Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397520.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_1298.0, 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: 10379
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.34
Warning! 741 characters in sequence are not A, C, G, or T
Found at i:616 original size:175 final size:173
Alignment explanation
Indices: 5--1486 Score: 905
Period size: 171 Copynumber: 8.6 Consensus size: 173
1 AGAC
* ** * * *
5 TATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAA-GCATTCATTGGAAAAAAAAGTCTAT
1 TATAATTGAATGTCTACATTGAGAAACATGAA-AAAAAATGCATTCATTAGCAAGAAAAGTCTAT
* * *
69 TTATAGTCACTCATTCTTTCAAAAGCCTTCTTACTCGCTTTAAA-CAGTTTTATAATCTTATAAT
65 TTATAGTCACTCATTCTTTCAAAAGCCTTATTACTCGCTTTAAATGA-TTTTATAATCTCATAAT
* * ********** * *
133 TGATTTTAAGTT-AA-ATTTTTTTATATNNNNNNNNNNAACAGAC
129 TGATTTTAAGTTCAATTTTTTTTTACATTTTTAGTTAAAACATAT
* * * *
176 TATAATTGAATGTCTACCTTAAGAAACATGAAGAAAAA-GCATTCATTCA-AAAGAAAAGT-TCA
1 TATAATTGAATGTCTACATTGAGAAACATGAAAAAAAATGCATTCATT-AGCAAGAAAAGTCT-A
* *
238 TTTATAGTCAC-CTATTCTTTCAAAAGCCTTATTAACT-GCATTAAATGGTTTTATAATCTCATA
64 TTTATAGTCACTC-ATTCTTTCAAAAGCCTTATT-ACTCGCTTTAAATGATTTTATAATCTCATA
********** * * * ***
301 ATTGA-TTT-NNNNNNNNNNTTTTTTGCTTTTTTGGTTAAAACAGGC
127 ATTGATTTTAAGTTCAATTTTTTTTTACATTTTTAGTTAAAACATAT
* * * ********** **
346 AATAATTGAATGTCTACCTTGAGAAACATGAAGAANNNNNNNNNNATGGGCAAGAAAAGTCTATT
1 TATAATTGAATGTCTACATTGAGAAACATGAAAAAAAATGCATTCATTAGCAAGAAAAGTCTATT
* * * *
411 TATAGTCTCTCATTCTATCAAAAGCCTTATTACTCGATTTAAATGATTTTATAATCTCAAAATTC
66 TATAGTCACTCATTCTTTCAAAAGCCTTATTACTCGCTTTAAATGATTTTATAATCTCATAATT-
* *
476 G-TTTTGAGTTCAATTTTTTTTTTAC-TTTTTTGATTAAAACATAT
130 GATTTTAAGTTCAA-TTTTTTTTTACATTTTTAG-TTAAAACATAT
* * *
520 TATATTTGAATGTCTACATTAAGAAACATGAAAAAAAAATGCATTCATTAGCAAGAAAAGTTTAT
1 TATAATTGAATGTCTACATTGAGAAACATG-AAAAAAAATGCATTCATTAGCAAGAAAAGTCTAT
* * ********** *
585 TTATTA-TCACTCATTCATTCAAAAGCCTTATTACTCGTTTTAAATGNNNNNNNNNNCTCAAAAT
65 TTA-TAGTCACTCATTCTTTCAAAAGCCTTATTACTCGCTTTAAATGATTTTATAATCTCATAAT
*
649 TGATTTTAAGTTCAATTTTTTTTTTAACTTTTTTAGTTAAAACATAT
129 TGATTTTAAGTTCAA-TTTTTTTTT-ACATTTTTAGTTAAAACATAT
* * * * * * *
696 TATAATTGAATGTCTATATTGACAAACGTGAAGAAAAAGGCATTCATT-GACAACAAAAGTCCAT
1 TATAATTGAATGTCTACATTGAGAAACATGAAAAAAAATGCATTCATTAG-CAAGAAAAGTCTAT
* * * * *
760 TTATTGTCAC-CTATTCTTTCAAAAGCCCTATTAGTCGCTTTAAATGGTTTTGTAATCTCATAAT
65 TTATAGTCACTC-ATTCTTTCAAAAGCCTTATTACTCGCTTTAAATGATTTTATAATCTCATAAT
* * * * * ** *
824 TGATTATAAATTGAA--ATTTTTTACATTTCTCTTTAAAACAAACT
129 TGATTTTAAGTTCAATTTTTTTTTACATTTTTAGTTAAAACATA-T
* * * * * * * * *
868 T-TAATTGAATATTTACCTTGGGAAACATG-TAGAAAATGCCATTTACTGAG-AAGAAAAGTCTT
1 TATAATTGAATGTCTACATTGAGAAACATGAAAAAAAATG-CATTCA-TTAGCAAGAAAAGTCTA
* * * * *
930 TTTATAGTCACCCGTTCTTTCAAAAGCATTATTACTCGCTTTAAAT-AGTTTTATAATTTTATAA
64 TTTATAGTCACTCATTCTTTCAAAAGCCTTATTACTCGCTTTAAATGA-TTTTATAATCTCATAA
* * * * *
994 TTCATTTCAAG-TCAAATTTTTTTTACATTTTTAGTT-AAACAGAC
128 TTGATTTTAAGTTCAATTTTTTTTTACATTTTTAGTTAAAACATAT
* * * ** *
1038 TATAATTGAATGTCTACCTTGAGAAACGTGAAGAAAAACACATTCA-TGGACAAGAAAAGTCTAT
1 TATAATTGAATGTCTACATTGAGAAACATGAAAAAAAATGCATTCATTAG-CAAGAAAAGTCTAT
* * * *
1102 TTATAGCCACTCATTCTTTCAAAGGCCTTATTACGCGCTTTTAATGATTTTATAATCTCATAATT
65 TTATAGTCACTCATTCTTTCAAAAGCCTTATTACTCGCTTTAAATGATTTTATAATCTCATAATT
*********** * * *
1167 GATTTTAAGTT--GNNNNNNNNNNCATTTTTGGTTAAAACAGAC
130 GATTTTAAGTTCAATTTTTTTTTACATTTTTAGTTAAAACATAT
* *
1209 TATAATTGAATGTCTATC-TCGAGAAACAT-AAAGAAAAA-GACATTCATTGGCAAGAAAAG-CT
1 TATAATTGAATGTCTA-CATTGAGAAACATGAAA-AAAAATG-CATTCATTAGCAAGAAAAGTCT
* * * * *
1270 CATTTATAGTCACCCATTCTTTCGAAAGCCTTATTACTCACCTTAAAT-AGTTTTATAATCGCAT
63 -ATTTATAGTCACTCATTCTTTCAAAAGCCTTATTACTCGCTTTAAATGA-TTTTATAATCTCAT
* * * * *
1334 AATTAATTTTAAGTT-AA--ATTTTATACATTTTTTA-TTAAAACAGAC
126 AATTGATTTTAAGTTCAATTTTTTTTTACA-TTTTTAGTTAAAACATAT
* * * * * ** * ** *
1379 TATAATTCAATGTTTACCTCGCGAAATGTGAAGAAAAAA-GTATTCATGGGCAAGAAAAATCTAT
1 TATAATTGAATGTCTACATTGAGAAACATGAA-AAAAAATGCATTCATTAGCAAGAAAAGTCTAT
** * *
1443 TTATAGTCACTTTTTCCTTCAAAAGCCTTATTACTTGCTTTAAA
65 TTATAGTCACTCATTCTTTCAAAAGCCTTATTACTCGCTTTAAA
1487 CGGTNNNNNN
Statistics
Matches: 1012, Mismatches: 247, Indels: 105
0.74 0.18 0.08
Matches are distributed among these distances:
169 7 0.01
170 242 0.24
171 451 0.45
172 42 0.04
173 7 0.01
174 45 0.04
175 172 0.17
176 40 0.04
177 6 0.01
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.37
Consensus pattern (173 bp):
TATAATTGAATGTCTACATTGAGAAACATGAAAAAAAATGCATTCATTAGCAAGAAAAGTCTATT
TATAGTCACTCATTCTTTCAAAAGCCTTATTACTCGCTTTAAATGATTTTATAATCTCATAATTG
ATTTTAAGTTCAATTTTTTTTTACATTTTTAGTTAAAACATAT
Found at i:1536 original size:341 final size:339
Alignment explanation
Indices: 1--1617 Score: 936
Period size: 341 Copynumber: 4.7 Consensus size: 339
* * *
1 AGACTATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAA-AGCATTCATTGGA-AA-AAAAA
1 AGACTATAATTCAATGTCTACCTCGAGAAACGTGAAGAAAAACA-CATTCA-TGGACAAGAAAAA
* * * *
63 GTCTATTTATAGTCACTCATTCTTTCAAAAGCCTTCTTACTCGCTTTAAAC-AGTTTTATAATCT
64 -TCTATTTATAGCCACTCATTCCTTCAAAAGCCTTATTACGCGCTTTAAACGA-TTTTATAATCT
* * **********
127 TATAATTGATTTTAAGTT-AAATTTTTTTATATNNNNNNNNNNAACAGACTATAATTGAATGTCT
127 CATAATTGATTTTAAGTTGAAA-TTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCT
* ** * *** *
191 ACCTTAAGAAACATGAAGAAAAAGCATTCATTCAAAAGAAAAGTTCATTTATAGTCACCTATTCT
191 ATCTCGAGAAACATGAAGAAAAAGCATTTATTGGCAAGAAAAG-TCATTTATAGTCACCCATTCT
* * * * *********
256 TTCAAAAGCCTTATTAACTGCA--TTAAATGGTTTTATAATCTCATAATTGATTTNNNNNNNNNN
255 TTCAAAAGCATTATT-ACT-CACCTTAAATAGTTTTATAATCGCATAATTAATTT-CAAGTCAAA
* * *
319 TTTTT-TGCTTTTTTGGTTAAAAC
317 TTTTTATACATTTTTAGTT-AAAC
* * * * * ********** * *
342 AGGCAATAATTGAATGTCTACCTTGAGAAACATGAAGAANNNNNNNNNNATGGGCAAGAAAAGTC
1 AGACTATAATTCAATGTCTACCTCGAGAAACGTGAAGAAAAACACATTCATGGACAAGAAAAATC
* * * * * *
407 TATTTATAGTCTCTCATT-CTATCAAAAGCCTTATTACTCGATTTAAATGATTTTATAATCTCAA
66 TATTTATAGCCACTCATTCCT-TCAAAAGCCTTATTACGCGCTTTAAACGATTTTATAATCTCAT
* * * * * * * *
471 AATTCG-TTTTGAGTTCAATTTTTTTTTTACTTTTTTGATTAAAACATATTATATTTGAATGTCT
130 AATT-GATTTTAAGTTGAA---ATTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCT
** * * * * *
535 A-CATTAAGAAACATGAAAAAAAAATGCATTCATTAGCAAGAAAAGTTTATTTATTA-TCACTCA
191 ATC-TCGAGAAACATG-AAGAAAAA-GCATTTATTGGCAAGAAAAG-TCATTTA-TAGTCACCCA
* * *** ********* * * * *
598 TTCATTCAAAAGCCTTATTACTCGTTTTAAAT-GNNNNNNNNNNCTCAAAATTGATTTTAAGTTC
251 TTCTTTCAAAAGCATTATTACTCACCTTAAATAG-TTTTATAATCGCATAATTAATTTCAAG-TC
* * *
662 AATTTTTTTTTTAACTTTTTTAGTTAAAAC
314 AA--ATTTTTAT-ACATTTTTAGTT-AAAC
* * * ** * * ** * * *
692 ATATTATAATTGAATGTCTATATTGACAAACGTGAAGAAAAAGGCATTCATTGACAACAAAAGTC
1 AGACTATAATTCAATGTCTACCTCGAGAAACGTGAAGAAAAACACATTCATGGACAAGAAAAATC
* * * * * * * *
757 CATTTATTGTCAC-CTATTCTTTCAAAAGCCCTATTA-GTCGCTTTAAATGGTTTTGTAATCTCA
66 TATTTATAGCCACTC-ATTCCTTCAAAAGCCTTATTACG-CGCTTTAAACGATTTTATAATCTCA
* * * ** * * * * *
820 TAATTGATTATAAATTGAAATTTTTTACATTTCTCTTTAAAACAAACTTTAATTGAATATTTACC
129 TAATTGATTTTAAGTTGAAATTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCTATC
* * * * * * *
885 TTGGGAAACATGTAGAAAATGCCATTTACTGAG-AAGAAAAGTCTTTTTATAGTCACCCGTTCTT
194 TCGAGAAACATGAAGAAAAAG-CATTTATTG-GCAAGAAAAGTC-ATTTATAGTCACCCATTCTT
* * *** *
949 TCAAAAGCATTATTACTCGCTTTAAATAGTTTTATAATTTTATAATTCATTTCAAGTCAAATTTT
256 TCAAAAGCATTATTACTCACCTTAAATAGTTTTATAATCGCATAATTAATTTCAAGTCAAA-TTT
*
1014 TTTTACATTTTTAGTTAAAC
320 TTATACATTTTTAGTTAAAC
* * *
1034 AGACTATAATTGAATGTCTACCTTGAGAAACGTGAAGAAAAACACATTCATGGACAAGAAAAGTC
1 AGACTATAATTCAATGTCTACCTCGAGAAACGTGAAGAAAAACACATTCATGGACAAGAAAAATC
* * * *
1099 TATTTATAGCCACTCATTCTTTCAAAGGCCTTATTACGCGCTTTTAATGATTTTATAATCTCATA
66 TATTTATAGCCACTCATTCCTTCAAAAGCCTTATTACGCGCTTTAAACGATTTTATAATCTCATA
**********
1164 ATTGATTTTAAGTTGNNNNNNNNNNCATTTTTGGTTAAAACAGACTATAATTGAATGTCTATCTC
131 ATTGATTTTAAGTTGAAATTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCTATCTC
* * *
1229 GAGAAACATAAAGAAAAAGACATTCATTGGCAAGAAAAGCTCATTTATAGTCACCCATTCTTTCG
196 GAGAAACATGAAGAAAAAG-CATTTATTGGCAAGAAAAG-TCATTTATAGTCACCCATTCTTTCA
* * *
1294 AAAGCCTTATTACTCACCTTAAATAGTTTTATAATCGCATAATTAATTTTAAGTTAAA-TTTTAT
259 AAAGCATTATTACTCACCTTAAATAGTTTTATAATCGCATAATTAATTTCAAGTCAAATTTTTAT
1358 ACATTTTTTA-TTAAAAC
324 ACA-TTTTTAGTT-AAAC
* * * * *
1375 AGACTATAATTCAATGTTTACCTCGCGAAATGTGAAGAAAAA-AGTATTCATGGGCAAGAAAAAT
1 AGACTATAATTCAATGTCTACCTCGAGAAACGTGAAGAAAAACA-CATTCATGGACAAGAAAAAT
* ** ** * **********
1439 CTATTTATAGTCACTTTTTCCTTCAAAAGCCTTATTACTTGCTTTAAACGGTNNNNNNNNNNCAT
65 CTATTTATAGCCACTCATTCCTTCAAAAGCCTTATTACGCGCTTTAAACGATTTTATAATCTCAT
* * * * * *
1504 AATTGATTTTAAGTTTAATTTTTTTACATTTTTGGTCAGAACGGACTATAATTGAGTG-CT-TAC
130 AATTGATTTTAAGTTGAAATTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCTAT-C
* *
1567 TTCAAGAAACATGAAGAAAAATGCATTTATTGACAAGAAAAGTCCATTTAT
194 -TCGAGAAACATGAAGAAAAA-GCATTTATTGGCAAGAAAAGT-CATTTAT
1618 GGTCTCTCAT
Statistics
Matches: 981, Mismatches: 251, Indels: 88
0.74 0.19 0.07
Matches are distributed among these distances:
339 1 0.00
340 19 0.02
341 300 0.31
342 265 0.27
343 16 0.02
344 48 0.05
345 19 0.02
346 136 0.14
347 47 0.05
348 6 0.01
349 3 0.00
350 120 0.12
351 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.37
Consensus pattern (339 bp):
AGACTATAATTCAATGTCTACCTCGAGAAACGTGAAGAAAAACACATTCATGGACAAGAAAAATC
TATTTATAGCCACTCATTCCTTCAAAAGCCTTATTACGCGCTTTAAACGATTTTATAATCTCATA
ATTGATTTTAAGTTGAAATTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCTATCTC
GAGAAACATGAAGAAAAAGCATTTATTGGCAAGAAAAGTCATTTATAGTCACCCATTCTTTCAAA
AGCATTATTACTCACCTTAAATAGTTTTATAATCGCATAATTAATTTCAAGTCAAATTTTTATAC
ATTTTTAGTTAAAC
Found at i:2656 original size:172 final size:161
Alignment explanation
Indices: 2378--2708 Score: 317
Period size: 172 Copynumber: 2.0 Consensus size: 161
2368 CAATTATGAG
** * *
2378 ATTATAAAACCATTTACAACGAGTAATAAGGCTTTCCAAAGAATGAGTCAGTATAAATGGACTTT
1 ATTATAAAACCATTTACAACGAGTAATAAGAATTTCCAAAGAATGAGTCACTATAAATAGACTTT
* * * ***
2443 TCTTGCCATTGAATGCCTTTTTCTTCACATTTTCTGAGGTAGGCATTCAATTGTAGTCTG-TTTA
66 TCCTGCCAATGAATGCCTTTTTCTTCACATTTTCTGAGGTAGACATTCAACAATAGTCTGTTTTA
*
2507 AAAATAAAAAATGTAAAAAATTCAACTTAAAAT
131 AAAA-AAAAAAT-AAAAAAATTCAACTTAAAAT
* ** * * *
2540 NNNNNNNNNNATTATAAAACTATTTA-AACCGAGTAATAAGAATTTTGAAGGAATGGGTGACTAT
1 ----------ATTATAAAACCATTTACAA-CGAGTAATAAGAATTTCCAAAGAATGAGTCACTAT
* *
2604 AAATAGACTTTTCCTGCCAATGAATGTCTTTTTCTTCATA-TTTCTCGAGGTAGACATTCAACAA
55 AAATAGACTTTTCCTGCCAATGAATGCCTTTTTCTTCACATTTTCT-GAGGTAGACATTCAACAA
* * *
2668 TAGTTTGTTTTAACAAAAAATATAAAAAAATTCAACTTAAA
119 TAGTCTGTTTTAAAAAAAAAAATAAAAAAATTCAACTTAAA
2709 NNNNNNNNNN
Statistics
Matches: 134, Mismatches: 22, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
171 24 0.18
172 103 0.77
173 7 0.05
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.34
Consensus pattern (161 bp):
ATTATAAAACCATTTACAACGAGTAATAAGAATTTCCAAAGAATGAGTCACTATAAATAGACTTT
TCCTGCCAATGAATGCCTTTTTCTTCACATTTTCTGAGGTAGACATTCAACAATAGTCTGTTTTA
AAAAAAAAAATAAAAAAATTCAACTTAAAAT
Found at i:3812 original size:171 final size:161
Alignment explanation
Indices: 3600--4081 Score: 354
Period size: 172 Copynumber: 2.9 Consensus size: 161
3590 NNNNNNNNNN
* * *
3600 AATAAGGCTTTTAAAGGAATGGGTCACTATAATGGACTTTTCTTGCCAAAGAATGTATTTTTCTT
1 AATAAGGCTTTTAAAGGAATAGGACACTAAAATGGACTTTTCTTGCCAAAGAATGTATTTTTCTT
* * * *
3665 CACGTTTCTCTAGGTAGACGA-TCAATTATTGTCTGTTTTAACCAAAAATATAAAAAA-ATTTAA
66 CACGTTTCTCAAGCTAGAC-ATTCAATTATAGTATGTTTTAACCAAAAATATAAAAAATATTTAA
* * *
3728 CTTGAAATTAATTATGAGATTATAAAATCANNNNNNNNNNGT
130 CTTAAAATCAATTATAAGATTATAAAATCA----------GT
* * * * *
3770 AATAAGGCTTTTAAAGGAATAGGAGACTAAAATTTGACTTTTCTTGCCGATGAATGTCTTTTTCT
1 AATAAGGCTTTTAAAGGAATAGGACACTAAAA-TGGACTTTTCTTGCCAAAGAATGTATTTTTCT
* * ** *
3835 TTAGGTTTCTCAAGCTAGACATTCAATTATAGTATGTTTTAGTCAAAAATGTAAAAAATATTTAA
65 TCACGTTTCTCAAGCTAGACATTCAATTATAGTATGTTTTAACCAAAAATATAAAAAATATTTAA
* *
3900 CTTAAAATCAATTATAAGATCACAAAACTGTTTAAAGCGAGT
130 CTTAAAATCAATTATAAGATTATAAAA-----T----C-AGT
* * * * *
3942 AATAAGGCTTTCGAAA-GAAT-GTGTA-ACTATAAATAGACTTTTCTTACCAATGAATACT-TTT
1 AATAAGGCTTT-TAAAGGAATAG-G-ACACTA-AAATGGACTTTTCTTGCCAAAGAAT-GTATTT
* * * * *
4003 TTCTTCGCGTTTCTTGATG-TAGACATTCAATTATAATCTGTTTTAACCAAAAATAT-AAAAA-A
61 TTCTTCACGTTTC-TCAAGCTAGACATTCAATTATAGTATGTTTTAACCAAAAATATAAAAAATA
4065 -TTAACTTAAAATCAATT
125 TTTAACTTAAAATCAATT
4082 NNNNNNNNNN
Statistics
Matches: 256, Mismatches: 37, Indels: 39
0.77 0.11 0.12
Matches are distributed among these distances:
169 17 0.07
170 30 0.12
171 81 0.32
172 114 0.45
173 11 0.04
177 1 0.00
181 1 0.00
182 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.36
Consensus pattern (161 bp):
AATAAGGCTTTTAAAGGAATAGGACACTAAAATGGACTTTTCTTGCCAAAGAATGTATTTTTCTT
CACGTTTCTCAAGCTAGACATTCAATTATAGTATGTTTTAACCAAAAATATAAAAAATATTTAAC
TTAAAATCAATTATAAGATTATAAAATCAGT
Found at i:4006 original size:172 final size:170
Alignment explanation
Indices: 2359--4280 Score: 530
Period size: 171 Copynumber: 11.3 Consensus size: 170
2349 NNNNNNNNNN
* * *
2359 ACTTAAAATCAATTATG-AGATTATAAAACCATTTACAA-CGAGTAATAAGGCTTTCCAAAGAAT
1 ACTTAAAATCAATTA-GAAGATCACAAAACCATTTA-AAGCGAGTAATAAGGCTTTCGAAAGAAT
* * * * * * * ** * *
2422 GAGTCAGTATAAATGGACTTTTCTTGCCATTGAATGCCTTTTTCTTCACATTTTCTG-AGGTAGG
64 GAATAACTATAAATAGACTTTTCTTGCCAATGAAT-CTTTTTTCTTTA-GGTTTCTGAAGCTAGA
* * * *** *
2486 CATTCAATTGTAGTCTGTTTAAAAATAAAAAATGT-AAAAAATTCA
127 CATTCAATTATAGTATGTTT--TAGCCAAAAATGTAAAAAAATTTA
********** * * * * ** * * *
2531 ACTTAAAATNNNNNNNNNNATTATAAAACTATTTAAACCGAGTAATAAGAATTTTGAAGGAATGG
1 ACTTAAAATCAATTAGAAGATCACAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAAGAATGA
* * * * * ** *
2596 GTGACTATAAATAGACTTTTCCTGCCAATGAATGTCTTTTTCTTCATATTTCTCG-AGGTAGACA
66 ATAACTATAAATAGACTTTTCTTGCCAATGAATCT-TTTTTCTTTAGGTTTCT-GAAGCTAGACA
** * * * * *
2660 TTCAACAATAGTTTGTTTTAACAAAAAATATAAAAAAATTCA
129 TTCAATTATAGTATGTTTTAGCCAAAAATGTAAAAAAATTTA
********** * * * *
2702 ACTTAAANNNNNNNNNNAGATTACAAAACCATTTAAAGCGAGTAATATGGCTTTTGAAAGGAT-A
1 ACTTAAAATCAATTAGAAGATCACAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAAGAATGA
* * * * *
2766 AGTGACTATAAAT-GAACTTTTCTTGTCAATGAATGTCTTTTTCTTTAGGTTTCTCAAGGTAGAC
66 A-TAACTATAAATAG-ACTTTTCTTGCCAATGAATCT-TTTTTCTTTAGGTTTCTGAAGCTAGAC
********** * * ***
2830 ATTCAATNNNNNNNNNNTTTAACTAAAAATGTAAAAAAATACG
128 ATTCAATTATAGTATGTTTTAGCCAAAAATGTAAAAAAATTTA
* ** * *
2873 ACTTAAAATCAATTATG-AGATTATGAAACCATTTACAGCGAGTAATAAGGCTTTTGAAAGAATG
1 ACTTAAAATCAATTA-GAAGATCACAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAAGAATG
* * * ********** * * * * * * *
2937 AGTGAGTATAAATAGACTNNNNNNNNNNATGAATGTCTTTTGCTTCACGTTTTTTGAGGCAAG-C
65 AATAACTATAAATAGACTTTTCTTGCCAATGAATCT-TTTTTCTTTA-GGTTTCTGAAGCTAGAC
* * * * * *
3001 ATTTAGTTATAGTCTGTTTTAACCAAAAATGTAAACAAATTCA
128 ATTCAATTATAGTATGTTTTAGCCAAAAATGTAAAAAAATTTA
* * * * * * * *
3044 ACCTGAAATTAATTATG-AGATCAGAAAACCAATTAAAGTGAAG-AATAAGGCTTTTGAAAAAAT
1 ACTTAAAATCAATTA-GAAGATCACAAAACCATTTAAAGCG-AGTAATAAGGCTTTCGAAAGAAT
** * * * * * * * * *
3107 GGGTGACTATAAATAGATTTTTCTTACTAATGAATGC-CTTTTCTTTACGTTTCTCAAGGTAGGC
64 GAATAACTATAAATAGACTTTTCTTGCCAATGAAT-CTTTTTTCTTTAGGTTTCTGAAGCTAGAC
*** * * * * *
3171 ATTCAGCAATAGTCTTTTTTA-ACAAAAACTATAAAAAAATTCA
128 ATTCAATTATAGTATGTTTTAGCCAAAAA-TGTAAAAAAATTTA
* * * ********** *
3214 ACTAAAAATCAATTACG-AGATTATAAAACCATNNNNNNNNNNTAATAAGGCTTTTGAAAGAATG
1 ACTTAAAATCAATTA-GAAGATCACAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAAGAATG
* * * * * * * * * * *
3278 AGTGACTATAAATAGACTTTT-TGTTCAAATAAATGCCTTTTTCGTCACGTTTTCT-AAGGTAGG
65 AATAACTATAAATAGACTTTTCT-TGCCAATGAAT-CTTTTTTCTTTA-GGTTTCTGAAGCTAGA
* * ** * * *
3341 CATTCAATTGTAGTTTGTTTTAATCAAAAATATAAATAAATTCA
127 CATTCAATTATAGTATGTTTTAGCCAAAAATGTAAAAAAATTTA
* * ********** *
3385 ACTTAAAATCAATTATG-AGATTATAAAANNNNNNNNNNCGAGTAATAAGGCTTTTG-AAGAAAT
1 ACTTAAAATCAATTA-GAAGATCACAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAAG-AAT
** * * * * * * *
3448 GGGTGACTATAAAT-GAACTTTTGTTAG-TAATGAATCTTTTTTTCTTTATGTTTCTCAGGGTAG
64 GAATAACTATAAATAG-ACTTTTCTT-GCCAATGAATC-TTTTTTCTTTAGGTTTCTGAAGCTAG
* * * * *
3511 ACATTTAATTATATTTTGTTTT-GACCACAAATGTAAAAAAAATTAA
126 ACATTCAATTATAGTATGTTTTAG-CCAAAAATGT-AAAAAAATTTA
* * * * ********** *
3557 ACGTAAAATCAATTTTGAA-ATTATAAAACCATTNNNNNNNNNNAATAAGGCTTT-TAAAGGAAT
1 ACTTAAAATCAA-TTAGAAGATCACAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAA-GAAT
** * * * * * * ** *
3620 GGGTCACTAT-AATGGACTTTTCTTGCCAAAGAATGTATTTTTCTTCACGTTTCTCTAGGTAGAC
64 GAATAACTATAAATAGACTTTTCTTGCCAATGAATCT-TTTTTCTTTAGGTTTCTGAAGCTAGAC
* * * *
3684 GA-TCAATTATTGTCTGTTTTAACCAAAAATATAAAAAAATTTA
128 -ATTCAATTATAGTATGTTTTAGCCAAAAATGTAAAAAAATTTA
* * * * * ********** *
3727 ACTTGAAATTAATTATG-AGATTATAAAATCANNNNNNNNNNGTAATAAGGCTTT-TAAAGGAAT
1 ACTTAAAATCAATTA-GAAGATCACAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAA-GAAT
* * * * * *
3790 AGGA-GACTA-AAATTTGACTTTTCTTGCCGATGAATGTCTTTTTCTTTAGGTTTCTCAAGCTAG
64 -GAATAACTATAAA-TAGACTTTTCTTGCCAATGAATCT-TTTTTCTTTAGGTTTCTGAAGCTAG
*
3853 ACATTCAATTATAGTATGTTTTAGTCAAAAATGTAAAAAATATTTA
126 ACATTCAATTATAGTATGTTTTAGCCAAAAATGTAAAAAA-ATTTA
* ** *
3899 ACTTAAAATCAATTATAAGATCACAAAACTGTTTAAAGCGAGTAATAAGGCTTTCGAAAGAATGT
1 ACTTAAAATCAATTAGAAGATCACAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAAGAATGA
* * * *
3964 GTAACTATAAATAGACTTTTCTTACCAATGAATACTTTTTTC-TTCGCGTTTCTTGATG-TAGAC
66 ATAACTATAAATAGACTTTTCTTGCCAATGAAT-CTTTTTTCTTTAG-GTTTC-TGAAGCTAGAC
* * * *
4027 ATTCAATTATAATCTGTTTTAACCAAAAATAT-AAAAAA-TTA
128 ATTCAATTATAGTATGTTTTAGCCAAAAATGTAAAAAAATTTA
********** * * * *
4068 ACTTAAAATCAATTNNNNNNNNNNAAAACCATTTACAGCGTGTAATAAGGCTTTTGAATGAATGA
1 ACTTAAAATCAATTAGAAGATCACAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAAGAATGA
* * * * * * * * *
4133 ATGAGTATAAATGGACTTTTCTTGCCAATCAATGCCTTTATCTTTATGGTTTTTGAGGC-AGGCA
66 ATAACTATAAATAGACTTTTCTTGCCAATGAAT-CTTTTTTCTTTA-GGTTTCTGAAGCTAGACA
4197 TTCAATTATAGTATGTTTTAGCCAAAAATG-AAAAAAATTTA
129 TTCAATTATAGTATGTTTTAGCCAAAAATGTAAAAAAATTTA
* * *
4238 ACTTAAAATCAATTAGGAGATTATAAAACCATTTAAAGCGAGT
1 ACTTAAAATCAATTAGAAGATCACAAAACCATTTAAAGCGAGT
4281 NNNNNNNNNN
Statistics
Matches: 1333, Mismatches: 360, Indels: 116
0.74 0.20 0.06
Matches are distributed among these distances:
169 142 0.11
170 240 0.18
171 634 0.48
172 303 0.23
173 14 0.01
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.34
Consensus pattern (170 bp):
ACTTAAAATCAATTAGAAGATCACAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAAGAATGA
ATAACTATAAATAGACTTTTCTTGCCAATGAATCTTTTTTCTTTAGGTTTCTGAAGCTAGACATT
CAATTATAGTATGTTTTAGCCAAAAATGTAAAAAAATTTA
Found at i:5019 original size:136 final size:134
Alignment explanation
Indices: 4774--5031 Score: 311
Period size: 136 Copynumber: 1.9 Consensus size: 134
4764 AACAAAAAAA
*
4774 GTAAAAAAAATTGAACTTAAAATGAATTTTGAGATTATAAACAATTTAAAGCGAGTAATAAGGCT
1 GTAAAAAAAATTGAACTCAAAATGAATTTTGAGATTATAAACAATTTAAAGCGAGTAATAAGGCT
********** * *
4839 TTNNNNNNNNNNAGTGACAATAAATGGACTTTTCTTGCTAATGAATGCATTTTTCTTCATGTTTC
66 TTTGAATGAATGAGAGACAATAAATGGACTTTTCTTGCCAATGAAT-CATTTTTCTTCATGTTTC
4904 TCAAT
130 TCAAT
* **
4909 GTAAAAAAAATTGAGCTCAAAATGAATTTTGAGATTATAAA-ATCATTTAAATTGAGTAATAAGG
1 GTAAAAAAAATTGAACTCAAAATGAATTTTGAGATTATAAACA--ATTTAAAGCGAGTAATAAGG
* * *
4973 CTTTTGAATGAATGAGAGACTATAAATGGACTTTTCTTGCCCATGAATCTTTTTTCTTC
64 CTTTTGAATGAATGAGAGACAATAAATGGACTTTTCTTGCCAATGAATCATTTTTCTTC
5032 GCGTTTCTTG
Statistics
Matches: 102, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
134 1 0.01
135 49 0.48
136 52 0.51
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.35
Consensus pattern (134 bp):
GTAAAAAAAATTGAACTCAAAATGAATTTTGAGATTATAAACAATTTAAAGCGAGTAATAAGGCT
TTTGAATGAATGAGAGACAATAAATGGACTTTTCTTGCCAATGAATCATTTTTCTTCATGTTTCT
CAAT
Found at i:5251 original size:170 final size:168
Alignment explanation
Indices: 4940--5449 Score: 583
Period size: 172 Copynumber: 3.0 Consensus size: 168
4930 ATGAATTTTG
* * ** * *
4940 AGATTATAAAATCATTTAAATTGAGTAATAAGGCTTTTGAATGAATGAGAGACTATAAATGGACT
1 AGATTAAAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACT
* * *
5005 TTTCTTGCCCATGAATCTTTTT-TCTTCGCGTTTCTTGAGGTAGACATTTAATTATAGTCTGTTT
66 TTTCTTGCCAATGAATCTTTTTCT-TTAG-GTTTCTCGAGGTAGACATTTAATTATAGTCTGTTT
* * *
5069 CAACCAAAAATATAAAAACATTTCACTAAAAATCAATTATG
129 TAACCAAAAATATAAAAA-ATTTCACTTAAAATCAATTATA
* * * *
5110 AGATTAAAAAACTATTTAATGCGGGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGGACT
1 AGATTAAAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACT
* * *
5175 TTTTTTGCCAATGTATATCTTTTTCTTTAGGTTTCTCAAGGTAAACATTTAATTATAGTCTGTTT
66 TTTCTTGCCAATG-A-ATCTTTTTCTTTAGGTTTCTCGAGGTAGACATTTAATTATAGTCTGTTT
*
5240 TAACC-AAAATATAGAAAAATAATCAACTTAAAATCAATTATA
129 TAACCAAAAATATA-AAAAAT-TTC-ACTTAAAATCAATTATA
* * ** * * * *
5282 AGATTATAAAACCGTTTAAAGTTAGTAATAAAGCTTTTAAAAGAATGAGTGACTACAAATAGACT
1 AGATTAAAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACT
* * * * ** *
5347 TTTCTTACCAATGAATGCTTTTTTCTTTATGTTTCTCGGGGTAGATATCCAATTATATTCTGTTT
66 TTTCTTGCCAATGAAT-C-TTTTTCTTTAGGTTTCTCGAGGTAGACATTTAATTATAGTCTGTTT
* *
5412 TAACCAAAAATGTAAAAAATTTAACTTAAAATCAATTA
129 TAACCAAAAATATAAAAAATTTCACTTAAAATCAATTA
5450 NNNNNNNNNN
Statistics
Matches: 286, Mismatches: 45, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
170 93 0.33
171 46 0.16
172 139 0.49
173 8 0.03
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (168 bp):
AGATTAAAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGGACT
TTTCTTGCCAATGAATCTTTTTCTTTAGGTTTCTCGAGGTAGACATTTAATTATAGTCTGTTTTA
ACCAAAAATATAAAAAATTTCACTTAAAATCAATTATA
Found at i:7392 original size:341 final size:341
Alignment explanation
Indices: 5628--9064 Score: 1072
Period size: 341 Copynumber: 10.1 Consensus size: 341
5618 NNNNNNNNNN
* * * *
5628 TAAGGATTTTGAAGGAATGGGTGACTATAAATGAACTTTTCTTGCCAATGAATGTCC-TTTTCTT
1 TAAGGATCTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTACCAATGAATG-CCTTTTTCTT
* ** * * * * * * *
5692 CACGTTTCTCA-AGGTAGACATTCAACAATAGTCTGTTTTAACCAAAAATATAGAAAAATTTAAC
65 CACTTTTCT-AGAGACAAATAGTCAACAATAGTTTGTTTTAACTAAAAATATAAAAAAAATTAAC
********** * *
5756 TTAAAATNNNNNNNNNNATTATAAAACTATTTAAAGCGAGTAATAAGGCCTTTGAAAGAATCG-G
129 TTAAAATAAATTATGAGATTATAAAACTATTTAAAGCCAGTAATAA-GACTTTGAAAGAAT-GAG
* ** * ** * * * * *
5820 TAACTATAAATTGACTTTTCTTG-TCAATGAATGTCTTTTTCTTTAGGTTTCT-TATGGTAGACA
192 TGACTATAAATAAACTTTTC-TGCTCAATAAATACCTTTTTCTTCACGTTTATCGA-AGTAGACA
********** *
5883 TTCAATTATAGTCTGTTTTAACTAAAAATATAAAAANNNNNNNNNNAAAATTAATTATGAGATTA
255 TTCAATTATAGTCTGTTTTAACTAAAAATATAAAAAAATACATCTTAAAATCAATTATGAGATTA
* **
5948 TAAAACCATTTACAGTGAGTAA
320 TAAAACCATTTATAACGAGTAA
* * *
5970 TAAGGCTTTTGGAA-GAATGAGTGAGTATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTT
1 TAAGGATCTT-GAAGGAATGAGTGACTATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTT
* ** * * * ** *
6034 CACCTTTTTTGATGTAGAC--AT--TCAATTATTGTCTGTTTTAACCAAAAGCAT-AAACAAATT
65 CA-CTTTTCT-A-G-AGACAAATAGTCAACAATAGTTTGTTTTAACTAAAAATATAAAAAAAATT
* * * * * * *
6094 CAACTTAAAATTAATTATGAGATAAGAAAA-TCATTTAAAGCTAATAATAAGGCTTTTGAAGGAA
126 -AACTTAAAATAAATTATGAGATTATAAAACT-ATTTAAAGCCAGTAATAAGAC-TTTGAAAGAA
* * * * * * * *
6158 TGGGGGGGCTATAAATAAATTTTTCTTAC-CAATAAATGCC-TTTTCTTCATGTTTCTTCAGACA
188 T-GAGTGACTATAAATAAACTTTTC-TGCTCAATAAATACCTTTTTCTTCACGTTT-ATC-GA-A
** * * * * * *
6221 -T-G-CATTCAACAATTA-TCTGTTTTAACAAAAAATGT-AAAAAATTCAACTTAAAATTAGTTA
248 GTAGACATTCAATTA-TAGTCTGTTTTAACTAAAAATATAAAAAAATACATCTTAAAATCAATTA
**********
6281 TGAGATTATAAAACCATNNNNNNNNNNTAA
312 TGAGATTATAAAACCATTTATAACGAGTAA
* * * * *
6311 TAAGGCTTTTGAAAGAATGAGTGACTATAAATAGA-TTTT-TTATCCCAATGAATGTCTTTTTCT
1 TAAGGATCTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTA--CCAATGAATGCCTTTTTCT
** *** * *** * *
6374 TCACATTTTCT-GAGGTAGGCATTCAATTGTAGTTTGTTTTAA-TAAAAA-ATGCAAACAAATTC
64 TCAC-TTTTCTAGAGACAAATAGTCAACAATAGTTTGTTTTAACTAAAAATAT-AAAAAAAATT-
********** * ** *
6436 AACTTAAANNNNNNNNNNAGATTATAAAA-TCATTTAAGGTGAGTAATAAGGCTTCT-AAAGGAA
126 AACTTAAAATAAATTATGAGATTATAAAACT-ATTTAAAGCCAGTAATAAGACTT-TGAAA-GAA
* ** * * * * * * * * * **
6499 TGGGTGACTATAAATGGACTTTT-T-TTGCAATGAATCCCTTTTCCTTTATGTGTCTTGGGGTAG
188 TGAGTGACTATAAATAAACTTTTCTGCT-CAATAAATACCTTTTTCTTCACGTTTATCGAAGTAG
* * * * * * * * *
6562 ACATTCAATTATATTCTATTTTGACCACAAATGTAAAAAAAATAAAATTGAACGTAACATCAAAT
252 ACATTCAATTATAGTCTGTTTTAACTAAAAATAT-AAAAAAAT-ACA-T---CTTAAAATC-AAT
*******
6627 T-TGAGATTATAAAACCATTTA-AANNNNNNNN
310 TATGAGATTATAAAACCATTTATAA-CGAGTAA
** * * * * * * * *
6658 NNAGGCTTTTAAAGGAATGGGTCACTAT-AATAGACTTTTCTTGCCAATGAATGCATTTTTCTTC
1 TAAGGATCTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTTC
* * * * * * * * *
6722 ATGTTTCTCTTGGTAGAC---CA-TCAATTATTA-TCTATTTTAACCAAAAATGTAAAAAAAATT
66 A-CTTT-TC-TAG-AGACAAATAGTCAA-CAATAGTTTGTTTTAACTAAAAATATAAAAAAAATT
* * * * * * * *
6782 AACTTGAAATCAATTATGGGATTATAAAA-TCGTTTAAAGCGAGTAATATGGCTTTTGAAGGAAT
126 AACTTAAAATAAATTATGAGATTATAAAACT-ATTTAAAGCCAGTAATAAGAC-TTTGAAAGAAT
* * * * ** * *
6846 GAGTGACTATAAATGAA-TTTTCTTGC-CAATGAATGCC-TTTTCTTTATATTTCTC-AAGGCAG
189 GAGTGACTATAAATAAACTTTTC-TGCTCAATAAATACCTTTTTCTTCACGTTTATCGAA-GTAG
* ** * * * * * *
6907 GCATTCAACAATAGTCTGTTTTAACCAAAAATGTAAAGAAGTTC-TACTTAAAACCAATTATGAG
252 ACATTCAATTATAGTCTGTTTTAACTAAAAATATAAAAAAATACAT-CTTAAAATCAATTATGAG
* * **********
6971 ACTATAAAACTATNNNNNNNNNNTAA
316 ATTATAAAACCATTTATAACGAGTAA
* * * * * *
6997 TAAGGCTTTTGAAAGAATAAAG-GACTATAAATGGACTTTTCGTCCCAATGAATGCCTTTTTCTT
1 TAAGGATCTTGAAGGAAT-GAGTGACTATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTT
** *** * *
7061 CACATTTTCT-GATG-CAGGTAGTCAATTGTAGTTTGTTTTAA-TAAAAA-ATGTAAACAAATTC
65 CAC-TTTTCTAGA-GACAAATAGTCAACAATAGTTTGTTTTAACTAAAAATAT-AAAAAAAATT-
* * **
7122 AACTTAAAATAAATTATGAGATTA-AAAATTCATTTACAGTGAGTAATAA-AGCTTTTGAAAGAA
126 AACTTAAAATAAATTATGAGATTATAAAACT-ATTTAAAGCCAGTAATAAGA-C-TTTGAAAGAA
* *** * * *
7185 TGAGTGAGTATAAATGGTCTTTTCATGC-CAATGAATGCCTTTTTCTTCACGTTTATTGAAGTAG
188 TGAGTGACTATAAATAAACTTTTC-TGCTCAATAAATACCTTTTTCTTCACGTTTATCGAAGTAG
* * ********** *
7249 GCATTCAATTATAGTCTGTTTTAACTAAAAATGT-AAAAAATNNNNNNNNNNATCAATTATGTGA
252 ACATTCAATTATAGTCTGTTTTAACTAAAAATATAAAAAAATACATCTTAAAATCAATTATGAGA
7313 TTATAAAACCATTTA-AAGCGAGTAA
317 TTATAAAACCATTTATAA-CGAGTAA
* * *
7338 TAAGGATCTTGAAGGAATCG-GTGACTATAAATGGACTTTTTTTATCACTGAATGCCTTTTTCTT
1 TAAGGATCTTGAAGGAAT-GAGTGACTATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTT
* * * *
7402 CACGTTTCTAGAGATAAATATTCAACAATAGTTTGTTTTAACTAAAAATATAAAAAAAATTGACT
65 CACTTTTCTAGAGACAAATAGTCAACAATAGTTTGTTTTAACTAAAAATATAAAAAAAATTAACT
* * *
7467 TAAAATCAATTATGAGATTATCAAACTATTTAAAGCCAGTAATAAGACTTTGAAAGAATGGGTGA
130 TAAAATAAATTATGAGATTATAAAACTATTTAAAGCCAGTAATAAGACTTTGAAAGAATGAGTGA
* * * * * *
7532 CTATAAATAAACTTTTCTTCTCAATAAATATCTTTTTCTTTAGGTTTCTCGAGGTAGACATTCAA
195 CTATAAATAAACTTTTCTGCTCAATAAATACCTTTTTCTTCACGTTTATCGAAGTAGACATTCAA
*
7597 TTATAGTCTTTTTTAACTAAAAATATAAAAAAATACATCTTAAAATCAATTATGAGATTATAAAA
260 TTATAGTCTGTTTTAACTAAAAATATAAAAAAATACATCTTAAAATCAATTATGAGATTATAAAA
*
7662 TCATTTATAACGAGTAA
325 CCATTTATAACGAGTAA
* * * *
7679 TAAGGCTTTTGAAGGAATGAGTGAGTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTC
1 TAAGGATCTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTTC
* * ** * * * * * * *
7744 ACGTTTTTCAAAGTAGAC---T-TTCAATTATGGTCTATTTTAACGAAAAGTGT-AAACAAATTC
66 AC--TTTTC-TAG-AGACAAATAGTCAACAATAGTTTGTTTTAACTAAAAATATAAAAAAAATT-
********** * * * * ** *
7804 AACTTANNNNNNNNNNTGAGATCAGAAAACTATTTAAAGCAAGCAATAAGGTTTTTAAAGGAATG
126 AACTTAAAATAAATTATGAGATTATAAAACTATTTAAAGCCAGTAATAAGACTTTGAAA-GAATG
* * * * * ** * * *
7869 GGTGACTGTAAATAGACTTTTCTTG-TCAATAAATGCC-TTTTCATCATATTTCT-TAAGGTAGG
190 AGTGACTATAAATAAACTTTTC-TGCTCAATAAATACCTTTTTCTTCACGTTTATCGAA-GTAGA
** * * * * *
7931 CATTCAACAATAGTCTGTTTTAACCAAATATGTAAAAAAATTCAACTTAAAATCAATTATGAGAT
253 CATTCAATTATAGTCTGTTTTAACTAAAAATATAAAAAAATACATCTTAAAATCAATTATGAGAT
*
7996 TATAAAACCATTTA-AAGCGACTAA
318 TATAAAACCATTTATAA-CGAGTAA
* * * * *
8020 T-ATGACTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCGT-CTCAATGAATGCCTTTTGCT
1 TAAGGA-TCTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTAC-CAATGAATGCCTTTTTCT
* ** * ** * * * **
8083 TCACGTTTTCTA-AGGCAAGCATTCAATTATAGTTTGTTCTAA-T-CAAATATGTAAACTAATTC
64 TCAC-TTTTCTAGAGACAAATAGTCAACAATAGTTTGTTTTAACTAAAAATAT-AAAAAAAATT-
* * * ********** * *
8145 AACTTAAAATCAATTATGATATTATAAAACCATTTNNNNNNNNNNATAAGGCTTCTGAAGGAATG
126 AACTTAAAATAAATTATGAGATTATAAAACTATTTAAAGCCAGTAATAAGACTT-TGAAAGAATG
* * * * * * * * *
8210 CGTGACTATAAATGAACTTTTCTTCCCAATGAAT-CTCTTTTTCTTTACGTTTCT-TAGGGTAGA
190 AGTGACTATAAATAAACTTTTCTGCTCAATAAATAC-CTTTTTCTTCACGTTTATCGA-AGTAGA
* * * * * ** * * *
8273 GATTCAATTATATTCTGTTTTAACCACAAATGTAAAAAAAATTGAACGTAAAATCAATTTTGAGA
253 CATTCAATTATAGTCTGTTTTAACTAAAAATAT-AAAAAAATACATCTTAAAATCAATTATGAGA
* *
8338 TTATAAAATCATTTA-AAGTGAGTAA
317 TTATAAAACCATTTATAA-CGAGTAA
* * * * * * * * *
8363 TATGGCTTTTAAAGGAATGGGTCAATAT-AATGGACTTTTCTTACCAAGGAATGCATTTTTCTTC
1 TAAGGATCTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTTC
* * * ** * * * * *
8427 ATGTTTCTCTAG-G-TAGACGGTCAATTATTA-TCTGTTTTAACTAAAAATGTAAAAAAATTTAA
66 A-CTTT-TCTAGAGACAAATAGTCAA-CAATAGTTTGTTTTAACTAAAAATATAAAAAAAATTAA
* * * ************ * * *
8489 CTTGAAATCAATTATGGGATTATAAAANNNNNNNNNNTGAGTAATAAGGCTTTTAAAGGAATGGG
128 CTTAAAATAAATTATGAGATTATAAAACTATTTAAAGCCAGTAATAAGACTTTGAAA-GAATGAG
* * * * * * * *
8554 TGACTATAAATGAATTTTTCTTGC-CAATGAATGCC-TTTTCTTCATGTTTCTC-AAGCTCGGCA
192 TGACTATAAATAAACTTTTC-TGCTCAATAAATACCTTTTTCTTCACGTTTATCGAAG-TAGACA
** * * * * * ****
8616 TTCAACAATAGTCTGTTTTAGGA-AAAAAATGTAAAAAAATTCAACTTAAAATTAATTATGNNNN
255 TTCAATTATAGTCTGTTTTA--ACTAAAAATATAAAAAAATACATCTTAAAATCAATTATGAGAT
****** * *
8680 NNNNNNACCATTTAAAACAAGTAA
318 TATAAAACCATTTATAACGAGTAA
* * * * ** ***
8704 TAAGGCTTTTGAAAGAATGAGAGACTATAAATAAACTTTT-TGT-CTCAATGAATATTTTTTTCT
1 TAAGGATCTTGAAGGAATGAGTGACTATAAATGGACTTTTCT-TAC-CAATGAATGCCTTTTTCT
* ** *** * * *** * *
8767 TCACGTTTTTTA-AGGTAGGCATTTAATTGTAGTTTGTTTTAA-TAAAAA-ATGTAAACAAATTC
64 TCAC-TTTTCTAGAGACAAATAGTCAACAATAGTTTGTTTTAACTAAAAATAT-AAAAAAAATT-
* * * * *
8829 AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATG
126 AACTTAAAATAAATTATGAGATTATAAAACTATTTAAAGCCAGTAATAAGAC-TTTGAAAGAATG
* * * * *** *
8894 GGTGACTATAAATAGACTTTTCTTG-TCAATGAATCCCTTTTTCTTTGTGTTTCTC-AAGGTAGA
190 AGTGACTATAAATAAACTTTTC-TGCTCAATAAATACCTTTTTCTTCACGTTTATCGAA-GTAGA
* * * * * ** * * * *
8957 CATTCAATTATATTCTGTTTTGACCACAAATGTAAAAAAAATTGAACGTAAAATTAAAT-TGAAG
253 CATTCAATTATAGTCTGTTTTAACTAAAAATAT-AAAAAAATACATCTTAAAATCAATTATG-AG
9021 ATTATAAAACCATTTA-AAGCGAGTAA
316 ATTATAAAACCATTTATAA-CGAGTAA
* *
9047 TAAGGCTTTTGAAGGAAT
1 TAAGGATCTTGAAGGAAT
9065 AGATCACTAG
Statistics
Matches: 2335, Mismatches: 614, Indels: 291
0.72 0.19 0.09
Matches are distributed among these distances:
336 2 0.00
337 7 0.00
338 10 0.00
339 93 0.04
340 299 0.13
341 845 0.36
342 582 0.25
343 232 0.10
344 17 0.01
345 51 0.02
346 109 0.05
347 78 0.03
348 7 0.00
349 1 0.00
350 2 0.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.35
Consensus pattern (341 bp):
TAAGGATCTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTTC
ACTTTTCTAGAGACAAATAGTCAACAATAGTTTGTTTTAACTAAAAATATAAAAAAAATTAACTT
AAAATAAATTATGAGATTATAAAACTATTTAAAGCCAGTAATAAGACTTTGAAAGAATGAGTGAC
TATAAATAAACTTTTCTGCTCAATAAATACCTTTTTCTTCACGTTTATCGAAGTAGACATTCAAT
TATAGTCTGTTTTAACTAAAAATATAAAAAAATACATCTTAAAATCAATTATGAGATTATAAAAC
CATTTATAACGAGTAA
Found at i:9712 original size:683 final size:679
Alignment explanation
Indices: 5628--10255 Score: 2673
Period size: 683 Copynumber: 6.8 Consensus size: 679
5618 NNNNNNNNNN
* * * * * * * *
5628 TAAGGATTTTGAAGGAATGGGTGACTATAAATGAACTTTTCTTGCCAATGAATGTC-CTTTTCTT
1 TAAGGCTTTTAAAGGAATGGATCACTAT-AATGGACTTCTCTTACCAATGAATG-CATTTTTCTT
* * * * *
5692 CACGTTTCTCAAGGTAGAC-ATTCAA-CAATAGTCTGTTTTAACCAAAAATATAGAAAAATTTAA
64 CACGTTTCTCTAGGTAGACGA-TCAATTATTA-TCTGTTTTAACCAAAAATGTAAAAAAATTTAA
********** * * *
5755 CTTAAAATNNNNNNNNNNATTATAAAACTATTTAAAGCGAGTAATAAGGCCTTTGAAA-GAATCG
127 CTTAAAATCAATTATGGGATTATAAAACTATTTAAAGCGAGTAATAAGG-TTTTTAAAGGAATGG
* * * * * * * * *
5819 GTAACTATAAATTGACTTTTCTTGTCAATGAATGTCTTTTTCTTTAGGTTTCTTATGGTAGACAT
191 GTGACTATAAATTGACTTTTCTTGCCAATGAATG-CCTTTTCATCATGTTTCTCAAGGTAGGCAT
** * ********** * * *
5884 TCAATTATAGTCTGTTTTAACTAAAAATATAAAAANNNNNNNNNNAAAATTAATTATGAGATTAT
255 TCAACAATAGTCTGTTTTAAC-AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGAGTAC
* * * * * *
5949 AAAACCATTTACAGTGAGTAATAAGGCTTTTGGAAGAATGAGTGAGTATAAATGGACTTTTCTTA
319 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGAGACTATAAATAGACTTTTCTT-
*** * * * * * * **
6014 C-CAATGAATGCCTTTTTCTTCACCTTTTTTGATGT-AGACATTCAATTATTGTCTGTTTTAACC
383 CTCAATGAATATTTTTTTCTTCA-CGTTTTTAAGGTAAG-CATTTAATTATAGTTTG-TTTAATA
** * * * * * *
6077 AAAAGCATAAACAAATTCAACTTAAAATTAATTATGAGATAAGAAAATCATTTAAAGCTAATAAT
445 AAAAATATAAACAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * * *
6142 AAGGCTTTTGAAGGAATGGGGGGGCTATAAATAAATTTTTCTTACCAATAAATGC-C-TTTTCTT
510 AAGGCTTTTGAAAGAAT-GGGTGACTATAAATAAACTTTTCTT-CCAATAAAT-CTCTTTTTCTT
* * ** ** * * * *
6205 CATGTTTCTTC-AGACATG-CATTCAACAAT-TATCTGTTTTAACAAAAAATGT--AAAAAATTC
572 TACGTTTC-TCAAGGTA-GACATTCAATTATAT-TCTGTTTTGACCACAAATGTAAAAAAAATTG
* * * * **********
6265 AACTTAAAATTAGTTATGAGATTATAAAACCATNNNNNNNNNNTAA
634 AACGTAAAATCAATTTTGAGATTATAAAACCATTTAAAGCGAGTAA
* * *
6311 TAAGGCTTTTGAAA-GAAT-GAGTGACTATAAATAGA-TT-TTTTATCCCAATGAATGTC-TTTT
1 TAAGGCTTTT-AAAGGAATGGA-TCACTAT-AATGGACTTCTCTTA--CCAATGAATG-CATTTT
* * * * ** * *
6371 TCTTCACATTT-TCTGAGGTAGGC-ATTCAATT-GTAGTTTGTTTTAATAAAAAATGCAAACAAA
60 TCTTCACGTTTCTCT-AGGTAGACGA-TCAATTATTA-TCTGTTTTAACCAAAAATGTAAAAAAA
* *********** * * * *
6433 TTCAACTTAAANNNNNNNNNNAGATTATAAAA-TCATTTAAGGTGAGTAATAAGGCTTCTAAAGG
122 TTTAACTTAAAATCAATTATGGGATTATAAAACT-ATTTAAAGCGAGTAATAAGGTTTTTAAAGG
* * * * * * ***
6497 AATGGGTGACTATAAATGGACTTTTTTTG-CAATGAATCCCTTTTCCTTTATGTGTCTTGGGGTA
186 AATGGGTGACTATAAATTGACTTTTCTTGCCAATGAATGCCTTTT-CATCATGTTTCTCAAGGTA
* ** * * * * * * *
6561 GACATTCAATTATATTCTATTTTGACCACAAATGTAAAAAAAATAAAATTGAACGTAACATCAAA
250 GGCATTCAACAATAGTCTGTTTT-AACAAAAATGT-----AAA-AAAATTCAACTTAAAATC-AA
* * ********** * **
6626 TT-TGAGATTATAAAACCATTTAAANNNNNNNNNNAGGCTTTT-AAAGGAATGGGTCACTAT-AA
307 TTATGAGAGTACAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAA-GAATGAGAGACTATAAA
*** * * * *
6688 TAGACTTTTCTTGC-CAATGAATGCATTTTTCTTCATGTTTCTCT-TGGTAGACCA-TCAATTAT
371 TAGACTTTTCTT-CTCAATGAATATTTTTTTCTTCACGTTT-T-TAAGGTA-AGCATTTAATTA-
** * * * * *
6750 TA-TCTAT-TTTAACCAAAAATGTAAAAAAAATT-AACTTGAAATCAATTATGGGATTATAAAAT
431 TAGT-T-TGTTTAATAAAAAATAT-AAACAAATTCAACTTAAAATCAATTATGAGATTATAAAAC
* * * * *
6812 CGTTTAAAGCGAGTAATATGGCTTTTGAAGGAATGAGTGACTATAAATGAA-TTTTCTTGCCAAT
493 CATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAAACTTTTCTT-CCAAT
* ** * * ** * * *
6876 GAATGC-C-TTTTCTTTATATTTCTCAAGGCAGGCATTCAACAATAGTCTGTTTTAACCAAAAAT
557 AAAT-CTCTTTTTCTTTACGTTTCTCAAGGTAGACATTCAATTATATTCTGTTTTGACCACAAAT
* * ** * * * * * **********
6939 GT-AAAGAAGTTCTACTTAAAACCAATTATGAGACTATAAAACTATNNNNNNNNNNTAA
621 GTAAAAAAAATTGAACGTAAAATCAATTTTGAGATTATAAAACCATTTAAAGCGAGTAA
** ** * * * *
6997 TAAGGCTTTTGAAA-GAATAAAGGACTATAAATGGACTTTTCGTCCCAATGAATGCCTTTTTCTT
1 TAAGGCTTTT-AAAGGAATGGATCACTAT-AATGGACTTCTCTTACCAATGAATGCATTTTTCTT
* * * * * ** * *
7061 CACATTT-TCT-GAT-GCAGGTAGTCAATT-GTAGTTTGTTTTAATAAAAAATGTAAACAAATTC
64 CACGTTTCTCTAGGTAG-ACG-A-TCAATTATTA-TCTGTTTTAACCAAAAATGTAAAAAAATTT
* * * * * * *
7122 AACTTAAAATAAATTATGAGATTA-AAAATTCATTTACAGTGAGTAATAAAGCTTTTGAAA-GAA
125 AACTTAAAATCAATTATGGGATTATAAAACT-ATTTAAAGCGAGTAAT-AAGGTTTTTAAAGGAA
* * * * * * * * *
7185 TGAGTGAGTATAAATGGTCTTTTCATGCCAATGAATGCCTTTTTCTTCACGTTTATTGAA-GTAG
188 TGGGTGACTATAAATTGACTTTTCTTGCCAATGAATGCC-TTTTCATCATGTTT-CTCAAGGTAG
** ********** *
7249 GCATTCAATTATAGTCTGTTTTAACTAAAAATGT-AAAAAATNNNNNNNNNNATCAATTATGTGA
251 GCATTCAACAATAGTCTGTTTTAAC-AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGA
* * * * * * *
7313 TTATAAAACCATTTAAAGCGAGTAATAAGGATCTTGAAGGAATCG-GTGACTATAAATGGACTTT
315 GTACAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAAT-GAGAGACTATAAATAGACTTT
* * * *** * * ** * **
7377 TTTTATCACTGAATGCCTTTTTCTTCACGTTTCTAGAGATAAATATTCAACAATAGTTTGTTTTA
379 TCTTCTCAATGAATATTTTTTTCTTCACGTTTTTA-AGGTAAGCATTTAATTATAGTTTG-TTTA
* * * * *
7442 ACT-AAAAATATAAAAAAAATT-GACTTAAAATCAATTATGAGATTATCAAACTATTTAAAGCCA
442 A-TAAAAAATAT-AAACAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGA
* *
7505 GTAATAAGAC-TTTGAAAGAATGGGTGACTATAAATAAACTTTTCTTCTCAATAAATATCTTTTT
505 GTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAAACTTTTCTTC-CAATAAATCTCTTTTT
* * * * * * * * **
7569 CTTTAGGTTTCTCGAGGTAGACATTCAATTATAGTCTTTTTTAACTAAAAATAT-AAAAAAATAC
569 CTTTACGTTTCTCAAGGTAGACATTCAATTATATTCTGTTTTGACCACAAATGTAAAAAAAATTG
* * * *
7633 ATCTTAAAATCAATTATGAGATTATAAAATCATTTATAA-CGAGTAA
634 AACGTAAAATCAATTTTGAGATTATAAAACCATTTA-AAGCGAGTAA
* * * * * *
7679 TAAGGCTTTTGAAGGAAT-GAGTGAGTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTT
1 TAAGGCTTTTAAAGGAATGGA-TCACTAT-AATGGACTTCTCTTACCAATGAATGCATTTTTCTT
* * * ** ** * * * * *
7743 CACGTTTTTCAAAGTAGACTTTCAATTATGGTCTATTTTAACGAAAAGTGTAAACAAATTCAACT
64 CACGTTTCTCTAGGTAGACGATCAATTATTATCTGTTTTAACCAAAAATGTAAAAAAATTTAACT
********** * * * * *
7808 TANNNNNNNNNNTGAGATCAGAAAACTATTTAAAGCAAGCAATAAGGTTTTTAAAGGAATGGGTG
129 TAAAATCAATTATGGGATTATAAAACTATTTAAAGCGAGTAATAAGGTTTTTAAAGGAATGGGTG
* * * * * *
7873 ACTGTAAATAGACTTTTCTTGTCAATAAATGCCTTTTCATCATATTTCTTAAGGTAGGCATTCAA
194 ACTATAAATTGACTTTTCTTGCCAATGAATGCCTTTTCATCATGTTTCTCAAGGTAGGCATTCAA
* * *
7938 CAATAGTCTGTTTTAACCAAATATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA
259 CAATAGTCTGTTTTAA-CAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGAGTACAAAA
* * * * * *
8003 CCATTTAAAGCGACTAATATGACTTTTGAAAGAATGAGTGACTATAAATGGACTTTTCGTCTCAA
323 CCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGAGACTATAAATAGACTTTTCTTCTCAA
*** * * * * *
8068 TGAATGCCTTTTGCTTCACGTTTTCTAAGGCAAGCATTCAATTATAGTTTGTTCTAATCAAATAT
388 TGAATATTTTTTTCTTCACGTTTT-TAAGGTAAGCATTTAATTATAGTTTGTT-TAATAAAAAAT
* * * **********
8133 GTAAACTAATTCAACTTAAAATCAATTATGATATTATAAAACCATTTNNNNNNNNNNATAAGGCT
451 ATAAACAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCT
* * * * *
8198 TCTGAAGGAATGCGTGACTATAAATGAACTTTTCTTCCCAATGAATCTCTTTTTCTTTACGTTTC
516 TTTGAAAGAATGGGTGACTATAAATAAACTTTTCTT-CCAATAAATCTCTTTTTCTTTACGTTTC
* * * *
8263 TTAGGGTAGAGATTCAATTATATTCTGTTTTAACCACAAATGTAAAAAAAATTGAACGTAAAATC
580 TCAAGGTAGACATTCAATTATATTCTGTTTTGACCACAAATGTAAAAAAAATTGAACGTAAAATC
* *
8328 AATTTTGAGATTATAAAATCATTTAAAGTGAGTAA
645 AATTTTGAGATTATAAAACCATTTAAAGCGAGTAA
* * * * *
8363 TATGGCTTTTAAAGGAATGGGTCAATATAATGGACTTTTCTTACCAAGGAATGCATTTTTCTTCA
1 TAAGGCTTTTAAAGGAATGGATCACTATAATGGACTTCTCTTACCAATGAATGCATTTTTCTTCA
* * * *
8428 TGTTTCTCTAGGTAGACGGTCAATTATTATCTGTTTTAACTAAAAATGTAAAAAAATTTAACTTG
66 CGTTTCTCTAGGTAGACGATCAATTATTATCTGTTTTAACCAAAAATGTAAAAAAATTTAACTTA
*********** *
8493 AAATCAATTATGGGATTATAAAANNNNNNNNNNTGAGTAATAAGGCTTTTAAAGGAATGGGTGAC
131 AAATCAATTATGGGATTATAAAACTATTTAAAGCGAGTAATAAGGTTTTTAAAGGAATGGGTGAC
* * * *
8558 TATAAA-TGAATTTTTCTTGCCAATGAATGCCTTTTCTTCATGTTTCTCAAGCTCGGCATTCAAC
196 TATAAATTG-ACTTTTCTTGCCAATGAATGCCTTTTCATCATGTTTCTCAAGGTAGGCATTCAAC
* * **********
8622 AATAGTCTGTTTTAGGAAAAAAATGTAAAAAAATTCAACTTAAAATTAATTATGNNNNNNNNNNA
260 AATAGTCTGTTTTA--ACAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGAGTACAAAA
* * *
8687 CCATTTAAAACAAGTAATAAGGCTTTTGAAAGAATGAGAGACTATAAATAAACTTTT-TGTCTCA
323 CCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGAGACTATAAATAGACTTTTCT-TCTCA
* *
8751 ATGAATATTTTTTTCTTCACGTTTTTTAAGGTAGGCATTTAATTGTAGTTTGTTTTAATAAAAAA
387 ATGAATATTTTTTTCTTCACG-TTTTTAAGGTAAGCATTTAATTATAGTTTG-TTTAATAAAAAA
*
8816 TGTAAACAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGC
450 TATAAACAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGC
* * * * * **
8881 TTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGTCAATGAATCCCTTTTTCTTTGTGTTT
515 TTTTGAAAGAATGGGTGACTATAAATAAACTTTTCTT-CCAATAAATCTCTTTTTCTTTACGTTT
8946 CTCAAGGTAGACATTCAATTATATTCTGTTTTGACCACAAATGTAAAAAAAATTGAACGTAAAAT
579 CTCAAGGTAGACATTCAATTATATTCTGTTTTGACCACAAATGTAAAAAAAATTGAACGTAAAAT
* *
9011 TAA-ATTGAAGATTATAAAACCATTTAAAGCGAGTAA
644 CAATTTTG-AGATTATAAAACCATTTAAAGCGAGTAA
* * * * *
9047 TAAGGCTTTTGAAGGAATAGATCACTAGAATTGACTTCTCTT-CCTAATGAAT-CATTTTTTTTC
1 TAAGGCTTTTAAAGGAATGGATCACTATAATGGACTTCTCTTACC-AATGAATGCATTTTTCTTC
* *
9110 ACGTTTCTCTAGGTAGACGATCAATTATTGTCTGTTTTAACCAAAAATGTAAAAAAATTTAACTN
65 ACGTTTCTCTAGGTAGACGATCAATTATTATCTGTTTTAACCAAAAATGTAAAAAAATTTAACTT
********* * * *
9175 NNNNNNNNNTATGGGATTATAAAACTATTTAAAGCGAGTAATAAGGTTTTTAAGGGAATAGGAGA
130 AAAATCAATTATGGGATTATAAAACTATTTAAAGCGAGTAATAAGGTTTTTAAAGGAATGGGTGA
* * ******** * *
9240 CTACAAATTGGCTTTTCTTGCCAATGAATG-CTTNNNNNNNNNNGTTTCTCAAGGTAGACATTCG
195 CTATAAATTGACTTTTCTTGCCAATGAATGCCTT--TTCATCATGTTTCTCAAGGTAGGCATTCA
** * * * * * *
9304 ATTATTGTCT-TTCTTAATCAAAAATATAAAAAAAATTAAAATTGAAATCAATTATGATAGTACA
258 ACAATAGTCTGTT-TTAA-CAAAAATGT-AAAAAAATTCAACTTAAAATCAATTATGAGAGTACA
* * * *
9368 AAATCATTTAAAGCGAGTAACAAGGCGTTTG-AAGAAATGAGAGACTATAAATCGACTTTTCTTC
320 AAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAG-AATGAGAGACTATAAATAGACTTTTCTTC
* * * * * *
9432 -CGAATAAATATTTTTTTCAAT-ACGTTTCTTGAGGTAAGCATTTAATTATAGTCTATATTAATG
384 TC-AATGAATATTTTTTTC-TTCACGTTT-TTAAGGTAAGCATTTAATTATAGTTTGT-TTAATA
** *
9495 AAAAATATAAA-AAATTCAACTTAAAATCAATTATGATTTTATAAAACCATTTAAAGTGAGTAAT
445 AAAAATATAAACAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * * *
9559 AGGGCTTTTGAAAGAATGGATGACTATAAATAAACTTTTCTTACCTATAAATCTCTTTTTCTTCA
510 AAGGCTTTTGAAAGAATGGGTGACTATAAATAAACTTTTCTT-CCAATAAATCTCTTTTTCTTTA
* * * * *
9624 CGTTTCTCAAGGTAAATATTCAATTATATTCTGTTTTGATCACAAATGTAAAAAAACTTGAACTT
574 CGTTTCTCAAGGTAGACATTCAATTATATTCTGTTTTGACCACAAATGTAAAAAAAATTGAACGT
* * **********
9689 AAAATCAATTTTGAGAGTATAAAACTANNNNNNNNNNGTAA
639 AAAATCAATTTTGAGATTATAAAACCATTTAAAGCGAGTAA
* * * *
9730 TAAGGCTTTTAAAGGAATGGGTGACTATAATAGACTTCTCTTACTAATGAATGCATTTTTCTTCA
1 TAAGGCTTTTAAAGGAATGGATCACTATAATGGACTTCTCTTACCAATGAATGCATTTTTCTTCA
* * * ** * * *
9795 CGATTCTCGAGGTA-AAGATTTGATTATAATTTGTTTTAACCAAAAATGTAAACAAAATTGAACT
66 CGTTTCTCTAGGTAGACGA-TCAATTATTATCTGTTTTAACCAAAAATGTAAA-AAAATTTAACT
* * * *
9859 AAAAATCAATT-TCGAGATTATAATA-TCATTTAGAA-CGAGTAATAAAGTTTTTGAAA-GAATG
129 TAAAATCAATTAT-GGGATTATAAAACT-ATTTA-AAGCGAGTAATAAGGTTTTT-AAAGGAATG
* ********** * * * * ***
9920 GGTGACTATAAATAGACTTTNNNNNNNNNNGAATGCCTTTTTCTTCACGTTTCTTAAAGTAAATA
190 GGTGACTATAAATTGACTTTTCTTGCCAATGAATGCC-TTTTCATCATGTTTCTCAAGGTAGGCA
* ** * * * * * * * * *
9985 TTTAATTATAATATGTTTTAGCCAAGAATGTAAAAACAATTGAACTTAAAATTAGTTTTGAGAAT
254 TTCAACAATAGTCTGTTTTA-ACAAAAATGTAAAAA-AATTCAACTTAAAATCAATTATGAGAGT
* * * * * * * *
10050 ATAAAACCATTTAAAGTGAGTAATAATGCATTTGAAGGAAAGAAAGACTACAAATAGACTTTTCT
317 ACAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGAGACTATAAATAGACTTTTCT
* * * *
10115 TACT-AATGAATACTTTTTTCTTCACGTTTCTTAAGGT-AGACATTCAATTATTGTCTGTTTTAA
382 T-CTCAATGAATATTTTTTTCTTCACGTTT-TTAAGGTAAG-CATTTAATTATAGTTTG-TTTAA
* * * * * * * * *
10178 TTAAAAATGTAAAAAACATTGAACTTAAAATCAATTATGAGATGAGAAAACTAATTAAAGTGAGT
443 TAAAAAATATAAACAA-ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGT
10243 AATAAGGCTTTTG
507 AATAAGGCTTTTG
10256 NNNNNNNNNN
Statistics
Matches: 3111, Mismatches: 711, Indels: 242
0.77 0.17 0.06
Matches are distributed among these distances:
679 6 0.00
680 80 0.03
681 204 0.07
682 468 0.15
683 839 0.27
684 674 0.22
685 308 0.10
686 231 0.07
687 230 0.07
688 65 0.02
689 6 0.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.35
Consensus pattern (679 bp):
TAAGGCTTTTAAAGGAATGGATCACTATAATGGACTTCTCTTACCAATGAATGCATTTTTCTTCA
CGTTTCTCTAGGTAGACGATCAATTATTATCTGTTTTAACCAAAAATGTAAAAAAATTTAACTTA
AAATCAATTATGGGATTATAAAACTATTTAAAGCGAGTAATAAGGTTTTTAAAGGAATGGGTGAC
TATAAATTGACTTTTCTTGCCAATGAATGCCTTTTCATCATGTTTCTCAAGGTAGGCATTCAACA
ATAGTCTGTTTTAACAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGAGTACAAAACCA
TTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGAGACTATAAATAGACTTTTCTTCTCAATGA
ATATTTTTTTCTTCACGTTTTTAAGGTAAGCATTTAATTATAGTTTGTTTAATAAAAAATATAAA
CAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGA
AAGAATGGGTGACTATAAATAAACTTTTCTTCCAATAAATCTCTTTTTCTTTACGTTTCTCAAGG
TAGACATTCAATTATATTCTGTTTTGACCACAAATGTAAAAAAAATTGAACGTAAAATCAATTTT
GAGATTATAAAACCATTTAAAGCGAGTAA
Found at i:9903 original size:171 final size:171
Alignment explanation
Indices: 5628--10254 Score: 2492
Period size: 171 Copynumber: 27.1 Consensus size: 171
5618 NNNNNNNNNN
* * * *
5628 TAAGGATTTTGAAGGAATGGGTGACTATAAAT-GAACTTTTCTTGCCAATGAATGTCC-TTTTCT
1 TAAGGCTTTTAAAGGAATGGGTGACTATAAATAG-ACTTTTCTTACTAATGAATG-CCTTTTTCT
* * ** * * * *
5691 TCACGTTTCTCAAGGTAGACATTCAACAATAGTCTGTTTTAACCAAAAATATAGAAAAATTTAAC
64 TCACGTTTCTCAAGGTAAAGATTCAATTATAGTTTGTTTTAACCAAAAATGTAAAAAAATTCAAC
********** *
5756 TTAAAATNNNNNNNNNNATTATAAAACTATTTAAAGCGAGTAA
129 TTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
* * * * * *
5799 TAAGGCCTTTGAAA-GAATCGGTAACTATAAATTGACTTTTCTT-GTCAATGAATGTCTTTTTCT
1 TAAGG-CTTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTACT-AATGAATGCCTTTTTCT
* * * * * * * * * ********
5862 TTAGGTTTCTTATGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATATAAAAANNNNNNNN
64 TCACGTTTCTCAAGGTAAAGATTCAATTATAGTTTGTTTTAACCAAAAATGTAAAAAAATTCAAC
** * * *
5927 NNAAAATTAATTATGAGATTATAAAACCATTTACAGTGAGTAA
129 TTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
* * * * *
5970 TAAGGCTTTTGGAA-GAATGAGTGAGTATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTT
1 TAAGGCTTTT-AAAGGAATGGGTGACTATAAATAGACTTTTCTTACTAATGAATGCCTTTTTCTT
* * ** * * * * * *** *
6034 CACCTTTTTTGATGTAGACATTCAATTATTGTCTGTTTTAACCAAAAGCATAAACAAATTCAACT
65 CACGTTTCTCAAGGTAAAGATTCAATTATAGTTTGTTTTAACCAAAAATGTAAAAAAATTCAACT
* * * * * *
6099 TAAAATTAATTATGAGATAAGAAAATCATTTAAAGCTAATAA
130 TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
* * * * * * *
6141 TAAGGCTTTTGAAGGAATGGGGGGGCTATAAATAAATTTTTCTTACCAATAAATGCC-TTTTCTT
1 TAAGGCTTTTAAAGGAAT-GGGTGACTATAAATAGACTTTTCTTACTAATGAATGCCTTTTTCTT
* * ** * *
6205 CATGTTTCTTC-A-G-ACATGCATTCAACAATTA-TCTGTTTTAACAAAAAATGT-AAAAAATTC
65 CACGTTTC-TCAAGGTA-AAG-ATTCAATTA-TAGTTTGTTTTAACCAAAAATGTAAAAAAATTC
* * **********
6265 AACTTAAAATTAGTTATGAGATTATAAAACCATNNNNNNNNNNTAA
126 AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
* * *
6311 TAAGGCTTTTGAAA-GAATGAGTGACTATAAATAGA-TTTT-TTATCCCAATGAATGTCTTTTTC
1 TAAGGCTTTT-AAAGGAATGGGTGACTATAAATAGACTTTTCTTA--CTAATGAATGCCTTTTTC
* * * * ** * *
6373 TTCACATTT-TCTGAGGT-AGGCATTCAATTGTAGTTTGTTTTAATAAAAAATGCAAACAAATTC
63 TTCACGTTTCTC-AAGGTAAAG-ATTCAATTATAGTTTGTTTTAACCAAAAATGTAAAAAAATTC
********** * * *
6436 AACTTAAANNNNNNNNNNAGATTATAAAATCATTTAAGGTGAGTAA
126 AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
* * * * * * *
6482 TAAGGCTTCTAAAGGAATGGGTGACTATAAATGGACTTTTTTTGC-AATGAATCCCTTTTCCTTT
1 TAAGGCTTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTACTAATGAATGCCTTTTTCTTC
* * *** * * * * *
6546 ATGTGTCTTGGGGTAGACATTCAATTATA-TTCTATTTTGACCACAAATGTAAAAAAAATAAAAT
66 ACGTTTCTCAAGGTAAAGATTCAATTATAGTT-TGTTTTAACCAAAAATGT-----AAA-AAAAT
* * * ********
6610 TGAACGTAACATCAAATT-TGAGATTATAAAACCATTTAAANNNNNNNN
124 TCAACTTAAAATC-AATTATGAGATTATAAAACCATTTAAAGCGAGTAA
** * * * *
6658 NNAGGCTTTTAAAGGAATGGGTCACTAT-AATAGACTTTTCTTGCCAATGAATGCATTTTTCTTC
1 TAAGGCTTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTACTAATGAATGCCTTTTTCTTC
* ** ** * *
6722 ATGTTTCTCTTGGTAGACCA-TCAATTATTA-TCTATTTTAACCAAAAATGTAAAAAAAATT-AA
66 ACGTTTCTCAAGGTA-AAGATTCAATTA-TAGTTTGTTTTAACCAAAAATGT-AAAAAAATTCAA
* * * *
6784 CTTGAAATCAATTATGGGATTATAAAATCGTTTAAAGCGAGTAA
128 CTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
* * * * * * *
6828 TATGGCTTTTGAAGGAATGAGTGACTATAAAT-GAATTTTCTTGCCAATGAATGCC-TTTTCTTT
1 TAAGGCTTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTACTAATGAATGCCTTTTTCTTC
** * * ** * * * *
6891 ATATTTCTCAAGG-CAGGCATTCAACAATAGTCTGTTTTAACCAAAAATGTAAAGAAGTTCTACT
66 ACGTTTCTCAAGGTAAAG-ATTCAATTATAGTTTGTTTTAACCAAAAATGTAAAAAAATTCAACT
* * * **********
6955 TAAAACCAATTATGAGACTATAAAACTATNNNNNNNNNNTAA
130 TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
** * * * *
6997 TAAGGCTTTTGAAA-GAATAAAG-GACTATAAATGGACTTTTCGTCCCAATGAATGCCTTTTTCT
1 TAAGGCTTTT-AAAGGAAT-GGGTGACTATAAATAGACTTTTCTTACTAATGAATGCCTTTTTCT
* * * ** *
7060 TCACATTTTCTGATGCAGGT--AG--TCAATTGTAGTTTGTTTTAATAAAAAATGTAAACAAATT
64 TCAC-GTTTCTCA---AGGTAAAGATTCAATTATAGTTTGTTTTAACCAAAAATGTAAAAAAATT
* * * *
7121 CAACTTAAAATAAATTATGAGATTA-AAAATTCATTTACAGTGAGTAA
125 CAACTTAAAATCAATTATGAGATTATAAAA-CCATTTAAAGCGAGTAA
* * * * * * * *
7168 TAAAGCTTTTGAAA-GAATGAGTGAGTATAAATGGTCTTTTCATGCCAATGAATGCCTTTTTCTT
1 TAAGGCTTTT-AAAGGAATGGGTGACTATAAATAGACTTTTCTTACTAATGAATGCCTTTTTCTT
* * * * * ****
7232 CACGTTTATTGAA-GT-AGGCATTCAATTATAGTCTGTTTTAACTAAAAATGT-AAAAAATNNNN
65 CACGTTT-CTCAAGGTAAAG-ATTCAATTATAGTTTGTTTTAACCAAAAATGTAAAAAAATTCAA
****** *
7294 NNNNNNATCAATTATGTGATTATAAAACCATTTAAAGCGAGTAA
128 CTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
* * * * * * *
7338 TAAGGATCTTGAAGGAATCGGTGACTATAAATGGACTTTTTTTA-TCACTGAATGCCTTTTTCTT
1 TAAGGCTTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTACT-AATGAATGCCTTTTTCTT
* * ** * * *
7402 CACGTTTCT-AGAGATAAATATTCAACAATAGTTTGTTTTAACTAAAAATATAAAAAAAATT-GA
65 CACGTTTCTCA-AGGTAAAGATTCAATTATAGTTTGTTTTAACCAAAAATGT-AAAAAAATTCAA
* * *
7465 CTTAAAATCAATTATGAGATTATCAAACTATTTAAAGCCAGTAA
128 CTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
* * * * **
7509 TAAGACTTTGAAA-GAATGGGTGACTATAAATAAACTTTTCTT-CTCAATAAATATCTTTTTCTT
1 TAAGGCTTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTACT-AATGAATGCCTTTTTCTT
* * * * * * * * *
7572 TAGGTTTCTCGAGGTAGACATTCAATTATAGTCTT-TTTTAACTAAAAATATAAAAAAATACATC
65 CACGTTTCTCAAGGTAAAGATTCAATTATAGT-TTGTTTTAACCAAAAATGTAAAAAAATTCAAC
*
7636 TTAAAATCAATTATGAGATTATAAAATCATTTATAA-CGAGTAA
129 TTAAAATCAATTATGAGATTATAAAACCATTTA-AAGCGAGTAA
* * * * * *
7679 TAAGGCTTTTGAAGGAATGAGTGAGTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTC
1 TAAGGCTTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTACTAATGAATGCCTTTTTCTTC
* * * ** * * * * * *
7744 ACGTTTTTCAAAGTAGACTTTCAATTATGGTCTATTTTAACGAAAAGTGTAAACAAATTCAACTT
66 ACGTTTCTCAAGGTAAAGATTCAATTATAGTTTGTTTTAACCAAAAATGTAAAAAAATTCAACTT
********** * * * * *
7809 ANNNNNNNNNNTGAGATCAGAAAACTATTTAAAGCAAGCAA
131 AAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
* * * * *
7850 TAAGGTTTTTAAAGGAATGGGTGACTGTAAATAGACTTTTCTT-GTCAATAAATGCC-TTTTCAT
1 TAAGGCTTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTACT-AATGAATGCCTTTTTCTT
** * * ** * *
7913 CATATTTCTTAAGGT-AGGCATTCAACAATAGTCTGTTTTAACCAAATATGTAAAAAAATTCAAC
65 CACGTTTCTCAAGGTAAAG-ATTCAATTATAGTTTGTTTTAACCAAAAATGTAAAAAAATTCAAC
*
7977 TTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGACTAA
129 TTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
* * * * * *
8020 TATGACTTTTGAAA-GAATGAGTGACTATAAATGGACTTTTCGT-CTCAATGAATGCCTTTTGCT
1 TAAGGCTTTT-AAAGGAATGGGTGACTATAAATAGACTTTTCTTACT-AATGAATGCCTTTTTCT
* * * * **
8083 TCACGTTT-TCTAAGG-CAAGCATTCAATTATAGTTTGTTCTAATCAAATATGTAAACTAATTCA
64 TCACGTTTCTC-AAGGTAAAG-ATTCAATTATAGTTTGTTTTAACCAAAAATGTAAAAAAATTCA
* **********
8146 ACTTAAAATCAATTATGATATTATAAAACCATTTNNNNNNNNNNA
127 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
* * * * *
8191 TAAGGCTTCTGAAGGAATGCGTGACTATAAAT-GAACTTTTCTTCCCAATGAAT-CTCTTTTTCT
1 TAAGGCTTTTAAAGGAATGGGTGACTATAAATAG-ACTTTTCTTACTAATGAATGC-CTTTTTCT
* * * * * *
8254 TTACGTTTCTTAGGGTAGAGATTCAATTATA-TTCTGTTTTAACCACAAATGTAAAAAAAATTGA
64 TCACGTTTCTCAAGGTAAAGATTCAATTATAGTT-TGTTTTAACCAAAAATGT-AAAAAAATTCA
* * * *
8318 ACGTAAAATCAATTTTGAGATTATAAAATCATTTAAAGTGAGTAA
127 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
* * * * * * *
8363 TATGGCTTTTAAAGGAATGGGTCAATAT-AATGGACTTTTCTTACCAAGGAATGCATTTTTCTTC
1 TAAGGCTTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTACTAATGAATGCCTTTTTCTTC
* * * * * * *
8427 ATGTTTCTCTAGGTAGACG-GTCAATTATTA-TCTGTTTTAACTAAAAATGTAAAAAAATTTAAC
66 ACGTTTCTCAAGGTA-AAGATTCAATTA-TAGTTTGTTTTAACCAAAAATGTAAAAAAATTCAAC
* * ***********
8490 TTGAAATCAATTATGGGATTATAAAANNNNNNNNNNTGAGTAA
129 TTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
* * *
8533 TAAGGCTTTTAAAGGAATGGGTGACTATAAAT-GAATTTTTCTTGCCAATGAATGCC-TTTTCTT
1 TAAGGCTTTTAAAGGAATGGGTGACTATAAATAG-ACTTTTCTTACTAATGAATGCCTTTTTCTT
* * ** ** * *
8596 CATGTTTCTCAAGCT-CGGCATTCAACAATAGTCTGTTTTAGGA-AAAAAATGTAAAAAAATTCA
65 CACGTTTCTCAAGGTAAAG-ATTCAATTATAGTTTGTTTTA--ACCAAAAATGTAAAAAAATTCA
* ********** * *
8659 ACTTAAAATTAATTATGNNNNNNNNNNACCATTTAAAACAAGTAA
127 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
* * * ***
8704 TAAGGCTTTTGAAA-GAATGAGAGACTATAAATAAACTTTT-TGT-CTCAATGAATATTTTTTTC
1 TAAGGCTTTT-AAAGGAATGGGTGACTATAAATAGACTTTTCT-TACT-AATGAATGCCTTTTTC
* * * * * ** *
8766 TTCACGTTTTTTAAGGT-AGGCATTTAATTGTAGTTTGTTTTAATAAAAAATGTAAACAAATTCA
63 TTCACGTTTCTCAAGGTAAAG-ATTCAATTATAGTTTGTTTTAACCAAAAATGTAAAAAAATTCA
8830 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
127 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
* * *
8875 TAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTT-GTCAATGAATCCCTTTTTCTT
1 TAAGGCTTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTACT-AATGAATGCCTTTTTCTT
*** * * * * *
8939 TGTGTTTCTCAAGGTAGACATTCAATTATA-TTCTGTTTTGACCACAAATGTAAAAAAAATTGAA
65 CACGTTTCTCAAGGTAAAGATTCAATTATAGTT-TGTTTTAACCAAAAATGT-AAAAAAATTCAA
* * *
9003 CGTAAAATTAAAT-TGAAGATTATAAAACCATTTAAAGCGAGTAA
128 CTTAAAATCAATTATG-AGATTATAAAACCATTTAAAGCGAGTAA
* * * * * * * * * *
9047 TAAGGCTTTTGAAGGAATAGATCACTA-GAATTGACTTCTCTTCCTAATGAAT-CATTTTTTTTC
1 TAAGGCTTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTACTAATGAATGCCTTTTTCTTC
* * * * *
9110 ACGTTTCTCTAGGTAGACGA-TCAATTATTGTCTGTTTTAACCAAAAATGTAAAAAAATTTAACT
66 ACGTTTCTCAAGGTA-AAGATTCAATTATAGTTTGTTTTAACCAAAAATGTAAAAAAATTCAACT
********** * *
9174 NNNNNNNNNNTATGGGATTATAAAACTATTTAAAGCGAGTAA
130 TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
* * * * * * * * * ******
9216 TAAGGTTTTTAAGGGAATAGGAGACTACAAATTGGCTTTTCTTGCCAATGAATG-CTTNNNNNNN
1 TAAGGCTTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTACTAATGAATGCCTT-TTTCTT
*** * * * * * * * *
9280 NNNGTTTCTCAAGGTAGACATTCGATTATTGTCTT-TCTTAATCAAAAATATAAAAAAAATTAAA
65 CACGTTTCTCAAGGTAAAGATTCAATTATAGT-TTGTTTTAACCAAAAATGT-AAAAAAATTCAA
* * * * * *
9344 ATTGAAATCAATTATGATAGTACAAAATCATTTAAAGCGAGTAA
128 CTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
* * * * * * * * * * *** *
9388 CAAGGCGTTTGAAGAAATGAGAGACTATAAATCGACTTTTCTTCCGAATAAATATTTTTTTCAAT
1 TAAGGCTTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTACTAATGAATGCCTTTTTC-TT
** * * * * ** *
9453 -ACGTTTCTTGAGGT-AAGCATTTAATTATAGTCTATATTAATGAAAAATAT-AAAAAATTCAAC
65 CACGTTTCTCAAGGTAAAG-ATTCAATTATAGTTTGTTTTAACCAAAAATGTAAAAAAATTCAAC
** *
9515 TTAAAATCAATTATGATTTTATAAAACCATTTAAAGTGAGTAA
129 TTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
* * * *
9558 TAGGGCTTTTGAAA-GAATGGATGACTATAAATAAACTTTTCTTACCT-ATAAAT-CTCTTTTTC
1 TAAGGCTTTT-AAAGGAATGGGTGACTATAAATAGACTTTTCTTA-CTAATGAATGC-CTTTTTC
* * * * *
9620 TTCACGTTTCTCAAGGTAAATATTCAATTATA-TTCTGTTTTGATCACAAATGTAAAAAAACTTG
63 TTCACGTTTCTCAAGGTAAAGATTCAATTATAGTT-TGTTTTAACCAAAAATGTAAAAAAA-TTC
* * * **********
9684 AACTTAAAATCAATTTTGAGAGTATAAAACTANNNNNNNNNNGTAA
126 AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
* *
9730 TAAGGCTTTTAAAGGAATGGGTGACTAT-AATAGACTTCTCTTACTAATGAATGCATTTTTCTTC
1 TAAGGCTTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTACTAATGAATGCCTTTTTCTTC
* * ** * *
9794 ACGATTCTCGAGGTAAAGATTTGATTATAATTTGTTTTAACCAAAAATGTAAACAAAATTGAACT
66 ACGTTTCTCAAGGTAAAGATTCAATTATAGTTTGTTTTAACCAAAAATGTAAA-AAAATTCAACT
* * *
9859 AAAAATCAATT-TCGAGATTATAATATCATTTAGAA-CGAGTAA
130 TAAAATCAATTAT-GAGATTATAAAACCATTTA-AAGCGAGTAA
* * **********
9901 TAAAGTTTTTGAAA-GAATGGGTGACTATAAATAGACTTTNNNNNNNNNNGAATGCCTTTTTCTT
1 TAAGGCTTTT-AAAGGAATGGGTGACTATAAATAGACTTTTCTTACTAATGAATGCCTTTTTCTT
* * * * * * * * *
9965 CACGTTTCTTAAAGTAAATATTTAATTATAATATGTTTTAGCCAAGAATGTAAAAACAATTGAAC
65 CACGTTTCTCAAGGTAAAGATTCAATTATAGTTTGTTTTAACCAAAAATGTAAAAA-AATTCAAC
* * * * *
10030 TTAAAATTAGTTTTGAGAATATAAAACCATTTAAAGTGAGTAA
129 TTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
* * * * *** * * *
10073 TAATGCATTTGAAGGAAAGAAAGACTACAAATAGACTTTTCTTACTAATGAATACTTTTTTCTTC
1 TAAGGCTTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTACTAATGAATGCCTTTTTCTTC
* * * * * ** *
10138 ACGTTTCTTAAGGTAGACATTCAATTATTGTCTGTTTTAATTAAAAATGTAAAAAACATTGAACT
66 ACGTTTCTCAAGGTAAAGATTCAATTATAGTTTGTTTTAACCAAAAATGTAAAAAA-ATTCAACT
* * * * *
10203 TAAAATCAATTATGAGATGAGAAAACTAATTAAAGTGAGTAA
130 TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
10245 TAAGGCTTTT
1 TAAGGCTTTT
10255 GNNNNNNNNN
Statistics
Matches: 3359, Mismatches: 947, Indels: 299
0.73 0.21 0.06
Matches are distributed among these distances:
167 6 0.00
168 20 0.01
169 200 0.06
170 931 0.28
171 1404 0.42
172 665 0.20
173 5 0.00
174 1 0.00
175 20 0.01
176 102 0.03
177 5 0.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.35
Consensus pattern (171 bp):
TAAGGCTTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTACTAATGAATGCCTTTTTCTTC
ACGTTTCTCAAGGTAAAGATTCAATTATAGTTTGTTTTAACCAAAAATGTAAAAAAATTCAACTT
AAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
Done.