Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018398761.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_2044.0, 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: 19955
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.31
Warning! 2518 characters in sequence are not A, C, G, or T
Found at i:317 original size:171 final size:170
Alignment explanation
Indices: 1--3944 Score: 2920
Period size: 171 Copynumber: 23.1 Consensus size: 170
* * * *
1 TAAAGCGAGTAATAATGCTTTCTAAGG-TATGGGTGACTATAAATAGACTTTTCTCT-CCAATGG
1 TAAAGCGAGTAATAAGGCTTTCGAAGGCT-TGGGTGACTATAAATGGACTTTTCT-TGCCAATGA
** ** * * * * * * *
64 ATCACTTTCACTTCATGTTTACT-GAGGTAAACATTCAATTATAATCTAATTTAACCAATAATTT
64 ATGGCTTTTTCTTCATGGTT-CTCAAGGTAAACATTCAATTATAATATATTTTAACTAAAAATAT
* *
128 AAAAATATTCAACTTAAAATCAATTATAAGATTTTAAAACCATT
128 AAAAA-ATTCAACTTAAAATCAATTATGAGATTATAAAACCATT
* ** * * * *
172 TAAAGCAAACAATAAGGTTTTTGAAGGCTTCGGTGACTGTAAATGGACTTTTCTTGCCAATGAAT
1 TAAAGCGAGTAATAAGGCTTTCGAAGGCTTGGGTGACTATAAATGGACTTTTCTTGCCAATGAAT
* * *
237 GGCTTATTCTTCATGGTTCTCATA-GCAGACATTCAATTATAATATATTTTAACTAAAAATATAA
66 GGCTTTTTCTTCATGGTTCTCA-AGGTAAACATTCAATTATAATATATTTTAACTAAAAATATAA
* *
301 AAACATTCATCTTAAAATTAATTATGAGATTATAAAACCATT
130 AAA-ATTCAACTTAAAATCAATTATGAGATTATAAAACCATT
* * * *
343 TAAAACTAGTAATAAGGCTTTCGAAAGCTT-GGTCGACTATAAATGGACTTTTTTTTGCCAATGA
1 TAAAGCGAGTAATAAGGCTTTCGAAGGCTTGGGT-GACTATAAATGGAC-TTTTCTTGCCAATGA
* * *** ** * *
407 ATGACTTTTTCTTGACCTTTCTTGAGGTAAACATTTAATTATAATATGTTTTAACTAAAAATATA
64 ATGGCTTTTTCTTCATGGTTCTCAAGGTAAACATTCAATTATAATATATTTTAACTAAAAATATA
* * * *
472 AAAACATTTAACTTAAAATTAACTATGAGATTATAAAATCA-T
129 AAAA-ATTCAACTTAAAATCAATTATGAGATTATAAAACCATT
* * * * * * *
514 TAGAAGCGAGTAATAGGGCTTTTGAAAGCTTGGGTAACTATAAATGGACTCTTCTTACCAATAAA
1 TA-AAGCGAGTAATAAGGCTTTCGAAGGCTTGGGTGACTATAAATGGACTTTTCTTGCCAATGAA
* * * * *
579 TAGCTTTTTCTTCAT-GTTTTCAGAGGCAGACATTCAATTATAACCT-TA-TTTAACCAACAATA
65 TGGCTTTTTCTTCATGGTTCTCA-AGGTAAACATTCAATTATAA--TATATTTTAACTAA-AA-A
* * * * *
641 TAAAAAAAATTCTACCTAAAATAAATTATGAGATTATAAAAGCATT
125 TATAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATT
* * * * *
687 TAAAGCGAGTAATAAAGTCTTT--AAAGATATGAGTGACTATAAATGGACTTTTCTTACCAAT-A
1 TAAAGCGAGTAAT-AAGGCTTTCGAAGGCT-TGGGTGACTATAAATGGACTTTTCTTGCCAATGA
* * * * ** * *
749 CATGACTTTTTCTTCATGTTTCCCAAGGTAGACATTCAATTATAATCCATTTTAACAAAAAATGT
64 -ATGGCTTTTTCTTCATGGTTCTCAAGGTAAACATTCAATTATAATATATTTTAACTAAAAATAT
* **********
814 AAAAAAATTCAACTCAAAATCANNNNNNNNNNTATAAAACCATT
128 -AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATT
* * *** * * *
858 TGAAGCGAGTAATAAGGCTTTCAAAGTAATGGGTGACTATAAATGGACTTTTCTTACTAATAAAT
1 TAAAGCGAGTAATAAGGCTTTCGAAGGCTTGGGTGACTATAAATGGACTTTTCTTGCCAATGAAT
* * *** * * * * * * *
923 GGCTATTTGTTCACATTTTTTAGGGTAAACATTTAGTTGTAATATGTTTTAACTAAAAATATAGA
66 GGCTTTTTCTTCATGGTTCTCAAGGTAAACATTCAATTATAATATATTTTAACTAAAAATATA-A
* * * * *
988 CAAATTAAACTCAAAATCAACTATGAGATTATAAAACCATC
130 AAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATT
* * *
1029 TAAAGCGAGTAATAATGCTTT-AAGAGGCATGGGTGACTATAAATGGAC-TTT-TTGCTCCAATG
1 TAAAGCGAGTAATAAGGCTTTCGA-AGGCTTGGGTGACTATAAATGGACTTTTCTTG--CCAATG
* * * * * * * * *
1091 GATAGCTTTTACCTT-ATGTTTACT-GAGGCAAACATTCAACTATAATCT-TATTTAA-TCAATA
63 AATGGCTTTT-TCTTCATGGTT-CTCAAGGTAAACATTCAATTATAATATAT-TTTAACT-AAAA
* * * * *
1152 ATGTAAAAAATTCAACCTAAAATTAATTATAAGATTATAAAACTATT
124 ATATAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATT
* * * * *
1199 TAAAGCGAGTAATAAGGCCTTT-GGAGGCTTGAGTGACTATAAGTGGACTTTTCTTGCTAATAAA
1 TAAAGCGAGTAATAAGG-CTTTCGAAGGCTTGGGTGACTATAAATGGACTTTTCTTGCCAATGAA
* * * * * * *
1263 TGGCTTTTTATTCATGGTTCCCATGGTAGACATTCAATTATACTTTATTTTAACTAAAAATGTAA
65 TGGCTTTTTCTTCATGGTTCTCAAGGTAAACATTCAATTATAATATATTTTAACTAAAAATATAA
* * * * *
1328 ACAAGTTCAGCTTAAAATTAATTATTAGATTATAAAACTATT
130 A-AAATTCAACTTAAAATCAATTATGAGATTATAAAACCATT
* * * *
1370 TAAAGCAAGTAATAAGCCTTTCGAAGGCTTGGGTGACTATGAATGGACTTTTCTTGTCAATGAAT
1 TAAAGCGAGTAATAAGGCTTTCGAAGGCTTGGGTGACTATAAATGGACTTTTCTTGCCAATGAAT
* * * * * *
1435 GACCTTTTTCTT-ATGCTTCCCAA-G-AAACATTCAATTACAATATGTTTTAATCAAAAAAGTA-
66 G-GCTTTTTCTTCATGGTTCTCAAGGTAAACATTCAATTATAATATATTTTAA-CTAAAAA-TAT
* *
1496 AAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACTA-T
128 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATT
* * * * * *
1538 TAAAACAGAGTAATAAGGCTTTCGAAGGCTTAGGTGACTATAAATGAAATTTTTTTGTCAATGAA
1 TAAAGC-GAGTAATAAGGCTTTCGAAGGCTTGGGTGACTATAAATGGACTTTTCTTGCCAATGAA
* * * * * *
1603 TGGCTTTTTCTTCATGTTTTCCCAAGGTAAACTTTTAATTACAATATATTTTAACCT-AAAATGT
65 TGGCTTTTTCTTCATG-GTTCTCAAGGTAAACATTCAATTATAATATATTTTAA-CTAAAAATAT
* * * ** *
1667 AAAACAATTCAACCTAAAATTAATTATGATAGCATAAAACTATT
128 AAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAACCATT
** * * * * **
1711 TAATTCGAATAATAAGGCTTTTGAAGG-TATGAGTGACTATAAATGGACTTTTTTTTTATCAATG
1 TAAAGCGAGTAATAAGGCTTTCGAAGGCT-TGGGTGACTATAAATGGAC--TTTTCTTGCCAATG
* * * * * ** * *
1775 CATAGG-TTTTGCTTC-TTGTTTTCCAAGGTAAAAATTCAATTATGCTCTATTTTAAAC-AAAAC
63 AAT-GGCTTTTTCTTCATGGTTCT-CAAGGTAAACATTCAATTATAATATATTTT-AACTAAAAA
* * * *
1837 TGCA-AAAAAATTCAACCTCAAATAAATTATGAGATTGTAAAACCATT
125 T--ATAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATT
** * * *
1884 TAAAGTAAGTAATAAGGCCTTCGAAGGTTTGGGTGACTATAAATGAACTTTTCTTGCCAATGAAT
1 TAAAGCGAGTAATAAGGCTTTCGAAGGCTTGGGTGACTATAAATGGACTTTTCTTGCCAATGAAT
* * * * * * * *
1949 GACTTTTTCTTCA-CGTTTTCAATGATAGAA-ATTCAATTATAATTTTTTTTAACAAAAAATGTA
66 GGCTTTTTCTTCATGGTTCTCAA-GGTA-AACATTCAATTATAATATATTTTAACTAAAAATAT-
*
2012 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATT
128 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATT
* * ** * * *
2055 TAAAGCGAGTAATAATGCTTTC-AGAGGCATAAGTGACTATAAATAGACTTTTCTCT-CTAATGG
1 TAAAGCGAGTAATAAGGCTTTCGA-AGGCTTGGGTGACTATAAATGGACTTTTCT-TGCCAATGA
* * * * * * * *
2118 ATGGCTTTTGCTTCACGTTTCTTAAGGTAGACATTCAATTATAATATTTTTTAACCAACAATATA
64 ATGGCTTTTTCTTCATGGTTCTCAAGGTAAACATTCAATTATAATATATTTTAACTAAAAATATA
* *
2183 AAAAATTCAACCTAAAATCAATTATGAGATTATAAAACTATT
129 AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATT
* * * * * * * *
2225 TAAAGCGAGTAAAAATGCTTTCAAAGCCATGAGTGATTATAAATGGACTTTTCTCT-TCAATGGA
1 TAAAGCGAGTAATAAGGCTTTCGAAGGCTTGGGTGACTATAAATGGACTTTTCT-TGCCAAT-GA
* * ** ** * *
2289 A-GGCTTTTGCCTCATATTTCTTGAGGTAAACATTCAATTATAATATATTTTAACCAATAATATA
64 ATGGCTTTTTCTTCATGGTTCTCAAGGTAAACATTCAATTATAATATATTTTAACTAAAAATATA
* * *
2353 AAAAATTTAACCTAAAATCAATTATGTGATTATAAAACCATT
129 AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATT
* * * * * * * * *
2395 TAAATCGAGTAATCATGCTTTCAAAGGCATGGGTGACTATAGATAGACTTTT-TTCTCCAATGGA
1 TAAAGCGAGTAATAAGGCTTTCGAAGGCTTGGGTGACTATAAATGGACTTTTCTT-GCCAATGAA
* ** * * * * *
2459 TAGCTTTGGCTTCATGTTTCTCAAGGTAGACATTCAATTATATTATATTTTAACCAACAATATAA
65 TGGCTTTTTCTTCATGGTTCTCAAGGTAAACATTCAATTATAATATATTTTAACTAAAAATATAA
* *
2524 AAAATTTAACTTAAAATCAATTCTGAGATTATAAAACCATT
130 AAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATT
* * * * *
2565 TAAAGCAAGTAGTAAGGCTTTCAAAGGCTTGGGTGACTATAAATGGACTTTTCTTGACATTGAAT
1 TAAAGCGAGTAATAAGGCTTTCGAAGGCTTGGGTGACTATAAATGGACTTTTCTTGCCAATGAAT
* * * * * * * * *
2630 GGCTTTTTTTTCA-CGTTTTCCTAAGGCAAATAATCAATTATAACATGTTTTAACTAAAAATGTA
66 GGCTTTTTCTTCATGGTTCT-C-AAGGTAAACATTCAATTATAATATATTTTAACTAAAAATAT-
*
2694 AAAAAATTCAACTTAAAATTAATTATGAGATTATAAAACCATT
128 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATT
* * * * * * ** *
2737 TCAAGCCAGTAACAAGG-TTTGTGAAGGCTTGGGTGACTATAAGTGGACTTTTCCTGTTAATAAA
1 TAAAGCGAGTAATAAGGCTTT-CGAAGGCTTGGGTGACTATAAATGGACTTTTCTTGCCAATGAA
* * * * *
2801 TGGCTTTTT-TTCATGATTC-CTATGGTAGACATTCAATTATAATATATTTTAATTAAAAATGTT
65 TGGCTTTTTCTTCATGGTTCTC-AAGGTAAACATTCAATTATAATATATTTTAACTAAAAAT-AT
* ** **
2864 AAAAAATTTAACCCAAAATCAAAGATGAGATTATAAAACCATT
128 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATT
* * * * * ** * *
2907 CAAAGCAAGTAAGAAGGCTTTTGAAGGCATGGGTGACTATAAATAAACTTTTCTTACCAATAAAT
1 TAAAGCGAGTAATAAGGCTTTCGAAGGCTTGGGTGACTATAAATGGACTTTTCTTGCCAATGAAT
* * * * * * * * * *
2972 AGCTTTCTCTTCATGTTTCTTAAGGTAGAGATTCAATTATAATCTATTTTAGCCAAAAATGTAAA
66 GGCTTTTTCTTCATGGTTCTCAAGGTAAACATTCAATTATAATATATTTTAACTAAAAATAT-AA
* *
3037 AAAATTCAACTTAAAATCAATTATGAGATTATAAAACTAGT
130 AAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATT
* * * * **
3078 TAAAGTGAGTAATAAGCCTTTCGAAGGCTTGGATGGCTATAAATGGACTTTTCTTATCAATGAAT
1 TAAAGCGAGTAATAAGGCTTTCGAAGGCTTGGGTGACTATAAATGGACTTTTCTTGCCAATGAAT
* * * * * *
3143 GGCTTTTTCTTCAT-GTTTTTAGAGGTAAACATTCAATTATGATCTGTTGTAACTAAAAATATAA
66 GGCTTTTTCTTCATGGTTCTCA-AGGTAAACATTCAATTATAATATATTTTAACTAAAAATATAA
* *
3207 AAAATTAAACTTAAAATCAATTATGAGATTACAAAACCATT
130 AAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATT
* * * * *
3248 TAAAG-GAAGTAACAAGGCTTTCAAAGGTTTGGGTGACTATAAATGGACTTCTC-TACC---GAA
1 TAAAGCG-AGTAATAAGGCTTTCGAAGGCTTGGGTGACTATAAATGGACTTTTCTTGCCAATGAA
* * ** ** * * * * *
3308 TGCCTATTGGTTCA-CATT-TCATGAGGCAGACATTCAATTATAATCTATTTTAACAAAAAATAA
65 TGGCTTTTTCTTCATGGTTCTCA--AGGTAAACATTCAATTATAATATATTTTAACTAAAAATAT
* ** **
3371 AAAAAATCCAACCGAAAAGAAATTATGAGATTATAAAACCATT
128 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATT
********** * * * * *
3414 NNNNNNNNNNAATAAGGCCTTCGAAGGCATGGGTGCCTATAAATGGAC-TTTCTTACCAATGCAT
1 TAAAGCGAGTAATAAGGCTTTCGAAGGCTTGGGTGACTATAAATGGACTTTTCTTGCCAATGAAT
********** * * * *
3478 GGC-TTTTCTNNNNNNNNNNCAAGG-AAGACATCCAATTATAATATATTTTAACAAAAAATGTTC
66 GGCTTTTTCTTCATGGTTCTCAAGGTAA-ACATTCAATTATAATATATTTTAACTAAAAAT-ATA
** * * *
3541 AAAAATTCAACCCAAAATTAAATATGATATTATAAAACCATT
129 AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATT
* * ********** *
3583 TAAAACAAGTAATAAGGCTTTCGAA-GCTATGGGTGACTATAANNNNNNNNNNCTTGCTAATGAA
1 TAAAGCGAGTAATAAGGCTTTCGAAGGCT-TGGGTGACTATAAATGGACTTTTCTTGCCAATGAA
* * ** * * * * * *
3647 TAGCTTTTTCTTCATGTTTCTTGAGGCAAAGATTTAATTATAATCTGTTTTAGCTAAAAATATAA
65 TGGCTTTTTCTTCATGGTTCTCAAGGTAAACATTCAATTATAATATATTTTAACTAAAAATAT-A
* * * *
3712 AAAAATTTAACTTAAAATCAATTGTGAGATTATAAAATCGTT
129 AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATT
* * * * *
3754 TAAAGCGAGTAATAAGGCTTTCAAAAGCCTGGATGACCATAAATGGACTTTTCTTGCCAATGAAT
1 TAAAGCGAGTAATAAGGCTTTCGAAGGCTTGGGTGACTATAAATGGACTTTTCTTGCCAATGAAT
* * ********** * * *
3819 GGCTTTTTCTTTATGTTTNNNNNNNNNNACATTCAATTATAATCTGTTTTAACCAAAAATATAAA
66 GGCTTTTTCTTCATGGTTCTCAAGGTAAACATTCAATTATAATATATTTTAACTAAAAATATAAA
**
3884 AGTGTTCAACTTAAAATCAATTATGAGATTATAAAACCATT
131 A-AATTCAACTTAAAATCAATTATGAGATTATAAAACCATT
** *
3925 TAAAATGAGTAACAAGGCTT
1 TAAAGCGAGTAATAAGGCTT
3945 NNNNNNNNNN
Statistics
Matches: 2993, Mismatches: 670, Indels: 220
0.77 0.17 0.06
Matches are distributed among these distances:
165 5 0.00
166 121 0.04
167 1 0.00
168 54 0.02
169 192 0.06
170 800 0.27
171 1183 0.40
172 477 0.16
173 128 0.04
174 30 0.01
175 2 0.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.34
Consensus pattern (170 bp):
TAAAGCGAGTAATAAGGCTTTCGAAGGCTTGGGTGACTATAAATGGACTTTTCTTGCCAATGAAT
GGCTTTTTCTTCATGGTTCTCAAGGTAAACATTCAATTATAATATATTTTAACTAAAAATATAAA
AAATTCAACTTAAAATCAATTATGAGATTATAAAACCATT
Found at i:1316 original size:341 final size:338
Alignment explanation
Indices: 1--3944 Score: 2778
Period size: 341 Copynumber: 11.6 Consensus size: 338
* * * * *
1 TAAAGCGAGTAATAATGCTTTCTA-AGGTATGGGTGACTATAAATAGACTTTTCTCTCCAATGGA
1 TAAAGCGAGTAATAATGCTTT-AAGAGGCATGGGTGACTATAAATGGACTTTTTTCTCCAATGAA
** * * * *
65 TCA-CTTTCACTTCATGTTTACTGAGGTAAACATTCAATTATAATCTAATTTAACCAATAATTTA
65 T-AGCTTTTTCTTCATGTTT-CTAAGGTAAACATTCAATTATAATCTTATTTAA-CAAAAATGTA
* * * * ** *
129 AAAATATTCAACTTAAAATCAATTATAAGATTTTAAAACCATTTAAAGCAAACAATAAGGTTTTT
127 AAAA-ATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGG-CTTT
* * * *
194 GAAGGCTTCGGTGACTGTAAATGGACTTTTCTTGCCAATGAATGGCTTATTCTTCATGGTTCTCA
190 GAAGGCTTGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCTCA
* * * * *
259 TA-GCAGACATTCAATTATAATATATTTTAACTAAAAATATAAAAACATTCATCTTAAAATTAAT
255 -AGGTAGACATTCAATTATAATATATTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCAAT
323 TATGAGATTATAAAACCATT
319 TATGAGATTATAAAACCATT
* * * * *
343 TAAAACTAGTAATAAGGCTTTCGAA-A-GC-TTGGTCGACTATAAATGGACTTTTTTTTGCCAAT
1 TAAAGCGAGTAATAATGCTTT--AAGAGGCATGGGT-GACTATAAATGGACTTTTTTCT-CCAAT
* ** * * *
405 GAAT-GACTTTTTCTTGACCTTTCTTGAGGTAAACATTTAATTATAATATGT-TTTAACTAAAAA
62 GAATAG-CTTTTTCTTCATGTTTC-TAAGGTAAACATTCAATTATAATCT-TATTTAAC-AAAAA
* * * * * * *
468 TATAAAAACATTTAACTTAAAATTAACTATGAGATTATAAAATCA-TTAGAAGCGAGTAATAGGG
123 TGTAAAAA-ATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTA-AAGCGAGTAATAAGG
* * * * * *
532 CTTTTGAAAGCTTGGGTAACTATAAATGGACTCTTCTTACCAATAAATAGCTTTTTCTTCATGTT
186 C-TTTGAAGGCTTGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTT
* * * * * *
597 T-TCAGAGGCAGACATTCAATTATAACCT-TA-TTTAACCAACAATATAAAAAAAATTCTACCTA
250 TCTCA-AGGTAGACATTCAATTATAA--TATATTTTAACTAAAAATGT-AAAAAAATTCAACTTA
* *
659 AAATAAATTATGAGATTATAAAAGCATT
311 AAATCAATTATGAGATTATAAAACCATT
* ** * *
687 TAAAGCGAGTAATAAAGTCTTTAA-AGATATGAGTGACTATAAATGGACTTTTCTT-ACCAAT-A
1 TAAAGCGAGTAATAATG-CTTTAAGAGGCATGGGTGACTATAAATGGACTTTT-TTCTCCAATGA
* * *
749 CAT-GACTTTTTCTTCATGTTTCCCAAGGTAGACATTCAATTATAATC-CATTTTAACAAAAAAT
64 -ATAG-CTTTTTCTTCATGTTT-CTAAGGTAAACATTCAATTATAATCTTA-TTTAAC-AAAAAT
********** *
812 GTAAAAAAATTCAA-CTCAAAATCANNNNNNNNNNTATAAAACCATTTGAAGCGAGTAATAAGGC
124 GT-AAAAAATTCAACCT-AAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGC
* * * * * * * **
876 TTTCAAAG-TAATGGGTGACTATAAATGGACTTTTCTTACTAATAAATGGCTATTTGTTCACATT
187 TTTGAAGGCT--TGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTT
* * * * * * * * * * * * *
940 TTTTAGGGTAAACATTTAGTTGTAATATGTTTTAACTAAAAATATAGACAAATTAAACTCAAAAT
250 TCTCAAGGTAGACATTCAATTATAATATATTTTAACTAAAAATGTAAAAAAATTCAACTTAAAAT
* *
1005 CAACTATGAGATTATAAAACCATC
315 CAATTATGAGATTATAAAACCATT
* *
1029 TAAAGCGAGTAATAATGCTTTAAGAGGCATGGGTGACTATAAATGGACTTTTTGCTCCAATGGAT
1 TAAAGCGAGTAATAATGCTTTAAGAGGCATGGGTGACTATAAATGGACTTTTTTCTCCAATGAAT
* * * * *
1094 AGCTTTTACCTT-ATGTTTACTGAGGCAAACATTCAACTATAATCTTATTTAATCAATAATGTAA
66 AGCTTTT-TCTTCATGTTT-CTAAGGTAAACATTCAATTATAATCTTATTTAA-CAAAAATGTAA
* * * *
1158 AAAATTCAACCTAAAATTAATTATAAGATTATAAAACTATTTAAAGCGAGTAATAAGGCCTTTGG
128 AAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGG-CTTTGA
* * * * * * * *
1223 AGGCTTGAGTGACTATAAGTGGACTTTTCTTGCTAATAAATGGCTTTTTATTCATGGTTCCCATG
192 AGGCTTGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCTCAAG
* * * * * *
1288 GTAGACATTCAATTATACTTTATTTTAACTAAAAATGTAAACAAGTTCAGCTTAAAATTAATTAT
257 GTAGACATTCAATTATAATATATTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCAATTAT
* *
1353 TAGATTATAAAACTATT
322 GAGATTATAAAACCATT
* * * * *
1370 TAAAGCAAGTAATAA-GCCTTT-CGAAGGCTTGGGTGACTATGAATGGACTTTTCTTGT-CAATG
1 TAAAGCGAGTAATAATG-CTTTAAG-AGGCATGGGTGACTATAAATGGACTTTT-TTCTCCAATG
* * * * * *
1432 AATGACCTTTTTCTT-ATGCTTCCCAA-G-AAACATTCAATTACAATATGT-TTTAATCAAAAAA
63 AAT-AGCTTTTTCTTCATG-TTTCTAAGGTAAACATTCAATTATAATCT-TATTTAA-CAAAAAT
* *
1493 GTAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACTA-TTAAAACAGAGTAATAAGGC
124 GT-AAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGC-GAGTAATAAGGC
* * * * *
1557 TTTCGAAGGCTTAGGTGACTATAAATGAAATTTTTTTGTCAATGAATGGCTTTTTCTTCATGTTT
187 TTT-GAAGGCTTGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCATG-TT
* * * * * * *
1622 TCCCAAGGTAAACTTTTAATTACAATATATTTTAACCT-AAAATGTAAAACAATTCAACCTAAAA
250 TCTCAAGGTAGACATTCAATTATAATATATTTTAA-CTAAAAATGTAAAAAAATTCAACTTAAAA
* * ** *
1686 TTAATTATGATAGCATAAAACTATT
314 TCAATTATGAGATTATAAAACCATT
** * * * * * * *
1711 TAATTCGAATAATAAGGCTTT-TGAAGGTATGAGTGACTATAAATGGACTTTTTTTTTATCAATG
1 TAAAGCGAGTAATAATGCTTTAAG-AGGCATGGGTGACTATAAATGGAC-TTTTTTCT-CCAATG
* * * * * * ** *
1775 CATAGGTTTTGCTTCTTGTTTTCCAAGGTAAAAATTCAATTATGCTC-TATTTTAAACAAAACTG
63 AATAGCTTTTTCTTCATG-TTTCTAAGGTAAACATTCAATTATAATCTTA-TTT-AACAAAAATG
* * * * **
1839 CAAAAAAATTCAACCTCAAATAAATTATGAGATTGTAAAACCATTTAAAGTAAGTAATAAGGCCT
125 -TAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGG-CT
* * * * *
1904 TCGAAGGTTTGGGTGACTATAAATGAACTTTTCTTGCCAATGAATGACTTTTTCTTCACGTTT-T
188 TTGAAGGCTTGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCT
* * * * *
1968 CAATGATAGAAATTCAATTATAATTTTTTTTAACAAAAAATGTAAAAAAATTCAACTTAAAATCA
253 CAA-GGTAGACATTCAATTATAATATATTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCA
*
2033 ATTATGAGATTATAAAACTATT
317 ATTATGAGATTATAAAACCATT
* ** * * * *
2055 TAAAGCGAGTAATAATGCTTTCAGAGGCATAAGTGACTATAAATAGACTTTTCTCTCTAATGGAT
1 TAAAGCGAGTAATAATGCTTTAAGAGGCATGGGTGACTATAAATGGACTTTTTTCTCCAATGAAT
* * * * * * * *
2120 GGCTTTTGCTTCACGTTTCTTAAGGTAGACATTCAATTATAATATTTTTTAACCAACAATATAAA
66 AGCTTTTTCTTCATGTTTC-TAAGGTAAACATTCAATTATAATCTTATTTAA-CAAAAATGTAAA
* * * *
2185 AAATTCAACCTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAAAAATGCTTTCAAA
129 AAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT-GAA
* * * * * * * * **
2250 GCCATGAGTGATTATAAATGGACTTTTCTCT-TCAATGGAA-GGCTTTTGCCTCATATTTCTTGA
193 GGCTTGGGTGACTATAAATGGACTTTTCT-TGCCAAT-GAATGGCTTTTTCTTCATGTTTCTCAA
* * * * * *
2313 GGTAAACATTCAATTATAATATATTTTAACCAATAATAT-AAAAAATTTAACCTAAAATCAATTA
256 GGTAGACATTCAATTATAATATATTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCAATTA
*
2377 TGTGATTATAAAACCATT
321 TGAGATTATAAAACCATT
* * * * *
2395 TAAATCGAGTAATCATGCTTTCAA-AGGCATGGGTGACTATAGATAGACTTTTTTCTCCAATGGA
1 TAAAGCGAGTAATAATGCTTT-AAGAGGCATGGGTGACTATAAATGGACTTTTTTCTCCAATGAA
** * * *
2459 TAGCTTTGGCTTCATGTTTCTCAAGGTAGACATTCAATTAT-AT-TATATTTTAACCAACAATAT
65 TAGCTTTTTCTTCATGTTTCT-AAGGTAAACATTCAATTATAATCT-TA-TTTAA-CAAAAATGT
* * * * *
2522 AAAAAATTTAACTTAAAATCAATTCTGAGATTATAAAACCATTTAAAGCAAGTAGTAAGGCTTTC
126 AAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT-
* * * * *
2587 AAAGGCTTGGGTGACTATAAATGGACTTTTCTTGACATTGAATGGCTTTTTTTTCACGTTT-TCC
190 GAAGGCTTGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCT-C
* * * * * * *
2651 TAAGGCAAATAATCAATTATAACATGTTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATTAA
254 -AAGGTAGACATTCAATTATAATATATTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCAA
2716 TTATGAGATTATAAAACCATT
318 TTATGAGATTATAAAACCATT
* * * * ** * * * ** *
2737 TCAAGCCAGTAACAA-GGTTTGTGAAGGCTTGGGTGACTATAAGTGGAC-TTTTCCTGTTAATAA
1 TAAAGCGAGTAATAATGCTTTAAG-AGGCATGGGTGACTATAAATGGACTTTTTTCT-CCAATGA
* * * * * *
2800 ATGGCTTTTT-TTCATGATTCCTATGGTAGACATTCAATTATAAT-ATATTTTAATTAAAAATGT
64 ATAGCTTTTTCTTCATG-TTTCTAAGGTAAACATTCAATTATAATCTTA-TTTAA-CAAAAATG-
* * ** * * *
2863 TAAAAAATTTAACCCAAAATCAAAGATGAGATTATAAAACCATTCAAAGCAAGTAAGAAGGCTTT
125 TAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGC-TT
* ** * * * * *
2928 TGAAGGCATGGGTGACTATAAATAAACTTTTCTTACCAATAAATAGCTTTCTCTTCATGTTTCTT
189 TGAAGGCTTGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCTC
* * * *
2993 AAGGTAGAGATTCAATTATAATCTATTTTAGCCAAAAATGTAAAAAAATTCAACTTAAAATCAAT
254 AAGGTAGACATTCAATTATAATATATTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCAAT
* *
3058 TATGAGATTATAAAACTAGT
319 TATGAGATTATAAAACCATT
* * * * * *
3078 TAAAGTGAGTAATAA-GCCTTT-CGAAGGCTTGGATGGCTATAAATGGACTTTTCTTAT-CAATG
1 TAAAGCGAGTAATAATG-CTTTAAG-AGGCATGGGTGACTATAAATGGACTTTT-TTCTCCAATG
* * * * *
3140 AATGGCTTTTTCTTCATGTTTTTAGAGGTAAACATTCAATTATGATCTGT-TGTAACTAAAAATA
63 AATAGCTTTTTCTTCATGTTTCTA-AGGTAAACATTCAATTATAATCT-TATTTAAC-AAAAATG
* * * *
3204 TAAAAAATTAAACTTAAAATCAATTATGAGATTACAAAACCATTTAAAG-GAAGTAACAAGGCTT
125 TAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCG-AGTAATAAGGCTT
* * * * * * ** **
3268 TCAAAGGTTTGGGTGACTATAAATGGACTTCTC-TACC---GAATGCCTATTGGTTCACATTTCA
189 T-GAAGGCTTGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTC-
* * * * * * ** **
3329 T-GAGGCAGACATTCAATTATAATCTATTTTAACAAAAAAT-AAAAAAAATCCAACCGAAAAGAA
252 TCAAGGTAGACATTCAATTATAATATATTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCA
3392 ATTATGAGATTATAAAACCATT
317 ATTATGAGATTATAAAACCATT
********** * * * * * * *
3414 NNNNNNNNNNAATAAGGCCTT-CGAAGGCATGGGTGCCTATAAATGGACTTTCTT-ACCAATGCA
1 TAAAGCGAGTAATAATGCTTTAAG-AGGCATGGGTGACTATAAATGGACTTTTTTCTCCAATGAA
* ******** * *
3477 TGGC-TTTTCTNNNNNNNNNNC-AAGG-AAGACATCCAATTATAAT-ATATTTTAACAAAAAATG
65 TAGCTTTTTCT--TCATGTTTCTAAGGTAA-ACATTCAATTATAATCTTA-TTTAAC-AAAAATG
* * * * * * *
3538 TTCAAAAATTCAACCCAAAATTAAATATGATATTATAAAACCATTTAAAACAAGTAATAAGGCTT
125 -TAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTT
********** * *
3603 TCGAA-GCTATGGGTGACTATAANNNNNNNNNNCTTGCTAATGAATAGCTTTTTCTTCATGTTTC
189 T-GAAGGCT-TGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTC
** * * * * * * * * *
3667 TTGAGGCAAAGATTTAATTATAATCTGTTTTAGCTAAAAATATAAAAAAATTTAACTTAAAATCA
252 TCAAGGTAGACATTCAATTATAATATATTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCA
* * *
3732 ATTGTGAGATTATAAAATCGTT
317 ATTATGAGATTATAAAACCATT
* * * * * *
3754 TAAAGCGAGTAATAAGGCTTTCAA-AAGCCTGGATGACCATAAATGGACTTTTCTT-GCCAATGA
1 TAAAGCGAGTAATAATGCTTT-AAGAGGCATGGGTGACTATAAATGGACTTTT-TTCTCCAATGA
* * ********* *
3817 ATGGCTTTTTCTTTATGTTTNNNNNNNNNNACATTCAATTATAATCTGT-TTTAACCAAAAATAT
64 ATAGCTTTTTCTTCATGTTT-CTAAGGTAAACATTCAATTATAATCT-TATTTAA-CAAAAATGT
** * ** *
3881 AAAAGTGTTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAATGAGTAACAAGGCTT
126 AAAA-AATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTT
3945 NNNNNNNNNN
Statistics
Matches: 2834, Mismatches: 639, Indels: 258
0.76 0.17 0.07
Matches are distributed among these distances:
332 1 0.00
333 2 0.00
334 35 0.01
335 83 0.03
336 74 0.03
337 49 0.02
338 3 0.00
339 97 0.03
340 423 0.15
341 770 0.27
342 572 0.20
343 392 0.14
344 192 0.07
345 131 0.05
346 10 0.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.34
Consensus pattern (338 bp):
TAAAGCGAGTAATAATGCTTTAAGAGGCATGGGTGACTATAAATGGACTTTTTTCTCCAATGAAT
AGCTTTTTCTTCATGTTTCTAAGGTAAACATTCAATTATAATCTTATTTAACAAAAATGTAAAAA
ATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTGAAGGC
TTGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCTCAAGGTAG
ACATTCAATTATAATATATTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGA
TTATAAAACCATT
Found at i:4740 original size:170 final size:170
Alignment explanation
Indices: 4542--4902 Score: 417
Period size: 170 Copynumber: 2.1 Consensus size: 170
4532 NNNNNNNNNN
* * * * * * *
4542 AATCAATTATAAGATTATAAAACCATTTAAAGCGAGTAACAAGGCTTTTGAAGGCT-TGAGTGAG
1 AATCAATTATGAGATTATCAAACCATTTAAAGCAAGTAACAAGGC-TTTCAAAGATATGAGTGAC
* * * * * * *
4606 TATAAATAGACTTTTCGT-GCCAATGGATGGATTTTGCTTCACGTTTCTCA-AGACAGACGTTCA
65 TAAAAATAAAATTTTC-TCGCCAATAGATGGATTTTACTTCACGTTTCT-AGAGACAAACATTCA
* * *
4669 ATTATAATATATTTTAATCAATAATA-GAAAAAATTTAACTTAA
128 ATTATAATATATTTTAATCAAAAATATAAAAAAATTTAAATT-A
* * *
4712 AATCAATTATGAGATTATCAAACCATTTAAAGTAAGTAATAATGCTTTCAAAGATATGAGTGACT
1 AATCAATTATGAGATTATCAAACCATTTAAAGCAAGTAACAAGGCTTTCAAAGATATGAGTGACT
* ** * * *
4777 AAAAATAAAATTTTCTCTCCAATAGATGTCTTTTACTTCACGTTTCTAGAGATAAATATTTAATT
66 AAAAATAAAATTTTCTCGCCAATAGATGGATTTTACTTCACGTTTCTAGAGACAAACATTCAATT
4842 ATAATATATTTTAATCAAAAATATAAAAAAATTTAAATTA
131 ATAATATATTTTAATCAAAAATATAAAAAAATTTAAATTA
4882 AATCAATTATGAGATTA-CAAA
1 AATCAATTATGAGATTATCAAA
4903 ACGAGTAATA
Statistics
Matches: 161, Mismatches: 26, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
169 13 0.08
170 135 0.84
171 13 0.08
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (170 bp):
AATCAATTATGAGATTATCAAACCATTTAAAGCAAGTAACAAGGCTTTCAAAGATATGAGTGACT
AAAAATAAAATTTTCTCGCCAATAGATGGATTTTACTTCACGTTTCTAGAGACAAACATTCAATT
ATAATATATTTTAATCAAAAATATAAAAAAATTTAAATTA
Found at i:7864 original size:167 final size:168
Alignment explanation
Indices: 7317--7978 Score: 577
Period size: 171 Copynumber: 3.9 Consensus size: 168
7307 NNNNNNNNNN
* * ** *
7317 ATAAGGCTTTCGAAGGCTTGGGTGACTATAAATGGACTTTTCTTGTCAATGAAT---ATTTTTTT
1 ATAAGGCTTT-GAAGGCATGAGTGACTATAAATGGACTTTTCTTACCAATGAATGGCATTTTCTT
* * * *
7379 CAAGTTTCTCAATA--TAGACATTCAGTTATAATCTGTTTTAACCAAAAATATAAAAAAAATTCA
65 CATGTTT-TCAA-AGGCAAACATTCAATTATAATCTGTTTTAACC-AAAA-ATAAAAAAAA-TCA
** ** *
7442 ATTTAAAATTGATTATGAGATCATAAAACCATTTAAAGCGAGTA
125 ACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* * * * * * * *
7486 ATAGGGCTTTTGAAGACATCATTGACTATAATTCGACTTTTCTTGCCAATGAATGGCTTTTTCTT
1 ATAAGGC-TTTGAAGGCATGAGTGACTATAAATGGACTTTTCTTACCAATGAATGGCATTTTCTT
** * ** * *
7551 CA-CATTTCGTAAGAAAAACATTCAATTATAATTTGTTTTAACCAAAAATGTAAAAAAATACAAC
65 CATGTTTTC-AAAGGCAAACATTCAATTATAATCTGTTTTAACCAAAAAT-AAAAAAAAT-CAAC
********** *
7615 CTAAAATCAATTATGAGATTATAAANNNNNNNNNNGTGAGTA
127 CTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* * * * **
7657 ATAAGGCTTCCGAAGGCTTGAGTGACTATTAATAGACTTTTCTTACCAATGAATAACATTTTCTT
1 ATAAGGCTT-TGAAGGCATGAGTGACTATAAATGGACTTTTCTTACCAATGAATGGCATTTTCTT
* * * * *
7722 CATGTTTTCAAAGGCAGACATTCAACTATAATATGTTTTAA-CTAAAATAAAAAAAA-CAACTTA
65 CATGTTTTCAAAGGCAAACATTCAATTATAATCTGTTTTAACCAAAAATAAAAAAAATCAACCTA
*
7785 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAATA
130 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* * * ** *
7824 ATAAGGCTCTTGAAGGCATGGGTGACTATAAATGGACTTTTCTTACTAATGAGTGGTTTTTTTTT
1 ATAAGGCT-TTGAAGGCATGAGTGACTATAAATGGACTTTTCTTACCAATGAATGGCATTTTCTT
* *
7889 CATGTTTCCTAAGGCAAACATTCAATTATAATCTGTTTTAACCAAAAA-AATCAAAAAATTCAAC
65 CATGTTTTCAAAGGCAAACATTCAATTATAATCTGTTTTAACCAAAAATAA--AAAAAA-TCAAC
*
7953 CTAAAATCAATTATGAGATTAAAAAA
127 CTAAAATCAATTATGAGATTATAAAA
7979 NNNNNNNNNN
Statistics
Matches: 385, Mismatches: 91, Indels: 32
0.76 0.18 0.06
Matches are distributed among these distances:
167 122 0.32
168 6 0.02
169 54 0.14
170 17 0.04
171 149 0.39
172 37 0.10
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (168 bp):
ATAAGGCTTTGAAGGCATGAGTGACTATAAATGGACTTTTCTTACCAATGAATGGCATTTTCTTC
ATGTTTTCAAAGGCAAACATTCAATTATAATCTGTTTTAACCAAAAATAAAAAAAATCAACCTAA
AATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
Found at i:7935 original size:338 final size:329
Alignment explanation
Indices: 7317--7973 Score: 759
Period size: 338 Copynumber: 2.0 Consensus size: 329
7307 NNNNNNNNNN
* * * ** *
7317 ATAAGGCTTTCGAAGGCTTGGGTGACTATAAATGGACTTTTCTTGTCAATGAATATTTTTTTCAA
1 ATAAGGCTTCCGAAGGCTTGAGTGACTATAAATAGACTTTTCTTACCAATGAATATTTTCTTCAA
* ** * *
7382 GTTTCTCAATATAGACATTCAGTTATAATCTGTTTTAACCAAAAATATAAAAAAAATTCAATTTA
66 GTTTCTCAATACAGACATTCAACTATAATATGTTTTAACCAAAAATATAAAAAAAA-TCAACTTA
** * * * *
7447 AAATTGATTATGAGATCATAAAACCATTTAAAGCGAGTAATAGGGCTTTTGAAGACATCATTGAC
130 AAATCAATTATGAGATCATAAAACCATTTAAAGCGAATAATAAGGCTCTTGAAGACATCAGTGAC
* * *
7512 TATAATTCGACTTTTCTTGCCAATGAATGGCTTTTTCTTCACATTTCGTAAGAAAAACATTCAAT
195 TATAAATCGACTTTTCTTACCAATGAATGGCTTTTTCTTCACATTTCCTAAGAAAAACATTCAAT
* **
7577 TATAATTTGTTTTAACCAAAAATGTAAAAAAATACAACCTAAAATCAATTATGAGATTATAAANN
260 TATAATCTGTTTTAACCAAAAAAATAAAAAAATACAACCTAAAATCAATTATGAGATTATAAA--
7642 NNNNNNNNGTGAGTA
323 --------GTGAGTA
*
7657 ATAAGGCTTCCGAAGGCTTGAGTGACTATTAATAGACTTTTCTTACCAATGAATAACATTTTCTT
1 ATAAGGCTTCCGAAGGCTTGAGTGACTATAAATAGACTTTTCTTACCAATGAAT---ATTTTCTT
* *
7722 CATGTTT-TCAA-AGGCAGACATTCAACTATAATATGTTTTAA-C-TAAA-ATAAAAAAAA-CAA
63 CAAGTTTCTCAATA--CAGACATTCAACTATAATATGTTTTAACCAAAAATATAAAAAAAATCAA
* * **
7781 CTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAATAATAAGGCTCTTGAAGGCATGGG
126 CTTAAAATCAATTATGAGATCATAAAACCATTTAAAGCGAATAATAAGGCTCTTGAAGACATCAG
* * * * * ** **
7846 TGACTATAAATGGACTTTTCTTACTAATGAGTGGTTTTTTTTTCATGTTTCCTAAGGCAAACATT
191 TGACTATAAATCGACTTTTCTTACCAATGAATGGCTTTTTCTTCACATTTCCTAAGAAAAACATT
* *
7911 CAATTATAATCTGTTTTAACCAAAAAAATCAAAAAATTCAACCTAAAATCAATTATGAGATTA
256 CAATTATAATCTGTTTTAACCAAAAAAATAAAAAAATACAACCTAAAATCAATTATGAGATTA
7974 AAAAANNNNN
Statistics
Matches: 271, Mismatches: 41, Indels: 12
0.84 0.13 0.04
Matches are distributed among these distances:
338 168 0.62
340 58 0.21
341 4 0.01
342 5 0.02
343 36 0.13
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (329 bp):
ATAAGGCTTCCGAAGGCTTGAGTGACTATAAATAGACTTTTCTTACCAATGAATATTTTCTTCAA
GTTTCTCAATACAGACATTCAACTATAATATGTTTTAACCAAAAATATAAAAAAAATCAACTTAA
AATCAATTATGAGATCATAAAACCATTTAAAGCGAATAATAAGGCTCTTGAAGACATCAGTGACT
ATAAATCGACTTTTCTTACCAATGAATGGCTTTTTCTTCACATTTCCTAAGAAAAACATTCAATT
ATAATCTGTTTTAACCAAAAAAATAAAAAAATACAACCTAAAATCAATTATGAGATTATAAAGTG
AGTA
Found at i:8784 original size:170 final size:168
Alignment explanation
Indices: 8469--9751 Score: 936
Period size: 170 Copynumber: 7.5 Consensus size: 168
8459 NNNNNNNNNN
* * * *
8469 ATGATATTATAAAGCCATTTAAAGTGAGTAATAAGGCTTT-AGAAGGTATGGGTGACTATAAATG
1 ATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTCA-AAGATATGAGTGACTATAAATG
* * * * * * * *
8533 GACTTTGCTTGCTAATGAATGGCTTTT-TTTCATGTTTCTTGAGGTTGACATTCAGTTATAATCT
65 GACTTTTCTTGCCAATGAATGGCTTTTGCTTCATGTTTC-TAAGATAGACATTCAATTATAATAT
* * *
8597 ATTTTAACCAGAAATGTAAAACAATTCTACCTAAAATCAATT
129 ATTTTAA-TAAAAATGTAAAA-AATTCTACTTAAAATCAATT
* * *
8639 ATGAGATTATAAAACCATTTAAAGTGAGTAACAACGCTTTCAAAGATATAAGTGACTATAAATGG
1 ATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTCAAAGATATGAGTGACTATAAATGG
* * * * * *
8704 ACTTTTCATACCAATGGATGGCTTTTGCTTCATGTTTACCAAGACAAACATTCAATTATAATATA
66 ACTTTTCTTGCCAATGAATGGCTTTTGCTTCATGTTT-CTAAGATAGACATTCAATTATAATATA
* *
8769 TTTTAATAAAAATGTAAAGAAATTCAACTTAAAATCAAGT
130 TTTTAATAAAAATGTAAA-AAATTCTACTTAAAATCAATT
** * * * ** *
8809 ACAAGATTATAAAACCCTTTAAAGCGAGTAATAATGCTTTTGAAGAAATGAGTGACTATAAAT-G
1 ATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTCAAAGATATGAGTGACTATAAATGG
* * * *
8873 AGTTGTTCTCT-CCAAT-AGATGTCTTTTGC-T-ATGTTTTTCCTGAA-ATAGACATTTAATTTT
66 ACTT-TTCT-TGCCAATGA-ATGGCTTTTGCTTCATG--TTT-CT-AAGATAGACATTCAATTAT
* * * * *
8933 GACACATTTTGACA-AAAAATGTAAAAAAATTCAACTTAAAATTAATT
124 AATATATTTT-A-ATAAAAATGT-AAAAAATTCTACTTAAAATCAATT
* * ** * * *
8980 ATGAGATTATAAAGCCATTTAAAGTAAGTAACGAGGCTTTCGAAGGCT-TGAGTAACTATAAATG
1 ATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTC-AAAGATATGAGTGACTATAAATG
* * * * * *
9044 GAC-TTTCATGCCAATTG-ATGGCTTTTGCTTTATGTTTGTTAAGATTGATATTCAATTGTAATA
65 GACTTTTCTTGCCAA-TGAATGGCTTTTGCTTCATGTTT-CTAAGATAGACATTCAATTATAATA
* * * *
9107 TATTTTTATAAAAAATGTGAAAATATTCTACTTAAAATTAAAT
128 TATTTTAAT-AAAAATGT-AAAAAATTCTACTTAAAATCAATT
* ** * ** * * * * **
9150 ATGAGATTATAAAATCATTTAAAGCAAGTAATAAGGATTTTGAAGGTATGGGTAACTATAACTAA
1 ATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTCAAAGATATGAGTGACTATAAATGG
* * ** * * *
9215 ACTTTTCTTGTCAATGAATGACCTTTTTTTTCATGTTTCTCATGGTAAACATTCAATTATAATAT
66 ACTTTTCTTGCCAATGAATG-GCTTTTGCTTCATGTTTCT-AAGATAGACATTCAATTATAATAT
* * * * * *
9280 GTTTTAATCAAAATGTAAAAAAATCCAACCTAAAATCAATC
129 ATTTTAATAAAAATGT-AAAAAATTCTACTTAAAATCAATT
* * * *
9321 ATGAGATTATAAAACCATTTAAAATGAGTAATAAAGCCTTCGAAGATATG-GATGACTATAAATG
1 ATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTCAAAGATATGAG-TGACTATAAATG
* * ** * * ** * * * *
9385 GACTTTCCTTGCCAATGCATAACTTTTTCTCCACATTTCTAAGACAGACAATCAATTATAATCTG
65 GACTTTTCTTGCCAATGAATGGCTTTTGCTTCATGTTTCTAAGATAGACATTCAATTATAATATA
* * *
9450 TTTTAACAAAAAATATAAAAAAATT-TAACTTAAAATAAATT
130 TTTTAA-TAAAAATGT-AAAAAATTCT-ACTTAAAATCAATT
* * * * *
9491 ATGAGGTTATAAAACCATCTAAAGT-AGGAAACAAGGCTTTCGAAAGCT-T-AGTTGACTATAAA
1 ATGAGATTATAAAACCATTTAAAGTGA-GTAATAAGGCTTTC-AAAGATATGAG-TGACTATAAA
* * * * *
9553 TGGACTTTT-TGTGCCAATAAATGGCTTTTACTTCACGTTTTCTAAGATCGACTTTCAATTATAA
63 TGGACTTTTCT-TGCCAATGAATGGCTTTTGCTTCATG-TTTCTAAGATAGACATTCAATTATAA
* *
9617 TATATTTTAATCAAAAATGTAAAAACTTTTTAGC-TAAAATCAATT
126 TATATTTTAAT-AAAAATGTAAAAA-ATTCTA-CTTAAAATCAATT
* * * * * * *
9662 -TCAAGATTGTAAAACCATTTAAAGTAAGTAATAAGGCTTTTAAA-ATCTTGGGTAACTATAAAT
1 AT-GAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTCAAAGAT-ATGAGTGACTATAAAT
* * *
9725 GGAGTTTTCCTACCAATGAAT-GCTTTT
64 GGACTTTTCTTGCCAATGAATGGCTTTT
9752 TTCATCACGT
Statistics
Matches: 868, Mismatches: 199, Indels: 92
0.75 0.17 0.08
Matches are distributed among these distances:
168 4 0.00
169 39 0.04
170 444 0.51
171 328 0.38
172 53 0.06
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.35
Consensus pattern (168 bp):
ATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTCAAAGATATGAGTGACTATAAATGG
ACTTTTCTTGCCAATGAATGGCTTTTGCTTCATGTTTCTAAGATAGACATTCAATTATAATATAT
TTTAATAAAAATGTAAAAAATTCTACTTAAAATCAATT
Found at i:9295 original size:341 final size:335
Alignment explanation
Indices: 8469--9751 Score: 969
Period size: 341 Copynumber: 3.8 Consensus size: 335
8459 NNNNNNNNNN
* * * *
8469 ATGATATTATAAAGCCATTTAAAGTGAGTAATAAGGCTTTAGAAGGTATGGGTGACTATAAATGG
1 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGTATGGGTGACTATAAAT-G
* * * * * *
8534 ACTTTGCTTGCTAATGAATGGCTTTTTTTCATGTTTCTTGA-GGTTGACATTCAGTTATAATCTA
65 ACTTTTCTTGC-AATGAATGCCTTTTTTTCATGTTTC-TCATGGTAGACATTCAATTATAATAT-
* *
8598 TTTTAACCAGAAATGTAAAACAATTCTACCTAAAATCAATTATGAGATTATAAAACCATTTAAAG
127 TTTTAA-CA-AAATGTAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAG
* *
8663 TGAGTAACAACGCTTTCAAAGATATAAGTGACTATAAATGGACTTTTCATACCAATGGATGGCTT
190 TAAGTAACAACGCTTTCAAAGATATAAGTAACTATAAATGGACTTTTCATACCAATGGATGGCTT
8728 TTGCTTCATGTTTACCAAGACAAACATTCAATTATAATATATTTTAATAAAAATGTAAAGAAATT
255 TTGCTTCATGTTTACCAAGACAAACATTCAATTATAATATATTTTAATAAAAATGTAAAGAAATT
*
8793 CAACTTAAAATCAAGT
320 CAACTTAAAATCAAAT
** * * ** *
8809 ACAAGATTATAAAACCCTTTAAAGCGAGTAATAATGCTTTTGAAGAAATGAGTGACTATAAATGA
1 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGTATGGGTGACTATAAATGA
* * * ** * * * * *
8874 GTTGTTCTCTCCAAT-AGATGTCTTTTGCT-ATGTTTTTCCTGAAATAGACATTTAATTTTGACA
66 CTT-TTCT-TGCAATGA-ATGCCTTTTTTTCATGTTTCTCATG--GTAGACATTCAATTAT-A-A
* * * * * *
8937 CATTTTGACAAAAAATGTAAAAAAATTCAACTTAAAATTAATTATGAGATTATAAAGCCATTTAA
124 TATTTTTA-ACAAAATGTAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAA
* * * * * * *
9002 AGTAAGTAACGAGGCTTTCGAAGGCT-TGAGTAACTATAAATGGAC-TTTCATGCCAATTGATGG
188 AGTAAGTAACAACGCTTTC-AAAGATATAAGTAACTATAAATGGACTTTTCATACCAATGGATGG
* *** *** * * *
9065 CTTTTGCTTTATGTTTGTTAAGATTGATATTCAATTGTAATATATTTTTATAAAAAATGTGAAA-
252 CTTTTGCTTCATGTTTACCAAGACAAACATTCAATTATAATATATTTTAAT-AAAAATGT-AAAG
* * *
9129 ATATTCTACTTAAAATTAAAT
315 AAATTCAACTTAAAATCAAAT
* * * * * *
9150 ATGAGATTATAAAATCATTTAAAGCAAGTAATAAGGATTTTGAAGGTATGGGTAACTATAACTAA
1 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGTATGGGTGACTATAAAT-G
*
9215 ACTTTTCTTGTCAATGAATGACCTTTTTTTTCATGTTTCTCATGGTAAACATTCAATTATAATAT
65 ACTTTTCTTG-CAATGAATG-CC-TTTTTTTCATGTTTCTCATGGTAGACATTCAATTATAATAT
* * *
9280 GTTTTAATCAAAATGTAAAAAAATCCAACCTAAAATCAATCATGAGATTATAAAACCATTTAAAA
127 -TTTTAA-CAAAATGTAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAG
* * * * * * * * * * * **
9345 TGAGTAATAAAGCCTTCGAAGATAT-GGATGACTATAAATGGACTTTCCTTGCCAATGCATAACT
190 TAAGTAACAACGCTTTCAAAGATATAAG-TAACTATAAATGGACTTTTCATACCAATGGATGGCT
* * ** * * * * * * * *
9409 TTTTCTCCACATTT-CTAAGACAGACAATCAATTATAATCTGTTTTAACAAAAAATATAAAAAAA
254 TTTGCTTCATGTTTACCAAGACAAACATTCAATTATAATATATTTTAA-TAAAAATGTAAAGAAA
*
9473 TTTAACTTAAAAT-AAATT
318 TTCAACTTAAAATCAAA-T
* * * * * * * * *
9491 ATGAGGTTATAAAACCATCTAAAG-TAGGAAACAAGGCTTTCGAAAGCT-TAGTTGACTATAAAT
1 ATGAGATTATAAAACCATTTAAAGCGA-GTAATAAGGCTTTTG-AAGGTATGGGTGACTATAAAT
* * * * * * * *
9554 GGACTTTT-TGTGCCAATAAATGGCTTTTACTTCACGTTT-TCTAAGATCGACTTTCAATTATAA
64 -GACTTTTCT-TG-CAATGAATGCCTTTT-TTTCATGTTTCTC-ATGGTAGACATTCAATTATAA
** ** * * *
9617 TATATTTTAATCAAAAATGTAAAAACTTTTTAGCTAAAATCAATT-TCAAGATTGTAAAACCATT
124 TAT-TTTTAA-C-AAAATGTAAAAAAATTCAACCTAAAATCAATTAT-GAGATTATAAAACCATT
* * * * ** * * *
9681 TAAAGTAAGTAATAAGGCTTTTAAA-ATCTTGGGTAACTATAAATGGAGTTTTCCTACCAATGAA
185 TAAAGTAAGTAACAACGCTTTCAAAGAT-ATAAGTAACTATAAATGGACTTTTCATACCAATGGA
9745 T-GCTTTT
249 TGGCTTTT
9752 TTCATCACGT
Statistics
Matches: 734, Mismatches: 174, Indels: 70
0.75 0.18 0.07
Matches are distributed among these distances:
338 1 0.00
339 18 0.02
340 185 0.25
341 453 0.62
342 59 0.08
343 8 0.01
344 10 0.01
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.35
Consensus pattern (335 bp):
ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGTATGGGTGACTATAAATGA
CTTTTCTTGCAATGAATGCCTTTTTTTCATGTTTCTCATGGTAGACATTCAATTATAATATTTTT
AACAAAATGTAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGTAAGTA
ACAACGCTTTCAAAGATATAAGTAACTATAAATGGACTTTTCATACCAATGGATGGCTTTTGCTT
CATGTTTACCAAGACAAACATTCAATTATAATATATTTTAATAAAAATGTAAAGAAATTCAACTT
AAAATCAAAT
Found at i:10031 original size:279 final size:279
Alignment explanation
Indices: 9524--10031 Score: 632
Period size: 279 Copynumber: 1.8 Consensus size: 279
9514 GTAGGAAACA
** *
9524 AGGCTTTCGAAAGCTTAGTTGACTATAAATGGACTTTTTGTGCCAATAAATGGCTTTTACTTCAC
1 AGGCTTTCGAAAGCTTAGGGGACTATAAATGGACTTTTTGTACCAATAAATGGCTTTTACTTCAC
* * * * ** *
9589 GTTTTCTAAGATCGACTTTCAATTATAATATATTTTAATCAAAAATGTAAAAACTTTTTAGCTAA
66 ATTTTCTAAGAGCGACATTCAATTATAATATATTTTAATCAAAAATATAAAAACAATTGAGCTAA
* * *
9654 AATCAATTTCAAGATTGTAAAACCATTTAAAGTAAGTAATAAGGCTTTTAAAATCTTGGGTAACT
131 AATCAATTTCAAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTTAAAAGCTTGGGTAACT
* *
9719 ATAAATGGAGTTTTCCTACCAATGAATGCTTTTTTCATCACGTTCCCTAAGGTAAATATTCAATT
196 ATAAATGAACTTTTCCTACCAATGAATGCTTTTTTCATCACGTTCCCTAAGGTAAATATTCAATT
9784 ATGTTTAAAACGAGTAATG
261 ATGTTTAAAACGAGTAATG
* * * * *
9803 AGGCTTTCGAAAGCTTGGGGGACTATTAATGGACTTTTCT-TACTAATGAATGGCTTTTTCTTCA
1 AGGCTTTCGAAAGCTTAGGGGACTATAAATGGACTTTT-TGTACCAATAAATGGCTTTTACTTCA
* * * *
9867 TATTTTCTGAG-GCAGACATTCAATTATAATTTATTTTAATCAAAACTATAAAAA-AATTGA-CT
65 CATTTTCTAAGAGC-GACATTCAATTATAATATATTTTAATCAAAAATATAAAAACAATTGAGC-
* * * **
9929 TAAGATCAATTAT-AAGATTATAAAACCATTTACAGCGAGTAATAAGGC-TTTCGAAGCTATGGG
128 TAAAATCAATT-TCAAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTTAAAAGCT-TGGG
* * *
9992 TGACTATAAATGAACTTTTCTTATCAATGAATGGCTTTTT
191 TAACTATAAATGAACTTTTCCTACCAATGAAT-GCTTTTT
10032 CTTCATATTT
Statistics
Matches: 191, Mismatches: 32, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
277 8 0.04
278 76 0.40
279 106 0.55
280 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (279 bp):
AGGCTTTCGAAAGCTTAGGGGACTATAAATGGACTTTTTGTACCAATAAATGGCTTTTACTTCAC
ATTTTCTAAGAGCGACATTCAATTATAATATATTTTAATCAAAAATATAAAAACAATTGAGCTAA
AATCAATTTCAAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTTAAAAGCTTGGGTAACT
ATAAATGAACTTTTCCTACCAATGAATGCTTTTTTCATCACGTTCCCTAAGGTAAATATTCAATT
ATGTTTAAAACGAGTAATG
Found at i:10089 original size:170 final size:170
Alignment explanation
Indices: 9787--10787 Score: 897
Period size: 170 Copynumber: 5.9 Consensus size: 170
9777 TTCAATTATG
* * * * *
9787 TTTAAAACGAGTAATGAGGCTTTCGAAAGCT-TGGGGGACTATTAATGGACTTTTCTTACTAATG
1 TTTAAAGCGAGTAATAAGGCTTTCG-AAGCTATGGGTGACTATAAATGAACTTTTCTTACTAATG
* * * * * *
9851 AATGGCTTTTTCTTCATATTTTCTGAGGCAGACATTCAATTATAATTTATTTTAA-TCAAAACTA
65 AATGGCTTTTTCTTCAT-GTTTCTCAGGCAAACATTCAATTATAATCTATTTTAACT-AAAAATG
* * *
9915 TAAAAAAATT-GACTTAAGATCAATTATAAGATTATAAAACCA
128 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCA
*
9957 TTTACAGCGAGTAATAAGGCTTTCGAAGCTATGGGTGACTATAAATGAACTTTTCTTA-TCAATG
1 TTTAAAGCGAGTAATAAGGCTTTCGAAGCTATGGGTGACTATAAATGAACTTTTCTTACT-AATG
* * *
10021 AATGGCTTTTTCTTCATATTT-TCTATGGCAAACATTCAATTATAATCTGTTTTAACTAAAAATA
65 AATGGCTTTTTCTTCATGTTTCTC-A-GGCAAACATTCAATTATAATCTATTTTAACTAAAAATG
* * * *
10085 TAAAAGAATTCATCTTAAAATCAATTATTAGATTATAAAACTA
128 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCA
* * * * * *
10128 TGTAGAGCGAGTAATAAGGCCTTCGAAGGTATGGGTGACTATAAAT-AGACTTTTCTTGCCAATG
1 TTTAAAGCGAGTAATAAGGCTTTCGAAGCTATGGGTGACTATAAATGA-ACTTTTCTTACTAATG
* * *** * *
10192 CATGGCTTTTTCTTCATGTTTCTTGAAATAAACATTCAATTATAATTTGTTTTAA-TCAAAAATG
65 AATGGCTTTTTCTTCATGTTTC-TCAGGCAAACATTCAATTATAATCTATTTTAACT-AAAAATG
* *
10256 T-AAAAAATTCAACTTAAAATCAATTATGAGGTTTTAAAACCA
128 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCA
* * ** * * *
10298 TCTAAAGTGCTTAACACGGCTTTCAAAGGCT-TGGGTGACTATAAATGAACTTTT-TTCAGC-AA
1 TTTAAAGCGAGTAATAAGGCTTTCGAA-GCTATGGGTGACTATAAATGAACTTTTCTT-A-CTAA
* * * * * * * *
10360 TGAATGG-TTTTGCTTCATGTTTTATGAGGCAGACATTCCATTATAATCTATCTTAACCAAAACT
63 TGAATGGCTTTTTCTTCATG-TTTCTCAGGCAAACATTCAATTATAATCTATTTTAACTAAAAAT
* * *
10424 GTATAAGAATTCAATTTAAAATCAATTATGAGATTATAAAACCA
127 GTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCA
********** * * *
10468 TTTANNNNNNNNNNTAAGGCTTTCGAAGAC-ATAGGCGACTATAAAT-AGA-TTTTTTTACTAAT
1 TTTAAAGCGAGTAATAAGGCTTTCGAAG-CTATGGGTGACTATAAATGA-ACTTTTCTTACTAAT
* * * * * * *
10530 AAATGACTTTTTCTTCACGTTTCTCAAGGCAGACATTCAATTATATTTTATTTTAACTAAAACTG
64 GAATGGCTTTTTCTTCATGTTTCTC-AGGCAAACATTCAATTATAATCTATTTTAACTAAAAATG
*
10595 TAAAAAAATTCAACTTAAAATC-ATCTACGAGATTATAAAACCA
128 TAAAAAAATTCAACTTAAAATCAAT-TATGAGATTATAAAACCA
* * * * * *
10638 TTTAAAGCAAGTAATAAAGG-TTTCGAAGGC-ATGGGTAATTATAAATGGACTTTTCTTGCTACT
1 TTTAAAGCGAGTAAT-AAGGCTTTCGAA-GCTATGGGTGACTATAAATGAACTTTTCTTACTAAT
* * *
10701 GAATAGCTTTTT-TTCATGTTTCTCAAGGTAAAAATTCAATTATAATCTATTTTAACTAAAAATG
64 GAATGGCTTTTTCTTCATGTTTCTC-AGGCAAACATTCAATTATAATCTATTTTAACTAAAAATG
* * *
10765 TTAAACAATTCAACTAAAAATCA
128 TAAAAAAATTCAACTTAAAATCA
10788 NNNNNNNNNN
Statistics
Matches: 671, Mismatches: 129, Indels: 61
0.78 0.15 0.07
Matches are distributed among these distances:
168 2 0.00
169 74 0.11
170 431 0.64
171 162 0.24
172 1 0.00
173 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.36
Consensus pattern (170 bp):
TTTAAAGCGAGTAATAAGGCTTTCGAAGCTATGGGTGACTATAAATGAACTTTTCTTACTAATGA
ATGGCTTTTTCTTCATGTTTCTCAGGCAAACATTCAATTATAATCTATTTTAACTAAAAATGTAA
AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCA
Found at i:10777 original size:510 final size:511
Alignment explanation
Indices: 9804--10787 Score: 1168
Period size: 510 Copynumber: 1.9 Consensus size: 511
9794 CGAGTAATGA
* * *
9804 GGCTTTCGAAAGCTTGGGGGACTATTAATGGACTTTTCTTACTAATGAATGGCTTTTTCTTCATA
1 GGCTTTCGAAAGCTTGGGGGACTATAAATGAACTTTTCTTACTAATGAATGGCTTTTGCTTCATA
* * * * * *
9869 TTTTCTGAGGCAGACATTCAATTATAATTTATTTTAATCAAAACTATAAAAAAATTGACTTAAGA
66 TTTTATGAGGCAGACATTCAATTATAATCTATCTTAACCAAAACTATAAAAAAATTAACTTAAAA
* *
9934 TCAATTATAAGATTATAAAACCATTTACAGCGAGTAATAAGGCTTTCGAAGCTATGGGTGACTAT
131 TCAATTATAAGATTATAAAACCATTTACAGCGAGTAATAAGGCTTTCGAAGCTATAGGCGACTAT
* * * *
9999 AAATGAACTTTTCTTATCAATGAATGGCTTTTTCTTCATATTTTCTATGGCAAACATTCAATTAT
196 AAATGAACTTTTCTTATCAATAAATGACTTTTTCTTCACATTTTCTAAGGCAAACATTCAATTAT
* * * ** *
10064 AATCTGTTTTAACTAAAAATATAAAAGAATTCATCTTAAAATCAATTATTAGATTATAAAACTAT
261 AATCTATTTTAACTAAAAATATAAAAAAATTCAACTTAAAATCAATTACGAGATTATAAAACCAT
* * * * *
10129 GTAGAGCGAGTAATAAGGCCTTCGAAGGTATGGGTGACTATAAATAGACTTTTCTTGCCAATGCA
326 GTAAAGCAAGTAATAAGGCCTTCGAAGGCATGGGTAACTATAAATAGACTTTTCTTGCCAATGAA
* * * * *
10194 TGGCTTTTTCTTCATGTTTCTTGAAATAAACATTCAATTATAATTTGTTTTAATCAAAAATGTAA
391 TAGCTTTTTCTTCATGTTTCTTCAAATAAAAATTCAATTATAATCTATTTTAATCAAAAATGTAA
*
10259 AAAATTCAACTTAAAATCAATTATGAGGTTTTAAAACCATCTAAAGTGCTTAACAC
456 AAAATTCAACTAAAAATCAATTATGAGGTTTTAAAACCATCTAAAGTGCTTAACAC
*
10315 GGCTTTC-AAAGGCTTGGGTGACTATAAATGAACTTTT-TTCAGC-AATGAATGG-TTTTGCTTC
1 GGCTTTCGAAA-GCTTGGGGGACTATAAATGAACTTTTCTT-A-CTAATGAATGGCTTTTGCTTC
* * * * * *
10376 ATGTTTTATGAGGCAGACATTCCATTATAATCTATCTTAACCAAAACTGTATAAGAATTCAATTT
63 ATATTTTATGAGGCAGACATTCAATTATAATCTATCTTAACCAAAACTATAAAAAAATT-AACTT
* **********
10441 AAAATCAATTATGAGATTATAAAACCATTTANNNNNNNNNNTAAGGCTTTCGAAGAC-ATAGGCG
127 AAAATCAATTATAAGATTATAAAACCATTTACAGCGAGTAATAAGGCTTTCGAAG-CTATAGGCG
* * *
10505 ACTATAAAT-AGA-TTTTTTTA-CTAATAAATGACTTTTTCTTCAC-GTTTCTCAAGGCAGACAT
191 ACTATAAATGA-ACTTTTCTTATC-AATAAATGACTTTTTCTTCACATTTTCT-AAGGCAAACAT
* * * *
10566 TCAATTATATTTTATTTTAACTAAAACTGTAAAAAAATTCAACTTAAAATC-ATCTACGAGATTA
253 TCAATTATAATCTATTTTAACTAAAAATATAAAAAAATTCAACTTAAAATCAAT-TACGAGATTA
* * * *
10630 TAAAACCATTTAAAGCAAGTAATAAAGG-TTTCGAAGGCATGGGTAATTATAAATGGACTTTTCT
317 TAAAACCATGTAAAGCAAGTAAT-AAGGCCTTCGAAGGCATGGGTAACTATAAATAGACTTTTCT
* * *
10694 TGCTACTGAATAGCTTTTT-TTCATGTTTC-TCAAGGTAAAAATTCAATTATAATCTATTTTAA-
381 TGCCAATGAATAGCTTTTTCTTCATGTTTCTTCAA-ATAAAAATTCAATTATAATCTATTTTAAT
*
10756 CTAAAAATGTTAAACAATTCAACTAAAAATCA
445 C-AAAAATG-TAAAAAATTCAACTAAAAATCA
10788 NNNNNNNNNN
Statistics
Matches: 395, Mismatches: 65, Indels: 27
0.81 0.13 0.06
Matches are distributed among these distances:
508 4 0.01
509 49 0.12
510 235 0.59
511 105 0.27
512 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.36
Consensus pattern (511 bp):
GGCTTTCGAAAGCTTGGGGGACTATAAATGAACTTTTCTTACTAATGAATGGCTTTTGCTTCATA
TTTTATGAGGCAGACATTCAATTATAATCTATCTTAACCAAAACTATAAAAAAATTAACTTAAAA
TCAATTATAAGATTATAAAACCATTTACAGCGAGTAATAAGGCTTTCGAAGCTATAGGCGACTAT
AAATGAACTTTTCTTATCAATAAATGACTTTTTCTTCACATTTTCTAAGGCAAACATTCAATTAT
AATCTATTTTAACTAAAAATATAAAAAAATTCAACTTAAAATCAATTACGAGATTATAAAACCAT
GTAAAGCAAGTAATAAGGCCTTCGAAGGCATGGGTAACTATAAATAGACTTTTCTTGCCAATGAA
TAGCTTTTTCTTCATGTTTCTTCAAATAAAAATTCAATTATAATCTATTTTAATCAAAAATGTAA
AAAATTCAACTAAAAATCAATTATGAGGTTTTAAAACCATCTAAAGTGCTTAACAC
Found at i:11690 original size:171 final size:170
Alignment explanation
Indices: 10955--13019 Score: 1602
Period size: 170 Copynumber: 12.2 Consensus size: 170
10945 NNNNNATATA
* * * * * *
10955 AAAAAATTAAACTTAAAATTAACTATGAGATTATAAAACCATTTAAAGCGAGTAAT-AGGAATTT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGTGAGTAATAAGG-CTTT
* *** * * * * * *
11019 TGAAGGCAAAAGCGACTATAAGT-AGACTTTTCTTGCTAATGAATGACTTTTT-TTCAAGTTTCT
65 CGAAGGCATTGGTGACTATAAATGA-ACTTTTCTTACCAATGAATGGCTTTTTCTTCACGTTTCT
* ** * * *
11082 CGAGGTAAAGATTCAATTATAATATAG-TTTAAC-CAAAATGT
129 CAAGACAGACATTCAATTATAATAT-GTTTTAACTAAAAATGT
* * * *
11123 AAAAAAATTTAACCTAAAATCAATTATAAGATTATAAAACTATTTAAAGTGAGTAATAAGGCCTT
1 -AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTT
** * * * * * * * *
11188 -GAAAAACATAGGTGACAATAAATGAGCTTTTCTTTCTAATGCATGGCTTTTTCCTCGCGTTTCT
65 CG-AAGGCATTGGTGACTATAAATGAACTTTTCTTACCAATGAATGGCTTTTTCTTCACGTTTCT
* * * * * * **
11252 -GAGACAAACAATCAGTTATGATTTGTTTTAACTCCAAATGT
129 CAAGACAGACATTCAATTATAATATGTTTTAACTAAAAATGT
* * * *
11293 AAAAAAATTCAACTTAAAATCAATTATGAGTTTATAAAACCATTAAAAGTGAGTAACAAGGCTTT
1 -AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTT
* * * * * * *
11358 CGAAGGC-TTCGGTGACAATAAATGGACTTTTCATACCAATAAATGACTTTTGCTTCATGTTTCT
65 CGAAGGCATT-GGTGACTATAAATGAACTTTTCTTACCAATGAATGGCTTTTTCTTCACGTTTCT
* * * *
11422 -GAGACATACTTTCAATTATAATATG-TTTAATTAAAAATGT
129 CAAGACAGACATTCAATTATAATATGTTTTAACTAAAAATGT
* * *
11462 AAAAACATTTAACCTACAATCAATT-TCGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTT
1 AAAAA-ATTCAACTTAAAATCAATTAT-GAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTT
* * * **
11526 TCAAAGGCTTTGGTGACTATAAATGAACTTTTTTTGTCAATGAATGGCTTTTTCTTCACGTTTCT
64 TCGAAGGCATTGGTGACTATAAATGAACTTTTCTTACCAATGAATGGCTTTTTCTTCACGTTTCT
* * * * *
11591 CAATACAGACAATCCATTATAATATGTTTTAACCAAAAATAT
129 CAAGACAGACATTCAATTATAATATGTTTTAACTAAAAATGT
* * **
11633 AAAAGAATTCCACTTAAAATCAATTATGAGATCATAAAACTATTTAAAGCAAGTAATAAGGCTTT
1 AAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTT
* * * * *
11698 TGAAGGCA-TGAGTGACTATGAATGAACTTTTCTTGCCAATG-AGGAGCTTTTTCTTCACATTTC
65 CGAAGGCATTG-GTGACTATAAATGAACTTTTCTTACCAATGAATG-GCTTTTTCTTCACGTTTC
* * * * * *
11761 -CTAAGAAAAATATTCAATTATAATCTGTTTTAACCAAAAATAT
128 TC-AAGACAGACATTCAATTATAATATGTTTTAACTAAAAATGT
* * * * * *
11804 AAAACATTTAACCTAAAATTAATTATGAGATTATAAAACCATTGAAAGTGAGTAATAAGGCCTTT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGTGAGTAATAAGG-CTTT
* * * * ** * *** *
11869 -GAAGGTA-TGAGGGACTATAAATGGACTTTTCTTACCAATGCATAACTTTTCCTTCTTATTTCC
65 CGAAGGCATTG-GTGACTATAAATGAACTTTTCTTACCAATGAATGGCTTTTTCTTCACGTTTCT
* *
11932 CGAGACA-AGCATTCAATTATAATCTG-TTTAACTAAAAATGT
129 CAAGACAGA-CATTCAATTATAATATGTTTTAACTAAAAATGT
* * * * * *
11973 AAAAAAGTTCAGCTAAAAATCAATTATGAGATTATAAAGCCATTTAAAGCGAGTAATAAGGCCTT
1 AAAAAA-TTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTT
* * * * * *
12038 CAAAGGCATGGGTGACTATAAATGAACTTTTCTTACCAATGCATGGCTTTTTCTTTATGTTTCCC
65 CGAAGGCATTGGTGACTATAAATGAACTTTTCTTACCAATGAATGGCTTTTTCTTCACGTTTCTC
* * *
12103 TAGATAGACAATT-AATTATAATCTG--TT---T----A---
130 AAGACAGAC-ATTCAATTATAATATGTTTTAACTAAAAATGT
* * * *
12132 AAAAAATTCAACTTAAAATCAATTATGATATTTTAAAA-TCATTTAAAGCGAGTGATAAGGCTTT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACT-ATTTAAAGTGAGTAATAAGGCTTT
* * * * ** * *
12196 TGAAGG-AATGGATGACTATAAATGGACTTTTCTTCCCAATGACA-ACCTTTTCCTTCATGTTTC
65 CGAAGGCATTGG-TGACTATAAATGAACTTTTCTTACCAATGA-ATGGCTTTTTCTTCACGTTTC
** * * * * * * *
12259 TCAAGGTAAAAATTCAACTATAATTTGGTTTAAGTAAAAATAT
128 TCAAGACAGACATTCAATTATAATATGTTTTAACTAAAAATGT
* *
12302 AAAAAAAATTTAACTTAAAATCAATTATGGGATTATAAAACTATTTAAAGTGAGTAATAAGGCTT
1 --AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTT
* ** * * *
12367 TCGAAGGCATGGGTGACTATAAAT-AGACTTTT-TTAGTTAATGAATGACTTTTTCTTTACATTT
64 TCGAAGGCATTGGTGACTATAAATGA-ACTTTTCTTA-CCAATGAATGGCTTTTTCTTCACGTTT
* * *
12430 -TCTAAGGCAAACATTCAATTATAATATGTTTTAACTAAAAATAT
127 CTC-AAGACAGACATTCAATTATAATATGTTTTAACTAAAAATGT
* * * *
12474 AAAAAAATTCAACTTAAAATGAATTTTTAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTT
1 -AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTT
* *** * * * * * * *
12539 TGAAATAATAGGTGACAATAAATTATCTTTTCTTGCCAATTAATGGCTTTTTCTTCACATTTC-C
65 CGAAGGCATTGGTGACTATAAATGAACTTTTCTTACCAATGAATGGCTTTTTCTTCACGTTTCTC
* * *
12603 TAAGGCAGACATTCAATTATAATTTATTTTAACTAAAAATGT
130 -AAGACAGACATTCAATTATAATATGTTTTAACTAAAAATGT
* * * * *
12645 AAACCAAATTCAACTTAAAATCAATTTTGAAATTACAAAGCTATTTAAAGTGAGAAATAAGGCTT
1 AAA--AAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTT
* * * * * * * * *
12710 TTGGAGG-AATGAATTACTATAAATGAACTTTTCTTATCAATAAATGCCTTTTTCTTCACATTTC
64 TCGAAGGCATTG-GTGACTATAAATGAACTTTTCTTACCAATGAATGGCTTTTTCTTCACGTTTC
* ** * * *
12774 TTAAGGTAAACATTCAATTATAGTTTGTTTTAACTAAAAATGT
128 TCAAGACAGACATTCAATTATAATATGTTTTAACTAAAAATGT
* * * * * * *
12817 AAAAAATTCAACTTAAAATTACTTATGAGATTATAAAACCATTTAAAATAAGTAATATGGCTTTT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTC
* ** * * ** * *
12882 AAAGGC-TTGAGCAACTATAAATGGACTTTTCTTACCAACGAATTACTTTTTCTTTACGTTTCCC
66 GAAGGCATTG-GTGACTATAAATGAACTTTTCTTACCAATGAATGGCTTTTTCTTCACGTTTCTC
* * * * * *
12946 AAGATAGATATTTAATTATAATCTATTTCAA-TCAAAAATGT
130 AAGACAGACATTCAATTATAATATGTTTTAACT-AAAAATGT
* *
12987 AAAACAATTCAGCTTAAAATCAATTGTGAGATT
1 AAAA-AATTCAACTTAAAATCAATTATGAGATT
13020 NNNNNNNNNN
Statistics
Matches: 1535, Mismatches: 300, Indels: 120
0.79 0.15 0.06
Matches are distributed among these distances:
157 6 0.00
158 111 0.07
159 7 0.00
160 2 0.00
162 1 0.00
163 1 0.00
166 1 0.00
167 1 0.00
168 8 0.01
169 249 0.16
170 531 0.35
171 338 0.22
172 275 0.18
173 4 0.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (170 bp):
AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTC
GAAGGCATTGGTGACTATAAATGAACTTTTCTTACCAATGAATGGCTTTTTCTTCACGTTTCTCA
AGACAGACATTCAATTATAATATGTTTTAACTAAAAATGT
Found at i:12281 original size:158 final size:159
Alignment explanation
Indices: 11972--12398 Score: 376
Period size: 158 Copynumber: 2.6 Consensus size: 159
11962 ACTAAAAATG
* * *
11972 TAAAAAAGTTCAGCTAAAAATCAATTATGAGATTATAAAGCCATTTAAAGCGAGTAATAAGGCCT
1 TAAAAAAATTCAACTAAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCCT
* * ** * *
12037 TCAAAGGCATGGGTGACTATAAATGAACTTTTCTTACCAATGCATGGCTTTTTCTTTATGTTTCC
66 TCAAAGGAATGGATGACTATAAATGAACTTTTCTTACCAATGCATACCTTTTCCTTCATGTTTCC
* * *
12102 CTAGATAGACAATTAATTATAATCT-GTT
131 CAAGATAGAAAATTAACTATAATCTGGTT
* * * * * *
12130 TAAAAAAATTCAACTTAAAATCAATTATGATATTTTAAAATCATTTAAAGCGAGTGATAAGGCTT
1 TAAAAAAATTCAACTAAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCCT
** * *
12195 TTGAAGGAATGGATGACTATAAATGGACTTTTCTTCCCAATGACA-ACCTTTTCCTTCATGTTTC
66 TCAAAGGAATGGATGACTATAAATGAACTTTTCTTACCAATG-CATACCTTTTCCTTCATGTTTC
* * *
12259 TCAAGGTA-AAAATTCAACTATAATTTGGTTTAAGTAAAAAT
130 CCAAGATAGAAAATT-AACTATAATCT-G-----GT-----T
* * * * *
12300 ATAAAAAAAATTTAACTTAAAATCAATTATGGGATTATAAAACTATTTAAAGTGAGTAATAAGGC
1 -T-AAAAAAATTCAACTAAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGC
* * * *
12365 TTTCGAAGGCATGGGTGACTATAAAT-AGACTTTT
64 CTTCAAAGGAATGGATGACTATAAATGA-ACTTTT
12399 TTAGTTAATG
Statistics
Matches: 215, Mismatches: 37, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
157 5 0.02
158 121 0.56
159 2 0.01
165 2 0.01
170 1 0.00
171 1 0.00
172 83 0.39
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (159 bp):
TAAAAAAATTCAACTAAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCCT
TCAAAGGAATGGATGACTATAAATGAACTTTTCTTACCAATGCATACCTTTTCCTTCATGTTTCC
CAAGATAGAAAATTAACTATAATCTGGTT
Found at i:12471 original size:172 final size:171
Alignment explanation
Indices: 12130--13019 Score: 846
Period size: 172 Copynumber: 5.2 Consensus size: 171
12120 ATAATCTGTT
* * * *
12130 TAAAAAAATTCAACTTAAAATCAATTATGATATTTTAAAA-TCATTTAAAGCGAGTGATAAGGCT
1 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACT-ATTTAAAGTGAGTAATAAGGCT
* * * * *
12194 TTTGAAGGAATGGATGACTATAAATGGACTTTTCTTCCCAATGACA--ACCTTTTCCTT-CATGT
65 TTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTACCAATGA-ATGACTTTTTCTTTACAT-T
* * * * *
12256 TTCTCAAGGTAAAAATTCAACTATAATTTGGTTTAAGTAAAAATA
128 TTCT-AAGGCAAACATTCAATTATAATTTGTTTTAACTAAAAATA
* *
12301 TAAAAAAAATTTAACTTAAAATCAATTATGGGATTATAAAACTATTTAAAGTGAGTAATAAGGCT
1 T-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCT
* * **
12366 TTCGAAGGCATGGGTGACTATAAATAGACTTTT-TTAGTTAATGAATGACTTTTTCTTTACATTT
65 TTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTA-CCAATGAATGACTTTTTCTTTACATTT
*
12430 TCTAAGGCAAACATTCAATTATAATATGTTTTAACTAAAAATA
129 TCTAAGGCAAACATTCAATTATAATTTGTTTTAACTAAAAATA
* * * *
12473 TAAAAAAATTCAACTTAAAATGAATTTTTAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTT
1 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTT
** * * * * * * * *
12538 TTGAAATAATAGGTGACAATAAATTA-TCTTTTCTTGCCAATTAATGGCTTTTTCTTCACATTTC
66 TTGAAGGAATGGGTGACTATAAA-TAGACTTTTCTTACCAATGAATGACTTTTTCTTTACATTTT
* * *
12602 CTAAGGCAGACATTCAATTATAATTTATTTTAACTAAAAATG
130 CTAAGGCAAACATTCAATTATAATTTGTTTTAACTAAAAATA
* * * * * *
12644 TAAACCAAATTCAACTTAAAATCAATTTTGAAATTACAAAGCTATTTAAAGTGAGAAATAAGGCT
1 TAAA-AAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCT
* ** * * * * *
12709 TTTGGAGGAATGAATTACTATAAAT-GAACTTTTCTTATCAATAAATGCCTTTTTCTTCACA-TT
65 TTTGAAGGAATGGGTGACTATAAATAG-ACTTTTCTTACCAATGAATGACTTTTTCTTTACATTT
* * *
12772 TCTTAAGGTAAACATTCAATTATAGTTTGTTTTAACTAAAAATG
129 TC-TAAGGCAAACATTCAATTATAATTTGTTTTAACTAAAAATA
* * * * * *
12816 T-AAAAAATTCAACTTAAAATTACTTATGAGATTATAAAACCATTTAAAATAAGTAATATGGCTT
1 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTT
* ** * ** * * * * *
12880 TTAAAGGCTTGAGCAACTATAAATGGACTTTTCTTACCAACGAATTACTTTTTCTTTACGTTTCC
66 TTGAAGGAATGGGTGACTATAAATAGACTTTTCTTACCAATGAATGACTTTTTCTTTACATTTTC
* ** * * * * * * *
12945 CAAGATAGATATTTAATTATAATCTATTTCAA-TCAAAAATG
131 TAAGGCAAACATTCAATTATAATTTGTTTTAACT-AAAAATA
* * *
12986 TAAAACAATTCAGCTTAAAATCAATTGTGAGATT
1 TAAAAAAATTCAACTTAAAATCAATTATGAGATT
13020 NNNNNNNNNN
Statistics
Matches: 591, Mismatches: 112, Indels: 32
0.80 0.15 0.04
Matches are distributed among these distances:
169 1 0.00
170 124 0.21
171 185 0.31
172 263 0.45
173 15 0.03
174 3 0.01
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (171 bp):
TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTT
TTGAAGGAATGGGTGACTATAAATAGACTTTTCTTACCAATGAATGACTTTTTCTTTACATTTTC
TAAGGCAAACATTCAATTATAATTTGTTTTAACTAAAAATA
Found at i:12763 original size:343 final size:343
Alignment explanation
Indices: 12130--12885 Score: 891
Period size: 343 Copynumber: 2.2 Consensus size: 343
12120 ATAATCTGTT
* * * * *
12130 TAAAAAAATTCAACTTAAAATCAATTATGATATTTTAAAATCATTTAAAGCGAGTGATAAGGCTT
1 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTT
* * **
12195 TTGAAGGAATGGATGACTATAAATGGACTTTTCTTCCCAATGACAACCTTTTCCTTCATGTTTCT
66 TTGAAAGAATGGATGACAATAAATGGACTTTTCTTCCCAATGACAACCTTTTCCTTCACATTTCT
* * * *
12260 CAAGGTAAAAATTCAACTATAATTTGGTTTAAGTAAAAATATAAAAAAAATTTAACTTAAAATCA
131 CAAGGCAAAAATTCAACTATAATTTAGTTTAACTAAAAATATAAAAAAAATTCAACTTAAAATCA
** * * * **
12325 ATTATGGGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAA
196 ATTATGAAATTACAAAACTATTTAAAGTGAGAAATAAGGCTTTCGAAGGAATGAATGACTATAAA
* * *
12390 TAGACTTTTTTAGTTAATGAATGACTTTTTCTTTACATTT-TCTAAGGCAAACATTCAATTATAA
261 TAGACTTTTTTAGTCAATAAATGACTTTTTCTTCACATTTCT-TAAGGCAAACATTCAATTATAA
12454 TATGTTTTAACTAAAAATA
325 TATGTTTTAACTAAAAATA
* * *
12473 TAAAAAAATTCAACTTAAAATGAATTTTTAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTT
1 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTT
* * * * ** *
12538 TTGAAATAATAGG-TGACAATAAAT-TATCTTTTCTTGCCAATTA-ATGGCTTTTTCTTCACATT
66 TTGAAAGAAT-GGATGACAATAAATGGA-CTTTTCTTCCCAATGACA-ACCTTTTCCTTCACATT
* * * * * **
12600 TC-CTAAGGCAGACATTCAATTATAATTTATTTTAACTAAAAATGTAAACCAAATTCAACTTAAA
128 TCTC-AAGGCAAAAATTCAACTATAATTTAGTTTAACTAAAAATATAAAAAAAATTCAACTTAAA
* * * * *
12664 ATCAATTTTGAAATTACAAAGCTATTTAAAGTGAGAAATAAGGCTTTTGGAGGAATGAATTACTA
192 ATCAATTATGAAATTACAAAACTATTTAAAGTGAGAAATAAGGCTTTCGAAGGAATGAATGACTA
* *
12729 TAAAT-GAACTTTTCTTA-TCAATAAATGCCTTTTTCTTCACATTTCTTAAGGTAAACATTCAAT
257 TAAATAG-ACTTTT-TTAGTCAATAAATGACTTTTTCTTCACATTTCTTAAGGCAAACATTCAAT
* * *
12792 TATAGTTTGTTTTAACTAAAAATG
320 TATAATATGTTTTAACTAAAAATA
* * * * *
12816 T-AAAAAATTCAACTTAAAATTACTTATGAGATTATAAAACCATTTAAAATAAGTAATATGGCTT
1 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTT
12880 TT-AAAG
66 TTGAAAG
12886 GCTTGAGCAA
Statistics
Matches: 348, Mismatches: 58, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
341 3 0.01
342 62 0.18
343 277 0.80
344 6 0.02
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.37
Consensus pattern (343 bp):
TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTT
TTGAAAGAATGGATGACAATAAATGGACTTTTCTTCCCAATGACAACCTTTTCCTTCACATTTCT
CAAGGCAAAAATTCAACTATAATTTAGTTTAACTAAAAATATAAAAAAAATTCAACTTAAAATCA
ATTATGAAATTACAAAACTATTTAAAGTGAGAAATAAGGCTTTCGAAGGAATGAATGACTATAAA
TAGACTTTTTTAGTCAATAAATGACTTTTTCTTCACATTTCTTAAGGCAAACATTCAATTATAAT
ATGTTTTAACTAAAAATA
Found at i:13628 original size:175 final size:170
Alignment explanation
Indices: 13427--13835 Score: 482
Period size: 170 Copynumber: 2.4 Consensus size: 170
13417 AACCAAAGAT
* * *
13427 GTAAAAATATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAACGAGAAATAAGGCT
1 GTAAAAAAAATCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAACGAGTAATAAGGCT
* *
13492 TTTG-AAGAAATGGACAATAAACTATAAATAGACTTTTCTTGTCCATAAAT-GCTTTTTTCTTCA
66 TTTGAAAGAAATGG----T-AACTATAAATAGACTTTTCTTGTCAATAAATAAC--TTTTCTTCA
* *
13555 CG-TTTTTCAAGACAAACATTCAATTATACTCTATTTTAACTAAAACG
124 CGCTTCTT-AAGACAAACATTCAATTATACTCTATTTTAACTAAAAAG
* *** * *
13602 GTAAAAAAAATCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGTAAGTAATAGGGTT
1 GTAAAAAAAATCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAACGAGTAATAAGGCT
* * * * *
13667 TTTGAAAGAATTGGTGACTATAAATGGACTTTTCTTGTCAATGAATAACTTTTCTTCAGGCTTCT
66 TTTGAAAGAAATGGTAACTATAAATAGACTTTTCTTGTCAATAAATAACTTTTCTTCACGCTTCT
**** * *
13732 TAAGTTGGACATTCAATTATACTCTGTTTTAACTAAAAAT
131 TAAGACAAACATTCAATTATACTCTATTTTAACTAAAAAG
* * *
13772 GTAAAAAAAGTCAACTTAAAATCAATTATGAGATCATAAAACTATTTAAAACGAGTAATAAGGC
1 GTAAAAAAAATCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAACGAGTAATAAGGC
13836 CTTGTAAGGA
Statistics
Matches: 198, Mismatches: 33, Indels: 11
0.82 0.14 0.05
Matches are distributed among these distances:
170 97 0.49
171 31 0.16
172 2 0.01
175 60 0.30
176 8 0.04
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (170 bp):
GTAAAAAAAATCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAACGAGTAATAAGGCT
TTTGAAAGAAATGGTAACTATAAATAGACTTTTCTTGTCAATAAATAACTTTTCTTCACGCTTCT
TAAGACAAACATTCAATTATACTCTATTTTAACTAAAAAG
Found at i:13794 original size:170 final size:168
Alignment explanation
Indices: 13334--13835 Score: 504
Period size: 175 Copynumber: 2.9 Consensus size: 168
13324 AAAGGAATAA
** * * **
13334 GTGACTATAAATGGACTTTTCTTACCAATGAATACCTTTTTCTTCATGTTTCCCCAAGCAAACAT
1 GTGACTATAAATGGACTTTTCTTGTCAATGAATAACTTTTTCTTCACG-TT-CTTAAGCAAACAT
* * * * * * * * *
13399 TTAATTATATTTTGGTCTAACCAAAGATGTAAAAATATTCAACTTAAAATCAATTATGAGATTAT
64 TCAATTATACTCTGTTTTAACTAAAAATGTAAAAAAAATCAACTTAAAATCAATTATGAGATTAT
*
13464 AAAACCATTTAAAACGAGAAATAAGGCTTTTGAAGAAATG
129 AAAACCATTTAAAACAAGAAATAAGGCTTTTGAAGAAATG
* * * * * *
13504 GACAATAAACTATAAATAGACTTTTCTTGTCCATAAAT-GCTTTTTTCTTCACGTTTTTCAAGAC
1 G----T-GACTATAAATGGACTTTTCTTGTCAATGAATAAC-TTTTTCTTCACGTTCTT-AAG-C
* ** *
13568 AAACATTCAATTATACTCTATTTTAACTAAAACGGTAAAAAAAATCAACCTAAAATCAATTATGA
58 AAACATTCAATTATACTCTGTTTTAACTAAAAATGTAAAAAAAATCAACTTAAAATCAATTATGA
** * * * *
13633 GATTATAAAACCATTTAAAGTAAGTAATAGGGTTTTTGAAAGAATTG
123 GATTATAAAACCATTTAAAACAAGAAATAAGGCTTTTG-AAGAAATG
* ***
13680 GTGACTATAAATGGACTTTTCTTGTCAATGAATAAC-TTTTCTTCAGGCTTCTTAAGTTGGACAT
1 GTGACTATAAATGGACTTTTCTTGTCAATGAATAACTTTTTCTTCACG-TTCTTAAG-CAAACAT
* *
13744 TCAATTATACTCTGTTTTAACTAAAAATGTAAAAAAAGTCAACTTAAAATCAATTATGAGATCAT
64 TCAATTATACTCTGTTTTAACTAAAAATGTAAAAAAAATCAACTTAAAATCAATTATGAGATTAT
* * *
13809 AAAACTATTTAAAACGAGTAATAAGGC
129 AAAACCATTTAAAACAAGAAATAAGGC
13836 CTTGTAAGGA
Statistics
Matches: 267, Mismatches: 54, Indels: 22
0.78 0.16 0.06
Matches are distributed among these distances:
170 98 0.37
171 31 0.12
172 2 0.01
174 7 0.03
175 121 0.45
176 8 0.03
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (168 bp):
GTGACTATAAATGGACTTTTCTTGTCAATGAATAACTTTTTCTTCACGTTCTTAAGCAAACATTC
AATTATACTCTGTTTTAACTAAAAATGTAAAAAAAATCAACTTAAAATCAATTATGAGATTATAA
AACCATTTAAAACAAGAAATAAGGCTTTTGAAGAAATG
Found at i:14970 original size:341 final size:340
Alignment explanation
Indices: 14317--14993 Score: 821
Period size: 341 Copynumber: 2.0 Consensus size: 340
14307 NNNNNNNNNN
*
14317 TAAGGCTTTTAAAGGAATGGGTAACTATAAATAGACTTTTCTTACCAATGAATGTCATTTTCTTC
1 TAAGGCTTTTAAAGGAATGAGTAACTATAAATAGACTTTTCTTACCAATGAATGTCATTTTCTTC
*
14382 ACATTTCTCGAGAGGGACATTCAATTATAATCTGTTTTAACTAAAAATGTGAAAAAAATCAACTT
66 ACATTTCTCGAGAGGGACATTCAATTATAATCTATTTTAACTAAAAATGTGAAAAAAATCAACTT
* *
14447 AAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGAATGAGCGAC
131 AAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGAATGAGCGAC
* * * * *
14512 TATAAATGGACTTTTCTTGCCAATAAATACTTATTTCTTCACGTTTCCTAAGTTGGAAGTTTAAT
196 TATAAATGGACTTTTCTTGCCAATAAATACTTATTTCTTCACGTTTCCCAAG-TGAAAATTCAAC
* *
14577 TATAATCTATTCTAACAAAAAATATAGAAATATTCAACTTAAAATAAATTATGAGATTATGAAAC
260 TATAATCTATTCTAACAAAAAATATAAAAATATTCAACTTAAAATAAATTATGAGATTATAAAAC
14642 CATTTAAAGTGACTAA
325 CATTTAAAGTGACTAA
* * * * * *
14658 TAAGGCTTTTGAAGGAATTAGTGACTATAAAT-GAACTTTTCTTGCTAATGAATG-CCTTTTCTT
1 TAAGGCTTTTAAAGGAATGAGTAACTATAAATAG-ACTTTTCTTACCAATGAATGTCATTTTCTT
* * * * * *
14721 CATATTTCTC-A-AGGTAGACATTCAATTATAATTTATTTTAACTAAAAGT-TTAGAAAAATTGA
65 CACATTTCTCGAGAGG--GACATTCAATTATAATCTATTTTAACTAAAAATGTGA-AAAAAATCA
* * * ******
14783 ACTTAAACTCAATTATGAGATTATAAAGCCATTTAAAGCGAGTAATAAGGCTTTTAAANNNNNNN
127 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAA-GAATGA
*** * * *
14848 NNNACTATAAATGGACTTTTTTTGCCAATGAATACCTT-TTTCTTCATGTTTCCCAAG-GCAAAC
191 GCGACTATAAATGGACTTTTCTTGCCAATAAATA-CTTATTTCTTCACGTTTCCCAAGTG-AAA-
* * * * *
14911 ATTCAACTATATTTTGA-TCTAACCAAAATTATAAAAATATTCAACTTAAAATTAATTATGAGAT
253 ATTCAACTATAATCT-ATTCTAACAAAAAATATAAAAATATTCAACTTAAAATAAATTATGAGAT
14975 TATAAAACCATTTAAAGTG
317 TATAAAACCATTTAAAGTG
14994 NNNNNNNNNN
Statistics
Matches: 284, Mismatches: 43, Indels: 18
0.82 0.12 0.05
Matches are distributed among these distances:
338 3 0.01
339 4 0.01
340 110 0.39
341 163 0.57
342 4 0.01
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.35
Consensus pattern (340 bp):
TAAGGCTTTTAAAGGAATGAGTAACTATAAATAGACTTTTCTTACCAATGAATGTCATTTTCTTC
ACATTTCTCGAGAGGGACATTCAATTATAATCTATTTTAACTAAAAATGTGAAAAAAATCAACTT
AAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGAATGAGCGAC
TATAAATGGACTTTTCTTGCCAATAAATACTTATTTCTTCACGTTTCCCAAGTGAAAATTCAACT
ATAATCTATTCTAACAAAAAATATAAAAATATTCAACTTAAAATAAATTATGAGATTATAAAACC
ATTTAAAGTGACTAA
Found at i:14977 original size:171 final size:169
Alignment explanation
Indices: 14317--14991 Score: 605
Period size: 170 Copynumber: 4.0 Consensus size: 169
14307 NNNNNNNNNN
* * ** * * ** *
14317 TAAGGCTTTTAAAGGAATGGGTAACTATAAATAGACTTTTCTTACCAATGAATGTCATTTTCTTC
1 TAAGGCTTTTGAA-GAATGAGCGACTATAAATGGACTTTTCTTGCCAATGAATACCTTTTTCTTC
** * * * * *
14382 ACATTTCTCGAGAGG-GACATTCAATTATAATCTGTTTTAACTAAAAATGTGA-AAAAA-A-TCA
65 ATGTTTC-CCA-AGGAAACATTCAATTATAATTTATTCTAAC-AAAAAT-T-ATAAAAATATTCA
*
14443 ACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAA
125 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
* *
14488 TAAGGCTTTCGAAGAATGAGCGACTATAAATGGACTTTTCTTGCCAATAAATA-CTTATTTCTTC
1 TAAGGCTTTTGAAGAATGAGCGACTATAAATGGACTTTTCTTGCCAATGAATACCTT-TTTCTTC
* * * * * * * *
14552 ACGTTTCCTAAGTTGGAA-GTTTAATTATAATCTATTCTAACAAAAAATATAGAAATATTCAACT
65 ATGTTTCCCAAG--GAAACATTCAATTATAATTTATTCTAACAAAAATTATAAAAATATTCAACT
* * * *
14616 TAAAATAAATTATGAGATTATGAAACCATTTAAAGTGACTAA
128 TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
* * * * *
14658 TAAGGCTTTTGAAGGAATTAGTGACTATAAATGAACTTTTCTTGCTAATGAATGCC-TTTTCTTC
1 TAAGGCTTTTGAA-GAATGAGCGACTATAAATGGACTTTTCTTGCCAATGAATACCTTTTTCTTC
* * * * * *
14722 ATATTTCTCAAGGTAGACATTCAATTATAATTTATTTTAACTAAAAGTT-TAGAAAA-ATTGAAC
65 ATGTTTCCCAAGG-AAACATTCAATTATAATTTATTCTAAC-AAAAATTATA-AAAATATTCAAC
* *
14785 TTAAACTCAATTATGAGATTATAAAGCCATTTAAAGCGAGTAA
127 TTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
* ********* *
14828 TAAGGCTTTTAAANNNNNNNNNNACTATAAATGGACTTTTTTTGCCAATGAATACCTTTTTCTTC
1 TAAGGCTTTTGAA-GAATGAGCGACTATAAATGGACTTTTCTTGCCAATGAATACCTTTTTCTTC
* * *
14893 ATGTTTCCCAAGGCAAACATTCAACTATATTTTGA-TCTAACCAAAATTATAAAAATATTCAACT
65 ATGTTTCCCAAGG-AAACATTCAATTATAATTT-ATTCTAACAAAAATTATAAAAATATTCAACT
*
14957 TAAAATTAATTATGAGATTATAAAACCATTTAAAG
128 TAAAATCAATTATGAGATTATAAAACCATTTAAAG
14992 TGNNNNNNNN
Statistics
Matches: 408, Mismatches: 79, Indels: 34
0.78 0.15 0.07
Matches are distributed among these distances:
167 1 0.00
168 8 0.02
169 11 0.03
170 250 0.61
171 136 0.33
172 2 0.00
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.35
Consensus pattern (169 bp):
TAAGGCTTTTGAAGAATGAGCGACTATAAATGGACTTTTCTTGCCAATGAATACCTTTTTCTTCA
TGTTTCCCAAGGAAACATTCAATTATAATTTATTCTAACAAAAATTATAAAAATATTCAACTTAA
AATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
Found at i:16092 original size:171 final size:170
Alignment explanation
Indices: 15226--16105 Score: 532
Period size: 171 Copynumber: 5.2 Consensus size: 170
15216 NNNNNNNNNN
** * * * **
15226 AATTATGAGATTATAAAACCATTTAAAGTGAGAAATAAGACTTTTGAAGGAATGAGCAACTATAA
1 AATTATGAGATTATAAAACCATTTAAAGCCAGTAATAAGGCTTTTGAAGAAATGAGTGACTATAA
* * * * * ** * * *
15291 ATAGACTTTTCTTGCCAATAAATATCTTTTTCTTTACGTTTTTCAAGACAAACATTCAATTATAC
66 ATGGACTTTTCTTACCAATGAATATCTTTTT-TTCATGTTTCCCAAGATAGACATTCAATTATAA
* ** *
15356 TCTGTTTTAA-TGAAAACGGTAAAACA-ATTCAACTTAAAATC
130 TCTATTTTAACT-AAAAATGTAAAA-ATATTTAACTTAAAATC
************ * *
15397 AATTATGAGATTATAAAANNNNNNNNNNTAAGTAATAAGGCTTTTGAAGGAATAAGTGACTATAA
1 AATTATGAGATTATAAAACCATTTAAAGCCAGTAATAAGGCTTTTGAAGAAATGAGTGACTATAA
* * * * * * * * * * * * *
15462 ATGAACTTTTCTTTCTAATGACTGTCGTTTGTTTCATTTTTCTCAAGTTGGACATTTAATTCTAC
66 ATGGACTTTTCTTACCAATGAATATC-TTTTTTTCATGTTTCCCAAGATAGACATTCAATTATAA
* *
15527 TCTATTTTAATTAAAAATGTAAAAAAATTTAACTTAAAATC
130 TCTATTTTAACTAAAAATGTAAAAATATTTAACTTAAAATC
********** * * *
15568 AATTATGAGATTANNNNNNNNNNTAAAGCGAGTAATAAGGCTTTTGAA-AGAATGGGCGACTATA
1 AATTATGAGATTATAAAACCATTTAAAGCCAGTAATAAGGCTTTTGAAGA-AATGAGTGACTATA
** * * *
15632 AATGGACTTTTCACACCAATGAATATCTTTTTCTTCATGTTTCCTATGGTAGACATTCAATTATA
65 AATGGACTTTTCTTACCAATGAATATCTTTTT-TTCATGTTTCCCAAGATAGACATTCAATTATA
* * *
15697 ATATGTTTTAACTAAAAATGT-AAAATAATTCAACTTAAAATC
129 ATCTATTTTAACTAAAAATGTAAAAAT-ATTTAACTTAAAATC
********************** * *
15739 AATTATGAGATTNNNNNNNNNNNNNNNNNNNNNNATAAGGCTTTTTAAGAAATTAGTGACTATAA
1 AATTATGAGATTATAAAACCATTTAAAGCCAGTAATAAGGCTTTTGAAGAAATGAGTGACTATAA
* * * * *
15804 ATGTACTTTTCTTTCCAATGAATACCTATTTCTTTCA-GTTT-CTAAGACAGACATTCAATTATA
66 ATGGACTTTTCTTACCAATGAATATCT-TTT-TTTCATGTTTCCCAAGATAGACATTCAATTATA
* * * ******
15867 ATCTGTTCTAACAAAAAATGTAAAAATATTTAACTTNNNNNN
129 ATCTATTTTAACTAAAAATGTAAAAATATTTAACTTAAAATC
**** *
15909 NNNNATGAGATTATAAAACCATTTAAAGCCAGTAATAAGGCTTTTGAAGAAATGGGTGACTATAA
1 AATTATGAGATTATAAAACCATTTAAAGCCAGTAATAAGGCTTTTGAAGAAATGAGTGACTATAA
* * *
15974 ATGGATTTTTCTTACAAATGAATGTCTTTTTTCTCATGTTTCCCCAAG-TAGACATTCAATTATA
66 ATGGACTTTTCTTACCAATGAATATCTTTTTT-TCATGTTT-CCCAAGATAGACATTCAATTATA
* *
16038 ATCTATTTTAACCAAAAATGTAAAAATATTGAACTTAAAATC
129 ATCTATTTTAACTAAAAATGTAAAAATATTTAACTTAAAATC
*
16080 AACTATGAGATTATAAAACCATTTAA
1 AATTATGAGATTATAAAACCATTTAA
16106 NNNNNNNNNN
Statistics
Matches: 534, Mismatches: 161, Indels: 28
0.74 0.22 0.04
Matches are distributed among these distances:
168 2 0.00
169 6 0.01
170 115 0.22
171 393 0.74
172 17 0.03
173 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.35
Consensus pattern (170 bp):
AATTATGAGATTATAAAACCATTTAAAGCCAGTAATAAGGCTTTTGAAGAAATGAGTGACTATAA
ATGGACTTTTCTTACCAATGAATATCTTTTTTTCATGTTTCCCAAGATAGACATTCAATTATAAT
CTATTTTAACTAAAAATGTAAAAATATTTAACTTAAAATC
Found at i:17484 original size:172 final size:171
Alignment explanation
Indices: 16742--18367 Score: 1370
Period size: 170 Copynumber: 9.5 Consensus size: 171
16732 GTTTTAACTA
* * * * * * *
16742 AAAAAAATTCAACTCAAAATTAATTTTTAGAGTATAAAACCATTTAAAGTGAGAAATAAGGCTTT
1 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT
* * * ** * * ** * *
16807 TGAAAGAATAGGCAACTATAAATGGACTTTTCTAGCCAACAAAT-GCCTTTT-TTCACGTTT-CT
66 CGAAGGAATGGGTGACTATAAATGGGCTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCCT
* * * * * *
16869 CAAGGTAAATATTCAATTATTATTTGTTTTAACTAAAAATGT
131 -AAGGCAGACATTCAATTATAATCTGTTTTAACCAAAAATGT
* * *
16911 -AAAAAATCCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAACAAGGCTTT
1 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT
** ** * * ** *
16975 CGAAGGCTTGGGTGACTATAAATGAACTTTTCTTGTCAATGAGCT-ATTTTTTCTTCACGTTTCC
66 CGAAGGAATGGGTGACTATAAATGGGCTTTTCTTGCCAATGA-ATGGCTTTTTCTTCATGTTTCC
* ** * *
17039 CAAGATAGATATTCAATTATAATCTATTTTAACCAAAAATGT
130 TAAGGCAGACATTCAATTATAATCTGTTTTAACCAAAAATGT
* * * * *
17081 TAAAAAATTCAA-TCAAAAATCAATTATGTGATTATAAAACTATTTAAAGCAAGTAATAAGGCTT
1 AAAAAAATTCAACT-TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTT
* * ** * * *
17145 TTGAAGAAATGGACGACTATAAATGGGCTTTGCTTGCCAATGAA-GGCTCTTTCTTCACGTTTCC
65 TCGAAGGAATGGGTGACTATAAATGGGCTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCC
* * * * *
17209 TAAGG-TGAACATTCAATCATAATTTATTTTAATCAAAAATGT
130 TAAGGCAG-ACATTCAATTATAATCTGTTTTAACCAAAAATGT
* * * * * *
17251 AAAAGAATTTC-ACCTAAAATCAATGATGAGATTATAAAATCATTTAAAACGAGTTATAAGGCTT
1 AAAA-AAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTT
* * *
17315 TCGAAGGCATGGGTGACTATAAATGGGCTTTTCTTACCAATGAATGGCTTTTTCTTCATGTTTCT
65 TCGAAGGAATGGGTGACTATAAATGGGCTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCC
* ** * *
17380 TAAGGCAGACAATCAATTATAGCCTGTTTTAGCCAAAAATAT
130 TAAGGCAGACATTCAATTATAATCTGTTTTAACCAAAAATGT
* **
17422 AAAAGAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGTAAGTAATAAGGCTT
1 AAAA-AAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTT
* * * * *
17487 TCGAAGGAATGAGTGACTATAAATGGGCTTTTTTTGCTAATGAATGGCATTTTCTTCACGTTTCC
65 TCGAAGGAATGGGTGACTATAAATGGGCTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCC
* * * * *
17552 TAAGGC-GAACATTCAATCATAATCTATTTTTACTAAAAATAT
130 TAAGGCAG-ACATTCAATTATAATCTGTTTTAACCAAAAATGT
* * *
17594 -AAAAAATT-TAGTCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGCGTAATAAGGCTT
1 AAAAAAATTCAACT-TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTT
* ** * * * *
17657 TCGAAGGTATCAGTGACTATAAATGGGCTTTTATTACCAATGAATGACTTTTTTTTCATGTTTCC
65 TCGAAGGAATGGGTGACTATAAATGGGCTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCC
* * * * **
17722 GAAGGTAAACATTCAATTATAGTCTGTTTTAGTCAAAAATGT
130 TAAGGCAGACATTCAATTATAATCTGTTTTAACCAAAAATGT
17764 AAAAGAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTT
1 AAAA-AAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTT
* * * * * * ** * *
17829 TTGATGGAATGGGTGACTATAAATAGACTTTTCTTGCTAATGACTATCATTTTCTTCATCTTT-C
65 TCGAAGGAATGGGTGACTATAAATGGGCTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCC
* * * * *
17893 TTACGCTAGACATTCAATTACAATCTGTTTTAACTAAAATTGT
130 TAAGGC-AGACATTCAATTATAATCTGTTTTAACCAAAAATGT
* * * *
17936 AAAAAAAATTCAATTTCAAATCAATTATGAGATTATAAAACCATTTAAACCGAGTAAT-AGGACC
1 -AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGG-CT
* * * * ** * * * ** ** *
18000 ATCGAAGGCA-CGATGACTATAAATGGATTTTTCTAGTCAATGCATTACTTTTTCTTTGTTTTTC
64 TTCGAAGGAATGGGTGACTATAAATGGGCTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTT-
** * * *
18064 CCT-AGATAGACAATCAATTATAATCAGTTTTAATCAAAAAT-T
128 CCTAAGGCAGACATTCAATTATAATCTGTTTTAACCAAAAATGT
* * * * * *
18106 AAAAAAATTTAACCTAAAATAAATTATTGAGATTATAAAACAATCTAAAGTGAGTAATAAGGCTT
1 AAAAAAATTCAACTTAAAATCAATTA-TGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTT
** ** * * * * * * * * *
18171 TTAAAGGTTTGAGTGA-TGACAAAT-GGATTTTTTGTGCCAATGGATAGCTTTTGCTTCATATGT
65 TCGAAGGAATGGGTGACT-ATAAATGGGCTTTTCT-TGCCAATGAATGGCTTTTTCTTCATGTTT
* * * * ***
18234 -CTCAAGACAAACATTCAATTATAATATATTTTAATTGAAAATGT
128 CCT-AAGGCAGACATTCAATTATAATCTGTTTTAACCAAAAATGT
* * * * *
18278 AAAAAAATTTAACTTAAAATCAATTATGATATTATAAAGCAATTTAAA-CTGAGTAATAAGACTT
1 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGC-GAGTAATAAGGCTT
** *
18342 GAGAA-GACATGGGTGGCTATAAATGG
65 TCGAAGGA-ATGGGTGACTATAAATGG
18368 ACCTTACTTG
Statistics
Matches: 1164, Mismatches: 258, Indels: 67
0.78 0.17 0.04
Matches are distributed among these distances:
168 86 0.07
169 31 0.03
170 356 0.31
171 333 0.29
172 350 0.30
173 8 0.01
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.35
Consensus pattern (171 bp):
AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT
CGAAGGAATGGGTGACTATAAATGGGCTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCCT
AAGGCAGACATTCAATTATAATCTGTTTTAACCAAAAATGT
Found at i:17624 original size:342 final size:338
Alignment explanation
Indices: 16742--18369 Score: 1528
Period size: 342 Copynumber: 4.8 Consensus size: 338
16732 GTTTTAACTA
* * * * * *
16742 AAAAAAATTCAACTCAAAATTAATTTTTAGAGTATAAAACCATTTAAAGTGAGAAATAAGGCTTT
1 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTT
* * * **
16807 TGAAAGAAT-AG-GCAACTATAAATGGACTTTTCTAGCCAACAAAT-GCCTTTT-TTCACGTTTC
66 TGAAGGAATGAGTG--ACTATAAATGGGCTTTTCTTGCCAATGAATAG-CTTTTCTTCACGTTTC
* * * * * **
16868 TCAAGGTAAATATTCAATTATTATTTGTTTTAACTAAAAATGTAAAAAATCCAACTTAAAATCAA
128 T-AAGGCAAACATTCAATTATAATCTATTTTAACTAAAAATGTAAAAAATTTAAC-TAAAATCAA
** * *
16933 TTATGAGATTATAAAACCATTTAAAGTGAGTAACAAGGCTTTCGAAGGCTTGGGTGACTATAAAT
191 TTATGAGATTATAAAACCATTTAAAACGAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAAT
* ** * * * * * *
16998 GAACTTTTCTTGTCAATGAGCT-ATTTTTTCTTCACGTTTCCCAAGATAGATATTCAATTATAAT
256 GGACTTTTCTTACCAATGA-ATGACTTTTTCTTCATGTTTCCTAAGATAGACAATCAATTATAAT
*
17062 CTATTTTAACCAAAAATGT
320 CTGTTTTAACCAAAAATGT
* * * * **
17081 TAAAAAATTCAA-TCAAAAATCAATTATGTGATTATAAAACTATTTAAAGCAAGTAATAAGGCTT
1 AAAAAAATTCAACT-TAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTT
* * * *
17145 TTGAAGAAATG-GACGACTATAAATGGGCTTTGCTTGCCAATGAA-GGCTCTTTCTTCACGTTTC
65 TTGAAGGAATGAG-TGACTATAAATGGGCTTTTCTTGCCAATGAATAGCT-TTTCTTCACGTTT-
** * * *
17208 CTAAGGTGAACATTCAATCATAATTTATTTTAA-TCAAAAATGTAAAAGAATTTCACCTAAAATC
127 CTAAGGCAAACATTCAATTATAATCTATTTTAACT-AAAAATGTAAAA-AATTT-AACTAAAATC
* * *
17272 AATGATGAGATTATAAAATCATTTAAAACGAGTTATAAGGCTTTCGAAGGCATGGGTGACTATAA
189 AATTATGAGATTATAAAACCATTTAAAACGAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAA
* * * ** *
17337 ATGGGCTTTTCTTACCAATGAATGGCTTTTTCTTCATGTTTCTTAAGGCAGACAATCAATTATAG
254 ATGGACTTTTCTTACCAATGAATGACTTTTTCTTCATGTTTCCTAAGATAGACAATCAATTATAA
* * *
17402 CCTGTTTTAGCCAAAAATAT
319 TCTGTTTTAACCAAAAATGT
* *
17422 AAAAGAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGTAAGTAATAAGGCTT
1 AAAA-AAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTT
* * * *
17487 TCGAAGGAATGAGTGACTATAAATGGGCTTTTTTTGCTAATGAATGGCATTTTCTTCACGTTTCC
65 TTGAAGGAATGAGTGACTATAAATGGGCTTTTCTTGCCAATGAATAGC-TTTTCTTCACGTTT-C
* * * * *
17552 TAAGGCGAACATTCAATCATAATCTATTTTTACTAAAAATATAAAAAATTTAGTCTAAAATCAAT
128 TAAGGCAAACATTCAATTATAATCTATTTTAACTAAAAATGTAAAAAATTTA-ACTAAAATCAAT
* * * **
17617 TATGAGATTATAAAACCATTTAAAGCGCGTAATAAGGCTTTCGAAGGTATCAGTGACTATAAATG
192 TATGAGATTATAAAACCATTTAAAACGAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATG
* * * * * * * *
17682 GGCTTTTATTACCAATGAATGACTTTTTTTTCATGTTTCCGAAGGTAAACATTCAATTATAGTCT
257 GACTTTTCTTACCAATGAATGACTTTTTCTTCATGTTTCCTAAGATAGACAATCAATTATAATCT
**
17747 GTTTTAGTCAAAAATGT
322 GTTTTAACCAAAAATGT
*
17764 AAAAGAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTT
1 AAAA-AAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTT
* * * * * * *
17829 TTGATGGAATGGGTGACTATAAATAGACTTTTCTTGCTAATGACTATCATTTTCTTCATC-TTTC
65 TTGAAGGAATGAGTGACTATAAATGGGCTTTTCTTGCCAATGAATAGC-TTTTCTTCA-CGTTTC
* * * * * * * * *
17893 TTACGCTAGACATTCAATTACAATCTGTTTTAACTAAAATTGTAAAAAAAATTCAATTTCAAATC
128 TAAGGC-AAACATTCAATTATAATCTATTTTAACTAAAAATGT--AAAAAATTTAA-CTAAAATC
* ** * *
17958 AATTATGAGATTATAAAACCATTTAAACCGAGTAAT-AGGACCATCGAAGGCA-CGATGACTATA
189 AATTATGAGATTATAAAACCATTTAAAACGAGTAATAAGG-CTTTCGAAGGCATGGGTGACTATA
* * * * ** *
18021 AATGGATTTTTC-TAGTCAATGCATTACTTTTTCTTTGTTTTTCCCT-AGATAGACAATCAATTA
253 AATGGACTTTTCTTA-CCAATGAATGACTTTTTCTTCATGTTT-CCTAAGATAGACAATCAATTA
* *
18084 TAATCAGTTTTAATCAAAAAT-T
316 TAATCTGTTTTAACCAAAAATGT
* * * * *
18106 AAAAAAATTTAACCTAAAATAAATTATTGAGATTATAAAACAATCTAAAGTGAGTAATAAGGCTT
1 AAAAAAATTCAACTTAAAATCAATTA-TGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTT
* ** * * * * ** *
18171 TTAAAGGTTTGAGTGA-TGACAAAT-GGATTTTTTGTGCCAATGGATAGCTTTTGCTTCATATGT
65 TTGAAGGAATGAGTGACT-ATAAATGGGCTTTTCT-TGCCAATGAATAGCTTTT-CTTCACGTTT
* * * *
18234 CTCAAGACAAACATTCAATTATAATATATTTTAATTGAAAATGTAAAAAAATTTAACTTAAAATC
127 CT-AAGGCAAACATTCAATTATAATCTATTTTAACTAAAAATGT-AAAAAATTTAAC-TAAAATC
* * * * ** * *
18299 AATTATGATATTATAAAGCAATTT-AAACTGAGTAATAAGACTTGAGAAGACATGGGTGGCTATA
189 AATTATGAGATTATAAAACCATTTAAAAC-GAGTAATAAGGCTTTCGAAGGCATGGGTGACTATA
18363 AATGGAC
253 AATGGAC
18370 CTTACTTGCC
Statistics
Matches: 1068, Mismatches: 184, Indels: 71
0.81 0.14 0.05
Matches are distributed among these distances:
338 3 0.00
339 89 0.08
340 51 0.05
341 226 0.21
342 501 0.47
343 136 0.13
344 62 0.06
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.35
Consensus pattern (338 bp):
AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTT
TGAAGGAATGAGTGACTATAAATGGGCTTTTCTTGCCAATGAATAGCTTTTCTTCACGTTTCTAA
GGCAAACATTCAATTATAATCTATTTTAACTAAAAATGTAAAAAATTTAACTAAAATCAATTATG
AGATTATAAAACCATTTAAAACGAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATGGACT
TTTCTTACCAATGAATGACTTTTTCTTCATGTTTCCTAAGATAGACAATCAATTATAATCTGTTT
TAACCAAAAATGT
Found at i:18199 original size:171 final size:170
Alignment explanation
Indices: 17216--18337 Score: 426
Period size: 172 Copynumber: 6.6 Consensus size: 170
17206 TCCTAAGGTG
* * * * * * *
17216 AACATTCAATCATAATTTATTTTAATCAAAAATGTAAAAGAATTTCACCTAAAATCAATGATGAG
1 AACAATCAATTATAATATATTTTAATCAAAAATGTAAAAAAATTTAACCTAAAATAAATTATGAG
* * ** ** * * *
17281 ATTATAAAATC-ATTTAAAAC-GAGTTATAAGGCTTTCGAAGGCATGGGTGACT-ATAAATGGGC
66 ATTATAAAA-CAATCT-AAACTGAGTAATAAGGCTTTTAAAGGTTTGAGTGA-TGACAAAT-GGA
* * * * * * ** *
17343 TTTTCTT-ACCAATGAATGGCTTTTTCTTCATGTTTCTTAAGGCA
127 TTTT-TTGTCCAATGCATAGCTTTTGCTTCATATGTCCCAAGACA
* *** * ** * * * *
17387 GACAATCAATTATAGCCTGTTTTAGCCAAAAATATAAAAGAAATTCAACTTAAAATCAATTATGA
1 AACAATCAATTATAATATATTTTAATCAAAAATGTAAAA-AAATTTAACCTAAAATAAATTATGA
* * * * ** ** * *
17452 GATTATAAAACTATTTAAAGTAAGTAATAAGGCTTTCGAAGGAATGAGTGACT-ATAAATGGGCT
65 GATTATAAAACAATCTAAACTGAGTAATAAGGCTTTTAAAGGTTTGAGTGA-TGACAAAT-GGAT
* * * ** * * * *
17516 TTTTT-TGCTAATGAATGGCATTTT-CTTCACGTTTCCTAAGGCG
128 TTTTTGT-CCAATGCATAGC-TTTTGCTTCATATGTCCCAAGACA
* * * * * ** *
17559 AACATTCAATCATAATCTATTTTTA-CTAAAAATAT-AAAAAATTTAGTCTAAAATCAATTATGA
1 AACAATCAATTATAATATATTTTAATC-AAAAATGTAAAAAAATTTAACCTAAAATAAATTATGA
* * * ** * * * *
17622 GATTATAAAACCATTTAAAGC-GCGTAATAAGGCTTTCGAAGGTATCAGTGACT-ATAAATGGGC
65 GATTATAAAACAATCTAAA-CTGAGTAATAAGGCTTTTAAAGGTTTGAGTGA-TGACAAAT-GGA
* * ** * * * **
17685 TTTTATT-ACCAATGAAT-GACTTTTTTTTCATGTTTCCGAAGGTA
127 TTTT-TTGTCCAATGCATAG-CTTTTGCTTCATATGTCCCAAGACA
* * * * * * * *
17729 AACATTCAATTATAGTCTGTTTTAGTCAAAAATGTAAAAGAAATTCAACTTAAAATCAATTATGA
1 AACAATCAATTATAATATATTTTAATCAAAAATGTAAAA-AAATTTAACCTAAAATAAATTATGA
* * * * ** * * *
17794 GATTATAAAACCATTTAAAGC-GAGTAATAAGGCTTTTGATGGAATGGGTGACT-ATAAATAGAC
65 GATTATAAAACAATCTAAA-CTGAGTAATAAGGCTTTTAAAGGTTTGAGTGA-TGACAAATGGA-
* * * * ** *
17857 TTTTCTTG-CTAATG-ACTATCATTTT-CTTCATCTTTCTTACG-CTA
127 TTTT-TTGTCCAATGCA-TAGC-TTTTGCTTCATATGTCCCAAGAC-A
* * * * * * * ** * *
17901 GACATTCAATTACAATCTGTTTTAA-CTAAAATTGTAAAAAAAATTCAATTTCAAATCAATTATG
1 AACAATCAATTATAATATATTTTAATC-AAAAATGT-AAAAAAATTTAACCTAAAATAAATTATG
* * * ** ** *** *
17965 AGATTATAAAACCATTTAAACCGAGTAAT-AGGACCATCGAAGGCACGA-TGACT-ATAAATGGA
64 AGATTATAAAACAATCTAAACTGAGTAATAAGG-CTTTTAAAGGTTTGAGTGA-TGACAAATGGA
* ** * * * *
18027 TTTTTCTAGT-CAATGCATTA-CTTTTTCTTTGTTTTTCCCTAGATA
127 TTTTT-T-GTCCAATGCA-TAGCTTTTGCTTCATATGTCCCAAGACA
* *
18072 GACAATCAATTATAATCA-GTTTTAATCAAAAAT-TAAAAAAATTTAACCTAAAATAAATTATTG
1 AACAATCAATTATAAT-ATATTTTAATCAAAAATGTAAAAAAATTTAACCTAAAATAAATTA-TG
*
18135 AGATTATAAAACAATCTAAAGTGAGTAATAAGGCTTTTAAAGGTTTGAGTGATGACAAATGGATT
64 AGATTATAAAACAATCTAAACTGAGTAATAAGGCTTTTAAAGGTTTGAGTGATGACAAATGGATT
* *
18200 TTTTGTGCCAATGGATAGCTTTTGCTTCATATGTCTCAAGACA
129 TTTTGT-CCAATGCATAGCTTTTGCTTCATATGTCCCAAGACA
* ** * * *
18243 AACATTCAATTATAATATATTTTAATTGAAAATGTAAAAAAATTTAACTTAAAATCAATTATGAT
1 AACAATCAATTATAATATATTTTAATCAAAAATGTAAAAAAATTTAACCTAAAATAAATTATGAG
* *
18308 ATTATAAAGCAATTTAAACTGAGTAATAAG
66 ATTATAAAACAATCTAAACTGAGTAATAAG
18338 ACTTGAGAAG
Statistics
Matches: 768, Mismatches: 143, Indels: 80
0.77 0.14 0.08
Matches are distributed among these distances:
169 29 0.04
170 181 0.24
171 205 0.27
172 341 0.44
173 12 0.02
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.35
Consensus pattern (170 bp):
AACAATCAATTATAATATATTTTAATCAAAAATGTAAAAAAATTTAACCTAAAATAAATTATGAG
ATTATAAAACAATCTAAACTGAGTAATAAGGCTTTTAAAGGTTTGAGTGATGACAAATGGATTTT
TTGTCCAATGCATAGCTTTTGCTTCATATGTCCCAAGACA
Found at i:19393 original size:169 final size:171
Alignment explanation
Indices: 18936--19954 Score: 885
Period size: 171 Copynumber: 6.0 Consensus size: 171
18926 TGAGACAGAT
* * * * * * *
18936 ATTCAATTATTATATATTTTAATTAAAAATATAAAAAAATT-TATCTAAAAATTAATTATGAGAT
1 ATTCAATTATAATATGTTTTAACTAAAAATGTAAAAAAATTCAACCT-AAAATCAATTATGAGAT
* * * *
19000 TATAAAACCATTTAAAGTGAGTAATAAGGATTTTGAAAGCAT-GAGTGACTATAAATAGACTTTT
65 TATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAAGCATGGA-TGACTATAAATGGACTTTT
* * * *
19064 CTTACTAATGAATGGCTATTTTTTTTTCATGTTTCTTAAGCTAAAC
129 CTTGCTAATGAATGGC---TTTTTCTTCATGTTTCCTAAGATAAAC
* *
19110 ATTCAATTATAATATGTTTT-AC-ACAAAATTTAAAAAAATTCAACCTAAAATCGATTATGAGAT
1 ATTCAATTATAATATGTTTTAACTA-AAAATGTAAAAAAATTCAACCTAAAATCAATTATGAGAT
** * * *
19173 TATAAAACCATTTAAAATGAGTAATAAGGC-CTCAAAACGCATGGGTGACTATAAATGGA-TTTT
65 TATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAA-GCATGGATGACTATAAATGGACTTTT
* * ** * * * *
19236 TTTTCTAATCCATGGCTTTTTC-TCTACGTTT-TTAAGATAGAT
129 CTTGCTAATGAATGGCTTTTTCTTC-ATGTTTCCTAAGATAAAC
* * * *
19278 AATCAATTATAATCTGTTTTAACTAAAAATGTAAAAAAATTCAACCCAAAATCAATTATGAGGTT
1 ATTCAATTATAATATGTTTTAACTAAAAATGTAAAAAAATTCAACCTAAAATCAATTATGAGATT
* * * ** *
19343 ATAAAACCATCTAAAGCGAGTAACAAAGCTTTCGAAAGTTTGGATGACTATAAATGGACTTTTCA
66 ATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAAGCATGGATGACTATAAATGGACTTTTCT
* * * * * *
19408 AGCCAATAAATGG-TTTTTCCTTCATGTTTCCTGAGACAGAC
131 TGCTAATGAATGGCTTTTT-CTTCATGTTTCCTAAGATAAAC
* **
19449 TTTCAATTATAATATACTTTAA-TAAAAAATGTAAAACAAATT-AACCTAAAATCAACTT-TGAG
1 ATTCAATTATAATATGTTTTAACT-AAAAATGTAAAA-AAATTCAACCTAAAATCAA-TTATGAG
* * * * *
19511 ATTATAAAACCATTTAAAGTGAGTAAAAAGGCTTTCGAAGGCTTAGG-TGACTACAAATGGACTC
63 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAAGCAT-GGATGACTATAAATGGACT-
* * * *
19575 TTT-TTGCTAATGAGTGACTTTTTCTTCAAGTTTGCC-AAGGTAAAC
126 TTTCTTGCTAATGAATGGCTTTTTCTTCATGTTT-CCTAAGATAAAC
** * * * * * *
19620 ATTCAAGCACAATCTGTTTTAAAC-AAAAATATAAAAAAATTCAACTTAAAATTAAGTATGAGAT
1 ATTCAATTATAATATGTTTT-AACTAAAAATGTAAAAAAATTCAACCTAAAATCAATTATGAGAT
* * * * *
19684 TATAAAACTATTTAAAGCTAGTAATAAGGCTTTC-AAAGGCACGGGTGACTATTAA-GGAAC-TT
65 TATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAA-GCATGGATGACTATAAATGG-ACTTT
* * *
19746 TCTTGCCAATGAAT-GCTTTTGCTTCATGTTTCCTGAG-TCAAAC
128 TCTTGCTAATGAATGGCTTTTTCTTCATGTTTCCTAAGAT-AAAC
* * * *
19789 ATTCAATTATAATCTGTTTCAACCAAAAATGTAAAATAATTCAACCTAAAATCAATTATGAGATT
1 ATTCAATTATAATATGTTTTAACTAAAAATGTAAAAAAATTCAACCTAAAATCAATTATGAGATT
* * * ** * *
19854 ATAAAACCATTTAAAGCAAGTAATAACGCCTTC-AAAGCCATGGGCGGCTATAAATGGATTTTTC
66 ATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAAG-CATGGATGACTATAAATGGACTTTTC
* * * * * *
19918 TTACCAATGCATGACTTTTTCTTTATGTTTCCCAAGA
130 TTGCTAATGAATGGCTTTTTCTTCATGTTTCCTAAGA
19955 C
Statistics
Matches: 682, Mismatches: 128, Indels: 72
0.77 0.15 0.08
Matches are distributed among these distances:
168 35 0.05
169 215 0.32
170 63 0.09
171 229 0.34
172 42 0.06
173 76 0.11
174 22 0.03
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (171 bp):
ATTCAATTATAATATGTTTTAACTAAAAATGTAAAAAAATTCAACCTAAAATCAATTATGAGATT
ATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAAGCATGGATGACTATAAATGGACTTTTCT
TGCTAATGAATGGCTTTTTCTTCATGTTTCCTAAGATAAAC
Found at i:19636 original size:342 final size:338
Alignment explanation
Indices: 18952--19954 Score: 970
Period size: 340 Copynumber: 2.9 Consensus size: 338
18942 TTATTATATA
* * *
18952 TTTTAATTAAAAATATAAAAAAATTTATCTAAAAATTAATTATGAGATTATAAAACCATTTAAAG
1 TTTTAACTAAAAATATAAAAAAATTCAACTAAAAATTAATTATGAGATTATAAAACCATTTAAAG
* * * * *
19017 TGAGTAATAAGGATTTTGAAAGCAT-GAGTGACTATAAATAGACTTTTCTTA-CTAATGAATGGC
66 CGAGTAATAAGGCTTTCGAAAGCATGGA-TGACTATAAATGGACTTTTC-TAGCCAATGAATGG-
** * * * * *
19080 TATTTTTTTTTCATGTTTCTTAAGCTAAACATTCAATTATAATATGTTTTACACAAAATTTAAAA
128 --TTTTTCCTTCATGTTTCCTGAGC-AAACATTCAATTATAATATGTTTAACAAAAAATGTAAAA
* * *
19145 AAATTCAACCTAAAATCGATTATGAGATTATAAAACCATTTAAAATGAGTAATAAGGCCTCAAAA
190 AAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAAAAAGGCCTCAAAA
* * * * * * **
19210 CGCATGGGTGACTATAAATGGATTTTTTTTCTAATCCATGGCTTTTTCTCTACGTTTTTAAGATA
255 CGCATAGGTGACTACAAATGGATCTTTTTGCTAATCCATGACTTTTTCTCTAAGTTTCCAAGATA
* * ** *
19275 GATAATCAATTATAATCTG
320 AACAATCAAGCACAATCTG
* ** * * *
19294 TTTTAACTAAAAATGTAAAAAAATTCAACCCAAAATCAATTATGAGGTTATAAAACCATCTAAAG
1 TTTTAACTAAAAATATAAAAAAATTCAACTAAAAATTAATTATGAGATTATAAAACCATTTAAAG
* * ** * *
19359 CGAGTAACAAAGCTTTCGAAAGTTTGGATGACTATAAATGGACTTTTCAAGCCAATAAATGGTTT
66 CGAGTAATAAGGCTTTCGAAAGCATGGATGACTATAAATGGACTTTTCTAGCCAATGAATGGTTT
* * * *
19424 TTCCTTCATGTTTCCTGAGACAGACTTTCAATTATAATATACTTTAATAAAAAATGTAAAACAAA
131 TTCCTTCATGTTTCCTGAG-CAAACATTCAATTATAATAT-GTTTAACAAAAAATGTAAAA-AAA
* * *
19489 TT-AACCTAAAATCAACTT-TGAGATTATAAAACCATTTAAAGTGAGTAAAAAGGCTTTC-GAAG
193 TTCAACCTAAAATCAA-TTATGAGATTATAAAACCATTTAAAGTGAGTAAAAAGGC-CTCAAAAC
* *
19551 GCTTAGGTGACTACAAATGGACTCTTTTTGCTAAT-GAGTGACTTTTTCT-TCAAGTTTGCCAAG
256 GCATAGGTGACTACAAATGGA-TCTTTTTGCTAATCCA-TGACTTTTTCTCT-AAGTTT-CCAAG
* *
19614 GTAAACATTCAAGCACAATCTG
317 ATAAACAATCAAGCACAATCTG
* * *
19636 TTTTAAAC-AAAAATATAAAAAAATTCAACTTAAAATTAAGTATGAGATTATAAAACTATTTAAA
1 TTTT-AACTAAAAATATAAAAAAATTCAACTAAAAATTAATTATGAGATTATAAAACCATTTAAA
* * * * *
19700 GCTAGTAATAAGGCTTTC-AAAGGCACGGGTGACTATTAA-GGAAC-TTTCTTGCCAATGAAT-G
65 GCGAGTAATAAGGCTTTCGAAA-GCATGGATGACTATAAATGG-ACTTTTCTAGCCAATGAATGG
* * * * *
19761 CTTTTGCTTCATGTTTCCTGAGTCAAACATTCAATTATAATCTGTTTCAACCAAAAATGTAAAAT
128 TTTTTCCTTCATGTTTCCTGAG-CAAACATTCAATTATAATATGTTT-AACAAAAAATGTAAAAA
** * * *
19826 AATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCAAGTAATAACGCCTTCAAAG
191 AATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAAAAAGGCC-TCAAAA
* * * * * * * * * *
19891 C-CATGGGCGGCTATAAATGGATTTTTCTTACCAATGCATGACTTTTTCTTTATGTTTCCCAAGA
255 CGCATAGGTGACTACAAATGGATCTTT-TTGCTAATCCATGACTTTTTCTCTAAGTTT-CCAAGA
19955 C
Statistics
Matches: 536, Mismatches: 103, Indels: 46
0.78 0.15 0.07
Matches are distributed among these distances:
339 48 0.09
340 225 0.42
341 57 0.11
342 201 0.38
343 5 0.01
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (338 bp):
TTTTAACTAAAAATATAAAAAAATTCAACTAAAAATTAATTATGAGATTATAAAACCATTTAAAG
CGAGTAATAAGGCTTTCGAAAGCATGGATGACTATAAATGGACTTTTCTAGCCAATGAATGGTTT
TTCCTTCATGTTTCCTGAGCAAACATTCAATTATAATATGTTTAACAAAAAATGTAAAAAAATTC
AACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAAAAAGGCCTCAAAACGCATA
GGTGACTACAAATGGATCTTTTTGCTAATCCATGACTTTTTCTCTAAGTTTCCAAGATAAACAAT
CAAGCACAATCTG
Done.