCAATTAAGCAT
1 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGA-TAAGAAAGC-T
* * * * *
10278 TT-GAAGGCATGGGTAACTATAAATGGA-TATTTCTTGCCAATGAATGGCCTTTTGTTCAGGTTT
64 TTCGAAGGCATGGGTGACTATAAATGGACT-TTTCTTGCCAATGAATGTCTTTTTCTTCATGTTT
* * * * *
10341 CCTTAGATAGACATTCAATTATAATATGTTTTAAAGAAAAAGGTAAAAAACTTCAACCTAAAATC
128 CCTAAGATAGACATTCAATTATAATCTGTTTTACA-AAAAATGTAAAAAAATTCAACCTAAAATC
* * * * * * * * * * * *
10406 AATTATGATATTATAAAACCGTTTAAAATGAGTGATTAGGCTTCTGAAGGCTTGAGTGACTAGAT
192 AATTATGAGATTACAAAACCATTTAAAGTGAGTAATTAAGCTTTTGAAGGCATGGGTAACTATAA
* * * * * *
10471 ATGGACTTTTCCTACCAATG-ATAGCCTTTTT-TTCACGTTTCTTAAGGTAGACATTCAATTATA
257 ATGGACTTTTCTTGCCAATGAATA-ACTTTTTCTTCACATTTCTCAAGGTAAACATTCAATTATA
* * ** * * * * *
10534 TTCTATTTTTGCCAAAAATTTATAAAATTCAACATAAAATCAATTATGAGATTATAAAAGCATTT
321 ATCTGTTTTAACAAAAAATTAAAAAAATTCAACTTAAAATCAATTATAAGATTATAAAA-CATTT
* * * * *
10599 AAAGCAAGTAA-TATGGCTTTCAAAGGCATGATTGACCATAAATGTACTTTTATTGCCAATGACA
385 AAAGCGAGTAATTA-GGCTTTCAAAGGCTTGAGTGA-CATAAATGGACTTTTCTTGCCAATGA-A
* * * *
10663 -GCCTTTTT-TTCACGTTTCTTGAGGTAGTCATTCAATTATAATCTGTTTTAGCCAAACAA-A
447 TGGCTTTTTCTTCACGTTTCTTGAAGTAGTCATTCAATTATAATCTGTTTTAACCAAA-AATG
*
10723 T-AAAAAATTCAACTTAAAATTAATTATGAGATTATAAAACCATTTAAAGCGCATAAGAAAGCTT
1 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCG-ATAAGAAAGCTT
* * *
10787 TCAAAGGCATGGGTGACTATAAATGGACTTTTCTTGTCAATGAATGTCTTTTTCTTCATGTTTTC
65 TCGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTTCATGTTTCC
* * * * * *
10852 TAAGACAGACATTCAATTATAATCTGTTTTCATAAAAAACGTGAAAAAATTTAACATAAAATCAA
130 TAAGATAGACATTCAATTATAATCTGTTTT-ACAAAAAATGTAAAAAAATTCAACCTAAAATCAA
* * * ** * * *
10917 TTACGAGATTACAAAACTATTTAAAGTGAGTAATTAAGATTTTTTAGACATGGGCAATTATAAAT
194 TTATGAGATTACAAAACCATTTAAAGTGAGTAATTAAGCTTTTGAAGGCATGGGTAACTATAAAT
* *
10982 GGACTTTTCTTGCCAATGAATAACTTTTTCTTCATATTTCTCCAA-GCAAACATTCAATTATAAT
259 GGACTTTTCTTGCCAATGAATAACTTTTTCTTCACATTTCT-CAAGGTAAACATTCAATTATAAT
* * *
11046 CTGTTTTAACAAAAAAGGTAAAAAAATGT-AACTTAAAATTAATTACAAGATTATAAAACTATTT
323 CTGTTTTAACAAAAAA-TTAAAAAAAT-TCAACTTAAAATCAATTATAAGATTATAAAAC-ATTT
* * * *
11110 AAAGCGAGTAATTAGGCTTTCGAAGGCTTGAGTGAC-TAGAATGCACTTTTGTTGTCAATGAATG
385 AAAGCGAGTAATTAGGCTTTCAAAGGCTTGAGTGACATA-AATGGACTTTTCTTGCCAATGAATG
** * * * * *
11174 ATTTTTTGTTCACGATTCTTGAAGTAGTTATTCAATTACAATCTGTTTTAGCCAAAAATG
449 GCTTTTTCTTCACGTTTCTTGAAGTAGTCATTCAATTATAATCTGTTTTAACCAAAAATG
* * * * * *
11234 T-AAACAATTCAACTTAAAATTAATCATGAGATTATAAAACCATTTAAAGTGTGTAA-CAAGACT
1 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCG-ATAAGAAAG-CT
* * *
11297 TTCAAAGGTATGGGTGACTATAAATGGACTTTTCTTGCCAATG-ATAATCTTTTTCTT
64 TTCGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAAT-GTCTTTTTCTT
11354 TACGTTTTTT
Statistics
Matches: 1338, Mismatches: 260, Indels: 106
0.79 0.15 0.06
Matches are distributed among these distances:
507 1 0.00
508 45 0.03
509 231 0.17
510 281 0.21
511 411 0.31
512 83 0.06
513 59 0.04
514 147 0.11
515 78 0.06
516 2 0.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (508 bp):
TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGATAAGAAAGCTTT
CGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTTCATGTTTCCT
AAGATAGACATTCAATTATAATCTGTTTTACAAAAAATGTAAAAAAATTCAACCTAAAATCAATT
ATGAGATTACAAAACCATTTAAAGTGAGTAATTAAGCTTTTGAAGGCATGGGTAACTATAAATGG
ACTTTTCTTGCCAATGAATAACTTTTTCTTCACATTTCTCAAGGTAAACATTCAATTATAATCTG
TTTTAACAAAAAATTAAAAAAATTCAACTTAAAATCAATTATAAGATTATAAAACATTTAAAGCG
AGTAATTAGGCTTTCAAAGGCTTGAGTGACATAAATGGACTTTTCTTGCCAATGAATGGCTTTTT
CTTCACGTTTCTTGAAGTAGTCATTCAATTATAATCTGTTTTAACCAAAAATG
Found at i:12200 original size:171 final size:172
Alignment explanation
Indices: 11967--12341 Score: 409
Period size: 171 Copynumber: 2.2 Consensus size: 172
11957 AATAAGGGTT
* * * * * *
11967 GAGATTATAAAATCATTTGAAGCGCGTAATAAGGGTTTTAAAGGTATGGTTGACTATAAATGGAC
1 GAGATTATAAAATCATTTGAAGCGAGTAATAACGATTTTAAAGGCATGGTTAAATATAAATGGAC
* * ** * * *
12032 TTTTGTTTTCAATGACAGCCTTTTTTC-TCATGTTT-TCCAACGTAAACAATCAATTATAATCTA
66 TTTTCTTGTCAATGA-AAACTTTTTTCTTAACGTTTCT-CAACGCAAACAATCAATTATAATCTA
* * *
12095 TTTTCACC-TAAAACG-GAAAACAATTCAGCCTAAAATCAATTAC
129 TTTTAACCAT-AAACGTAAAAACAATTCAACCTAAAATCAATTAC
* * *
12138 GAGATTATAAAACCATTTGAAGCGAGTAATTACGATTTTGAAGGCATAGG-TAAATATAAATGGA
1 GAGATTATAAAATCATTTGAAGCGAGTAATAACGATTTTAAAGGCAT-GGTTAAATATAAATGGA
* * * * * *
12202 TTTTTCTTGTCCATGAAAACTTTTTTCTTAACGTTTCTCAAGGCATACATTCAATTATAATCTGT
65 CTTTTCTTGTCAATGAAAACTTTTTTCTTAACGTTTCTCAACGCAAACAATCAATTATAATCTAT
* *
12267 TTTAACCATAAATGTAAAAACAATTCAACCTAAAATCAATTAT
130 TTTAACCATAAACGTAAAAACAATTCAACCTAAAATCAATTAC
** *
12310 GTCATTATAAAATCATTTAAAGCGAGTAATAA
1 GAGATTATAAAATCATTTGAAGCGAGTAATAA
12342 GGCTTTCAAA
Statistics
Matches: 167, Mismatches: 32, Indels: 9
0.80 0.15 0.04
Matches are distributed among these distances:
170 9 0.05
171 102 0.61
172 56 0.34
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (172 bp):
GAGATTATAAAATCATTTGAAGCGAGTAATAACGATTTTAAAGGCATGGTTAAATATAAATGGAC
TTTTCTTGTCAATGAAAACTTTTTTCTTAACGTTTCTCAACGCAAACAATCAATTATAATCTATT
TTAACCATAAACGTAAAAACAATTCAACCTAAAATCAATTAC
Done.